Databases, Protein: Databases containing information about PROTEINS such as AMINO ACID SEQUENCE; PROTEIN CONFORMATION; and other properties.Databases, Factual: Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references.Database Management Systems: Software designed to store, manipulate, manage, and control data for specific uses.Databases, Genetic: Databases devoted to knowledge about specific genes and gene products.Information Storage and Retrieval: Organized activities related to the storage, location, search, and retrieval of information.Software: Sequential operating programs and data which instruct the functioning of a digital computer.Sequence Analysis, Protein: A process that includes the determination of AMINO ACID SEQUENCE of a protein (or peptide, oligopeptide or peptide fragment) and the information analysis of the sequence.Sequence Alignment: The arrangement of two or more amino acid or base sequences from an organism or organisms in such a way as to align areas of the sequences sharing common properties. The degree of relatedness or homology between the sequences is predicted computationally or statistically based on weights assigned to the elements aligned between the sequences. This in turn can serve as a potential indicator of the genetic relatedness between the organisms.Computational Biology: A field of biology concerned with the development of techniques for the collection and manipulation of biological data, and the use of such data to make biological discoveries or predictions. This field encompasses all computational methods and theories for solving biological problems including manipulation of models and datasets.Proteins: Linear POLYPEPTIDES that are synthesized on RIBOSOMES and may be further modified, crosslinked, cleaved, or assembled into complex proteins with several subunits. The specific sequence of AMINO ACIDS determines the shape the polypeptide will take, during PROTEIN FOLDING, and the function of the protein.Algorithms: A procedure consisting of a sequence of algebraic formulas and/or logical steps to calculate or determine a given task.Internet: A loose confederation of computer communication networks around the world. The networks that make up the Internet are connected through several backbone networks. The Internet grew out of the US Government ARPAnet project and was designed to facilitate information exchange.Amino Acid Sequence: The order of amino acids as they occur in a polypeptide chain. This is referred to as the primary structure of proteins. It is of fundamental importance in determining PROTEIN CONFORMATION.Molecular Sequence Data: Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.User-Computer Interface: The portion of an interactive computer program that issues messages to and receives commands from a user.Proteomics: The systematic study of the complete complement of proteins (PROTEOME) of organisms.Molecular Sequence Annotation: The addition of descriptive information about the function or structure of a molecular sequence to its MOLECULAR SEQUENCE DATA record.Expressed Sequence Tags: Partial cDNA (DNA, COMPLEMENTARY) sequences that are unique to the cDNAs from which they were derived.Databases as Topic: Organized collections of computer records, standardized in format and content, that are stored in any of a variety of computer-readable modes. They are the basic sets of data from which computer-readable files are created. (from ALA Glossary of Library and Information Science, 1983)Proteome: The protein complement of an organism coded for by its genome.Transcriptome: The pattern of GENE EXPRESSION at the level of genetic transcription in a specific organism or under specific circumstances in specific cells.Genomics: The systematic study of the complete DNA sequences (GENOME) of organisms.Sequence Analysis, DNA: A multistage process that includes cloning, physical mapping, subcloning, determination of the DNA SEQUENCE, and information analysis.Base Sequence: The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.Sequence Homology, Amino Acid: The degree of similarity between sequences of amino acids. This information is useful for the analyzing genetic relatedness of proteins and species.Mass Spectrometry: An analytical method used in determining the identity of a chemical based on its mass using mass analyzers/mass spectrometers.Electrophoresis, Gel, Two-Dimensional: Electrophoresis in which a second perpendicular electrophoretic transport is performed on the separate components resulting from the first electrophoresis. This technique is usually performed on polyacrylamide gels.Databases, Bibliographic: Extensive collections, reputedly complete, of references and citations to books, articles, publications, etc., generally on a single subject or specialized subject area. Databases can operate through automated files, libraries, or computer disks. The concept should be differentiated from DATABASES, FACTUAL which is used for collections of data and facts apart from bibliographic references to them.Databases, Nucleic Acid: Databases containing information about NUCLEIC ACIDS such as BASE SEQUENCE; SNPS; NUCLEIC ACID CONFORMATION; and other properties. Information about the DNA fragments kept in a GENE LIBRARY or GENOMIC LIBRARY is often maintained in DNA databases.DNA, Complementary: Single-stranded complementary DNA synthesized from an RNA template by the action of RNA-dependent DNA polymerase. cDNA (i.e., complementary DNA, not circular DNA, not C-DNA) is used in a variety of molecular cloning experiments as well as serving as a specific hybridization probe.Gene Expression Profiling: The determination of the pattern of genes expressed at the level of GENETIC TRANSCRIPTION, under specific circumstances or in a specific cell.Cloning, Molecular: The insertion of recombinant DNA molecules from prokaryotic and/or eukaryotic sources into a replicating vehicle, such as a plasmid or virus vector, and the introduction of the resultant hybrid molecules into recipient cells without altering the viability of those cells.Systems Integration: The procedures involved in combining separately developed modules, components, or subsystems so that they work together as a complete system. