Click here to switch to the map view.

The map label for this gene is xerD [H]

Identifier: 220904240

GI number: 220904240

Start: 1128469

End: 1129590

Strand: Direct

Name: xerD [H]

Synonym: Ddes_0967

Alternate gene names: 220904240

Gene position: 1128469-1129590 (Clockwise)

Preceding gene: 220904239

Following gene: 220904241

Centisome position: 39.27

GC content: 60.7

Gene sequence:

>1122_bases
ATGAGCGAAAAAAAACTGAAAAAAAATACTGCCGCTGCGCATGCCGAAGCAGATTCCCTTGGCGCGCATTCCGGCGGCAA
GGCCTTGTCCGCAGCGGGCAAGCAGGGCAATGGCCGCAATACTGCCCCCATGTCGCCGCCTGTGGGCGCGGCGGGCCGGG
CGGGGATGCCGGATGCAGGCGGCCGTGCCGGTTTGCTGATAGAAGCTTTTCTGGCCTGGATGACCGTGCAAAAGGGGGCT
TCTGAGGCCACCCGCAAAGCCTATGCTGTGGATCTGGCACAGCTTGCGGAATTTTTACGCGGCCAGGAAATTGATCTGGG
GCAGCCGCAAACCGTAACCCGGCGGCACATGCAGGCTTTTCTTGCCTGGCTGTTCCGCAAGGGCGAGGCCAAAAGCTCCA
TGGCGCGCAAACTGGCTGCGGCCCGCTCTTTCTTCCGTTTTCAGATGCGGGGGGGCAAGGTGGCGGAGAATGTTGCGGCC
CAGGTGCGCAATCCCCGCCAGGAAAAACGCCATCCCCGCGCCCTTAACGTTGATGAAACCTTCGCCCTGCTGGACTCGGC
CACGGGGCCGGGGGGCAAGAGAGGACCCGTGGCCGGCAGTGCCGAGGAAGAACGCATTCTTTGCCGCGACCTTGCCCTGG
CGGAGCTGCTTTATGGCTCGGGGCTGCGCATTTCCGAAGCATTGAGCCTGGATGTGGATGATGTGCAACTGTCTTCACGC
GTTTTGCGCGTTATGGGCAAAGGTTCAAGGGAAAGGCTTGCTCCTCTTTCAGACACTTCTTTTTCCTGTCTCAAAGCGTG
GCTTGAAGAGCGCCCCCTGCTGGCACTGCCCGATGAAGCGGCTCTTTTTGTGGGCGCACGCGGGGCGCGCCTGAACAGAA
GAGAGGCCGCACGCATTGTAGAGCGCCTGTGCCGCCGGGCGGGGCTGACCTTTACGGTGTCGCCCCACAGTTTGCGGCAT
TCGTTTGCCACTCACCTGCTGGAGGCTGGCGCAGATATGCGAAGTGTGCAGGAACTTCTGGGACATCAGCGGCTTACCAC
AACGCAGCGCTATACGCAGGTAAGCCTTGAAAGCCTGATGCAGACTTACGATCAGGCGCATCCCAGGTCAGGTAAAAGGT
AA

Upstream 100 bases:

>100_bases
TCAACGTCATGCTTGTAGGGCTTGAAATGCTCGGCCAGGTGTGTCGTCTGCCGGGGGCCAGATATGCATCGGGGCAGGAT
TCCGGGAACGGGGCAGAAGC

Downstream 100 bases:

>100_bases
AAAAATCACGAGCATATTTTTATACTGTTAATTAAACGAGTTCAGTGATATTCTGTGATGTGGTGACCGTGCCATGTCAG
GAATTTTTCCCCAAGGCTCT

Product: integrase family protein

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 373; Mature: 372

Protein sequence:

>373_residues
MSEKKLKKNTAAAHAEADSLGAHSGGKALSAAGKQGNGRNTAPMSPPVGAAGRAGMPDAGGRAGLLIEAFLAWMTVQKGA
SEATRKAYAVDLAQLAEFLRGQEIDLGQPQTVTRRHMQAFLAWLFRKGEAKSSMARKLAAARSFFRFQMRGGKVAENVAA
QVRNPRQEKRHPRALNVDETFALLDSATGPGGKRGPVAGSAEEERILCRDLALAELLYGSGLRISEALSLDVDDVQLSSR
VLRVMGKGSRERLAPLSDTSFSCLKAWLEERPLLALPDEAALFVGARGARLNRREAARIVERLCRRAGLTFTVSPHSLRH
SFATHLLEAGADMRSVQELLGHQRLTTTQRYTQVSLESLMQTYDQAHPRSGKR

Sequences:

