4B4S | pdb_00004b4s

Crystal Structure of a pro-survival Bcl-2:Bim BH3 complex

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	BH3 domain	8055788	3002075	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		e4b4sA1	A: Globin-like	X: Globin-like	H: Globin-like	T: YbeY	F:	ECOD (20:10:01)

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	BCL-2-LIKE PROTEIN 11	cytoskeletal protein binding microtubule binding protein binding binding tubulin binding kinase binding enzyme binding protein kinase binding	developmental process multicellular organismal process gonad development reproductive system development reproductive process sex differentiation animal organ development developmental process involved in reproduction male gonad development male sex differentiation multicellular organism development development of primary male sexual characteristics development of primary sexual characteristics anatomical structure development reproductive structure development developmental process multicellular organismal process gonad development reproductive system development reproductive process sex differentiation animal organ development developmental process involved in reproduction male gonad development male sex differentiation multicellular organism development development of primary male sexual characteristics development of primary sexual characteristics anatomical structure development reproductive structure development system development spermatogenesis sexual reproduction multicellular organismal reproductive process male gamete generation gamete generation cellular response to stimulus positive regulation of organelle organization regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization response to stimulus signaling apoptotic mitochondrial changes positive regulation of biological process regulation of release of cytochrome c from mitochondria cell communication cellular component organization positive regulation of release of cytochrome c from mitochondria cellular component organization or biogenesis signal transduction positive regulation of cellular process mitochondrion organization regulation of biological process biological regulation cell death regulation of organelle organization apoptotic signaling pathway release of cytochrome c from mitochondria organelle organization regulation of mitochondrion organization cellular process apoptotic process programmed cell death protein-containing complex organization positive regulation of cellular component biogenesis regulation of cellular component biogenesis cellular component biogenesis positive regulation of protein-containing complex assembly regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death positive regulation of apoptotic process neuron apoptotic process positive regulation of neuron apoptotic process regulation of neuron apoptotic process B cell homeostasis multicellular organismal-level homeostasis leukocyte homeostasis homeostatic process immune system process homeostasis of number of cells lymphocyte homeostasis mammary gland development gland development embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development pigmentation developmental pigmentation signal transduction in absence of ligand cell surface receptor signaling pathway extrinsic apoptotic signaling pathway extrinsic apoptotic signaling pathway in absence of ligand fibroblast apoptotic process positive regulation of fibroblast apoptotic process regulation of fibroblast apoptotic process positive regulation of IRE1-mediated unfolded protein response positive regulation of cell communication positive regulation of signal transduction regulation of cellular response to stress endoplasmic reticulum unfolded protein response regulation of response to endoplasmic reticulum stress regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of endoplasmic reticulum unfolded protein response positive regulation of response to endoplasmic reticulum stress cellular response to stress regulation of intracellular signal transduction response to stress regulation of response to stress positive regulation of endoplasmic reticulum unfolded protein response response to endoplasmic reticulum stress regulation of IRE1-mediated unfolded protein response regulation of signaling cellular response to topologically incorrect protein positive regulation of intracellular signal transduction cellular response to unfolded protein response to unfolded protein regulation of response to stimulus response to topologically incorrect protein IRE1-mediated unfolded protein response regulation of cell communication positive regulation of signaling immune system development spleen development hematopoietic or lymphoid organ development regulation of intrinsic apoptotic signaling pathway positive regulation of apoptotic signaling pathway intrinsic apoptotic signaling pathway positive regulation of intrinsic apoptotic signaling pathway regulation of apoptotic signaling pathway regulation of leukocyte apoptotic process regulation of lymphocyte apoptotic process positive regulation of lymphocyte apoptotic process leukocyte apoptotic process positive regulation of T cell apoptotic process lymphocyte apoptotic process regulation of T cell apoptotic process T cell apoptotic process positive regulation of leukocyte apoptotic process thymocyte apoptotic process kidney development renal system development cell cycle regulation of cell cycle positive regulation of cell cycle apoptotic process involved in morphogenesis limb development appendage development embryonic limb morphogenesis embryonic morphogenesis embryonic appendage morphogenesis apoptotic process involved in development anatomical structure morphogenesis apoptotic process involved in embryonic digit morphogenesis appendage morphogenesis embryonic digit morphogenesis limb morphogenesis cell