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*  Protein primary structure
... allows highly accurate prediction of the tertiary structure by homology modeling. If the full-length protein sequence is ... Sequence families are often determined by sequence clustering, and structural genomics projects aim to produce a set of ... Protein primary structure is the linear sequence of amino acids in a peptide or protein. By convention, the primary structure ... The protein is activated by cleaving off the inhibitory peptide. Some proteins even have the power to cleave themselves. ...
*  Structural alignment software
"ProBiS algorithm for detection of structurally similar protein binding sites by local structural alignment". Bioinformatics. 26 ... bound and implications to homology modeling". Bioinformatics. 27 (18): 2537-45. doi:10.1093/bioinformatics/btr432. PMC 3167051 ... This list of structural comparison and alignment software is a compilation of software tools and web portals used in pairwise ... Brown, P.; Pullan W.; Yang Y.; Zhou Y. (Oct 2015). "Fast and accurate non-sequential protein structure alignment using a new ...
*  Dale Brown Emeagwali
Brown, D. D.; Salzman, L. A. (1984-03-01). "Sequence homology between the structural proteins of Kilham rat virus". Journal of ... "Sequence Homology Between the Structural Proteins of Kilham Rat Virus," Journal of Virology 1989 "Modulation of Ras Expression ... Ras proteins play a vital role in the transmission of signals that regulate the growth of cells. When the gene that initiates ... the ras protein becomes mutated, the signals are disrupted in a way that can cause the cells to become cancerous. She also ...
*  FKBP6
FK506 binding protein 6, also known as FKBP6, is a human gene. The encoded protein shows structural homology to FKBP ... PDB: 3B7X​; "RCSB Protein Data Bank - Structure Summary for 3B7X - Crystal structure of human FK506-Binding Protein 6". ... FKBP6 contains 3 α-helices and 11 β-sheet strands, and as a FK506-family protein, has been shown to be a potent ... Siekierka JJ, Hung SH, Poe M, Lin CS, Sigal NH (October 1989). "A cytosolic binding protein for the immunosuppressant FK506 has ...
*  Cyanase
The C-terminal domain has an 'open fold' with no structural homology to other proteins. The dimer structure reveals the C- ... The N-terminal domain shows structural similarity to the DNA-binding alpha-helix bundle motif. ...
*  Gut-specific homing
The MadCAM-1 protein has structural homology to the vascular surface receptors VCAM1 and ICAM at 28% and 32% respectively. This ... Structural analysis of the MadCAM-1 protein shows that it is a 41.5 kDa transmembrane protein with a small cytoplasmic tail and ... The ligand for CCR9 proteins is the CCL25 chemokine (which is otherwise known as TECK) protein. CCL25 is a chemokine which, ... The last of which has 33% structural identity to the Ca2 domain of IgA-1. The first two of the domains are predicted to be the ...
*  Ribose repressor
"Structural homology between rbs repressor and ribose binding protein implies functional similarity". Protein Science. 1 (7): ... The Ribose repressor (RbsR) is a bacterial DNA-binding transcription repressor protein and a member of the LacI/GalR protein ... an allosteric effector of the related LacI/GalR protein Catabolite Control Protein A (CcpA). RbsR in EcoGene RbsR in EColiWiki ... In Bacillus subtilis, RbsR was shown to interact with Histidine-containing protein (HPr), ...
*  Integrin-like receptors
This protein maintains structural similarity and sequence homology to the α-subunits of human leukocyte integrins. The αInt1p ... A plant protein with structural similarity to integrins contains the amino acid sequence Asn-Gly-Asp (NGD). ILRs play a role in ... This protein shares functional homology with mammalian integrins in that it connects the ECM to the intracellular matrix to ... Most commonly, ILRs resembles the β1 subunit found in integrin proteins. This structural similarity between ILRs and integrins ...
*  Signal transduction
... several integrin-like proteins were proposed based on structural homology with the metazoan receptors. Interestingly, plants ... PIP3 and other phosphoinositides do the same thing to the Pleckstrin homology domains of proteins such as the kinase protein ... Other activated proteins interact with adaptor proteins that facilitate signaling protein interactions and coordination of ... most commonly protein phosphorylation catalysed by protein kinases, which ultimately results in a cellular response. Proteins ...
