PF3D7_1123800 (SMC5)

Genome location: Pf3D7_11_v3:940,025..944,624(+)

Genome classification: Core

Function and Localization

Product Description: structural maintenance of chromosomes protein 5, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: None

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0005739	mitochondrion

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	not expressed	0.10	0.95
Trophozoite	expressed	0.77	0.59
Schizont	expressed	0.64	0.64
Gametocyte	expressed	0.35	0.80

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1123800

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: 0.413 | MFS: -3.252 | #Insertions: 1

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0924500)

Relative Growth Rate: 0.08 ± 0.08
Confidence: 6.45

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8IIC5

"Best" AlphaFill ligand hit: AP5 (bis(adenosine)-5'-pentaphosphate, Local RMSD=2.77) with 3KTA (Global RMSD=8.63)

No associated EC numbers

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_102083

Most Similar Human Ortholog: Q8IY18

TM-align score: 0.49 | RMSD: 6.46

Seq Identity: 0.19 | Length: 657 / 1268

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000198887	structural maintenance of chromosomes 5

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	12	43	29	62
disruptive	24	75	53	144
missense	17	70	51	120

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	15	95	40	67
disruptive	58	192	133	284
missense	32	148	116	197

PlasmoDB Total SNPs: 147

Non-coding: 72 | Synonymous: 51 | Nonsynonymous: 24 | Stop Codon: 0

Protein Information

Protein Length: 1268 | Molecular Weight (kDa): 152.394

UniProt ID(s): Q8IIC5

PDB ID(s): None

Isoelectric Point: 9.14

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR027131	Structural maintenance of chromosomes protein 5
InterPro	IPR027417	P-loop containing nucleoside triphosphate hydrolase
InterPro	IPR038729	Rad50/SbcC-type AAA domain
PFam	PF13476	Rad50/SbcC-type AAA domain
Superfamily	SSF52540	P-loop containing nucleoside triphosphate hydrolase

PMID	Title	Authors	DOI/Link
12368864	Genome sequence of the human malaria parasite Plasmodium falciparum.	Gardner MJ, Hall N, ..., Barrell B	10.1038/nature01097
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