6FNP | pdb_00006fnp

Crystal structure of ECF-CbrT, a cobalamin transporter

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H	CbiQ	e6fnpH1	A: alpha complex topology	X: T-component of energy-coupling factor (ECF) transporters (From Topology)	H: T-component of energy-coupling factor (ECF) transporters (From Topology)	T: T-component of energy-coupling factor (ECF) transporters	F: CbiQ	ECOD (1.6)
D	CbiQ	e6fnpD1	A: alpha complex topology	X: T-component of energy-coupling factor (ECF) transporters (From Topology)	H: T-component of energy-coupling factor (ECF) transporters (From Topology)	T: T-component of energy-coupling factor (ECF) transporters	F: CbiQ	ECOD (1.6)
G	ABC_tran	e6fnpG1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: ABC_tran	ECOD (1.6)
C	ABC_tran	e6fnpC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: ABC_tran	ECOD (1.6)
F	ABC_tran	e6fnpF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: ABC_tran	ECOD (1.6)
B	ABC_tran	e6fnpB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: ABC_tran	ECOD (1.6)
E	ECF-ribofla_trS	e6fnpE1	A: alpha bundles	X: Spectrin repeat-like	H: S-component of energy-coupling factor (ECF) transporters (From Topology)	T: S-component of energy-coupling factor (ECF) transporters	F: ECF-ribofla_trS	ECOD (1.6)
A	ECF-ribofla_trS	e6fnpA1	A: alpha bundles	X: Spectrin repeat-like	H: S-component of energy-coupling factor (ECF) transporters (From Topology)	T: S-component of energy-coupling factor (ECF) transporters	F: ECF-ribofla_trS	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
G	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
F	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D, H	PF02361	Cobalt transport protein (CbiQ)	Cobalt transport protein	-	Family
C, G	PF00005	ABC transporter (ABC_tran)	ABC transporter	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are comp ...	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain Pfam:PF00664. These four domains may belong to a single polypeptide as in Swiss:P13569, or belong in different polypeptide chains.	Domain
B, F	PF00005	ABC transporter (ABC_tran)	ABC transporter	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are comp ...	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain Pfam:PF00664. These four domains may belong to a single polypeptide as in Swiss:P13569, or belong in different polypeptide chains.	Domain
A, E	PF12822	ECF transporter, substrate-specific component (ECF_trnsprt)	ECF transporter, substrate-specific component	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, H	Energy-coupling factor transporter transmembrane protein EcfT	transporter activity transmembrane transporter activity	-	cell periphery cellular anatomical structure plasma membrane membrane
C, G	Energy-coupling factor transporter ATP-binding protein EcfA2	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	-	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
B, F	Energy-coupling factor transporter ATP-binding protein EcfA1	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	-	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, E	Membrane protein	transporter activity transmembrane transporter activity	-	cellular anatomical structure membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D, H	IPR024919	ECF transporter transmembrane protein EcfT	Family
D, H	IPR003339	ABC/ECF transporter, transmembrane component	Family
C, G	IPR050095	Energy-coupling factor transporter ATP-binding	Family
C, G	IPR030946	Energy-coupling factor transporter ATP-binding protein EcfA2	Family
C, G	IPR003593	AAA+ ATPase domain	Domain
C, G	IPR017871	ABC transporter-like, conserved site	Conserved Site
C, G	IPR015856	ABC transporter, CbiO/EcfA subunit	Domain
C, G	IPR003439	ABC transporter-like, ATP-binding domain	Domain
C, G	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B, F	IPR050095	Energy-coupling factor transporter ATP-binding	Family
B, F	IPR003593	AAA+ ATPase domain	Domain
B, F	IPR017871	ABC transporter-like, conserved site	Conserved Site
B, F	IPR015856	ABC transporter, CbiO/EcfA subunit	Domain
B, F	IPR003439	ABC transporter-like, ATP-binding domain	Domain
B, F	IPR030947	Energy-coupling factor transporter ATP-binding protein EcfA1	Family
B, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, E	IPR024529	ECF transporter, substrate-specific component	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D, E A, B, C, D, E, F, G, H	OPM	Transmembrane	Alpha-helical polytopic	Energy-coupling factor transporters	Energy-coupling factor transporters

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G, H	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D, E A, B, C, D, E, F, G, H	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Energy-Coupling Factor (ECF) Transporters	Group II energy-coupling factor (ECF) transporter for vitamin B12, apo inward-facing state

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.