Definition Novosphingobium aromaticivorans DSM 12444 chromosome, complete genome.
Accession NC_007794
Length 3,561,584

Click here to switch to the map view.

The map label for this gene is ycfH [C]

Identifier: 87199955

GI number: 87199955

Start: 2053220

End: 2053999

Strand: Reverse

Name: ycfH [C]

Synonym: Saro_1938

Alternate gene names: 87199955

Gene position: 2053999-2053220 (Counterclockwise)

Preceding gene: 87199956

Following gene: 87199954

Centisome position: 57.67

GC content: 61.03

Gene sequence:

>780_bases
ATGATGCTGATCGATTCCCACTGCCACCTGAACTACAAGGGACTTGTCGAAGATCAGCGGCAAGTGCTTGACCGCGCCAG
AGAAAATGGCGTGCGTGGTTTCCTGAATATCTCCACGAGGCGTAGCGAGTGGGATGCCATCGTCGGTACTGCGGAGCGTG
AAAGCGACGTCTGGGCCAGCATCGGCATTCACCCGCACGAGGCCGATGCCCACGCCGACCTTGGCGAAGCGGCCCTTCTT
CAGGCGGCGCGACACCCGCGGGTAATCGGGATCGGCGAGACCGGGCTCGACTACTTCTACGACCACTCCGACCGGCAGGT
TCAGCAGGACCTGTTCCGTGTGCACATTCGCGTGGCACGGGAAACTGGCCTGCCGCTCATCATCCACACCCGGGATGCCG
AGGACGACACTACCAGGATCATCGAGGAAGAGATGGGGAAGGGGGCGTTCCCTGCGTTGATCCACTGCTTCACCGCATCG
GCCGCATTTGGGGCGCGAATGCTGGAATTGGGGCTTTCCATTTCGCTTTCGGGTATCGTGACCTTCAAGAATGCCAAGGA
TCTGCAGGCGGTTGCGGCCAGCATTCCGGACGACCGAATCCTGGTTGAGACGGACGCTCCCTTCCTTGCACCGGTGCCGC
ATCGCGGAAAAACATGCGAGCCTGCGTTTGTCGCCGACACGTGCGCATTCGTGGCGGGCTTGCGCGGAACCAGCACGCAA
GCGCTGGCCGATGTTACCGGCCGGAACTTCTTCCGTCTGTTTTCGAAGGCTTCGTTGTGA

Upstream 100 bases:

>100_bases
ATGCGGACTGGTACATGGCACGCGTGGCAACCGGAGAGAGGCTTGCGCAGCCCATGCCTGCATTCCCCCGCCTTGAACTG
CCGGAGGAGGAAGGATCGGC

Downstream 100 bases:

>100_bases
AGCTGACCATTCTGGGTTCAGGCACGTCGACCGGCGTTCCGAGGATCGGCAACGACTGGGGCGATTGCGATCCGAACGAG
CCGCGCAACCGCAGGACCCG

Product: TatD-related deoxyribonuclease

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 259; Mature: 259

Protein sequence:

>259_residues
MMLIDSHCHLNYKGLVEDQRQVLDRARENGVRGFLNISTRRSEWDAIVGTAERESDVWASIGIHPHEADAHADLGEAALL
QAARHPRVIGIGETGLDYFYDHSDRQVQQDLFRVHIRVARETGLPLIIHTRDAEDDTTRIIEEEMGKGAFPALIHCFTAS
AAFGARMLELGLSISLSGIVTFKNAKDLQAVAASIPDDRILVETDAPFLAPVPHRGKTCEPAFVADTCAFVAGLRGTSTQ
ALADVTGRNFFRLFSKASL

Sequences:

>Translated_259_residues
MMLIDSHCHLNYKGLVEDQRQVLDRARENGVRGFLNISTRRSEWDAIVGTAERESDVWASIGIHPHEADAHADLGEAALL
QAARHPRVIGIGETGLDYFYDHSDRQVQQDLFRVHIRVARETGLPLIIHTRDAEDDTTRIIEEEMGKGAFPALIHCFTAS
AAFGARMLELGLSISLSGIVTFKNAKDLQAVAASIPDDRILVETDAPFLAPVPHRGKTCEPAFVADTCAFVAGLRGTSTQ
ALADVTGRNFFRLFSKASL
>Mature_259_residues
MMLIDSHCHLNYKGLVEDQRQVLDRARENGVRGFLNISTRRSEWDAIVGTAERESDVWASIGIHPHEADAHADLGEAALL
QAARHPRVIGIGETGLDYFYDHSDRQVQQDLFRVHIRVARETGLPLIIHTRDAEDDTTRIIEEEMGKGAFPALIHCFTAS
AAFGARMLELGLSISLSGIVTFKNAKDLQAVAASIPDDRILVETDAPFLAPVPHRGKTCEPAFVADTCAFVAGLRGTSTQ
ALADVTGRNFFRLFSKASL

