PF3D7_1216000

Genome location: Pf3D7_12_v3:644,215..646,624(+)

Genome classification: Core

Function and Localization

Product Description: serine--tRNA ligase, putative

SignalP Peptide: MHLSKIIFLLIILFPYHVNS

# Transmembrane Domains: 0

EC Numbers: 6.1.1.11 (Serine--tRNA ligase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0020011	apicoplast
Component	GO:0005829	cytosol
Component	GO:0016020	membrane
Component	GO:0005739	mitochondrion
Function	GO:0004828	serine-tRNA ligase activity
Process	GO:0006434	seryl-tRNA aminoacylation

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	expressed	0.21	0.90
Trophozoite	expressed	0.76	0.59
Schizont	expressed	0.19	0.87
Gametocyte	expressed	0.66	0.65

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1216000

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: 0.173 | MFS: -3.204 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1431700)

Relative Growth Rate: 0.25 ± 0.66
Confidence: 2.21

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8I5P7

"Best" AlphaFill ligand hit: SSA (5'-o-(n-(l-seryl)-sulfamoyl)adenosine, Local RMSD=0.30) with 3QO8 (Global RMSD=2.29)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
6.1.1.11	serine-tRNA ligase	GSSGsiRNAglycinealanine3'-dATPcysteinethreonineSB-217452serinamidediphosphatetRNASer-C-CPoly-arginine...

Orthology to BindingDB Entries:

UniProt	Protein Name	Homology Source	BindingDB Ligands
P49591	Serine--tRNA ligase, cytoplasmic	OrthoDB	SerSASerSA
P0A8L1	Serine--tRNA ligase	OrthoMCL, OrthoMCL BLAST	CHEMBL4208640SerSASerSACHEMBL4452350...
P95689	Serine--tRNA ligase	OrthoMCL BLAST	CHEMBL4452350SerSACHEMBL4446951CHEMBL4561900...

Orthology Information

Ortholog Group (OrthoMCL): OG6_100275

Most Similar Human Ortholog: M0R259

TM-align score: 0.85 | RMSD: 2.07

Seq Identity: 0.28 | Length: 298 / 618

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000031698	seryl-tRNA synthetase 1
ENSG00000104835	seryl-tRNA synthetase 2, mitochondrial
ENSG00000269547	novel protein
ENSG00000282835	novel protein
ENSG00000283104	seryl-tRNA synthetase 2, mitochondrial

Protein Information

Protein Length: 618 | Molecular Weight (kDa): 73.272

UniProt ID(s): A0A143ZZQ0, A0A5J6C745, A0A5J6C7C8, A0A5J6C7K3, A0A5J6C856, A0A5J6C8P1, A0A5J6C8Q4, A0A5J6C949, A0A5J6C9Z3, Q8I5P7

PDB ID(s): None

Isoelectric Point: 10.14

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR002314	Aminoacyl-tRNA synthetase, class II (G/ P/ S/T)
InterPro	IPR002317	Serine-tRNA ligase, type1
PFam	PF00587	Aminoacyl-tRNA synthetase, class II (G/ P/ S/T)
Superfamily	SSF55681	N/A

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	6	25	15	42
disruptive	14	56	34	85
missense	14	55	34	77

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	12	50	33	45
disruptive	25	137	59	175
missense	17	122	51	126

PlasmoDB Total SNPs: 107

Non-coding: 55 | Synonymous: 34 | Nonsynonymous: 18 | Stop Codon: 0

PMID	Title	Authors	DOI/Link
12368864	Genome sequence of the human malaria parasite Plasmodium falciparum.	Gardner MJ, Hall N, ..., Barrell B	10.1038/nature01097
30212465	Integrative proteomics and bioinformatic prediction enable a high-confidenceapicoplast proteome in malaria parasites.	Boucher MJ, Ghosh S, ..., Yeh E	10.1371/journal.pbio.2005895
34494883	A Prioritized and Validated Resource of Mitochondrial Proteins in PlasmodiumIdentifies Unique Biology.	van Esveld SL, Meerstein-Kessel L, ..., Huynen MA	10.1128/mSphere.00614-21