Catalytic domain structure. Medical search. Frequent questions

Bacterial toxins can be single proteins or oligomeric protein complexes that are organized with distinct AB structure-function properties. (springer.com)
There are 308772 RING domains in 276130 proteins in SMART's nrdb database. (embl-heidelberg.de)
Taxonomic distribution of proteins containing RING domain. (embl-heidelberg.de)
The complete taxonomic breakdown of all proteins with RING domain is also avaliable . (embl-heidelberg.de)
Click on the protein counts, or double click on taxonomic names to display all proteins containing RING domain in the selected taxonomic class. (embl-heidelberg.de)
A Disintegrin and Metalloproteases (ADAM), originally named metalloproteinases disintegrin cystein-rich (MDC), are membrane-anchored cell surface proteins containing both disintegrin and metalloproteinase domains. (frontiersin.org)
Cells express a pool of thousands of different proteins that need to be tightly controlled for proper cellular structure, organization, and function. (hindawi.com)
Analyzing how the x-rays bounce off the structure allows scientists to reconstruct extremely high-resolution, 3-D images showing the positions and relative orientations of the atoms making up the proteins. (bnl.gov)
Understanding the detailed structures of the toxins and how they interact with their target proteins could also lead to advances in the ways they can be used safely in a medical setting. (bnl.gov)
The PAR proteins include the PDZ domain-containing PAR-3 and PAR-6, the atypical protein kinase PKC-3, the serine/threonine kinase PAR-1 and, in nematodes, the putative ubiquitin E3 ligase PAR-2. (biologists.com)
The proteins encoded by members of the Dbl family share a common domain, presented in this entry, of about 200 residues (designated the Dbl homology or DH domain) that has been shown to encode a GEF activity specific for a number of Rho family members. (embl-heidelberg.de)
It does not share significant sequence homology with other subtypes of small G-protein GEF motifs such as the Cdc25 domain and the Sec7 domain, which specifically interact with Ras and ARF family small GTPases, respectively, nor with other Rho protein interactive motifs, indicating that the Dbl family proteins are evolutionarily unique. (embl-heidelberg.de)
There are 39736 RhoGEF domains in 38458 proteins in SMART's nrdb database. (embl-heidelberg.de)

The 2.5 Å crystal structure of the SIRT1 catalytic domain bound to nicotinamide adenine dinucleotide (NAD + ) and an indole (EX527 analogue) reveals a novel mechanism of histone deacetylase inhibition. (rndsystems.com)

Here, we have produced a truncated version of Sc LPMO10D without the CWSS and determined its crystal structure, EPR spectrum, and various functional properties. (nature.com)
The N-terminal prodomain has a flexible crystal structure and is responsible for regulating PCSK9 function by interacting with and blocking the catalytic domain, which otherwise binds the epidermal growth factor-like repeat A (EGF-A) domain of the LDLR. (wikipedia.org)
The crystal structure of the catalytic domain of the site-specific recombination enzyme gamma delta resolvase at 2.7 A resolution. (uchicago.edu)
In this study, the crystal structure of Saccharomyces cerevisiae mitochondrial Qri7 complexed with AMP (a part of threonylcarbamoyl-adenylate) has been determined at 2.94 Å resolution in a new crystal form. (iucr.org)
The crystal structure of the human RIG-I helicase domain, a key player protein in the antiviral innate immune response, is reported. (iucr.org)
This is the first X-ray crystal structure that captures the weak self-association interface of α. (iucr.org)
Previously, I worked on determining the first crystal structure of a group II intron (figure 1). (ucsd.edu)
Chan RT, Robart AR, Rajashankar KR, Pyle AM, Toor N, "Crystal structure of a group II intron in the pre-catalytic state. (ucsd.edu)
Kruidenier and colleagues solved the crystal structure of the JMJD3 catalytic domain in complex with an H3K27me3 peptide and used the insights into interactions required for substrate specificity and recognition to guide the optimization of weak inhibitors discovered in a screen of 2 million compounds. (aacrjournals.org)
The Inorganic Crystal Structure Database (ICSD) is the world's largest database of fully determined inorganic crystal structures, from elements to quintenary compounds. (lu.se)

