5C3F | pdb_00005c3f

Crystal structure of Mcl-1 bound to BID-MM

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
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Bcl-2-like inhibitors of programmed cell death	8083810	3001974	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	Bcl-2	e5c3fA1	A: alpha arrays	X: Toxins' membrane translocation domains	H: Bcl-2 inhibitors of programmed cell death (From Topology)	T: Bcl-2 inhibitors of programmed cell death	F: Bcl-2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.437.10	Mainly Alpha	Orthogonal Bundle	Apoptosis Regulator Bcl-x	Blc2-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00452	Apoptosis regulator proteins, Bcl-2 family (Bcl-2)	Apoptosis regulator proteins, Bcl-2 family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	BID-MM	enzyme regulator activity molecular function regulator activity cysteine-type endopeptidase regulator activity involved in apoptotic process protein binding binding signaling receptor binding cytokine receptor binding tumor necrosis factor receptor superfamily binding death receptor binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding	cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis localization establishment of protein localization establishment of protein localization to organelle protein targeting protein targeting to mitochondrion establishment of protein localization to mitochondrion establishment of localization cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis localization establishment of protein localization establishment of protein localization to organelle protein targeting protein targeting to mitochondrion establishment of protein localization to mitochondrion establishment of localization organelle organization apoptotic mitochondrial changes apoptotic process cell death programmed cell death mitochondrion organization cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication cellular response to stress DNA damage response response to stress signal transduction in response to DNA damage signal transduction multicellular organismal process regulation of leukocyte activation regulation of cell activation lymphocyte activation leukocyte proliferation leukocyte activation T cell activation lymphocyte proliferation regulation of immune system process regulation of multicellular organismal process T cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation cell activation regulation of T cell activation regulation of T cell proliferation regulation of cell population proliferation mononuclear cell proliferation immune system process regulation of mononuclear cell proliferation regulation of lymphocyte activation positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization positive regulation of biological process regulation of release of cytochrome c from mitochondria positive regulation of release of cytochrome c from mitochondria positive regulation of cellular process regulation of organelle organization apoptotic signaling pathway release of cytochrome c from mitochondria regulation of mitochondrion organization positive regulation of cellular component biogenesis regulation of cellular component biogenesis positive regulation of protein-containing complex assembly regulation of protein-containing complex assembly positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death positive regulation of apoptotic process positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction extrinsic apoptotic signaling pathway positive regulation of apoptotic signaling pathway positive regulation of response to stimulus regulation of signaling cell surface receptor signaling pathway positive regulation of extrinsic apoptotic signaling pathway regulation of extrinsic apoptotic signaling pathway regulation of response to stimulus regulation of cell communication regulation of apoptotic signaling pathway positive regulation of signaling regulation of mitochondrial membrane potential positive regulation of mitochondrial membrane potential regulation of biological quality positive regulation of membrane potential regulation of membrane potential extrinsic apoptotic signaling pathway via death domain receptors fibroblast apoptotic process positive regulation of fibroblast apoptotic process regulation of fibroblast apoptotic process regulation of epithelial cell proliferation epithelial cell proliferation hepatocyte apoptotic process epithelial cell apoptotic process neuron apoptotic process regulation of intrinsic apoptotic signaling pathway regulation of intracellular signal transduction intrinsic apoptotic signaling pathway positive regulation of intracellular signal transduction positive regulation of intrinsic apoptotic signaling pathway aerobic respiration cellular respiration oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy respiratory electron transport chain metabolic process mitochondrial ATP synthesis coupled electron transport cellular localization establishment of protein localization to membrane localization within membrane supramolecular fiber organization transport mitochondrial outer membrane permeabilization involved in programmed cell