Click here to switch to the map view.

The map label for this gene is ydaM [H]

Identifier: 227081357

GI number: 227081357

Start: 1216628

End: 1217959

Strand: Direct

Name: ydaM [H]

Synonym: VCM66_1140

Alternate gene names: 227081357

Gene position: 1216628-1217959 (Clockwise)

Preceding gene: 227081356

Following gene: 227081361

Centisome position: 42.06

GC content: 49.02

Gene sequence:

>1332_bases
GTGAAAGTGCTGCCAAGAGTGTTACTAGGATTAGTCGCGGTCACGATTGTGACCGTATTGCTGTACTGGCAGTTTGGTTC
TGCGAAACGAGTGTTGATTGAACCTCAACACTATGCCTATTTCACCACCAACGATCAAACCGCTGGCGGCACATCGACCA
GCGCCTTATCCCTCAATGGCAATACTGCCAAAGTGGACTGTGAATTGAATGCCAGTCGCTACGCGTGGCCATATTGTGGC
ATCTCTATTCACCTTAATCCCGACCCTCAACGTGGCCTCGATTTGAGTGATATCCATACCATACGTCTTAACGTGGACTT
GCAAGGCCCCGCTGCAGAGCCTGCGGCAATGCGTCTGTATTTACGTAATTTCAATCCGATCTACTCTCAGCTTGATGATG
AATATACCCATAAATACAACGGATTAGAGTTTGTGCCGGGCGTTGGGAAAGGTGTGATTGATATTCCCATTCGCAGCTTG
CAAGTAATGACGTGGTGGTTGGTTGATAATCGTATTGCCATTGAACACTCCGCTCCTGAGTTTTCCAACGTCAATAAAAT
TGAATTTGCGACCGGTTCAGCCAGTCCACTAGGGCAATATCAATTGACCTTACATCAAGTGGAATTGATTGGGGATTATG
TGGCTGGAGAGAAGCTGTTTCTCGCCATGTTGATCATGTGGGCGGTGGCAGGAGCATGGCTCTCTGCGCTCGAAATTCGT
CGTAATCGCCGTGAGGTTTTACGTGCTCGTATGCGCCAAGAGCACTTACAGCGTTTGAATCACTCATTGCATGAGCAAAA
TATAAAGTTCGTCGAAATGGCGCATCGTGATGCATTGACGGGAGCCATTAATCGGCATGGCATTCGTGATTGGTTGCAAG
ATCAAGCGCGCTTAGTGCGCTGGCAACTCAATCACGTTAGCGTACTGTTCATCGATATTGATTACTTCAAACAAGTCAAC
GATGTGTACGGACACAGTCTAGGGGATGATCTGCTGCGTGAGTTTGCTTTGGTCATCAGCCGTGAAATCCGAGAAAGTGA
CAAATTAGTGCGTTGGGGGGGGGAAGAGTTTGTGGTGTTTTGCGCGCAGACAACCCTTGAGCAAGCGATTGAGCTTGCAG
AGCGGCTTCGAGCTAAAATCGCCGACCACAGTTGGATACACGGAGGTGCGATCACGTGCAGTATCGGTATTGCCCAAATG
GGCGACGAGCGGATTACGGAAACCGTTTCACGCGCCGACGAAGCGTTGTACCGAGCCAAACGGCTTGGCCGCAATCGAAT
CGAAGTTCACTATGGATTAATGGCCAAAAGCAGTGATGGAGAAAAAGGGTGA

Upstream 100 bases:

>100_bases
CCGCATCTAACCGCTATTTTTTGGAAGCAATCTCTCTTTATTGGGTATCTTGTATTAAGAGAGAGCGTGTTAATGATGTG
GCTTGACGCTGGAGTAGGTT

Downstream 100 bases:

>100_bases
GTACGGCACCAAGTCGTGTCTATCTAGCCTAAATTCAATCACGAAGAATGTTGCCGCAGGGTACGCGACAACATTCAGGG
ATTAGCTTATCGAGACGGAT

Product: GGDEF family protein

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 443; Mature: 443

Protein sequence:

