PF3D7_1222000

Genome location: Pf3D7_12_v3:876,916..878,625(-)

Genome classification: Core

Function and Localization

Product Description: tRNA-splicing ligase RtcB, putative

SignalP Peptide: MKIFFFLLLLVFYLCGYCLS

# Transmembrane Domains: 1

EC Numbers: 6.5.1.8 (3'-phosphate/5'-hydroxy nucleic acid ligase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Function	GO:0003909	DNA ligase activity
Function	GO:0008452	RNA ligase activity
Function	GO:0030145	manganese ion binding
Process	GO:0006281	DNA repair
Process	GO:0042245	RNA repair

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	0.08	0.96
Trophozoite	not expressed	0.15	0.90
Schizont	not expressed	0.04	0.97
Gametocyte	not expressed	0.07	0.96

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1222000

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: Mutable in CDS

MIS: 0.999 | MFS: -2.293 | #Insertions: 2

PlasmoGEM Phenotype: N/A

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8I5J3

"Best" AlphaFill ligand hit: GTP (guanosine-5'-triphosphate, Local RMSD=16.11) with 8DC9 (Global RMSD=15.20)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
6.5.1.8	3'-phosphate/5'-hydroxy nucleic acid ligase	No BRENDA inhibitors

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_101445

Most Similar Human Ortholog: Q9Y3I0

TM-align score: 0.76 | RMSD: 2.69

Seq Identity: 0.27 | Length: 413 / 569

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000100220	RNA 2,3-cyclic phosphate and 5-OH ligase

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	8	29	17	28
disruptive	18	72	45	84
missense	18	71	42	70

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	12	59	25	37
disruptive	36	154	76	189
missense	30	137	57	87

PlasmoDB Total SNPs: 42

Non-coding: 0 | Synonymous: 24 | Nonsynonymous: 18 | Stop Codon: 0

Protein Information

Protein Length: 569 | Molecular Weight (kDa): 65.692

UniProt ID(s): Q8I5J3

PDB ID(s): None

Isoelectric Point: 9.52

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR001233	RNA-splicing ligase, RtcB
InterPro	IPR036025	tRNA-splicing ligase RtcB-like superfamily
PFam	PF01139	RNA-splicing ligase, RtcB
Superfamily	SSF103365	tRNA-splicing ligase RtcB-like superfamily