PF3D7_1344500 (USB1)

Genome location: Pf3D7_13_v3:1,787,599..1,788,926(-)

Genome classification: Core

Function and Localization

Product Description: U6 snRNA phosphodiesterase, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: None

Curated GO (PlasmoDB): None

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

Stage	LR class	MCA mean	MCA prop. zeros
Sporozoite	not expressed	N/A	N/A
Ring	not expressed	0.07	0.97
Trophozoite	not expressed	0.50	0.72
Schizont	possibly expressed	0.81	0.56
Gametocyte	possibly expressed	0.60	0.67

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1344500

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: 0.16 | MFS: -3.243 | #Insertions: 0

PlasmoGEM Phenotype: Slow (Pb ortholog: PBANKA_1357400)

Relative Growth Rate: 0.17 ± 0.05
Confidence: 7.52

RMgmDB ABS Phenotype: Different from wild type (Pb ortholog: PBANKA_1357400)

Modification: Disrupted | RMgm-3678

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: A0A5K1K8P1

"Best" AlphaFill ligand hit: R78 (4-{[(7r)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-n-(1-methylpiperidin-4-yl)benzamide, Local RMSD=7.06) with 4PY6 (Global RMSD=11.46)

No associated EC numbers

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_103799

Most Similar Human Ortholog: H3BNM8

TM-align score: 0.76 | RMSD: 2.85

Seq Identity: 0.19 | Length: 188 / 274

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000103005	U6 snRNA biogenesis phosphodiesterase 1

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	0	10	12	14
disruptive	1	22	26	41
missense	1	21	26	31

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	1	29	10	18
disruptive	5	57	39	69
missense	4	47	37	48

PlasmoDB Total SNPs: 78

Non-coding: 42 | Synonymous: 30 | Nonsynonymous: 5 | Stop Codon: 1

Protein Information

Protein Length: 274 | Molecular Weight (kDa): 33.147

UniProt ID(s): A0A5K1K8P1

PDB ID(s): None

Isoelectric Point: 7.15

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR027521	U6 snRNA phosphodiesterase Usb1
PFam	PF09749	U6 snRNA phosphodiesterase Usb1
Superfamily	N/A	N/A