Annotations: 1DCE

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1dcea1	All alpha proteins	alpha-alpha superhelix	Protein prenylyltransferase	Protein prenylyltransferase	Rab geranylgeranyltransferase alpha-subunit, N-terminal domain	(Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
A	d1dcea2	All beta proteins	C2 domain-like	Rab geranylgeranyltransferase alpha-subunit, insert domain	Rab geranylgeranyltransferase alpha-subunit, insert domain	Rab geranylgeranyltransferase alpha-subunit, insert domain	(Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
A	d1dcea3	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Rab geranylgeranyltransferase alpha-subunit, C-terminal domain	Rab geranylgeranyltransferase alpha-subunit, C-terminal domain	(Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
C	d1dcec1	All alpha proteins	alpha-alpha superhelix	Protein prenylyltransferase	Protein prenylyltransferase	Rab geranylgeranyltransferase alpha-subunit, N-terminal domain	(Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
C	d1dcec2	All beta proteins	C2 domain-like	Rab geranylgeranyltransferase alpha-subunit, insert domain	Rab geranylgeranyltransferase alpha-subunit, insert domain	Rab geranylgeranyltransferase alpha-subunit, insert domain	(Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
C	d1dcec3	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Rab geranylgeranyltransferase alpha-subunit, C-terminal domain	Rab geranylgeranyltransferase alpha-subunit, C-terminal domain	(Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d1dceb_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Rab geranylgeranyltransferase, beta subunit	(Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
D	d1dced_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Rab geranylgeranyltransferase, beta subunit	(Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Protein prenylyltransferase	8026258	4001331	SCOP2 (2022-06-29)
A	SCOP2 Family	rab geranylgeranyltransferase alpha-subunit, insert domain	8028351	4002262	SCOP2 (2022-06-29)
A	SCOP2 Family	Rab geranylgeranyltransferase alpha-subunit, C-terminal domain	8031611	4003537	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Protein prenylyltransferase	8038637	3001312	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Rab geranylgeranyltransferase alpha-subunit, insert domain	8040730	3001017	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	L domain-like	8043989	3001010	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	L domain-like	8043989	3001010	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Rab geranylgeranyltransferase alpha-subunit, insert domain	8040730	3001017	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Protein prenylyltransferase	8038637	3001312	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Protein prenylyltransferase	8038637	3001312	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Terpenoid cyclases/Protein prenyltransferases	8040875	3001024	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Terpenoid cyclases/Protein prenyltransferases	8040875	3001024	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)
A	RabGGT_insert	e1dceA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: RabGGT_insert	ECOD (1.6)
A	LRR_9	e1dceA3	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: LRR_9	ECOD (1.6)
A	PPTA	e1dceA2	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)
C	RabGGT_insert	e1dceC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: RabGGT_insert	ECOD (1.6)
C	LRR_9	e1dceC3	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: LRR_9	ECOD (1.6)
C	PPTA	e1dceC2	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)
B	SQHop_cyclase_C	e1dceB1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: SQHop_cyclase_C	ECOD (1.6)
D	SQHop_cyclase_C	e1dceD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: SQHop_cyclase_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.25.40.120	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Protein prenylyltransferase	CATH (4.3.0)
A	2.60.40.1130	Mainly Beta	Sandwich	Immunoglobulin-like	Rab geranylgeranyltransferase alpha-subunit, insert domain	CATH (4.3.0)
A	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
C	1.25.40.120	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Protein prenylyltransferase	CATH (4.3.0)
C	2.60.40.1130	Mainly Beta	Sandwich	Immunoglobulin-like	Rab geranylgeranyltransferase alpha-subunit, insert domain	CATH (4.3.0)
C	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
B	1.50.10.20	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		CATH (4.3.0)
