Click here to switch to the map view.

The map label for this gene is pbpD [H]

Identifier: 52787027

GI number: 52787027

Start: 3187578

End: 3189446

Strand: Direct

Name: pbpD [H]

Synonym: BLi03331

Alternate gene names: 52787027

Gene position: 3187578-3189446 (Clockwise)

Preceding gene: 52787026

Following gene: 52787028

Centisome position: 75.49

GC content: 45.85

Gene sequence:

>1869_bases
TTGCGTTCATTTTTTGGATGGATTTTTCTGTTGATGTTAATACCTATATTTGTCTTTACCTTAATGGCCTCCGGCCGGGA
AGCTCAGAATATGAAGCCTCTCGATCAGGTGCTCGATGAGAAGATCAATATAAAGGATATCGGCCTTGTACAAAACAGCT
ACATGTATGACAGGGACGGCGCTCTGATTTCCGAAATCGTTTCAGATCACCAAAACCGGGTATTCGTCCCCTATAAAGAT
ATCCCTGAACATGTGAAGCAGCTGTTTCTGACTTCGGAGGACCGTCATTTCTTTCAGCATAAAGGCTTTGATTTTATCGG
GATGGCCCGGGCCGCCGCAGCCAATGTCAAAAAAGGCGGCATTGATCAGGGGGCCAGCACGATTACACAGCAGCTTTCGA
GAAACTTGTATTTGAACCATGAACGAACCTTCGACCGCAAGTTCACTGAGCTCCTGTATTCCTACCAGCTGGAAAAAAAG
CTTTCAAAAGAAGAAATTTTTGAGAAATACTTAAACACCATCTATTTTAATCACGGGGTCTACGGAATTGGATCCGCGTC
TTCTTTCTATTTCAGCAAGCCTTTGAAATCTCTCAGCCTTGCCGAAACGGCGTTTATTTGCGCGATCCCTAATAACCCTA
CATTATATGATCCTTTGAAACATTTTGACTACACAAAAACCCGCCAAAAGCGGCTGCTTGAAGGGCTGAAAAAAGCGGGC
GTGATCACCGAAAAAGAATACAGCAAAGCCGTTAAGCAAAAAATTACGCTTAACGTGAAAGAAAAGAAAGACGACTATCC
CGACTATACGACCTATGTCAACGAGGAATTCACCAAATTGGTGTCCGCTACGGAAGGGTTTGACGAACGGCTGAAAAAGG
CAAAAACAAAAGAAGAAAAGAAAAAAATCGAAAAAGAGCTGTCAAACCGAATCAGCTCCCTCACGACAAGCGGAATCAAA
ATTTATACGGCGCTCGATACCAGCATGCAAAACCGTGTCGTCCAGCAAGTGAAGAACCGCCTCCCTTATGAAGGCGTACA
AGGCGGAGCAGTGGTGATCAACCACCAAACCCATCAAATCGTCGCCATGTCCGGCGGGAAAAACTATAAAAAGTACGATT
ATAACCTGGCATTCCAAGCATACAGGCAGCCGGGGTCATCAATTAAGCCGCTCCTTGACTACGGGCCGTACATTGAAGAA
ACGGGTGCGACGGCAGGCAGCATGATTGACGCAAGCAAATTTTGCAGCAAGGAATACTGTCCGAACAACTTCAACGAAAG
AACATACGGAACCGTGTCGATCAAGACAGCCTTTAAATATTCGTATAATACACCAGCCGTACGTATGCTGAACCGGGTCG
GCGTGCAAAAAGGATTCAGCTATTTAAAACCGTTCGGATTCGATAAAATCGTTCAAAACGACTACCGTCTTCCTGCTGCG
CTGGGCGGATTTACATGGGGCTTCTCACCGCTGGAGATGGCTGATGCCTATACGACCTTCGGCAATAACGGAAGCTACAC
ATCCAGCCATGCAATCACAAAGGTGACGGATTTAAAAGGAAAAACGCTATACAAATGGAAAGACAAGCCGCAGCAAGTAT
TCAGCATGCGGACAAACAGCCAAATGCGCGAACTCTTAGCAGCGGTTGTTAAAGAAGGAACCGGAAAAAAAGCGAATTTC
AGCGGCGGATATGTAGGAGGAAAAACCGGAACATCCAACGGGTACAGAGACCTTTGGTTTGTCGGATTGACGGATACATA
CACAATGAGTGTATGGGTCGGAAAAGAGGCAAAAGGCACTGTCGAGTACCTGCATCACGCGGGACCTCAACTTTTAATCT
GGAGAGGAACGCTGCAATACGCATCTTAA

Upstream 100 bases:

>100_bases
AATCGGATAAAAAAACTGCCAATCTATCAAATTATCCTTCTCGATATCCAAAAAGAATGGTACGATATGGCTAGAATTTA
GCGAAAAGAGAGTGACAAAG

Downstream 100 bases:

>100_bases
ATTAAAAAAAGGGGTGGATGAAAGTGGCGGATATGCCCGATCGAATCGTTCTGTTTGACGGCGTGTGCAACTTTTGCGAC
GGAGCCGTGCAATTCATTAT

Product: PbpD

Products: NA

Alternate protein names: PBP 4 [H]

Number of amino acids: Translated: 622; Mature: 622

Protein sequence:

