Annotations: 7PHQ

Structure of homo-dimeric Staphylococcus capitis divalent metal ion transporter (DMT) by NabFab-fiducial assisted cryo-EM

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
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)
A [auth H]	Ran_BP1	e7phqH1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Ran_BP1	ECOD (v295.2)
F [auth A]	Ran_BP1	e7phqA1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Ran_BP1	ECOD (v295.2)
I [auth E]	Ran_BP1	e7phqE1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Ran_BP1	ECOD (v295.2)
D [auth N]	ABC2_membrane	e7phqN1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: ABC2_membrane	ECOD (v295.2)
E [auth K]	Ran_BP1	e7phqK1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Ran_BP1	ECOD (v295.2)
J [auth F]	Ran_BP1	e7phqF1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Ran_BP1	ECOD (v295.2)
C [auth B]	ABC2_membrane	e7phqB1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: ABC2_membrane	ECOD (v295.2)
H [auth D]	Ran_BP1	e7phqD1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Ran_BP1	ECOD (v295.2)
B [auth L]	Ran_BP1	e7phqL1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Ran_BP1	ECOD (v295.2)
G [auth C]	Ran_BP1	e7phqC1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: Ran_BP1	ECOD (v295.2)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth H], F [auth A]	Heavy Chain	IGHV3	-	-	SAbDab (2026-08-28)
D [auth N], I [auth E]	Heavy Chain	IGHV1	-	divalent metal cation transporter mnth	SAbDab (2026-08-28)
E [auth K], J [auth F]	Heavy Chain	IGHV1	-	-	SAbDab (2026-08-28)
B [auth L], G [auth C]	Light Chain	IGKV1	Kappa	-	SAbDab (2026-08-28)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth H], F [auth A]	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth H], F [auth A]	NabFab HC	protein-containing complex binding protein binding binding signaling receptor binding immunoglobulin receptor binding Fc-gamma receptor I complex binding antigen binding	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity response to stimulus myeloid leukocyte mediated immunity inflammatory response to antigenic stimulus response to stress leukocyte mediated immunity antibody-dependent cellular cytotoxicity acute inflammatory response hypersensitivity defense response immune response leukocyte mediated cytotoxicity acute inflammatory response to antigenic stimulus adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity response to stimulus myeloid leukocyte mediated immunity inflammatory response to antigenic stimulus response to stress leukocyte mediated immunity antibody-dependent cellular cytotoxicity acute inflammatory response hypersensitivity defense response immune response leukocyte mediated cytotoxicity acute inflammatory response to antigenic stimulus immunoglobulin mediated immune response adaptive immune response immune effector process type II hypersensitivity immune system process type IIa hypersensitivity B cell mediated immunity cellular process inflammatory response cell killing cellular response to stimulus immune response-regulating cell surface receptor signaling pathway regulation of cellular process signaling positive regulation of biological process cell communication positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process regulation of biological process cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway B cell receptor signaling pathway biological regulation regulation of response to stimulus regulation of immune response antigen receptor-mediated signaling pathway activation of immune response humoral immune response complement activation humoral immune response mediated by circulating immunoglobulin complement activation, classical pathway complement-dependent cytotoxicity biological process involved in interspecies interaction between organisms response to other organism antibacterial humoral response defense response to symbiont response to external stimulus antimicrobial humoral response response to biotic stimulus defense response to bacterium defense response to other organism response to bacterium response to external biotic stimulus	cellular anatomical structure extracellular region blood microparticle protein-containing complex extracellular protein-containing complex immunoglobulin complex, circulating immunoglobulin complex extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle cellular anatomical structure extracellular region blood microparticle protein-containing complex extracellular protein-containing complex immunoglobulin complex, circulating immunoglobulin complex extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle cell periphery plasma membrane membrane
D [auth N], I [auth E]	DMT-Nb16_4	-	-	-
E [auth K], J [auth F]	Anti-Fab nanobody	-	-	-
C [auth B], H [auth D]	Divalent metal cation transporter MntH	monoatomic cation transmembrane transporter activity manganese ion transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transition metal ion transmembrane transporter activity metal ion transmembrane transporter activity transmembrane transporter activity cadmium ion transmembrane transporter activity active transmembrane transporter activity symporter activity secondary active transmembrane transporter activity cation binding ion binding binding monoatomic cation transmembrane transporter activity manganese ion transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transition metal ion transmembrane transporter activity metal ion transmembrane transporter activity transmembrane transporter activity cadmium ion transmembrane transporter activity active transmembrane transporter activity symporter activity secondary active transmembrane transporter activity cation binding ion binding binding metal ion binding small molecule binding	transport monoatomic ion transmembrane transport iron ion transport iron ion transmembrane transport establishment of localization metal ion transport monoatomic cation transmembrane transport transmembrane transport localization transition metal ion transport monoatomic ion transport cellular process monoatomic cation transport	cell periphery cellular anatomical structure plasma membrane membrane
B [auth L], G [auth C]	NabFab LC	-	response to stimulus immune response immune system process adaptive immune response	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex immunoglobulin complex extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth H], F [auth A]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A [auth H], F [auth A]	IPR050380	Immune Recognition and Response Modulators	Family
A [auth H], F [auth A]	IPR003597	Immunoglobulin C1-set	Domain
A [auth H], F [auth A]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A [auth H], F [auth A]	IPR007110	Immunoglobulin-like domain	Domain
A [auth H], F [auth A]	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
C [auth B], H [auth D]	IPR001046	NRAMP family	Family
B [auth L], G [auth C]	IPR003597	Immunoglobulin C1-set	Domain
B [auth L], G [auth C]	IPR050150	Immunoglobulin Variable Light Chain	Family
B [auth L], G [auth C]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B [auth L], G [auth C]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B [auth L], G [auth C]	IPR013106	Immunoglobulin V-set domain	Domain
B [auth L], G [auth C]	IPR003599	Immunoglobulin domain subtype	Domain
B [auth L], G [auth C]	IPR007110	Immunoglobulin-like domain	Domain
B [auth L], G [auth C]	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth H], F [auth A]	: P01857	B-cell chronic lymphocytic leukemia myositis polycystic ovary syndrome plasma cell myeloma plasma cell neoplasm Sclerocystic Ovaries acquired idiopathic inflammatory myopathy lung adenocarcinoma ovarian cancer peripheral neuropathy Sjogren syndrome amyloidosis breast cancer medulloblastoma nasopharyngeal carcinoma B-cell chronic lymphocytic leukemia myositis polycystic ovary syndrome plasma cell myeloma plasma cell neoplasm Sclerocystic Ovaries acquired idiopathic inflammatory myopathy lung adenocarcinoma ovarian cancer peripheral neuropathy Sjogren syndrome amyloidosis breast cancer medulloblastoma nasopharyngeal carcinoma periodontitis interstitial cystitis myeloid neoplasm osteosarcoma peripheral nervous system disease

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth H], B [auth L], C [auth B], F [auth A], G [auth C] A [auth H], B [auth L], C [auth B], F [auth A], G [auth C], H [auth D]	OPM	Transmembrane	Alpha-helical polytopic	APC (Amino acid-Polyamine-organoCation) superfamily	Divalent metal ion transporter (NRAMP)

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

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

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth H], B [auth L], C [auth B], F [auth A], G [auth C] A [auth H], B [auth L], C [auth B], F [auth A], G [auth C], H [auth D]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Solute Carrier (SLC) Transporter Superfamily	divalent metal ion transporter (DMT), monomer

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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.