PF3D7_1134700 (RPA2)

Genome location: Pf3D7_11_v3:1,358,907..1,364,530(-)

Genome classification: Core

Function and Localization

Product Description: DNA-directed RNA polymerase I subunit RPA2, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 2.7.7.6 (DNA-directed RNA polymerase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0005736	RNA polymerase I complex
Function	GO:0003677	DNA binding
Function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
Process	GO:0006360	transcription by RNA polymerase I

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	1.10	0.51
Trophozoite	expressed	0.47	0.75
Schizont	not expressed	0.18	0.90
Gametocyte	expressed	0.49	0.72

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1134700

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: 0.12 | MFS: -2.941 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0913800)

Relative Growth Rate: 0.38 ± 0.31
Confidence: 3.75

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8II17

"Best" AlphaFill ligand hit: APC (alpha,beta-methyleneadenosine-5'-triphosphate, Local RMSD=0.06) with 5XOG (Global RMSD=4.25)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
2.7.7.6	DNA-directed RNA polymerase	BRENDA SOAP query unsuccessful

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_102249

Most Similar Human Ortholog: Q9H9Y6

TM-align score: 0.92 | RMSD: 2.97

Seq Identity: 0.35 | Length: 1098 / 1517

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000125630	RNA polymerase I subunit B

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	9	77	41	120
disruptive	23	90	48	140
missense	19	87	46	111

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	24	157	68	123
disruptive	40	200	103	261
missense	28	169	79	178

PlasmoDB Total SNPs: 221

Non-coding: 139 | Synonymous: 52 | Nonsynonymous: 30 | Stop Codon: 0

Protein Information

Protein Length: 1517 | Molecular Weight (kDa): 175.532

UniProt ID(s): Q8II17

PDB ID(s): None

Isoelectric Point: 9.2

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain
InterPro	IPR007121	RNA polymerase, beta subunit, conserved site
InterPro	IPR007641	RNA polymerase Rpb2, domain 7
InterPro	IPR007644	RNA polymerase, beta subunit, protrusion
InterPro	IPR007645	RNA polymerase Rpb2, domain 3
InterPro	IPR015712	DNA-directed RNA polymerase, subunit 2
PFam	PF00562	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain
PFam	PF04560	RNA polymerase Rpb2, domain 7
PFam	PF04563	RNA polymerase, beta subunit, protrusion
PFam	PF04565	RNA polymerase Rpb2, domain 3
Superfamily	SSF64484	N/A