Click here to switch to the map view.

The map label for this gene is csrD [H]

Identifier: 119774964

GI number: 119774964

Start: 2227669

End: 2229609

Strand: Direct

Name: csrD [H]

Synonym: Sama_1829

Alternate gene names: 119774964

Gene position: 2227669-2229609 (Clockwise)

Preceding gene: 119774962

Following gene: 119774965

Centisome position: 51.73

GC content: 50.08

Gene sequence:

>1941_bases
ATGGAATTAGCCATGAGTTTGATAAAAACTTTCCCCATCGCACTTATTTTGCTCTTCGGTAGTGCCGCACTTTGGTTACA
TCAAGAGAACCTTGGCCTGATGCAGGATGCTGGTAAGGCCCTGGAAACACAATATCGGAACAAAACCACTGAATTGGCAT
CCTGGCATGGTGATGGCCAGGCGCTCTATCAACACCTGCAGCAATCGATCACATTACAGTTTTTTCAATACACCGATGGC
ACCGATGGCAGCCGCAACTTCACCACCGGACAATTACAGGAAACCCCGGAATCGTTTTTGGCACGCCTGTTCCCCTTGGA
AATAAGTGATACCCGAAACTTGCCTGACGGGCGACTCATGGTGAAGTTGGATACAAACGGCCCCAGGACACTGGCGGTTA
GCCTCTATTCAGAACAATTAATCATCATTGGCAGTTTATTTGCCGCTTCGCTGCTGCTGTTTTTGGCGTTGGCGTCTACC
TTATCCCGTAAAATCCGTTACGCTGCAGAGTATGTAAAGTCGCTGACAGAACTTAACTTCTCTCCCCCTGAGCAGTCCAA
ACTCGGAGGAGAACTCAAGCCCCTCGCCACTGTATTTGAAGAAGCCAGACAAGCACTGAAGCAAAAGATTGATGGTTTGC
ATCATGAAAACGAGAAGCTGTCCCGGGCTGCATTTCAAGATCCCATTACCGGTTTTGGCAGCCGCGCGCGCTTTACCCGT
AAATTGGATGAATTGGCAAAGAGCCAAAAAGATTTGCTGGGTTCCCTCGCCATGCTGCAAGCCACTGAACTGGGTACTAT
CAACCAGCTTAAAGGCCGTACCGCTGGCGACGATTATCTGGCGAAAGTCGCCGGATGTTTGCGAAAGGCAGGCAGTCCCT
TCCCCGACGCAGAGTTCTACCGGATTAGCAGTTCTGACTTTGCCGTGTTTTTGCCTAACCTGGTTATCAGTGACGCAGAA
CGCTTTTTGGAGCCCCTTAAAACCTTACTCGATGAATACCAGTCCACTTCTGCCATGGAGTCAATAGCGTATACCGGACT
CGTGCCCTACAAGAGCGGCGTTGACCCGGTAGGCCTACTCAGTCTTTCTGATGCGGCGCTCAGCATTGCTCAAACACTGG
GCGCGAACAGTTTCCATGTGCTTGAGAAGTTCACAGAGGATCAGGAAATTGGAGATAACCGCTGGCAAGTGGCTATTACT
GAAATCATCACCCAACGCGCAGTACGATTCTTTCAGCAGCCAATACAGCCCTGCCGCAGTGAAGTGGAAGTCTACCGTGA
ACTCTTTGCCCGCTTCTTTAATTCAGAAGGTAAGGTTCTCCCGACTGCCACTGTGATAGCCATGGCTGAAAGGCACGGGC
TGAGTCAGGAGCTGGATAAACTGGTCGTACTCTCTGCTGTGCGCATGTTGCTGGATAATCCAAACATGACCGGTGCCTAT
GGGGTCAATATCAGCGCAGTGTCAGCGACCGATGATAATTTTGTGGTCTGGCTGAAAGATCTCTTGACCAAACACCGAGC
CATTTCTAACCGACTGGTACTGGAAATCAACGAAAGTGGTCTCCAAACCAATATGCAGGGCAGTTTCCGTTTCATACGTG
AAATCCACAGTGTGGGGACCAGGGTGTCCATCGAGCGTTTCGGCATGGGCTTTACATCGTTCAAGTTTTTCCGGGAAGTC
AGACCCGACTATATCAAGCTCGACGCCACCTACAGCGAAGCCATCGATCAAGACGCCAATAACAAGTTTTTTGTGCGCAT
GATGATAGACATTGCCAGACGTATCGGTGTCAGGGTCATTGCCTGCGGTGTAGAACGTCAGGAAGAAAAGCTGACGTTAG
AGAAGCTCATGGTGGATGGTTTGCAAGGTTTCTACATTGCCAAACCAGAACCTGCCGGCAGCAAAGACTTGCTTGACGAG
AAACTCACCCGCCAGAGTTAA