>Translated_373_residues
MSEKKLKKNTAAAHAEADSLGAHSGGKALSAAGKQGNGRNTAPMSPPVGAAGRAGMPDAGGRAGLLIEAFLAWMTVQKGA
SEATRKAYAVDLAQLAEFLRGQEIDLGQPQTVTRRHMQAFLAWLFRKGEAKSSMARKLAAARSFFRFQMRGGKVAENVAA
QVRNPRQEKRHPRALNVDETFALLDSATGPGGKRGPVAGSAEEERILCRDLALAELLYGSGLRISEALSLDVDDVQLSSR
VLRVMGKGSRERLAPLSDTSFSCLKAWLEERPLLALPDEAALFVGARGARLNRREAARIVERLCRRAGLTFTVSPHSLRH
SFATHLLEAGADMRSVQELLGHQRLTTTQRYTQVSLESLMQTYDQAHPRSGKR
>Mature_372_residues
SEKKLKKNTAAAHAEADSLGAHSGGKALSAAGKQGNGRNTAPMSPPVGAAGRAGMPDAGGRAGLLIEAFLAWMTVQKGAS
EATRKAYAVDLAQLAEFLRGQEIDLGQPQTVTRRHMQAFLAWLFRKGEAKSSMARKLAAARSFFRFQMRGGKVAENVAAQ
VRNPRQEKRHPRALNVDETFALLDSATGPGGKRGPVAGSAEEERILCRDLALAELLYGSGLRISEALSLDVDDVQLSSRV
LRVMGKGSRERLAPLSDTSFSCLKAWLEERPLLALPDEAALFVGARGARLNRREAARIVERLCRRAGLTFTVSPHSLRHS
FATHLLEAGADMRSVQELLGHQRLTTTQRYTQVSLESLMQTYDQAHPRSGKR

Specific function: Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. The xerC-xerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell div

COG id: COG4974

COG function: function code L; Site-specific recombinase XerD

Gene ontology:

Cell location: Cytoplasm [H]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the 'phage' integrase family. XerD subfamily [H]

Homologues:

Organism=Escherichia coli, GI1790244, Length=306, Percent_Identity=34.9673202614379, Blast_Score=173, Evalue=2e-44,
Organism=Escherichia coli, GI1789261, Length=307, Percent_Identity=36.1563517915309, Blast_Score=162, Evalue=4e-41,
Organism=Escherichia coli, GI1790768, Length=146, Percent_Identity=35.6164383561644, Blast_Score=82, Evalue=6e-17,
Organism=Escherichia coli, GI1790767, Length=160, Percent_Identity=28.75, Blast_Score=73, Evalue=3e-14,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR011010
- InterPro:   IPR013762
- InterPro:   IPR002104
- InterPro:   IPR010998
- InterPro:   IPR023109
- InterPro:   IPR004107
- InterPro:   IPR011932 [H]

Pfam domain/function: PF02899 Phage_integr_N; PF00589 Phage_integrase [H]

EC number: NA

Molecular weight: Translated: 40473; Mature: 40342

Theoretical pI: Translated: 10.91; Mature: 10.91

Prosite motif: NA

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
2.7 %Met     (Translated Protein)
3.5 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
2.4 %Met     (Mature Protein)
3.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSEKKLKKNTAAAHAEADSLGAHSGGKALSAAGKQGNGRNTAPMSPPVGAAGRAGMPDAG
CCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
GRAGLLIEAFLAWMTVQKGASEATRKAYAVDLAQLAEFLRGQEIDLGQPQTVTRRHMQAF
CCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHH
LAWLFRKGEAKSSMARKLAAARSFFRFQMRGGKVAENVAAQVRNPRQEKRHPRALNVDET
HHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHCCCCCCCCHHH
FALLDSATGPGGKRGPVAGSAEEERILCRDLALAELLYGSGLRISEALSLDVDDVQLSSR
HHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCHHHHHHHH
VLRVMGKGSRERLAPLSDTSFSCLKAWLEERPLLALPDEAALFVGARGARLNRREAARIV
HHHHHCCCCHHHCCCCCCCHHHHHHHHHHCCCCEECCCCCEEEEECCCCCCCHHHHHHHH
ERLCRRAGLTFTVSPHSLRHSFATHLLEAGADMRSVQELLGHQRLTTTQRYTQVSLESLM
HHHHHHCCCEEEECHHHHHHHHHHHHHHCCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHH
QTYDQAHPRSGKR
HHHHHCCCCCCCC
>Mature Secondary Structure 
SEKKLKKNTAAAHAEADSLGAHSGGKALSAAGKQGNGRNTAPMSPPVGAAGRAGMPDAG
CCHHHHHHHHHHHHHHHHCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
GRAGLLIEAFLAWMTVQKGASEATRKAYAVDLAQLAEFLRGQEIDLGQPQTVTRRHMQAF
CCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHH
LAWLFRKGEAKSSMARKLAAARSFFRFQMRGGKVAENVAAQVRNPRQEKRHPRALNVDET
HHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHCCCCCCCCHHH
FALLDSATGPGGKRGPVAGSAEEERILCRDLALAELLYGSGLRISEALSLDVDDVQLSSR
HHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCHHHHHHHH
VLRVMGKGSRERLAPLSDTSFSCLKAWLEERPLLALPDEAALFVGARGARLNRREAARIV
HHHHHCCCCHHHCCCCCCCHHHHHHHHHHCCCCEECCCCCEEEEECCCCCCCHHHHHHHH
ERLCRRAGLTFTVSPHSLRHSFATHLLEAGADMRSVQELLGHQRLTTTQRYTQVSLESLM
HHHHHHCCCEEEECHHHHHHHHHHHHHHCCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHH
QTYDQAHPRSGKR
HHHHHCCCCCCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: DNA [C]

Specific reaction: Protein + DNA = Protein-DNA [C]

General reaction: NA

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: 12381787 [H]