*  SLPI
Complete amino acid sequence as revealed by protein and cDNA sequencing and structural homology to whey proteins and Red Sea ... SLPI is a highly cationic single-chain protein with eight intramolecular disulfide bonds. It is found in large quantities in ... Sequence homology with mucus proteinase inhibitor". Biological Chemistry Hoppe-Seyler. 372 (1): 13-21. doi:10.1515/bchm3.1991. ... SLPI is also one of the dominantly present proteins in nasal epithelial lining fluid and other nasal secretions. Many diseases ...
*  Vishweshwaraiah Prakash
Prakash is known to have done extensive research in structural homology of seed proteins and the association-dissociation and ... His work is reported to have assisted in the understanding of the behaviour of several seed proteins from a stability ... During his tenure as the head of CFTRI, he established the Advanced School of Protein Chemistry and Technology, for advanced ... Vishweshwaraiah Prakash is an Indian structural biologist, food technologist and a former director-general designate of the ...
*  Dendrotoxin
Despite the structural homology between these two proteins, dendrotoxins do not appear to exhibit any measurable inhibitory ... dendrotoxins have become useful as molecular probes for the structural and functional study of these proteins. This may help ... which add stability to the protein and greatly contribute to its structural conformation. The cysteine residues forming these ... Dendrotoxins are basic proteins that possess a net positive charge when present in neutral pH. Most of the positively charged ...
*  List of MeSH codes (G06)
... protein MeSH G06.184.842.200 --- sequence homology, amino acid MeSH G06.184.842.200.820 --- structural homology, protein MeSH ... src homology domains MeSH G06.184.603.790.709.805 --- structural homology, ... protein conformation MeSH G06.184.603.790.709.550 --- protein structure, quaternary MeSH G06.184.603.790.709.600 --- protein ... protein processing, post-translational MeSH G06.535.770.871.790.600.400 --- protein isoprenylation MeSH G06.535.770.871.790.600 ...
*  Survivin
... , like the others, was discovered by its structural homology to IAP family of proteins in human B-cell lymphoma. The ... Survivin-3B, which has an insertion of an alternative exon 3. A structural feature common to all IAP family proteins is that ... The particular protein released from the mitochondria is cytochrome c. Cytochrome c then binds to Apaf-1 in the cytosol and ... One family of proteins called IAPs plays a role in regulating cell death by inhibiting the process. IAPs like survivin, inhibit ...
*  Marta Filizola
Mobarec JC, Sanchez R, Filizola M (2009). "Modern homology modeling of G-protein coupled receptors: which structural template ... "G Protein-Coupled Receptors - Modeling and Simulation , Marta Filizola". Springer.com. Retrieved 2016-01-31. "G Protein-Coupled ... "G Protein-Coupled Receptors - Modeling and Simulation" and "G Protein-Coupled Receptors in Drug Discovery". She is also an ... G Protein-Coupled Receptors in Drug Discovery. Methods in Molecular Biology. 1335. pp. 277-94. doi:10.1007/978-1-4939-2914-6_18 ...
*  Swiss-model
... is a structural bioinformatics web-server dedicated to homology modeling of protein 3D structures. Homology ... SWISS-MODEL Homology modelling Protein structure prediction Protein structure prediction software CASP (Critical Assessment of ... Homology (or comparative) modelling methods make use of experimental protein structures ("templates") to build models for ... SWISS-MODEL pipeline comprises the four main steps that are involved in building a homology model of a given protein structure ...
*  EIF3A
Scholler JK, Kanner SB (1997). "The human p167 gene encodes a unique structural protein that contains centrosomin A homology ... "Large-scale mapping of human protein-protein interactions by mass spectrometry". Mol. Syst. Biol. 3: 89. doi:10.1038/msb4100134 ... Méthot N, Rom E, Olsen H, Sonenberg N (January 1997). "The human homologue of the yeast Prt1 protein is an integral part of the ... Morris-Desbois C, Réty S, Ferro M, Garin J, Jalinot P (December 2001). "The human protein HSPC021 interacts with Int-6 and is ...
*  AKAP4
... having structural homology with the A-kinase anchoring proteins". Biochemical and Biophysical Research Communications. 244 (2 ... A-kinase anchor protein 4 is a scaffold protein that in humans is encoded by the AKAP4 gene. The A-kinase anchor proteins ( ... Brown PR, Miki K, Harper DB, Eddy EM (June 2003). "A-kinase anchoring protein 4 binding proteins in the fibrous sheath of the ... Brown PR, Miki K, Harper DB, Eddy EM (June 2003). "A-kinase anchoring protein 4 binding proteins in the fibrous sheath of the ...
