BacMap

Definition	Roseobacter denitrificans OCh 114, complete genome.
Accession	NC_008209
Length	4,133,097

Click here to switch to the map view.

The map label for this gene is ibd2 [H]

Identifier: 110678692

GI number: 110678692

Start: 1317271

End: 1318956

Strand: Reverse

Name: ibd2 [H]

Synonym: RD1_1372

Alternate gene names: 110678692

Gene position: 1318956-1317271 (Counterclockwise)

Preceding gene: 110678693

Following gene: 110678691

Centisome position: 31.91

GC content: 58.54

Gene sequence:

>1686_bases
ATGGCCCATGACGGACAAGACCCCTCATTTCATGTGACAGTGCTGCTGGATGACCTGCTTGAACTGACGGCAGCGGCTGT
GCCGCCGGTTGAAGCGCTGCTGGAGACAGCCAAAGCGCGGGTCAAAGCCAAGGTGAGCGAGAATGGCCGCGTCTCTGGCG
CGTTGATTGAACAGCATCAAACGGCTGCTCATGGTCTGGCCTGGCTTGCAACCTATGCGCAATCGCTCAAGCAGATGCAA
AAATGGGCGGAGACACTGAGCGCCGAAGGCAACTTCGGAGAGACCGAACAATTGCTGCACCAGATCGCCTTTGGTGAATA
CCTCTGGCAAATCTATGGCGGCATTCAGATGAATCAGGGTGAGATCGTGCGGCTGCAGGATCTCGGGCTTGATCAATCTG
AGATGCGCGGTCTGATGGAACCTGCGGTGATGACCCTCACGCAGTCAGGCAACACGCAGGCAGCGCGCACGCGGCTTGCC
GAACTGATGCAGGAGCACTCCGCAAATACAACGGTCGGCGCCTGTGGTCTTGACGAAGAACTGGAAATGATCCGCGATCA
GTTCCGCCGCTACGCTGTCGAGAAGGTAGAGCCCTTTGCTCACGAATGGCATCTCAAGGATGAGTTGATCCCGATGGAGG
TGATTGACGAGTTGGCCGAGATGGGCGTTTTCGGCCTGACCATCCCCGAGGAATACGGTGGCTTCGGTCTGTCCAAAGCG
TCCATGTGCGTGGTGTCAGAGGAGTTGTCGCGCGGCTATATCGGCGTGGGATCGCTCGGTACTCGGTCGGAGATTGCGGC
CGAACTCATCATCGCCGGCGGTACGCAGGAGCAGAAAGAGAAATGGCTGCCCCGCCTTGCCTCCGCCGAAACACTGCCGA
CGGCGGTCTTCACAGAACCGAACACCGGATCGGATCTGGGCAGCTTGCGCACACGCGCGGTGAAAGATGGCGAGAATTAC
ACCATCACCGGGAATAAAACCTGGATCACCCATGCGACCCGCACAAACGTCATGACGCTGCTGGCCCGCACAGACCCCGA
CACGACCGATTATCGCGGGCTGTCGATGTTTCTGGCGGAAAAAACCCCCGGTGACGATGAGAACCCCTTTCCCACCGATG
GCATGACCGGCGGCGAGATCGAGGTGCTGGGCTATCGCGGGATGAAGGAATACGAACTCGCCTTCGACAACTTCGAGGTG
AAGGGCGAAAATCTTTTGGGCGGCGAAGAAGGCAAGGGCTTCAAGCAACTGATGGAGACGTTCGAATCTGCGCGCATCCA
GACCGCTGCCCGCGCCGTTGGCGTCGCGCAATCGGCCTTGGATATTGCCATGCAATATGCGCAGGAACGCAAGCAATTCG
GCAAATCGCTGATCGAGTTCCCGCGCGTATCGGGCAAGCTCGCCATGATGGCCGTTGAAATCATGATCGCCCGTCAGCTG
ACCTATTTTTCAGCCTTTGAAAAAGATGAAGGGCGGCGCTGTGATGTGGAAGCCGGGATGGCAAAGCTGCTGGGTGCGCG
GGTCGCATGGGCGGCAGCGGACAACGGCCTTCAAATCCACGGCGGCAATGGTTTCGCGCTCGAATATAAGATCAGCCGCG
TGCTCTGCGATGCCCGTATCCTGAACATTTTCGAGGGTGCCGCAGAAATTCAGGCGCAGGTTATCGCGCGCCGCATCCTC
GGCTAG

