Click here to switch to the map view.

The map label for this gene is yabD [H]

Identifier: 78223667

GI number: 78223667

Start: 2788435

End: 2790255

Strand: Direct

Name: yabD [H]

Synonym: Gmet_2464

Alternate gene names: 78223667

Gene position: 2788435-2790255 (Clockwise)

Preceding gene: 78223663

Following gene: 78223668

Centisome position: 69.76

GC content: 62.6

Gene sequence:

>1821_bases
ATGTTCCAGTACTCCTGGCGCGAAATACTGGAGGCAGACCGCTGCCGCAGCCCGGAAAGCTCCGTCAATGCCCGTTTTTT
AGCAGTGGGAGGCGTCGAACATCCCGCAAAGAGAACTGCCGCCGCCAGAAAGGAAACCGTACCTCCCATCCCGACGCCGA
CCCGGCACATTAATGAGACTCTCTGTGCTGCATTTCCAGACAAGACCTCGTCCCCCTTCATCCGCATACCATACAACAAT
CCGTATACCACGGAACATTGCACGGTAACAAGGGATGCTTACGACCACTACAGGAGTCTGGCAGTGGATGCCGACACTGA
TGGCAACGCCGTGATTCTGTGCCCTTGCCAGGGGACGGACATTCATGATAGTTCTGTTTCAAGCGGCATCACCATGCCGC
CTTTTACGTTGCACCGCGAAAAAGGAACAATCATGAACGAGACCGGTTTCCTCATTGACACCCATGCCCACATCGACGGT
CACGACTTTGTCGCCGACTTCGACGAGGTGCTTGGCCGCGCCGCCGAGGCGGGGCTCTCCCATATCATCACCGTCGGCGC
AGACCTTGAGTCGAGCCAGGCCGCCTGCGAACTGGCCCGCAAGCACGACCACATCTACTGCGCCGTGGGGGTCCACCCCC
ACGACGCCTCGCGGGTGACCGAACGCTGCTACCAAGTCATTCGAGAGTTGGCCCAGGGGAACCCGAAGGTGGTAGCCATC
GGCGAGATCGGCCTCGACTTCTACCGGGATCGCTCCCCCCGCGACGAGCAGGAACGGGTTTTCCGCCACTTCATCCGCCT
CGCCCGGGAACTGGCGCTGCCGATCATCGTCCACGACCGGGACGCCCACGACCGGGTCATGGCGATCCTGCGGGAGGAAA
AGGCCGCCGAAGTGGGGGGGGTGCTCCACTGCTTTTCCGGGGACCTGGCCATGGCGCGCGAATGCGTGGAAATGGGATTT
TACCTCTCCATCCCCGGCACCGTCACCTACCCCTCCAACGAACAGCTCCGCGAGGTGGTGCGCGGCATCAGGACCGAGCA
CCTGCTTATCGAGACCGACTGCCCCTACCTCTCGCCGGTTCCCCACCGGGGAAAACGGAACGAACCGGCATATGTCCGGC
TCACCGCCACGAAGGTGGCGGAACTGAAGGGGCTCACCCTGGAGGACGTGGGGCGGATCACCTCCCTCAACGCCCGGCGG
CTCTTCGGCATCGGCGGCAAGGACCAGGCGGCCCGGATCGCCTACCGGATCAGGAACTCCCTCTACCTCAACATCACCAA
CCGCTGTTCCAACCGCTGCTCCTTCTGCGCCAAGTTCGACGACTTCACCGTGAAAGGGCATTACCTGCAGCTTGACCACG
AGCCGAACTTCGACGAGGTGATGGCTGCCATCGGCGATCCCGGCCCGGTGGACGAAGTGGTATTCTGCGGCTACGGTGAG
CCGATGCTCCGCATCGACCTCATCCGGGAAGTGGCGGCCGAGCTCAAGAAGCGGGGTCTCCGCATCCGGATCAATACCGA
TGGCCAGGCGAACCTGGTCCATGGCCGCAACGTCCTGCCGGAACTGGAGGGACTTATCGACTGCATCTCTGTCAGCCTCA
ACGCTGCCGACGCCGAAACCTACGCCCGCCTCTGCAACACCCCCTTCGGCACGGCGGGTTTCGACGGCATCTGCCGGTTC
CTCACGGAAGCGACGAAGCATATCCCGAAGGTAGTGGCCACGGCGGTCACCGTGCCGGGGGTTGACATCGCAGCCGTGCG
GAGCCTTGCCGAGACTCTGGGGGTGGAATTCCGGGAACGGGAGTACGCCGAGGTGGGATAG

