5G4H | pdb_00005g4h

1.50 A resolution catechol (1,2-dihydroxybenzene) inhibited Sporosarcina pasteurii urease

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5g4ha_	Alpha and beta proteins (a+b)	Urease, gamma-subunit	Urease, gamma-subunit	Urease, gamma-subunit	automated matches	(Sporosarcina pasteurii ) [TaxId: 1474 ],	SCOPe (2.08)
B	d5g4hb_	All beta proteins	beta-clip	Urease, beta-subunit	Urease, beta-subunit	Urease, beta-subunit	(Sporosarcina pasteurii ) [TaxId: 1474 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Urease, gamma-subunit	8034247	3001945	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Urease, beta-subunit	8043131	3001949	SCOP2B (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	Dynamin_N	e5g4hA1	A: alpha bundles	X: Long alpha-hairpin	H: Ribosomal protein L29 (L29p)	T: Ribosomal protein L29 (L29p)	F: Dynamin_N	ECOD (develop294)
B	Dynamin_N	e5g4hB1	A: alpha bundles	X: Long alpha-hairpin	H: Ribosomal protein L29 (L29p)	T: Ribosomal protein L29 (L29p)	F: Dynamin_N	ECOD (develop294)
C	Dynamin_N	e5g4hC1	A: alpha bundles	X: Long alpha-hairpin	H: Ribosomal protein L29 (L29p)	T: Ribosomal protein L29 (L29p)	F: Dynamin_N	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.280.10	Alpha Beta	2-Layer Sandwich	Urease	subunit A	CATH (4.3.0)
B	2.10.150.10	Mainly Beta	Ribbon	Urease, subunit B	Urease, beta subunit	CATH (4.3.0)
C	2.30.40.10	Mainly Beta	Roll	Urease, subunit C	domain 1	CATH (4.3.0)
C	3.20.20.140	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Metal-dependent hydrolases	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	UREASE SUBUNIT GAMMA	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides hydrolase activity urease activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding transition metal ion binding ion binding binding nickel cation binding metal ion binding small molecule binding	nitrogen cycle metabolic process catabolic process small molecule metabolic process metabolic process cellular process urea catabolic process small molecule catabolic process urea metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm
B	UREASE SUBUNIT BETA	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides hydrolase activity urease activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	nitrogen cycle metabolic process catabolic process small molecule metabolic process metabolic process cellular process urea catabolic process small molecule catabolic process urea metabolic process	protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex cytoplasm urease complex
C	UREASE SUBUNIT ALPHA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR050069	Urease subunit	Family
A	IPR012010	Urease, gamma subunit	Family
A	IPR002026	Urease, gamma/gamma-beta subunit	Family
A	IPR036463	Urease, gamma subunit superfamily	Homologous Superfamily
B	IPR002019	Urease, beta subunit-like	Family
B	IPR050069	Urease subunit	Family
B	IPR036461	Urease, beta subunit superfamily	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	CXM	Parent Component: MET RESID: AA0363 , AA0493 PSI-MOD : N-carboxy-L-methionine MOD:00368 , N-(dihydroxymethyl)-L-methionine (fMet) MOD:01446 , N-(dihydroxymethyl)-L-methionine (Met) MOD:01447
C	KCX	Parent Component: LYS RESID: AA0363 , AA0493

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.