Loading
PDBj
English日本語简体中文繁體中文한국어
✖
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help
SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

6X1G

Crystal structure of a GEF domain from the Orientia tsutsugamushi protein OtDUB in complex with Rac1

Functional Information from GO Data
ChainGOidnamespacecontents
B0000166molecular_functionnucleotide binding
B0000242cellular_componentpericentriolar material
B0001764biological_processneuron migration
B0001891cellular_componentphagocytic cup
B0001934biological_processpositive regulation of protein phosphorylation
B0002093biological_processauditory receptor cell morphogenesis
B0003376biological_processsphingosine-1-phosphate receptor signaling pathway
B0003382biological_processepithelial cell morphogenesis
B0003924molecular_functionGTPase activity
B0003925molecular_functionG protein activity
B0005515molecular_functionprotein binding
B0005525molecular_functionGTP binding
B0005634cellular_componentnucleus
B0005737cellular_componentcytoplasm
B0005789cellular_componentendoplasmic reticulum membrane
B0005802cellular_componenttrans-Golgi network
B0005829cellular_componentcytosol
B0005856cellular_componentcytoskeleton
B0005884cellular_componentactin filament
B0005886cellular_componentplasma membrane
B0005925cellular_componentfocal adhesion
B0005938cellular_componentcell cortex
B0006897biological_processendocytosis
B0006911biological_processphagocytosis, engulfment
B0006954biological_processinflammatory response
B0006972biological_processhyperosmotic response
B0007010biological_processcytoskeleton organization
B0007015biological_processactin filament organization
B0007155biological_processcell adhesion
B0007160biological_processcell-matrix adhesion
B0007163biological_processestablishment or maintenance of cell polarity
B0007167biological_processenzyme-linked receptor protein signaling pathway
B0007186biological_processG protein-coupled receptor signaling pathway
B0007264biological_processsmall GTPase-mediated signal transduction
B0007411biological_processaxon guidance
B0008045biological_processmotor neuron axon guidance
B0008360biological_processregulation of cell shape
B0009611biological_processresponse to wounding
B0009653biological_processanatomical structure morphogenesis
B0010310biological_processregulation of hydrogen peroxide metabolic process
B0010591biological_processregulation of lamellipodium assembly
B0010592biological_processpositive regulation of lamellipodium assembly
B0010595biological_processpositive regulation of endothelial cell migration
B0010762biological_processregulation of fibroblast migration
B0010764biological_processnegative regulation of fibroblast migration
B0010810biological_processregulation of cell-substrate adhesion
B0010811biological_processpositive regulation of cell-substrate adhesion
B0014041biological_processregulation of neuron maturation
B0016020cellular_componentmembrane
B0016358biological_processdendrite development
B0016477biological_processcell migration
B0016601biological_processRac protein signal transduction
B0016787molecular_functionhydrolase activity
B0019899molecular_functionenzyme binding
B0019901molecular_functionprotein kinase binding
B0021799biological_processcerebral cortex radially oriented cell migration
B0021831biological_processembryonic olfactory bulb interneuron precursor migration
B0021894biological_processcerebral cortex GABAergic interneuron development
B0022604biological_processregulation of cell morphogenesis
B0030027cellular_componentlamellipodium
B0030031biological_processcell projection assembly
B0030032biological_processlamellipodium assembly
B0030036biological_processactin cytoskeleton organization
B0030041biological_processactin filament polymerization
B0030334biological_processregulation of cell migration
B0030425cellular_componentdendrite
B0030667cellular_componentsecretory granule membrane
B0030672cellular_componentsynaptic vesicle membrane
B0030742molecular_functionGTP-dependent protein binding
B0030838biological_processpositive regulation of actin filament polymerization
B0030865biological_processcortical cytoskeleton organization
B0030900biological_processforebrain development
B0031116biological_processpositive regulation of microtubule polymerization
B0031410cellular_componentcytoplasmic vesicle
B0031529biological_processruffle organization
B0031901cellular_componentearly endosome membrane
B0031996molecular_functionthioesterase binding
B0032496biological_processresponse to lipopolysaccharide
B0032587cellular_componentruffle membrane
B0032707biological_processnegative regulation of interleukin-23 production
B0032956biological_processregulation of actin cytoskeleton organization
B0034446biological_processsubstrate adhesion-dependent cell spreading
B0035025biological_processpositive regulation of Rho protein signal transduction
B0035556biological_processintracellular signal transduction
B0035567biological_processnon-canonical Wnt signaling pathway
B0035774biological_processpositive regulation of insulin secretion involved in cellular response to glucose stimulus
B0036464cellular_componentcytoplasmic ribonucleoprotein granule