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)Randomized Controlled Trials as Topic: Works about clinical trials that involve at least one test treatment and one control treatment, concurrent enrollment and follow-up of the test- and control-treated groups, and in which the treatments to be administered are selected by a random process, such as the use of a random-numbers table.Databases, Chemical: Databases devoted to knowledge about specific chemicals.MEDLINE: The premier bibliographic database of the NATIONAL LIBRARY OF MEDICINE. MEDLINE® (MEDLARS Online) is the primary subset of PUBMED and can be searched on NLM's Web site in PubMed or the NLM Gateway. MEDLINE references are indexed with MEDICAL SUBJECT HEADINGS (MeSH).Data Mining: Use of sophisticated analysis tools to sort through, organize, examine, and combine large sets of information.Abstracting and Indexing as Topic: Activities performed to identify concepts and aspects of published information and research reports.Terminology as Topic: The terms, expressions, designations, or symbols used in a particular science, discipline, or specialized subject area.Information Systems: Integrated set of files, procedures, and equipment for the storage, manipulation, and retrieval of information.PubMed: A bibliographic database that includes MEDLINE as its primary subset. It is produced by the National Center for Biotechnology Information (NCBI), part of the NATIONAL LIBRARY OF MEDICINE. PubMed, which is searchable through NLM's Web site, also includes access to additional citations to selected life sciences journals not in MEDLINE, and links to other resources such as the full-text of articles at participating publishers' Web sites, NCBI's molecular biology databases, and PubMed Central.Computer Graphics: The process of pictorial communication, between human and computers, in which the computer input and output have the form of charts, drawings, or other appropriate pictorial representation.Databases, Pharmaceutical: Databases devoted to knowledge about PHARMACEUTICAL PRODUCTS.Computer Communication Networks: A system containing any combination of computers, computer terminals, printers, audio or visual display devices, or telephones interconnected by telecommunications equipment or cables: used to transmit or receive information. (Random House Unabridged Dictionary, 2d ed)Online Systems: Systems where the input data enter the computer directly from the point of origin (usually a terminal or workstation) and/or in which output data are transmitted directly to that terminal point of origin. (Sippl, Computer Dictionary, 4th ed)Vocabulary, Controlled: A specified list of terms with a fixed and unalterable meaning, and from which a selection is made when CATALOGING; ABSTRACTING AND INDEXING; or searching BOOKS; JOURNALS AS TOPIC; and other documents. The control is intended to avoid the scattering of related subjects under different headings (SUBJECT HEADINGS). The list may be altered or extended only by the publisher or issuing agency. (From Harrod's Librarians' Glossary, 7th ed, p163)Programming Languages: Specific languages used to prepare computer programs.Phylogeny: The relationships of groups of organisms as reflected by their genetic makeup.CD-ROM: An optical disk storage system for computers on which data can be read or from which data can be retrieved but not entered or modified. A CD-ROM unit is almost identical to the compact disk playback device for home use.Periodicals as Topic: A publication issued at stated, more or less regular, intervals.Search Engine: Software used to locate data or information stored in machine-readable form locally or at a distance such as an INTERNET site.Software Design: Specifications and instructions applied to the software.Evidence-Based Medicine: An approach of practicing medicine with the goal to improve and evaluate patient care. It requires the judicious integration of best research evidence with the patient's values to make decisions about medical care. This method is to help physicians make proper diagnosis, devise best testing plan, choose best treatment and methods of disease prevention, as well as develop guidelines for large groups of patients with the same disease. (from JAMA 296 (9), 2006)Treatment Outcome: Evaluation undertaken to assess the results or consequences of management and procedures used in combating disease in order to determine the efficacy, effectiveness, safety, and practicability of these interventions in individual cases or series.Review Literature as Topic: Published materials which provide an examination of recent or current literature. Review articles can cover a wide range of subject matter at various levels of completeness and comprehensiveness based on analyses of literature that may include research findings. The review may reflect the state of the art. It also includes reviews as a literary form.United StatesGenome: The genetic complement of an organism, including all of its GENES, as represented in its DNA, or in some cases, its RNA.Protein Interaction Mapping: Methods for determining interaction between PROTEINS.Knowledge Bases: Collections of facts, assumptions, beliefs, and heuristics that are used in combination with databases to achieve desired results, such as a diagnosis, an interpretation, or a solution to a problem (From McGraw Hill Dictionary of Scientific and Technical Terms, 6th ed).Publications: Copies of a work or document distributed to the public by sale, rental, lease, or lending. (From ALA Glossary of Library and Information Science, 1983, p181)Reproducibility of Results: The statistical reproducibility of measurements (often in a clinical context), including the testing of instrumentation or techniques to obtain reproducible results. The concept includes reproducibility of physiological measurements, which may be used to develop rules to assess probability or prognosis, or response to a stimulus; reproducibility of occurrence of a condition; and reproducibility of experimental results.Publication Bias: The influence of study results on the chances of publication and the tendency of investigators, reviewers, and editors to submit or accept manuscripts for publication based on the direction or strength of the study findings. Publication