death mitochondrial membrane organization positive regulation of mitochondrial membrane permeability involved in apoptotic process establishment of localization in cell positive regulation of mitochondrial membrane permeability positive regulation of membrane permeability regulation of mitochondrial membrane permeability mitochondrial transport membrane organization intracellular transport regulation of membrane permeability regulation of mitochondrial membrane permeability involved in apoptotic process mitochondrial outer membrane permeabilization negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process regulation of cellular response to stress regulation of intrinsic apoptotic signaling pathway in response to DNA damage negative regulation of cell communication negative regulation of apoptotic signaling pathway regulation of response to stress negative regulation of cellular process intrinsic apoptotic signaling pathway in response to DNA damage negative regulation of response to stimulus negative regulation of programmed cell death negative regulation of signal transduction negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage negative regulation of intrinsic apoptotic signaling pathway negative regulation of apoptotic process regulation of cell cycle phase transition regulation of cell cycle process cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition mitotic cell cycle regulation of mitotic cell cycle phase transition regulation of mitotic cell cycle regulation of G1/S transition of mitotic cell cycle mitotic cell cycle process cell cycle regulation of cell cycle G1/S transition of mitotic cell cycle cell cycle process mitotic cell cycle phase transition	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane cytosol mitochondrial membrane organelle outer membrane organelle envelope bounding membrane of organelle membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane cytosol mitochondrial membrane organelle outer membrane organelle envelope bounding membrane of organelle mitochondrial envelope mitochondrial outer membrane outer membrane organelle membrane
A	Induced myeloid leukemia cell differentiation protein Mcl-1	macromolecule transmembrane transporter activity protein transporter activity protein transmembrane transporter activity transporter activity transmembrane transporter activity protein heterodimerization activity protein binding binding protein dimerization activity death domain binding BH3 domain binding BH domain binding protein domain specific binding passive transmembrane transporter activity macromolecule transmembrane transporter activity protein transporter activity protein transmembrane transporter activity transporter activity transmembrane transporter activity protein heterodimerization activity protein binding binding protein dimerization activity death domain binding BH3 domain binding BH domain binding protein domain specific binding passive transmembrane transporter activity channel activity	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process positive regulation of cell communication intrinsic apoptotic signaling pathway in response to oxidative stress neuron apoptotic process regulation of cellular process positive regulation of signal transduction regulation of oxidative stress-induced intrinsic apoptotic signaling pathway signaling positive regulation of biological process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process positive regulation of cell communication intrinsic apoptotic signaling pathway in response to oxidative stress neuron apoptotic process regulation of cellular process positive regulation of signal transduction regulation of oxidative stress-induced intrinsic apoptotic signaling pathway signaling positive regulation of biological process regulation of signal transduction regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway positive regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway intracellular signal transduction cell communication positive regulation of apoptotic signaling pathway positive regulation of response to stimulus regulation of intracellular signal transduction signal transduction intrinsic apoptotic signaling pathway positive regulation of neuron apoptotic process positive regulation of cellular process regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway regulation of biological process regulation of signaling positive regulation of programmed cell death regulation of apoptotic process biological regulation positive regulation of intracellular signal transduction cell death positive regulation of apoptotic process neuron intrinsic apoptotic signaling pathway in response to oxidative stress apoptotic signaling pathway regulation of response to stimulus positive regulation of oxidative stress-induced intrinsic apoptotic signaling pathway regulation of cell communication positive regulation of intrinsic apoptotic signaling pathway apoptotic process programmed cell death regulation of neuron apoptotic process regulation of apoptotic signaling pathway positive regulation of signaling cellular homeostasis homeostatic process negative regulation of extrinsic