PF3D7_1206600 (RPC2)

Genome location: Pf3D7_12_v3:294,601..300,038(-)

Genome classification: Core

Function and Localization

Product Description: DNA-directed RNA polymerase III subunit RPC2, 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:0005666	RNA polymerase III complex
Function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
Process	GO:0006383	transcription by RNA polymerase III

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	0.63	0.70
Trophozoite	expressed	0.49	0.73
Schizont	expressed	0.10	0.94
Gametocyte	expressed	0.34	0.80

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1206600

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: 0.972 | MFS: -2.834 | #Insertions: 1

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0605200)

Relative Growth Rate: 0.20 ± 0.26
Confidence: 4.06

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8I5X9

"Best" AlphaFill ligand hit: CTP (cytidine-5'-triphosphate, Local RMSD=0.02) with 6UU1 (Global RMSD=5.08)

BRENDA EC Inhibitors:

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

Orthology to BindingDB Entries:

UniProt	Protein Name	Species	Homology Source	BindingDB Ligands
P0A8V2	DNA-directed RNA polymerase subunit beta		OrthoMCL BLAST	MRL-436RIFAMYCINMRL-436RIFAMYCIN...
A0A0E2LB94	DNA-directed RNA polymerase subunit beta	Escherichia coli	OrthoMCL BLAST	MLS000070992MLS000034979CHEMBL2046886
Q3YUZ7	DNA-directed RNA polymerase subunit beta [S531L]		OrthoMCL BLAST	MRL-436MRL-436MRL-436

Orthology Information

Ortholog Group (OrthoMCL): OG6_100190

Most Similar Human Ortholog: Q9NW08

TM-align score: 0.97 | RMSD: 1.64

Seq Identity: 0.55 | Length: 1120 / 1450

All Human Orthologs (OrthoMCL):

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

Protein Information

Protein Length: 1450 | Molecular Weight (kDa): 167.293

UniProt ID(s): Q8I5X9

PDB ID(s): None

Isoelectric Point: 8.36

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

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	16	80	39	102
disruptive	22	79	50	165
missense	13	71	46	144

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	31	198	56	92
disruptive	36	222	116	324
missense	21	177	94	240

PlasmoDB Total SNPs: 146

Non-coding: 46 | Synonymous: 74 | Nonsynonymous: 26 | Stop Codon: 0