then this catalytic domain binds to and cleaves a nerve-cell protein, making it impossible for the nerve cell to "fire," or send signals. (bnl.gov)
This study looked specifically at how the catalytic domain of one type of neurotoxin, neurotoxin F, recognizes and binds to its target nerve-cell protein to perform this final, paralyzing step," said Brookhaven Lab biologist Subramanyam Swaminathan, who led the research team. (bnl.gov)

and the C-terminal domain (residues 426-692), which is further divided into three modules. (wikipedia.org)
On the basis of the X-ray crystallographic 3D structure, an approach including site-directed and random mutagenesis is taken to determine functional important residues and regions. (lu.se)

PKB contains an N-terminal pleckstrin homology (PH) domain and a C-terminal catalytic domain.The PKB-beta subfamily is part of a larger superfamily that includes the catalytic domains of other STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. (nih.gov)
The lysine-specific demethylase 6 (KDM6) subfamily includes ubiquitously transcribed tetratricopeptide repeat, X chromosome (UTX, also known as KDM6A) and jumonji domain containing 3 (JMJD3, also known as KDM6B), which specifically remove the repressive histone H3 lysine 27 trimethyl (H3K27me3) mark. (aacrjournals.org)

is inclusive of papers focused on stucture, function, and properties of enzymes as well as catalytic and inhibition mechanisms of enzymes, mechanisms of drug action, and related advances on enzymes. (mdpi.com)
Inhibition of SIRT1 catalytic activity increases p53 acetylation but does not alter cell survival following DNA damage. (rndsystems.com)

Each of these four structural classes has not been reported as FIH1 inhibitor, and therefore can be considered for further development by structure-activity relationship or denovo design methods. (nih.gov)
This structural conservation highlights the importance of the versatile domain composition of the RPF family. (iucr.org)
The atomic-resolution structures were made at the U.S. Department of Energy's (DOE) Brookhaven National Laboratory in collaboration with scientists from the U.S. Army Medical Research Institute for Infectious Diseases, and will be published online on June 21, 2009, in Nature Structural & Molecular Biology . (bnl.gov)
The PH domain is invariably located immediately C-terminal to the DH domain and this invariant topography suggests a functional interdependence between these two structural modules. (embl-heidelberg.de)
This revealed the active site of this ribozyme to contain two catalytic metal ions coordinated by a conserved RNA structural motif called domain 5. (ucsd.edu)
Unexpected effects of FERM domain mutations on catalytic activity of Jak3: structural implication for Janus kinases. (lu.se)
Molecular modeling of the Jak3 kinase domains and structural basis for severe combined immunodeficiency. (lu.se)

The crystal structures of human cdHDAC7 and its complexes with two hydroxamate inhibitors are the first structures of the catalytic domain of class IIa HDACs and demonstrate significant differences with previously reported class I and class IIb-like HDAC structures. (rcsb.org)
The structures reveal their novel mode of action as competitive ligands for the binding site of an incoming DNA substrate, and point the way to generating novel and potent inhibitors of TDP2. (rcsb.org)
Our TMPRSS2-drug structures are made public to guide the design of more potent and specific inhibitors. (rsc.org)
The lead compound, GSK-J1, competed with enzymatic cofactors and interacted with the catalytic metal ion at 2 sites to induce a shift in its position, suggesting potential approaches for the further development of selective demethylase inhibitors. (aacrjournals.org)

Kinesins can have different structures, but most are made up of two subunits that are joined and work together to create a walking-like movement. (elifesciences.org)

The catalytic domain of Clostridium botulinum neurotoxin type F (represented as a molecular surface, gray) bound to an inhibitor molecule (colored ribbon) designed to mimic the nerve-cell protein the toxin cleaves. (bnl.gov)
The heavy chain is responsible for both receptor some species of the genus Clostridium, in particular, Clostridium binding via its C-terminal (CT) binding domain [4,5] (HC) and botulinum, C. butyricum, C. baratii, and C. argentinense. (cdc.gov)