bias has an impact on the interpretation of clinical trials and meta-analyses. Bias can be minimized by insistence by editors on high-quality research, thorough literature reviews, acknowledgement of conflicts of interest, modification of peer review practices, etc.Cost-Benefit Analysis: A method of comparing the cost of a program with its expected benefits in dollars (or other currency). The benefit-to-cost ratio is a measure of total return expected per unit of money spent. This analysis generally excludes consideration of factors that are not measured ultimately in economic terms. Cost effectiveness compares alternative ways to achieve a specific set of results.Directories as Topic: Lists of persons or organizations, systematically arranged, usually in alphabetic or classed order, giving address, affiliations, etc., for individuals, and giving address, officers, functions, and similar data for organizations. (ALA Glossary of Library and Information Science, 1983)Documentation: Systematic organization, storage, retrieval, and dissemination of specialized information, especially of a scientific or technical nature (From ALA Glossary of Library and Information Science, 1983). It often involves authenticating or validating information.Medical Records Systems, Computerized: Computer-based systems for input, storage, display, retrieval, and printing of information contained in a patient's medical record.National Library of Medicine (U.S.): An agency of the NATIONAL INSTITUTES OF HEALTH concerned with overall planning, promoting, and administering programs pertaining to advancement of medical and related sciences. Major activities of this institute include the collection, dissemination, and exchange of information important to the progress of medicine and health, research in medical informatics and support for medical library development.Risk Factors: An aspect of personal behavior or lifestyle, environmental exposure, or inborn or inherited characteristic, which, on the basis of epidemiologic evidence, is known to be associated with a health-related condition considered important to prevent.Natural Language Processing: Computer processing of a language with rules that reflect and describe current usage rather than prescribed usage.Medical Record Linkage: The creation and maintenance of medical and vital records in multiple institutions in a manner that will facilitate the combined use of the records of identified individuals.Gene Library: A large collection of DNA fragments cloned (CLONING, MOLECULAR) from a given organism, tissue, organ, or cell type. It may contain complete genomic sequences (GENOMIC LIBRARY) or complementary DNA sequences, the latter being formed from messenger RNA and lacking intron sequences.Research Design: A plan for collecting and utilizing data so that desired information can be obtained with sufficient precision or so that an hypothesis can be tested properly.Metabolic Networks and Pathways: Complex sets of enzymatic reactions connected to each other via their product and substrate metabolites.Meta-Analysis as Topic: A quantitative method of combining the results of independent studies (usually drawn from the published literature) and synthesizing summaries and conclusions which may be used to evaluate therapeutic effectiveness, plan new studies, etc., with application chiefly in the areas of research and medicine.Bibliometrics: The use of statistical methods in the analysis of a body of literature to reveal the historical development of subject fields and patterns of authorship, publication, and use. Formerly called statistical bibliography. (from The ALA Glossary of Library and Information Science, 1983)Pharmacoepidemiology: The science concerned with the benefit and risk of drugs used in populations and the analysis of the outcomes of drug therapies. Pharmacoepidemiologic data come from both clinical trials and epidemiological studies with emphasis on methods for the detection and evaluation of drug-related adverse effects, assessment of risk vs benefit ratios in drug therapy, patterns of drug utilization, the cost-effectiveness of specific drugs, methodology of postmarketing surveillance, and the relation between pharmacoepidemiology and the formulation and interpretation of regulatory guidelines. (Pharmacoepidemiol Drug Saf 1992;1(1); J Pharmacoepidemiol 1990;1(1))Genome, Human: The complete genetic complement contained in the DNA of a set of CHROMOSOMES in a HUMAN. The length of the human genome is about 3 billion base pairs.
proteins. In enzymology, a 3-oxoacyl-[acyl-carrier-protein] reductase (EC 1.1.1.100) is an enzyme that catalyzes the chemical ... Other names in common use include beta-ketoacyl-[acyl-carrier protein](ACP) reductase, beta-ketoacyl acyl carrier protein (ACP ... 3R)-3-hydroxyacyl-[acyl-carrier-protein] + NADP+ ⇌. {\displaystyle \rightleftharpoons }. 3-oxoacyl-[acyl-carrier-protein] + ... beta-ketoacyl-acyl carrier protein reductase, 3-ketoacyl acyl carrier protein reductase, 3-ketoacyl ACP reductase, NADPH- ...
pathway databases. *2D and 3D protein descriptors[26]. General[edit]. *Python wrapper; see Cinfony ... "ProtDCal: A program to compute general-purpose-numerical descriptors for sequences and 3D-structures of proteins". BMC ...
Databases: *. Roberts RJ, Vincze T, Posfai, J, Macelis D. "REBASE". Archived from the original on 2016-12-30. Retrieved 2008-06 ... They are used to assist insertion of genes into plasmid vectors during gene cloning and protein production experiments. For ... Artificial restriction enzymes created by linking the FokI DNA cleavage domain with an array of DNA binding proteins or zinc ... 35 (Database issue): D269-70. doi:10.1093/nar/gkl891. PMC 1899104. PMID 17202163.. ...
"Estrogen (G protein coupled) Receptor". IUPHAR Database of Receptors and Ion Channels. International Union of Basic and ... These proteins belong to the nuclear hormone receptor class of transcription factors that regulate gene transcription. Since it ... G protein-coupled estrogen receptor 1 (GPER), also known as G protein-coupled receptor 30 (GPR30), is a protein that in humans ... This protein is a member of the rhodopsin-like family of G protein-coupled receptors and is a multi-pass membrane protein that ...
