5JCZ | pdb_00005jcz

Rab11 bound to MyoVa-GTD

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-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
E	d5jcze_	All alpha proteins	alpha-alpha superhelix	DIL domain-like	DIL domains from class V myosins	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d5jczc_	All alpha proteins	alpha-alpha superhelix	DIL domain-like	DIL domains from class V myosins	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d5jczb_	All alpha proteins	alpha-alpha superhelix	DIL domain-like	DIL domains from class V myosins	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F [auth I]	d5jczi_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d5jczd_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d5jcza_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	automated matches	automated matches	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)
F [auth I]	SCOP2B Superfamily	Ras-like P-loop GTPases	8057254	3002022	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ras-like P-loop GTPases	8057254	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8057254	3002022	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)
E	PPP2R1A-like_HEAT, VPS15-like_hel	e5jczE1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PPP2R1A-like_HEAT, VPS15-like_hel	ECOD (v294.1)
C	PPP2R1A-like_HEAT, VPS15-like_hel	e5jczC1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PPP2R1A-like_HEAT, VPS15-like_hel	ECOD (v294.1)
B	PPP2R1A-like_HEAT, VPS15-like_hel	e5jczB1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PPP2R1A-like_HEAT, VPS15-like_hel	ECOD (v294.1)
F [auth I]	PPP2R1A-like_HEAT, VPS15-like_hel	e5jczI1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PPP2R1A-like_HEAT, VPS15-like_hel	ECOD (v294.1)
D	PPP2R1A-like_HEAT, VPS15-like_hel	e5jczD1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PPP2R1A-like_HEAT, VPS15-like_hel	ECOD (v294.1)
A	PPP2R1A-like_HEAT, VPS15-like_hel	e5jczA1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PPP2R1A-like_HEAT, VPS15-like_hel	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth I]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, C, E	PF01843	DIL domain (DIL)	DIL domain	-	Repeat
A, D, F [auth I]	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C, E	Unconventional myosin-Va	small GTPase binding protein binding binding enzyme binding GTPase binding cytoskeletal protein binding actin binding protein-containing complex binding actin filament binding RNA binding nucleic acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding small GTPase binding protein binding binding enzyme binding GTPase binding cytoskeletal protein binding actin binding protein-containing complex binding actin filament binding RNA binding nucleic acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding calmodulin binding pyrophosphatase activity ATP hydrolysis 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 ATP-dependent activity polypeptide conformation or assembly isomerase activity isomerase activity cytoskeletal motor activity microfilament motor activity macromolecular conformation isomerase activity	localization post-Golgi vesicle-mediated transport transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport import into cell endocytosis establishment of protein localization protein transport macromolecule localization intracellular protein localization protein localization to cell periphery localization post-Golgi vesicle-mediated transport transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport import into cell endocytosis establishment of protein localization protein transport macromolecule localization intracellular protein localization protein localization to cell periphery cellular localization protein localization to plasma membrane localization within membrane protein localization to membrane vesicle localization establishment of organelle localization establishment of melanosome localization establishment of vesicle localization cellular pigmentation pigment granule transport establishment of pigment granule localization pigmentation pigment granule localization organelle localization establishment of localization in cell melanosome transport melanosome localization cellular response to stimulus cellular response to nitrogen compound response to stimulus response to endogenous stimulus response to peptide hormone response to oxygen-containing compound cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical response to insulin cellular response to insulin stimulus cellular response to hormone stimulus vesicle transport along actin filament vesicle cytoskeletal trafficking intracellular transport actin filament-based movement actin filament-based process cytoskeleton-dependent intracellular transport actin filament-based transport cellular component organization organelle organization actin cytoskeleton organization actin filament organization cellular component organization or biogenesis supramolecular fiber organization cytoskeleton organization	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure pigment granule intracellular vesicle intracellular membrane-bounded organelle intracellular organelle melanosome cytoplasmic vesicle organelle cytoplasm vesicle extracellular exosome cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure pigment granule intracellular vesicle intracellular membrane-bounded organelle intracellular organelle melanosome cytoplasmic vesicle organelle cytoplasm vesicle extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular membrane-bounded organelle cytoskeleton membraneless organelle intracellular membraneless organelle actin cytoskeleton cytosol filopodium tip cell projection actin-based cell projection filopodium plasma membrane bounded cell projection growth cone axon distal axon neuron projection site of polarized growth protein-containing complex myosin complex ruffle cell leading edge endomembrane system insulin-responsive compartment secretory granule secretory vesicle
