6HA7

Crystal structure of the BiP NBD and MANF complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6ha7a1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	Chinese hamster (Cricetulus griseus ) [TaxId: 10029 ],	SCOPe (2.08)
A	d6ha7a3	Artifacts	Tags	Tags	Tags	N-terminal Tags	Chinese hamster (Cricetulus griseus ) [TaxId: 10029 ],	SCOPe (2.08)
C [auth B]	d6ha7b1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	Chinese hamster (Cricetulus griseus ) [TaxId: 10029 ],	SCOPe (2.08)
C [auth B]	d6ha7b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	Chinese hamster (Cricetulus griseus ) [TaxId: 10029 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth C]	SCOP2B Superfamily	SAP domain	8055684	3001760	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	Saposin	8055686	3000601	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Saposin	8055686	3000601	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	SAP domain	8055684	3001760	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)
A	PF00012	e6ha7A2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00012	ECOD (1.6)
C [auth B]	PF00012	e6ha7B1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00012	ECOD (1.6)
B [auth C]	PF10208	e6ha7C1	A: alpha arrays	X: LEM/SAP HeH motif-like	H: LEM/SAP HeH motif	T: LEM/SAP HeH motif	F: PF10208	ECOD (1.6)
B [auth C]	PF20145	e6ha7C2	A: alpha arrays	X: Saposin-like	H: Saposin-like (From Topology)	T: Saposin-like	F: PF20145	ECOD (1.6)
D	PF10208	e6ha7D1	A: alpha arrays	X: LEM/SAP HeH motif-like	H: LEM/SAP HeH motif	T: LEM/SAP HeH motif	F: PF10208	ECOD (1.6)
D	PF20145	e6ha7D2	A: alpha arrays	X: Saposin-like	H: Saposin-like (From Topology)	T: Saposin-like	F: PF20145	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
A	3.30.30.30	Alpha Beta	2-Layer Sandwich	Defensin A-like		CATH (utative)
A	3.90.640.10	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (utative)
C [auth B]	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
C [auth B]	3.30.30.30	Alpha Beta	2-Layer Sandwich	Defensin A-like		CATH (utative)
C [auth B]	3.90.640.10	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B]	PF00012	Hsp70 protein (HSP70)	Hsp70 protein	-	Family
B [auth C], D	PF20145	ARMET, N-terminal (ARMET_N)	ARMET, N-terminal	This is the N-terminal domain of ARMET proteins (also known as mesencephalic astrocyte-derived neurotrophic factor (MANF) or arginine-rich protein) [1,2,3], a saposin-like domain consisting of five alpha-helices with three cystein bridges that stabil ...	This is the N-terminal domain of ARMET proteins (also known as mesencephalic astrocyte-derived neurotrophic factor (MANF) or arginine-rich protein) [1,2,3], a saposin-like domain consisting of five alpha-helices with three cystein bridges that stabilises the globular "closed leaf" conformation [2,3]. ARMET is a small protein of approximately 170 residues which contain four di-sulfide bridges that are highly conserved from nematodes to humans. It is a soluble protein resident in the endoplasmic reticulum and induced by ER stress. It appears to be involved with dealing with mis-folded proteins in the ER, thus in quality control of ER stress [1].	Domain
B [auth C], D	PF10208	ARMET, C-terminal (ARMET_C)	ARMET, C-terminal	This is the C-terminal domain of ARMET (also known as mesencephalic astrocyte-derived neurotrophic factor (MANF) or arginine-rich protein) [1,2,3]. This domain is well conserved among Armet family proteins whose structure is composed of a basic-helix ...	This is the C-terminal domain of ARMET (also known as mesencephalic astrocyte-derived neurotrophic factor (MANF) or arginine-rich protein) [1,2,3]. This domain is well conserved among Armet family proteins whose structure is composed of a basic-helix-loop-helix (bHLH) motif [2,3]. ARMET is a small protein of approximately 170 residues. It is soluble protein resident in the endoplasmic reticulum and induced by ER stress. It appears to be involved with dealing with mis-folded proteins in the ER, thus in quality control of ER stress [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth B]	Endoplasmic reticulum chaperone BiP	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound 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 ATP-dependent activity ATP-dependent protein folding chaperone protein folding chaperone	negative regulation of hydrolase activity regulation of cellular process negative regulation of proteolysis regulation of catalytic activity negative regulation of biological process negative regulation of catalytic activity regulation of programmed cell death negative regulation of endopeptidase activity regulation of primary metabolic process negative regulation of peptidase activity regulation of cysteine-type endopeptidase activity involved in apoptotic process organic substance metabolic process regulation of proteolysis proteolysis regulation of endopeptidase activity negative regulation of hydrolase activity regulation of cellular process negative regulation of proteolysis regulation of catalytic activity negative regulation of biological process negative regulation of catalytic activity regulation of programmed cell death negative regulation of endopeptidase activity regulation of primary metabolic process negative regulation of peptidase activity regulation of cysteine-type endopeptidase activity involved in apoptotic process organic substance metabolic process regulation of proteolysis proteolysis regulation of endopeptidase activity negative regulation of cellular process negative regulation of cysteine-type endopeptidase activity involved in apoptotic process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of cysteine-type endopeptidase activity regulation of biological process organonitrogen compound metabolic process negative regulation of programmed cell death regulation of protein metabolic process regulation of apoptotic process negative regulation of metabolic process regulation of peptidase activity biological regulation negative regulation of molecular function primary metabolic process regulation of macromolecule metabolic process cell death regulation of molecular function negative regulation of apoptotic process regulation of hydrolase activity negative regulation of cysteine-type endopeptidase activity metabolic process cellular process macromolecule metabolic process apoptotic process regulation of metabolic process programmed cell death cellular response to stimulus response to organic substance response to stimulus signaling negative regulation of signaling regulation of cellular response to stress endoplasmic reticulum unfolded protein response regulation of response to endoplasmic reticulum stress regulation of signal transduction negative regulation of cell communication cell communication regulation of endoplasmic reticulum