| Definition | Vibrio vulnificus YJ016 chromosome I, complete sequence. |
|---|---|
| Accession | NC_005139 |
| Length | 3,354,505 |
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The map label for this gene is menD [H]
Identifier: 37679300
GI number: 37679300
Start: 1123887
End: 1125581
Strand: Direct
Name: menD [H]
Synonym: VV1116
Alternate gene names: 37679300
Gene position: 1123887-1125581 (Clockwise)
Preceding gene: 37679299
Following gene: 37679301
Centisome position: 33.5
GC content: 50.91
Gene sequence:
>1695_bases ATGAACCACGATCAAGCCGTATTGAATCGTATTTGGTGTGAAACGCTGTTTGAAGAATTGTACCGCTTTGGGGTACGAGA TGTTTGTGTCGCACCTGGCTCACGTTCAACCCCGCTCGCCCTCGAAGCGAATGCCCACACCAGTTTGAAGCTGCATACGC ATTTTGATGAGCGTGGATTGGGTTTTCTTGCACTTGGTTTAGCCAAAGCCAGCCAGCGGCCTGTGGCGGTGGTGGTGACA TCAGGCACTGCGGTGGCCAATCTTTTGCCAGCAGTGGCAGAGGCAGGCTTAACCGGGGAGAAACTGGTATTACTGACCGC AGATCGACCGATCGAGCTGGTGGGATGCGGGGCCAACCAGGCGATCGCACAGCAAGGCATCTTCTCAAATCATGTTTGTG CTTCATTAAACTTGCCCAGTCCAAACACGCAGACGTCATTAAACTGGTTACTGACATCTGTGGATCAAGTGCTTCATCAA CAGGCGGTCAGTGGCCATGCGGTGCACATCAACTGTCCCTTTCCTGAGCCGCTTTATTCCAATGCACCAAAGTCGATTTA CCAGAGTTATATCGATACGGTGGCTGTGTGGCGTGCAGAGGGGGGCATCTACAGCAACAAACAAATGCCGCTCCCCATGC CGACTTCTATTGCAGAAATTGAACAACGTAAAGCCGTGGTGGTGATTGGCAGTGTAACACTGCAAGAAGCCAAACAGGCC CATCAATTTGCGGCGCAAATGGGATGGCCTGTGCTGTGTGACCCACAATCCGGAACCACTTCTGATTGGAGTGGTTTTGA TATCTGGTTGCAAAATCCTGCAGCTCGTGCACAACTGTCTCAATGTGATTTGATCATCCAGTTTGGCCGTCGTTTGGTCT CGAAGCGTTTACACCAATGGTTAGAGCAGCAAGTGCAAGCTGGCTGCGATTATTGGTACGTTTCACCGGATTTTGAGCGA GACAACCAGAGCCACCTACCTCAACAGCATTTTGTCTGCTCAATCGCAGCGTGGTTGAACGTGGTGACCAACCGCGAAGT GCAGCCTGTCGCGTGGGCGAATGAATTGCCGCGTTTTAGTGCGGAGGTGAACAAGCAAGCCAGAGAGATCGCCCAAAGCA GCCTGTGTGAAATGATGATTGCTCTGCACTTATCCTCACTTGTGGGCAGCGCCGATCTGTTTTTAGGCAATAGCTTGTTT GTGCGTATGGTCGATATGGTTGGTCAATTGCATGGTGTCGAAACATTTACCAATCGTGGCGCATCGGGGATTGATGGCCT CTTTGCCACGGCAAGTGGCGTGCAAAGAGCAAGATCCAACCCAATGTTATTGATGATTGGTGACACGTCTGCGTTGTATG ACTTGAACTCGCTGGCGCTGTATAGCCATCAAGAGACTCCGGTGGTGATCGTGGTGACCAACAACGACGGCGGCGCGATT TTTGATTTATTACCGGTACCACCGCAGCAAAAACAAGCGTTATACCAAATGCCTCATGGCTACCGTTTCGAATTCGCAGC CAAACAATTTGGCCTTGATTACGTGCGTCCCACATCGATGACGGAGCTAACAGAACGAATTGTTGGCCATTTTGCACACG GCTGTGGCGCTTTATTGGTTGAAGTCAACACGCCGCCAAACCAAGCGTCACAGCACATAAAACAATTGGCTGATCATGTC CGTGCTCTCGTTTAA
Upstream 100 bases:
>100_bases TTCCTGGCTCAATCGCAGAGCATGAATGGAGTGAACTGGATAAAAAAATGTCGACCTTATTGTCACTGATTTCTGAGCAC CCACCGCTTGGAGTGGCATC
Downstream 100 bases:
>100_bases TTATCAGCAAGGCAATGGTGATGACCGTTCGCCCGTGTTGGTATTTTTGCACGGATTATTGGGCAGTGCGGAAGATTGGT GTGCCACGCGATGTTCACTC
Product: 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate synthase
Products: NA
Alternate protein names: SEPHCHC synthase; Menaquinone biosynthesis protein menD [H]
Number of amino acids: Translated: 564; Mature: 564
