PF3D7_0602500

Genome location: Pf3D7_06_v3:105,022..107,401(+)

Genome classification: Core

Function and Localization

Product Description: geranylgeranyl transferase type-2 subunit beta, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 2.5.1.59 (Protein geranylgeranyltransferase type I);2.5.1.60 (Protein geranylgeranyltransferase type II)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0005968	Rab-protein geranylgeranyltransferase complex
Function	GO:0004663	Rab geranylgeranyltransferase activity
Function	GO:0004661	protein geranylgeranyltransferase activity
Process	GO:0018344	protein geranylgeranylation
Process	GO:0018342	protein prenylation

Expression by stage (LR - Le Roch et al., and MCA - Malaria Cell Atlas):

Stage	LR class	MCA mean	MCA prop. zeros
Sporozoite	possibly expressed	N/A	N/A
Ring	expressed	0.05	0.98
Trophozoite	expressed	0.21	0.86
Schizont	expressed	0.02	0.99
Gametocyte	expressed	0.05	0.97

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0602500

Resistome Missense Mutations: None

Resistome Compounds with Missense Mutations: None

Resistome # Samples with Disruptive Mutations: 0 (0 missense, 0 "interesting" missense)

Essentiality (ABS)

Zhang Phenotype: Non - Mutable in CDS

MIS: 0.158 | MFS: -3.256 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0101300)

Relative Growth Rate: 0.10 ± 0.23
Confidence: 1.00

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: C6KSM5

"Best" AlphaFill ligand hit: FPP (farnesyl diphosphate, Local RMSD=0.07) with 1LD7 (Global RMSD=4.26)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
2.5.1.59	protein geranylgeranyltransferase type I	BRENDA SOAP query unsuccessful
2.5.1.60	protein geranylgeranyltransferase type II	BRENDA SOAP query unsuccessful

Orthology to BindingDB Entries:

UniProt	Protein Name	Species	Homology Source	BindingDB Ligands
P22007	Protein farnesyltransferase subunit beta/geranylgeranyltransferase type-1 subunit alpha	Saccharomyces cerevisiae	OrthoDB	3-(4-Chlorophenyl)-4-cyano-5-(isopropylthio)thiophene-2-carboxylic acid (1a)3-(3-Chlorophenyl)-4-cyano-5-(isopropylthio)thiophene-2-carboxylic acid (1b)3-(2-Chlorophenyl)-4-cyano-5-(isopropylthio)thiophene-2-carboxylic acid (1c)3-(4-Fluorophenyl)-4-cyano-5-(isopropylthio)thiophene-2-carboxylic acid (1d)...
P53610	Geranylgeranyl transferase type-1 subunit beta		OrthoDB	CHEMBL1075839
Q5EAD5	Geranylgeranyl transferase type-1 subunit beta/Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha	Bos taurus	OrthoDB	A313326 Analogue 7A313326 Analogue 8A313326 Analogue 10A313326 Analogue 11...
P49356	Protein farnesyltransferase subunit beta	Homo sapiens	OrthoDB	CHEMBL334749CHEMBL334749CHEMBL311310CHEMBL440520...
P53609	Geranylgeranyl transferase type-1 subunit beta		OrthoDB	MSD-1CHEMBL99205CHEMBL327278CHEMBL102107...

Orthology Information

Ortholog Group (OrthoMCL): OG6_102449

Most Similar Human Ortholog: P53611

TM-align score: 0.91 | RMSD: 1.93

Seq Identity: 0.35 | Length: 317 / 379

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000137955	Rab geranylgeranyltransferase subunit beta

Protein Information

Protein Length: 379 | Molecular Weight (kDa): 43.726

UniProt ID(s): C6KSM5

PDB ID(s): None

Isoelectric Point: 5.88

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR001330	PFTB repeat
InterPro	IPR008930	Terpenoid cyclases/protein prenyltransferase alpha-alpha toroid
InterPro	IPR026873	Geranylgeranyl transferase type-2 subunit beta
PFam	PF00432	PFTB repeat
Superfamily	SSF48239	Terpenoid cyclases/protein prenyltransferase alpha-alpha toroid

Genetic Variation

MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	7	28	11	17
disruptive	7	37	17	48
missense	7	35	17	44

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	14	38	13	16
disruptive	14	73	42	73
missense	12	63	37	56

PlasmoDB Total SNPs: 153

Non-coding: 124 | Synonymous: 14 | Nonsynonymous: 13 | Stop Codon: 2