Annotations: 6J8F

Crystal structure of SVBP-VASH1 with peptide mimic the C-terminal of alpha-tubulin

External Resource: Annotation

Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	V-set	e6j8fB1	A: alpha arrays	X: Nat/Ivy	H: Acyl-CoA N-acyltransferases (Nat)	T: Acyl-CoA N-acyltransferases (Nat)	F: V-set	ECOD (v295.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Small vasohibin-binding protein	enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity peptidase activator activity cytoskeletal protein binding microtubule binding protein binding binding tubulin binding	negative regulation of locomotion regulation of biological process regulation of cell motility regulation of cellular process endothelial cell migration biological regulation negative regulation of biological process negative regulation of endothelial cell migration regulation of locomotion regulation of cell migration negative regulation of cellular process regulation of endothelial cell migration negative regulation of cell motility cell migration negative regulation of locomotion regulation of biological process regulation of cell motility regulation of cellular process endothelial cell migration biological regulation negative regulation of biological process negative regulation of endothelial cell migration regulation of locomotion regulation of cell migration negative regulation of cellular process regulation of endothelial cell migration negative regulation of cell motility cell migration cellular process cell motility locomotion negative regulation of cell migration negative regulation of post-translational protein modification regulation of protein modification process regulation of protein ubiquitination regulation of primary metabolic process protein ubiquitination negative regulation of protein modification process protein metabolic process negative regulation of protein ubiquitination regulation of protein modification by small protein conjugation or removal protein modification process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of protein modification by small protein conjugation or removal regulation of post-translational protein modification regulation of protein metabolic process negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process macromolecule modification metabolic process macromolecule metabolic process post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal establishment of protein localization transport secretion establishment of protein localization to extracellular region export from cell protein secretion establishment of localization protein localization to extracellular region localization secretion by cell protein transport macromolecule localization intracellular protein localization proteolysis developmental process multicellular organismal process plasma membrane bounded cell projection organization cellular developmental process cell projection organization cell development neuron projection development nervous system development axon development cellular component organization generation of neurons neurogenesis multicellular organism development neuron differentiation cell differentiation neuron development anatomical structure development cellular component organization or biogenesis animal gross anatomical part developmental process system development regulation of catalytic activity regulation of peptidase activity regulation of molecular function regulation of proteolysis regulation of metallopeptidase activity regulation of hydrolase activity	cellular anatomical structure apical part of cell intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle extracellular region cytoplasm
B	Tubulinyl-Tyr carboxypeptidase 1	peptidase activity catalytic activity, acting on a protein metallocarboxypeptidase activity hydrolase activity metallopeptidase activity exopeptidase activity catalytic activity metalloexopeptidase activity carboxypeptidase activity tubulin-tyrosine carboxypeptidase activity cytoskeletal protein binding actin binding protein binding binding	developmental process multicellular organismal process regulation of biological process regulation of developmental process lymphangiogenesis negative regulation of developmental process biological regulation negative regulation of biological process vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development regulation of lymphangiogenesis anatomical structure formation involved in morphogenesis anatomical structure development developmental process multicellular organismal process regulation of biological process regulation of developmental process lymphangiogenesis negative regulation of developmental process biological regulation negative regulation of biological process vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development regulation of lymphangiogenesis anatomical structure formation involved in morphogenesis anatomical structure development negative regulation of lymphangiogenesis lymph vessel morphogenesis lymph vessel development animal gross anatomical part developmental process regulation of anatomical structure morphogenesis system development angiogenesis regulation of vasculature development tube morphogenesis regulation of multicellular organismal process blood vessel development regulation of multicellular organismal development blood vessel morphogenesis tube development regulation of angiogenesis cellular response to stimulus regulation of cellular process regulation of cellular senescence cellular response to stress response to stimulus response to stress cellular process cellular senescence negative regulation of locomotion regulation of cell motility regulation of blood vessel endothelial cell migration endothelial cell migration negative regulation of endothelial cell migration negative regulation of blood vessel endothelial cell migration regulation of locomotion regulation of cell migration negative regulation of cellular process regulation of endothelial cell migration negative regulation of cell motility blood vessel endothelial cell migration cell migration cell motility locomotion negative regulation of cell migration response to wounding negative regulation of blood vessel morphogenesis negative regulation of angiogenesis negative regulation of vasculature development negative regulation of multicellular organismal process cell cycle regulation of cell cycle proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process negative regulation of cell population proliferation cell population proliferation endothelial cell proliferation negative regulation of endothelial cell proliferation regulation of endothelial cell proliferation regulation of cell population proliferation regulation of epithelial cell proliferation epithelial cell proliferation negative regulation of epithelial cell proliferation	cellular anatomical structure apical part of cell intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle endoplasmic reticulum intracellular membrane-bounded organelle endomembrane system