Protein sequence:
>564_residues MNHDQAVLNRIWCETLFEELYRFGVRDVCVAPGSRSTPLALEANAHTSLKLHTHFDERGLGFLALGLAKASQRPVAVVVT SGTAVANLLPAVAEAGLTGEKLVLLTADRPIELVGCGANQAIAQQGIFSNHVCASLNLPSPNTQTSLNWLLTSVDQVLHQ QAVSGHAVHINCPFPEPLYSNAPKSIYQSYIDTVAVWRAEGGIYSNKQMPLPMPTSIAEIEQRKAVVVIGSVTLQEAKQA HQFAAQMGWPVLCDPQSGTTSDWSGFDIWLQNPAARAQLSQCDLIIQFGRRLVSKRLHQWLEQQVQAGCDYWYVSPDFER DNQSHLPQQHFVCSIAAWLNVVTNREVQPVAWANELPRFSAEVNKQAREIAQSSLCEMMIALHLSSLVGSADLFLGNSLF VRMVDMVGQLHGVETFTNRGASGIDGLFATASGVQRARSNPMLLMIGDTSALYDLNSLALYSHQETPVVIVVTNNDGGAI FDLLPVPPQQKQALYQMPHGYRFEFAAKQFGLDYVRPTSMTELTERIVGHFAHGCGALLVEVNTPPNQASQHIKQLADHV RALV
Sequences:
>Translated_564_residues MNHDQAVLNRIWCETLFEELYRFGVRDVCVAPGSRSTPLALEANAHTSLKLHTHFDERGLGFLALGLAKASQRPVAVVVT SGTAVANLLPAVAEAGLTGEKLVLLTADRPIELVGCGANQAIAQQGIFSNHVCASLNLPSPNTQTSLNWLLTSVDQVLHQ QAVSGHAVHINCPFPEPLYSNAPKSIYQSYIDTVAVWRAEGGIYSNKQMPLPMPTSIAEIEQRKAVVVIGSVTLQEAKQA HQFAAQMGWPVLCDPQSGTTSDWSGFDIWLQNPAARAQLSQCDLIIQFGRRLVSKRLHQWLEQQVQAGCDYWYVSPDFER DNQSHLPQQHFVCSIAAWLNVVTNREVQPVAWANELPRFSAEVNKQAREIAQSSLCEMMIALHLSSLVGSADLFLGNSLF VRMVDMVGQLHGVETFTNRGASGIDGLFATASGVQRARSNPMLLMIGDTSALYDLNSLALYSHQETPVVIVVTNNDGGAI FDLLPVPPQQKQALYQMPHGYRFEFAAKQFGLDYVRPTSMTELTERIVGHFAHGCGALLVEVNTPPNQASQHIKQLADHV RALV >Mature_564_residues MNHDQAVLNRIWCETLFEELYRFGVRDVCVAPGSRSTPLALEANAHTSLKLHTHFDERGLGFLALGLAKASQRPVAVVVT SGTAVANLLPAVAEAGLTGEKLVLLTADRPIELVGCGANQAIAQQGIFSNHVCASLNLPSPNTQTSLNWLLTSVDQVLHQ QAVSGHAVHINCPFPEPLYSNAPKSIYQSYIDTVAVWRAEGGIYSNKQMPLPMPTSIAEIEQRKAVVVIGSVTLQEAKQA HQFAAQMGWPVLCDPQSGTTSDWSGFDIWLQNPAARAQLSQCDLIIQFGRRLVSKRLHQWLEQQVQAGCDYWYVSPDFER DNQSHLPQQHFVCSIAAWLNVVTNREVQPVAWANELPRFSAEVNKQAREIAQSSLCEMMIALHLSSLVGSADLFLGNSLF VRMVDMVGQLHGVETFTNRGASGIDGLFATASGVQRARSNPMLLMIGDTSALYDLNSLALYSHQETPVVIVVTNNDGGAI FDLLPVPPQQKQALYQMPHGYRFEFAAKQFGLDYVRPTSMTELTERIVGHFAHGCGALLVEVNTPPNQASQHIKQLADHV RALV
Specific function: Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-ca
COG id: COG1165
COG function: function code H; 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase
Gene ontology:
Cell location: Cytoplasm [C]
Metaboloic importance: Non_Essential [C]
Operon status: Not Known
Operon components: None
Similarity: Belongs to the TPP enzyme family. MenD subfamily [H]
Homologues:
Organism=Escherichia coli, GI1788599, Length=532, Percent_Identity=44.1729323308271, Blast_Score=412, Evalue=1e-116,
Paralogues:
None
Copy number: NA
Swissprot (AC and ID): NA
Other databases:
- InterPro: IPR004433 - InterPro: IPR012001 - InterPro: IPR011766 [H]
Pfam domain/function: PF02775 TPP_enzyme_C; PF02776 TPP_enzyme_N [H]
EC number: =2.2.1.9 [H]
Molecular weight: Translated: 61826; Mature: 61826
Theoretical pI: Translated: 6.42; Mature: 6.42
Prosite motif: NA
Important sites: NA
Signals:
None
Transmembrane regions:
None
Cys/Met content:
