PF3D7_1037600 (XPB)

Genome location: Pf3D7_10_v3:1,490,767..1,494,398(+)

Genome classification: Core

Function and Localization

Product Description: TFIIH basal transcription factor complex helicase XPB subunit, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 3.6.4.12 (DNA helicase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0000112	nucleotide-excision repair factor 3 complex
Component	GO:0005675	transcription factor TFIIH holo complex
Component	GO:0097550	transcription preinitiation complex
Function	GO:0043138	3'-5' DNA helicase activity
Function	GO:0016887	ATP hydrolysis activity
Function	GO:0003677	DNA binding
Function	GO:0003678	DNA helicase activity
Function	GO:0003684	damaged DNA binding
Function	GO:0004386	helicase activity
Function	GO:0008134	transcription factor binding
Process	GO:0000717	nucleotide-excision repair, DNA duplex unwinding
Process	GO:0033683	nucleotide-excision repair, DNA incision
Process	GO:0009411	response to UV
Process	GO:0006366	transcription by RNA polymerase II
Process	GO:0006367	transcription initiation from RNA polymerase II promoter

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

Stage	LR class	MCA mean	MCA prop. zeros
Sporozoite	not expressed	N/A	N/A
Ring	not expressed	0.26	0.87
Trophozoite	possibly expressed	0.35	0.78
Schizont	not expressed	0.19	0.87
Gametocyte	possibly expressed	0.42	0.75

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1037600

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: Mutable in CDS

MIS: 0.681 | MFS: -2.927 | #Insertions: 1

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0520500)

Relative Growth Rate: 0.14 ± 0.14
Confidence: 5.35

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8IJ31

"Best" AlphaFill ligand hit: No AlphaFill hits

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
3.6.4.12	DNA helicase	No BRENDA inhibitors

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_100822

Most Similar Human Ortholog: A0A2R8YES7

TM-align score: 0.82 | RMSD: 3.27

Seq Identity: 0.39 | Length: 376 / 886

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000163161	ERCC excision repair 3, TFIIH core complex helicase subunit

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	17	51	25	34
disruptive	5	31	21	49
missense	5	31	20	41

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	32	86	28	32
disruptive	13	82	40	112
missense	7	69	29	78

PlasmoDB Total SNPs: 141

Non-coding: 80 | Synonymous: 50 | Nonsynonymous: 11 | Stop Codon: 0

Protein Information

Protein Length: 886 | Molecular Weight (kDa): 102.876

UniProt ID(s): A0A0X8MP39, A0A109XFF4, A0A120LA41, Q8IJ31

PDB ID(s): None

Isoelectric Point: 9.77

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR001161	Helicase XPB/Ssl2
InterPro	IPR001650	Helicase, C-terminal
InterPro	IPR006935	Helicase/UvrB, N-terminal
InterPro	IPR014001	Helicase superfamily 1/2, ATP-binding domain
InterPro	IPR027417	P-loop containing nucleoside triphosphate hydrolase
InterPro	IPR032438	ERCC3/RAD25/XPB helicase, C-terminal domain
InterPro	IPR032830	Helicase XPB/Ssl2, N-terminal domain
PFam	PF04851	Helicase/UvrB, N-terminal
PFam	PF13625	Helicase XPB/Ssl2, N-terminal domain
PFam	PF16203	ERCC3/RAD25/XPB helicase, C-terminal domain
Superfamily	SSF52540	P-loop containing nucleoside triphosphate hydrolase