B0042470cellular_componentmelanosome
B0042554biological_processsuperoxide anion generation
B0042734cellular_componentpresynaptic membrane
B0042995cellular_componentcell projection
B0043020cellular_componentNADPH oxidase complex
B0043131biological_processerythrocyte enucleation
B0043652biological_processengulfment of apoptotic cell
B0044877molecular_functionprotein-containing complex binding
B0045202cellular_componentsynapse
B0045211cellular_componentpostsynaptic membrane
B0045216biological_processcell-cell junction organization
B0045428biological_processregulation of nitric oxide biosynthetic process
B0045730biological_processrespiratory burst
B0046425biological_processregulation of receptor signaling pathway via JAK-STAT
B0048012biological_processhepatocyte growth factor receptor signaling pathway
B0048168biological_processregulation of neuronal synaptic plasticity
B0048261biological_processnegative regulation of receptor-mediated endocytosis
B0048532biological_processanatomical structure arrangement
B0048812biological_processneuron projection morphogenesis
B0048813biological_processdendrite morphogenesis
B0048870biological_processcell motility
B0048873biological_processhomeostasis of number of cells within a tissue
B0051022molecular_functionRho GDP-dissociation inhibitor binding
B0051492biological_processregulation of stress fiber assembly
B0051496biological_processpositive regulation of stress fiber assembly
B0051668biological_processlocalization within membrane
B0051894biological_processpositive regulation of focal adhesion assembly
B0051897biological_processpositive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction
B0051932biological_processsynaptic transmission, GABAergic
B0055038cellular_componentrecycling endosome membrane
B0060071biological_processWnt signaling pathway, planar cell polarity pathway
B0060091cellular_componentkinocilium
B0060263biological_processregulation of respiratory burst
B0060326biological_processcell chemotaxis
B0060999biological_processpositive regulation of dendritic spine development
B0061344biological_processregulation of cell adhesion involved in heart morphogenesis
B0070062cellular_componentextracellular exosome
B0070376biological_processregulation of ERK5 cascade
B0071526biological_processsemaphorin-plexin signaling pathway
B0071542biological_processdopaminergic neuron differentiation
B0072659biological_processprotein localization to plasma membrane
B0086098biological_processangiotensin-activated signaling pathway involved in heart process
B0090023biological_processpositive regulation of neutrophil chemotaxis
B0090103biological_processcochlea morphogenesis
B0097178biological_processruffle assembly
B0098794cellular_componentpostsynapse
B0098978cellular_componentglutamatergic synapse
B0101003cellular_componentficolin-1-rich granule membrane
B0150052biological_processregulation of postsynapse assembly
B1900026biological_processpositive regulation of substrate adhesion-dependent cell spreading
B1900029biological_processpositive regulation of ruffle assembly
B1900242biological_processregulation of synaptic vesicle endocytosis
B1902622biological_processregulation of neutrophil migration
B1903348biological_processpositive regulation of bicellular tight junction assembly
B1904395biological_processpositive regulation of skeletal muscle acetylcholine-gated channel clustering
B1904936biological_processinterneuron migration
B1904948biological_processmidbrain dopaminergic neuron differentiation
B2000386biological_processpositive regulation of ovarian follicle development
B2001222biological_processregulation of neuron migration
D0000166molecular_functionnucleotide binding
D0000242cellular_componentpericentriolar material
D0001764biological_processneuron migration
D0001891cellular_componentphagocytic cup
D0001934biological_processpositive regulation of protein phosphorylation
D0002093biological_processauditory receptor cell morphogenesis
D0003376biological_processsphingosine-1-phosphate receptor signaling pathway
D0003382biological_processepithelial cell morphogenesis
D0003924molecular_functionGTPase activity
D0003925molecular_functionG protein activity
D0005515molecular_functionprotein binding
D0005525molecular_functionGTP binding
D0005634cellular_componentnucleus
D0005737cellular_componentcytoplasm
D0005789cellular_componentendoplasmic reticulum membrane
D0005802cellular_componenttrans-Golgi network
D0005829cellular_componentcytosol
D0005856cellular_componentcytoskeleton
D0005884cellular_componentactin filament
D0005886cellular_componentplasma membrane
D0005925cellular_componentfocal adhesion
D0005938cellular_componentcell cortex
D0006897biological_processendocytosis
D0006911biological_processphagocytosis, engulfment
D0006954biological_processinflammatory response
D0006972biological_processhyperosmotic response
D0007010biological_processcytoskeleton organization
D0007015biological_processactin filament organization
D0007155biological_processcell adhesion
D0007160biological_processcell-matrix adhesion
D0007163biological_processestablishment or maintenance of cell polarity
