8XM7 | pdb_00008xm7

Cryo-EM structure of the RhoG/DOCK5/ELMO1/Rac1 complex: RhoG/DOCK5/ELMO1 focused map

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)
C [auth D]	SCOP2B Superfamily	Ras-like P-loop GTPases	8098956	3002022	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF11841	ELMO, armadillo-like helical domain (ELMO_ARM)	ELMO, armadillo-like helical domain	-	Repeat
A	PF04727	ELMO/CED-12 family (ELMO_CED12)	ELMO/CED-12 family	-	Family
A	PF16457	Pleckstrin homology domain (PH_12)	Pleckstrin homology domain		Domain
B	PF16172	DOCK N-terminus (DOCK_N)	DOCK N-terminus	-	Family
B	PF00018	SH3 domain (SH3_1)	SH3 domain	SH3 (Src homology 3) domains are often indicative of a protein involved in signal transduction related to cytoskeletal organisation. First described in the Src cytoplasmic tyrosine kinase Swiss:P12931. The structure is a partly opened beta barrel.	Domain
B	PF14429	C2 domain in Dock180 and Zizimin proteins (DOCK-C2)	C2 domain in Dock180 and Zizimin proteins	The Dock180/Dock1 and Zizimin proteins are atypical GTP/GDP exchange factors for the small GTPases Rac and Cdc42 and are implicated cell-migration and phagocytosis. Across all Dock180 proteins, two regions are conserved: C-terminus termed CZH2 or DH ...	The Dock180/Dock1 and Zizimin proteins are atypical GTP/GDP exchange factors for the small GTPases Rac and Cdc42 and are implicated cell-migration and phagocytosis. Across all Dock180 proteins, two regions are conserved: C-terminus termed CZH2 or DHR2 (or the Dedicator of cytokinesis) whereas CZH1/DHR1 contain a new family of the C2 domain [1][2].	Domain
C [auth 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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Engulfment and cell motility protein 1	SH3 domain binding protein binding binding protein domain specific binding	cellular response to stimulus regulation of biological process small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling Rac protein signal transduction biological regulation intracellular signal transduction cell communication intracellular signaling cassette cellular process signal transduction membrane organization cellular response to stimulus regulation of biological process small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling Rac protein signal transduction biological regulation intracellular signal transduction cell communication intracellular signaling cassette cellular process signal transduction membrane organization import into cell transport establishment of localization vesicle-mediated transport cellular component organization localization phagocytosis, engulfment membrane invagination phagocytosis cellular component organization or biogenesis endocytosis plasma membrane invagination multicellular organismal process regulation of cellular component organization cellular component biogenesis multicellular organism development cellular component assembly regulation of postsynapse assembly cell junction assembly anatomical structure development regulation of synapse structure or activity synapse organization regulation of synapse assembly regulation of biological quality system development developmental process postsynapse organization postsynapse assembly regulation of postsynapse organization nervous system development regulation of cellular component biogenesis regulation of cell junction assembly regulation of synapse organization cell junction organization synapse assembly apoptotic process cell death programmed cell death cell motility organelle organization actin cytoskeleton organization actin filament organization actin filament-based process supramolecular fiber organization cytoskeleton organization	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane postsynapse synapse cell junction protein-containing complex guanyl-nucleotide exchange factor complex intracellular protein-containing complex glutamatergic synapse
B	Dedicator of cytokinesis protein 5	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 guanyl-nucleotide exchange factor activity	multicellular organismal process tissue remodeling bone remodeling vascular associated smooth muscle contraction system process regulation of vascular associated smooth muscle contraction regulation of system process negative regulation of biological process negative regulation of vasoconstriction negative regulation of muscle contraction circulatory system process smooth muscle contraction regulation of smooth muscle contraction regulation of multicellular organismal process multicellular organismal process tissue remodeling bone remodeling vascular associated smooth muscle contraction system process regulation of vascular associated smooth muscle contraction regulation of system process negative regulation of biological process negative regulation of vasoconstriction negative regulation of muscle contraction circulatory system process smooth muscle contraction regulation of smooth muscle contraction regulation of multicellular organismal process blood vessel diameter maintenance regulation of biological quality negative regulation of smooth muscle contraction blood circulation regulation of tube diameter regulation of biological process regulation of tube size biological regulation negative regulation of vascular associated smooth muscle contraction muscle contraction muscle system process regulation of muscle system process regulation