Genome location: Pf3D7_13_v3:2,578,668..2,582,635(-)
Genome classification: Core
Product Description: pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: 3.6.4.13 (RNA helicase)
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0005634 | nucleus |
| Function | GO:0003724 | RNA helicase activity |
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 | 0.73 | 0.66 |
| Trophozoite | expressed | 0.56 | 0.68 |
| Schizont | expressed | 0.40 | 0.75 |
| Gametocyte | expressed | 0.51 | 0.71 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_1364300
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: 0.12 | MFS: -2.978 | #Insertions: 0
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1446300)
RMgmDB ABS Phenotype: N/A
More info: PhenoPlasm Link
AlphaFill Uniprot ID: A0A5K1K9B8
"Best" AlphaFill ligand hit: MPO (3[n-morpholino]propane sulfonic acid, Local RMSD=0.22) with 6ZM2 (Global RMSD=2.12)
BRENDA EC Inhibitors:
| EC # | Name | EC Inhibitors |
|---|---|---|
| 3.6.4.13 | RNA helicase | ATPADPUDPAMPGTPGDPUTPKClNEMCDPITPTDP... |
No evidence of orthology to BindingDB entries
Ortholog Group (OrthoMCL): OG6_100085
Most Similar Human Ortholog: A0A140T8Y5
TM-align score: 0.93 | RMSD: 1.64
Seq Identity: 0.41 | Length: 537 / 1151
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000005100 | DEAH-box helicase 33 |
| ENSG00000067596 | DEAH-box helicase 8 |
| ENSG00000101452 | DEAH-box helicase 35 |
| ENSG00000109606 | DEAH-box helicase 15 |
| ENSG00000140829 | DEAH-box helicase 38 |
| ENSG00000204560 | DEAH-box helicase 16 |
| ENSG00000206486 | DEAH-box helicase 16 |
| ENSG00000226171 | DEAH-box helicase 16 |
| ENSG00000227222 | DEAH-box helicase 16 |
| ENSG00000231377 | DEAH-box helicase 16 |
| ENSG00000233049 | DEAH-box helicase 16 |
| ENSG00000233418 | DEAH-box helicase 16 |
| ENSG00000233561 | DEAH-box helicase 16 |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 15 | 70 | 50 | 98 |
| disruptive | 18 | 115 | 82 | 191 |
| missense | 18 | 109 | 77 | 169 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 24 | 165 | 56 | 82 |
| disruptive | 52 | 283 | 120 | 263 |
| missense | 39 | 239 | 101 | 209 |
PlasmoDB Total SNPs: 106
Non-coding: 28 | Synonymous: 48 | Nonsynonymous: 30 | Stop Codon: 0
Protein Length: 1151 | Molecular Weight (kDa): 134.567
UniProt ID(s): A0A5K1K9B8
PDB ID(s): None
Isoelectric Point: 9.13
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR001650 | Helicase, C-terminal |
| InterPro | IPR002464 | DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site |
| InterPro | IPR007502 | Helicase-associated domain |
| InterPro | IPR011545 | DEAD/DEAH box helicase domain |
| InterPro | IPR011709 | Domain of unknown function DUF1605 |
| InterPro | IPR014001 | Helicase superfamily 1/2, ATP-binding domain |
| InterPro | IPR027417 | P-loop containing nucleoside triphosphate hydrolase |
| PFam | PF00270 | DEAD/DEAH box helicase domain |
| PFam | PF00271 | Helicase, C-terminal |
| PFam | PF04408 | Helicase-associated domain |
| PFam | PF07717 | Domain of unknown function DUF1605 |
| Superfamily | SSF52540 | P-loop containing nucleoside triphosphate hydrolase |
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 22982196 | Plasmodium falciparum Prp16 homologue and its role in splicing. | Singh PK, Kanodia S, ..., Malhotra P | 10.1016/j.bbagrm.2012.08.014 |
| 37625852 | Biochemical and genetic evidence supports Fyv6 as a second-step splicing factorin Saccharomyces cerevisiae | Lipinski KA, Senn KA, Zeps NJ, Hoskins AA | 10.1261/rna.079607.123 |
| 36778415 | Biochemical and Genetic Evidence Supports Fyv6 as a Second-Step Splicing Factorin Saccharomyces cerevisiae | Lipinski KA, Senn KA, Zeps NJ, Hoskins AA | 10.1101/2023.01.30.526368 |
| 30810475 | Early splicing functions of fission yeast Prp16 and its unexpected requirementfor gene Silencing is governed by intronic features | Vijayakumari D, Sharma AK, ..., Vijayraghavan U | 10.1080/15476286.2019.1585737 |
| 29301961 | Structure of a human catalytic step I spliceosome | Zhan X, Yan C, ..., Shi Y | 10.1126/science.aar6401 |
| 30395327 | Dynamic protein-RNA interactions in mediating splicing catalysis | Chung CS, Tseng CK, ..., Cheng SC | 10.1093/nar/gky1089 |
| 37858289 | An ATP-independent role for Prp16 in promoting aberrant splicing | Chung CS, Wai HL, Kao CY, Cheng SC | 10.1093/nar/gkad861 |
| 37548918 | Crystal structure of Prp16 in complex with ADP | Garbers TB, Enders M, Neumann P, Ficner R | 10.1107/S2053230X23005721 |
| 31671032 | Blocking late stages of splicing quickly limits pre-spliceosome assembly in vivo | Mendoza-Ochoa GI, Barrass JD, Maudlin IE, Beggs JD | 10.1080/15476286.2019.1657788 |