*  Loop modeling
Chung SY, Subbiah S. (1996.) A structural explanation for the twilight zone of protein sequence homology" Structure 4: 1123-27 ... As mentioned above homology-based methods use a database to align the target protein gap with a known template protein. A ... Since the loop is the least conserved portion of a protein's structure, the homology-based method cannot always find a known ... Because loops have highly variable sequences even within a given structural motif or protein fold, they often correspond to ...
*  MAP1LC3B
LC3 shares structural homology with ubiquitin, and thus has been termed a ubiquitin-like protein. LC3 has a LDS (LIR docking ... Microtubule-associated proteins 1A/1B light chain 3B (hereafter referred to as LC3) is a protein that in humans is encoded by ... MAP1LC3B is a member of the highly conserved ATG8 protein family. ATG8 proteins are present in all known eukaryotic organisms. ... The importance of the nuclear functions of autophagy proteins should not be underestimated. A large pool of LC3 is present in ...
*  T-Coffee
... a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology ... PSI-Coffee aligns distantly related proteins using homology extension (slow and accurate) TM-Coffee aligns transmembrane ... proteins using homology extension Pro-Coffee aligns homologous promoter regions Accurate automatically combine the most ... In its latest version, T-Coffee can be used to combine protein sequences and structures, RNA sequences and structures. It can ...
*  Sperm-associated antigen 9
... having structural homology with c-Jun N-terminal kinase-interacting protein". The Biochemical Journal. 389 (Pt 1): 73-82. doi: ... The protein encoded by this gene is a scaffolding protein that brings together mitogen-activated protein kinases and their ... The structural organization of these kinases into specific signaling domains is facilitated by scaffolding proteins involved in ... knockdown of sperm associated antigen 9 having structural homology with c-Jun N-terminal kinase-interacting protein". ...
*  VDAC2
This protein is a voltage-dependent anion channel and shares high structural homology with the other VDAC isoforms. VDACs are ... Voltage-dependent anion-selective channel protein 2 is a protein that in humans is encoded by the VDAC2 gene on chromosome 10. ... VDACs have also been observed to interact with pro- or antiapoptotic proteins, such as Bcl-2 family proteins and kinases, and ... "Large-scale mapping of human protein-protein interactions by mass spectrometry". Molecular Systems Biology. 3 (1): 89. doi: ...
*  SBDS
It shares distant structural and sequence homology to a protein named YHR087W found in the yeast Saccharomyces cerevisiae. The ... 2005). "Structural and mutational analysis of the SBDS protein family. Insight into the leukemia-associated Shwachman-Diamond ... The encoded protein may function in RNA metabolism. The precise function of the SBDS protein is not known but it appears to ... Ribosome maturation protein SBDS is a protein that in humans is encoded by the SBDS gene. An alternative transcript has been ...
*  Rhamnolipid
This fold is a common structural motif in fatty acid synthetic proteins and RhlA shows homology to transacylases. It has been ... The proteins encoded by rhlA and rhlB; RhlA and RhlB respectively, are expected to form a complex because of the operonic ... The hydroxyacyl-ACP substrate of RhlA is the product of FabG, a protein which encodes the NADPH-dependent β-keto-acyl-ACP ... Zhu K, Rock CO (May 2008). "RhlA converts beta-hydroxyacyl-acyl carrier protein intermediates in fatty acid synthesis to the ...
*  TENM3
TCAPs show structural homology to the CRF family molecule and appears to influence neurite outgrowth and some behaviours ... The proteins were called Ten-ms in zebrafish, teneurins in chicken, Ten-m1-4, Odz1-4, Ten-m/Odz1-4, DOC4 in mouse, neurestin in ... Ten-m3 protein is expressed in the Purkinje's cell zone, molecular and granular layers and the white matter of the cerebellum. ... in 1999 from the original name, Ten-a, and the major site of the protein expression being in the nervous system. Like the Ten-m ...
*  Protein engineering
... homology modeling, and protein threading.[page needed] These methods involve free modeling without using any structural ... Without structural information about a protein, sequence analysis is often useful in elucidating information about the protein ... This knowledge of existing protein structure assists with the prediction of new protein structures. Methods for protein ... These methods are based upon the fact that proteins can exhibit similar structural identity while lacking sequence homology. ...