D0007167biological_processenzyme-linked receptor protein signaling pathway
D0007186biological_processG protein-coupled receptor signaling pathway
D0007264biological_processsmall GTPase-mediated signal transduction
D0007411biological_processaxon guidance
D0008045biological_processmotor neuron axon guidance
D0008360biological_processregulation of cell shape
D0009611biological_processresponse to wounding
D0009653biological_processanatomical structure morphogenesis
D0010310biological_processregulation of hydrogen peroxide metabolic process
D0010591biological_processregulation of lamellipodium assembly
D0010592biological_processpositive regulation of lamellipodium assembly
D0010595biological_processpositive regulation of endothelial cell migration
D0010762biological_processregulation of fibroblast migration
D0010764biological_processnegative regulation of fibroblast migration
D0010810biological_processregulation of cell-substrate adhesion
D0010811biological_processpositive regulation of cell-substrate adhesion
D0014041biological_processregulation of neuron maturation
D0016020cellular_componentmembrane
D0016358biological_processdendrite development
D0016477biological_processcell migration
D0016601biological_processRac protein signal transduction
D0016787molecular_functionhydrolase activity
D0019899molecular_functionenzyme binding
D0019901molecular_functionprotein kinase binding
D0021799biological_processcerebral cortex radially oriented cell migration
D0021831biological_processembryonic olfactory bulb interneuron precursor migration
D0021894biological_processcerebral cortex GABAergic interneuron development
D0022604biological_processregulation of cell morphogenesis
D0030027cellular_componentlamellipodium
D0030031biological_processcell projection assembly
D0030032biological_processlamellipodium assembly
D0030036biological_processactin cytoskeleton organization
D0030041biological_processactin filament polymerization
D0030334biological_processregulation of cell migration
D0030425cellular_componentdendrite
D0030667cellular_componentsecretory granule membrane
D0030672cellular_componentsynaptic vesicle membrane
D0030742molecular_functionGTP-dependent protein binding
D0030838biological_processpositive regulation of actin filament polymerization
D0030865biological_processcortical cytoskeleton organization
D0030900biological_processforebrain development
D0031116biological_processpositive regulation of microtubule polymerization
D0031410cellular_componentcytoplasmic vesicle
D0031529biological_processruffle organization
D0031901cellular_componentearly endosome membrane
D0031996molecular_functionthioesterase binding
D0032496biological_processresponse to lipopolysaccharide
D0032587cellular_componentruffle membrane
D0032707biological_processnegative regulation of interleukin-23 production
D0032956biological_processregulation of actin cytoskeleton organization
D0034446biological_processsubstrate adhesion-dependent cell spreading
D0035025biological_processpositive regulation of Rho protein signal transduction
D0035556biological_processintracellular signal transduction
D0035567biological_processnon-canonical Wnt signaling pathway
D0035774biological_processpositive regulation of insulin secretion involved in cellular response to glucose stimulus
D0036464cellular_componentcytoplasmic ribonucleoprotein granule
D0042470cellular_componentmelanosome
D0042554biological_processsuperoxide anion generation
D0042734cellular_componentpresynaptic membrane
D0042995cellular_componentcell projection
D0043020cellular_componentNADPH oxidase complex
D0043131biological_processerythrocyte enucleation
D0043652biological_processengulfment of apoptotic cell
D0044877molecular_functionprotein-containing complex binding
D0045202cellular_componentsynapse
D0045211cellular_componentpostsynaptic membrane
D0045216biological_processcell-cell junction organization
D0045428biological_processregulation of nitric oxide biosynthetic process
D0045730biological_processrespiratory burst
D0046425biological_processregulation of receptor signaling pathway via JAK-STAT
D0048012biological_processhepatocyte growth factor receptor signaling pathway
D0048168biological_processregulation of neuronal synaptic plasticity
D0048261biological_processnegative regulation of receptor-mediated endocytosis
D0048532biological_processanatomical structure arrangement
D0048812biological_processneuron projection morphogenesis
D0048813biological_processdendrite morphogenesis
D0048870biological_processcell motility
D0048873biological_processhomeostasis of number of cells within a tissue
D0051022molecular_functionRho GDP-dissociation inhibitor binding
D0051492biological_processregulation of stress fiber assembly
D0051496biological_processpositive regulation of stress fiber assembly
D0051668biological_processlocalization within membrane
D0051894biological_processpositive regulation of focal adhesion assembly
D0051897biological_processpositive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction
D0051932biological_processsynaptic transmission, GABAergic
D0055038cellular_componentrecycling endosome membrane
