1N4P | pdb_00001n4p

Protein Geranylgeranyltransferase type-I Complexed with Geranylgeranyl Diphosphate

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1n4pa_	All alpha proteins	alpha-alpha superhelix	Protein prenylyltransferase	Protein prenylyltransferase	Protein farnesyltransferase alpha-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
C	d1n4pc_	All alpha proteins	alpha-alpha superhelix	Protein prenylyltransferase	Protein prenylyltransferase	Protein farnesyltransferase alpha-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
E	d1n4pe_	All alpha proteins	alpha-alpha superhelix	Protein prenylyltransferase	Protein prenylyltransferase	Protein farnesyltransferase alpha-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
G	d1n4pg_	All alpha proteins	alpha-alpha superhelix	Protein prenylyltransferase	Protein prenylyltransferase	Protein farnesyltransferase alpha-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
I	d1n4pi_	All alpha proteins	alpha-alpha superhelix	Protein prenylyltransferase	Protein prenylyltransferase	Protein farnesyltransferase alpha-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
K	d1n4pk_	All alpha proteins	alpha-alpha superhelix	Protein prenylyltransferase	Protein prenylyltransferase	Protein farnesyltransferase alpha-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d1n4pb_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Protein farnesyltransferase, beta-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
D	d1n4pd_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Protein farnesyltransferase, beta-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
F	d1n4pf_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Protein farnesyltransferase, beta-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
H	d1n4ph_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Protein farnesyltransferase, beta-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
J	d1n4pj_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Protein farnesyltransferase, beta-subunit	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
L	d1n4pl_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Protein farnesyltransferase, beta-subunit	Rat (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	SCOP2B Superfamily	Protein prenylyltransferase	8038634	3001312	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Protein prenylyltransferase	8038634	3001312	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Protein prenylyltransferase	8038634	3001312	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Protein prenylyltransferase	8038634	3001312	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Protein prenylyltransferase	8038634	3001312	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Protein prenylyltransferase	8038634	3001312	SCOP2B (2022-06-29)
B	SCOP2 Family	Protein prenyltransferases	8084557	4001193	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Terpenoid cyclases/Protein prenyltransferases	8084558	3001024	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	Terpenoid cyclases/Protein prenyltransferases	8084558	3001024	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Terpenoid cyclases/Protein prenyltransferases	8084558	3001024	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Terpenoid cyclases/Protein prenyltransferases	8084558	3001024	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Terpenoid cyclases/Protein prenyltransferases	8084558	3001024	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Terpenoid cyclases/Protein prenyltransferases	8084558	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	PPTA	e1n4pA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)
C	PPTA	e1n4pC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)
E	PPTA	e1n4pE1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)
G	PPTA	e1n4pG1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)
I	PPTA	e1n4pI1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)
K	PPTA	e1n4pK1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)
B	SQHop_cyclase_C	e1n4pB1	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	e1n4pD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: SQHop_cyclase_C	ECOD (1.6)
F	SQHop_cyclase_C	e1n4pF1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: SQHop_cyclase_C	ECOD (1.6)
H	SQHop_cyclase_C	e1n4pH1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: SQHop_cyclase_C	ECOD (1.6)
J	SQHop_cyclase_C	e1n4pJ1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: SQHop_cyclase_C	ECOD (1.6)
L	SQHop_cyclase_C	e1n4pL1	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)
C	1.25.40.120	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Protein prenylyltransferase	CATH (4.3.0)
E	1.25.40.120	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Protein prenylyltransferase	CATH (4.3.0)
G	1.25.40.120	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Protein prenylyltransferase	CATH (4.3.0)
I	1.25.40.120	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Protein prenylyltransferase	CATH (4.3.0)
K	1.25.40.120	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Protein prenylyltransferase	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)
F	1.50.10.20	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		CATH (4.3.0)
H	1.50.10.20	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		CATH (4.3.0)
J	1.50.10.20	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		CATH (4.3.0)
L	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, E, G, I A, C, E, G, I, K	PF01239	Protein prenyltransferase alpha subunit repeat (PPTA)	Protein prenyltransferase alpha subunit repeat	-	Repeat