Upstream 100 bases:

>100_bases
GAGAAGCTTTGCCTTGCCGGCGGCCAGATCGAACAGAACCTCTGCCCGCTTGCGTTCACCCCTGGCCAGGTGGGATTCCG
CCCGGGCCACGGTCTCCTCG

Downstream 100 bases:

>100_bases
CACCTGCCGGAACCGGTATTTTTATTTTAACTAAATAAAGCCTGCCCTCGGCGGGCTTTTTTTATTATCGCTGCTGCAAC
CATTCTCCTTGCATTCATGC

Product: TatD-related deoxyribonuclease:radical SAM family protein

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 606; Mature: 606

Protein sequence:

>606_residues
MFQYSWREILEADRCRSPESSVNARFLAVGGVEHPAKRTAAARKETVPPIPTPTRHINETLCAAFPDKTSSPFIRIPYNN
PYTTEHCTVTRDAYDHYRSLAVDADTDGNAVILCPCQGTDIHDSSVSSGITMPPFTLHREKGTIMNETGFLIDTHAHIDG
HDFVADFDEVLGRAAEAGLSHIITVGADLESSQAACELARKHDHIYCAVGVHPHDASRVTERCYQVIRELAQGNPKVVAI
GEIGLDFYRDRSPRDEQERVFRHFIRLARELALPIIVHDRDAHDRVMAILREEKAAEVGGVLHCFSGDLAMARECVEMGF
YLSIPGTVTYPSNEQLREVVRGIRTEHLLIETDCPYLSPVPHRGKRNEPAYVRLTATKVAELKGLTLEDVGRITSLNARR
LFGIGGKDQAARIAYRIRNSLYLNITNRCSNRCSFCAKFDDFTVKGHYLQLDHEPNFDEVMAAIGDPGPVDEVVFCGYGE
PMLRIDLIREVAAELKKRGLRIRINTDGQANLVHGRNVLPELEGLIDCISVSLNAADAETYARLCNTPFGTAGFDGICRF
LTEATKHIPKVVATAVTVPGVDIAAVRSLAETLGVEFREREYAEVG

Sequences:

>Translated_606_residues
MFQYSWREILEADRCRSPESSVNARFLAVGGVEHPAKRTAAARKETVPPIPTPTRHINETLCAAFPDKTSSPFIRIPYNN
PYTTEHCTVTRDAYDHYRSLAVDADTDGNAVILCPCQGTDIHDSSVSSGITMPPFTLHREKGTIMNETGFLIDTHAHIDG
HDFVADFDEVLGRAAEAGLSHIITVGADLESSQAACELARKHDHIYCAVGVHPHDASRVTERCYQVIRELAQGNPKVVAI
GEIGLDFYRDRSPRDEQERVFRHFIRLARELALPIIVHDRDAHDRVMAILREEKAAEVGGVLHCFSGDLAMARECVEMGF
YLSIPGTVTYPSNEQLREVVRGIRTEHLLIETDCPYLSPVPHRGKRNEPAYVRLTATKVAELKGLTLEDVGRITSLNARR
LFGIGGKDQAARIAYRIRNSLYLNITNRCSNRCSFCAKFDDFTVKGHYLQLDHEPNFDEVMAAIGDPGPVDEVVFCGYGE
PMLRIDLIREVAAELKKRGLRIRINTDGQANLVHGRNVLPELEGLIDCISVSLNAADAETYARLCNTPFGTAGFDGICRF
LTEATKHIPKVVATAVTVPGVDIAAVRSLAETLGVEFREREYAEVG
>Mature_606_residues
MFQYSWREILEADRCRSPESSVNARFLAVGGVEHPAKRTAAARKETVPPIPTPTRHINETLCAAFPDKTSSPFIRIPYNN
PYTTEHCTVTRDAYDHYRSLAVDADTDGNAVILCPCQGTDIHDSSVSSGITMPPFTLHREKGTIMNETGFLIDTHAHIDG
HDFVADFDEVLGRAAEAGLSHIITVGADLESSQAACELARKHDHIYCAVGVHPHDASRVTERCYQVIRELAQGNPKVVAI
GEIGLDFYRDRSPRDEQERVFRHFIRLARELALPIIVHDRDAHDRVMAILREEKAAEVGGVLHCFSGDLAMARECVEMGF
YLSIPGTVTYPSNEQLREVVRGIRTEHLLIETDCPYLSPVPHRGKRNEPAYVRLTATKVAELKGLTLEDVGRITSLNARR
LFGIGGKDQAARIAYRIRNSLYLNITNRCSNRCSFCAKFDDFTVKGHYLQLDHEPNFDEVMAAIGDPGPVDEVVFCGYGE
PMLRIDLIREVAAELKKRGLRIRINTDGQANLVHGRNVLPELEGLIDCISVSLNAADAETYARLCNTPFGTAGFDGICRF
LTEATKHIPKVVATAVTVPGVDIAAVRSLAETLGVEFREREYAEVG

