PF3D7_0509400 (RNAPI)

Genome location: Pf3D7_05_v3:389,815..399,902(-)

Genome classification: Core

Function and Localization

Product Description: RNA polymerase I

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
Component	GO:0005730	nucleolus

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	2.00	0.24
Trophozoite	expressed	1.30	0.39
Schizont	expressed	0.53	0.71
Gametocyte	expressed	0.93	0.53

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0509400

Resistome Missense Mutations: L263F

Resistome Compounds with Missense Mutations: BI-2536

Resistome # Samples with Disruptive Mutations: 1 (1 missense, 1 "interesting" missense)

Essentiality (ABS)

Zhang Phenotype: Non - Mutable in CDS

MIS: 0.126 | MFS: -2.929 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1109000)

Relative Growth Rate: 0.05 ± 0.08
Confidence: 6.48

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: N/A

"Best" AlphaFill ligand hit: No AlphaFill hits

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
O95602	DNA-directed RNA polymerase I subunit RPA1		OrthoDB	CHEMBL3289403CHEMBL3289408CHEMBL3289409CHEMBL3289410...

Orthology Information

Ortholog Group (OrthoMCL): OG6_101773

Most Similar Human Ortholog: Not available

TM-align score: 0.00 | RMSD: 0.00

Seq Identity: 0.00 | Length: / 2914

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000068654	RNA polymerase I subunit A

Protein Information

Protein Length: 2914 | Molecular Weight (kDa): 340.677

UniProt ID(s): Q26008, Q8I410

PDB ID(s): None

Isoelectric Point: 6

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR000722	RNA polymerase, alpha subunit
InterPro	IPR006592	RNA polymerase, N-terminal
InterPro	IPR007066	RNA polymerase Rpb1, domain 3
InterPro	IPR007081	RNA polymerase Rpb1, domain 5
InterPro	IPR007083	RNA polymerase Rpb1, domain 4
InterPro	IPR015699	DNA-directed RNA pol I, largest subunit
PFam	PF00623	RNA polymerase, alpha subunit
PFam	PF04983	RNA polymerase Rpb1, domain 3
PFam	PF04998	RNA polymerase Rpb1, domain 5
PFam	PF05000	RNA polymerase Rpb1, domain 4
Superfamily	SSF64484	N/A

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	32	114	70	145
disruptive	104	237	99	304
missense	54	175	89	246

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	51	217	91	173
disruptive	176	440	211	537
missense	92	328	175	393

PlasmoDB Total SNPs: 400

Non-coding: 156 | Synonymous: 132 | Nonsynonymous: 110 | Stop Codon: 2

Associated Publications

PMID	Title	Authors	DOI/Link
12368867	Sequence of Plasmodium falciparum chromosomes 1, 3-9 and 13.	Hall N, Pain A, ..., Barrell BG	10.1038/nature01095
16267556	A protein interaction network of the malaria parasite Plasmodium falciparum.	LaCount DJ, Vignali M, ..., Hughes RE	10.1038/nature04104
20696894	Clustering of dispersed ribosomal DNA and its role in gene regulation andchromosome-end associations in malaria parasites.	Mancio-Silva L, Zhang Q, Scheidig-Benatar C, Scherf A	10.1073/pnas.1001045107
37567961	Hydroxyurea and inactivation of checkpoint kinase MEC1 inhibit transcriptiontermination and pre-mRNA cleavage at polyadenylation sites in budding yeast	Kaur P, Nagar S, ..., Vancura A	10.1038/s41598-023-40294-3
36015053	Localization of Epigenetic Markers in Leishmania Chromatin	McDonald JR, Jensen BC, ..., Myler PJ	10.3390/pathogens11080930
31063901	In yeast cells arrested at the early S-phase by hydroxyurea, rRNA gene promotersand chromatin are poised for transcription while rRNA synthesis is compromised	Charton R, Muguet A, ..., Conconi A	10.1016/j.mrfmmm.2019.04.003
38126234	Shaping the chromatin landscape at r RNA and t RNA genes, an emerging new role for RNA polymerase I I transcription?	Yague-Sanz C	10.1002/yea.3921
31294051	Analyses of rRNA gene chromatin in cell cycle arrested Saccharomyces cerevisiaecells	Paille A, Charton R, ..., Conconi A	10.1016/j.dib.2019.104083