adhesion cell-matrix adhesion cell-substrate adhesion thymus development ear development sensory organ development odontogenesis of dentin-containing tooth odontogenesis animal organ morphogenesis meiotic cell cycle organelle fission meiotic cell cycle process nuclear division meiosis I meiosis I cell cycle process meiotic nuclear division cell cycle process regulation of developmental pigmentation regulation of pigmentation T cell homeostasis intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway regulation of growth regulation of developmental growth regulation of developmental process developmental growth growth organ growth regulation of organ growth regulation of multicellular organismal process myeloid cell homeostasis DNA damage response intrinsic apoptotic signaling pathway in response to DNA damage mitochondrial outer membrane permeabilization involved in programmed cell death positive regulation of mitochondrial membrane permeability involved in apoptotic process positive regulation of mitochondrial membrane permeability regulation of membrane permeability positive regulation of membrane permeability regulation of biological quality regulation of mitochondrial membrane permeability involved in apoptotic process regulation of mitochondrial membrane permeability post-embryonic development response to lipid response to endogenous stimulus response to glucocorticoid cellular response to glucocorticoid stimulus cellular response to corticosteroid stimulus cellular response to endogenous stimulus response to corticosteroid cellular response to chemical stimulus response to hormone response to chemical response to steroid hormone cellular response to lipid cellular response to steroid hormone stimulus cellular response to hormone stimulus tube morphogenesis tube development anatomical structure formation involved in morphogenesis tube formation	protein-containing complex BIM-BCL-2 complex Bcl-2 family protein complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle protein-containing complex BIM-BCL-2 complex Bcl-2 family protein complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane outer membrane organelle membrane endomembrane system BIM-BCL-xl complex
A	BCL-2-LIKE PROTEIN 10	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding protein binding enzyme binding protease binding caspase binding passive transmembrane transporter activity channel activity transporter activity transmembrane transporter activity	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process cellular process apoptotic process programmed cell death positive regulation of programmed cell death positive regulation of biological process positive regulation of apoptotic process positive regulation of cellular process cellular response to stimulus signal transduction in absence of ligand response to stimulus cell surface receptor signaling pathway signaling extrinsic apoptotic signaling pathway cell communication apoptotic signaling pathway extrinsic apoptotic signaling pathway in absence of ligand signal transduction cellular component organization organelle organization microtubule organizing center organization microtubule cytoskeleton organization microtubule-based process cellular component organization or biogenesis cytoskeleton organization female gamete generation intracellular signal transduction cellular response to stress DNA damage response response to stress intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway apoptotic mitochondrial changes release of cytochrome c from mitochondria mitochondrion organization	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle organelle membrane contact site mitochondria-associated endoplasmic reticulum membrane contact site membrane nuclear membrane nucleus endomembrane system membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle organelle membrane contact site mitochondria-associated endoplasmic reticulum membrane contact site membrane nuclear membrane nucleus endomembrane system organelle envelope nuclear envelope organelle membrane cytosol mitochondrial membrane organelle outer membrane bounding membrane of organelle mitochondrial envelope mitochondrial outer membrane outer membrane cytoskeleton spindle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR014771	Apoptosis, Bim N-terminal	Domain
B	IPR017288	Bcl-2-like protein 11	Family
B	IPR015040	Bcl-x interacting, BH3 domain	Domain
B	IPR052133	Immune Signaling and Apoptosis Regulator	Family
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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: O43521	sclerosing cholangitis primary sclerosing cholangitis malignant mesothelioma medulloblastoma osteosarcoma pancreatic ductal adenocarcinoma adenoma primitive neuroectodermal tumor B-cell chronic lymphocytic leukemia Diabetes Mellitus, Non-Insulin-Dependent ulcerative colitis gastric cancer hematologic disease large cell medulloblastoma malignant ependymoma sclerosing cholangitis primary sclerosing cholangitis malignant mesothelioma medulloblastoma osteosarcoma pancreatic ductal adenocarcinoma adenoma primitive neuroectodermal tumor B-cell chronic lymphocytic leukemia Diabetes Mellitus, Non-Insulin-Dependent ulcerative colitis gastric cancer hematologic disease large cell medulloblastoma malignant ependymoma malignant pancreatic neoplasm non-small cell lung carcinoma ovarian cancer pilocytic astrocytoma astrocytic tumor breast carcinoma tuberculosis eosinophilic granulomatosis with polyangiitis vitiligo gastric carcinoma hepatocellular carcinoma lung cancer malignant glioma MALT lymphoma oligodendroglioma ovarian carcinoma atypical teratoid rhabdoid tumor prostate carcinoma cancer type 2 diabetes mellitus exocrine pancreatic carcinoma glioblastoma invasive ductal breast carcinoma lymphatic system 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.