Proteins exist that interact with the FAM107B protein: autophagy proteins that are involved in the transport from the cytoplasm ... 6] Database of Interacting Proteins. [7] Sigma Aldrich. [8] Conserved Domains at NCBI. [9] Marchler-Bauer A et al. (2009), "CDD ... the hypothetical protein HP0231, which is a somatostatin receptor, as well as the ISWI complex protein 2, which is a ... which is a heat shock-like protein as well as an antigen; the kinesin-related protein which is a biliary glycoprotein ...
Database, GeneCards Human Gene. "TCF7L2 Gene - GeneCards , TF7L2 Protein , TF7L2 Antibody". www.genecards.org. Retrieved 2017- ... "Analysis of beta-catenin aggregation and localization using GFP fusion proteins: nuclear import of alpha-catenin by the beta- ... Transcription factor 7-like 2 (T-cell specific, HMG-box) also known as TCF7L2 or TCF4 is a protein acting as a transcription ... Barker N, Huls G, Korinek V, Clevers H (January 1999). "Restricted high level expression of Tcf-4 protein in intestinal and ...
Protein Database. ... Several binding proteins can regulate mDia1 localization and ... The formin homology protein mDia1 is a Rho GTPase effector protein, which appears to be universally present in eukaryotic cells ... A mouse embryo cDNA library was screened to identify a RhoA-GTP-binding protein using a yeast two-hybrid system. Further it was ... The mDia1 polypeptide chain can be divided into four protein domains: GBD/FH3 (Rho GTPase-binding domain/formin homology 3) ...
... its ties to the protein superfamily WD40 domain-containing proteins, and the known protein interactions, it could play a role ... Database, GeneCards. "WDR90 Gene - GeneCards , WDR90 Protein , WDR90 Antibody". www.genecards.org. Retrieved 2015-05-06. Volker ... WD repeat-containing protein 90 is a protein that in humans is encoded by the WDR90 gene (16p13.3). This human protein is 1750 ... This protein is conserved all the way back to invertebrates. Proteins containing WD transducin repeating domains have been ...
Protein function prediction[edit]. Protein interaction networks have been used to predict the function of proteins of unknown ... A Protein-Protein Interaction Database for Maize". Plant Physiology. 170 (2): 618-626. doi:10.1104/pp.15.01821. ISSN 1532-2548 ... The yeast interactome, i.e. all protein-protein interactions among proteins of Saccharomyces cerevisiae, has been estimated to ... The basic unit of a protein network is the protein-protein interaction (PPI). While there are numerous methods to study PPIs, ...
40S ribosomal proteins[edit]. The table "40S ribosomal proteins" shows the individual protein folds of the 40S subunit colored ... the Ribosomal Protein Gene database". Nucleic Acids Res. 32 (Database issue): D168-70. doi:10.1093/nar/gkh004. PMC 308739. PMID ... Nomenclature according to the ribosomal protein gene database, applies to H. sapiens and T. thermophila ... The table "40S ribosomal proteins" crossreferences the human ribosomal protein names with yeast, bacterial and archaeal ...
... -protein binding databaseEdit. BioLiP is a comprehensive ligand-protein interaction database, with the 3D structure of ... Often bulky ligands are employed to simulate the steric protection afforded by proteins to metal-containing active sites. Of ... It provides the linkage to protein targets such as its location in the biochemical pathways, SNPs and protein/RNA baseline ... MANORAA is a webserver for analyzing conserved and differential molecular interaction of the ligand in complex with protein ...
PubMed Protein Database. UniProtKB/Swiss-Prot: P0C8L1.1. "Potassium channel toxin alpha-KTx 12.1". PubMed Protein Database. ... Proteins: Structure, Function, and Bioinformatics. 60 (3): 401-411. doi:10.1002/prot.20509. PMID 15971207. "Potassium channel ... Protein Science. 14 (4): 1025-1038. doi:10.1110/ps.041131205. PMC 2253457 . PMID 15772309. Coronas, FV; de Roodt, Adolfo R.; ...
The PML protein is the key organizer of these domains that recruits an ever-growing number of proteins, whose only common known ... permanent dead link] Fox, Archa; Wendy Bickmore (2004). "Nuclear Compartments: Paraspeckles". Nuclear Protein Database. ... The nuclear lamina is composed mostly of lamin proteins. Like all proteins, lamins are synthesized in the cytoplasm and later ... The composition by dry weight of the nucleus is approximately: DNA 9%, RNA 1%, Histone Protein 11%, Residual Protein 14%, ...
SREB proteins are indirectly required for cholesterol biosynthesis and for uptake and fatty acid biosynthesis. These proteins ... Protein Data Base (PDB), Sterol Regulatory Element Binding 1A structure.. *v. *t ... proteins. However, in contrast to E-box-binding HLH proteins, an arginine residue is replaced with tyrosine making them capable ... SREBP precursors are retained in the ER membranes through a tight association with SCAP and a protein of the INSIG family. ...
