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The map label for this gene is rfbD

Identifier: 227080462

GI number: 227080462

Start: 235311

End: 236432

Strand: Direct

Name: rfbD

Synonym: VCM66_0231

Alternate gene names: 227080462

Gene position: 235311-236432 (Clockwise)

Preceding gene: 227080461

Following gene: 227080463

Centisome position: 8.14

GC content: 39.57

Gene sequence:

>1122_bases
ATGAATAAAAAAGTTGCGTTAATCACAGGCATTACTGGACAAGATGGTTCTTATCTAGCGGAGTTTTTGCTAGAAAAAGG
GTATGAAGTACATGGAATTAAAAGACGTTCATCTTTATTCAATACACAACGTGTTGATCATCTTTACAAAGACCCACATG
AGGAAGATGTAAATTTCAAACTACATTACGGAGACCTTACGGATTCCTCTAACTTGACTCGTATATTAGCGGAAGTACAG
CCAGATGAAGTCTATAACTTGGGCGCGCAGTCCCATGTGGCGGTTAGTTTCCAGTCACCGGAATATACAGCGGACGTAGA
TGCTATTGGAACTTTAAGGCTACTAGAAGCAATCAGATTTTTAGGTTTGACGAAAAAAACTAAGTTTTATCAAGCCTCAA
CTTCAGAGCTTTATGGCTTAGTACAAGAAATACCTCAGAAAGAAACTACCCCTTTTTATCCTAGAAGCCCTTATGCTGTG
GCAAAGATGTATGCGTATTGGATAACAATTAATTATAGAGAATCGTACGGAATATACGCGTGTAATGGCATACTTTTTAA
CCACGAATCCCCTAGACGAGGAGAAACTTTTGTAACTCGCAAAATAACTCGGGGGATGGCAAACATTGCGCAAGGGTTAG
AAAAATGCCTTTTTATGGGAAATTTGGACGCTCTTCGAGATTGGGGGCATGCTAAAGATTACGTTAAGATGCAATGGATG
ATGTTACAGCAAGATGAACCTAGAGATTTTGTTATTGCTACAGGTGTACAGTATAGCGTAAGAGAGTTTATTGATATGTC
AGCACGAGAACTAGGCATTGAGTTAGAATTTGTCGGTAAGGGTGTAGATGAAAAAGCTGTAGTGAAGTCAGTTATTGGAA
CGAAAGCTCCTGCAATCAAGGTTGGTGACATTATTGTAGCTGTGGATCCTGCATATTTTAGACCCGCAGAGGTAGAAACG
CTGTTAGGTGATCCTAGCCTAGCTAAGAAGGAGCTTGGATGGGTGCCAGAAATTACTTTACAACAGATGGTTTCTGAAAT
GGTAGCTTCTGATTTAGAACAAGCTCAAAGTCATGCACTATTGAAAAAACATGGCTATAACGTAAATGTATCTGTAGAGT
GA

Upstream 100 bases:

>100_bases
CCTTATTAAGATTGAATGTGGAATCTAAACAAAATATCGCGTTGATGAATGATAAAGTTGAAGAGCTTACTAAATTAATT
AAGAAATTGGATATTTAACA

Downstream 100 bases:

>100_bases
GGTCCTTTAAATGATTCCTGTATACGAACCAAGTTTGGATGGAAATGAGCGTAAATATCTAAACGATTGCATTGATTCCG
GTTGGGTATCCTCAAGGGGG

Product: GDP-mannose 4,6-dehydratase

Products: NA

Alternate protein names: GDP-D-mannose dehydratase

Number of amino acids: Translated: 373; Mature: 373

Protein sequence:

>373_residues
MNKKVALITGITGQDGSYLAEFLLEKGYEVHGIKRRSSLFNTQRVDHLYKDPHEEDVNFKLHYGDLTDSSNLTRILAEVQ
PDEVYNLGAQSHVAVSFQSPEYTADVDAIGTLRLLEAIRFLGLTKKTKFYQASTSELYGLVQEIPQKETTPFYPRSPYAV
AKMYAYWITINYRESYGIYACNGILFNHESPRRGETFVTRKITRGMANIAQGLEKCLFMGNLDALRDWGHAKDYVKMQWM
MLQQDEPRDFVIATGVQYSVREFIDMSARELGIELEFVGKGVDEKAVVKSVIGTKAPAIKVGDIIVAVDPAYFRPAEVET
LLGDPSLAKKELGWVPEITLQQMVSEMVASDLEQAQSHALLKKHGYNVNVSVE