>443_residues
MKVLPRVLLGLVAVTIVTVLLYWQFGSAKRVLIEPQHYAYFTTNDQTAGGTSTSALSLNGNTAKVDCELNASRYAWPYCG
ISIHLNPDPQRGLDLSDIHTIRLNVDLQGPAAEPAAMRLYLRNFNPIYSQLDDEYTHKYNGLEFVPGVGKGVIDIPIRSL
QVMTWWLVDNRIAIEHSAPEFSNVNKIEFATGSASPLGQYQLTLHQVELIGDYVAGEKLFLAMLIMWAVAGAWLSALEIR
RNRREVLRARMRQEHLQRLNHSLHEQNIKFVEMAHRDALTGAINRHGIRDWLQDQARLVRWQLNHVSVLFIDIDYFKQVN
DVYGHSLGDDLLREFALVISREIRESDKLVRWGGEEFVVFCAQTTLEQAIELAERLRAKIADHSWIHGGAITCSIGIAQM
GDERITETVSRADEALYRAKRLGRNRIEVHYGLMAKSSDGEKG

Sequences:

>Translated_443_residues
MKVLPRVLLGLVAVTIVTVLLYWQFGSAKRVLIEPQHYAYFTTNDQTAGGTSTSALSLNGNTAKVDCELNASRYAWPYCG
ISIHLNPDPQRGLDLSDIHTIRLNVDLQGPAAEPAAMRLYLRNFNPIYSQLDDEYTHKYNGLEFVPGVGKGVIDIPIRSL
QVMTWWLVDNRIAIEHSAPEFSNVNKIEFATGSASPLGQYQLTLHQVELIGDYVAGEKLFLAMLIMWAVAGAWLSALEIR
RNRREVLRARMRQEHLQRLNHSLHEQNIKFVEMAHRDALTGAINRHGIRDWLQDQARLVRWQLNHVSVLFIDIDYFKQVN
DVYGHSLGDDLLREFALVISREIRESDKLVRWGGEEFVVFCAQTTLEQAIELAERLRAKIADHSWIHGGAITCSIGIAQM
GDERITETVSRADEALYRAKRLGRNRIEVHYGLMAKSSDGEKG
>Mature_443_residues
MKVLPRVLLGLVAVTIVTVLLYWQFGSAKRVLIEPQHYAYFTTNDQTAGGTSTSALSLNGNTAKVDCELNASRYAWPYCG
ISIHLNPDPQRGLDLSDIHTIRLNVDLQGPAAEPAAMRLYLRNFNPIYSQLDDEYTHKYNGLEFVPGVGKGVIDIPIRSL
QVMTWWLVDNRIAIEHSAPEFSNVNKIEFATGSASPLGQYQLTLHQVELIGDYVAGEKLFLAMLIMWAVAGAWLSALEIR
RNRREVLRARMRQEHLQRLNHSLHEQNIKFVEMAHRDALTGAINRHGIRDWLQDQARLVRWQLNHVSVLFIDIDYFKQVN
DVYGHSLGDDLLREFALVISREIRESDKLVRWGGEEFVVFCAQTTLEQAIELAERLRAKIADHSWIHGGAITCSIGIAQM
GDERITETVSRADEALYRAKRLGRNRIEVHYGLMAKSSDGEKG

Specific function: Unknown

COG id: NA

COG function: NA

Gene ontology:

Cell location: Cytoplasmic

Metaboloic importance: Non Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 2 PAS (PER-ARNT-SIM) domains [H]

Homologues:

Organism=Escherichia coli, GI87081881, Length=161, Percent_Identity=41.6149068322981, Blast_Score=115, Evalue=5e-27,
Organism=Escherichia coli, GI1787262, Length=164, Percent_Identity=36.5853658536585, Blast_Score=95, Evalue=9e-21,
Organism=Escherichia coli, GI145693134, Length=158, Percent_Identity=33.5443037974684, Blast_Score=94, Evalue=1e-20,
Organism=Escherichia coli, GI87082007, Length=158, Percent_Identity=35.4430379746835, Blast_Score=91, Evalue=1e-19,
Organism=Escherichia coli, GI1786584, Length=171, Percent_Identity=32.7485380116959, Blast_Score=89, Evalue=5e-19,
Organism=Escherichia coli, GI1788381, Length=162, Percent_Identity=35.8024691358025, Blast_Score=88, Evalue=1e-18,
Organism=Escherichia coli, GI1787802, Length=169, Percent_Identity=33.1360946745562, Blast_Score=86, Evalue=7e-18,
Organism=Escherichia coli, GI1787541, Length=162, Percent_Identity=35.1851851851852, Blast_Score=84, Evalue=2e-17,
Organism=Escherichia coli, GI1787816, Length=179, Percent_Identity=31.2849162011173, Blast_Score=83, Evalue=3e-17,
Organism=Escherichia coli, GI87081974, Length=290, Percent_Identity=27.2413793103448, Blast_Score=75, Evalue=1e-14,
Organism=Escherichia coli, GI1788085, Length=167, Percent_Identity=30.5389221556886, Blast_Score=70, Evalue=2e-13,
Organism=Escherichia coli, GI1787056, Length=119, Percent_Identity=31.9327731092437, Blast_Score=66, Evalue=4e-12,
Organism=Escherichia coli, GI87081977, Length=162, Percent_Identity=30.2469135802469, Blast_Score=64, Evalue=2e-11,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR001054
- InterPro:   IPR000160
- InterPro:   IPR001610
- InterPro:   IPR000014
- InterPro:   IPR000700
- InterPro:   IPR013656 [H]

