Click here to switch to the map view.

The map label for this gene is ycbB [H]

Identifier: 117920121

GI number: 117920121

Start: 1966659

End: 1968341

Strand: Reverse

Name: ycbB [H]

Synonym: Shewana3_1674

Alternate gene names: 117920121

Gene position: 1968341-1966659 (Counterclockwise)

Preceding gene: 117920130

Following gene: 117920120

Centisome position: 39.59

GC content: 48.13

Gene sequence:

>1683_bases
ATGATGCGCTTCAAACAATTCAAACCTACCTTACTCCTGCTCCTCAGTCTCGTTAGCGCGAGCGGCATTGCTTCAACCCA
GCAGCTAGAAACTTTACTCGAACCCTTATCTATTGGTGAACGAGCCAAGGTCGACAATACTCAGGTCATTAGTGCCAAGT
TGCTGTCGCGGGTCTACCAAGTGCGTCAATATCAGCCGCTCTGGCAAGACAGAGACTACGCGGGCACTATGCTAGATGTG
ATTAAAAGTGCCGATGATGAAGGGTTGTCGAAGGAAGATTATCACTACTCCAAGCTAGTCGAACTTTACCAACAGCTCAG
TGCCTCGAATTGGCAGGATGAATACCGCAGCAGTGTATTTGAAGTGCTACTAAGCGATGGGATCATCACCTACGCCATTC
ACTTGCTAAACGGCAAAGTGAACCCCAGTATGCTCGGCAAAACTTGGAATTATGATGAAACCCATCTGGATTTCGATACC
ACGTTAAAGCAGCTCGAAGAACACATAAAAGCACACACTGTGGCTGATGCTATTGCAGGCTTAGCGCCTAAGATTGAGCC
CTATCACCAGCTAAAACAGTATCTTGCCCAGTACAAAGACTTAGCGGCACGCTATCCCTTTAGCCCCATTCCCTATACGG
AAGTCATCAAGCCCGGCAGCACTTCCCCTTCGGTACAAGGCATTGCTACACGGCTAACAGAGTTAGGTTACTTAGCGGCA
AGCGCGCCAGCGGACAATAGCGCCGCCGTGAACCAGCCCTTAACGTACGACAGCACGCTTGAAGCTGCGGTGCGTCAATT
CCAAACCGACCATAGTCTCAAAGCCGATGGCGTGATTGGTGCGGGCACTATGGCGGCGCTGAATGTGCCCTACTCGCAAC
TGGTCGATCAGATCCGTATTAACCTCGAGCGAGCGCGCTGGTTATCGGCAAACTTGCCCACCAATTATCTTATCGTCAAC
TTGGCAGGTTACGAGCTGTTACTCTTTAAAGACAACAGCTTAAGCTGGCGAACCGACATTATCATCGGCAAAATTAACGC
TAAAACACCACTGTTTAAATCCAAGTTAAAATACGTGGTCGTTAACCCTACTTGGACTGTGCCCCGCAGCATCTCGACTG
AAATCATCAATCACTTGCGTAAAGAGCCCGATTATTTACAGAAGAAACACTTTAAAGTGGTCGAAGGCTCGGGCACACCC
GTGGATGCAAGCGGCATCGACTGGCATAGCATGACGCGCAAAAACTTCCCCTACTGGTTTGTGCAAGACCCGGGTGAAGA
TAACTCACTGGGATTAGTGAAGTTTATCTTCCCTAACCAATACTCGATTTATCTACATGATACGCCAGCAAAAAGTCTGT
TTGAACAAACGGATAGAGCCTTCAGTCATGGCTGTATTCGAGTCAAAGATCCGCTCGTGCTGGCGGATAAATTGCTGAGT
GCCAATGCCAATTGGTCAAGTAGCACGCTCAGTAGCAAATTAAGTGAGGGAAAAACGGAAAACCTGTTCTTAGATGAACC
CTTAGACATTTTGATCATGTATTGGACCGTCACCTTAAAGGACGGGAAAATCAAGTTTTACAATGACGTATATAAACGCG
ATCCGGTCCTTATCGAGGCGTTAAACCGCCCAACCTATGAGGGTGTGTTAGCCGATGATGGCTTGCTCAACACCATGGAG
TAA

Upstream 100 bases:

>100_bases
TTAAACATGTTGGATAATTGTACAGCACACTTGCTGTGCGAAATGATTCAACATAGTCTTATGTCTTTAATGGATTTTTT
CATGGAAAGAAATACTCATT

Downstream 100 bases:

>100_bases
ACGCCGATAATCGCGGCTTTTGATACAAGTTGCTTGCTCAATCCACTGCGCTGCGTTGCCCAATTTCAAGACGAGGGCAA
CGCGGCACTTCCCCGCATCA

Product: peptidoglycan binding domain-containing protein

Products: NA

Alternate protein names: NA

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

Protein sequence:

