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The map label for this gene is ycbB [H]

Identifier: 117920334

GI number: 117920334

Start: 2238829

End: 2240505

Strand: Direct

Name: ycbB [H]

Synonym: Shewana3_1889

Alternate gene names: 117920334

Gene position: 2238829-2240505 (Clockwise)

Preceding gene: 117920333

Following gene: 117920335

Centisome position: 45.03

GC content: 48.96

Gene sequence:

>1677_bases
ATGATGCCTGTGAGTCGATTAACGCTAAATCCTAATACATCCAACCGCAGCTTTAGTTCACTTAAGCGCTGGCCACTCGG
TGCATTGTTGATGGGACTTTCGCTTGCAGTCATAGAATCCTACGCCGCCGAACCACTGGTAACAGCACCTTTAAGCGTTG
AAGCAGAAAGGGTTGAACAGCCCGCTCTTCCGCCTTCCGCAGAAGTCGCTGACCCAGACACTGCAGTTGAGCAAATTCTA
GGGCAAACCTTACTCTTGAGTCTTGCCGATGTTAGCCCGGTTTTTAGCGCCAATTATCAACAGTTGATCCAGTGGCAACA
TAGGGCGCTGAATAACGAGGAGCAATTGAAGCTTCGCCAAATGCAGCTGCAATTGGATAACTATTGGCAGTATCTTGATG
CCCAAGCTGAATGCACTGCGCCATGCCTATCGGCAGCACTGATCCCTAAGGATACGTATTTTCGCGCTGTGGTCCTCAAG
TTGAAGCAATTGATGGCGTTAGCGGAATCCTCTTCGTGGGAGACACTCATCCTCGAAGATAAGCTCAGTCCAGGGCAAGA
GAGCCCGCTCATTGCGCCGATTGCACAGCGCCTTTTCCTATTAGGTTTTCTAGCAGAGATGCCTAGCACGGCTTCCGAGT
CTGTAGCCGATGAAGCAGCTTTGCCAGTATCTGAACTAGGATCTGAGCCAACCATTGAGCCAGACATCATTTCACCAGAC
GCAACAACTCATGCTGGAACAGTTGCACGGACTGAGCAGGCTTCAACTGATAACAATTCCATGCCTTATGATGATGAACT
GGTTCGCGCGATCAAAAACTTTCAAACCCAGCATGGCTTACAGGCGGATGGGGTGATAGGTAAACAAACCCTGTATTGGC
TTAATCAATCTCCCTATGCTCGGGCAAAGCTGCTGGCGAAAAATACCCTTAGGCAGCAGCTTTTTACTCGCACCTTACCT
GCAAGCTATCTGGTGATAAACATCCCTGCATTTGAGCTGCAATTCGTCGAAGCGGGGAAGGTGATCCTTAATTCAAAAGT
AATAGTGGGCAAAGCATCGCGGCCAACACCGCTGCTAAGTAGTCATATCTCCAGCGTGGTGCTCAATCCACAGTGGCGAG
TGCCACGCACCATTGTGCGGCGCGATATCATGCCCCATATACGCCAAGATGGTCATTACCTGCAGGACCGCGGGTTTGAT
GTTTACGACTATGACGGCGCGCGAGTCGAACATTCGCCGCAGGAGTGGCAAGAGTTAGCGTCCAGCCATTTTCCCTATCG
TTTAGTGCAACGCCCCGGGGCGAAAAACGCCTTAGGTCGATATAAATTTCATTTCGACAACAGTTTTAGTGTGTATTTGC
ACGGAACTTCTGAGCCAAGTCTCTTTAAAAAGACCGATAGGGCCTTATCATCGGGTTGCATTCGGGTTGAAAAGGTCGAG
GAGCTGGCCCGCTGGTTTCAAACTCACTTAGTTAAAGATACGCGCCTTTGGGACAAATTAACGCCTAATACCACTCAATC
CCAATGGTTTGCGCTGTCAGATACCATGCCTGTCTACACGGTTTATTGGACAGCATGGCTTGATGATGCTGGGCAAATTC
AATATCGCAATGATATTTATCACTTAGAAGTTGAGTTTACCCAGGCGGTGCCTGCAGCAATTTTTTACATTCTATAA

Upstream 100 bases:

>100_bases
GCTTCAGCTATAGTGAACACAGATTACTGGTGAATTGAGTGTCGATGTTTGCACTTGCGGTAATTTTACGGTCAAGAATC
TGCTGTGACAGGGGACGTTT

Downstream 100 bases:

>100_bases
CGACCTGAACTTTTAAGAGATTTTGAAATCTGAAATCTTGTGAGCCAGTCAAGGCTTGATCTGAATGGCGATTCAGTATA
ATTTGCGGTTTTAGTGTCCA

Product: peptidoglycan binding domain-containing protein

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 558; Mature: 558

Protein sequence:

>558_residues
MMPVSRLTLNPNTSNRSFSSLKRWPLGALLMGLSLAVIESYAAEPLVTAPLSVEAERVEQPALPPSAEVADPDTAVEQIL
GQTLLLSLADVSPVFSANYQQLIQWQHRALNNEEQLKLRQMQLQLDNYWQYLDAQAECTAPCLSAALIPKDTYFRAVVLK
LKQLMALAESSSWETLILEDKLSPGQESPLIAPIAQRLFLLGFLAEMPSTASESVADEAALPVSELGSEPTIEPDIISPD
ATTHAGTVARTEQASTDNNSMPYDDELVRAIKNFQTQHGLQADGVIGKQTLYWLNQSPYARAKLLAKNTLRQQLFTRTLP
ASYLVINIPAFELQFVEAGKVILNSKVIVGKASRPTPLLSSHISSVVLNPQWRVPRTIVRRDIMPHIRQDGHYLQDRGFD
VYDYDGARVEHSPQEWQELASSHFPYRLVQRPGAKNALGRYKFHFDNSFSVYLHGTSEPSLFKKTDRALSSGCIRVEKVE
ELARWFQTHLVKDTRLWDKLTPNTTQSQWFALSDTMPVYTVYWTAWLDDAGQIQYRNDIYHLEVEFTQAVPAAIFYIL

Sequences:

>Translated_558_residues
MMPVSRLTLNPNTSNRSFSSLKRWPLGALLMGLSLAVIESYAAEPLVTAPLSVEAERVEQPALPPSAEVADPDTAVEQIL
GQTLLLSLADVSPVFSANYQQLIQWQHRALNNEEQLKLRQMQLQLDNYWQYLDAQAECTAPCLSAALIPKDTYFRAVVLK
LKQLMALAESSSWETLILEDKLSPGQESPLIAPIAQRLFLLGFLAEMPSTASESVADEAALPVSELGSEPTIEPDIISPD
ATTHAGTVARTEQASTDNNSMPYDDELVRAIKNFQTQHGLQADGVIGKQTLYWLNQSPYARAKLLAKNTLRQQLFTRTLP
ASYLVINIPAFELQFVEAGKVILNSKVIVGKASRPTPLLSSHISSVVLNPQWRVPRTIVRRDIMPHIRQDGHYLQDRGFD
VYDYDGARVEHSPQEWQELASSHFPYRLVQRPGAKNALGRYKFHFDNSFSVYLHGTSEPSLFKKTDRALSSGCIRVEKVE
ELARWFQTHLVKDTRLWDKLTPNTTQSQWFALSDTMPVYTVYWTAWLDDAGQIQYRNDIYHLEVEFTQAVPAAIFYIL
>Mature_558_residues
MMPVSRLTLNPNTSNRSFSSLKRWPLGALLMGLSLAVIESYAAEPLVTAPLSVEAERVEQPALPPSAEVADPDTAVEQIL
GQTLLLSLADVSPVFSANYQQLIQWQHRALNNEEQLKLRQMQLQLDNYWQYLDAQAECTAPCLSAALIPKDTYFRAVVLK
LKQLMALAESSSWETLILEDKLSPGQESPLIAPIAQRLFLLGFLAEMPSTASESVADEAALPVSELGSEPTIEPDIISPD
ATTHAGTVARTEQASTDNNSMPYDDELVRAIKNFQTQHGLQADGVIGKQTLYWLNQSPYARAKLLAKNTLRQQLFTRTLP
ASYLVINIPAFELQFVEAGKVILNSKVIVGKASRPTPLLSSHISSVVLNPQWRVPRTIVRRDIMPHIRQDGHYLQDRGFD
VYDYDGARVEHSPQEWQELASSHFPYRLVQRPGAKNALGRYKFHFDNSFSVYLHGTSEPSLFKKTDRALSSGCIRVEKVE
ELARWFQTHLVKDTRLWDKLTPNTTQSQWFALSDTMPVYTVYWTAWLDDAGQIQYRNDIYHLEVEFTQAVPAAIFYIL