Pfam domain/function: PF00990 GGDEF; PF08448 PAS_4 [H]

EC number: NA

Molecular weight: Translated: 50198; Mature: 50198

Theoretical pI: Translated: 6.96; Mature: 6.96

Prosite motif: PS50887 GGDEF

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.9 %Cys     (Translated Protein)
2.0 %Met     (Translated Protein)
2.9 %Cys+Met (Translated Protein)
0.9 %Cys     (Mature Protein)
2.0 %Met     (Mature Protein)
2.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKVLPRVLLGLVAVTIVTVLLYWQFGSAKRVLIEPQHYAYFTTNDQTAGGTSTSALSLNG
CCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCEEEEEECCCCCCCCCCCEEEEECC
NTAKVDCELNASRYAWPYCGISIHLNPDPQRGLDLSDIHTIRLNVDLQGPAAEPAAMRLY
CEEEEEEEECCCCEECCEEEEEEEECCCCCCCCCCCCEEEEEEEEEECCCCCCHHHHHHH
LRNFNPIYSQLDDEYTHKYNGLEFVPGVGKGVIDIPIRSLQVMTWWLVDNRIAIEHSAPE
HHCCCHHHHHCCHHHHHHCCCEEECCCCCCCEEECCCHHEEEEEEEEECCEEEEEECCCC
FSNVNKIEFATGSASPLGQYQLTLHQVELIGDYVAGEKLFLAMLIMWAVAGAWLSALEIR
CCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHH
RNRREVLRARMRQEHLQRLNHSLHEQNIKFVEMAHRDALTGAINRHGIRDWLQDQARLVR
HHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
WQLNHVSVLFIDIDYFKQVNDVYGHSLGDDLLREFALVISREIRESDKLVRWGGEEFVVF
EEECCEEEEEEEHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCEEEEE
CAQTTLEQAIELAERLRAKIADHSWIHGGAITCSIGIAQMGDERITETVSRADEALYRAK
EHHHHHHHHHHHHHHHHHHHCCCCEECCCEEEEEEEHHHCCHHHHHHHHHHHHHHHHHHH
RLGRNRIEVHYGLMAKSSDGEKG
HCCCCEEEEEEEEEEECCCCCCC
>Mature Secondary Structure
MKVLPRVLLGLVAVTIVTVLLYWQFGSAKRVLIEPQHYAYFTTNDQTAGGTSTSALSLNG
CCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCEEEEEECCCCCCCCCCCEEEEECC
NTAKVDCELNASRYAWPYCGISIHLNPDPQRGLDLSDIHTIRLNVDLQGPAAEPAAMRLY
CEEEEEEEECCCCEECCEEEEEEEECCCCCCCCCCCCEEEEEEEEEECCCCCCHHHHHHH
LRNFNPIYSQLDDEYTHKYNGLEFVPGVGKGVIDIPIRSLQVMTWWLVDNRIAIEHSAPE
HHCCCHHHHHCCHHHHHHCCCEEECCCCCCCEEECCCHHEEEEEEEEECCEEEEEECCCC
FSNVNKIEFATGSASPLGQYQLTLHQVELIGDYVAGEKLFLAMLIMWAVAGAWLSALEIR
CCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHH
RNRREVLRARMRQEHLQRLNHSLHEQNIKFVEMAHRDALTGAINRHGIRDWLQDQARLVR
HHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
WQLNHVSVLFIDIDYFKQVNDVYGHSLGDDLLREFALVISREIRESDKLVRWGGEEFVVF
EEECCEEEEEEEHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCEEEEE
CAQTTLEQAIELAERLRAKIADHSWIHGGAITCSIGIAQMGDERITETVSRADEALYRAK
EHHHHHHHHHHHHHHHHHHHCCCCEECCCEEEEEEEHHHCCHHHHHHHHHHHHHHHHHHH
RLGRNRIEVHYGLMAKSSDGEKG
HCCCCEEEEEEEEEEECCCCCCC

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: 11206551; 11258796 [H]