Sequences:

>Translated_373_residues
MNKKVALITGITGQDGSYLAEFLLEKGYEVHGIKRRSSLFNTQRVDHLYKDPHEEDVNFKLHYGDLTDSSNLTRILAEVQ
PDEVYNLGAQSHVAVSFQSPEYTADVDAIGTLRLLEAIRFLGLTKKTKFYQASTSELYGLVQEIPQKETTPFYPRSPYAV
AKMYAYWITINYRESYGIYACNGILFNHESPRRGETFVTRKITRGMANIAQGLEKCLFMGNLDALRDWGHAKDYVKMQWM
MLQQDEPRDFVIATGVQYSVREFIDMSARELGIELEFVGKGVDEKAVVKSVIGTKAPAIKVGDIIVAVDPAYFRPAEVET
LLGDPSLAKKELGWVPEITLQQMVSEMVASDLEQAQSHALLKKHGYNVNVSVE
>Mature_373_residues
MNKKVALITGITGQDGSYLAEFLLEKGYEVHGIKRRSSLFNTQRVDHLYKDPHEEDVNFKLHYGDLTDSSNLTRILAEVQ
PDEVYNLGAQSHVAVSFQSPEYTADVDAIGTLRLLEAIRFLGLTKKTKFYQASTSELYGLVQEIPQKETTPFYPRSPYAV
AKMYAYWITINYRESYGIYACNGILFNHESPRRGETFVTRKITRGMANIAQGLEKCLFMGNLDALRDWGHAKDYVKMQWM
MLQQDEPRDFVIATGVQYSVREFIDMSARELGIELEFVGKGVDEKAVVKSVIGTKAPAIKVGDIIVAVDPAYFRPAEVET
LLGDPSLAKKELGWVPEITLQQMVSEMVASDLEQAQSHALLKKHGYNVNVSVE

Specific function: Biosynthesis of the slime polysaccharide colanic acid. First of the three steps in the biosynthesis of GDP-fucose from GDP-mannose. [C]

COG id: COG1089

COG function: function code M; GDP-D-mannose dehydratase

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the GDP-mannose 4,6-dehydratase family

Homologues:

Organism=Homo sapiens, GI4504031, Length=352, Percent_Identity=61.0795454545455, Blast_Score=447, Evalue=1e-126,
Organism=Escherichia coli, GI1788366, Length=370, Percent_Identity=79.7297297297297, Blast_Score=643, Evalue=0.0,
Organism=Escherichia coli, GI48994969, Length=356, Percent_Identity=25.8426966292135, Blast_Score=77, Evalue=1e-15,
Organism=Escherichia coli, GI1788353, Length=202, Percent_Identity=27.7227722772277, Blast_Score=75, Evalue=1e-14,
Organism=Caenorhabditis elegans, GI17507723, Length=352, Percent_Identity=63.0681818181818, Blast_Score=464, Evalue=1e-131,
Organism=Caenorhabditis elegans, GI17539424, Length=352, Percent_Identity=62.7840909090909, Blast_Score=462, Evalue=1e-130,
Organism=Caenorhabditis elegans, GI133901790, Length=352, Percent_Identity=62.7840909090909, Blast_Score=462, Evalue=1e-130,
Organism=Caenorhabditis elegans, GI133901788, Length=352, Percent_Identity=62.7840909090909, Blast_Score=462, Evalue=1e-130,
Organism=Caenorhabditis elegans, GI17539422, Length=352, Percent_Identity=62.7840909090909, Blast_Score=462, Evalue=1e-130,
Organism=Caenorhabditis elegans, GI133901786, Length=352, Percent_Identity=62.7840909090909, Blast_Score=462, Evalue=1e-130,
Organism=Drosophila melanogaster, GI24158427, Length=351, Percent_Identity=60.3988603988604, Blast_Score=442, Evalue=1e-124,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): GM4D1_VIBCH (Q06952)

Other databases:

- EMBL:   X59554
- EMBL:   AE003852
- PIR:   S28470
- RefSeq:   NP_229900.1
- ProteinModelPortal:   Q06952
- SMR:   Q06952
- GeneID:   2614706
- GenomeReviews:   AE003852_GR
- KEGG:   vch:VC0243
- TIGR:   VC_0243
- HOGENOM:   HBG755066
- OMA:   TQRVDHI
- ProtClustDB:   CLSK793536
- BioCyc:   MetaCyc:MONOMER-13574
- BRENDA:   4.2.1.47
- GO:   GO:0005622
- InterPro:   IPR001509
- InterPro:   IPR006368
- InterPro:   IPR016040
- Gene3D:   G3DSA:3.40.50.720
- PANTHER:   PTHR10366:SF32
- TIGRFAMs:   TIGR01472

Pfam domain/function: PF01370 Epimerase

EC number: =4.2.1.47

Molecular weight: Translated: 42053; Mature: 42053

Theoretical pI: Translated: 5.87; Mature: 5.87

Prosite motif: PS00061 ADH_SHORT

Important sites: ACT_SITE 134-134 ACT_SITE 136-136 ACT_SITE 158-158 BINDING 162-162

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
2.7 %Met     (Translated Protein)
3.2 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
2.7 %Met     (Mature Protein)
3.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MNKKVALITGITGQDGSYLAEFLLEKGYEVHGIKRRSSLFNTQRVDHLYKDPHEEDVNFK
CCCEEEEEEECCCCCHHHHHHHHHHCCCCEECCHHHHHHHHHHHHHHHHCCCCCCCCEEE
LHYGDLTDSSNLTRILAEVQPDEVYNLGAQSHVAVSFQSPEYTADVDAIGTLRLLEAIRF
EEECCCCCCCHHHHHHHHCCCCHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHH
LGLTKKTKFYQASTSELYGLVQEIPQKETTPFYPRSPYAVAKMYAYWITINYRESYGIYA
HCCCCCCCEEECCHHHHHHHHHHCCCCCCCCCCCCCCHHHHEEEEEEEEEEEECCCCEEE
CNGILFNHESPRRGETFVTRKITRGMANIAQGLEKCLFMGNLDALRDWGHAKDYVKMQWM
EEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHCCCCHHHHHEEEE
MLQQDEPRDFVIATGVQYSVREFIDMSARELGIELEFVGKGVDEKAVVKSVIGTKAPAIK
EECCCCCCCEEEECCCHHHHHHHHCCHHHHHCEEEEEECCCCCHHHHHHHHHCCCCCCEE
VGDIIVAVDPAYFRPAEVETLLGDPSLAKKELGWVPEITLQQMVSEMVASDLEQAQSHAL
ECCEEEEECCCCCCCCHHHHHCCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
LKKHGYNVNVSVE
HHHCCCEEEEEEC
>Mature Secondary Structure
MNKKVALITGITGQDGSYLAEFLLEKGYEVHGIKRRSSLFNTQRVDHLYKDPHEEDVNFK
CCCEEEEEEECCCCCHHHHHHHHHHCCCCEECCHHHHHHHHHHHHHHHHCCCCCCCCEEE
LHYGDLTDSSNLTRILAEVQPDEVYNLGAQSHVAVSFQSPEYTADVDAIGTLRLLEAIRF
EEECCCCCCCHHHHHHHHCCCCHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHH
LGLTKKTKFYQASTSELYGLVQEIPQKETTPFYPRSPYAVAKMYAYWITINYRESYGIYA
HCCCCCCCEEECCHHHHHHHHHHCCCCCCCCCCCCCCHHHHEEEEEEEEEEEECCCCEEE
CNGILFNHESPRRGETFVTRKITRGMANIAQGLEKCLFMGNLDALRDWGHAKDYVKMQWM
EEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHCCCCHHHHHEEEE
MLQQDEPRDFVIATGVQYSVREFIDMSARELGIELEFVGKGVDEKAVVKSVIGTKAPAIK
EECCCCCCCEEEECCCHHHHHHHHCCHHHHHCEEEEEECCCCCHHHHHHHHHCCCCCCEE
VGDIIVAVDPAYFRPAEVETLLGDPSLAKKELGWVPEITLQQMVSEMVASDLEQAQSHAL
ECCEEEEECCCCCCCCHHHHHCCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
LKKHGYNVNVSVE
HHHCCCEEEEEEC

PDB accession: NA

Resolution: NA

Structure class: Alpha Beta

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: NA

Specific reaction: NA

General reaction: NA

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: 1372980; 7540582; 10952301