8F6H | pdb_00008f6h

Cryo-EM structure of a Zinc-loaded asymmetrical TMD D70A mutant of the YiiP-Fab complex

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	V-set_8	e8f6hF1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
F	C1-set_1	e8f6hF2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
D	V-set_8	e8f6hD2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
D	C1-set_1	e8f6hD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
E	C1-set_4	e8f6hE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
E	V-set	e8f6hE2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
C	C1-set_4	e8f6hC2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
C	V-set	e8f6hC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
B	Cation_efflux	e8f6hB1	A: alpha bundles	X: Cation efflux protein transmembrane domain-like (From Topology)	H: Cation efflux protein transmembrane domain-like (From Topology)	T: Cation efflux protein transmembrane domain-like	F: Cation_efflux	ECOD (1.6)
B	ZT_dimer	e8f6hB2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Cation efflux protein cytoplasmic domain-like (From Topology)	T: Cation efflux protein cytoplasmic domain-like	F: ZT_dimer	ECOD (1.6)
A	Cation_efflux	e8f6hA1	A: alpha bundles	X: Cation efflux protein transmembrane domain-like (From Topology)	H: Cation efflux protein transmembrane domain-like (From Topology)	T: Cation efflux protein transmembrane domain-like	F: Cation_efflux	ECOD (1.6)
A	ZT_dimer	e8f6hA2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Cation efflux protein cytoplasmic domain-like (From Topology)	T: Cation efflux protein cytoplasmic domain-like	F: ZT_dimer	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
E	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B	1.20.1510.10	Mainly Alpha	Up-down Bundle	Alpha-lytic protease prodomain-like	Cation efflux protein transmembrane domain	CATH (utative)
B	3.30.70.1350	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Cation efflux protein, cytoplasmic domain	CATH (utative)
A	1.20.1510.10	Mainly Alpha	Up-down Bundle	Alpha-lytic protease prodomain-like	Cation efflux protein transmembrane domain	CATH (utative)
A	3.30.70.1350	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Cation efflux protein, cytoplasmic domain	CATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
D, F	Heavy Chain	IGHV3	-	cadmium and zinc efflux pump fief	SAbDab (2025-10-03)
C, E	Light Chain	IGKV1	Kappa	cadmium and zinc efflux pump fief	SAbDab (2025-10-03)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF16916	Dimerisation domain of Zinc Transporter (ZT_dimer)	Dimerisation domain of Zinc Transporter	ZT_dimer is the dimerisation region of the whole molecule of zinc transporters since the full-length members form a homodimer during activity. The domain lies within the cytoplasm and exhibits an overall structural similarity with the copper metalloc ...	ZT_dimer is the dimerisation region of the whole molecule of zinc transporters since the full-length members form a homodimer during activity. The domain lies within the cytoplasm and exhibits an overall structural similarity with the copper metallochaperone Hah1 UniProtKB:O00244, exhibiting an open alpha-beta domain with two alpha helices (H1 and H2) aligned on one side and a three-stranded mixed beta-sheet (S1 to S3) on the other side. The N-terminal part of the members is the Cation_efflux family, Pfam:PF01545 [1].	Domain
A, B	PF01545	Cation efflux family (Cation_efflux)	Cation efflux family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, F	Fab2r heavy chain	-	-	-
C, E	Fab2r light chain	-	-	-
A, B	Cadmium and zinc efflux pump FieF	monoatomic cation transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transition metal ion transmembrane transporter activity metal ion transmembrane transporter activity cadmium ion transmembrane transporter activity transmembrane transporter activity zinc ion transmembrane transporter activity metal cation:monoatomic cation antiporter activity proton transmembrane transporter activity zinc efflux antiporter activity secondary active transmembrane transporter activity monoatomic cation transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transition metal ion transmembrane transporter activity metal ion transmembrane transporter activity cadmium ion transmembrane transporter activity transmembrane transporter activity zinc ion transmembrane transporter activity metal cation:monoatomic cation antiporter activity proton transmembrane transporter activity zinc efflux antiporter activity secondary active transmembrane transporter activity antiporter activity zinc:proton antiporter activity metal cation:proton antiporter activity active transmembrane transporter activity iron ion transmembrane transporter activity ferrous iron transmembrane transporter activity cation binding ion binding binding metal ion binding small molecule binding	inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis intracellular zinc ion homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR002524	Cation efflux protein	Family
A, B	IPR027470	Cation efflux protein, cytoplasmic domain	Domain
A, B	IPR036837	Cation efflux protein, cytoplasmic domain superfamily	Homologous Superfamily
A, B	IPR050291	Cation Diffusion Facilitator Transporter	Family
A, B	IPR027469	Cation efflux transmembrane domain superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B	OPM	Transmembrane	Alpha-helical polytopic	Cation diffusion facilitator	Bacterial zinc transporters

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B	PDBTM	Annotated as membrane protein by PDBTM

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.