6J4V | pdb_00006j4v

Structural basis of tubulin detyrosination by vasohibins-SVBP enzyme complex and functional implications

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)
A		e6j4vA1	A: Nat/Ivy	X: Acyl-CoA N-acyltransferases (Nat)	H: Acyl-CoA N-acyltransferases (Nat)	T: Hydrolase	F:	ECOD (20:10:01)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	Tubulin alpha-1B chain	RNA binding double-stranded RNA binding binding nucleic acid binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding RNA binding double-stranded RNA binding binding nucleic acid binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding structural constituent of cytoskeleton structural molecule activity ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	cellular process cell cycle mitotic cell cycle cell division response to interleukin-4 response to peptide response to stimulus response to chemical response to cytokine cellular response to cytokine stimulus cellular response to interleukin-4 localization cellular localization transport cellular process cell cycle mitotic cell cycle cell division response to interleukin-4 response to peptide response to stimulus response to chemical response to cytokine cellular response to cytokine stimulus cellular response to interleukin-4 localization cellular localization transport establishment of localization in cell cytoskeleton-dependent intracellular transport intracellular transport establishment of localization cellular component organization organelle organization microtubule cytoskeleton organization microtubule-based process cellular component organization or biogenesis cytoskeleton organization	membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection intracellular anatomical structure cytoplasm intracellular organelle cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton polymeric cytoskeletal fiber membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection intracellular anatomical structure cytoplasm intracellular organelle cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton polymeric cytoskeletal fiber cytoplasmic microtubule supramolecular fiber microtubule supramolecular polymer supramolecular complex
B	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 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
A	Tubulinyl-Tyr carboxypeptidase 2	peptidase activity catalytic activity, acting on a protein metallocarboxypeptidase activity hydrolase activity metallopeptidase activity exopeptidase activity catalytic activity metalloexopeptidase activity carboxypeptidase activity cytoskeletal protein binding microtubule binding protein binding binding tubulin binding peptidase activity catalytic activity, acting on a protein metallocarboxypeptidase activity hydrolase activity metallopeptidase activity exopeptidase activity catalytic activity metalloexopeptidase activity carboxypeptidase activity cytoskeletal protein binding microtubule binding protein binding binding tubulin binding actin binding tubulin-tyrosine carboxypeptidase activity	developmental process multicellular organismal process regulation of multicellular organismal development regulation of biological process regulation of developmental process blood vessel morphogenesis tube development biological regulation angiogenesis vasculature development regulation of vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis developmental process multicellular organismal process regulation of multicellular organismal development regulation of biological process regulation of developmental process blood vessel morphogenesis tube development biological regulation angiogenesis vasculature development regulation of vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis regulation of angiogenesis anatomical structure formation involved in morphogenesis anatomical structure development regulation of multicellular organismal process regulation of anatomical structure morphogenesis blood vessel development system development syncytium formation by plasma membrane fusion cell-cell fusion cellular process syncytium formation labyrinthine layer blood vessel development placenta blood vessel development placenta development chordate embryonic development animal organ development labyrinthine layer development embryo development in utero embryonic development embryonic placenta development embryo development ending in birth or egg hatching embryonic organ development positive regulation of biological process positive regulation of developmental process positive regulation of angiogenesis positive regulation of vasculature development positive regulation of multicellular organismal process cell population proliferation regulation of cellular process positive regulation of cell population proliferation endothelial cell proliferation positive regulation of epithelial cell proliferation regulation of endothelial cell proliferation regulation of cell population proliferation positive regulation of endothelial cell proliferation regulation of epithelial cell proliferation epithelial cell proliferation positive regulation of cellular process proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic 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 neuron differentiation cell differentiation neuron development cellular component organization or biogenesis	intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle extracellular region cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	Pharos: P68363	osteoporosis anogenital human papillomavirus infection breast cancer Osteoporosis, Senile attention deficit hyperactivity disorder, inattentive type bipolar disorder
B	Pharos: Q8N300	intellectual disability osteosarcoma medulloblastoma ovarian cancer oligodendroglioma
A	Pharos: Q86V25	atypical teratoid rhabdoid tumor interstitial cystitis malignant glioma nasopharyngeal carcinoma primitive neuroectodermal tumor tuberculosis Duchenne muscular dystrophy juvenile dermatomyositis malignant mesothelioma osteosarcoma psoriasis glioblastoma large cell medulloblastoma medulloblastoma pituitary cancer atypical teratoid rhabdoid tumor interstitial cystitis malignant glioma nasopharyngeal carcinoma primitive neuroectodermal tumor tuberculosis Duchenne muscular dystrophy juvenile dermatomyositis malignant mesothelioma osteosarcoma psoriasis glioblastoma large cell medulloblastoma medulloblastoma pituitary cancer Sjogren syndrome

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.