A, D, F [auth I]	Ras-related protein Rab-11A	protein binding binding SNARE binding syntaxin binding cytoskeletal protein binding microtubule binding tubulin binding dynein light intermediate chain 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 protein binding binding SNARE binding syntaxin binding cytoskeletal protein binding microtubule binding tubulin binding dynein light intermediate chain 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 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 myosin V binding myosin binding G protein activity molecular function regulator activity	Golgi to plasma membrane transport establishment of protein localization cellular localization protein localization to cell periphery post-Golgi vesicle-mediated transport transport establishment of protein localization to membrane protein localization to plasma membrane establishment of protein localization to plasma membrane Golgi to plasma membrane protein transport localization within membrane protein localization to membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane Golgi to plasma membrane transport establishment of protein localization cellular localization protein localization to cell periphery post-Golgi vesicle-mediated transport transport establishment of protein localization to membrane protein localization to plasma membrane establishment of protein localization to plasma membrane Golgi to plasma membrane protein transport localization within membrane protein localization to membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization protein transport macromolecule localization cellular process intracellular protein localization Golgi vesicle transport regulation of localization regulation of biological process regulation of cellular process regulation of transport biological regulation intracellular transport regulation of vesicle-mediated transport endocytic recycling endosomal transport regulation of cellular localization establishment of localization in cell regulation of endocytic recycling regulation of intracellular transport plasma membrane to endosome transport positive regulation of protein localization to plasma membrane regulation of protein localization positive regulation of biological process regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery positive regulation of protein localization to membrane regulation of protein localization to cell periphery positive regulation of protein localization regulation of protein localization to plasma membrane mitotic nuclear division mitotic metaphase chromosome alignment organelle fission chromosome organization sister chromatid segregation mitotic cell cycle metaphase chromosome alignment cellular component organization organelle organization nuclear division mitotic cell cycle process chromosome localization organelle localization nuclear chromosome segregation mitotic sister chromatid segregation cell cycle cellular component organization or biogenesis chromosome segregation cell cycle process regulation of establishment of protein localization regulation of protein transport regulation of neuronal synaptic plasticity regulation of synaptic plasticity trans-synaptic signaling regulation of signaling regulation of long-term neuronal synaptic plasticity modulation of chemical synaptic transmission signaling cell-cell signaling chemical synaptic transmission cell communication synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication regulation of biological quality vesicle-mediated transport in synapse regulation of cytokinesis regulation of cell cycle process cytokinesis regulation of cell division cell division regulation of cell cycle transmembrane transport protein transmembrane transport vesicle localization establishment of organelle localization establishment of melanosome localization establishment of vesicle localization cellular pigmentation pigment granule transport establishment of pigment granule localization pigmentation pigment granule localization melanosome transport melanosome localization regulation of cellular component organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis cellular component assembly cilium assembly cilium organization organelle assembly plasma membrane bounded cell projection organization regulation of cell projection organization regulation of cell projection assembly regulation of cellular component biogenesis regulation of organelle organization regulation of plasma membrane bounded cell projection assembly regulation of cilium assembly regulation of organelle assembly cell projection assembly regulation of plasma membrane bounded cell projection organization protein localization to microtubule cytoskeleton regulation of protein localization to centrosome protein localization to microtubule organizing center protein localization to cytoskeleton protein localization to organelle protein localization to centrosome developmental process multicellular organismal process cellular developmental process cell development neuron projection development nervous system development generation of neurons neurogenesis multicellular organism development neuron differentiation cell differentiation neuron development anatomical structure development system development protein localization to cilium multivesicular body assembly vesicle organization multivesicular body organization endosome organization endomembrane system organization protein localization to cell surface synaptic vesicle endosomal processing positive regulation of cell division cytoskeleton-dependent cytokinesis regulation of mitotic cytokinetic process positive regulation of mitotic cytokinesis mitotic cytokinetic process mitotic cytokinesis regulation of mitotic cytokinesis positive regulation of cytokinesis positive regulation of mitotic cytokinetic process positive regulation of cell cycle process regulation of cytokinetic process positive regulation of cell