6ZTV

Crystal Structure of catalase HPII from Escherichia coli (serendipitously crystallized)

External Resource: Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6ztva2	Alpha and beta proteins (a/b)	Flavodoxin-like	Class I glutamine amidotransferase-like	automated matches	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d6ztva1	Multi-domain proteins (alpha and beta)	Heme-dependent catalase-like	Heme-dependent catalase-like	Heme-dependent catalases	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d6ztvb2	Alpha and beta proteins (a/b)	Flavodoxin-like	Class I glutamine amidotransferase-like	automated matches	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d6ztvb1	Multi-domain proteins (alpha and beta)	Heme-dependent catalase-like	Heme-dependent catalase-like	Heme-dependent catalases	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d6ztvc2	Alpha and beta proteins (a/b)	Flavodoxin-like	Class I glutamine amidotransferase-like	automated matches	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d6ztvc1	Multi-domain proteins (alpha and beta)	Heme-dependent catalase-like	Heme-dependent catalase-like	Heme-dependent catalases	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d6ztvd2	Alpha and beta proteins (a/b)	Flavodoxin-like	Class I glutamine amidotransferase-like	automated matches	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d6ztvd1	Multi-domain proteins (alpha and beta)	Heme-dependent catalase-like	Heme-dependent catalase-like	Heme-dependent catalases	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Heme-dependent catalase-like	8038396	3001681	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Class I glutamine amidotransferase-like	8038393	3001405	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Class I glutamine amidotransferase-like	8038393	3001405	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Heme-dependent catalase-like	8038396	3001681	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Class I glutamine amidotransferase-like	8038393	3001405	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Heme-dependent catalase-like	8038396	3001681	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Heme-dependent catalase-like	8038396	3001681	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Class I glutamine amidotransferase-like	8038393	3001405	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	Catalase	e6ztvA4	A: beta barrels	X: Barrel domain in heme-dependent catalases (From Topology)	H: Barrel domain in heme-dependent catalases (From Topology)	T: Barrel domain in heme-dependent catalases	F: Catalase	ECOD (1.6)
A	Catalase_1	e6ztvA2	A: alpha bundles	X: First alpha-helical domain in heme-dependent catalases (From Topology)	H: First alpha-helical domain in heme-dependent catalases (From Topology)	T: First alpha-helical domain in heme-dependent catalases	F: Catalase_1	ECOD (1.6)
A	Catalase-rel	e6ztvA1	A: alpha bundles	X: Second alpha-helical domain in heme-dependent catalases (From Topology)	H: Second alpha-helical domain in heme-dependent catalases (From Topology)	T: Second alpha-helical domain in heme-dependent catalases	F: Catalase-rel	ECOD (1.6)
A	GATase1_catalase	e6ztvA3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Class I glutamine amidotransferase-like	F: GATase1_catalase	ECOD (1.6)
B	Catalase	e6ztvB2	A: beta barrels	X: Barrel domain in heme-dependent catalases (From Topology)	H: Barrel domain in heme-dependent catalases (From Topology)	T: Barrel domain in heme-dependent catalases	F: Catalase	ECOD (1.6)
B	Catalase_1	e6ztvB4	A: alpha bundles	X: First alpha-helical domain in heme-dependent catalases (From Topology)	H: First alpha-helical domain in heme-dependent catalases (From Topology)	T: First alpha-helical domain in heme-dependent catalases	F: Catalase_1	ECOD (1.6)
B	Catalase-rel	e6ztvB1	A: alpha bundles	X: Second alpha-helical domain in heme-dependent catalases (From Topology)	H: Second alpha-helical domain in heme-dependent catalases (From Topology)	T: Second alpha-helical domain in heme-dependent catalases	F: Catalase-rel	ECOD (1.6)
B	GATase1_catalase	e6ztvB3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Class I glutamine amidotransferase-like	F: GATase1_catalase	ECOD (1.6)
C	Catalase	e6ztvC2	A: beta barrels	X: Barrel domain in heme-dependent catalases (From Topology)	H: Barrel domain in heme-dependent catalases (From Topology)	T: Barrel domain in heme-dependent catalases	F: Catalase	ECOD (1.6)