B, D, F, H, J B, D, F, H, J, L	PF00432	Prenyltransferase alpha-alpha toroid domain (Prenyltrans)	Prenyltransferase alpha-alpha toroid domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E, G, I A, C, E, G, I, K	Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha	catalytic activity, acting on a protein protein geranylgeranyltransferase activity protein prenyltransferase activity prenyltransferase activity transferase activity catalytic activity transferase activity, transferring alkyl or aryl (other than methyl) groups cytoskeletal protein binding protein binding binding tubulin binding alpha-tubulin binding microtubule binding Rab geranylgeranyltransferase activity catalytic activity, acting on a protein protein geranylgeranyltransferase activity protein prenyltransferase activity prenyltransferase activity transferase activity catalytic activity transferase activity, transferring alkyl or aryl (other than methyl) groups cytoskeletal protein binding protein binding binding tubulin binding alpha-tubulin binding microtubule binding Rab geranylgeranyltransferase activity enzyme regulator activity enzyme activator activity molecular function activator activity acetyltransferase activator activity molecular function regulator activity molecular adaptor activity protein farnesyltransferase activity protein tyrosine kinase binding kinase binding signaling receptor binding receptor tyrosine kinase binding enzyme binding protein kinase binding CAAX-protein geranylgeranyltransferase activity	regulation of biological process regulation of cellular process biological regulation positive regulation of biological process cellular process cell cycle regulation of cell cycle positive regulation of cell cycle positive regulation of cellular process cellular response to stimulus positive regulation of cell communication small GTPase-mediated signal transduction positive regulation of signal transduction response to stimulus regulation of biological process regulation of cellular process biological regulation positive regulation of biological process cellular process cell cycle regulation of cell cycle positive regulation of cell cycle positive regulation of cellular process cellular response to stimulus positive regulation of cell communication small GTPase-mediated signal transduction positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling Rac protein signal transduction positive regulation of intracellular signal transduction regulation of Rac protein signal transduction positive regulation of Rac protein signal transduction regulation of response to stimulus regulation of cell communication positive regulation of small GTPase mediated signal transduction positive regulation of signaling regulation of localization cellular localization regulation of protein localization cellular component organization localization neuromuscular junction development receptor clustering synapse organization cellular component organization or biogenesis intracellular protein localization regulation of skeletal muscle acetylcholine-gated channel clustering regulation of receptor clustering postsynaptic membrane organization regulation of protein localization to membrane membrane organization postsynapse organization positive regulation of receptor clustering skeletal muscle acetylcholine-gated channel clustering positive regulation of protein localization to membrane localization within membrane protein localization to membrane positive regulation of skeletal muscle acetylcholine-gated channel clustering cell junction organization regulation of cellular localization macromolecule localization positive regulation of protein localization negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death regulation of microtubule-based process regulation of microtubule-based movement microtubule-based movement microtubule-based process protein farnesylation macromolecule modification protein prenylation metabolic process primary metabolic process protein metabolic process macromolecule metabolic process prenylation protein modification process protein geranylgeranylation cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation cell surface receptor signaling pathway enzyme-linked receptor protein signaling pathway biosynthetic process gene expression macromolecule biosynthetic process peptide pheromone maturation protein maturation	protein-containing complex protein farnesyltransferase complex cellular anatomical structure intracellular anatomical structure catalytic complex transferase complex cytoplasm intracellular organelle cytoskeleton organelle membraneless organelle microtubule associated complex intracellular membraneless organelle microtubule cytoskeleton protein-containing complex protein farnesyltransferase complex cellular anatomical structure intracellular anatomical structure catalytic complex transferase complex cytoplasm intracellular organelle cytoskeleton organelle membraneless organelle microtubule associated complex intracellular membraneless organelle microtubule cytoskeleton CAAX-protein geranylgeranyltransferase complex intracellular protein-containing complex
B, D, F, H, J B, D, F, H, J, L	Geranylgeranyl transferase type-1 subunit beta	catalytic activity, acting on a protein protein geranylgeranyltransferase activity protein prenyltransferase activity prenyltransferase activity transferase activity catalytic activity transferase activity, transferring alkyl or aryl (other than methyl) groups binding heterocyclic compound binding small molecule binding cation binding transition metal ion binding zinc ion binding ion binding catalytic activity, acting on a protein protein geranylgeranyltransferase activity protein prenyltransferase activity prenyltransferase activity transferase activity catalytic activity transferase activity, transferring alkyl or aryl (other than methyl) groups binding heterocyclic compound binding small molecule binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding CAAX-protein geranylgeranyltransferase activity	regulation of biological process regulation of cellular process biological regulation positive regulation of biological process cellular process cell cycle regulation of cell cycle positive regulation of cell cycle positive regulation of cellular process cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation macromolecule modification protein prenylation regulation of biological process regulation of cellular process biological regulation positive regulation of biological process cellular process cell cycle regulation of cell cycle positive regulation of cell cycle positive regulation of cellular process cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation macromolecule modification protein prenylation protein geranylgeranylation metabolic process primary metabolic process protein metabolic process macromolecule metabolic process prenylation protein modification process	protein-containing complex catalytic complex CAAX-protein geranylgeranyltransferase complex transferase complex intracellular protein-containing complex
