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The map label for this gene is xerD

Identifier: 108813251

GI number: 108813251

Start: 3474890

End: 3475789

Strand: Reverse

Name: xerD

Synonym: YPN_3091

Alternate gene names: 108813251

Gene position: 3475789-3474890 (Counterclockwise)

Preceding gene: 108813253

Following gene: 108813250

Centisome position: 76.65

GC content: 50.22

Gene sequence:

>900_bases
ATGAAACAGCAAGATAACCCGCTGATTGAACAATTTCTTGATGCTCTGTGGCTGGAACGAAATCTGGCAGAGAATACACT
GGCGTCATACCGTTTGGATTTACATGCGCTGGTTGGATGGTTGACACACCATAACAGTGATTTATTGCGCGCCAGCCCGC
AGGACTTGCAATCCTTCCTTGCTGAACGGATCGAGGGTGGCTATAAAGCCACCAGCTCGGCTCGTTTACTCAGTGCGATG
CGCCGGTTATTTCAATATTTATACCGGGAGAAACTGCGTGAGGATGATCCGACTGCGCTGCTCTCTTCACCCAAATTACC
GCAGCGCTTGCCGAAGGATTTAAGTGAGGCACAGGTCGATGCGTTACTTAACTCGCCCAATGTGGACATTCCCTTGGAAC
TGCGCGATAAAGCAATGCTGGAAGTGCTCTATGCCACCGGCTTGCGGGTGTCAGAATTGGTCGGGCTGACCATCAGTGAT
GTTAGTCTACGCCAAGGTGTGGTGAGAGTGATTGGTAAAGGGAATAAAGAGCGCTTGGTCCCCTTGGGGGAAGAAGCTGT
GTATTGGATTGAGAACTATATGGAGCATGGCCGGCCTTGGTTGGTTAATGGCGCATCGCTGGATGTATTGTTCCCCAGTA
ACCGTAGCCAGCAAATGACCCGTCAGACTTTCTGGCATCGCATCAAACACTATGCGATCCTTGCCGGTATTGATAGTGAA
AGGCTTTCACCCCATGTGCTACGCCATGCCTTTGCCACGCATCTGCTGAATCACGGTGCCGATTTACGTGTAGTGCAAAT
GTTACTGGGCCACAGTGATCTGTCGACAACTCAGATTTATACGCATGTAGCGACTGAACGTTTGAGACAGCTACATCAAC
AGCATCATCCACGCGCTTAA

Upstream 100 bases:

>100_bases
TAGCCGTAGCATTGCTAATAAGGAATAGCATCGAGTGTACCAGATTTGCCCTGTCATCAGGCATAATGGTGACTGAGTTC
AATCAAAGAGAGAGACAGCA

Downstream 100 bases:

>100_bases
TCGCTGTATGGAAAAAGATAGGATTTATAAATGAAAAAAAGTTTATTGCTGCTGCCAATGTTAATGGCTGCATTATCGGG
GGTTGCTAATGCAGATGATT

Product: site-specific tyrosine recombinase XerD

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 299; Mature: 299

Protein sequence:

>299_residues
MKQQDNPLIEQFLDALWLERNLAENTLASYRLDLHALVGWLTHHNSDLLRASPQDLQSFLAERIEGGYKATSSARLLSAM
RRLFQYLYREKLREDDPTALLSSPKLPQRLPKDLSEAQVDALLNSPNVDIPLELRDKAMLEVLYATGLRVSELVGLTISD
VSLRQGVVRVIGKGNKERLVPLGEEAVYWIENYMEHGRPWLVNGASLDVLFPSNRSQQMTRQTFWHRIKHYAILAGIDSE
RLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA

Sequences:

>Translated_299_residues
MKQQDNPLIEQFLDALWLERNLAENTLASYRLDLHALVGWLTHHNSDLLRASPQDLQSFLAERIEGGYKATSSARLLSAM
RRLFQYLYREKLREDDPTALLSSPKLPQRLPKDLSEAQVDALLNSPNVDIPLELRDKAMLEVLYATGLRVSELVGLTISD
VSLRQGVVRVIGKGNKERLVPLGEEAVYWIENYMEHGRPWLVNGASLDVLFPSNRSQQMTRQTFWHRIKHYAILAGIDSE
RLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA
>Mature_299_residues
MKQQDNPLIEQFLDALWLERNLAENTLASYRLDLHALVGWLTHHNSDLLRASPQDLQSFLAERIEGGYKATSSARLLSAM
RRLFQYLYREKLREDDPTALLSSPKLPQRLPKDLSEAQVDALLNSPNVDIPLELRDKAMLEVLYATGLRVSELVGLTISD
VSLRQGVVRVIGKGNKERLVPLGEEAVYWIENYMEHGRPWLVNGASLDVLFPSNRSQQMTRQTFWHRIKHYAILAGIDSE
RLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA

Specific function: Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. Binds cooperatively to specific DNA consensus sequences that are separated from xerC binding sites by a short central region, forming

COG id: COG4974

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

Gene ontology:

Cell location: Cytoplasm

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

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

Homologues:

Organism=Escherichia coli, GI1789261, Length=297, Percent_Identity=83.5016835016835, Blast_Score=509, Evalue=1e-146,
Organism=Escherichia coli, GI1790244, Length=292, Percent_Identity=37.6712328767123, Blast_Score=186, Evalue=1e-48,
Organism=Escherichia coli, GI1790768, Length=149, Percent_Identity=32.2147651006711, Blast_Score=67, Evalue=1e-12,
Organism=Escherichia coli, GI1790767, Length=170, Percent_Identity=28.8235294117647, Blast_Score=67, Evalue=1e-12,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): XERD_YERPE (Q8ZHK1)

Other databases:

- EMBL:   AL590842
- EMBL:   AE009952
- EMBL:   AE017042
- PIR:   AE0109
- RefSeq:   NP_670575.1
- RefSeq:   NP_994862.1
- RefSeq:   YP_002345940.1
- ProteinModelPortal:   Q8ZHK1
- SMR:   Q8ZHK1
- GeneID:   1148223
- GeneID:   1173728
- GeneID:   2766133
- GenomeReviews:   AE009952_GR
- GenomeReviews:   AE017042_GR
- GenomeReviews:   AL590842_GR
- KEGG:   ype:YPO0892
- KEGG:   ypk:y3276
- KEGG:   ypm:YP_3588
- HOGENOM:   HBG727654
- OMA:   LMERELY
- ProtClustDB:   PRK00283
- BioCyc:   YPES187410:Y3276-MONOMER
- BioCyc:   YPES214092:YPO0892-MONOMER
- GO:   GO:0005737
- HAMAP:   MF_01807
- InterPro:   IPR011010
- InterPro:   IPR013762
- InterPro:   IPR002104
- InterPro:   IPR010998
- InterPro:   IPR023109
- InterPro:   IPR004107
- InterPro:   IPR011932
- Gene3D:   G3DSA:1.10.150.130
- Gene3D:   G3DSA:1.10.443.10
- TIGRFAMs:   TIGR02225

Pfam domain/function: PF02899 Phage_integr_N; PF00589 Phage_integrase; SSF56349 DNA_brk_join_enz; SSF47823 L_intgrse_like_N

EC number: NA

Molecular weight: Translated: 34216; Mature: 34216

Theoretical pI: Translated: 8.12; Mature: 8.12

Prosite motif: NA

Important sites: ACT_SITE 149-149 ACT_SITE 173-173 ACT_SITE 245-245 ACT_SITE 248-248 ACT_SITE 271-271 ACT_SITE 280-280

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.0 %Met     (Translated Protein)
2.0 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
2.0 %Met     (Mature Protein)
2.0 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKQQDNPLIEQFLDALWLERNLAENTLASYRLDLHALVGWLTHHNSDLLRASPQDLQSFL
CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCHHHHHHHH
AERIEGGYKATSSARLLSAMRRLFQYLYREKLREDDPTALLSSPKLPQRLPKDLSEAQVD
HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHCCCCCHHHHHHHHHHHHHH
ALLNSPNVDIPLELRDKAMLEVLYATGLRVSELVGLTISDVSLRQGVVRVIGKGNKERLV
HHHCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCC
PLGEEAVYWIENYMEHGRPWLVNGASLDVLFPSNRSQQMTRQTFWHRIKHYAILAGIDSE
CCCHHHHHHHHHHHHCCCCEEECCCEEEEECCCCCHHHHHHHHHHHHHHHHHHEECCCHH
RLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA
HCCHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC
>Mature Secondary Structure
MKQQDNPLIEQFLDALWLERNLAENTLASYRLDLHALVGWLTHHNSDLLRASPQDLQSFL
CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCHHHHHHHH
AERIEGGYKATSSARLLSAMRRLFQYLYREKLREDDPTALLSSPKLPQRLPKDLSEAQVD
HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHCCCCCHHHHHHHHHHHHHH
ALLNSPNVDIPLELRDKAMLEVLYATGLRVSELVGLTISDVSLRQGVVRVIGKGNKERLV
HHHCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCC
PLGEEAVYWIENYMEHGRPWLVNGASLDVLFPSNRSQQMTRQTFWHRIKHYAILAGIDSE
CCCHHHHHHHHHHHHCCCCEEECCCEEEEECCCCCHHHHHHHHHHHHHHHHHHEECCCHH
RLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA
HCCHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC

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: 10.0

TargetDB status: NA

Availability: NA

References: 11586360; 12142430