7KCM | pdb_00007kcm

Full-length human mitochondrial Hsp90 (TRAP1) in complex with SdhB in the presence of AMP-PNP

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	GHKL (Gyrase, Hsp90, Histidine Kinase, MutL) domain-like	8070970	3000091	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GHKL (Gyrase, Hsp90, Histidine Kinase, MutL) domain-like	8070970	3000091	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)
C	Glyco_hydro_2	e7kcmC1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_hydro_2	ECOD (v294.1)
B	Glyco_transf_41	e7kcmB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_transf_41	ECOD (v294.1)
A	Glyco_transf_41	e7kcmA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_transf_41	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.10.20.30	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Beta-grasp domain	CATH (utative)
B	3.30.565.10	Alpha Beta	2-Layer Sandwich	Heat Shock Protein 90	Histidine kinase-like ATPase, C-terminal domain	CATH (utative)
A	3.30.565.10	Alpha Beta	2-Layer Sandwich	Heat Shock Protein 90	Histidine kinase-like ATPase, C-terminal domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	PF13085	2Fe-2S iron-sulfur cluster binding domain (Fer2_3)	2Fe-2S iron-sulfur cluster binding domain	The 2Fe-2S ferredoxin family have a general core structure consisting of beta(2)-alpha-beta(2) which abeta-grasp type fold. The domain is around one hundred amino acids with four conserved cysteine residues to which the 2Fe-2S cluster is ligated.	Domain
A, B	PF00183	Hsp90 protein (HSP90)	Hsp90 protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial	iron-sulfur cluster binding binding 3 iron, 4 sulfur cluster binding metal cluster binding small molecule binding oxidoreductase activity succinate dehydrogenase activity oxidoreductase activity, acting on the CH-CH group of donors oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor catalytic activity succinate dehydrogenase (quinone) activity 4 iron, 4 sulfur cluster binding electron transfer activity 2 iron, 2 sulfur cluster binding iron-sulfur cluster binding binding 3 iron, 4 sulfur cluster binding metal cluster binding small molecule binding oxidoreductase activity succinate dehydrogenase activity oxidoreductase activity, acting on the CH-CH group of donors oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor catalytic activity succinate dehydrogenase (quinone) activity 4 iron, 4 sulfur cluster binding electron transfer activity 2 iron, 2 sulfur cluster binding quinone binding ubiquinone binding cation binding ion binding metal ion binding	ribose phosphate metabolic process aerobic respiration cellular respiration oxidative phosphorylation ATP metabolic process energy derivation by oxidation of organic compounds ATP biosynthetic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside triphosphate biosynthetic process proton motive force-driven ATP synthesis nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process ribose phosphate metabolic process aerobic respiration cellular respiration oxidative phosphorylation ATP metabolic process energy derivation by oxidation of organic compounds ATP biosynthetic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside triphosphate biosynthetic process proton motive force-driven ATP synthesis nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process purine nucleoside triphosphate biosynthetic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine ribonucleoside triphosphate metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process purine nucleoside triphosphate metabolic process nucleoside triphosphate biosynthetic process primary metabolic process generation of precursor metabolites and energy nucleotide metabolic process nucleobase-containing compound biosynthetic process ribonucleoside triphosphate biosynthetic process purine-containing compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process proton motive force-driven mitochondrial ATP synthesis metabolic process cellular process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process mitochondrial electron transport, succinate to ubiquinone aerobic electron transport chain ATP synthesis coupled electron transport electron transport chain respiratory electron transport chain mitochondrial ATP synthesis coupled electron transport succinate metabolic process oxoacid metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process organic acid metabolic process tricarboxylic acid cycle	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope organelle membrane cell periphery plasma membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen respiratory chain complex protein-containing complex catalytic complex respiratory chain complex II (succinate dehydrogenase) membrane protein complex oxidoreductase complex mitochondrial matrix
A, B	Heat shock protein 75 kDa, mitochondrial	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 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 unfolded protein binding protein binding kinase binding enzyme binding protein kinase 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 RNA binding nucleic acid binding signaling receptor binding cytokine receptor binding tumor necrosis factor receptor superfamily binding tumor necrosis factor receptor binding ATP-dependent protein folding chaperone protein folding chaperone	cellular respiration regulation of biological process regulation of cellular process energy derivation by oxidation of organic compounds negative regulation of cellular respiration negative regulation of metabolic process biological regulation negative regulation of biological process regulation of generation of precursor metabolites and energy generation of precursor metabolites and energy regulation of cellular respiration negative regulation of cellular process metabolic process cellular process cellular