of blood circulation regulation of muscle contraction vascular process in circulatory system regulation of vasoconstriction negative regulation of multicellular organismal process vasoconstriction regulation of anatomical structure size positive regulation of substrate adhesion-dependent cell spreading regulation of cellular process regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of substrate adhesion-dependent cell spreading regulation of cell adhesion positive regulation of biological process cell-substrate adhesion cell adhesion positive regulation of cell-substrate adhesion substrate adhesion-dependent cell spreading cellular process positive regulation of cellular process cell migration cell motility regulation of vascular associated smooth muscle cell migration positive regulation of locomotion vascular associated smooth muscle cell migration regulation of cell motility regulation of smooth muscle cell migration positive regulation of smooth muscle cell migration positive regulation of cell migration smooth muscle cell migration muscle cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration locomotion positive regulation of vascular associated smooth muscle cell migration podosome assembly organelle assembly protein-containing complex organization membraneless organelle assembly cellular component organization cellular component biogenesis organelle organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis cellular response to stimulus small GTPase-mediated signal transduction response to stimulus signaling Rac protein signal transduction intracellular signal transduction cell communication intracellular signaling cassette signal transduction developmental process cellular developmental process myoblast fusion cell-cell fusion muscle cell differentiation myotube differentiation muscle structure development syncytium formation by plasma membrane fusion anatomical structure morphogenesis cell differentiation anatomical structure formation involved in morphogenesis anatomical structure development syncytium formation striated muscle cell differentiation positive regulation of epithelial cell migration tissue migration ameboidal-type cell migration epithelial cell migration regulation of epithelial cell migration epithelium migration	intracellular organelle cellular anatomical structure intracellular anatomical structure podosome cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol anchoring junction cell junction cell periphery intracellular organelle cellular anatomical structure intracellular anatomical structure podosome cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol anchoring junction cell junction cell periphery plasma membrane membrane cell projection
C [auth D]	Rho-related GTP-binding protein RhoG	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 protein binding kinase binding enzyme binding protein kinase 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	positive regulation of protein localization to plasma membrane regulation of localization cellular localization regulation of cellular process regulation of protein localization positive regulation of biological process localization intracellular protein localization regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery regulation of biological process protein localization to cell periphery protein localization to plasma membrane positive regulation of protein localization to plasma membrane regulation of localization cellular localization regulation of cellular process regulation of protein localization positive regulation of biological process localization intracellular protein localization regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery regulation of biological process protein localization to cell periphery protein localization to plasma membrane biological regulation positive regulation of protein localization to membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane regulation of cellular localization macromolecule localization positive regulation of protein localization cellular process regulation of protein localization to plasma membrane regulation of cytoskeleton organization regulation of cellular component organization regulation of actin filament-based process actin cytoskeleton organization regulation of organelle organization cellular component organization organelle organization regulation of actin cytoskeleton organization actin filament-based process cellular component organization or biogenesis cytoskeleton organization developmental process regulation of developmental process regulation of cell shape cell morphogenesis regulation of cell morphogenesis anatomical structure morphogenesis anatomical structure development regulation of biological quality regulation of anatomical structure morphogenesis cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation cortical cytoskeleton organization cellular response to stimulus small GTPase-mediated signal transduction response to stimulus signaling Rac protein signal transduction intracellular signal transduction cell communication intracellular signaling cassette signal transduction cell chemotaxis chemotaxis response to external stimulus cellular response to chemical stimulus taxis response to chemical cell migration cell motility locomotion multicellular organismal process cellular component biogenesis multicellular organism