M, N	Fusion protein consisting of transforming protein p21b and Ras related protein Rap-2b	protein binding binding protein domain specific binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding protein binding binding protein domain specific binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding GDP binding pyrophosphatase activity GTPase activity G protein activity ribonucleoside triphosphate phosphatase activity molecular function regulator activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	cellular response to stimulus regulation of biological process small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication intracellular signaling cassette cellular process signal transduction Rap protein signal transduction multicellular organismal process cellular response to stimulus regulation of biological process small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication intracellular signaling cassette cellular process signal transduction Rap protein signal transduction multicellular organismal process regulation of body fluid levels wound healing homotypic cell-cell adhesion cell activation hemostasis platelet aggregation blood coagulation cell adhesion cell-cell adhesion response to stress coagulation regulation of biological quality response to wounding platelet activation regulation of protein modification process regulation of protein phosphorylation regulation of catalytic activity peptidyl-tyrosine modification regulation of transferase activity regulation of primary metabolic process regulation of phosphate metabolic process peptidyl-amino acid modification phosphate-containing compound metabolic process protein metabolic process protein modification process phosphorus metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process regulation of peptidyl-tyrosine phosphorylation primary metabolic process regulation of macromolecule metabolic process regulation of protein kinase activity regulation of molecular function regulation of protein tyrosine kinase activity regulation of kinase activity macromolecule modification metabolic process regulation of phosphorylation regulation of phosphorus metabolic process macromolecule metabolic process peptidyl-tyrosine phosphorylation regulation of metabolic process negative regulation of locomotion regulation of cell motility negative regulation of biological process regulation of locomotion negative regulation of cellular process regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion	membrane-bounded organelle intracellular anatomical structure tertiary granule membrane membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system tertiary granule intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle membrane-bounded organelle intracellular anatomical structure tertiary granule membrane membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system tertiary granule intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane specific granule membrane specific granule extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle cytosol cell periphery plasma membrane membrane microdomain membrane raft cell-cell junction anchoring junction cell junction cell-cell contact zone endosome membrane endosome recycling endosome recycling endosome membrane apical junction complex bicellular tight junction tight junction

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E, G, I A, C, E, G, I, K	IPR002088	Protein prenyltransferase, alpha subunit	Repeat
B, D, F, H, J B, D, F, H, J, L	IPR045089	Prenyltransferase subunit beta	Family
B, D, F, H, J B, D, F, H, J, L	IPR008930	Terpenoid cyclases/protein prenyltransferase alpha-alpha toroid	Homologous Superfamily
B, D, F, H, J B, D, F, H, J, L	IPR041960	Geranylgeranyl transferase type-1 subunit beta	Family
B, D, F, H, J B, D, F, H, J, L	IPR001330	Prenyltransferase alpha-alpha toroid domain	Domain
M, N	IPR041840	Ras-related protein Rap2	Family
M, N	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
M, N	IPR005225	Small GTP-binding domain	Domain
M, N	IPR020849	Small GTPase, Ras-type	Family
M, N	IPR001806	Small GTPase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
M, N	Pharos: P61225	astrocytic tumor dermatomyositis juvenile dermatomyositis malignant pancreatic neoplasm ovarian cancer pancreatic intraductal papillary-mucinous neoplasm breast cancer Duchenne muscular dystrophy large cell medulloblastoma oligodendroglioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia cutaneous lupus erythematosus glioblastoma lung carcinoma astrocytic tumor dermatomyositis juvenile dermatomyositis malignant pancreatic neoplasm ovarian cancer pancreatic intraductal papillary-mucinous neoplasm breast cancer Duchenne muscular dystrophy large cell medulloblastoma oligodendroglioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia cutaneous lupus erythematosus glioblastoma lung carcinoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma subependymal giant cell astrocytoma

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.