His research group hosts the Database of Interacting Proteins.[16] Career[edit]. *Postdoctoral research, Princeton University ( ... This recently recognized protein state provides opportunities to understand cells in health and disease.[17] ... "The Database of Interacting Proteins: 2004 update". Nucleic Acids Research. 32 (90001): D449-D451. doi:10.1093/nar/gkh086. PMC ... Proteins[2]. Amyloid[3]. Structural biology[4][5][6]. Institutions. Howard Hughes Medical Institute. University of Oxford. ...
EGF at the Human Protein Reference Database.. *Epidermal+growth+factor at the US National Library of Medicine Medical Subject ... EGF is the founding member of the EGF-family of proteins. Members of this protein family have highly similar structural and ... Wnt-protein binding. • protein binding. • growth factor activity. • Wnt-activated receptor activity. • protein tyrosine kinase ... positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process. • angiogenesis. • Wnt ...
"Database of Protein, Chemical, and Genetic Interactions , BioGRID". thebiogrid.org. Retrieved 2016-04-25.. ... DNA repair proteins have been shown to be important in human diseases including cancer. For example, germline mutations in DNA ... Protein[edit]. Figure 1: A basic schematic of Polδ function at the DNA replication fork. The Polδ complex (p125, p66, p50 and ... Protein name in human Homo sapiens Mus musculus Saccharomyces cerevisiae Schizosaccharomyces pombe ...
Hutchinson EG, Thornton JM (1990). "HERA--a program to draw schematic diagrams of protein secondary structures". Proteins. 8 (3 ... a structural classification of proteins database". Nucleic Acids Research. 25 (1): 236-9. doi:10.1093/nar/25.1.236. PMC 146380 ... Tertiary Protein Structure and Folds: section 4.3.2.1. From Principles of Protein Structure, Comparative Protein Modelling, and ... Richardson JS (1981). Anatomy and Taxonomy of Protein Structures. Advances in Protein Chemistry. 34. pp. 167-339. doi:10.1016/ ...
"Structure and Function of Small Model Proteins". Research Grant Database. Retrieved 4 February 2013. Clarke, Jane; Regan, Lynne ... Regan was elected the president of the Protein Society for the 2013-2014 term. Protein engineering and design: from first ... "Governance: Governing Members of the Protein Society". Protein Society. 2013. Retrieved 4 February 2013. ... coli protein Rop to research interactions between alpha helices as well as RNA recognition of the protein and its connecting ...
... is a small, highly conserved protein that is 148 amino acids long (16.7 KDa). The protein has two approximately ... Calmodulin belongs to one of the two main groups of calcium-binding proteins, called EF hand proteins. The other group, called ... "Calmodulin Target Database". calcium.uhnres.utoronto.ca. Retrieved 2016-02-01. Chou JJ, Li S, Klee CB, Bax A (November 2001). " ... Sorghum, contains seedlings that express a glycine-rich RNA-binding protein, SbGRBP. This particular protein can be modulated ...
Database, GeneCards Human Gene. "SH3KBP1 Gene - GeneCards , SH3K1 Protein , SH3K1 Antibody". www.genecards.org. Retrieved 2017- ... "SETA is a multifunctional adapter protein with three SH3 domains that binds Grb2, Cbl, and the novel SB1 proteins". Cellular ... Wiskott-Aldrich syndrome protein (WASP), WASP-interacting protein (WIP), and ELMO1". The Journal of Biological Chemistry. 277 ( ... SH3 domain-containing kinase-binding protein 1 (synonims - CIN85, in rodents - Ruk) is an adaptor protein[disambiguation needed ...
Database, GeneCards Human Gene. "TRIM14 Gene - GeneCards , TRI14 Protein , TRI14 Antibody". www.genecards.org. Retrieved 2017- ... interaction with the transcription factors common to TRIM proteins. The mouse homologue of TRIM14, the "Pub protein", was shown ... It belongs to the TRIM family of proteins which contain the TRIM motif on the N-terminus. TRIM14 lacks the RING domain within ... Hirose, Satoshi; Nishizumi, Hirofumi; Sakano, Hitoshi (2003-11-14). "Pub, a novel PU.1 binding protein, regulates the ...
Database, GeneCards Human Gene. "NBEAL1 Gene - GeneCards , NBEL1 Protein , NBEL1 Antibody". www.genecards.org. Retrieved 2017- ... While not much is understood on the exact function of BDCP proteins within the BEACH domain, it is known that they serve many ... Database, GeneCards Human Gene. "NBEAL1 Gene - GeneCards , NBEL1 Protein , NBEL1 Antibody". www.genecards.org. Retrieved 2017- ... "neurobeachin-like protein 1 [Homo sapiens] - Protein - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-02-24. "Pfam: Family: ...
Database, GeneCards Human Gene. "C21orf62 Gene - GeneCards , CU062 Protein , CU062 Antibody". www.genecards.org. Retrieved 2017 ... C21orf62 is thought to potentially interact with nine other proteins. These interactions are shown in Table 2, and they were ... "The Human Protein Atlas". www.proteinatlas.org. Retrieved 2017-05-07. "STRING: functional protein association networks". string ... Protein Eng. Des. Sel. 17 (6): 527-36. doi:10.1093/protein/gzh062. PMID 15314210. "Home - UniGene - NCBI". www.ncbi.nlm.nih.gov ...