development cellular component assembly regulation of postsynapse assembly cell junction assembly regulation of synapse structure or activity synapse organization regulation of synapse assembly system development postsynapse organization postsynapse assembly regulation of postsynapse organization nervous system development regulation of cellular component biogenesis regulation of cell junction assembly regulation of synapse organization cell junction organization synapse assembly establishment or maintenance of cell polarity positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of nucleobase-containing compound metabolic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process activation of GTPase activity positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity positive regulation of catalytic activity regulation of GTPase activity positive regulation of GTPase activity Rho protein signal transduction actin filament organization supramolecular fiber organization plasma membrane bounded cell projection organization ruffle organization cell projection organization regulation of cell projection organization regulation of cell projection assembly plasma membrane bounded cell projection assembly ruffle assembly regulation of plasma membrane bounded cell projection assembly regulation of ruffle assembly cell projection assembly regulation of plasma membrane bounded cell projection organization	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane synapse glutamatergic synapse organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane cytoplasmic vesicle intracellular vesicle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane secretory granule secretory vesicle secretory granule membrane cytoskeleton membraneless organelle intracellular membraneless organelle postsynapse cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001849	Pleckstrin homology domain	Domain
A	IPR006816	ELMO domain	Domain
A	IPR016024	Armadillo-type fold	Homologous Superfamily
A	IPR050868	Engulfment and cell motility domain-containing protein	Family
A	IPR024574	ELMO, armadillo-like helical domain	Domain
A	IPR011989	Armadillo-like helical	Homologous Superfamily
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
B	IPR043162	Dedicator of cytokinesis, C-terminal, lobe C	Homologous Superfamily
B	IPR016024	Armadillo-type fold	Homologous Superfamily
B	IPR042455	Dedicator of cytokinesis, N-terminal, subdomain 1	Homologous Superfamily
B	IPR026791	Dedicator of cytokinesis	Family
B	IPR046773	DOCKER, Lobe C	Domain
B	IPR036028	SH3-like domain superfamily	Homologous Superfamily
B	IPR056372	Dedicator of cytokinesis, TPR repeats region	Domain
B	IPR046770	DOCKER, Lobe B	Domain
B	IPR027357	DOCKER domain	Domain
B	IPR046769	DOCKER, Lobe A	Domain
B	IPR032376	Dedicator of cytokinesis, N-terminal domain	Domain
B	IPR047025	Dedicator of cytokinesis protein 1/5, SH3 domain	Domain
B	IPR030717	Dedicator of cytokinesis protein 5, DHR2 domain	Domain
B	IPR001452	SH3 domain	Domain
B	IPR035892	C2 domain superfamily	Homologous Superfamily
B	IPR027007	C2 DOCK-type domain	Domain
B	IPR043161	Dedicator of cytokinesis, C-terminal, lobe A	Homologous Superfamily
C [auth D]	IPR003578	Small GTPase Rho	Family
C [auth D]	IPR042734	Rho-related GTP-binding protein RhoG	Family
C [auth D]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth D]	IPR005225	Small GTP-binding domain	Domain
C [auth D]	IPR001806	Small GTPase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q92556	Stevens-Johnson syndrome esophageal adenocarcinoma primary biliary cholangitis psoriasis Nodular glomerulosclerosis pancreatic intraductal papillary-mucinous neoplasm pilocytic astrocytoma toxic epidermal necrolysis Alzheimer disease celiac disease Hashimoto thyroiditis lung adenocarcinoma malignant ependymoma medulloblastoma non-small cell lung carcinoma Stevens-Johnson syndrome esophageal adenocarcinoma primary biliary cholangitis psoriasis Nodular glomerulosclerosis pancreatic intraductal papillary-mucinous neoplasm pilocytic astrocytoma toxic epidermal necrolysis Alzheimer disease celiac disease Hashimoto thyroiditis lung adenocarcinoma malignant ependymoma medulloblastoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia ulcerative colitis attention deficit hyperactivity disorder, inattentive type diabetic kidney disease interstitial cystitis lung cancer malignant glioma ovarian cancer Pick disease subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma lung carcinoma malignant mesothelioma
B	Pharos: Q9H7D0	astrocytic tumor ductal breast carcinoma in situ lung cancer medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor atypical teratoid rhabdoid tumor heart disease malignant mesothelioma non-small cell lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm progressive supranuclear palsy breast cancer astrocytic tumor ductal breast carcinoma in situ lung cancer medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor atypical teratoid rhabdoid tumor heart disease malignant mesothelioma non-small cell lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm progressive supranuclear palsy breast cancer large cell medulloblastoma malignant pancreatic neoplasm oligodendroglioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia
C [auth D]	Pharos: P84095	astrocytic tumor osteosarcoma attention deficit hyperactivity disorder, inattentive type ovarian cancer conduct disorder psoriasis