6P59

Crystal structure of SIVrcm Vif-CBFbeta-ELOB-ELOC complex

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 Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B [auth W]	d6p59w_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Elongin B	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F [auth D]	d6p59d_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Elongin B	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth Z]	d6p59z_	Alpha and beta proteins (a+b)	POZ domain	POZ domain	BTB/POZ domain	Elongin C	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G [auth E]	d6p59e_	Alpha and beta proteins (a+b)	POZ domain	POZ domain	BTB/POZ domain	Elongin 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)
A [auth C]	SCOP2B Superfamily	Core binding factor beta CBF	8042548	3001169	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	Core binding factor beta CBF	8042548	3001169	SCOP2B (2022-06-29)
B [auth W]	SCOP2B Superfamily	Ubiquitin-like	8038575	3000157	SCOP2B (2022-06-29)
F [auth D]	SCOP2B Superfamily	Ubiquitin-like	8038575	3000157	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 [auth C]	CBF_beta	e6p59C1	A: beta barrels	X: CBF-like	H: Core binding factor beta, CBF (From Topology)	T: Core binding factor beta, CBF	F: CBF_beta	ECOD (1.6)
E [auth A]	CBF_beta	e6p59A1	A: beta barrels	X: CBF-like	H: Core binding factor beta, CBF (From Topology)	T: Core binding factor beta, CBF	F: CBF_beta	ECOD (1.6)
B [auth W]	ubiquitin_2	e6p59W1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: ubiquitin_2	ECOD (1.6)
F [auth D]	ubiquitin_2	e6p59D1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: ubiquitin_2	ECOD (1.6)
C [auth Z]	Skp1_POZ_1	e6p59Z1	A: a+b two layers	X: POZ domain (From Topology)	H: POZ domain (From Topology)	T: POZ domain	F: Skp1_POZ_1	ECOD (1.6)
G [auth E]	Skp1_POZ_1	e6p59E1	A: a+b two layers	X: POZ domain (From Topology)	H: POZ domain (From Topology)	T: POZ domain	F: Skp1_POZ_1	ECOD (1.6)
D [auth F]	Vif	e6p59F1	A: a+b two layers	X: Virion infectivity factor Vif (From Topology)	H: Virion infectivity factor Vif (From Topology)	T: Virion infectivity factor Vif	F: Vif	ECOD (1.6)
H [auth B]	Vif	e6p59B1	A: a+b two layers	X: Virion infectivity factor Vif (From Topology)	H: Virion infectivity factor Vif (From Topology)	T: Virion infectivity factor Vif	F: Vif	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth C]	2.40.250.10	Mainly Beta	Beta Barrel	Polyomavirus Enhancer Binding Protein 2	Chain: A	CATH (utative)
E [auth A]	2.40.250.10	Mainly Beta	Beta Barrel	Polyomavirus Enhancer Binding Protein 2	Chain: A	CATH (utative)
B [auth W]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
F [auth D]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
C [auth Z]	3.30.710.10	Alpha Beta	2-Layer Sandwich	Potassium Channel Kv1.1	Chain A	CATH (utative)
G [auth E]	3.30.710.10	Alpha Beta	2-Layer Sandwich	Potassium Channel Kv1.1	Chain A	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C], E [auth A]	PF02312	Core binding factor beta subunit (CBF_beta)	Core binding factor beta subunit	-	Family
B [auth W], F [auth D]	PF00240	Ubiquitin family (ubiquitin)	Ubiquitin family	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].	Domain
C [auth Z], G [auth E]	PF03931	Skp1 family, tetramerisation domain (Skp1_POZ)	Skp1 family, tetramerisation domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C], E [auth A]	Core-binding factor subunit beta	transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity sequence-specific DNA binding DNA binding binding organic cyclic compound binding nucleic acid binding	developmental process multicellular organismal process cellular developmental process ossification cell differentiation cellular process osteoblast differentiation organonitrogen compound metabolic process protein polyubiquitination primary metabolic process organic substance metabolic process protein ubiquitination macromolecule modification metabolic process developmental process multicellular organismal process cellular developmental process ossification cell differentiation cellular process osteoblast differentiation organonitrogen compound metabolic process protein polyubiquitination primary metabolic process organic substance metabolic process protein ubiquitination macromolecule modification metabolic process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal hemopoiesis cell activation cell development mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation immune system process anatomical structure development leukocyte differentiation cellular biosynthetic process cellular metabolic process RNA metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription organic cyclic compound metabolic process nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process definitive hemopoiesis regulation of cellular process regulation of primary metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of biological process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process regulation of cellular biosynthetic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of biological process negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of biosynthetic process regulation of leukocyte differentiation CD8-positive, alpha-beta T cell activation regulation of alpha-beta T cell activation regulation of leukocyte activation regulation of cell activation regulation of cell differentiation positive regulation of T cell differentiation positive regulation of CD8-positive, alpha-beta T cell activation regulation of cell development positive regulation of developmental process positive regulation