2.0 %Cys (Translated Protein) 2.1 %Met (Translated Protein) 4.1 %Cys+Met (Translated Protein) 2.0 %Cys (Mature Protein) 2.1 %Met (Mature Protein) 4.1 %Cys+Met (Mature Protein)
Secondary structure:
>Translated Secondary Structure MNHDQAVLNRIWCETLFEELYRFGVRDVCVAPGSRSTPLALEANAHTSLKLHTHFDERGL CCCHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCEEEECCCCCEEEEEECCCCCCC GFLALGLAKASQRPVAVVVTSGTAVANLLPAVAEAGLTGEKLVLLTADRPIELVGCGANQ CEEEEHHHHCCCCCEEEEEECCHHHHHHHHHHHHCCCCCCEEEEEECCCCEEEEECCCCH AIAQQGIFSNHVCASLNLPSPNTQTSLNWLLTSVDQVLHQQAVSGHAVHINCPFPEPLYS HHHHCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHC NAPKSIYQSYIDTVAVWRAEGGIYSNKQMPLPMPTSIAEIEQRKAVVVIGSVTLQEAKQA CCCHHHHHHHHHHHHHEECCCCEECCCCCCCCCCCHHHHHHCCCEEEEEECHHHHHHHHH HQFAAQMGWPVLCDPQSGTTSDWSGFDIWLQNPAARAQLSQCDLIIQFGRRLVSKRLHQW HHHHHHCCCCEEECCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHH LEQQVQAGCDYWYVSPDFERDNQSHLPQQHFVCSIAAWLNVVTNREVQPVAWANELPRFS HHHHHHCCCCEEEECCCCCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHCCHHH AEVNKQAREIAQSSLCEMMIALHLSSLVGSADLFLGNSLFVRMVDMVGQLHGVETFTNRG HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHCCCHHHHHHHHHHHHHHCHHHHHCCC ASGIDGLFATASGVQRARSNPMLLMIGDTSALYDLNSLALYSHQETPVVIVVTNNDGGAI CCCCCHHHHHHHHHHHHCCCCEEEEECCCHHHHCCCHHEEEECCCCCEEEEEECCCCCEE FDLLPVPPQQKQALYQMPHGYRFEFAAKQFGLDYVRPTSMTELTERIVGHFAHGCGALLV EEECCCCCHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCEEEE EVNTPPNQASQHIKQLADHVRALV EECCCCCHHHHHHHHHHHHHHHCC >Mature Secondary Structure MNHDQAVLNRIWCETLFEELYRFGVRDVCVAPGSRSTPLALEANAHTSLKLHTHFDERGL CCCHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCEEEECCCCCEEEEEECCCCCCC GFLALGLAKASQRPVAVVVTSGTAVANLLPAVAEAGLTGEKLVLLTADRPIELVGCGANQ CEEEEHHHHCCCCCEEEEEECCHHHHHHHHHHHHCCCCCCEEEEEECCCCEEEEECCCCH AIAQQGIFSNHVCASLNLPSPNTQTSLNWLLTSVDQVLHQQAVSGHAVHINCPFPEPLYS HHHHCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHC NAPKSIYQSYIDTVAVWRAEGGIYSNKQMPLPMPTSIAEIEQRKAVVVIGSVTLQEAKQA CCCHHHHHHHHHHHHHEECCCCEECCCCCCCCCCCHHHHHHCCCEEEEEECHHHHHHHHH HQFAAQMGWPVLCDPQSGTTSDWSGFDIWLQNPAARAQLSQCDLIIQFGRRLVSKRLHQW HHHHHHCCCCEEECCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHH LEQQVQAGCDYWYVSPDFERDNQSHLPQQHFVCSIAAWLNVVTNREVQPVAWANELPRFS HHHHHHCCCCEEEECCCCCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHCCHHH AEVNKQAREIAQSSLCEMMIALHLSSLVGSADLFLGNSLFVRMVDMVGQLHGVETFTNRG HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHCCCHHHHHHHHHHHHHHCHHHHHCCC ASGIDGLFATASGVQRARSNPMLLMIGDTSALYDLNSLALYSHQETPVVIVVTNNDGGAI CCCCCHHHHHHHHHHHHCCCCEEEEECCCHHHHCCCHHEEEECCCCCEEEEEECCCCCEE FDLLPVPPQQKQALYQMPHGYRFEFAAKQFGLDYVRPTSMTELTERIVGHFAHGCGALLV EEECCCCCHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCEEEE EVNTPPNQASQHIKQLADHVRALV EECCCCCHHHHHHHHHHHHHHHCC
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: NA