Specific function: Unknown

COG id: COG0084

COG function: function code L; Mg-dependent DNase

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Unknown [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the tatD DNase family [H]

Homologues:

Organism=Homo sapiens, GI110349730, Length=268, Percent_Identity=31.3432835820896, Blast_Score=118, Evalue=2e-26,
Organism=Homo sapiens, GI110349734, Length=268, Percent_Identity=31.3432835820896, Blast_Score=117, Evalue=3e-26,
Organism=Homo sapiens, GI226061853, Length=273, Percent_Identity=30.4029304029304, Blast_Score=114, Evalue=3e-25,
Organism=Homo sapiens, GI14042943, Length=197, Percent_Identity=32.48730964467, Blast_Score=108, Evalue=2e-23,
Organism=Homo sapiens, GI226061614, Length=261, Percent_Identity=29.8850574712644, Blast_Score=107, Evalue=4e-23,
Organism=Homo sapiens, GI225903439, Length=180, Percent_Identity=31.6666666666667, Blast_Score=94, Evalue=4e-19,
Organism=Homo sapiens, GI225903424, Length=274, Percent_Identity=28.4671532846715, Blast_Score=91, Evalue=3e-18,
Organism=Homo sapiens, GI226061595, Length=230, Percent_Identity=29.5652173913043, Blast_Score=87, Evalue=6e-17,
Organism=Escherichia coli, GI1787342, Length=258, Percent_Identity=41.8604651162791, Blast_Score=196, Evalue=4e-51,
Organism=Escherichia coli, GI48994985, Length=261, Percent_Identity=38.3141762452107, Blast_Score=169, Evalue=4e-43,
Organism=Escherichia coli, GI87082439, Length=255, Percent_Identity=30.5882352941176, Blast_Score=134, Evalue=1e-32,
Organism=Caenorhabditis elegans, GI17559024, Length=283, Percent_Identity=31.8021201413428, Blast_Score=148, Evalue=8e-36,
Organism=Caenorhabditis elegans, GI71980746, Length=261, Percent_Identity=30.2681992337165, Blast_Score=119, Evalue=6e-27,
Organism=Caenorhabditis elegans, GI17543026, Length=187, Percent_Identity=30.4812834224599, Blast_Score=79, Evalue=6e-15,
Organism=Caenorhabditis elegans, GI17565396, Length=214, Percent_Identity=30.8411214953271, Blast_Score=79, Evalue=9e-15,
Organism=Drosophila melanogaster, GI24648690, Length=290, Percent_Identity=28.2758620689655, Blast_Score=108, Evalue=8e-24,
Organism=Drosophila melanogaster, GI221330018, Length=212, Percent_Identity=33.9622641509434, Blast_Score=94, Evalue=2e-19,
Organism=Drosophila melanogaster, GI24586117, Length=212, Percent_Identity=33.9622641509434, Blast_Score=94, Evalue=2e-19,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR015992
- InterPro:   IPR001130
- InterPro:   IPR018228
- InterPro:   IPR012278
- InterPro:   IPR015991 [H]

Pfam domain/function: PF01026 TatD_DNase [H]

EC number: 3.1.21.-

Molecular weight: Translated: 67201; Mature: 67201

Theoretical pI: Translated: 6.23; Mature: 6.23

Prosite motif: PS01137 TATD_1 ; PS01090 TATD_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

