PF3D7_0815800 (VPS9)

Genome location: Pf3D7_08_v3:735,354..742,006(-)

Genome classification: Core

Function and Localization

Product Description: vacuolar protein sorting-associated protein 9, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: None

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0005737	cytoplasm
Component	GO:0005634	nucleus
Function	GO:0005085	guanyl-nucleotide exchange factor activity
Process	GO:0006895	Golgi to endosome transport

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

Stage	LR class	MCA mean	MCA prop. zeros
Sporozoite	possibly expressed	N/A	N/A
Ring	not expressed	0.23	0.89
Trophozoite	possibly expressed	1.02	0.50
Schizont	expressed	2.23	0.17
Gametocyte	possibly expressed	1.34	0.36

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0815800

Resistome Missense Mutations: Y1166N

Resistome Compounds with Missense Mutations: DSM1

Resistome # Samples with Disruptive Mutations: 6 (4 missense, 0 "interesting" missense)

Essentiality (ABS)

Zhang Phenotype: Non - Mutable in CDS

MIS: 0.162 | MFS: -2.866 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0715000)

Relative Growth Rate: 0.06 ± 0.08
Confidence: 6.55

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8IAZ5

"Best" AlphaFill ligand hit: NUP (, Local RMSD=0.81) with 2Q8Z (Global RMSD=13.63)

No associated EC numbers

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_102142

Most Similar Human Ortholog: V9GYI8

TM-align score: 0.51 | RMSD: 4.21

Seq Identity: 0.07 | Length: 91 / 1833

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000154710	RAB guanine nucleotide exchange factor 1
ENSG00000284461	novel transcript

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	24	89	52	94
disruptive	95	374	170	371
missense	43	235	124	269

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	37	176	72	117
disruptive	219	661	295	603
missense	97	436	214	376

PlasmoDB Total SNPs: 360

Non-coding: 131 | Synonymous: 137 | Nonsynonymous: 92 | Stop Codon: 0

Protein Information

Protein Length: 1833 | Molecular Weight (kDa): 214.692

UniProt ID(s): Q8IAZ5

PDB ID(s): None

Isoelectric Point: 6.56

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR003123	VPS9 domain
InterPro	IPR037191	VPS9 domain superfamily
InterPro	IPR041545	RABX5, catalytic core helical domain
PFam	PF02204	VPS9 domain
PFam	PF18151	RABX5, catalytic core helical domain
Superfamily	SSF109993	VPS9 domain superfamily

Associated Publications

PMID	Title	Authors	DOI/Link
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
25640905	Toxoplasma gondii Vps11, a subunit of HOPS and CORVET tethering complexes, isessential for the biogenesis of secretory organelles.	Morlon-Guyot J, Pastore S, ..., Daher W	10.1111/cmi.12426
31038239	Vrl1 relies on its VPS9-domain to play a role in autophagy in Saccharomycescerevisiae	Li W, Wu Z, Liang Y	10.1002/cbin.11156
32356940	Interaction of Plasmodium falciparum casein kinase 1 with components of host cellprotein trafficking machinery	Batty MB, Schittenhelm RB, ..., Garcia-Bustos JF	10.1002/iub.2294
36519157	Investigation the global effect of rare earth gadolinium on the buddingSaccharomyces cerevisiae by genome-scale screening	Cao Y, Zhang C, ..., Wang X	10.3389/fmicb.2022.1022054
35216480	A Genome-Wide Screen Reveals That Endocytic Genes Are Important for Pma1pAsymmetry during Cell Division in Saccharomyces cerevisiae	Yoon SY, Jang E, ..., Jun Y	10.3390/ijms23042364