2VEE | pdb_00002vee

Structure of protoglobin from Methanosarcina acetivorans C2A

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)
H	Protoglobin	e2veeH1	A: alpha arrays	X: Globin-like (From Topology)	H: Globin-like (From Topology)	T: Globin-like	F: Protoglobin	ECOD (1.6)
G	Protoglobin	e2veeG1	A: alpha arrays	X: Globin-like (From Topology)	H: Globin-like (From Topology)	T: Globin-like	F: Protoglobin	ECOD (1.6)
F	Protoglobin	e2veeF1	A: alpha arrays	X: Globin-like (From Topology)	H: Globin-like (From Topology)	T: Globin-like	F: Protoglobin	ECOD (1.6)
E	Protoglobin	e2veeE1	A: alpha arrays	X: Globin-like (From Topology)	H: Globin-like (From Topology)	T: Globin-like	F: Protoglobin	ECOD (1.6)
D	Protoglobin	e2veeD1	A: alpha arrays	X: Globin-like (From Topology)	H: Globin-like (From Topology)	T: Globin-like	F: Protoglobin	ECOD (1.6)
C	Protoglobin	e2veeC1	A: alpha arrays	X: Globin-like (From Topology)	H: Globin-like (From Topology)	T: Globin-like	F: Protoglobin	ECOD (1.6)
B	Protoglobin	e2veeB1	A: alpha arrays	X: Globin-like (From Topology)	H: Globin-like (From Topology)	T: Globin-like	F: Protoglobin	ECOD (1.6)
A	Protoglobin	e2veeA1	A: alpha arrays	X: Globin-like (From Topology)	H: Globin-like (From Topology)	T: Globin-like	F: Protoglobin	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
G	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
F	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
E	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
D	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
C	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
B	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
A	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	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, G, H	PF11563	Protoglobin (Protoglobin)	Protoglobin	This family includes protoglobin from Methanosarcina acetivorans C2A. It is also found near the N-terminus of the Haem-based aerotactic transducer HemAT in Bacillus subtilis (Swiss:O07621). It is part of the haemoglobin superfamily. Protoglobin has s ...	This family includes protoglobin from Methanosarcina acetivorans C2A. It is also found near the N-terminus of the Haem-based aerotactic transducer HemAT in Bacillus subtilis (Swiss:O07621). It is part of the haemoglobin superfamily. Protoglobin has specific loops and an amino-terminal extension which leads to the burying of the haem within the matrix of the protein. Protoglobin-specific apolar tunnels allow the access of O2, CO and NO to the haem distal site [1]. In HemAT it acts as an oxygen sensor domain [2]. It can also recognise cyanide (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).	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, G, H	PROTOGLOBIN	oxygen binding binding small molecule binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR044398	Globin-sensor domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR012102	Protoglobin	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR009050	Globin-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR012292	Globin/Protoglobin	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.