C	8-mer peptide	hydrolase activity catalytic activity protein binding binding protein-folding chaperone binding cytoskeletal protein binding microtubule binding tubulin binding protein-containing complex binding cation binding ion binding metal ion binding small molecule binding identical protein binding hydrolase activity catalytic activity protein binding binding protein-folding chaperone binding cytoskeletal protein binding microtubule binding tubulin binding protein-containing complex binding cation binding ion binding metal ion binding small molecule binding identical protein binding protein heterodimerization activity protein dimerization activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding structural constituent of cytoskeleton structural molecule activity	regulation of protein stability biological regulation regulation of biological quality protein stabilization multicellular organismal process multicellular organismal-level homeostasis homeostatic process homeostasis of number of cells within a tissue anatomical structure homeostasis tissue homeostasis homeostasis of number of cells cellular process cell division developmental process regulation of protein stability biological regulation regulation of biological quality protein stabilization multicellular organismal process multicellular organismal-level homeostasis homeostatic process homeostasis of number of cells within a tissue anatomical structure homeostasis tissue homeostasis homeostasis of number of cells cellular process cell division developmental process cerebellum morphogenesis cerebellar cortex morphogenesis head development hindbrain morphogenesis animal organ development brain development nervous system development cerebellar cortex development anatomical structure morphogenesis multicellular organism development cerebellum development central nervous system development metencephalon development anatomical structure development animal gross anatomical part developmental process hindbrain development system development behavior system process learning or memory nervous system process cognition memory protein polymerization protein-containing complex organization microtubule cytoskeleton organization microtubule polymerization cellular component organization cellular component biogenesis organelle organization microtubule polymerization or depolymerization cellular component assembly protein-containing complex assembly microtubule-based process cellular component organization or biogenesis supramolecular fiber organization cytoskeleton organization cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to stimulus response to metal ion response to chemical cellular response to calcium ion response to calcium ion startle response neuromuscular process response to external stimulus forebrain development pallium development cerebral cortex development telencephalon development brain morphogenesis forebrain morphogenesis animal organ morphogenesis response to acid chemical response to oxygen-containing compound response to nitrogen compound response to L-glutamate response to amino acid primary metabolic process gene expression macromolecule biosynthetic process protein maturation protein folding biosynthetic process metabolic process protein metabolic process macromolecule metabolic process 'de novo' protein folding cellular developmental process neurogenesis gliogenesis glial cell differentiation cell differentiation establishment of organelle localization cellular localization organelle transport along microtubule transport intracellular transport establishment of localization localization organelle localization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement cell cycle mitotic cell cycle regulation of biological process regulation of cellular process cell surface receptor signaling pathway signaling smoothened signaling pathway cell communication signal transduction adult locomotory behavior adult behavior locomotory behavior regulation of cellular component organization regulation of synapse organization cell junction organization regulation of synapse structure or activity synapse organization generation of neurons neuron differentiation response to light stimulus learning visual learning visual behavior associative learning response to radiation response to abiotic stimulus sperm motility reproductive process cilium movement involved in cell motility cilium or flagellum-dependent cell motility cilium-dependent cell motility flagellated sperm motility cilium movement cell motility exploration behavior locomotory exploration behavior establishment of protein localization protein transport macromolecule localization intracellular protein localization intracellular protein transport response to mechanical stimulus neuron apoptotic process apoptotic process cell death programmed cell death microtubule organizing center organization centrosome cycle cell cycle process central nervous system neuron differentiation pyramidal neuron differentiation dentate gyrus development hippocampus development limbic system development motor behavior neuron migration cell migration cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis cell projection morphogenesis neuron projection morphogenesis plasma membrane bounded cell projection organization neuron projection arborization neuron development response to peptide response to cytokine response to tumor necrosis factor	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cell projection cilium extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cell projection cilium 9+2 motile cilium sperm flagellum motile cilium plasma membrane bounded cell projection neuromuscular junction synapse cell junction endosome intracellular vesicle intracellular membrane-bounded organelle recycling endosome endomembrane system intracellular organelle cytoplasmic vesicle polymeric cytoskeletal fiber intracellular membraneless organelle cytoskeleton membraneless organelle supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton chromosome condensed chromosome axoneme ciliary plasm axonemal microtubule cytoplasmic microtubule cell periphery plasma membrane membrane cytoplasmic ribonucleoprotein granule ribonucleoprotein granule nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR031378	Small vasohibin-binding protein	Family
B	IPR028131	Tubulinyl-Tyr carboxypeptidase	Family
C	IPR018316	Tubulin/FtsZ, 2-layer sandwich domain	Domain
C	IPR037103	Tubulin/FtsZ-like, C-terminal domain	Homologous Superfamily
C	IPR000217	Tubulin	Family
C	IPR008280	Tubulin/FtsZ, C-terminal	Homologous Superfamily
C	IPR017975	Tubulin, conserved site	Conserved Site
C	IPR023123	Tubulin, C-terminal	Homologous Superfamily
C	IPR003008	Tubulin/FtsZ, GTPase domain	Domain
C	IPR002452	Alpha tubulin	Family
C	IPR036525	Tubulin/FtsZ, GTPase domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	: Q8N300	intellectual disability osteosarcoma medulloblastoma ovarian cancer oligodendroglioma
B	: Q7L8A9	osteosarcoma
C	: Q71U36	lissencephaly spectrum disorders lissencephaly due to TUBA1A mutation Lissencephaly 3 myocardial ischemia ovarian cancer pancreatic intraductal papillary-mucinous neoplasm prostate carcinoma tuberculosis anogenital human papillomavirus infection cerebrovascular disorder Duchenne muscular dystrophy intellectual disability malignant mesothelioma nasopharyngeal carcinoma pancreatic ductal adenocarcinoma lissencephaly spectrum disorders lissencephaly due to TUBA1A mutation Lissencephaly 3 myocardial ischemia ovarian cancer pancreatic intraductal papillary-mucinous neoplasm prostate carcinoma tuberculosis anogenital human papillomavirus infection cerebrovascular disorder Duchenne muscular dystrophy intellectual disability malignant mesothelioma nasopharyngeal carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia sinusitis Becker muscular dystrophy coronary artery disease Emery-Dreifuss muscular dystrophy juvenile dermatomyositis malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous carcinoma subcortical band heterotopia ulcerative colitis diabetes mellitus limb-girdle muscular dystrophy malignant colon neoplasm

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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.

6J8F | pdb_00006j8f

Crystal structure of SVBP-VASH1 with peptide mimic the C-terminal of alpha-tubulin

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Pharos: Disease Associations Pharos Homepage Annotation