About Gene List

PF3D7_0215700 (RPB2)

Genome location: Pf3D7_02_v3:645,368..650,460(+)

Genome classification: Core

Function and Localization

Product Description: DNA-directed RNA polymerase II subunit RPB2, 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:0005665 RNA polymerase II, core complex
Component GO:0005634 nucleus
Function GO:0003899 DNA-directed 5'-3' RNA polymerase activity
Process GO:0006366 transcription by RNA polymerase II

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

Stage LR class MCA mean MCA prop. zeros
Sporozoite expressed N/A N/A
Ring expressed 0.45 0.78
Trophozoite expressed 0.56 0.68
Schizont expressed 0.12 0.92
Gametocyte expressed 0.31 0.81

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0215700

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: 0.166 | MFS: -2.783 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0605200)

  • Relative Growth Rate: 0.20 ± 0.26
  • Confidence: 4.06

RMgmDB ABS Phenotype: Different from wild type (Pb ortholog: PBANKA_0312400)

Modification: Disrupted | RMgm-1802

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: O96236

"Best" AlphaFill ligand hit: CH1 (3'-deoxy-cytidine-5'-triphosphate, Local RMSD=0.02) with 6WOY (Global RMSD=9.26)

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_100190

Most Similar Human Ortholog: C9J4M6

TM-align score: 0.98 | RMSD: 1.34

Seq Identity: 0.57 | Length: 1062 / 1340

All Human Orthologs (OrthoMCL):

Gene ID Description
ENSG00000013503 RNA polymerase III subunit B
ENSG00000047315 RNA polymerase II subunit B

Genetic Variation

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

Homozygous genotype calls only

variant type common rare doubleton singleton
synonymous 13 71 35 79
disruptive 10 40 24 75
missense 3 28 22 63

Any inclusion in genotype call

variant type common rare doubleton singleton
synonymous 22 152 44 83
disruptive 17 94 47 195
missense 5 74 40 129

PlasmoDB Total SNPs: 131

Non-coding: 93 | Synonymous: 29 | Nonsynonymous: 9 | Stop Codon: 0

Protein Information

Protein Length: 1340 | Molecular Weight (kDa): 151.723

UniProt ID(s): O96236

PDB ID(s): None

Isoelectric Point: 7.51

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 IPR007642 RNA polymerase Rpb2, domain 2
InterPro IPR007644 RNA polymerase, beta subunit, protrusion
InterPro IPR007645 RNA polymerase Rpb2, domain 3
InterPro IPR007646 RNA polymerase Rpb2, domain 4
InterPro IPR007647 RNA polymerase Rpb2, domain 5
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 PF04561 RNA polymerase Rpb2, domain 2
PFam PF04563 RNA polymerase, beta subunit, protrusion
PFam PF04565 RNA polymerase Rpb2, domain 3
PFam PF04566 RNA polymerase Rpb2, domain 4
PFam PF04567 RNA polymerase Rpb2, domain 5
Superfamily SSF64484 N/A

Associated Publications

PMID Title Authors DOI/Link
9804551 Chromosome 2 sequence of the human malaria parasite Plasmodium falciparum. Gardner MJ, Tettelin H, ..., Hoffman SL 10.1126/science.282.5391.1126
12368864 Genome sequence of the human malaria parasite Plasmodium falciparum. Gardner MJ, Hall N, ..., Barrell B 10.1038/nature01097
23181666 Organellar proteomics reveals hundreds of novel nuclear proteins in the malariaparasite Plasmodium falciparum. Oehring SC, Woodcroft BJ, ..., Voss TS 10.1186/gb-2012-13-11-r108
30379851 Identification of Plasmodium falciparum nuclear proteins by mass spectrometry andproposed protein annotation. Briquet S, Ourimi A, ..., Vaquero C 10.1371/journal.pone.0205596