unfolded protein response cellular response to stress response to stress regulation of response to stress signal transduction cellular response to organic substance negative regulation of IRE1-mediated unfolded protein response response to endoplasmic reticulum stress regulation of IRE1-mediated unfolded protein response negative regulation of endoplasmic reticulum unfolded protein response negative regulation of response to endoplasmic reticulum stress regulation of signaling cellular response to topologically incorrect protein negative regulation of response to stimulus cellular response to unfolded protein response to unfolded protein negative regulation of signal transduction cellular response to chemical stimulus regulation of response to stimulus response to chemical response to topologically incorrect protein IRE1-mediated unfolded protein response regulation of cell communication regulation of cellular component organization negative regulation of cellular component organization protein-containing complex organization regulation of cellular component biogenesis negative regulation of protein-containing complex assembly cellular component organization cellular component biogenesis regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly cellular component organization or biogenesis protein localization establishment of protein localization cellular localization nitrogen compound transport transport protein targeting localization protein transmembrane transport cellular macromolecule localization establishment of localization in cell post-translational protein targeting to membrane, translocation establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum establishment of protein localization to membrane intracellular protein transmembrane transport organic substance transport intracellular transport post-translational protein targeting to endoplasmic reticulum membrane localization within membrane protein localization to membrane establishment of localization protein targeting to membrane transmembrane transport establishment of protein localization to organelle protein transport macromolecule localization protein localization to organelle intracellular protein transport protein targeting to ER	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle pigment granule intracellular vesicle melanosome cytoplasmic vesicle vesicle membrane-enclosed lumen membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle pigment granule intracellular vesicle melanosome cytoplasmic vesicle vesicle membrane-enclosed lumen endomembrane system intracellular organelle lumen endoplasmic reticulum lumen organelle lumen endoplasmic reticulum cell surface cytosol perinuclear region of cytoplasm organelle subcompartment membrane endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network organelle membrane endoplasmic reticulum membrane
B [auth C], D	Mesencephalic astrocyte-derived neurotrophic factor	protein binding binding molecular function activator activity signaling receptor binding molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity lipid binding sulfatide binding glycolipid binding carbohydrate derivative binding	regulation of tube diameter multicellular organismal process positive regulation of systemic arterial blood pressure system process regulation of systemic arterial blood pressure by ischemic conditions nervous system process regulation of blood pressure regulation of tube size biological regulation positive regulation of blood pressure vasoconstriction of artery involved in ischemic response to lowering of systemic arterial blood pressure regulation of systemic arterial blood pressure circulatory system process vascular process in circulatory system regulation of tube diameter multicellular organismal process positive regulation of systemic arterial blood pressure system process regulation of systemic arterial blood pressure by ischemic conditions nervous system process regulation of blood pressure regulation of tube size biological regulation positive regulation of blood pressure vasoconstriction of artery involved in ischemic response to lowering of systemic arterial blood pressure regulation of systemic arterial blood pressure circulatory system process vascular process in circulatory system regulation of biological quality blood vessel diameter maintenance nervous system process involved in regulation of systemic arterial blood pressure blood circulation vasoconstriction regulation of anatomical structure size response to organic substance response to stimulus response to topologically incorrect protein response to chemical response to stress response to unfolded protein cellular response to stimulus regulation of biological process regulation of cellular process regulation of cellular response to stress regulation of response to endoplasmic reticulum stress cellular response to stress regulation of response to stimulus regulation of response to stress cellular process response to endoplasmic reticulum stress developmental process dopaminergic neuron differentiation cellular developmental process nervous system development generation of neurons neurogenesis multicellular organism development neuron differentiation cell differentiation anatomical structure development system development plasma membrane bounded cell projection organization cell projection organization cell development neuron projection development cellular component organization neuron development cellular component organization or biogenesis	membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen endoplasmic reticulum lumen intracellular organelle organelle lumen organelle endoplasmic reticulum cytoplasm perinuclear region of cytoplasm membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen endoplasmic reticulum lumen intracellular organelle organelle lumen organelle endoplasmic reticulum cytoplasm perinuclear region of cytoplasm sarcoplasmic reticulum lumen sarcoplasm sarcoplasmic reticulum extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B]	IPR029048	Heat shock protein 70kD, C-terminal domain superfamily	Homologous Superfamily
A, C [auth B]	IPR018181	Heat shock protein 70, conserved site	Conserved Site
A, C [auth B]	IPR029047	Heat shock protein 70kD, peptide-binding domain superfamily	Homologous Superfamily
A, C [auth B]	IPR043129	ATPase, nucleotide binding domain	Homologous Superfamily
A, C [auth B]	IPR042050	Endoplasmic reticulum chaperone BIP, nucleotide-binding domain	Domain
A, C [auth B]	IPR013126	Heat shock protein 70 family	Family
B [auth C], D	IPR036361	SAP domain superfamily	Homologous Superfamily
B [auth C], D	IPR045333	ARMET-like	Family
B [auth C], D	IPR045332	ARMET, N-terminal	Domain
B [auth C], D	IPR019345	ARMET, C-terminal	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.