Upstream 100 bases:

>100_bases
GCAAAGTAATTTTCATCCAAAATGACACACCCCAGCGTATTTAAGTTGCGCTGCAAGTGCGAAAGACTTAAACCGAGCGA
GATCGAAAAAGGATGTTGAT

Downstream 100 bases:

>100_bases
AATACACAAGACATGAGGGCGCAGTTCGGTGACGGCTGCGCCCTTCTTACATCCGGCCGCCATTGTGCAAACGCACATCC
AACAGGCAAGAACATGCTGC

Product: isobutyryl-CoA dehydrogenase

Products: gamma-butyrobetaine; Acceptor; gamma-butyrobetainyl-CoA [C]

Alternate protein names: NA

Number of amino acids: Translated: 561; Mature: 560

Protein sequence:

>561_residues
MAHDGQDPSFHVTVLLDDLLELTAAAVPPVEALLETAKARVKAKVSENGRVSGALIEQHQTAAHGLAWLATYAQSLKQMQ
KWAETLSAEGNFGETEQLLHQIAFGEYLWQIYGGIQMNQGEIVRLQDLGLDQSEMRGLMEPAVMTLTQSGNTQAARTRLA
ELMQEHSANTTVGACGLDEELEMIRDQFRRYAVEKVEPFAHEWHLKDELIPMEVIDELAEMGVFGLTIPEEYGGFGLSKA
SMCVVSEELSRGYIGVGSLGTRSEIAAELIIAGGTQEQKEKWLPRLASAETLPTAVFTEPNTGSDLGSLRTRAVKDGENY
TITGNKTWITHATRTNVMTLLARTDPDTTDYRGLSMFLAEKTPGDDENPFPTDGMTGGEIEVLGYRGMKEYELAFDNFEV
KGENLLGGEEGKGFKQLMETFESARIQTAARAVGVAQSALDIAMQYAQERKQFGKSLIEFPRVSGKLAMMAVEIMIARQL
TYFSAFEKDEGRRCDVEAGMAKLLGARVAWAAADNGLQIHGGNGFALEYKISRVLCDARILNIFEGAAEIQAQVIARRIL
G

Sequences:

>Translated_561_residues
MAHDGQDPSFHVTVLLDDLLELTAAAVPPVEALLETAKARVKAKVSENGRVSGALIEQHQTAAHGLAWLATYAQSLKQMQ
KWAETLSAEGNFGETEQLLHQIAFGEYLWQIYGGIQMNQGEIVRLQDLGLDQSEMRGLMEPAVMTLTQSGNTQAARTRLA
ELMQEHSANTTVGACGLDEELEMIRDQFRRYAVEKVEPFAHEWHLKDELIPMEVIDELAEMGVFGLTIPEEYGGFGLSKA
SMCVVSEELSRGYIGVGSLGTRSEIAAELIIAGGTQEQKEKWLPRLASAETLPTAVFTEPNTGSDLGSLRTRAVKDGENY
TITGNKTWITHATRTNVMTLLARTDPDTTDYRGLSMFLAEKTPGDDENPFPTDGMTGGEIEVLGYRGMKEYELAFDNFEV
KGENLLGGEEGKGFKQLMETFESARIQTAARAVGVAQSALDIAMQYAQERKQFGKSLIEFPRVSGKLAMMAVEIMIARQL
TYFSAFEKDEGRRCDVEAGMAKLLGARVAWAAADNGLQIHGGNGFALEYKISRVLCDARILNIFEGAAEIQAQVIARRIL
G
>Mature_560_residues
AHDGQDPSFHVTVLLDDLLELTAAAVPPVEALLETAKARVKAKVSENGRVSGALIEQHQTAAHGLAWLATYAQSLKQMQK
WAETLSAEGNFGETEQLLHQIAFGEYLWQIYGGIQMNQGEIVRLQDLGLDQSEMRGLMEPAVMTLTQSGNTQAARTRLAE
LMQEHSANTTVGACGLDEELEMIRDQFRRYAVEKVEPFAHEWHLKDELIPMEVIDELAEMGVFGLTIPEEYGGFGLSKAS
MCVVSEELSRGYIGVGSLGTRSEIAAELIIAGGTQEQKEKWLPRLASAETLPTAVFTEPNTGSDLGSLRTRAVKDGENYT
ITGNKTWITHATRTNVMTLLARTDPDTTDYRGLSMFLAEKTPGDDENPFPTDGMTGGEIEVLGYRGMKEYELAFDNFEVK
GENLLGGEEGKGFKQLMETFESARIQTAARAVGVAQSALDIAMQYAQERKQFGKSLIEFPRVSGKLAMMAVEIMIARQLT
YFSAFEKDEGRRCDVEAGMAKLLGARVAWAAADNGLQIHGGNGFALEYKISRVLCDARILNIFEGAAEIQAQVIARRILG