C	Catalase_1	e6ztvC3	A: alpha bundles	X: First alpha-helical domain in heme-dependent catalases (From Topology)	H: First alpha-helical domain in heme-dependent catalases (From Topology)	T: First alpha-helical domain in heme-dependent catalases	F: Catalase_1	ECOD (1.6)
C	Catalase-rel	e6ztvC1	A: alpha bundles	X: Second alpha-helical domain in heme-dependent catalases (From Topology)	H: Second alpha-helical domain in heme-dependent catalases (From Topology)	T: Second alpha-helical domain in heme-dependent catalases	F: Catalase-rel	ECOD (1.6)
C	GATase1_catalase	e6ztvC4	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Class I glutamine amidotransferase-like	F: GATase1_catalase	ECOD (1.6)
D	Catalase	e6ztvD4	A: beta barrels	X: Barrel domain in heme-dependent catalases (From Topology)	H: Barrel domain in heme-dependent catalases (From Topology)	T: Barrel domain in heme-dependent catalases	F: Catalase	ECOD (1.6)
D	Catalase_1	e6ztvD2	A: alpha bundles	X: First alpha-helical domain in heme-dependent catalases (From Topology)	H: First alpha-helical domain in heme-dependent catalases (From Topology)	T: First alpha-helical domain in heme-dependent catalases	F: Catalase_1	ECOD (1.6)
D	Catalase-rel	e6ztvD3	A: alpha bundles	X: Second alpha-helical domain in heme-dependent catalases (From Topology)	H: Second alpha-helical domain in heme-dependent catalases (From Topology)	T: Second alpha-helical domain in heme-dependent catalases	F: Catalase-rel	ECOD (1.6)
D	GATase1_catalase	e6ztvD1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Class I glutamine amidotransferase-like	F: GATase1_catalase	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF18011	C-terminal domain found in long catalases (Catalase_C)	C-terminal domain found in long catalases	This domain is found at the C-terminus of a variety of large catalase enzymes from bacteria. Structurally it is related to class I glutamine amidotransferase domains. The precise molecular function of this domain is uncertain.	Domain
A, B, C, D	PF06628	Catalase-related immune-responsive (Catalase-rel)	Catalase-related immune-responsive	-	Family
A, B, C, D	PF00199	Catalase (Catalase)	Catalase	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Catalase HPII	peroxidase activity oxidoreductase activity antioxidant activity catalase activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity binding organic cyclic compound binding tetrapyrrole binding heme binding cation binding transition metal ion binding iron ion binding ion binding peroxidase activity oxidoreductase activity antioxidant activity catalase activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity binding organic cyclic compound binding tetrapyrrole binding heme binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding identical protein binding protein binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process cellular catabolic process catabolic process cellular metabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process hydrogen peroxide catabolic process response to oxidative stress cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process cellular catabolic process catabolic process cellular metabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process hydrogen peroxide catabolic process response to oxidative stress response to osmotic stress hyperosmotic response response to abiotic stimulus	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR029062	Class I glutamine amidotransferase-like	Homologous Superfamily
A, B, C, D	IPR024708	Catalase active site	Active Site
A, B, C, D	IPR041399	Large catalase, C-terminal domain	Domain
A, B, C, D	IPR010582	Catalase immune-responsive domain	Domain
A, B, C, D	IPR043156	Catalase, mono-functional, haem-containing, clade 2, helical domain	Homologous Superfamily
A, B, C, D	IPR002226	Catalase haem-binding site	Binding Site
A, B, C, D	IPR020835	Catalase superfamily	Homologous Superfamily
A, B, C, D	IPR024712	Catalase, mono-functional, haem-containing, clade 2	Family
A, B, C, D	IPR011614	Catalase core domain	Domain
A, B, C, D	IPR018028	Catalase, mono-functional, haem-containing	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C, D	OCS	Parent Component: CYS RESID: AA0556 PSI-MOD : L-cysteic acid (L-cysteine sulfonic acid) MOD:00460

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 R01GM133198.