8FO9 | pdb_00008fo9

Cryo-EM structure of Rab29-LRRK2 complex in the LRRK2 tetramer state

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
FSCOP2B SuperfamilyRas-like P-loop GTPases 8092960 3002022 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyRas-like P-loop GTPases 8092960 3002022 SCOP2B (2022-06-29)
B [auth C]SCOP2B SuperfamilyRas-like P-loop GTPases 8092960 3002022 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyRas-like P-loop GTPases 8092960 3002022 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
C [auth B],
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
A,
B [auth C],
E,
F		PF16095C-terminal of Roc, COR-A domain (COR-A)C-terminal of Roc, COR-A domainThe C-terminal of Roc domain, COR, along with Roc functions as the putative regulator of kinase activity. It functions as a proper GTP-binding protein with a low GTPase activity somehow stimulating the kinase activity [1]. COR is divided in two subdo ...The C-terminal of Roc domain, COR, along with Roc functions as the putative regulator of kinase activity. It functions as a proper GTP-binding protein with a low GTPase activity somehow stimulating the kinase activity [1]. COR is divided in two subdomains: COR-A and COR-B. This entry corresponds to COR-A, located at the N-terminal of COR. It interacts with the Roc domain stabilising the GTPase activity of LRRK2 [2]. COR-A consists of multiple alpha-helices and a short three-stranded antiparallel sheet [3].
Domain
A,
B [auth C],
E,
F		PF13855Leucine rich repeat (LRR_8)Leucine rich repeat- Repeat
A,
B [auth C],
E,
F		PF08477Ras of Complex, Roc, domain of DAPkinase (Roc)Ras of Complex, Roc, domain of DAPkinaseRoc, or Ras of Complex, proteins are mitochondrial Rho proteins (Miro-1, Swiss:Q8IXI2, and Miro-2, Swiss:Q8IXI1) and atypical Rho GTPases. Full-length proteins have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains ...Roc, or Ras of Complex, proteins are mitochondrial Rho proteins (Miro-1, Swiss:Q8IXI2, and Miro-2, Swiss:Q8IXI1) and atypical Rho GTPases. Full-length proteins have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (Pfam:PF00036) that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis [1,2,3,4].
Domain
A,
B [auth C],
E,
F		PF00069Protein kinase domain (Pkinase)Protein kinase domainDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
C [auth B],
D		Ras-related protein Rab-7L1
A,
B [auth C],
E,
F		Leucine-rich repeat serine/threonine-protein kinase 2

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C [auth B],
D		IPR030697Ras-related protein Rab29/Rab38/Rab32Family
C [auth B],
D		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
C [auth B],
D		IPR005225Small GTP-binding domainDomain
C [auth B],
D		IPR001806Small GTPaseFamily
A,
B [auth C],
E,
F		IPR032171C-terminal of Roc, COR-A domainDomain
A,
B [auth C],
E,
F		IPR016024Armadillo-type foldHomologous Superfamily
A,
B [auth C],
E,
F		IPR000719Protein kinase domainDomain
A,
B [auth C],
E,
F		IPR020859Roc domainDomain
A,
B [auth C],
E,
F		IPR017441Protein kinase, ATP binding siteBinding Site
A,
B [auth C],
E,
F		IPR056597LRRK2, ARM repeat domainDomain
A,
B [auth C],
E,
F		IPR036770Ankyrin repeat-containing domain superfamilyHomologous Superfamily
A,
B [auth C],
E,
F		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
A,
B [auth C],
E,
F		IPR056593LRRK2, ANK repeat domainDomain
A,
B [auth C],
E,
F		IPR032675Leucine-rich repeat domain superfamilyHomologous Superfamily
A,
B [auth C],
E,
F		IPR008271Serine/threonine-protein kinase, active siteActive Site
A,
B [auth C],
E,
F		IPR051420Ser/Thr Protein Kinases with Diverse Regulatory RolesFamily
A,
B [auth C],
E,
F		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
A,
B [auth C],
E,
F		IPR001611Leucine-rich repeatRepeat
A,
B [auth C],
E,
F		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
A,
B [auth C],
E,
F		IPR056602LRRK2, beta-propellerDomain
A,
B [auth C],
E,
F		IPR003591Leucine-rich repeat, typical subtypeRepeat
A,
B [auth C],
E,
F		IPR011989Armadillo-like helicalHomologous Superfamily
A,
B [auth C],
E,
F		IPR005225Small GTP-binding domainDomain
A,
B [auth C],
E,
F		IPR011009Protein kinase-like domain superfamilyHomologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
C [auth B],
D		Pharos:  O14966
A,
B [auth C],
E,
F		Pharos:  Q5S007