This protein is a catalytic kinesin motor with coiled-coil and Smc domains. (biolegend.com)

Phk gamma trnc) of the gamma-subunit of rabbit muscle phosphorylase kinase: the binary complex with Mn2+/beta-gamma-imidoadenosine 5'-triphosphate (AMPPNP) to a resolution of 2.6 A and the binary complex with Mg2+/ADP to a resolution of 3.0 A. The structures were solved by molecular replacement using the cAMP-dependent protein kinase (cAPK) as a model. (ox.ac.uk)
Ozaki H, Sato T, Kubota H, Hata Y, Katsube Y, Shimonishi Y (1991) Molecular structure of the toxic domain of heat-stable enterotoxin produced by enterotoxigenic Escherichia coli . (springer.com)
As no experimental structure is available, we provide a model of the TMPRSS2 equilibrium structure and its fluctuations by relaxing an initial homology structure with extensive 330 microseconds of all-atom molecular dynamics (MD) and Markov modeling. (rsc.org)
The MIPs are produced by various polymerization methods but in all cases specifi c interactions, molecular partitioning and polymer structure are key properties that we focus on. (lu.se)

Here, we report high-resolution crystal structures as well as a 4.4-Å cryogenic-electron microscopic (cryo-EM) structure of PI3KC2α in active and inactive conformations. (nature.com)
Here, we describe a pair of high-resolution crystal structures of the human NOCT catalytic domain. (rhea-db.org)

The epidermal growth factor domain has a calcium ion- binding site that to some degree mediates interaction with the tissue factor exposed at the site of vessel injury. (medscape.com)

Here, we characterize the structure and enzymatic activity of the catalytic domain of human HDAC7 (cdHDAC7). (rcsb.org)

The glutamate, in a similar manner to the phosphorylated residue in other protein kinases, interacts with an arginine adjacent to the catalytic aspartate but does not participate in interdomain contacts. (ox.ac.uk)

The latter enzyme, called Sc LPMO10D, and most of the enzymes found in this subclade are unique, not only because of variation in the catalytic domain, but also as their C-terminus contains a cell wall sorting signal (CWSS), which flags the LPMO for covalent anchoring to the cell wall. (nature.com)
Structure and function of NAD kinase and NADP phosphatase: key enzymes that regulate the intracellular balance of NAD(H) and NADP(H). (rhea-db.org)
The CAZy database describes the families of structurally-related catalytic and carbohydrate-binding modules (or functional domains) of enzymes that degrade, modify, or create glycosidic bonds. (lu.se)

Despite low sequence similarity, the catalytic domain of SHP-1 shows high similarity in secondary and tertiary structures with other protein-tyrosine phosphatases (PTPs). (umassmed.edu)

Our structures reveal that portions of the toxin that are distant from the 'active site' that cleaves the nerve-cell protein are crucial to the toxin's ability to bind to and destroy this protein," Swaminathan said. (bnl.gov)

Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. (embl-heidelberg.de)
Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. (embl-heidelberg.de)
This entry represents RING-type zinc finger domains. (embl-heidelberg.de)
The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. (embl-heidelberg.de)
The spacing of the cysteines in such a domain is C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C. Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. (embl-heidelberg.de)

demonstrated that the C-terminal domain does bind LDLR. (wikipedia.org)
Each subunit has a region called a motor domain (also known as its 'head') that can bind to the microtubule and to a molecule called ATP, which provides the energy required for the motor to step forward. (elifesciences.org)
They then allowed each to bind to the catalytic domain of the toxin, and analyzed the structures using high-intensity x-rays at Brookhaven's National Synchrotron Light Source (NSLS). (bnl.gov)

We have gone on to determine crystal structures of these compounds bound to a 'humanized' form of murine TDP2. (rcsb.org)

