8ZJ2 | pdb_00008zj2

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

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
D [auth G]SCOP2B SuperfamilyRas-like P-loop GTPases 8057406 3002022 SCOP2B (2022-06-29)
B [auth C]SCOP2B SuperfamilyRas-like P-loop GTPases 8057406 3002022 SCOP2B (2022-06-29)
G [auth D]SCOP2B SuperfamilyRas-like P-loop GTPases 8098956 3002022 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth B],
C [auth F]		PF16172DOCK N-terminus (DOCK_N)DOCK N-terminus- Family
A [auth B],
C [auth F]		PF00018SH3 domain (SH3_1)SH3 domainSH3 (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
A [auth B],
C [auth F]		PF14429C2 domain in Dock180 and Zizimin proteins (DOCK-C2)C2 domain in Dock180 and Zizimin proteinsThe 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
A [auth B],
C [auth F]		PF20421DHR-2, Lobe C (DHR-2_Lobe_C)DHR-2, Lobe C- Repeat
A [auth B],
C [auth F]		PF06920DHR-2, Lobe A (DHR-2_Lobe_A)DHR-2, Lobe A- Repeat
A [auth B],
C [auth F]		PF20422DHR-2, Lobe B (DHR-2_Lobe_B)DHR-2, Lobe BDOCK (dedicator of cytokinesis) proteins are guanine nucleotide exchange factors (GEFs) that activate some small GTPases, such as Rac or Cdc42, by exchanging bound GDP for free GTP to control cell migration, morphogenesis, and phagocytosis. These pro ...DOCK (dedicator of cytokinesis) proteins are guanine nucleotide exchange factors (GEFs) that activate some small GTPases, such as Rac or Cdc42, by exchanging bound GDP for free GTP to control cell migration, morphogenesis, and phagocytosis. These proteins share a DOCK-type C2 domain (also termed the DOCK-homology region (DHR)-1) at the N-terminal, and the DHR-2 domain (also termed the DOCKER domain) at the C-terminal. DHR-2 is the GEF catalytic domain organised into three lobes A, B and C, with the Rho-family binding site and catalytic centre generated entirely from lobes B and C. This entry represents Lobe B which adopts an unusual architecture of two antiparallel beta sheets disposed in a loosely packed orthogonal arrangement. This lobe changes its position relative to lobe C and the bound GTPase, which suggests that lobe B distinguishes between the switch 1 conformations of Rac1 and Cdc42 [2].
Domain
B [auth C],
D [auth G]		PF00071Ras family (Ras)Ras familyIncludes 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
G [auth D]PF00071Ras family (Ras)Ras familyIncludes 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
E,
F [auth A]		PF04727ELMO/CED-12 family (ELMO_CED12)ELMO/CED-12 family- Family
E,
F [auth A]		PF11841ELMO, armadillo-like helical domain (ELMO_ARM)ELMO, armadillo-like helical domain- Repeat
E,
F [auth A]		PF16457Pleckstrin homology domain (PH_12)Pleckstrin homology domainDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth B],
C [auth F]		Dedicator of cytokinesis protein 5
B [auth C],
D [auth G]		Ras-related C3 botulinum toxin substrate 1
G [auth D]Rho-related GTP-binding protein RhoG
E,
F [auth A]		Engulfment and cell motility protein 1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth B],
C [auth F]		IPR043162Dedicator of cytokinesis, C-terminal, lobe CHomologous Superfamily
A [auth B],
C [auth F]		IPR016024Armadillo-type foldHomologous Superfamily
A [auth B],
C [auth F]		IPR042455Dedicator of cytokinesis, N-terminal, subdomain 1Homologous Superfamily
A [auth B],
C [auth F]		IPR026791Dedicator of cytokinesisFamily
A [auth B],
C [auth F]		IPR046773DOCKER, Lobe CDomain
A [auth B],
C [auth F]		IPR036028SH3-like domain superfamilyHomologous Superfamily
A [auth B],
C [auth F]		IPR056372Dedicator of cytokinesis, TPR repeats regionDomain
A [auth B],
C [auth F]		IPR046770DOCKER, Lobe BDomain
A [auth B],
C [auth F]		IPR027357DOCKER domainDomain
A [auth B],
C [auth F]		IPR046769DOCKER, Lobe ADomain
A [auth B],
C [auth F]		IPR032376Dedicator of cytokinesis, N-terminal domainDomain
A [auth B],
C [auth F]		IPR047025Dedicator of cytokinesis protein 1/5, SH3 domainDomain
A [auth B],
C [auth F]		IPR030717Dedicator of cytokinesis protein 5, DHR2 domainDomain
A [auth B],
C [auth F]		IPR001452SH3 domainDomain
A [auth B],
C [auth F]		IPR035892C2 domain superfamilyHomologous Superfamily
A [auth B],
C [auth F]		IPR027007C2 DOCK-type domainDomain
A [auth B],
C [auth F]		IPR043161Dedicator of cytokinesis, C-terminal, lobe AHomologous Superfamily
B [auth C],
D [auth G]		IPR001806Small GTPaseFamily
B [auth C],
D [auth G]		IPR003578Small GTPase RhoFamily
B [auth C],
D [auth G]		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
B [auth C],
D [auth G]		IPR005225Small GTP-binding domainDomain
G [auth D]IPR003578Small GTPase RhoFamily
G [auth D]IPR042734Rho-related GTP-binding protein RhoGFamily
G [auth D]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
G [auth D]IPR005225Small GTP-binding domainDomain
G [auth D]IPR001806Small GTPaseFamily
E,
F [auth A]		IPR001849Pleckstrin homology domainDomain
E,
F [auth A]		IPR006816ELMO domainDomain
E,
F [auth A]		IPR016024Armadillo-type foldHomologous Superfamily
E,
F [auth A]		IPR050868Engulfment and cell motility domain-containing proteinFamily
E,
F [auth A]		IPR024574ELMO, armadillo-like helical domainDomain
E,
F [auth A]		IPR011989Armadillo-like helicalHomologous Superfamily
E,
F [auth A]		IPR011993PH-like domain superfamilyHomologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
A [auth B],
C [auth F]		Pharos:  Q9H7D0
B [auth C],
D [auth G]		Pharos:  P63000
G [auth D]Pharos:  P84095
E,
F [auth A]		Pharos:  Q92556