cycle cytokinetic process microtubule cytoskeleton organization astral microtubule organization cytoplasmic microtubule organization microtubule-based process supramolecular fiber organization cytoskeleton organization spindle organization membraneless organelle assembly microtubule cytoskeleton organization involved in mitosis spindle assembly mitotic spindle organization mitotic spindle assembly establishment of protein localization to organelle amyloid-beta clearance amyloid-beta clearance by transcytosis transcytosis secretion by cell exocytosis secretion export from cell exosomal secretion extracellular exosome biogenesis extracellular vesicle biogenesis protein localization to synapse neurotransmitter receptor transport to postsynaptic membrane establishment of protein localization to postsynaptic membrane neurotransmitter receptor transport to plasma membrane neurotransmitter receptor transport, endosome to plasma membrane intercellular transport neurotransmitter receptor transport, endosome to postsynaptic membrane protein localization to postsynaptic membrane neurotransmitter receptor transport protein-containing complex localization endosome to plasma membrane protein transport regulation of postsynaptic membrane neurotransmitter receptor levels protein localization to postsynapse protein localization to cell junction receptor localization to synapse intracellular protein transport regulation of cell cycle phase transition G2/M transition of mitotic cell cycle cell cycle phase transition regulation of mitotic cell cycle positive regulation of mitotic cell cycle phase transition positive regulation of mitotic cell cycle cell cycle G2/M phase transition positive regulation of G2/M transition of mitotic cell cycle regulation of G2/M transition of mitotic cell cycle regulation of cell cycle G2/M phase transition positive regulation of cell cycle G2/M phase transition regulation of mitotic cell cycle phase transition positive regulation of cell cycle phase transition mitotic cell cycle phase transition positive regulation of locomotion regulation of cell motility positive regulation of cell migration positive regulation of epithelial cell migration tissue migration ameboidal-type cell migration positive regulation of cell motility regulation of cell migration cell migration regulation of multicellular organismal process epithelial cell migration cell motility regulation of epithelial cell migration locomotion epithelium migration regulation of locomotion	intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region vesicle extracellular membrane-bounded organelle cytoplasm cytosol synapse cell junction glutamatergic synapse membrane intracellular vesicle intracellular membrane-bounded organelle cytoplasmic vesicle membrane bounding membrane of organelle cytoplasmic vesicle vesicle membrane endocytic vesicle membrane organelle membrane endocytic vesicle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment endomembrane system trans-Golgi network Golgi membrane endosome recycling endosome transport vesicle membrane presynapse synaptic vesicle synaptic vesicle membrane transport vesicle exocytic vesicle membrane secretory vesicle exocytic vesicle presynaptic endosome centrosome microtubule organizing center centriole phagocytic vesicle cell division site cell periphery cleavage furrow plasma membrane plasma membrane region late endosome multivesicular body protein-containing complex endosome membrane recycling endosome membrane postsynaptic recycling endosome postsynaptic endosome postsynapse Schaffer collateral - CA1 synapse trans-Golgi network membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, C, E	IPR036961	Kinesin motor domain superfamily	Homologous Superfamily
B, C, E	IPR001609	Myosin head, motor domain-like	Domain
B, C, E	IPR002710	Dilute domain	Domain
B, C, E	IPR000048	IQ motif, EF-hand binding site	Binding Site
B, C, E	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B, C, E	IPR004009	Myosin, SH3 domain	Domain
B, C, E	IPR036103	Class V myosin, motor domain	Domain
B, C, E	IPR037988	Myosin 5a, cargo-binding domain	Domain
B, C, E	IPR058662	Unconventional myosin-Va/b domain	Domain
A, D, F [auth I]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, D, F [auth I]	IPR050209	Membrane trafficking Rab GTPases	Family
A, D, F [auth I]	IPR005225	Small GTP-binding domain	Domain
A, D, F [auth I]	IPR001806	Small GTPase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, C, E	Pharos: Q9Y4I1	Griscelli syndrome type 1 neuroectodermal melanolysosomal disease Griscelli syndrome type 3 peripheral nervous system disease Liver Cirrhosis, Experimental peripheral neuropathy Griscelli syndrome ovarian cancer primitive neuroectodermal tumor acute myeloid leukemia ulcerative colitis breast cancer glioblastoma interstitial cystitis malignant mesothelioma Griscelli syndrome type 1 neuroectodermal melanolysosomal disease Griscelli syndrome type 3 peripheral nervous system disease Liver Cirrhosis, Experimental peripheral neuropathy Griscelli syndrome ovarian cancer primitive neuroectodermal tumor acute myeloid leukemia ulcerative colitis breast cancer glioblastoma interstitial cystitis malignant mesothelioma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma psoriasis astrocytic tumor diabetes mellitus IgA glomerulonephritis invasive ductal breast carcinoma malignant ependymoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pilocytic astrocytoma subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor gastric carcinoma intellectual disability large cell medulloblastoma malignant glioma
A, D, F [auth I]	Pharos: P62491	Chloracne interstitial cystitis malignant pancreatic neoplasm ovarian cancer Pick disease dermatomyositis large cell medulloblastoma myopathy pancreatic ductal adenocarcinoma plasma cell myeloma Hodgkins lymphoma lymphoplasmacytic lymphoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm psoriasis

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.