9LTP | pdb_00009ltp

Crystal structure of human RAB43 in GDP-AlF3 transition state complex with USP6NL TBC domain

External Resource: Annotation

Domain Annotation: SCOP2 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)
D	SCOP2B Superfamily	Ras-like P-loop GTPases	8057468	3002022	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ras-like P-loop GTPases	8057468	3002022	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D	PF00071	Ras family (Ras)	Ras family	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motili ...	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].	Domain
A, C	PF00566	Rab-GTPase-TBC domain (RabGAP-TBC)	Rab-GTPase-TBC domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	Ras-related protein Rab-43	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 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 pyrophosphatase activity GTPase activity G protein activity ribonucleoside triphosphate phosphatase activity molecular function regulator activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	virion assembly viral process viral life cycle autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly virion assembly viral process viral life cycle autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly cellular process metabolic process cellular component organization or biogenesis process utilizing autophagic mechanism phagosome maturation localization cellular localization transport establishment of localization in cell intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport establishment of localization Golgi vesicle transport vesicle-mediated transport establishment of protein localization protein transport macromolecule localization intracellular protein localization intracellular protein transport biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response response to type II interferon response to cytokine defense response to symbiont response to external stimulus cellular response to type II interferon response to biotic stimulus response to peptide response to chemical immune system process defense response to other organism response to stress innate immune response cellular response to cytokine stimulus response to external biotic stimulus retrograde transport, plasma membrane to Golgi regulation of biological process regulation of cellular component organization regulation of cellular process biological regulation regulation of organelle organization regulation of Golgi organization Golgi organization endomembrane system organization	cellular anatomical structure endomembrane system membrane-bounded organelle intracellular anatomical structure cis-Golgi network membrane Golgi apparatus membrane intracellular membrane-bounded organelle intracellular organelle bounding membrane of organelle cis-Golgi network organelle cytoplasm organelle membrane cellular anatomical structure endomembrane system membrane-bounded organelle intracellular anatomical structure cis-Golgi network membrane Golgi apparatus membrane intracellular membrane-bounded organelle intracellular organelle bounding membrane of organelle cis-Golgi network organelle cytoplasm organelle membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle intracellular vesicle phagocytic vesicle cytoplasmic vesicle endocytic vesicle organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane phagocytic vesicle membrane cytoplasmic vesicle membrane vesicle membrane endocytic vesicle membrane Golgi membrane endoplasmic reticulum-Golgi intermediate compartment membrane endoplasmic reticulum-Golgi intermediate compartment Golgi apparatus subcompartment trans-Golgi network membrane trans-Golgi network
A, C	USP6 N-terminal-like protein	small GTPase binding protein binding binding enzyme binding GTPase binding GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity	localization transport plasma membrane to endosome transport cellular process establishment of localization vesicle-mediated transport virion assembly viral process viral life cycle positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity localization transport plasma membrane to endosome transport cellular process establishment of localization vesicle-mediated transport virion assembly viral process viral life cycle positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity biological regulation positive regulation of catalytic activity regulation of GTPase activity positive regulation of GTPase activity retrograde transport, plasma membrane to Golgi regulation of biological process regulation of cellular component organization regulation of cellular process regulation of organelle organization regulation of Golgi organization cellular component organization organelle organization cellular component organization or biogenesis Golgi organization endomembrane system organization	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle cytosol Golgi apparatus subcompartment Golgi apparatus organelle subcompartment membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle cytosol Golgi apparatus subcompartment Golgi apparatus organelle subcompartment membrane trans-Golgi network membrane endomembrane system trans-Golgi network organelle membrane cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B, D	IPR005225	Small GTP-binding domain	Domain
B, D	IPR001806	Small GTPase	Family
B, D	IPR050209	Membrane trafficking Rab GTPases	Family
B, D	IPR048040	Rab GTPase 19/43	Family
A, C	IPR050302	Rab GTPase-activating TBC domain-containing protein	Family
A, C	IPR035969	Rab-GAP-TBC domain superfamily	Homologous Superfamily
A, C	IPR000195	Rab-GAP-TBC domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C	Pharos: Q92738	melanoma Alzheimer disease cutaneous melanoma lung cancer medulloblastoma pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma tuberculosis atypical teratoid rhabdoid tumor ductal breast carcinoma in situ malignant ependymoma pancreatic intraductal papillary-mucinous neoplasm psoriasis Crohn disease glioblastoma melanoma Alzheimer disease cutaneous melanoma lung cancer medulloblastoma pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma tuberculosis atypical teratoid rhabdoid tumor ductal breast carcinoma in situ malignant ependymoma pancreatic intraductal papillary-mucinous neoplasm psoriasis Crohn disease glioblastoma malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia spina bifida

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.