of cell activation multicellular organism development T cell activation positive regulation of leukocyte activation alpha-beta T cell activation regulation of immune system process T cell differentiation positive regulation of immune system process positive regulation of T cell activation positive regulation of cell development positive regulation of alpha-beta T cell activation regulation of leukocyte cell-cell adhesion positive regulation of multicellular organismal process positive regulation of alpha-beta T cell differentiation regulation of developmental process CD8-positive, alpha-beta T cell differentiation positive regulation of biological process positive regulation of leukocyte cell-cell adhesion regulation of alpha-beta T cell differentiation leukocyte cell-cell adhesion positive regulation of cell-cell adhesion regulation of T cell differentiation positive regulation of lymphocyte activation cell adhesion alpha-beta T cell differentiation cell-cell adhesion positive regulation of hemopoiesis positive regulation of cell differentiation regulation of multicellular organismal process regulation of cell-cell adhesion positive regulation of cellular process regulation of lymphocyte differentiation regulation of multicellular organismal development positive regulation of cell adhesion regulation of cell adhesion positive regulation of CD8-positive, alpha-beta T cell differentiation regulation of T cell activation regulation of CD8-positive, alpha-beta T cell differentiation regulation of hemopoiesis positive regulation of leukocyte differentiation regulation of CD8-positive, alpha-beta T cell activation positive regulation of lymphocyte differentiation regulation of lymphocyte activation positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process myeloid cell differentiation anatomical structure maturation cell maturation developmental maturation negative regulation of cell adhesion negative regulation of T cell differentiation negative regulation of hemopoiesis negative regulation of leukocyte differentiation negative regulation of T cell activation negative regulation of leukocyte cell-cell adhesion negative regulation of CD4-positive, alpha-beta T cell activation negative regulation of cell-cell adhesion negative regulation of lymphocyte differentiation negative regulation of multicellular organismal process negative regulation of CD4-positive, alpha-beta T cell differentiation negative regulation of leukocyte activation regulation of CD4-positive, alpha-beta T cell differentiation negative regulation of alpha-beta T cell differentiation negative regulation of lymphocyte activation CD4-positive, alpha-beta T cell differentiation CD4-positive, alpha-beta T cell activation negative regulation of cell differentiation negative regulation of developmental process negative regulation of cell activation negative regulation of cell development regulation of CD4-positive, alpha-beta T cell activation negative regulation of immune system process negative regulation of alpha-beta T cell activation	RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle core-binding factor complex organelle membrane membrane-enclosed lumen RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle core-binding factor complex organelle membrane membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
B [auth W], F [auth D]	Elongin-B	transcription factor binding transcription coregulator binding transcription corepressor binding protein binding 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 regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression organic substance biosynthetic process miRNA metabolic process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression organic substance biosynthetic process miRNA metabolic process RNA catabolic process regulation of biological process cellular metabolic process negative regulation of metabolic process regulation of cellular metabolic process primary metabolic process negative regulation of cellular biosynthetic process nucleobase-containing compound catabolic process regulation of gene expression organic cyclic compound metabolic process negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing nucleic acid catabolic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process catabolic process cellular biosynthetic process RNA metabolic process macromolecule catabolic process organic substance metabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process miRNA catabolic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound catabolic process target-directed miRNA degradation regulatory ncRNA-mediated gene silencing regulation of cellular biosynthetic process negative regulation of biosynthetic process ncRNA metabolic process organic substance catabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter nucleobase-containing compound biosynthetic process DNA-templated transcription initiation organic cyclic compound biosynthetic process transcription elongation by RNA polymerase II DNA-templated transcription elongation positive regulation of proteasomal protein catabolic process positive regulation of protein metabolic process proteolysis involved in protein catabolic process positive regulation of biological process proteasome-mediated ubiquitin-dependent protein catabolic process regulation of ubiquitin-dependent protein catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis regulation of proteolysis involved in protein catabolic process modification-dependent macromolecule catabolic process proteolysis positive regulation of macromolecule