Product Description: DNA-directed RNA polymerase II subunit RPB1
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 |
| Function | GO:0005515 | protein binding |
| 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 | 0.97 | 0.57 |
| Trophozoite | expressed | 1.04 | 0.47 |
| Schizont | expressed | 0.48 | 0.72 |
| Gametocyte | expressed | 0.61 | 0.67 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_0318200
Resistome Missense Mutations: None
Resistome Compounds with Missense Mutations: None
Resistome # Samples with Disruptive Mutations: 0 (0 missense, 0 "interesting" missense)
Zhang Phenotype: Non - Mutable in CDS
MIS: 0.144 | MFS: -2.838 | #Insertions: 0
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1344000)
RMgmDB ABS Phenotype: N/A
More info: PhenoPlasm Link
AlphaFill Uniprot ID: O77375
"Best" AlphaFill ligand hit: G2P (phosphomethylphosphonic acid guanylate ester, Local RMSD=0.10) with 4A3J (Global RMSD=3.77)
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... |
Ortholog Group (OrthoMCL): OG6_100210
Most Similar Human Ortholog: O14802
TM-align score: 0.89 | RMSD: 3.31
Seq Identity: 0.34 | Length: 1309 / 2457
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000148606 | RNA polymerase III subunit A |
| ENSG00000181222 | RNA polymerase II subunit A |
| ENSG00000284832 | RNA polymerase II subunit A |
Protein Length: 2457 | Molecular Weight (kDa): 278.676
UniProt ID(s): C6F0A2, C6F0A3, C6F0A4, C6F0B0, O77375
PDB ID(s): None
Isoelectric Point: 5.25
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR000684 | RNA polymerase II, heptapeptide repeat, eukaryotic |
| InterPro | IPR000722 | RNA polymerase, alpha subunit |
| InterPro | IPR006592 | RNA polymerase, N-terminal |
| InterPro | IPR007066 | RNA polymerase Rpb1, domain 3 |
| InterPro | IPR007073 | RNA polymerase Rpb1, domain 7 |
| InterPro | IPR007075 | RNA polymerase Rpb1, domain 6 |
| InterPro | IPR007080 | RNA polymerase Rpb1, domain 1 |
| InterPro | IPR007081 | RNA polymerase Rpb1, domain 5 |
| InterPro | IPR007083 | RNA polymerase Rpb1, domain 4 |
| PFam | PF00623 | RNA polymerase, alpha subunit |
| PFam | PF04983 | RNA polymerase Rpb1, domain 3 |
| PFam | PF04990 | RNA polymerase Rpb1, domain 7 |
| PFam | PF04992 | RNA polymerase Rpb1, domain 6 |
| PFam | PF04997 | RNA polymerase Rpb1, domain 1 |
| PFam | PF04998 | RNA polymerase Rpb1, domain 5 |
| PFam | PF05000 | RNA polymerase Rpb1, domain 4 |
| PFam | PF05001 | RNA polymerase II, heptapeptide repeat, eukaryotic |
| Superfamily | SSF64484 | N/A |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 27 | 103 | 55 | 145 |
| disruptive | 103 | 171 | 91 | 259 |
| missense | 46 | 112 | 71 | 194 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 41 | 270 | 82 | 127 |
| disruptive | 140 | 323 | 163 | 399 |
| missense | 62 | 228 | 124 | 263 |
PlasmoDB Total SNPs: 356
Non-coding: 214 | Synonymous: 75 | Nonsynonymous: 67 | Stop Codon: 0
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 10448855 | The complete nucleotide sequence of chromosome 3 of Plasmodium falciparum. | Bowman S, Lawson D, ..., Barrell BG | 10.1038/22964 |
| 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 |
| 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 |
| 24391504 | Recruitment of PfSET2 by RNA polymerase II to variant antigen encoding locicontributes to antigenic variation in P. falciparum. | Ukaegbu UE, Kishore SP, ..., Deitsch KW | 10.1371/journal.ppat.1003854 |
| 37991229 | Danielozyma pruni sp. nov., an asexual yeast species isolated from insect frass | Liu S, Guo QC, An ZR, Hui FL | 10.1099/ijsem.0.006124 |
| 38281277 | Nakazawaea tricholomae f.a., sp. nov., a Novel Ascomycetous Yeast SpeciesIsolated from Two Mushroom Species in China | Liu M, Jiang YL, Zhang YX, Wang QM | 10.1007/s00284-023-03600-w |
| 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 |