The secretion of PCSK9 is largely dependent on the autocleavage of the signal peptide and N-terminal prodomain, though the N-terminal prodomain retains its association with the catalytic domain. (wikipedia.org)
The endo-mannanase from T. reesei has a small polysaccharide binding domain, separated from the catalytic domain by a highly glycosylated linker peptide. (lu.se)

By analyzing the single-molecule properties of engineered motors, we demonstrate that the non-catalytic domain has a key role in the motility mechanism by acting as a 'foothold' that allows Kar3 to bias translocation towards the minus end. (elifesciences.org)
We unravel a coincident mechanism of lipid-induced activation of PI3KC2α at membranes that involves large-scale repositioning of its Ras-binding and lipid-binding distal Phox-homology and C-C2 domains, and can serve as a model for the entire class II PI3K family. (nature.com)

Eleven novel JAK3 mutations in patients with severe combined immunodeficiency-including the first patients with mutations in the kinase domain. (lu.se)

The B domain includes two functional domains: a receptor-binding domain, which defines the tropism of a toxin for a cell and a translocation domain that delivers the A domain across a lipid bilayer, either on the plasma membrane or the endosome. (springer.com)
Intoxication with delivering the catalytic light chain (LC) to its target via its N- one of the seven distinct serotypes of BoNT (A-G) causes botulism, terminal translocation domain (HN) [6]. (cdc.gov)

In contrast to the conformational changes observed in the crystal structures of PTP1B and Yersinia PTP, the WPD loop (Trp419-Pro428) in the catalytic domain of SHP-1 moves away from the substrate binding pocket after binding the tungstate ion. (umassmed.edu)

The α chain of haemoglobin (α) has been crystallized as a homodimer bound to a domain from the S. aureus haemoglobin receptor iron-regulated surface determinant H (IsdH). (iucr.org)

Yamasaki S, Sato T, Hidaka Y, Ozaki H, Ito H, Hirayama T, Takeda Y, Sugimura T, Tai A, Shimonishi Y (1990) Structure-activity relationship of Escherichia coli heat-stable enterotoxin: Role of Ala residue at position 14 in toxin-receptor interaction. (springer.com)
Autosomal SCID caused by a point mutation in the N-terminus of Jak3: mapping of the Jak3-receptor interaction domain. (lu.se)

This review summarizes the major families of bacterial toxins and also describes the specific structure-function properties of the botulinum neurotoxins. (springer.com)
Furthermore, we are developing tools to study the structure and function of botulinum neurotoxins. (psi.ch)

The A domain encodes a catalytic activity. (springer.com)
Yoshimura S, Ikemura H, Watanabe H, Aimoto S, Shimonishi Y, Hara S, Takeda T, Miwatani T, Takeda Y (1985) Essential structure for full enterotoxigenic activity of heat-stable enterotoxin produced by enterotoxigenic Escherichia coli . (springer.com)
Among the mAbs, there were significant differences in extraction efficiency, ability to extract BoNT/A subtypes, and inhibitory effect on BoNT catalytic activity. (cdc.gov)

Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. (embl-heidelberg.de)
We are also studying the function of the binding domain, the interaction between the binding domain and the catalytic domain and the flexibility of the linker. (lu.se)

We study MTHFR from Escherichia coli as a model for the catalytic domain of the human enzyme. (carleton.edu)
The structure of human Nocturnin reveals a conserved ribonuclease domain that represses target transcript translation and abundance in cells. (rhea-db.org)

This review focuses on the structure of ADAM17, its signaling in the cardiovascular system and its participation in certain disorders involving the heart, blood vessels, and neural regulation of autonomic and cardiovascular modulation. (frontiersin.org)
Biochemical data have established the role of the conserved DH domain in Rho GTPase interaction and activation, and the role of the tandem PH domain in intracellular targeting and/or regulation of DH domain function. (embl-heidelberg.de)
Modulation of histone lysine methylation is crucial for regulation of chromatin structure and gene expression and is frequently deregulated in cancer. (aacrjournals.org)

