5X41 | pdb_00005x41

3.5A resolution structure of a cobalt energy-coupling factor transporter using LCP method-CbiMQO

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
G [auth E]	SCOP2 Family	CbiM-like	8087395	4006594	SCOP2 (2022-06-29)
G [auth E]	SCOP2 Superfamily	Gx transporter-like	8087396	3002268	SCOP2 (2022-06-29)
C [auth M]	SCOP2B Superfamily	Gx transporter-like	8087396	3002268	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)
H [auth F]	Glyco_hydro_77	e5x41F1	A: a/b three-layered sandwiches	X: HAD domain-like	H: beta-propeller	T: 8-bladed	F: Glyco_hydro_77	ECOD (v294.1)
D [auth Q]	Glyco_hydro_77	e5x41Q1	A: a/b three-layered sandwiches	X: HAD domain-like	H: beta-propeller	T: 8-bladed	F: Glyco_hydro_77	ECOD (v294.1)
G [auth E]	HH_signal	e5x41E1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: beta-helix of amnionless (AMN) extracellular domain	T: beta-helix of amnionless (AMN) extracellular domain	F: HH_signal	ECOD (v294.1)
C [auth M]	HH_signal	e5x41M1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: beta-helix of amnionless (AMN) extracellular domain	T: beta-helix of amnionless (AMN) extracellular domain	F: HH_signal	ECOD (v294.1)
F [auth D]	Glyco_hydro_77	e5x41D1	A: a/b three-layered sandwiches	X: HAD domain-like	H: beta-propeller	T: 8-bladed	F: Glyco_hydro_77	ECOD (v294.1)
E [auth C]	Glyco_hydro_77	e5x41C1	A: a/b three-layered sandwiches	X: HAD domain-like	H: beta-propeller	T: 8-bladed	F: Glyco_hydro_77	ECOD (v294.1)
B	Glyco_hydro_77	e5x41B1	A: a/b three-layered sandwiches	X: HAD domain-like	H: beta-propeller	T: 8-bladed	F: Glyco_hydro_77	ECOD (v294.1)
A	Glyco_hydro_77	e5x41A1	A: a/b three-layered sandwiches	X: HAD domain-like	H: beta-propeller	T: 8-bladed	F: Glyco_hydro_77	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth D]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
E [auth C]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth Q], H [auth F]	Uncharacterized protein CbiQ	-	transport monoatomic ion transmembrane transport establishment of localization metal ion transport cobalt ion transport monoatomic cation transmembrane transport transmembrane transport localization transition metal ion transport monoatomic ion transport cellular process monoatomic cation transport	ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex
C [auth M], G [auth E]	Cobalt transport protein CbiM	cobalt ion transmembrane transporter activity monoatomic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transition metal ion transmembrane transporter activity metal ion transmembrane transporter activity transmembrane transporter activity	cobalamin metabolic process cobalamin biosynthetic process water-soluble vitamin biosynthetic process tetrapyrrole metabolic process small molecule biosynthetic process vitamin biosynthetic process vitamin metabolic process tetrapyrrole biosynthetic process biosynthetic process small molecule metabolic process metabolic process cellular process	ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex
A, B, E [auth C], F [auth D]	Cobalt ABC transporter ATP-binding protein	active transmembrane transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity transporter activity transmembrane transporter activity ATP-dependent activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding active transmembrane transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity transporter activity transmembrane transporter activity ATP-dependent activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	transport monoatomic ion transmembrane transport establishment of localization metal ion transport cobalt ion transport monoatomic cation transmembrane transport transmembrane transport localization transition metal ion transport monoatomic ion transport cellular process monoatomic cation transport	ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth Q], H [auth F]	IPR052770	Cobalt transport CbiQ	Family
D [auth Q], H [auth F]	IPR003339	ABC/ECF transporter, transmembrane component	Family
D [auth Q], H [auth F]	IPR012809	Cobalt ECF transporter T component CbiQ	Family
C [auth M], G [auth E]	IPR002751	Metal transport protein CbiM/NikMN	Family
C [auth M], G [auth E]	IPR018024	Cobalamin (vitamin B12) transport protein CbiM	Family
A, B, E [auth C], F [auth D]	IPR050095	Energy-coupling factor transporter ATP-binding	Family
A, B, E [auth C], F [auth D]	IPR003593	AAA+ ATPase domain	Domain
A, B, E [auth C], F [auth D]	IPR017871	ABC transporter-like, conserved site	Conserved Site
A, B, E [auth C], F [auth D]	IPR015856	ABC transporter, CbiO/EcfA subunit	Domain
A, B, E [auth C], F [auth D]	IPR005876	Cobalt transport protein ATP-binding subunit	Family
A, B, E [auth C], F [auth D]	IPR003439	ABC transporter-like, ATP-binding domain	Domain
A, B, E [auth C], F [auth D]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C [auth M], D [auth Q], E [auth C] A, B, C [auth M], D [auth Q], E [auth C], F [auth D], G [auth E], H [auth F]	OPM	Transmembrane	Alpha-helical polytopic	Energy-coupling factor transporters	Cobalt uptake transporter

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C [auth M], D [auth Q], E [auth C] A, B, C [auth M], D [auth Q], E [auth C], F [auth D], G [auth E], H [auth F]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C [auth M], D [auth Q], E [auth C] A, B, C [auth M], D [auth Q], E [auth C], F [auth D], G [auth E], H [auth F]	MemProtMD	Annotated as membrane protein by MemProtMD

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.