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=432, Percent_Identity=34.9537037037037, Blast_Score=238, Evalue=7e-64,

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: 62799; Mature: 62799

Theoretical pI: Translated: 5.64; Mature: 5.64

Prosite motif: NA

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
1.6 %Met     (Translated Protein)
2.2 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
1.6 %Met     (Mature Protein)
2.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MMPVSRLTLNPNTSNRSFSSLKRWPLGALLMGLSLAVIESYAAEPLVTAPLSVEAERVEQ
CCCCCEEEECCCCCCCCHHHHHHCCHHHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHCC
PALPPSAEVADPDTAVEQILGQTLLLSLADVSPVFSANYQQLIQWQHRALNNEEQLKLRQ
CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHCCHHHHHHHHHHHCCCHHHHHHHH
MQLQLDNYWQYLDAQAECTAPCLSAALIPKDTYFRAVVLKLKQLMALAESSSWETLILED
HHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEC
KLSPGQESPLIAPIAQRLFLLGFLAEMPSTASESVADEAALPVSELGSEPTIEPDIISPD
CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHCCCCCCCCCCCCCCC
ATTHAGTVARTEQASTDNNSMPYDDELVRAIKNFQTQHGLQADGVIGKQTLYWLNQSPYA
CCCCCCCCEECCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCCHH
RAKLLAKNTLRQQLFTRTLPASYLVINIPAFELQFVEAGKVILNSKVIVGKASRPTPLLS
HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEEEECCCEEECCEEEEECCCCCCHHHH
SHISSVVLNPQWRVPRTIVRRDIMPHIRQDGHYLQDRGFDVYDYDGARVEHSPQEWQELA
HHHHHEEECCCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEECCCCCCCCCHHHHHHHH
SSHFPYRLVQRPGAKNALGRYKFHFDNSFSVYLHGTSEPSLFKKTDRALSSGCIRVEKVE
HCCCCCHHHCCCCCCCCCCCEEEEECCCEEEEEECCCCCHHHHHHHHHHHHCCEEHHHHH
ELARWFQTHLVKDTRLWDKLTPNTTQSQWFALSDTMPVYTVYWTAWLDDAGQIQYRNDIY
HHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCEEEEEEEEECCCCCCEEEECCEE
HLEVEFTQAVPAAIFYIL
EEEEEHHHHHHHHHHHCC
>Mature Secondary Structure
MMPVSRLTLNPNTSNRSFSSLKRWPLGALLMGLSLAVIESYAAEPLVTAPLSVEAERVEQ
CCCCCEEEECCCCCCCCHHHHHHCCHHHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHCC
PALPPSAEVADPDTAVEQILGQTLLLSLADVSPVFSANYQQLIQWQHRALNNEEQLKLRQ
CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHCCHHHHHHHHHHHCCCHHHHHHHH
MQLQLDNYWQYLDAQAECTAPCLSAALIPKDTYFRAVVLKLKQLMALAESSSWETLILED
HHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEC
KLSPGQESPLIAPIAQRLFLLGFLAEMPSTASESVADEAALPVSELGSEPTIEPDIISPD
CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHCCCCCCCCCCCCCCC
ATTHAGTVARTEQASTDNNSMPYDDELVRAIKNFQTQHGLQADGVIGKQTLYWLNQSPYA
CCCCCCCCEECCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCCHH
RAKLLAKNTLRQQLFTRTLPASYLVINIPAFELQFVEAGKVILNSKVIVGKASRPTPLLS
HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEEEECCCEEECCEEEEECCCCCCHHHH
SHISSVVLNPQWRVPRTIVRRDIMPHIRQDGHYLQDRGFDVYDYDGARVEHSPQEWQELA
HHHHHEEECCCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEECCCCCCCCCHHHHHHHH
SSHFPYRLVQRPGAKNALGRYKFHFDNSFSVYLHGTSEPSLFKKTDRALSSGCIRVEKVE
HCCCCCHHHCCCCCCCCCCCEEEEECCCEEEEEECCCCCHHHHHHHHHHHHCCEEHHHHH
ELARWFQTHLVKDTRLWDKLTPNTTQSQWFALSDTMPVYTVYWTAWLDDAGQIQYRNDIY
HHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCEEEEEEEEECCCCCCEEEECCEE
HLEVEFTQAVPAAIFYIL
EEEEEHHHHHHHHHHHCC

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: 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]