7ADP | pdb_00007adp

Cryo-EM structure of human ER membrane protein complex in GDN detergent

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	EMC6/GET2-like	8101858	3002721	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)
G [auth H]	F_UNCLASSIFIED	e7adpH1	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: F_UNCLASSIFIED	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF07774	ER membrane protein complex subunit 1, C-terminal (EMC1_C)	ER membrane protein complex subunit 1, C-terminal	This is the C-terminal domain of ER membrane protein complex subunit 1. ER membrane protein complex subunit 1 is a component of the ER membrane protein complex (EMC, composed of EMC1, EMC2, EMC3, EMC4, EMC5 and EMC6). In Saccharomyces cerevisiae, the ...	This is the C-terminal domain of ER membrane protein complex subunit 1. ER membrane protein complex subunit 1 is a component of the ER membrane protein complex (EMC, composed of EMC1, EMC2, EMC3, EMC4, EMC5 and EMC6). In Saccharomyces cerevisiae, the EMC seems to be required for efficient folding of proteins in the endoplasmic reticulum (ER) [1].	Domain
B	PF22890	EMC2 TPR-like repeat domain (TPR_EMC2)	EMC2 TPR-like repeat domain	-	Repeat
C	PF01956	Integral membrane protein EMC3/TMCO1-like (EMC3_TMCO1)	Integral membrane protein EMC3/TMCO1-like	-	Family
E	PF10270	Membrane magnesium transporter (MMgT)	Membrane magnesium transporter	-	Family
F	PF07019	EMC6 (EMC6)	EMC6	-	Family
H [auth I]	PF21203	ER membrane protein complex subunit 10 (ECM10)	ER membrane protein complex subunit 10	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	ER membrane protein complex subunit 1	-	protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular component organization or biogenesis protein insertion into membrane protein insertion into ER membrane endomembrane system organization protein insertion into ER membrane by stop-transfer membrane-anchor sequence	membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane
B	ER membrane protein complex subunit 2	-	protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular component organization or biogenesis protein insertion into membrane protein insertion into ER membrane endomembrane system organization protein insertion into ER membrane by stop-transfer membrane-anchor sequence	membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane extrinsic component of organelle membrane extrinsic component of endoplasmic reticulum membrane extrinsic component of membrane
C	ER membrane protein complex subunit 3	-	protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular component organization or biogenesis protein insertion into membrane protein insertion into ER membrane endomembrane system organization protein insertion into ER membrane by stop-transfer membrane-anchor sequence	membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane
D	ER membrane protein complex subunit 4	-	protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular component organization or biogenesis protein insertion into membrane protein insertion into ER membrane endomembrane system organization apoptotic process cell death programmed cell death protein insertion into ER membrane by stop-transfer membrane-anchor sequence	membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane
E	Membrane magnesium transporter 1	cobalt ion 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 transmembrane transporter activity iron ion transmembrane transporter activity ferrous iron transmembrane transporter activity magnesium ion transmembrane transporter activity	protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane protein insertion into ER membrane by stop-transfer membrane-anchor sequence localization within membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane protein insertion into ER membrane by stop-transfer membrane-anchor sequence localization within membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular component organization or biogenesis protein insertion into membrane protein insertion into ER membrane endomembrane system organization transport copper ion transport transition metal ion transport monoatomic ion transport monoatomic cation transport metal ion transport magnesium ion transport tail-anchored membrane protein insertion into ER membrane	membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle membrane membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle membrane Golgi apparatus Golgi membrane bounding membrane of organelle organelle membrane endosome membrane early endosome membrane cytoplasmic vesicle membrane vesicle membrane cell periphery plasma membrane protein-containing complex EMC complex organelle subcompartment membrane protein complex endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane
F	ER membrane protein complex subunit 6	-	protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular component organization or biogenesis protein insertion into membrane protein insertion into ER membrane endomembrane system organization protein insertion into ER membrane by stop-transfer membrane-anchor sequence autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization cellular component biogenesis cellular component assembly metabolic process process utilizing autophagic mechanism	membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane omegasome membrane omegasome bounding membrane of organelle
G [auth H]	ER membrane protein complex subunit 8	-	protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular component organization or biogenesis protein insertion into membrane protein insertion into ER membrane endomembrane system organization protein insertion into ER membrane by stop-transfer membrane-anchor sequence	membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane Golgi apparatus
H [auth I]	ER membrane protein complex subunit 10	-	protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization protein localization membrane organization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane tail-anchored membrane protein insertion into ER membrane protein localization to membrane endoplasmic reticulum organization establishment of localization cellular component organization localization organelle organization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular component organization or biogenesis protein insertion into membrane protein insertion into ER membrane endomembrane system organization positive regulation of locomotion regulation of biological process regulation of cell motility regulation of cellular process endothelial cell migration biological regulation positive regulation of biological process positive regulation of cell migration regulation of locomotion positive regulation of endothelial cell migration positive regulation of cell motility regulation of cell migration regulation of endothelial cell migration cell migration cell motility locomotion positive regulation of cellular process cell population proliferation positive regulation of cell population proliferation endothelial cell proliferation positive regulation of epithelial cell proliferation regulation of endothelial cell proliferation regulation of cell population proliferation positive regulation of endothelial cell proliferation regulation of epithelial cell proliferation epithelial cell proliferation protein insertion into ER membrane by stop-transfer membrane-anchor sequence developmental process multicellular organismal process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development blood vessel development system development regulation of developmental process regulation of vasculature development positive regulation of developmental process regulation of multicellular organismal process regulation of anatomical structure morphogenesis regulation of multicellular organismal development positive regulation of angiogenesis positive regulation of vasculature development regulation of angiogenesis positive regulation of multicellular organismal process	membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network membrane-bounded organelle protein-containing complex intracellular anatomical structure EMC complex organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR011047	Quinoprotein alcohol dehydrogenase-like superfamily	Homologous Superfamily
A	IPR011678	ER membrane protein complex subunit 1, C-terminal	Domain
A	IPR002372	Pyrrolo-quinoline quinone repeat	Repeat
A	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A	IPR026895	ER membrane protein complex subunit 1	Family
B	IPR039856	ER membrane protein complex subunit 2-like	Family
B	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
B	IPR055217	EMC2, TPR-like domain	Domain
B	IPR019734	Tetratricopeptide repeat	Repeat
C	IPR008568	ER membrane protein complex subunit 3	Family
C	IPR002809	Integral membrane protein EMC3/TMCO1-like	Family
D	IPR009445	ER membrane protein complex subunit 4	Family
E	IPR018937	Membrane magnesium transporter	Family
F	IPR008504	ER membrane protein complex subunit 6	Family
F	IPR029008	ER membrane protein complex subunit 6-like	Family
G [auth H]	IPR037518	MPN domain	Domain
G [auth H]	IPR005366	ER membrane protein complex subunit 8/9	Family
H [auth I]	IPR051754	Chrom_ER_Complex_Protein	Unknown

