3GAS

Crystal Structure of Helicobacter pylori Heme Oxygenase Hugz in Complex with Heme

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Pyrid_oxidase_2	e3gasA2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Pyrid_oxidase_2	ECOD (1.6)
A	DUF2470	e3gasA1	A: a+b two layers	X: a+b domain in heme oxygenase (From Topology)	H: a+b domain in heme oxygenase (From Topology)	T: a+b domain in heme oxygenase	F: DUF2470	ECOD (1.6)
B	Pyrid_oxidase_2	e3gasB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Pyrid_oxidase_2	ECOD (1.6)
B	DUF2470	e3gasB2	A: a+b two layers	X: a+b domain in heme oxygenase (From Topology)	H: a+b domain in heme oxygenase (From Topology)	T: a+b domain in heme oxygenase	F: DUF2470	ECOD (1.6)
C	Pyrid_oxidase_2	e3gasC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Pyrid_oxidase_2	ECOD (1.6)
C	DUF2470	e3gasC2	A: a+b two layers	X: a+b domain in heme oxygenase (From Topology)	H: a+b domain in heme oxygenase (From Topology)	T: a+b domain in heme oxygenase	F: DUF2470	ECOD (1.6)
D	Pyrid_oxidase_2	e3gasD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Pyrid_oxidase_2	ECOD (1.6)
D	DUF2470	e3gasD2	A: a+b two layers	X: a+b domain in heme oxygenase (From Topology)	H: a+b domain in heme oxygenase (From Topology)	T: a+b domain in heme oxygenase	F: DUF2470	ECOD (1.6)
E	Pyrid_oxidase_2	e3gasE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Pyrid_oxidase_2	ECOD (1.6)
E	DUF2470	e3gasE2	A: a+b two layers	X: a+b domain in heme oxygenase (From Topology)	H: a+b domain in heme oxygenase (From Topology)	T: a+b domain in heme oxygenase	F: DUF2470	ECOD (1.6)
F	Pyrid_oxidase_2	e3gasF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Pyrid_oxidase_2	ECOD (1.6)
F	DUF2470	e3gasF2	A: a+b two layers	X: a+b domain in heme oxygenase (From Topology)	H: a+b domain in heme oxygenase (From Topology)	T: a+b domain in heme oxygenase	F: DUF2470	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.180.10	Alpha Beta	Alpha-Beta Barrel	Split barrel-like	PNP-oxidase-like	CATH (4.3.0)
A	2.30.110.10	Mainly Beta	Roll	Pnp Oxidase	Chain A	CATH (4.3.0)
B	3.20.180.10	Alpha Beta	Alpha-Beta Barrel	Split barrel-like	PNP-oxidase-like	CATH (4.3.0)
B	2.30.110.10	Mainly Beta	Roll	Pnp Oxidase	Chain A	CATH (4.3.0)
C	3.20.180.10	Alpha Beta	Alpha-Beta Barrel	Split barrel-like	PNP-oxidase-like	CATH (4.3.0)
C	2.30.110.10	Mainly Beta	Roll	Pnp Oxidase	Chain A	CATH (4.3.0)
D	3.20.180.10	Alpha Beta	Alpha-Beta Barrel	Split barrel-like	PNP-oxidase-like	CATH (4.3.0)
D	2.30.110.10	Mainly Beta	Roll	Pnp Oxidase	Chain A	CATH (4.3.0)
E	3.20.180.10	Alpha Beta	Alpha-Beta Barrel	Split barrel-like	PNP-oxidase-like	CATH (4.3.0)
E	2.30.110.10	Mainly Beta	Roll	Pnp Oxidase	Chain A	CATH (4.3.0)
F	3.20.180.10	Alpha Beta	Alpha-Beta Barrel	Split barrel-like	PNP-oxidase-like	CATH (4.3.0)
F	2.30.110.10	Mainly Beta	Roll	Pnp Oxidase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF01243	Pyridoxamine 5'-phosphate oxidase (Putative_PNPOx)	Pyridoxamine 5'-phosphate oxidase	Family of domains with putative PNPOx function. Family members were predicted to encode pyridoxamine 5'-phosphate oxidase, based on sequence similarity. However, there is no experimental data to validate the predicted activity and purified proteins, ...	Family of domains with putative PNPOx function. Family members were predicted to encode pyridoxamine 5'-phosphate oxidase, based on sequence similarity. However, there is no experimental data to validate the predicted activity and purified proteins, such as Swiss:Q06199 and its paralogs, do not possess this activity, nor do they bind to flavin mononucleotide (FMN). To date, the only time functional oxidase activity has been experimentally demonstrated is when the sequences contain both Pfam:PF01243 and Pfam:PF10590. Moreover, some of the family members that contain both domains have been shown to be involved in phenazine biosynthesis. While some molecular function has been experimentally validated for the proteins containing both domains, the role performed by each domain on its own is unknown [1].	Domain
A, B, C, D, E A, B, C, D, E, F	PF10615	Domain of unknown function (DUF2470) (DUF2470)	Domain of unknown function (DUF2470)	This domain is found in a group of putative heme-iron utilisation proteins, such as HugZ. It can also be found in C-terminal of the glutamyl-tRNA reductase-binding (GluTRBP) protein from Arabidopsis [1]. GluTRBP is involved in the regulation of gluta ...	This domain is found in a group of putative heme-iron utilisation proteins, such as HugZ. It can also be found in C-terminal of the glutamyl-tRNA reductase-binding (GluTRBP) protein from Arabidopsis [1]. GluTRBP is involved in the regulation of glutamyl-tRNA reductase (GluTR) which is important for the synthesis and distribution of 5-aminolevulinate, a precursor in heme and chlorophyll biosynthesis [2]. GluTRBP is necessary for efficient photosynthetic electron transport in chloroplasts [3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	heme oxygenase	cation binding ion binding binding metal ion binding small molecule binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR012349	FMN-binding split barrel	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR037119	Haem oxygenase HugZ-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR011576	Pyridoxamine 5'-phosphate oxidase, putative	Domain
A, B, C, D, E A, B, C, D, E, F	IPR019595	Domain of unknown function DUF2470	Domain
A, B, C, D, E A, B, C, D, E, F	IPR026324	Haem oxygenase, HugZ	Family
A, B, C, D, E A, B, C, D, E, F	IPR052019	F420H(2)-dependent biliverdin reductase/Heme oxygenase	Family

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.