6J7F

Complex of GGTaseIII, farnesyl-Ykt6 (C-terminal methylated), and GGPP

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
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d6j7fb_	All alpha proteins	alpha/alpha toroid	Terpenoid cyclases/Protein prenyltransferases	Protein prenyltransferases	Rab geranylgeranyltransferase, beta subunit	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Protein prenyltransferases	8094326	4001193	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Terpenoid cyclases/Protein prenyltransferases	8094327	3001024	SCOP2 (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	SQHop_cyclase_C	e6j7fB1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: SQHop_cyclase_C	ECOD (1.6)
C	Longin,Synaptobrevin	e6j7fC1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Longin,Synaptobrevin	ECOD (1.6)
A	PPTA	e6j7fA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PPTA	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.50.10.20	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF00432	Prenyltransferase alpha-alpha toroid domain (Prenyltrans)	Prenyltransferase and squalene oxidase repeat	-	Repeat
C	PF00957	Synaptobrevin (Synaptobrevin)	Synaptobrevin	-	Family
C	PF13774	Regulated-SNARE-like domain (Longin)	Regulated-SNARE-like domain	Longin is one of the approximately 26 components required for transporting proteins from the ER to the plasma membrane, via the Golgi apparatus. It is necessary for the steps of the transfer from the ER to the Golgi complex [1]. Longins are the only ...	Longin is one of the approximately 26 components required for transporting proteins from the ER to the plasma membrane, via the Golgi apparatus. It is necessary for the steps of the transfer from the ER to the Golgi complex [1]. Longins are the only R-SNAREs that are common to all eukaryotes, and they are characterised by a conserved N-terminal domain with a profilin-like fold called a longin domain [2].	Domain
A	PF01239	Protein prenyltransferase alpha subunit repeat (PPTA)	Protein prenyltransferase alpha subunit repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Geranylgeranyl transferase type-2 subunit beta	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	macromolecule modification metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process protein modification process multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception protein prenylation macromolecule modification metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process protein modification process multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception protein prenylation protein geranylgeranylation prenylation	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane protein-containing complex catalytic complex polyprenyl diphosphate synthase complex Rab-protein geranylgeranyltransferase complex transferase complex
C	Synaptobrevin homolog YKT6	SNAP receptor activity protein-macromolecule adaptor activity molecular adaptor activity cell adhesion molecule binding cadherin binding protein binding binding protein-cysteine S-acyltransferase activity catalytic activity, acting on a protein acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity protein-cysteine S-palmitoyltransferase activity S-acyltransferase activity SNAP receptor activity protein-macromolecule adaptor activity molecular adaptor activity cell adhesion molecule binding cadherin binding protein binding binding protein-cysteine S-acyltransferase activity catalytic activity, acting on a protein acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity protein-cysteine S-palmitoyltransferase activity S-acyltransferase activity catalytic activity palmitoyltransferase activity	protein localization establishment of protein localization cellular localization nitrogen compound transport transport establishment of localization localization protein transport cellular macromolecule localization macromolecule localization cellular process secretion export from cell membrane docking protein localization establishment of protein localization cellular localization nitrogen compound transport transport establishment of localization localization protein transport cellular macromolecule localization macromolecule localization cellular process secretion export from cell membrane docking vesicle-mediated transport organelle localization by membrane tethering secretion by cell exocytosis organelle localization vesicle docking exocytic process vesicle docking involved in exocytosis establishment of localization in cell intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport Golgi vesicle transport endosomal transport cytosolic transport retrograde transport, endosome to Golgi vesicle localization establishment of organelle localization establishment of vesicle localization vesicle targeting	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol SNARE complex protein-containing complex membrane membrane protein complex cell periphery membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol SNARE complex protein-containing complex membrane membrane protein complex cell periphery plasma membrane transport vesicle intracellular vesicle endomembrane system cytoplasmic vesicle vesicle cytoplasmic vesicle membrane vesicle membrane organelle membrane basal dendrite somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection Golgi apparatus endosome Golgi membrane bounding membrane of organelle endoplasmic reticulum-Golgi intermediate compartment membrane endoplasmic reticulum-Golgi intermediate compartment cell body neuronal cell body apical dendrite endoplasmic reticulum
A	Protein prenyltransferase alpha subunit repeat-containing protein 1	catalytic activity, acting on a protein protein prenyltransferase activity prenyltransferase activity transferase activity catalytic activity transferase activity, transferring alkyl or aryl (other than methyl) groups	macromolecule modification protein prenylation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process prenylation protein modification process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR045089	Prenyltransferase subunit beta	Family
B	IPR026873	Geranylgeranyl transferase type-2 subunit beta	Family
B	IPR008930	Terpenoid cyclases/protein prenyltransferase alpha-alpha toroid	Homologous Superfamily
B	IPR001330	Prenyltransferase alpha-alpha toroid domain	Domain
C	IPR045848	YKT6, SNARE motif	Domain
C	IPR011012	Longin-like domain superfamily	Homologous Superfamily
C	IPR010908	Longin domain	Domain
C	IPR042855	v-SNARE, coiled-coil homology domain	Domain
A	IPR002088	Protein prenyltransferase, alpha subunit	Repeat

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: P53611	atypical teratoid rhabdoid tumor lung cancer ovarian cancer breast cancer medulloblastoma plasma cell myeloma dermatomyositis myopathy psoriasis
C	Pharos: O15498	carpal tunnel syndrome metabolic syndrome X psoriasis glioblastoma non-small cell lung carcinoma Sjogren syndrome lung cancer plasma cell myeloma
A	Pharos: Q7Z6K3	adrenal cortex carcinoma myopathy pancreatic intraductal papillary-mucinous carcinoma atypical teratoid rhabdoid tumor osteosarcoma pancreatic intraductal papillary-mucinous neoplasm malignant ependymoma ovarian cancer

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C	CMT	Parent Component: CYS RESID: AA0105 PSI-MOD : L-cysteine methyl ester MOD:00114

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.