Upstream 100 bases:

>100_bases
TTTGCAAATCCTGTTGATTTGGATTTTGTTTTGTCAGCTTTGAGGTTACACTTTTCCCCGCTCTTCATATTCTTTAGCTA
GAATTTTCAAAACGGCGTTA

Downstream 100 bases:

>100_bases
CCCTGCATTTGATATGTTGTTAATGAGACTCAAAAAGCCGATAATACCGGCACCGACCGCTAATGCTTTTTTGCGATGAG
TGAATATCTCCTGTTGTTGA

Product: putative diguanylate phosphodiesterase

Products: NA

Alternate protein names: Regulator of CsrB and CsrC decay CsrD [H]

Number of amino acids: Translated: 646; Mature: 646

Protein sequence:

>646_residues
MELAMSLIKTFPIALILLFGSAALWLHQENLGLMQDAGKALETQYRNKTTELASWHGDGQALYQHLQQSITLQFFQYTDG
TDGSRNFTTGQLQETPESFLARLFPLEISDTRNLPDGRLMVKLDTNGPRTLAVSLYSEQLIIIGSLFAASLLLFLALAST
LSRKIRYAAEYVKSLTELNFSPPEQSKLGGELKPLATVFEEARQALKQKIDGLHHENEKLSRAAFQDPITGFGSRARFTR
KLDELAKSQKDLLGSLAMLQATELGTINQLKGRTAGDDYLAKVAGCLRKAGSPFPDAEFYRISSSDFAVFLPNLVISDAE
RFLEPLKTLLDEYQSTSAMESIAYTGLVPYKSGVDPVGLLSLSDAALSIAQTLGANSFHVLEKFTEDQEIGDNRWQVAIT
EIITQRAVRFFQQPIQPCRSEVEVYRELFARFFNSEGKVLPTATVIAMAERHGLSQELDKLVVLSAVRMLLDNPNMTGAY
GVNISAVSATDDNFVVWLKDLLTKHRAISNRLVLEINESGLQTNMQGSFRFIREIHSVGTRVSIERFGMGFTSFKFFREV
RPDYIKLDATYSEAIDQDANNKFFVRMMIDIARRIGVRVIACGVERQEEKLTLEKLMVDGLQGFYIAKPEPAGSKDLLDE
KLTRQS

Sequences:

>Translated_646_residues
MELAMSLIKTFPIALILLFGSAALWLHQENLGLMQDAGKALETQYRNKTTELASWHGDGQALYQHLQQSITLQFFQYTDG
TDGSRNFTTGQLQETPESFLARLFPLEISDTRNLPDGRLMVKLDTNGPRTLAVSLYSEQLIIIGSLFAASLLLFLALAST
LSRKIRYAAEYVKSLTELNFSPPEQSKLGGELKPLATVFEEARQALKQKIDGLHHENEKLSRAAFQDPITGFGSRARFTR
KLDELAKSQKDLLGSLAMLQATELGTINQLKGRTAGDDYLAKVAGCLRKAGSPFPDAEFYRISSSDFAVFLPNLVISDAE
RFLEPLKTLLDEYQSTSAMESIAYTGLVPYKSGVDPVGLLSLSDAALSIAQTLGANSFHVLEKFTEDQEIGDNRWQVAIT
EIITQRAVRFFQQPIQPCRSEVEVYRELFARFFNSEGKVLPTATVIAMAERHGLSQELDKLVVLSAVRMLLDNPNMTGAY
GVNISAVSATDDNFVVWLKDLLTKHRAISNRLVLEINESGLQTNMQGSFRFIREIHSVGTRVSIERFGMGFTSFKFFREV
RPDYIKLDATYSEAIDQDANNKFFVRMMIDIARRIGVRVIACGVERQEEKLTLEKLMVDGLQGFYIAKPEPAGSKDLLDE
KLTRQS
>Mature_646_residues
MELAMSLIKTFPIALILLFGSAALWLHQENLGLMQDAGKALETQYRNKTTELASWHGDGQALYQHLQQSITLQFFQYTDG
TDGSRNFTTGQLQETPESFLARLFPLEISDTRNLPDGRLMVKLDTNGPRTLAVSLYSEQLIIIGSLFAASLLLFLALAST
LSRKIRYAAEYVKSLTELNFSPPEQSKLGGELKPLATVFEEARQALKQKIDGLHHENEKLSRAAFQDPITGFGSRARFTR
KLDELAKSQKDLLGSLAMLQATELGTINQLKGRTAGDDYLAKVAGCLRKAGSPFPDAEFYRISSSDFAVFLPNLVISDAE
RFLEPLKTLLDEYQSTSAMESIAYTGLVPYKSGVDPVGLLSLSDAALSIAQTLGANSFHVLEKFTEDQEIGDNRWQVAIT
EIITQRAVRFFQQPIQPCRSEVEVYRELFARFFNSEGKVLPTATVIAMAERHGLSQELDKLVVLSAVRMLLDNPNMTGAY
GVNISAVSATDDNFVVWLKDLLTKHRAISNRLVLEINESGLQTNMQGSFRFIREIHSVGTRVSIERFGMGFTSFKFFREV
RPDYIKLDATYSEAIDQDANNKFFVRMMIDIARRIGVRVIACGVERQEEKLTLEKLMVDGLQGFYIAKPEPAGSKDLLDE
KLTRQS