respiration regulation of biological process regulation of cellular process energy derivation by oxidation of organic compounds negative regulation of cellular respiration negative regulation of metabolic process biological regulation negative regulation of biological process regulation of generation of precursor metabolites and energy generation of precursor metabolites and energy regulation of cellular respiration negative regulation of cellular process metabolic process cellular process regulation of metabolic process protein folding biosynthetic process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation reactive oxygen species biosynthetic process regulation of biosynthetic process reactive oxygen species metabolic process regulation of reactive oxygen species biosynthetic process negative regulation of reactive oxygen species metabolic process negative regulation of reactive oxygen species biosynthetic process negative regulation of biosynthetic process regulation of reactive oxygen species metabolic process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression translational attenuation regulation of protein metabolic process regulation of macromolecule metabolic process translation regulation of gene expression regulation of translation regulation of macromolecule biosynthetic process cellular response to stimulus regulation of hydrogen peroxide-mediated programmed cell death response to stimulus programmed cell death in response to reactive oxygen species regulation of signal transduction regulation of programmed cell death intracellular signal transduction cell communication negative regulation of apoptotic signaling pathway signal transduction intrinsic apoptotic signaling pathway negative regulation of programmed cell death regulation of apoptotic process cell death cellular response to oxygen-containing compound negative regulation of apoptotic process regulation of response to stimulus response to chemical regulation of apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to oxidative stress regulation of oxidative stress-induced intrinsic apoptotic signaling pathway signaling negative regulation of signaling cellular response to oxidative stress negative regulation of intracellular signal transduction cellular response to chemical stress regulation of intrinsic apoptotic signaling pathway negative regulation of cell communication negative regulation of hydrogen peroxide-mediated programmed cell death cellular response to reactive oxygen species hydrogen peroxide-mediated programmed cell death cellular response to stress regulation of intracellular signal transduction response to stress regulation of signaling negative regulation of response to stimulus response to oxygen-containing compound negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to hydrogen peroxide negative regulation of signal transduction response to reactive oxygen species apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway response to oxidative stress cellular response to chemical stimulus negative regulation of intrinsic apoptotic signaling pathway in response to hydrogen peroxide regulation of cell communication apoptotic process programmed cell death regulation of intrinsic apoptotic signaling pathway in response to hydrogen peroxide	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope organelle membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen mitochondrial matrix mitochondrial intermembrane space organelle envelope lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR001041	2Fe-2S ferredoxin-type iron-sulfur binding domain	Domain
C	IPR006058	2Fe-2S ferredoxin, iron-sulphur binding site	Binding Site
C	IPR004489	Succinate dehydrogenase/fumarate reductase iron-sulphur protein	Family
C	IPR050573	Succinate Dehydrogenase/Fumarate Reductase Iron-Sulfur	Family
C	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
C	IPR012675	Beta-grasp domain superfamily	Homologous Superfamily
C	IPR025192	Succinate dehydogenase/fumarate reductase N-terminal	Domain
C	IPR036010	2Fe-2S ferredoxin-like superfamily	Homologous Superfamily
C	IPR009051	Alpha-helical ferredoxin	Homologous Superfamily
C	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
A, B	IPR020575	Heat shock protein Hsp90, N-terminal	Domain
A, B	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
A, B	IPR037196	HSP90, C-terminal domain	Homologous Superfamily
A, B	IPR003594	Histidine kinase/HSP90-like ATPase domain	Domain
A, B	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
A, B	IPR001404	Heat shock protein Hsp90 family	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	Pharos: P21912	paraganglioma Carney-Stratakis syndrome gastrointestinal stromal tumor phaeochromocytoma Cowden disease paragangliomas 4 Cowden syndrome 2 Pheochromocytoma cancer mitochondrial complex II deficiency, nuclear type 1 neuroendocrine carcinoma rheumatoid arthritis adrenal gland pheochromocytoma ovarian cancer Sjogren syndrome paraganglioma Carney-Stratakis syndrome gastrointestinal stromal tumor phaeochromocytoma Cowden disease paragangliomas 4 Cowden syndrome 2 Pheochromocytoma cancer mitochondrial complex II deficiency, nuclear type 1 neuroendocrine carcinoma rheumatoid arthritis adrenal gland pheochromocytoma ovarian cancer Sjogren syndrome adrenal medulla cancer chronic obstructive pulmonary disease leukodystrophy multiple endocrine neoplasia type 2A pancreatic ductal adenocarcinoma benign neoplasm of adrenal gland Carney triad extra-adrenal sympathetic paraganglioma
A, B	Pharos: Q12931	congenital anomaly of kidney and urinary tract gastric cancer large cell medulloblastoma Mitochondrial Diseases osteoarthritis susceptibility 1 gastric neoplasm lung cancer non-small cell lung carcinoma hereditary diffuse gastric adenocarcinoma osteoarthritis ovarian cancer

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.