6ZNZ | pdb_00006znz

1.89 A resolution 4-methylcatechol (4-methylbenzene-1,2-diol) inhibited Sporosarcina pasteurii urease

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth AAA]	SCOP2B Superfamily	Urease, gamma-subunit	8078157	3001945	SCOP2B (2022-06-29)
B [auth BBB]	SCOP2B Superfamily	Urease, beta-subunit	8043131	3001949	SCOP2B (2022-06-29)
C [auth CCC]	SCOP2B Superfamily	Composite domain of metallo-dependent hydrolases	8043172	3000176	SCOP2B (2022-06-29)
C [auth CCC]	SCOP2B Superfamily	Composite domain of metallo-dependent hydrolases	8043172	3000176	SCOP2B (2022-06-29)
C [auth CCC]	SCOP2B Superfamily	Metallo-dependent hydrolases	8043430	3000428	SCOP2B (2022-06-29)
C [auth CCC]	SCOP2B Superfamily	Metallo-dependent hydrolases	8043430	3000428	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 [auth AAA]	WD40	e6znzAAA1	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: WD40	ECOD (v294.2)
B [auth BBB]	WD40	e6znzBBB1	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: WD40	ECOD (v294.2)
C [auth CCC]	WD40	e6znzCCC1	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: WD40	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth AAA]	PF00547	Urease, gamma subunit (Urease_gamma)	Urease, gamma subunit	Urease is a nickel-binding enzyme that catalyses the hydrolysis of urea to carbon dioxide and ammonia.	Domain
C [auth CCC]	PF00449	Urease alpha-subunit, N-terminal domain (Urease_alpha)	Urease alpha-subunit, N-terminal domain	The N-terminal domain is a composite domain and plays a major trimer stabilising role by contacting the catalytic domain of the symmetry related alpha-subunit.	Domain
C [auth CCC]	PF01979	Amidohydrolase family (Amidohydro_1)	Amidohydrolase family	This family of enzymes are a a large metal dependent hydrolase superfamily [1]. The family includes Adenine deaminase EC:3.5.4.2 that hydrolyses adenine to form hypoxanthine and ammonia. Adenine deaminases reaction is important for adenine utilisatio ...	This family of enzymes are a a large metal dependent hydrolase superfamily [1]. The family includes Adenine deaminase EC:3.5.4.2 that hydrolyses adenine to form hypoxanthine and ammonia. Adenine deaminases reaction is important for adenine utilisation as a purine and also as a nitrogen source [2]. This family also includes dihydroorotase and N-acetylglucosamine-6-phosphate deacetylases, EC:3.5.1.25 These enzymes catalyse the reaction N-acetyl-D-glucosamine 6-phosphate + H2O <=> D-glucosamine 6-phosphate + acetate. This family includes the catalytic domain of urease alpha subunit [3]. Dihydroorotases (EC:3.5.2.3) are also included [4-5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth AAA]	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 [auth BBB]	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 [auth CCC]	Urease subunit alpha	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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth AAA]	IPR050069	Urease subunit	Family
A [auth AAA]	IPR012010	Urease, gamma subunit	Family
A [auth AAA]	IPR002026	Urease, gamma/gamma-beta subunit	Family
A [auth AAA]	IPR036463	Urease, gamma subunit superfamily	Homologous Superfamily
B [auth BBB]	IPR002019	Urease, beta subunit-like	Family
B [auth BBB]	IPR050069	Urease subunit	Family
B [auth BBB]	IPR036461	Urease, beta subunit superfamily	Homologous Superfamily
C [auth CCC]	IPR029754	Urease nickel binding site	Binding Site
C [auth CCC]	IPR017950	Urease active site	Active Site
C [auth CCC]	IPR006680	Amidohydrolase-related	Domain
C [auth CCC]	IPR011059	Metal-dependent hydrolase, composite domain superfamily	Homologous Superfamily
C [auth CCC]	IPR032466	Metal-dependent hydrolase	Homologous Superfamily
C [auth CCC]	IPR011612	Urease alpha-subunit, N-terminal domain	Domain
C [auth CCC]	IPR050112	Urease Alpha Subunit	Family
C [auth CCC]	IPR005848	Urease, alpha subunit	Family
C [auth CCC]	IPR017951	Urease alpha subunit, C-terminal	Domain

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A [auth AAA]	CXM	Parent Component: MET : AA0363 , AA0493 : N-carboxy-L-methionine MOD:00368 , N-(dihydroxymethyl)-L-methionine (fMet) MOD:01446 , N-(dihydroxymethyl)-L-methionine (Met) MOD:01447
C [auth CCC]	KCX	Parent Component: LYS : AA0363 , AA0493
C [auth CCC]	QNQ	Parent Component: CYS : AA0363 , AA0493

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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.