Specific function: Serves as a specificity factor required for RNase E- mediated decay of the small global regulatory RNAs CsrB and CsrC, it is probably not a nuclease. Nor does its activity involve c-di- GMP, despite its domain composition. Positively modulates motility ge

COG id: COG2200

COG function: function code T; FOG: EAL domain

Gene ontology:

Cell location: Cell membrane; Multi-pass membrane protein (Potential) [H]

Metaboloic importance: Unknown [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 GGDEF domain [H]

Homologues:

Organism=Escherichia coli, GI1789650, Length=456, Percent_Identity=23.4649122807018, Blast_Score=129, Evalue=5e-31,
Organism=Escherichia coli, GI87081980, Length=233, Percent_Identity=29.1845493562232, Blast_Score=97, Evalue=3e-21,
Organism=Escherichia coli, GI1787541, Length=433, Percent_Identity=26.3279445727483, Blast_Score=96, Evalue=1e-20,
Organism=Escherichia coli, GI1788849, Length=221, Percent_Identity=25.7918552036199, Blast_Score=92, Evalue=1e-19,
Organism=Escherichia coli, GI87082096, Length=223, Percent_Identity=26.9058295964126, Blast_Score=91, Evalue=3e-19,
Organism=Escherichia coli, GI1787055, Length=229, Percent_Identity=26.2008733624454, Blast_Score=77, Evalue=4e-15,
Organism=Escherichia coli, GI226510982, Length=154, Percent_Identity=28.5714285714286, Blast_Score=75, Evalue=2e-14,
Organism=Escherichia coli, GI87081921, Length=456, Percent_Identity=23.2456140350877, Blast_Score=74, Evalue=2e-14,
Organism=Escherichia coli, GI1788502, Length=209, Percent_Identity=25.3588516746411, Blast_Score=73, Evalue=6e-14,
Organism=Escherichia coli, GI87081845, Length=225, Percent_Identity=24.4444444444444, Blast_Score=72, Evalue=9e-14,
Organism=Escherichia coli, GI1790496, Length=224, Percent_Identity=21.875, Blast_Score=72, Evalue=1e-13,
Organism=Escherichia coli, GI1786507, Length=259, Percent_Identity=25.0965250965251, Blast_Score=69, Evalue=6e-13,
Organism=Escherichia coli, GI87081743, Length=231, Percent_Identity=21.6450216450216, Blast_Score=65, Evalue=2e-11,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR001054
- InterPro:   IPR000160
- InterPro:   IPR001633 [H]

Pfam domain/function: PF00563 EAL; PF00990 GGDEF [H]