D	1.50.10.20	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF01239	Protein prenyltransferase alpha subunit repeat (PPTA)	Protein prenyltransferase alpha subunit repeat	-	Repeat
A, C	PF07711	Rab geranylgeranyl transferase alpha-subunit, insert domain (RabGGT_insert)	Rab geranylgeranyl transferase alpha-subunit, insert domain	Rab geranylgeranyl transferase (RabGGT) catalyses the addition of two geranylgeranyl groups to the C-terminal cysteine residues of Rab proteins, which is crucial for membrane association and function of these proteins in intracellular vesicular traff ...	Rab geranylgeranyl transferase (RabGGT) catalyses the addition of two geranylgeranyl groups to the C-terminal cysteine residues of Rab proteins, which is crucial for membrane association and function of these proteins in intracellular vesicular trafficking [1]. This domain is inserted between Pfam:PF01239 repeats. This domain adopts an Ig-like fold and is thought to be involved in protein-protein interactions and might be involved in the recognition and binding of REP [1].	Domain
B, D	PF00432	Prenyltransferase and squalene oxidase repeat (Prenyltrans)	Prenyltransferase and squalene oxidase repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	PROTEIN (RAB GERANYLGERANYLTRANSFERASE ALPHA SUBUNIT)	small GTPase binding protein binding binding enzyme binding GTPase binding catalytic activity, acting on a protein protein geranylgeranyltransferase activity protein prenyltransferase activity Rab geranylgeranyltransferase activity prenyltransferase activity transferase activity catalytic activity transferase activity, transferring alkyl or aryl (other than methyl) groups cation binding small GTPase binding protein binding binding enzyme binding GTPase binding catalytic activity, acting on a protein protein geranylgeranyltransferase activity protein prenyltransferase activity Rab geranylgeranyltransferase activity prenyltransferase activity transferase activity catalytic activity transferase activity, transferring alkyl or aryl (other than methyl) groups cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular metabolic process protein geranylgeranylation primary metabolic process macromolecule modification protein prenylation metabolic process cellular process protein metabolic process macromolecule metabolic process prenylation protein modification process	protein-containing complex intracellular anatomical structure catalytic complex polyprenyl diphosphate synthase complex Rab-protein geranylgeranyltransferase complex cytoplasm cellular anatomical entity transferase complex
B, D	PROTEIN (RAB GERANYLGERANYLTRANSFERASE BETA SUBUNIT)	small GTPase binding protein binding binding enzyme binding GTPase binding isoprenoid binding lipid binding catalytic activity, acting on a protein protein geranylgeranyltransferase activity protein prenyltransferase activity Rab geranylgeranyltransferase activity prenyltransferase activity transferase activity catalytic activity small GTPase binding protein binding binding enzyme binding GTPase binding isoprenoid binding lipid binding catalytic activity, acting on a protein protein geranylgeranyltransferase activity protein prenyltransferase activity Rab geranylgeranyltransferase activity prenyltransferase activity transferase activity catalytic activity transferase activity, transferring alkyl or aryl (other than methyl) groups cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular metabolic process protein geranylgeranylation primary metabolic process macromolecule modification protein prenylation metabolic process cellular process protein metabolic process macromolecule metabolic process prenylation protein modification process	protein-containing complex intracellular anatomical structure catalytic complex polyprenyl diphosphate synthase complex Rab-protein geranylgeranyltransferase complex cytoplasm cellular anatomical entity transferase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR009087	Rab geranylgeranyltransferase, alpha subunit, insert-domain	Domain
A, C	IPR002088	Protein prenyltransferase, alpha subunit	Repeat
A, C	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, C	IPR036254	Rab geranylgeranyltransferase, alpha subunit, insert-domain superfamily	Homologous Superfamily
B, D	IPR045089	Prenyltransferase subunit beta	Family
B, D	IPR026873	Geranylgeranyl transferase type-2 subunit beta	Family
B, D	IPR001330	PFTB repeat	Repeat
B, D	IPR008930	Terpenoid cyclases/protein prenyltransferase alpha-alpha toroid	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, C	FME	Parent Component: MET RESID: AA0021 , AA0566 PSI-MOD : N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891

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.