Specific function: Catalyzes the reduction of crotonobetainyl-CoA to gamma-butyrobetainyl-CoA. [C]

COG id: NA

COG function: NA

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the acyl-CoA dehydrogenase family [H]

Homologues:

Organism=Homo sapiens, GI187960098, Length=372, Percent_Identity=37.0967741935484, Blast_Score=222, Evalue=9e-58,
Organism=Homo sapiens, GI4557231, Length=372, Percent_Identity=37.0967741935484, Blast_Score=221, Evalue=1e-57,
Organism=Homo sapiens, GI21361497, Length=355, Percent_Identity=37.1830985915493, Blast_Score=216, Evalue=6e-56,
Organism=Homo sapiens, GI4557233, Length=386, Percent_Identity=34.4559585492228, Blast_Score=209, Evalue=6e-54,
Organism=Homo sapiens, GI226958412, Length=386, Percent_Identity=33.419689119171, Blast_Score=204, Evalue=2e-52,
Organism=Homo sapiens, GI226958414, Length=348, Percent_Identity=34.1954022988506, Blast_Score=194, Evalue=2e-49,
Organism=Homo sapiens, GI4557235, Length=388, Percent_Identity=34.5360824742268, Blast_Score=193, Evalue=4e-49,
Organism=Homo sapiens, GI76496475, Length=388, Percent_Identity=34.5360824742268, Blast_Score=193, Evalue=4e-49,
Organism=Homo sapiens, GI4501859, Length=386, Percent_Identity=33.419689119171, Blast_Score=190, Evalue=3e-48,
Organism=Homo sapiens, GI4501857, Length=390, Percent_Identity=28.2051282051282, Blast_Score=166, Evalue=5e-41,
Organism=Homo sapiens, GI7656849, Length=387, Percent_Identity=29.1989664082687, Blast_Score=165, Evalue=1e-40,
Organism=Homo sapiens, GI4503943, Length=386, Percent_Identity=31.0880829015544, Blast_Score=146, Evalue=6e-35,
Organism=Homo sapiens, GI7669494, Length=370, Percent_Identity=30.8108108108108, Blast_Score=135, Evalue=1e-31,
Organism=Homo sapiens, GI38505218, Length=453, Percent_Identity=25.1655629139073, Blast_Score=102, Evalue=1e-21,
Organism=Homo sapiens, GI48976061, Length=368, Percent_Identity=25, Blast_Score=94, Evalue=3e-19,
Organism=Homo sapiens, GI211971008, Length=368, Percent_Identity=25, Blast_Score=94, Evalue=4e-19,
Organism=Escherichia coli, GI1786223, Length=363, Percent_Identity=29.2011019283747, Blast_Score=154, Evalue=1e-38,
Organism=Escherichia coli, GI87081958, Length=353, Percent_Identity=30.5949008498584, Blast_Score=142, Evalue=8e-35,
Organism=Escherichia coli, GI87081702, Length=315, Percent_Identity=27.3015873015873, Blast_Score=72, Evalue=1e-13,
Organism=Caenorhabditis elegans, GI17570075, Length=409, Percent_Identity=34.718826405868, Blast_Score=225, Evalue=4e-59,
Organism=Caenorhabditis elegans, GI17538396, Length=392, Percent_Identity=32.9081632653061, Blast_Score=211, Evalue=7e-55,
Organism=Caenorhabditis elegans, GI17569725, Length=388, Percent_Identity=35.8247422680412, Blast_Score=210, Evalue=2e-54,