This is still the meaning of rhodopsin in the narrow sense, any protein evolutionarily homologous to this protein. In a broad ... a curated database for the analysis of microbial rhodopsin diversity and evolution". Database. 2015: bav080. doi:10.1093/ ... Most proteins of the MR family are all of about the same size (250-350 amino acyl residues) and possess seven transmembrane ... the native conformation of protein is stabilized in the trimeric protein-bacterioruberin complex. The generalized transport ...
It stays associated with the membrane through protein-protein interactions of itself and other membrane associated proteins, ... endoplasmic reticulum unfolded protein response. · protein localization to nucleus. · sterol regulatory element binding protein ... activation of signaling protein activity involved in unfolded protein response. · mitotic nuclear envelope disassembly. · ... protein binding. 细胞成分. · nucleus. · nuclear envelope. · lamin filament. · nuclear lamina. · nucleoplasm. · cytoplasm. · cytosol ...
Orientations of Proteins in Membranes (OPM) database provides spatial positions of membrane protein structures with respect to ... The database provides spatial arrangement of proteins in the lipid bilayer. Data types. captured. Protein structures from the ... The database was widely used in experimental and theoretical studies of membrane-associated proteins.[13][14][15][16][17] ... Proteins structures are taken from the Protein Data Bank. OPM also provides structural classification of membrane-associated ...
2010 Jan;38(Database issue):D211-22. doi: 10.1093/nar/gkp985. Epub 2009 Nov 17. Research Support, Non-U.S. Govt ... Protein Database. *Reference Sequence (RefSeq). *All Proteins Resources.... *Sequence Analysis*BLAST (Basic Local Alignment ... The Pfam protein families database.. Finn RD1, Mistry J, Tate J, Coggill P, Heger A, Pollington JE, Gavin OL, Gunasekaran P, ... Pfam is a widely used database of protein families and domains. This article describes a set of major updates that we have ...
2014 Jan;42(Database issue):D222-30. doi: 10.1093/nar/gkt1223. Epub 2013 Nov 27. Research Support, Non-U.S. Govt ... Intrinsically Disordered Proteins/chemistry. *Protein Conformation. *Proteins/chemistry. *Proteins/classification. *Proteins/ ... Pfam: the protein families database.. Finn RD1, Bateman A, Clements J, Coggill P, Eberhardt RY, Eddy SR, Heger A, Hetherington ... is a widely used database of protein families, containing 14 831 manually curated entries in the current release, version 27.0 ...
... literature and increasingly reliable computational predictions have resulted in creation of vast databases of protein ... Nakayama M, Kikuno R, Ohara O (2002) Protein-protein interactions between large proteins: two-hybrid screening using a ... Protein-protein interactions Functional associations Protein-protein interaction databases Pathways Protein-protein interaction ... Szklarczyk D., Jensen L.J. (2015) Protein-Protein Interaction Databases. In: Meyerkord C., Fu H. (eds) Protein-Protein ...
Dear Yeastnetters, A new database for the proteins of S. cerevisiae has been released from the QUEST Protein Database Center at ... This database, called YPD (Yeast Protein Database), can be downloaded from ftp isis.cshl.org in directory pub/yeast/YPD. The ... The database will be updated periodically to include new yeast proteins that appear in the sequence databases and to add new ... Yeast_Protein_Database. Jim Garrels quest7!jg at ISIS.CSHL.ORG Wed Nov 23 22:54:43 EST 1994 *Previous message: NO SUBJECT ...
GLYCINE SOYA PROTEIN; GLYCINE SOYA PROTEINS; PROTEINS, GLYCINE SOYA; PROTEINS, SOY; PROTEINS, SOYBEAN; SOY PROTEIN; SOY PROTEIN ... About GLYCINE SOJA PROTEIN: Glycine Soja (Soybean) Protein is a protein obtained from the soybean, Glycine soja.. Function(s): ... Synonym(s): GLYCINE SOJA (SOYBEAN) PROTEIN, GLYCINE HISPIDA PROTEIN; ...
15-million grant to combine three of the worlds current protein sequence databases into a single global resource. ... Throwing its financial support behind the concept of a centralized repository for protein data, the National Human Genome ... By the end of the grants three-year span, EBI scientists estimate that the total number of proteins in the UniProt database ... Dubbed the United Protein Database, or UniProt, the new, public database will combine the resources of three existing protein ...
The Nuclear Protein Database (NPD) contains information on proteins that are localized to the nuclei of vertebrate cells. Over ... 1000 vertebrate proteins, mainly from mice and humans, are included. When known, the sub-nuclear compartment where the protein ... The NPD also provides information on a proteins amino acid sequence, predicted size, and isoelectric point, as well as any ...
Im trying to find a way of searching databases for proteins (ideally from ,E.Coli) with a mass in a given range (say between ... databases search - protein size. bionet at cgmvax.cgm.cnrs-gif.fr bionet at cgmvax.cgm.cnrs-gif.fr Fri May 6 10:43:33 EST 1994 ...
... or proteins (PIR, Swissprot). ,There are a number of things out there. The best book for a ,basic understanding of Protein ... Would ,, anybody be so kind to tell me about: ,, ,, (1). the protein structure databases (PIR, PDB, GenBank...) and their ,, ... Help about protein database.. Cornelius Krasel zxmkr08 at studserv.zdv.uni-tuebingen.de Wed Jun 9 05:05:00 EST 1993 *Previous ... Help about protein database. ,, ,, Hello friends: ,, ,, Im currently a computer science graduate student and going to have a ...