metabolic process protein metabolic process organonitrogen compound catabolic process organonitrogen compound metabolic process regulation of protein metabolic process proteasomal protein catabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process positive regulation of proteolysis regulation of proteasomal protein catabolic process positive regulation of proteasomal ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process regulation of protein catabolic process protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity elongin complex intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity elongin complex intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cytoplasm cytosol cytoplasmic ubiquitin ligase complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex VCB complex cullin-RING ubiquitin ligase complex Cul5-RING ubiquitin ligase complex Cul2-RING ubiquitin ligase complex
C [auth Z], G [auth E]	Elongin-C	transcription factor binding transcription coregulator binding transcription corepressor binding protein binding binding protein-macromolecule adaptor activity molecular adaptor activity	organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process organic substance metabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process protein metabolic process organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process organic substance metabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression organic substance biosynthetic process miRNA metabolic process RNA catabolic process regulation of biological process cellular metabolic process negative regulation of metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process nucleobase-containing compound catabolic process regulation of gene expression organic cyclic compound metabolic process negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing nucleic acid catabolic process regulation of macromolecule biosynthetic process regulation of metabolic process cellular biosynthetic process RNA metabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process miRNA catabolic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound catabolic process target-directed miRNA degradation regulatory ncRNA-mediated gene silencing regulation of cellular biosynthetic process negative regulation of biosynthetic process ncRNA metabolic process cellular process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter nucleobase-containing compound biosynthetic process DNA-templated transcription initiation organic cyclic compound biosynthetic process regulation of primary metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of DNA-templated transcription protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity elongin complex intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity elongin complex intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cytoplasm cytosol cullin-RING ubiquitin ligase complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex Cul5-RING ubiquitin ligase complex Cul2-RING ubiquitin ligase complex
D [auth F], H [auth B]	Virion infectivity factor	-	viral process viral life cycle	cell periphery plasma membrane membrane cellular anatomical entity host cell plasma membrane host cellular component host cell part host cell membrane intracellular anatomical structure cytoplasm host intracellular part host cell cytoplasm host intracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C], E [auth A]	IPR003417	Core-binding factor, beta subunit	Family
A [auth C], E [auth A]	IPR036552	Core-binding factor, beta subunit superfamily	Homologous Superfamily
B [auth W], F [auth D]	IPR000626	Ubiquitin-like domain	Domain
B [auth W], F [auth D]	IPR039049	Elongin B	Family
B [auth W], F [auth D]	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
C [auth Z], G [auth E]	IPR016073	SKP1 component, POZ domain	Domain
C [auth Z], G [auth E]	IPR001232	S-phase kinase-associated protein 1-like	Family
C [auth Z], G [auth E]	IPR039948	Elongin-C	Family
C [auth Z], G [auth E]	IPR011333	SKP1/BTB/POZ domain superfamily	Homologous Superfamily
D [auth F], H [auth B]	IPR000475	Retroviral Vif (Viral infectivity) protein	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth C], E [auth A]	Pharos: Q13951	acute myeloid leukemia cleft palate acute myelomonocytic leukemia M4 Bone Diseases, Developmental malignant glioma myopathy ovarian cancer atypical teratoid rhabdoid tumor congenital heart disease glioblastoma juvenile dermatomyositis lymphoplasmacytic lymphoma pilocytic astrocytoma large cell medulloblastoma malignant ependymoma acute myeloid leukemia cleft palate acute myelomonocytic leukemia M4 Bone Diseases, Developmental malignant glioma myopathy ovarian cancer atypical teratoid rhabdoid tumor congenital heart disease glioblastoma juvenile dermatomyositis lymphoplasmacytic lymphoma pilocytic astrocytoma large cell medulloblastoma malignant ependymoma medulloblastoma osteosarcoma ulcerative colitis amyotrophic lateral sclerosis cancer Down syndrome IgA glomerulonephritis
B [auth W], F [auth D]	Pharos: Q15370	acute myeloid leukemia ovarian cancer diabetes mellitus plasma cell myeloma lymphoplasmacytic lymphoma
C [auth Z], G [auth E]	Pharos: Q15369	papillary renal cell carcinoma sarcomatoid renal cell carcinoma collecting duct carcinoma chromophobe renal cell carcinoma renal cell carcinoma astrocytic tumor clear cell renal carcinoma dermatomyositis breast cancer invasive ductal breast carcinoma plasma cell myeloma Conventional (Clear Cell) Renal Cell Carcinoma ovarian cancer

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.