5VX3 | pdb_00005vx3

Bcl-xL in complex with Bim-h3Pc-RT

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
H	SCOP2B Superfamily	BH3 domain	8055788	3002075	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	BH3 domain	8055788	3002075	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	BH3 domain	8055788	3002075	SCOP2B (2022-06-29)
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)
G	Methyltransf_25	e5vx3G1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Methyltransf_25	ECOD (v294.1)
E	Saf-Nte_pilin	e5vx3E1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Undecaprenyl diphosphate synthase	F: Saf-Nte_pilin	ECOD (v294.1)
C	Methyltransf_25	e5vx3C1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Methyltransf_25	ECOD (v294.1)
A	Methyltransf_25	e5vx3A1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Methyltransf_25	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, E, G	PF02180	Bcl-2 homology region 4 (BH4)	Bcl-2 homology region 4	-	Family
A, C, E, G	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, D, F, H	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, C, E, G	Bcl-2-like protein 1	death domain binding protein binding binding BH3 domain binding BH domain binding protein domain specific binding identical protein binding kinase binding enzyme binding protein kinase binding passive transmembrane transporter activity channel activity transporter activity transmembrane transporter activity	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 cell population proliferation mononuclear cell proliferation dendritic cell proliferation cellular process leukocyte proliferation fertilization cellular response to stimulus extrinsic apoptotic signaling pathway via death domain receptors regulation of cellular process response to stimulus signaling negative regulation of signaling negative regulation of biological process regulation of signal transduction regulation of programmed cell death extrinsic apoptotic signaling pathway negative regulation of cell communication cell communication negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of cellular process signal transduction regulation of biological process regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of extrinsic apoptotic signaling pathway via death domain receptors cell death negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway negative regulation of apoptotic process regulation of response to stimulus regulation of extrinsic apoptotic signaling pathway via death domain receptors regulation of cell communication apoptotic process programmed cell death regulation of apoptotic signaling pathway regulation of growth growth positive regulation of programmed cell death positive regulation of biological process positive regulation of apoptotic process positive regulation of cellular process regulation of anoikis negative regulation of anoikis anoikis cellular response to nitrogen compound cellular response to chemical stimulus response to chemical response to nitrogen compound cellular response to alkaloid response to alkaloid regulation of localization apoptotic mitochondrial changes localization regulation of biological quality positive regulation of membrane permeability negative regulation of cellular component organization establishment of localization regulation of organelle organization regulation of membrane permeability negative regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway regulation of mitochondrial membrane permeability involved in apoptotic process regulation of cellular component organization negative regulation of mitochondrial membrane permeability transport mitochondrial outer membrane permeabilization involved in programmed cell death cellular component organization positive regulation of mitochondrial membrane permeability involved in apoptotic process positive regulation of mitochondrial membrane permeability cellular component organization or biogenesis regulation of mitochondrial membrane permeability mitochondrion organization regulation of transport organelle organization negative regulation of organelle organization regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway regulation of mitochondrion organization negative regulation of membrane permeability mitochondrial outer membrane permeabilization embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development apoptotic process in bone marrow cell dendritic cell apoptotic process leukocyte apoptotic process signal transduction in absence of ligand extrinsic apoptotic signaling pathway in absence of ligand negative regulation of reproductive process regulation of reproductive process regulation of cytokinesis regulation of cell cycle process cytokinesis regulation of cell division cell division cell cycle regulation of cell cycle cell cycle process female gonad development female sex differentiation development of primary female sexual characteristics ovarian follicle development regulation of release of cytochrome c from mitochondria negative regulation of release of cytochrome c from mitochondria release of cytochrome c from mitochondria cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical response to amino acid regulation of leukocyte proliferation positive regulation of cell population proliferation regulation of cell population proliferation positive regulation of leukocyte proliferation positive regulation of mononuclear cell proliferation regulation of mononuclear cell proliferation cellular developmental process cell development programmed cell death involved in cell development cell differentiation ectopic germ cell programmed cell death 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 response to ketone response to cycloheximide response to alcohol response to oxygen-containing compound negative regulation of intracellular signal transduction regulation of cellular response to stress regulation of intrinsic apoptotic signaling pathway in response to DNA damage regulation of intrinsic apoptotic signaling pathway intracellular signal transduction cellular response to stress regulation of intracellular signal transduction response to stress regulation of response to stress intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage negative regulation of intrinsic apoptotic signaling pathway DNA damage response biological process involved in interspecies interaction between organisms defense response to virus defense response response to other organism response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus negative regulation of extrinsic apoptotic signaling pathway in absence of ligand negative regulation of signal transduction in absence of ligand regulation of extrinsic apoptotic signaling pathway in absence of ligand cellular localization regulation of protein localization negative regulation of protein localization to plasma membrane intracellular protein localization regulation of protein localization to membrane negative regulation of protein localization protein localization to cell periphery protein localization to plasma membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane negative regulation of protein localization to membrane regulation of cellular localization macromolecule localization negative regulation of protein localization to cell periphery regulation of protein localization to plasma membrane cellular process involved in reproduction in multicellular organism germ cell development cellular response to ionizing radiation cellular response to radiation cellular response to environmental stimulus response to ionizing radiation cellular response to gamma radiation response to radiation response to abiotic stimulus cellular response to abiotic stimulus response to gamma radiation regulation of mitochondrial membrane potential regulation of membrane potential import into cell endocytosis vesicle-mediated transport regulation of response to endoplasmic reticulum stress negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway response to endoplasmic reticulum stress negative regulation of response to endoplasmic reticulum stress response to peptide response to cytokine neuron apoptotic process negative regulation of neuron apoptotic process regulation of neuron apoptotic process negative regulation of execution phase of apoptosis regulation of execution phase of apoptosis execution phase of apoptosis regulation of developmental process negative regulation of developmental process regulation of leukocyte apoptotic process negative regulation of dendritic cell apoptotic process negative regulation of leukocyte apoptotic process regulation of dendritic cell apoptotic process epithelial cell proliferation hepatocyte apoptotic process epithelial cell apoptotic process	membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope cellular anatomical structure organelle nuclear envelope organelle membrane cytoplasm membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope cellular anatomical structure organelle nuclear envelope organelle membrane cytoplasm cytosol mitochondrial membrane mitochondrion organelle outer membrane bounding membrane of organelle mitochondrial envelope mitochondrial outer membrane outer membrane synapse intracellular vesicle transport vesicle membrane presynapse cytoplasmic vesicle vesicle membrane synaptic vesicle synaptic vesicle membrane cell junction vesicle transport vesicle exocytic vesicle membrane cytoplasmic vesicle membrane secretory vesicle exocytic vesicle organelle inner membrane mitochondrial inner membrane centrosome microtubule organizing center cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton protein-containing complex Bcl-2 family protein complex membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F, H	IPR014771	Apoptosis, Bim N-terminal	Domain
B, D, F, H	IPR017288	Bcl-2-like protein 11	Family
B, D, F, H	IPR015040	Bcl-x interacting, BH3 domain	Domain
B, D, F, H	IPR052133	Immune Signaling and Apoptosis Regulator	Family
A, C, E, G	IPR036834	Bcl-2-like superfamily	Homologous Superfamily
A, C, E, G	IPR004725	Apoptosis regulator, Bcl-2/ BclX	Family
A, C, E, G	IPR003093	Apoptosis regulator, Bcl-2 protein, BH4	Domain
A, C, E, G	IPR002475	Bcl2-like	Family
A, C, E, G	IPR020731	Apoptosis regulator, Bcl-2, BH4 motif, conserved site	Conserved Site
A, C, E, G	IPR013279	Apoptosis regulator, Bcl-X	Family
A, C, E, G	IPR020728	Apoptosis regulator, Bcl-2, BH3 motif, conserved site	Conserved Site
A, C, E, G	IPR020726	Apoptosis regulator, Bcl-2, BH2 motif, conserved site	Conserved Site
A, C, E, G	IPR046371	Bcl-2, Bcl-2 homology region 1-3	Domain
A, C, E, G	IPR026298	Bcl-2 family	Family
A, C, E, G	IPR020717	Apoptosis regulator, Bcl-2, BH1 motif, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, D, F, H	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
A, C, E, G	Pharos: Q07817	plasma cell myeloma liver disease myocardial infarction Liver Neoplasms, Experimental type 2 diabetes mellitus cryptorchidism follicular thyroid adenoma microcystic adenoma erectile dysfunction head and neck cancer adenoma hearing loss disorder papillary adenoma amyotrophic lateral sclerosis type 1 sarcomatoid carcinoma plasma cell myeloma liver disease myocardial infarction Liver Neoplasms, Experimental type 2 diabetes mellitus cryptorchidism follicular thyroid adenoma microcystic adenoma erectile dysfunction head and neck cancer adenoma hearing loss disorder papillary adenoma amyotrophic lateral sclerosis type 1 sarcomatoid carcinoma carcinoma malignant ependymoma chronic obstructive pulmonary disease malignant tumor of neck medulloblastoma gastric neoplasm head and neck neoplasm hematologic disease pancreatic intraductal papillary-mucinous neoplasm intestinal disease psoriasis B-cell chronic lymphocytic leukemia cancer MALT lymphoma glioblastoma myopathy acute myeloid leukemia oligodendroglioma hepatocellular carcinoma pancreatic neoplasm hereditary diffuse gastric adenocarcinoma plasma cell neoplasm intracerebral hemorrhage sarcoidosis lung benign neoplasm lymphatic system disease undifferentiated carcinoma malignant pancreatic neoplasm maturity-onset diabetes of the young gastric cancer myeloid neoplasm neoplasm of neck ovarian cancer prostate disease atypical teratoid rhabdoid tumor large cell medulloblastoma breast disease lung disease toxic encephalopathy

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.