Organism=Caenorhabditis elegans, GI17506239, Length=385, Percent_Identity=34.2857142857143, Blast_Score=207, Evalue=1e-53,
Organism=Caenorhabditis elegans, GI17534899, Length=387, Percent_Identity=34.625322997416, Blast_Score=206, Evalue=2e-53,
Organism=Caenorhabditis elegans, GI17508101, Length=385, Percent_Identity=34.025974025974, Blast_Score=202, Evalue=5e-52,
Organism=Caenorhabditis elegans, GI71985184, Length=357, Percent_Identity=35.0140056022409, Blast_Score=197, Evalue=1e-50,
Organism=Caenorhabditis elegans, GI17533517, Length=388, Percent_Identity=29.639175257732, Blast_Score=171, Evalue=1e-42,
Organism=Caenorhabditis elegans, GI71990804, Length=301, Percent_Identity=35.2159468438538, Blast_Score=162, Evalue=3e-40,
Organism=Caenorhabditis elegans, GI71985192, Length=335, Percent_Identity=31.3432835820896, Blast_Score=151, Evalue=7e-37,
Organism=Caenorhabditis elegans, GI32563615, Length=238, Percent_Identity=36.5546218487395, Blast_Score=151, Evalue=1e-36,
Organism=Caenorhabditis elegans, GI17551932, Length=396, Percent_Identity=26.2626262626263, Blast_Score=142, Evalue=7e-34,
Organism=Caenorhabditis elegans, GI17505929, Length=368, Percent_Identity=26.9021739130435, Blast_Score=140, Evalue=2e-33,
Organism=Caenorhabditis elegans, GI17534353, Length=379, Percent_Identity=29.287598944591, Blast_Score=138, Evalue=6e-33,
Organism=Caenorhabditis elegans, GI71982178, Length=286, Percent_Identity=30.0699300699301, Blast_Score=121, Evalue=9e-28,
Organism=Caenorhabditis elegans, GI17531909, Length=251, Percent_Identity=26.2948207171315, Blast_Score=73, Evalue=3e-13,
Organism=Drosophila melanogaster, GI24660351, Length=428, Percent_Identity=33.6448598130841, Blast_Score=213, Evalue=3e-55,
Organism=Drosophila melanogaster, GI21356377, Length=386, Percent_Identity=32.9015544041451, Blast_Score=197, Evalue=1e-50,
Organism=Drosophila melanogaster, GI21355753, Length=388, Percent_Identity=32.2164948453608, Blast_Score=192, Evalue=6e-49,
Organism=Drosophila melanogaster, GI24646207, Length=389, Percent_Identity=32.6478149100257, Blast_Score=189, Evalue=6e-48,
Organism=Drosophila melanogaster, GI24666513, Length=385, Percent_Identity=33.7662337662338, Blast_Score=187, Evalue=1e-47,
Organism=Drosophila melanogaster, GI281363737, Length=347, Percent_Identity=32.2766570605187, Blast_Score=181, Evalue=2e-45,
Organism=Drosophila melanogaster, GI19920834, Length=392, Percent_Identity=28.8265306122449, Blast_Score=127, Evalue=3e-29,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR006089
- InterPro:   IPR006092
- InterPro:   IPR006090
- InterPro:   IPR006091
- InterPro:   IPR009075
- InterPro:   IPR013786
- InterPro:   IPR009100 [H]