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, GI225903424, Length=220, Percent_Identity=29.5454545454545, Blast_Score=108, Evalue=5e-24,
Organism=Homo sapiens, GI110349730, Length=267, Percent_Identity=25.0936329588015, Blast_Score=89, Evalue=4e-18,
Organism=Homo sapiens, GI110349734, Length=267, Percent_Identity=24.7191011235955, Blast_Score=86, Evalue=2e-17,
Organism=Homo sapiens, GI226061853, Length=273, Percent_Identity=25.6410256410256, Blast_Score=85, Evalue=5e-17,
Organism=Homo sapiens, GI226061614, Length=256, Percent_Identity=26.5625, Blast_Score=83, Evalue=2e-16,
Organism=Homo sapiens, GI14042943, Length=207, Percent_Identity=25.1207729468599, Blast_Score=72, Evalue=6e-13,
Organism=Homo sapiens, GI226061595, Length=228, Percent_Identity=25.8771929824561, Blast_Score=67, Evalue=1e-11,
Organism=Escherichia coli, GI1787342, Length=257, Percent_Identity=41.2451361867704, Blast_Score=189, Evalue=2e-49,
Organism=Escherichia coli, GI87082439, Length=257, Percent_Identity=28.4046692607004, Blast_Score=116, Evalue=2e-27,
Organism=Escherichia coli, GI48994985, Length=261, Percent_Identity=29.1187739463602, Blast_Score=111, Evalue=4e-26,
Organism=Caenorhabditis elegans, GI17559024, Length=281, Percent_Identity=27.4021352313167, Blast_Score=115, Evalue=2e-26,
Organism=Caenorhabditis elegans, GI17543026, Length=295, Percent_Identity=26.7796610169492, Blast_Score=84, Evalue=8e-17,
Organism=Caenorhabditis elegans, GI71980746, Length=263, Percent_Identity=25.8555133079848, Blast_Score=82, Evalue=2e-16,
Organism=Caenorhabditis elegans, GI17565396, Length=210, Percent_Identity=29.5238095238095, Blast_Score=76, Evalue=2e-14,
Organism=Drosophila melanogaster, GI24648690, Length=287, Percent_Identity=27.5261324041812, Blast_Score=86, Evalue=2e-17,
Organism=Drosophila melanogaster, GI221330018, Length=273, Percent_Identity=27.1062271062271, Blast_Score=82, Evalue=3e-16,
Organism=Drosophila melanogaster, GI24586117, Length=273, Percent_Identity=27.1062271062271, Blast_Score=82, Evalue=4e-16,

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.- [C]

Molecular weight: Translated: 28445; Mature: 28445

Theoretical pI: Translated: 5.95; Mature: 5.95

Prosite motif: PS01137 TATD_1 ; PS01090 TATD_2 ; PS01091 TATD_3

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.5 %Cys     (Translated Protein)
1.5 %Met     (Translated Protein)
3.1 %Cys+Met (Translated Protein)
1.5 %Cys     (Mature Protein)
1.5 %Met     (Mature Protein)
3.1 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MMLIDSHCHLNYKGLVEDQRQVLDRARENGVRGFLNISTRRSEWDAIVGTAERESDVWAS
CEEECCCCCCCCCCCHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHEECCCCCCCCEEE
IGIHPHEADAHADLGEAALLQAARHPRVIGIGETGLDYFYDHSDRQVQQDLFRVHIRVAR
CCCCCCCCCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHCCCCHHHHHHHHHHHHHHHHH
ETGLPLIIHTRDAEDDTTRIIEEEMGKGAFPALIHCFTASAAFGARMLELGLSISLSGIV
CCCCEEEEEECCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCEEEEEEEE
TFKNAKDLQAVAASIPDDRILVETDAPFLAPVPHRGKTCEPAFVADTCAFVAGLRGTSTQ
EECCCHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCHH
ALADVTGRNFFRLFSKASL
HHHHHHCHHHHHHHHHCCC
>Mature Secondary Structure
MMLIDSHCHLNYKGLVEDQRQVLDRARENGVRGFLNISTRRSEWDAIVGTAERESDVWAS
CEEECCCCCCCCCCCHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHEECCCCCCCCEEE
IGIHPHEADAHADLGEAALLQAARHPRVIGIGETGLDYFYDHSDRQVQQDLFRVHIRVAR
CCCCCCCCCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHCCCCHHHHHHHHHHHHHHHHH
ETGLPLIIHTRDAEDDTTRIIEEEMGKGAFPALIHCFTASAAFGARMLELGLSISLSGIV
CCCCEEEEEECCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCEEEEEEEE
TFKNAKDLQAVAASIPDDRILVETDAPFLAPVPHRGKTCEPAFVADTCAFVAGLRGTSTQ
EECCCHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCHH
ALADVTGRNFFRLFSKASL
HHHHHHCHHHHHHHHHCCC

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: 10.0

TargetDB status: NA

Availability: NA

References: 7542800 [H]