Reviewed, UniProtKB/Swiss-Prot Q06952 (GM4D1_VIBCH)

Names and origin

Protein names

Recommended name:
    Probable GDP-mannose 4,6-dehydratase
    EC=4.2.1.47
Alternative name(s):
    GDP-D-mannose dehydratase

Gene names

Name:	rfbD
Synonyms:	gmd
Ordered Locus Names:	VC_0243

Organism

Vibrio cholerae [Complete proteome] [HAMAP]

Taxonomic identifier

666 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Vibrionales › Vibrionaceae › Vibrio

Protein attributes

Sequence length	373 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Catalytic activity	GDP-mannose = GDP-4-dehydro-6-deoxy-D-mannose + H2O.
Cofactor	NAD By similarity.
Pathway	Nucleotide-sugar biosynthesis; GDP-L-fucose biosynthesis via de novo pathway; GDP-L-fucose from GDP-D-mannose: step 1/2.
Sequence similarities	Belongs to the GDP-mannose 4,6-dehydratase family.

Ontologies

Keywords
Biological process	Lipopolysaccharide biosynthesis
Ligand	NAD
Molecular function	Lyase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	GDP-mannose metabolic process Inferred from electronic annotation. Source: InterPro lipopolysaccharide biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	intracellular Inferred from electronic annotation. Source: InterPro
Molecular function	GDP-mannose 4,6-dehydratase activity Inferred from electronic annotation. Source: EC coenzyme binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 373	373	Probable GDP-mannose 4,6-dehydratase		PRO_0000201717
Sites
	Active site	134	1	By similarity
	Active site	136	1	Nucleophile By similarity
	Active site	158	1	Nucleophile By similarity
	Binding site	162	1	NADP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q06952-1 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 4EB10DCAB6A8C1D2	FASTA	373	42,053
	10 20 30 40 50 60 MNKKVALITG ITGQDGSYLA EFLLEKGYEV HGIKRRSSLF NTQRVDHLYK DPHEEDVNFK 70 80 90 100 110 120 LHYGDLTDSS NLTRILAEVQ PDEVYNLGAQ SHVAVSFQSP EYTADVDAIG TLRLLEAIRF 130 140 150 160 170 180 LGLTKKTKFY QASTSELYGL VQEIPQKETT PFYPRSPYAV AKMYAYWITI NYRESYGIYA 190 200 210 220 230 240 CNGILFNHES PRRGETFVTR KITRGMANIA QGLEKCLFMG NLDALRDWGH AKDYVKMQWM 250 260 270 280 290 300 MLQQDEPRDF VIATGVQYSV REFIDMSARE LGIELEFVGK GVDEKAVVKS VIGTKAPAIK 310 320 330 340 350 360 VGDIIVAVDP AYFRPAEVET LLGDPSLAKK ELGWVPEITL QQMVSEMVAS DLEQAQSHAL 370 LKKHGYNVNV SVE

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Serotype conversion in Vibrio cholerae O1." Stroeher U.H., Karageorgos L.E., Morona R., Manning P.A. Proc. Natl. Acad. Sci. U.S.A. 89:2566-2570(1992) [PubMed: 1372980] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: El Tor O17 / Serotype O1.
[2]	"Putative O-antigen transport genes within the rfb region of Vibrio cholerae O1 are homologous to those for capsule transport." Manning P.A., Stroeher U.H., Karageorgos L.E., Morona R. Gene 158:1-7(1995) [PubMed: 7540582] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: El Tor O17 / Serotype O1.
[3]	"DNA sequence of both chromosomes of the cholera pathogen Vibrio cholerae." Heidelberg J.F., Eisen J.A., Nelson W.C., Clayton R.A., Gwinn M.L., Dodson R.J., Haft D.H., Hickey E.K., Peterson J.D., Umayam L.A., Gill S.R., Nelson K.E., Read T.D., Tettelin H., Richardson D.L., Ermolaeva M.D., Vamathevan J.J., Bass S. , Qin H., Dragoi I., Sellers P., McDonald L.A., Utterback T.R., Fleischmann R.D., Nierman W.C., White O., Salzberg S.L., Smith H.O., Colwell R.R., Mekalanos J.J., Venter J.C., Fraser C.M. Nature 406:477-483(2000) [PubMed: 10952301] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 39315 / El Tor Inaba N16961 / Serotype O1.

Cross-references

Sequence databases
EMBLGenBankDDBJ	X59554 Genomic DNA. Translation: CAA42136.1. AE003852 Genomic DNA. Translation: AAF93419.1.
PIR	S28470.
RefSeq	NP_229900.1.
3D structure databases
HSSP	HSSP built from PDB template 1DB3 based on UniProtKB P32054.
ModBase	Search...
Genome annotation databases
GeneID	2614706.
GenomeReviews	Gene locus VC_0243 in contig AE003852_GR.
KEGG	vch:VC0243.
TIGR	VC_0243.
Phylogenomic databases
HOGENOM	Q06952.
OMA	Q06952. LANISQG.
Enzyme and pathway databases
BioCyc	MetaCyc:MON-13574.
BRENDA	4.2.1.47. 19019.
Family and domain databases
InterPro	IPR001509. Epimerase_deHydtase. IPR006368. GDP_Man_deHydtase. IPR016040. NAD(P)-bd_dom. [Graphical view]
Gene3D	G3DSA:3.40.50.720. NAD(P)-bd. 1 hit.
PANTHER	PTHR10366:SF32. GDP_mann_dehyd. 1 hit.
Pfam	PF01370. Epimerase. 1 hit. [Graphical view]
TIGRFAMs	TIGR01472. gmd. 1 hit.
ProtoNet	Search...

Entry information

Entry name

GM4D1_VIBCH

Accession

Primary (citable) accession number: Q06952

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 1, 2000
Last sequence update:	November 1, 1996
Last modified:	June 16, 2009
This is version 68 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)