Reaxys enables you to search by structure, substructure, reaction, text, and property data.Being based on the CrossFire Beilstein, CrossFire Gmelin and Patent Chemistry databases Reaxys has a long history beginning with chemical data from 1771. (lu.se)
In this project the core skills of MIP Technologies and Physical Chemistry in polymer design and studies of the colloidal domain have signifi cant overlap and complementarity. (lu.se)

The crystal structures of the protein-tyrosine phosphatase SHP-1 catalytic domain and the complex it forms with the substrate analogue tungstate have been determined and refined to crystallographic R values of 0.209 at 2.5 A resolution and 0.207 at 2.8 A resolution, respectively. (umassmed.edu)
Two structures of the catalytic domain of phosphorylase kinase: an active protein kinase complexed with substrate analogue and product. (ox.ac.uk)

UPTON, NY - New structures of a botulism toxin interacting with a mimic of the nerve-cell protein it destroys suggest new ways to block this often-fatal interaction. (bnl.gov)

Its clinical presentation clearly differs from other forms of GSD, because it is caused by the deficiency of the lysosomal enzyme, alpha-1,4-glucosidase, leading to the pathologic accumulation of normally structured glycogen within the lysosomes of most tissues, differs Three forms of the disease exist: infantile-onset, late-onset juvenile and adult onset. (medscape.com)

Complex effects of naturally occurring mutations in the JAK3 pseudokinase domain: evidence for interactions between the kinase and pseudokinase domains. (lu.se)

2 Although named differently across vertebrate taxa, this structure has been observed in many species such as mouse (node), rabbit (Hensen's node) and zebrafish (Kupffer's vesicle, KV). (bmj.com)

Moreover, we describe a PI3KC2α-specific helical bundle domain that underlies its scaffolding function at the mitotic spindle. (nature.com)
The projects in my lab focus on the structure and function of non-coding regions of prokaryotic and eukaryotic genomes. (ucsd.edu)

There are many superfamilies of Znf motifs, varying in both sequence and structure. (embl-heidelberg.de)

The structure of AA(Gly)B, a dual-specificity blood group synthase, in complex with UDP-galactose, the O6′′ atom of which is protected by an 2-nitrobenzyl group, has been determined in two space groups. (iucr.org)

The RING domain is a protein interaction domain that has been implicated in a range of diverse biological processes. (embl-heidelberg.de)

A theoretical structure of the full t-PA enzyme in humans. (wikidoc.org)

Furthermore, a different active site topology results in modified catalytic properties and in an enlarged active site pocket. (rcsb.org)
Search 28 million chemical structures and their properties, patents, publications and more. (lu.se)

Biochemical analysis confirmed the existence and importance of these "exosites," further validating the crystal structures. (bnl.gov)

Since the group II and spliceosomal introns both share this RNA structure, spliceosomal introns should also have the same active site arrangement. (ucsd.edu)

It consists of two domians joined on one edge by a 'hinge', with the catalytic site located in the cleft between the domains. (ox.ac.uk)

Anatomy11

Organisms12

Chemicals and Drugs105

Analytical, Diagnostic and Therapeutic Techniques and Equipment44

Phenomena and Processes82

Disciplines and Occupations2

Technology, Industry, Agriculture3

Information Science7

Health Care1

Proteins13

Histone deacetylase1

Crystal structure10

Binds2

Residues2

Subfamily2

Inhibition2

Structural7

Inhibitors4

Subunits1

Clostridium2

Coiled-coil1

Molecular4

High-resolution crystal structures2

Epidermal1

Enzymatic1

Arginine1

Enzymes3

Tertiary1

Cleaves1

Zinc5

Bind3

Compounds1

Peptide2

Mechanism2

Kinase domain1

Translocation Domain2

Conformational changes1

Bound1

Receptor2

Botulinum2

Activity3

Linker2

Human2

Regulation3

Chemistry2

Substrate2

Botulism1

Pathologic1

Interactions1

Species1

Function2

Motifs1

Complex1

Interaction1

Humans1

Properties2

Validating the crystal1

Active site1

Consists1