3.0 %Cys     (Translated Protein)
1.3 %Met     (Translated Protein)
4.3 %Cys+Met (Translated Protein)
3.0 %Cys     (Mature Protein)
1.3 %Met     (Mature Protein)
4.3 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MFQYSWREILEADRCRSPESSVNARFLAVGGVEHPAKRTAAARKETVPPIPTPTRHINET
CCCCCHHHHHHHHHCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCHHHHHHH
LCAAFPDKTSSPFIRIPYNNPYTTEHCTVTRDAYDHYRSLAVDADTDGNAVILCPCQGTD
HHHCCCCCCCCCEEEECCCCCCCCCCEEEEHHHHHHHHHEEEECCCCCCEEEEEECCCCC
IHDSSVSSGITMPPFTLHREKGTIMNETGFLIDTHAHIDGHDFVADFDEVLGRAAEAGLS
CCCCCCCCCCCCCCEEEECCCCCEECCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCC
HIITVGADLESSQAACELARKHDHIYCAVGVHPHDASRVTERCYQVIRELAQGNPKVVAI
EEEEECCCCCCHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCEEEE
GEIGLDFYRDRSPRDEQERVFRHFIRLARELALPIIVHDRDAHDRVMAILREEKAAEVGG
ECCCHHHHCCCCCCCHHHHHHHHHHHHHHHHCCEEEEECCCHHHHHHHHHHHHHHHHHCC
VLHCFSGDLAMARECVEMGFYLSIPGTVTYPSNEQLREVVRGIRTEHLLIETDCPYLSPV
EEEEECCCHHHHHHHHHCCEEEECCCEEECCCCHHHHHHHHHCCCCEEEEECCCCCCCCC
PHRGKRNEPAYVRLTATKVAELKGLTLEDVGRITSLNARRLFGIGGKDQAARIAYRIRNS
CCCCCCCCCCEEEEEEHHHHHHCCCCHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHCC
LYLNITNRCSNRCSFCAKFDDFTVKGHYLQLDHEPNFDEVMAAIGDPGPVDEVVFCGYGE
EEEEEHHHCCCHHCEEEECCCEEEEEEEEEECCCCCHHHHHHHHCCCCCCCCEEEECCCC
PMLRIDLIREVAAELKKRGLRIRINTDGQANLVHGRNVLPELEGLIDCISVSLNAADAET
CHHHHHHHHHHHHHHHHCCEEEEECCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCHHH
YARLCNTPFGTAGFDGICRFLTEATKHIPKVVATAVTVPGVDIAAVRSLAETLGVEFRER
HHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHH
EYAEVG
HHHCCC
>Mature Secondary Structure
MFQYSWREILEADRCRSPESSVNARFLAVGGVEHPAKRTAAARKETVPPIPTPTRHINET
CCCCCHHHHHHHHHCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCHHHHHHH
LCAAFPDKTSSPFIRIPYNNPYTTEHCTVTRDAYDHYRSLAVDADTDGNAVILCPCQGTD
HHHCCCCCCCCCEEEECCCCCCCCCCEEEEHHHHHHHHHEEEECCCCCCEEEEEECCCCC
IHDSSVSSGITMPPFTLHREKGTIMNETGFLIDTHAHIDGHDFVADFDEVLGRAAEAGLS
CCCCCCCCCCCCCCEEEECCCCCEECCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCC
HIITVGADLESSQAACELARKHDHIYCAVGVHPHDASRVTERCYQVIRELAQGNPKVVAI
EEEEECCCCCCHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCEEEE
GEIGLDFYRDRSPRDEQERVFRHFIRLARELALPIIVHDRDAHDRVMAILREEKAAEVGG
ECCCHHHHCCCCCCCHHHHHHHHHHHHHHHHCCEEEEECCCHHHHHHHHHHHHHHHHHCC
VLHCFSGDLAMARECVEMGFYLSIPGTVTYPSNEQLREVVRGIRTEHLLIETDCPYLSPV
EEEEECCCHHHHHHHHHCCEEEECCCEEECCCCHHHHHHHHHCCCCEEEEECCCCCCCCC
PHRGKRNEPAYVRLTATKVAELKGLTLEDVGRITSLNARRLFGIGGKDQAARIAYRIRNS
CCCCCCCCCCEEEEEEHHHHHHCCCCHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHCC
LYLNITNRCSNRCSFCAKFDDFTVKGHYLQLDHEPNFDEVMAAIGDPGPVDEVVFCGYGE
EEEEEHHHCCCHHCEEEECCCEEEEEEEEEECCCCCHHHHHHHHCCCCCCCCEEEECCCC
PMLRIDLIREVAAELKKRGLRIRINTDGQANLVHGRNVLPELEGLIDCISVSLNAADAET
CHHHHHHHHHHHHHHHHCCEEEEECCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCHHH
YARLCNTPFGTAGFDGICRFLTEATKHIPKVVATAVTVPGVDIAAVRSLAETLGVEFRER
HHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHH
EYAEVG
HHHCCC

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: 7584024; 9384377 [H]