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q8N766	cerebellar atrophy, visual impairment, and psychomotor retardation; astrocytic tumor glioblastoma malignant ependymoma neurodegenerative disease osteosarcoma large cell medulloblastoma malignant mesothelioma non-small cell lung carcinoma ovarian cancer diabetes mellitus lung cancer medulloblastoma oligodendroglioma psoriasis
B	Pharos: Q15006	androgenetic alopecia large cell medulloblastoma ovarian cancer dermatomyositis lung cancer progressive supranuclear palsy Down syndrome medulloblastoma
C	Pharos: Q9P0I2	astrocytic tumor glioblastoma malignant glioma osteosarcoma plasma cell myeloma atypical teratoid rhabdoid tumor large cell medulloblastoma medulloblastoma ovarian cancer primitive neuroectodermal tumor breast cancer malignant ependymoma oligodendroglioma pancreatic ductal adenocarcinoma
D	Pharos: Q5J8M3	breast cancer breast carcinoma ovarian cancer
E	Pharos: Q8N4V1	ovarian cancer
F	Pharos: Q9BV81	ovarian cancer
G [auth H]	Pharos: O43402	B-cell chronic lymphocytic leukemia ovarian cancer breast cancer Sjogren syndrome lung cancer
H [auth I]	Pharos: Q5UCC4	atypical teratoid rhabdoid tumor malignant ependymoma primary biliary cholangitis glioblastoma osteosarcoma psoriasis lung carcinoma pilocytic astrocytoma

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 [auth H], H [auth I]	OPM				ER membrane protein insertion complex

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

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

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 [auth H], H [auth I]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Sec, Translocase, and Insertase Proteins	ER membrane protein complex (EMC) in GDN detergent

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.