>560_residues
MMRFKQFKPTLLLLLSLVSASGIASTQQLETLLEPLSIGERAKVDNTQVISAKLLSRVYQVRQYQPLWQDRDYAGTMLDV
IKSADDEGLSKEDYHYSKLVELYQQLSASNWQDEYRSSVFEVLLSDGIITYAIHLLNGKVNPSMLGKTWNYDETHLDFDT
TLKQLEEHIKAHTVADAIAGLAPKIEPYHQLKQYLAQYKDLAARYPFSPIPYTEVIKPGSTSPSVQGIATRLTELGYLAA
SAPADNSAAVNQPLTYDSTLEAAVRQFQTDHSLKADGVIGAGTMAALNVPYSQLVDQIRINLERARWLSANLPTNYLIVN
LAGYELLLFKDNSLSWRTDIIIGKINAKTPLFKSKLKYVVVNPTWTVPRSISTEIINHLRKEPDYLQKKHFKVVEGSGTP
VDASGIDWHSMTRKNFPYWFVQDPGEDNSLGLVKFIFPNQYSIYLHDTPAKSLFEQTDRAFSHGCIRVKDPLVLADKLLS
ANANWSSSTLSSKLSEGKTENLFLDEPLDILIMYWTVTLKDGKIKFYNDVYKRDPVLIEALNRPTYEGVLADDGLLNTME

Sequences:

>Translated_560_residues
MMRFKQFKPTLLLLLSLVSASGIASTQQLETLLEPLSIGERAKVDNTQVISAKLLSRVYQVRQYQPLWQDRDYAGTMLDV
IKSADDEGLSKEDYHYSKLVELYQQLSASNWQDEYRSSVFEVLLSDGIITYAIHLLNGKVNPSMLGKTWNYDETHLDFDT
TLKQLEEHIKAHTVADAIAGLAPKIEPYHQLKQYLAQYKDLAARYPFSPIPYTEVIKPGSTSPSVQGIATRLTELGYLAA
SAPADNSAAVNQPLTYDSTLEAAVRQFQTDHSLKADGVIGAGTMAALNVPYSQLVDQIRINLERARWLSANLPTNYLIVN
LAGYELLLFKDNSLSWRTDIIIGKINAKTPLFKSKLKYVVVNPTWTVPRSISTEIINHLRKEPDYLQKKHFKVVEGSGTP
VDASGIDWHSMTRKNFPYWFVQDPGEDNSLGLVKFIFPNQYSIYLHDTPAKSLFEQTDRAFSHGCIRVKDPLVLADKLLS
ANANWSSSTLSSKLSEGKTENLFLDEPLDILIMYWTVTLKDGKIKFYNDVYKRDPVLIEALNRPTYEGVLADDGLLNTME
>Mature_560_residues
MMRFKQFKPTLLLLLSLVSASGIASTQQLETLLEPLSIGERAKVDNTQVISAKLLSRVYQVRQYQPLWQDRDYAGTMLDV
IKSADDEGLSKEDYHYSKLVELYQQLSASNWQDEYRSSVFEVLLSDGIITYAIHLLNGKVNPSMLGKTWNYDETHLDFDT
TLKQLEEHIKAHTVADAIAGLAPKIEPYHQLKQYLAQYKDLAARYPFSPIPYTEVIKPGSTSPSVQGIATRLTELGYLAA
SAPADNSAAVNQPLTYDSTLEAAVRQFQTDHSLKADGVIGAGTMAALNVPYSQLVDQIRINLERARWLSANLPTNYLIVN
LAGYELLLFKDNSLSWRTDIIIGKINAKTPLFKSKLKYVVVNPTWTVPRSISTEIINHLRKEPDYLQKKHFKVVEGSGTP
VDASGIDWHSMTRKNFPYWFVQDPGEDNSLGLVKFIFPNQYSIYLHDTPAKSLFEQTDRAFSHGCIRVKDPLVLADKLLS
ANANWSSSTLSSKLSEGKTENLFLDEPLDILIMYWTVTLKDGKIKFYNDVYKRDPVLIEALNRPTYEGVLADDGLLNTME

Specific function: Responsible, at least in part, for generating a meso- diaminopimelyl-3-a meso-diaminopimelyl-3 cross-link [H]

COG id: COG2989

COG function: function code S; Uncharacterized protein conserved in bacteria

Gene ontology:

Cell location: Membrane; Single-pass membrane protein (Potential) [H]

Metaboloic importance: Unknown [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the YkuD family [H]

Homologues:

Organism=Escherichia coli, GI1787155, Length=526, Percent_Identity=28.3269961977186, Blast_Score=198, Evalue=8e-52,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR002477
- InterPro:   IPR005490 [H]

Pfam domain/function: PF01471 PG_binding_1; PF03734 YkuD [H]

EC number: NA

Molecular weight: Translated: 63146; Mature: 63146

Theoretical pI: Translated: 6.25; Mature: 6.25

Prosite motif: NA

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.2 %Cys     (Translated Protein)
1.4 %Met     (Translated Protein)
1.6 %Cys+Met (Translated Protein)
0.2 %Cys     (Mature Protein)
1.4 %Met     (Mature Protein)
1.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure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CCCCCCCCEECCCCCCCCCC
>Mature Secondary Structure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CCCCCCCCEECCCCCCCCCC

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: DNA [C]

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

General reaction: NA

Inhibitor: NA

Structure determination priority: 6.0

TargetDB status: NA

Availability: NA

References: 8905232; 9278503; 1989883 [H]