Pick a protein such as insulin, and the database specifies what proteins, nucleic acids, and other molecules it interacts with ... DNA often gets the glory, but hardworking proteins actually build our bodies and keep them running. Scientists can find out how ... Users can submit their own information to the database, which so far has information on more than 6200 interactions. The site ... You can also learn what biochemical pathways a particular protein participates in and whether it belongs to any larger ...
... and 3D structures for mitochondrial proteins. Users are welcome to contact the National Institute of Standards and Technology ... Features include a general database search, a graphical tool for visualizing the mitochondrial DNA sequences, ... and the Human Mitochondrial Genome Database. HMPDb is intended as a tool not only to aid in studying the mitochondrion but in ... conveniently consolidates information from a number of other databases, including GenBank, Online Mendelian Inheritance in Man ...
... is a widely used database of protein families, containing 14 831 manually curated entries in the current release, version 27.0 ... Intrinsically Disordered Proteins / chemistry * Protein Conformation * Proteins / chemistry * Proteins / classification * ... Pfam: the protein families database Nucleic Acids Res. 2014 Jan;42(Database issue):D222-30. doi: 10.1093/nar/gkt1223. Epub 2013 ... is a widely used database of protein families, containing 14 831 manually curated entries in the current release, version 27.0 ...
... of protein family databases for automatic protein functional classification increases ... As new protein sequences continue to flood into public databases with the advancement of sequencing technologies, the ... 2011) CDD: a conserved domain database for the functional annotation of proteins. Nucleic Acids Research 39(Database Issue): ... Database 10.1093/database/base019. Bru C, Courcelle E, Carrere S et al. (2005) The ProDom database of protein domain families: ...
... able to identify proteins, characterize post-translational modifications, and... ... Protein identification from tandem mass spectra is one of the most versatile and widely used proteomics workflows, ... Protein identification MS/MS spectra Protein sequence databases Peptide identification Search engine ... Protein Identification from Tandem Mass Spectra by Database Searching. In: Wu C., Arighi C., Ross K. (eds) Protein ...
Our sequence pattern discovery and analysis approach unveiled protein regions of significant interest. AMYPdb is freely ... AMYPdb is a comprehensive online database aiming at the centralization of bioinformatic data regarding all amyloid proteins and ... AMYPdb: a database dedicated to amyloid precursor proteins BMC Bioinformatics. 2008 Jun 10;9:273. doi: 10.1186/1471-2105-9-273 ... Results: We therefore created a free online knowledge database (AMYPdb) dedicated to amyloid precursor proteins and we have ...
R. Craig and R. C. Beavis, "TANDEM: matching proteins with tandem mass spectra," Bioinformatics, vol. 20, no. 9, pp. 1466-1467 ... N. J. Edwards, "Protein identification from tandem mass spectra by database searching," Methods in Molecular Biology, vol. 694 ... Method for Rapid Protein Identification in a Large Database. Wenli Zhang1,2,3 and Xiaofang Zhao1 ... D. Li, Y. Fu, R. Sun et al., "pFind: a novel database-searching software system for automated peptide and protein ...
Taken together, our database can be useful for further analyses of protein phosphorylation in human and other model organisms. ... In this work, we developed a curated database of dbPAF, containing known phosphorylation sites in H. sapiens, M. musculus, R. ... From the scientific literature and public databases, we totally collected and integrated 54,148 phosphoproteins with 483,001 ... Protein phosphorylation is one of the most important post-translational modifications (PTMs) and regulates a broad spectrum of ...
The information on protein function, as essentialcomponent of biological systems, is essential for the development of biology ... The information on proteins is organised in databases that store their sequences, domain organisation, three‐dimensional ... Keywords: protein; database; annotation; text mining; protein function; protein structure; protein domains; posttranslational ... APPRIS, as example of a secondary database based on the information provided by the core protein databases. The APPRIS database ...
We have developed a data base of lymphoid proteins detectable by two-dimensional polyacrylamide gel electrophoresis. The data ... Data base analysis of protein expression patterns during T-cell ontogeny and activation.. S M Hanash, J R Strahler, Y Chan, R ... Using this data base, we have compared the protein constituents of mature T cells and immature thymocytes before and after ... Small Stress Proteins as Novel Regulators of Apoptosis: HEAT SHOCK PROTEIN 27 BLOCKs FAS/APO-1- AND STAUROSPORINE-INDUCED CELL ...
Under "Family and domain databases" you find a long list of databases that using different techniques have collected proteins ... Protein-databases. In this part of the exercise, we shall extract information from the protein-database, Uniprot. This database ... and in some cases can the databases tell which parts of the actual protein that are known in other species.Some large proteins ... How many proteins are now left? *. And as the final question, can you select only the protein found in humans. How many are ...
Protein Database is a comprehensive source for protein sequence and function-related information. Search your protein and get a ... Note: Proteins listed in ProtBank™ database are NOT off-the-shelf [catalog] proteins. Customized protein production request can ... ProtBank™ protein database contains relevant information on over 2 million proteins from 186 species. Search your protein of ... ProtBank™ Protein Database. ProtBank™ is an integrated protein database that provides comprehensive, freely accessible ...