EC number: NA

Molecular weight: Translated: 72186; Mature: 72186

Theoretical pI: Translated: 5.94; Mature: 5.94

Prosite motif: PS50883 EAL ; PS50887 GGDEF

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
2.2 %Met     (Translated Protein)
2.6 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
2.2 %Met     (Mature Protein)
2.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MELAMSLIKTFPIALILLFGSAALWLHQENLGLMQDAGKALETQYRNKTTELASWHGDGQ
CHHHHHHHHHHHHHHHHHHCCHHEEEEECCCCHHHHHHHHHHHHHHCCHHHHHHCCCCHH
ALYQHLQQSITLQFFQYTDGTDGSRNFTTGQLQETPESFLARLFPLEISDTRNLPDGRLM
HHHHHHHHHHHEEEEEECCCCCCCCCCCCCHHHCCHHHHHHHHCCCEECCCCCCCCCEEE
VKLDTNGPRTLAVSLYSEQLIIIGSLFAASLLLFLALASTLSRKIRYAAEYVKSLTELNF
EEEECCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
SPPEQSKLGGELKPLATVFEEARQALKQKIDGLHHENEKLSRAAFQDPITGFGSRARFTR
CCCCHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCHHHHHHH
KLDELAKSQKDLLGSLAMLQATELGTINQLKGRTAGDDYLAKVAGCLRKAGSPFPDAEFY
HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCEE
RISSSDFAVFLPNLVISDAERFLEPLKTLLDEYQSTSAMESIAYTGLVPYKSGVDPVGLL
EECCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEE
SLSDAALSIAQTLGANSFHVLEKFTEDQEIGDNRWQVAITEIITQRAVRFFQQPIQPCRS
EHHHHHHHHHHHHCCCHHHHHHHHCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
EVEVYRELFARFFNSEGKVLPTATVIAMAERHGLSQELDKLVVLSAVRMLLDNPNMTGAY
HHHHHHHHHHHHHCCCCCEECHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCEE
GVNISAVSATDDNFVVWLKDLLTKHRAISNRLVLEINESGLQTNMQGSFRFIREIHSVGT
CCEEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCC
RVSIERFGMGFTSFKFFREVRPDYIKLDATYSEAIDQDANNKFFVRMMIDIARRIGVRVI
EEEHHHHCCCHHHHHHHHHCCCCEEEECCHHHHHHCCCCCCHHHHHHHHHHHHHCCCEEE
ACGVERQEEKLTLEKLMVDGLQGFYIAKPEPAGSKDLLDEKLTRQS
EECCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHCCC
>Mature Secondary Structure
MELAMSLIKTFPIALILLFGSAALWLHQENLGLMQDAGKALETQYRNKTTELASWHGDGQ
CHHHHHHHHHHHHHHHHHHCCHHEEEEECCCCHHHHHHHHHHHHHHCCHHHHHHCCCCHH
ALYQHLQQSITLQFFQYTDGTDGSRNFTTGQLQETPESFLARLFPLEISDTRNLPDGRLM
HHHHHHHHHHHEEEEEECCCCCCCCCCCCCHHHCCHHHHHHHHCCCEECCCCCCCCCEEE
VKLDTNGPRTLAVSLYSEQLIIIGSLFAASLLLFLALASTLSRKIRYAAEYVKSLTELNF
EEEECCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
SPPEQSKLGGELKPLATVFEEARQALKQKIDGLHHENEKLSRAAFQDPITGFGSRARFTR
CCCCHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCHHHHHHH
KLDELAKSQKDLLGSLAMLQATELGTINQLKGRTAGDDYLAKVAGCLRKAGSPFPDAEFY
HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCEE
RISSSDFAVFLPNLVISDAERFLEPLKTLLDEYQSTSAMESIAYTGLVPYKSGVDPVGLL
EECCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEE
SLSDAALSIAQTLGANSFHVLEKFTEDQEIGDNRWQVAITEIITQRAVRFFQQPIQPCRS
EHHHHHHHHHHHHCCCHHHHHHHHCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
EVEVYRELFARFFNSEGKVLPTATVIAMAERHGLSQELDKLVVLSAVRMLLDNPNMTGAY
HHHHHHHHHHHHHCCCCCEECHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCEE
GVNISAVSATDDNFVVWLKDLLTKHRAISNRLVLEINESGLQTNMQGSFRFIREIHSVGT
CCEEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCC
RVSIERFGMGFTSFKFFREVRPDYIKLDATYSEAIDQDANNKFFVRMMIDIARRIGVRVI
EEEHHHHCCCHHHHHHHHHCCCCEEEECCHHHHHHCCCCCCHHHHHHHHHHHHHCCCEEE
ACGVERQEEKLTLEKLMVDGLQGFYIAKPEPAGSKDLLDEKLTRQS
EECCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHCCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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: 6.0

TargetDB status: NA

Availability: NA

References: 9278503; 3049542 [H]