D0060071biological_processWnt signaling pathway, planar cell polarity pathway
D0060091cellular_componentkinocilium
D0060263biological_processregulation of respiratory burst
D0060326biological_processcell chemotaxis
D0060999biological_processpositive regulation of dendritic spine development
D0061344biological_processregulation of cell adhesion involved in heart morphogenesis
D0070062cellular_componentextracellular exosome
D0070376biological_processregulation of ERK5 cascade
D0071526biological_processsemaphorin-plexin signaling pathway
D0071542biological_processdopaminergic neuron differentiation
D0072659biological_processprotein localization to plasma membrane
D0086098biological_processangiotensin-activated signaling pathway involved in heart process
D0090023biological_processpositive regulation of neutrophil chemotaxis
D0090103biological_processcochlea morphogenesis
D0097178biological_processruffle assembly
D0098794cellular_componentpostsynapse
D0098978cellular_componentglutamatergic synapse
D0101003cellular_componentficolin-1-rich granule membrane
D0150052biological_processregulation of postsynapse assembly
D1900026biological_processpositive regulation of substrate adhesion-dependent cell spreading
D1900029biological_processpositive regulation of ruffle assembly
D1900242biological_processregulation of synaptic vesicle endocytosis
D1902622biological_processregulation of neutrophil migration
D1903348biological_processpositive regulation of bicellular tight junction assembly
D1904395biological_processpositive regulation of skeletal muscle acetylcholine-gated channel clustering
D1904936biological_processinterneuron migration
D1904948biological_processmidbrain dopaminergic neuron differentiation
D2000386biological_processpositive regulation of ovarian follicle development
D2001222biological_processregulation of neuron migration
Functional Information from PDB Data
site_idAC1
Number of Residues4
Detailsbinding site for residue MG C 801
ChainResidue
CHOH923
CHOH948
CHOH972
CHOH974
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues16
DetailsMotif: {"description":"Effector region","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"38332367","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8Q0N","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues14
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"11090627","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"38332367","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"38355798","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1E96","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKP","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8Q0N","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8WEJ","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues14
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"11090627","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"38332367","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1E96","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKP","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8Q0N","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues2
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"11090627","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1E96","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKP","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WKR","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues2
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"38355798","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8WEJ","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues2
DetailsModified residue: {"description":"(Microbial infection) O-AMP-tyrosine; by Haemophilus IbpA; alternate","evidences":[{"source":"PubMed","id":"19362538","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues2
DetailsModified residue: {"description":"(Microbial infection) O-AMP-threonine; by Vibrio VopS","evidences":[{"source":"PubMed","id":"19039103","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues2
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues2
DetailsGlycosylation: {"description":"(Microbial infection) O-linked (GlcNAc) tyrosine; by Photorhabdus PAU_02230; alternate","evidences":[{"source":"PubMed","id":"24141704","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues2
DetailsGlycosylation: {"description":"(Microbial infection) O-linked (Glc) threonine; by C.difficile toxins TcdA and TcdB, and by P.sordellii toxin TcsL; alternate","evidences":[{"source":"PubMed","id":"19744486","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24905543","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"7775453","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"7777059","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"18093184","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"38332367","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues4
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"23512198","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

239803

PDB entries from 2025-08-06

PDB statisticsPDBj update infoContact PDBjnumon