PF3D7_0813800 (GMD)

Genome location: Pf3D7_08_v3:676,314..677,698(+)

Genome classification: Core

Function and Localization

Product Description: GDP-mannose 4,6-dehydratase

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 4.2.1.47 (GDP-mannose 4,6-dehydratase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0005737	cytoplasm
Function	GO:0008446	GDP-mannose 4,6-dehydratase activity
Process	GO:0042351	'de novo' GDP-L-fucose biosynthetic process
Process	GO:0019673	GDP-mannose metabolic process
Process	GO:0006004	fucose metabolic process

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	0.03	0.99
Trophozoite	not expressed	0.02	0.99
Schizont	not expressed	0.06	0.96
Gametocyte	expressed	0.32	0.82

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0813800

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: 0.179 | MFS: -3.073 | #Insertions: 0

PlasmoGEM Phenotype: Dispensable (Pb ortholog: PBANKA_1423700)

Relative Growth Rate: 1.01 ± 0.12
Confidence: 5.66

RMgmDB ABS Phenotype: Different from wild type (Pb ortholog: PBANKA_1423700)

Modification: Disrupted | RMgm-3854

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8IAX4

"Best" AlphaFill ligand hit: UDP (uridine-5'-diphosphate, Local RMSD=0.09) with 6BWL (Global RMSD=2.96)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
4.2.1.47	GDP-mannose 4,6-dehydratase	GTPGDPGMPITPNADP+GDP-fucoseGDP-mannoseGDP-L-fucoseGDP-D-glucoseGDP-L-glucoseGDP-alpha-D-mannosep-hydroxymercuribenzoate...

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_101732

Most Similar Human Ortholog: O60547

TM-align score: 0.93 | RMSD: 0.77

Seq Identity: 0.56 | Length: 336 / 357

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000112699	GDP-mannose 4,6-dehydratase

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	5	15	9	14
disruptive	2	13	6	18
missense	2	13	6	15

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	8	29	12	13
disruptive	6	25	8	26
missense	5	23	7	20

PlasmoDB Total SNPs: 67

Non-coding: 48 | Synonymous: 15 | Nonsynonymous: 4 | Stop Codon: 0

Protein Information

Protein Length: 357 | Molecular Weight (kDa): 41.54

UniProt ID(s): Q8IAX4

PDB ID(s): None

Isoelectric Point: 7.78

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR006368	GDP-mannose 4,6-dehydratase
InterPro	IPR016040	NAD(P)-binding domain
InterPro	IPR036291	NAD(P)-binding domain superfamily
PFam	PF16363	NAD(P)-binding domain
Superfamily	SSF51735	NAD(P)-binding domain superfamily