Pfam domain/function: PF00441 Acyl-CoA_dh_1; PF02770 Acyl-CoA_dh_M; PF02771 Acyl-CoA_dh_N [H]

EC number: 1.3.99.- [C]

Molecular weight: Translated: 61548; Mature: 61416

Theoretical pI: Translated: 4.59; Mature: 4.59

Prosite motif: PS00073 ACYL_COA_DH_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.7 %Cys     (Translated Protein)
3.7 %Met     (Translated Protein)
4.5 %Cys+Met (Translated Protein)
0.7 %Cys     (Mature Protein)
3.6 %Met     (Mature Protein)
4.3 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAHDGQDPSFHVTVLLDDLLELTAAAVPPVEALLETAKARVKAKVSENGRVSGALIEQHQ
CCCCCCCCCEEEEHHHHHHHHHHHHCCCHHHHHHHHHHHHHHEEECCCCCCCHHHHHHHH
TAAHGLAWLATYAQSLKQMQKWAETLSAEGNFGETEQLLHQIAFGEYLWQIYGGIQMNQG
HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCEECCC
EIVRLQDLGLDQSEMRGLMEPAVMTLTQSGNTQAARTRLAELMQEHSANTTVGACGLDEE
CEEEEECCCCCHHHHHHHHCHHHHEEECCCCCHHHHHHHHHHHHHCCCCCEEEECCCCHH
LEMIRDQFRRYAVEKVEPFAHEWHLKDELIPMEVIDELAEMGVFGLTIPEEYGGFGLSKA
HHHHHHHHHHHHHHHHCHHHHHCCCCCCCCCHHHHHHHHHCCEEEEECCHHHCCCCCCHH
SMCVVSEELSRGYIGVGSLGTRSEIAAELIIAGGTQEQKEKWLPRLASAETLPTAVFTEP
HHHHHHHHHCCCEEEECCCCCHHHHHHHHEEECCCHHHHHHHHHHHHCCCCCCCEEEECC
NTGSDLGSLRTRAVKDGENYTITGNKTWITHATRTNVMTLLARTDPDTTDYRGLSMFLAE
CCCCCHHHHHHHHCCCCCCEEEECCEEEEEECHHHCEEEEEECCCCCCCCCCCCEEEEEC
KTPGDDENPFPTDGMTGGEIEVLGYRGMKEYELAFDNFEVKGENLLGGEEGKGFKQLMET
CCCCCCCCCCCCCCCCCCEEEEEECCCCCHHHEEECCEEECCCCCCCCCCCCHHHHHHHH
FESARIQTAARAVGVAQSALDIAMQYAQERKQFGKSLIEFPRVSGKLAMMAVEIMIARQL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH
TYFSAFEKDEGRRCDVEAGMAKLLGARVAWAAADNGLQIHGGNGFALEYKISRVLCDARI
HHHHHHCCCCCCCCCHHHHHHHHHHHHHEEEECCCCEEEECCCCEEEEEEHHHHHHHHHH
LNIFEGAAEIQAQVIARRILG
HHHHHHHHHHHHHHHHHHHCC
>Mature Secondary Structure 
AHDGQDPSFHVTVLLDDLLELTAAAVPPVEALLETAKARVKAKVSENGRVSGALIEQHQ
CCCCCCCCEEEEHHHHHHHHHHHHCCCHHHHHHHHHHHHHHEEECCCCCCCHHHHHHHH
TAAHGLAWLATYAQSLKQMQKWAETLSAEGNFGETEQLLHQIAFGEYLWQIYGGIQMNQG
HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCEECCC
EIVRLQDLGLDQSEMRGLMEPAVMTLTQSGNTQAARTRLAELMQEHSANTTVGACGLDEE
CEEEEECCCCCHHHHHHHHCHHHHEEECCCCCHHHHHHHHHHHHHCCCCCEEEECCCCHH
LEMIRDQFRRYAVEKVEPFAHEWHLKDELIPMEVIDELAEMGVFGLTIPEEYGGFGLSKA
HHHHHHHHHHHHHHHHCHHHHHCCCCCCCCCHHHHHHHHHCCEEEEECCHHHCCCCCCHH
SMCVVSEELSRGYIGVGSLGTRSEIAAELIIAGGTQEQKEKWLPRLASAETLPTAVFTEP
HHHHHHHHHCCCEEEECCCCCHHHHHHHHEEECCCHHHHHHHHHHHHCCCCCCCEEEECC
NTGSDLGSLRTRAVKDGENYTITGNKTWITHATRTNVMTLLARTDPDTTDYRGLSMFLAE
CCCCCHHHHHHHHCCCCCCEEEECCEEEEEECHHHCEEEEEECCCCCCCCCCCCEEEEEC
KTPGDDENPFPTDGMTGGEIEVLGYRGMKEYELAFDNFEVKGENLLGGEEGKGFKQLMET
CCCCCCCCCCCCCCCCCCEEEEEECCCCCHHHEEECCEEECCCCCCCCCCCCHHHHHHHH
FESARIQTAARAVGVAQSALDIAMQYAQERKQFGKSLIEFPRVSGKLAMMAVEIMIARQL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH
TYFSAFEKDEGRRCDVEAGMAKLLGARVAWAAADNGLQIHGGNGFALEYKISRVLCDARI
HHHHHHCCCCCCCCCHHHHHHHHHHHHHEEEECCCCEEEECCCCEEEEEEHHHHHHHHHH
LNIFEGAAEIQAQVIARRILG
HHHHHHHHHHHHHHHHHHHCC

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: crotono-betaine; reduced acceptor; crotonobetainyl-CoA [C]

Specific reaction: reduced acceptor + crotono-betaine = Acceptor + gamma-butyrobetaine reduced acceptor + crotonobetainyl-CoA = Acceptor + gamma-butyrobetainyl-CoA [C]

General reaction: Oxidoreductases; Acting on the CH-CH group of donors; With other acceptors [C]

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: 9387222; 9384377 [H]