6XNK | pdb_00006xnk

Crystal structure of dimeric K72A human cytochrome c alkaline conformer

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth G]	d6xnkg_	All alpha proteins	Cytochrome c	Cytochrome c	monodomain cytochrome c	Mitochondrial cytochrome c	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth E]	d6xnke_	All alpha proteins	Cytochrome c	Cytochrome c	monodomain cytochrome c	Mitochondrial cytochrome c	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth C]	d6xnkc_	All alpha proteins	Cytochrome c	Cytochrome c	monodomain cytochrome c	Mitochondrial cytochrome c	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d6xnka_	All alpha proteins	Cytochrome c	Cytochrome c	monodomain cytochrome c	Mitochondrial cytochrome c	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth G]	SCOP2B Superfamily	Cytochrome c	8037907	3000815	SCOP2B (2022-06-29)
C [auth E]	SCOP2B Superfamily	Cytochrome c	8037907	3000815	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	Cytochrome c	8037907	3000815	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Cytochrome c	8037907	3000815	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)
D [auth G]	RNA_pol_Rpb1_5	e6xnkG1	A: a/b three-layered sandwiches	X: CNF1/YfiH-like putative cysteine hydrolases	H: Bromodomain	T: Bromodomain	F: RNA_pol_Rpb1_5	ECOD (v294.1)
C [auth E]	RNA_pol_Rpb1_5	e6xnkE1	A: a/b three-layered sandwiches	X: CNF1/YfiH-like putative cysteine hydrolases	H: Bromodomain	T: Bromodomain	F: RNA_pol_Rpb1_5	ECOD (v294.1)
B [auth C]	RNA_pol_Rpb1_5	e6xnkC1	A: a/b three-layered sandwiches	X: CNF1/YfiH-like putative cysteine hydrolases	H: Bromodomain	T: Bromodomain	F: RNA_pol_Rpb1_5	ECOD (v294.1)
A	RNA_pol_Rpb1_5	e6xnkA1	A: a/b three-layered sandwiches	X: CNF1/YfiH-like putative cysteine hydrolases	H: Bromodomain	T: Bromodomain	F: RNA_pol_Rpb1_5	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth G]	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, domain 2	CATH (utative)
C [auth E]	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, domain 2	CATH (utative)
B [auth C]	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, domain 2	CATH (utative)
A	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, domain 2	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C], C [auth E], D [auth G]	PF00034	Cytochrome c (Cytochrom_C)	Cytochrome c	The Pfam entry does not include all Prosite members. The cytochrome 556 and cytochrome c' families are not included. All these are now in a new clan together. The C-terminus of DUF989, Pfam:PF06181, has now been merged into this family.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], C [auth E], D [auth G]	Cytochrome c	binding tetrapyrrole binding heme binding electron transfer activity cation binding ion binding metal ion binding small molecule binding	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport mitochondrial electron transport, ubiquinol to cytochrome c aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport mitochondrial electron transport, ubiquinol to cytochrome c cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell death intracellular signal transduction cell communication apoptotic signaling pathway signal transduction apoptotic process intrinsic apoptotic signaling pathway programmed cell death execution phase of apoptosis	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 protein-containing complex apoptosome cytosol mitochondrial intermembrane space membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle lumen nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth E], D [auth G]	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR009056	Cytochrome c-like domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR002327	Cytochrome c, class IA/ IB	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B [auth C], C [auth E], D [auth G]	Pharos: P99999	thrombocytopenia thrombocytopenia 4 methylmalonic acidemia obesity disorder brain ischemia Chloracne transient ischemic attack hepatocellular carcinoma ulcerative colitis liver disease malignant ependymoma adenoma atypical teratoid rhabdoid tumor pancreatic intraductal papillary-mucinous neoplasm breast disease thrombocytopenia thrombocytopenia 4 methylmalonic acidemia obesity disorder brain ischemia Chloracne transient ischemic attack hepatocellular carcinoma ulcerative colitis liver disease malignant ependymoma adenoma atypical teratoid rhabdoid tumor pancreatic intraductal papillary-mucinous neoplasm breast disease pilocytic astrocytoma congenital anemia toxic encephalopathy glioblastoma inborn carbohydrate metabolic disorder ischemic disease lung disease malignant glioma Alzheimer disease oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia cancer cerebrovascular disorder hematologic disease invasive ductal breast carcinoma large cell medulloblastoma lymphatic system disease medulloblastoma neurodegenerative disease astrocytic tumor osteosarcoma Pick disease psoriasis fatty liver disease

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.