apoptotic signaling pathway in absence of ligand signal transduction in absence of ligand negative regulation of signaling negative regulation of biological process negative regulation of cell communication extrinsic apoptotic signaling pathway negative regulation of signal transduction in absence of ligand negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of cellular process extrinsic apoptotic signaling pathway in absence of ligand cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of programmed cell death negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic process regulation of extrinsic apoptotic signaling pathway in absence of ligand organelle fusion cellular component organization organelle organization mitochondrial fusion cellular component organization or biogenesis mitochondrion organization regulation of anoikis negative regulation of anoikis anoikis response to peptide response to chemical response to cytokine developmental process cellular developmental process cell differentiation cell fate determination cell fate commitment intrinsic apoptotic signaling pathway in response to DNA damage negative regulation of catabolic process catabolic process negative regulation of metabolic process autophagy regulation of catabolic process regulation of autophagy negative regulation of autophagy metabolic process process utilizing autophagic mechanism regulation of metabolic process apoptotic mitochondrial changes release of cytochrome c from mitochondria	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane cytosol protein-containing complex Bcl-2 family protein complex nucleus membrane-enclosed lumen membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane cytosol protein-containing complex Bcl-2 family protein complex nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen mitochondrial membrane organelle outer membrane organelle envelope bounding membrane of organelle mitochondrial envelope mitochondrial outer membrane outer membrane organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR036834	Bcl-2-like superfamily	Homologous Superfamily
B	IPR010479	BH3-interacting domain death agonist	Family
B	IPR020728	Apoptosis regulator, Bcl-2, BH3 motif, conserved site	Conserved Site
A	IPR020726	Apoptosis regulator, Bcl-2, BH2 motif, conserved site	Conserved Site
A	IPR036834	Bcl-2-like superfamily	Homologous Superfamily
A	IPR046371	Bcl-2, Bcl-2 homology region 1-3	Domain
A	IPR002475	Bcl2-like	Family
A	IPR026298	Bcl-2 family	Family
A	IPR020717	Apoptosis regulator, Bcl-2, BH1 motif, conserved site	Conserved Site
A	IPR013281	Apoptosis regulator, Mcl-1	Family
A	IPR020728	Apoptosis regulator, Bcl-2, BH3 motif, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: P55957	psoriasis atypical teratoid rhabdoid tumor breast carcinoma gastric cancer hepatocellular carcinoma lung cancer Malignant neoplasm of stomach oligodendroglioma schizophrenia B-cell chronic lymphocytic leukemia Crohn disease gastric carcinoma hereditary diffuse gastric adenocarcinoma malignant colon neoplasm malignant pancreatic neoplasm psoriasis atypical teratoid rhabdoid tumor breast carcinoma gastric cancer hepatocellular carcinoma lung cancer Malignant neoplasm of stomach oligodendroglioma schizophrenia B-cell chronic lymphocytic leukemia Crohn disease gastric carcinoma hereditary diffuse gastric adenocarcinoma malignant colon neoplasm malignant pancreatic neoplasm ovarian cancer tuberculosis bipolar disorder esophageal adenocarcinoma gastric neoplasm malignant mesothelioma medulloblastoma
A	Pharos: Q07820	Barrett esophagus plasma cell myeloma leishmaniasis spindle cell sarcoma primary cutaneous T-cell non-Hodgkin lymphoma sarcoma interstitial lung disease subependymal giant cell astrocytoma lung carcinoma Lymphoma, T-Cell, Cutaneous adenoma myeloid neoplasm osteosarcoma cancer Pick disease Barrett esophagus plasma cell myeloma leishmaniasis spindle cell sarcoma primary cutaneous T-cell non-Hodgkin lymphoma sarcoma interstitial lung disease subependymal giant cell astrocytoma lung carcinoma Lymphoma, T-Cell, Cutaneous adenoma myeloid neoplasm osteosarcoma cancer Pick disease diabetes mellitus gastric cancer plasma cell neoplasm glioblastoma primitive neuroectodermal tumor hereditary spastic paraplegia sinusitis invasive ductal breast carcinoma ulcerative colitis lung benign neoplasm malignant ependymoma malignant pancreatic neoplasm astrocytic tumor non-small cell lung carcinoma ovarian cancer chronic obstructive pulmonary disease Down syndrome pilocytic astrocytoma gastric carcinoma polycystic ovary syndrome granulomatous slack skin disease psoriasis interstitial cystitis large cell medulloblastoma lung cancer lymphatic system disease malignant glioma medulloblastoma atypical teratoid rhabdoid tumor osteoarthritis breast carcinoma pancreatic ductal adenocarcinoma cutaneous lupus erythematosus epithelioid sarcoma Gaucher disease hematologic disease

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	ACE	RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359
B	NLE	Parent Component: LEU RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354

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.