6HLU | pdb_00006hlu

Crystal structure of the LRR-Roc-COR domain of the Chlorobium tepidum Roco protein

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Winged helix DNA-binding domain	8053520	3000034	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ras-like P-loop GTPases	8053531	3002022	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	COR C-terminal lobe-like	8053527	3002202	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8053531	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Winged helix DNA-binding domain	8053520	3000034	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Winged helix DNA-binding domain	8053521	3000034	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	COR C-terminal lobe-like	8053527	3002202	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)
B		e6hluB1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Oxidored_q2	F:	ECOD (20:10:01)
A		e6hluA1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: UCR_UQCRX_QCR9	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF16095	C-terminal of Roc, COR-A domain (COR-A)	C-terminal of Roc, COR-A domain	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 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	PF08477	Ras of Complex, Roc, domain of DAPkinase (Roc)	Ras of Complex, Roc, domain of DAPkinase	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 ...	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	PF25497	C-terminal of Roc, COR-B domain (COR-B)	C-terminal of Roc, COR-B domain	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 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-B, located at the C-terminal of COR. COR-B serves as the main dimerisation interface in the full-length LRRK2 structure [3]. It interacts with the kinase domain, which is essential for LRRK2 kinase activity [2]. COR-B consists of four flanked helices, a central seven-stranded antiparallel sheet, and a hairpin motif [3].	Domain
A, B	PF12799	Leucine Rich repeats (2 copies) (LRR_4)	Leucine Rich repeats (2 copies)	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Rab family protein	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 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 protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups guanyl nucleotide binding GTP binding guanyl ribonucleotide binding identical protein binding protein binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR005225	Small GTP-binding domain	Domain
A, B	IPR025875	Leucine rich repeat 4	Repeat
A, B	IPR032171	C-terminal of Roc, COR-A domain	Domain
A, B	IPR001611	Leucine-rich repeat	Repeat
A, B	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR003591	Leucine-rich repeat, typical subtype	Repeat
A, B	IPR057263	C-terminal of Roc, COR-B domain	Domain
A, B	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, B	IPR020859	Roc domain	Domain
A, B	IPR050836	SDS22/Internalin LRR-containing	Family
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

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.