1G0D | pdb_00001g0d

CRYSTAL STRUCTURE OF RED SEA BREAM TRANSGLUTAMINASE

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1g0da2	All beta proteins	Immunoglobulin-like beta-sandwich	Transglutaminase, two C-terminal domains	Transglutaminase, two C-terminal domains	Transglutaminase, two C-terminal domains	red seabream (Pagrus major ) [TaxId: 143350 ],	SCOPe (2.08)
A	d1g0da1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	Transglutaminase N-terminal domain	Transglutaminase N-terminal domain	red seabream (Pagrus major ) [TaxId: 143350 ],	SCOPe (2.08)
A	d1g0da4	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	Transglutaminase core	Transglutaminase catalytic domain	red seabream (Pagrus major ) [TaxId: 143350 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Transglutaminase core	8020124	4000877	SCOP2 (2022-06-29)
A	SCOP2 Family	Transglutaminase N-terminal domain	8055036	4007520	SCOP2 (2022-06-29)
A	SCOP2 Family	Transglutaminase, two C-terminal domains	8055228	4007533	SCOP2 (2022-06-29)
A	SCOP2 Family	Transglutaminase, two C-terminal domains	8055406	4007533	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Cysteine proteinases	8032504	3001808	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	E set domains	8055037	3000070	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	CsgC/transglutaminase domain-like	8055229	3002048	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	CsgC/transglutaminase domain-like	8055407	3002048	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Transglut_N	e1g0dA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Transglut_N	ECOD (1.6)
A	Transglut_C_1	e1g0dA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Transglut_C_1	ECOD (1.6)
A	Transglut_C	e1g0dA3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Transglut_C	ECOD (1.6)
A	Transglut_core	e1g0dA4	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: Transglut_core	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A	3.90.260.10	Alpha Beta	Alpha-Beta Complex	Coagulation Factor XIII	Chain A, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00868	Transglutaminase family (Transglut_N)	Transglutaminase family		Domain
A	PF00927	Transglutaminase family, C-terminal ig like domain (Transglut_C)	Transglutaminase family, C-terminal ig like domain		Domain
A	PF01841	Transglutaminase-like superfamily (Transglut_core)	Transglutaminase-like superfamily	This domain is found in animal transglutaminases and other bacterial proteins of unknown function. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that ...	This domain is found in animal transglutaminases and other bacterial proteins of unknown function. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' [1]. On the basis of the experimentally demonstrated activity of the Methanobacterium phage pseudomurein endoisopeptidase [2], it is proposed that many, if not all, microbial homologues of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease. [3]	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	PROTEIN-GLUTAMINE GAMMA-GLUTAMYLTRANSFERASE	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding peptide histaminyltransferase activity acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity N-acyltransferase activity catalytic activity, acting on a protein peptide dopaminyltransferase activity cation binding ion binding binding calcium ion binding metal ion binding small molecule binding peptide histaminyltransferase activity acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity N-acyltransferase activity catalytic activity, acting on a protein peptide dopaminyltransferase activity histone modifying activity histone dopaminyltransferase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides hydrolase activity protein-glutamine glutaminase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds peptidase activity peptide noradrenalinyltransferase activity aminoacyltransferase activity protein-glutamine gamma-glutamyltransferase activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding peptide serotonyltransferase activity histone serotonyltransferase activity	positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity biological regulation positive regulation of catalytic activity regulation of GTPase activity positive regulation of GTPase activity developmental process multicellular organism development multicellular organismal process skeletal system development anatomical structure development positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity biological regulation positive regulation of catalytic activity regulation of GTPase activity positive regulation of GTPase activity developmental process multicellular organism development multicellular organismal process skeletal system development anatomical structure development animal organ development bone development system development regulation of biological process positive regulation of programmed cell death regulation of cellular process regulation of apoptotic process positive regulation of biological process regulation of programmed cell death cell death positive regulation of apoptotic process cellular process apoptotic process programmed cell death positive regulation of cellular process import into cell regulation of localization regulation of cellular component organization transport regulation of transport regulation of phagocytosis regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport cellular component organization localization phagocytosis apoptotic cell clearance cellular component organization or biogenesis endocytosis regulation of apoptotic cell clearance regulation of endocytosis cellular response to nitrogen compound cellular response to stimulus response to serotonin response to stimulus cellular response to serotonin response to monoamine response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to monoamine stimulus response to chemical nervous system development signaling phospholipase C-activating G protein-coupled receptor signaling pathway cell communication G protein-coupled receptor signaling pathway signal transduction protein deamination macromolecule modification metabolic process primary metabolic process protein metabolic process macromolecule metabolic process protein modification process positive regulation of cell communication small GTPase-mediated signal transduction positive regulation of signal transduction regulation of small GTPase mediated signal transduction regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette regulation of signaling positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of small GTPase mediated signal transduction positive regulation of signaling cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization proteolysis response to dopamine cellular response to dopamine response to catecholamine cellular response to catecholamine stimulus peptide cross-linking	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol cell periphery plasma membrane membrane membraneless organelle intracellular membraneless organelle membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol cell periphery plasma membrane membrane membraneless organelle intracellular membraneless organelle chromatin chromosome extracellular region nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036985	Transglutaminase-like superfamily	Homologous Superfamily
A	IPR036238	Transglutaminase, C-terminal domain superfamily	Homologous Superfamily
A	IPR002931	Transglutaminase-like	Domain
A	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A	IPR001102	Transglutaminase, N-terminal	Domain
A	IPR008958	Transglutaminase, C-terminal	Domain
A	IPR050779	Protein-glutamine gamma-glutamyltransferases	Family
A	IPR023608	Protein-glutamine gamma-glutamyltransferase, animal	Family
A	IPR013808	Transglutaminase, active site	Active Site
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.