Here, we present a novel database of manually defined structural domains for a representative set of proteins from the SCOP ... Although, various structural domain databases exist, defining domains for some proteins is non-trivial, and definitions of ... Protein structural domains are necessary for understanding evolution and protein folding, and may vary widely from functional ...
The ProDom database of protein domain families: more emphasis on 3D. ... Currently Pfam matches 72 % of known protein sequences, but for proteins with known structure Pfam matches 95%, which we ... The ProDom database of protein domain families: more emphasis on 3D. (2005) by C Bru, E Courcelle, S Carrere, Y Beausse, S ... Pfam protein families database by Robert D. Finn, John Tate, Jaina Mistry, Penny C. Coggill, Stephen John Sammut, Hans-rudolf ...
40S ribosomal protein S27. Unknown. 1 metabolite. HMDBP07488. SDF4. 1p36.33. 45 kDa calcium-binding protein. Unknown. 1 ... 3-phosphoinositide-dependent protein kinase 1. Enzyme. 4 metabolites. HMDBP00248. ABAT. 16p13.2. 4-aminobutyrate ... 5-nucleotidase domain-containing protein 3. Unknown. 1 metabolite. HMDBP02139. TYRP1. 9p23. 5,6-dihydroxyindole-2-carboxylic ... 3-oxoacyl-[acyl-carrier-protein] synthase, mitochondrial. Enzyme. 9 metabolites. HMDBP01430. PDPK1. 16p13.3. ...
  • The creation of this database will allow performing further analyses by nanoLC-FT-MS, avoiding the systematic use of MS / MS, thus significantly increasing the speed of analysis and coverage of the studied proteome. (cea.fr)
  • For each protein, we produced quantitative profiles of localization scores for 16 subcellular compartments at single-cell resolution to trace proteome-wide relocalization in conditions over time. (g3journal.org)
  • Here, we describe CYCLoPs ( C ollection of Y east C ells Lo calization P attern s ), a web database resource that provides a central platform for housing and analyzing our yeast proteome dynamics datasets at the single cell level. (g3journal.org)
  • Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large-scale protein analysis: the yeast proteome. (semanticscholar.org)
  • To aid future protein biomarker studies of disease and health from human plasma, we developed an online database, HIP 2 (Healthy Human Individual's Integrated Plasma Proteome). (biomedcentral.com)
  • The fluctuating nature of blood from different individuals, huge dynamic protein concentration ranges (up to 10 12 ), and the protein detection limits of most MS platforms, have made the plasma proteome elusive to define. (biomedcentral.com)
  • To overcome the poor coverage, potential bias, and complementary nature of each experimental measurement of the human plasma proteome, it is necessary for biomedical researchers to collect and assess all reliable publicly-available plasma protein data sets generated from different MS analytical and computational platforms for healthy individuals. (biomedcentral.com)
  • An important issue for the elucidation of the functional organization of the proteome is the extraction of information about protein complex formation and function from the PPI network. (biomedcentral.com)
  • Since the last update article 2 years ago, we have generated 1182 new families and maintained sequence coverage of the UniProt Knowledgebase (UniProtKB) at nearly 80%, despite a 50% increase in the size of the underlying sequence database. (nih.gov)
  • The UniProt database will become a resource for all scientists to use, both to develop a better understanding of biology and to translate that basic science into clinical applications. (eurekalert.org)
  • p>When browsing through different UniProt proteins, you can use the 'basket' to save them, so that you can back to find or analyse them later. (uniprot.org)
  • Each dataset is completed with manually added information including protein classifiers as well as automatically retrieved and updated information from public databases (UniProt and PubMed). (frontiersin.org)
  • The results are shown with the 'protein' coordinates of the open reading frame, but it is also possible to toggle this to DNA sequence coordinates. (nih.gov)
  • Example output for the query protein O54689, the mouse C‐C chemokine receptor type 6 protein in (a) InterPro output for O54689 and (b) CDD output for O54689. (els.net)
  • The database contains information on about 300 abundant proteins of human myocardial tissue, including approximately 40 proteins that were identified by different methods. (uniprot.org)
  • 2011) Extending CATH: increasing coverage of the protein structure universe and linking structure with function. (els.net)
  • Therefore, if a region of protein sequence provides a highly significant match to a particular CATH-Gene3D FunFam, then there is a good chance they shares a similar function. (cathdb.info)
  • To carry out this study, they had to compile a set of proteins based on the folding classification as defined by CATH, the content of secondary structure elements computed by the DSSP program, and the commercial availability of the proteins. (biomedcentral.com)
  • Martin and colleagues [ 3 ] systematically explored the relationship between the folding classification from CATH and the classification of proteins into ENZYME classes. (biomedcentral.com)
  • In 1974, Dr. Dayhoff devised the concept of the protein family and super-family, defined by sequence similarity, as a means of organizing and classifying proteins. (eurekalert.org)
  • As a result, when two proteins share a significant sequence similarity, it is extremely likely they will also share similar 3D structure. (cathdb.info)