>622_residues
MRSFFGWIFLLMLIPIFVFTLMASGREAQNMKPLDQVLDEKINIKDIGLVQNSYMYDRDGALISEIVSDHQNRVFVPYKD
IPEHVKQLFLTSEDRHFFQHKGFDFIGMARAAAANVKKGGIDQGASTITQQLSRNLYLNHERTFDRKFTELLYSYQLEKK
LSKEEIFEKYLNTIYFNHGVYGIGSASSFYFSKPLKSLSLAETAFICAIPNNPTLYDPLKHFDYTKTRQKRLLEGLKKAG
VITEKEYSKAVKQKITLNVKEKKDDYPDYTTYVNEEFTKLVSATEGFDERLKKAKTKEEKKKIEKELSNRISSLTTSGIK
IYTALDTSMQNRVVQQVKNRLPYEGVQGGAVVINHQTHQIVAMSGGKNYKKYDYNLAFQAYRQPGSSIKPLLDYGPYIEE
TGATAGSMIDASKFCSKEYCPNNFNERTYGTVSIKTAFKYSYNTPAVRMLNRVGVQKGFSYLKPFGFDKIVQNDYRLPAA
LGGFTWGFSPLEMADAYTTFGNNGSYTSSHAITKVTDLKGKTLYKWKDKPQQVFSMRTNSQMRELLAAVVKEGTGKKANF
SGGYVGGKTGTSNGYRDLWFVGLTDTYTMSVWVGKEAKGTVEYLHHAGPQLLIWRGTLQYAS

Sequences:

>Translated_622_residues
MRSFFGWIFLLMLIPIFVFTLMASGREAQNMKPLDQVLDEKINIKDIGLVQNSYMYDRDGALISEIVSDHQNRVFVPYKD
IPEHVKQLFLTSEDRHFFQHKGFDFIGMARAAAANVKKGGIDQGASTITQQLSRNLYLNHERTFDRKFTELLYSYQLEKK
LSKEEIFEKYLNTIYFNHGVYGIGSASSFYFSKPLKSLSLAETAFICAIPNNPTLYDPLKHFDYTKTRQKRLLEGLKKAG
VITEKEYSKAVKQKITLNVKEKKDDYPDYTTYVNEEFTKLVSATEGFDERLKKAKTKEEKKKIEKELSNRISSLTTSGIK
IYTALDTSMQNRVVQQVKNRLPYEGVQGGAVVINHQTHQIVAMSGGKNYKKYDYNLAFQAYRQPGSSIKPLLDYGPYIEE
TGATAGSMIDASKFCSKEYCPNNFNERTYGTVSIKTAFKYSYNTPAVRMLNRVGVQKGFSYLKPFGFDKIVQNDYRLPAA
LGGFTWGFSPLEMADAYTTFGNNGSYTSSHAITKVTDLKGKTLYKWKDKPQQVFSMRTNSQMRELLAAVVKEGTGKKANF
SGGYVGGKTGTSNGYRDLWFVGLTDTYTMSVWVGKEAKGTVEYLHHAGPQLLIWRGTLQYAS
>Mature_622_residues
MRSFFGWIFLLMLIPIFVFTLMASGREAQNMKPLDQVLDEKINIKDIGLVQNSYMYDRDGALISEIVSDHQNRVFVPYKD
IPEHVKQLFLTSEDRHFFQHKGFDFIGMARAAAANVKKGGIDQGASTITQQLSRNLYLNHERTFDRKFTELLYSYQLEKK
LSKEEIFEKYLNTIYFNHGVYGIGSASSFYFSKPLKSLSLAETAFICAIPNNPTLYDPLKHFDYTKTRQKRLLEGLKKAG
VITEKEYSKAVKQKITLNVKEKKDDYPDYTTYVNEEFTKLVSATEGFDERLKKAKTKEEKKKIEKELSNRISSLTTSGIK
IYTALDTSMQNRVVQQVKNRLPYEGVQGGAVVINHQTHQIVAMSGGKNYKKYDYNLAFQAYRQPGSSIKPLLDYGPYIEE
TGATAGSMIDASKFCSKEYCPNNFNERTYGTVSIKTAFKYSYNTPAVRMLNRVGVQKGFSYLKPFGFDKIVQNDYRLPAA
LGGFTWGFSPLEMADAYTTFGNNGSYTSSHAITKVTDLKGKTLYKWKDKPQQVFSMRTNSQMRELLAAVVKEGTGKKANF
SGGYVGGKTGTSNGYRDLWFVGLTDTYTMSVWVGKEAKGTVEYLHHAGPQLLIWRGTLQYAS

Specific function: Cell Wall Formation. Synthesis Of Cross-Linked Peptidoglycan From The Lipid Intermediates. The Enzyme Has A Penicillin-Insensitive Transglycosylase N-Terminal Domain (Formation Of Linear Glycan Strands) And A Penicillin-Sensitive Transpeptidase C-Terminal

COG id: COG0744

COG function: function code M; Membrane carboxypeptidase (penicillin-binding protein)

Gene ontology:

Cell location: Cell membrane; Peripheral membrane protein (Probable) [H]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: In the C-terminal section; belongs to the transpeptidase family [H]

Homologues:

Organism=Escherichia coli, GI1786343, Length=560, Percent_Identity=25.8928571428571, Blast_Score=182, Evalue=6e-47,
Organism=Escherichia coli, GI1788867, Length=539, Percent_Identity=25.7884972170686, Blast_Score=160, Evalue=2e-40,
Organism=Escherichia coli, GI87082258, Length=221, Percent_Identity=35.7466063348416, Blast_Score=157, Evalue=2e-39,
Organism=Escherichia coli, GI1789601, Length=151, Percent_Identity=33.7748344370861, Blast_Score=93, Evalue=4e-20,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR012338
- InterPro:   IPR001264
- InterPro:   IPR001460 [H]

Pfam domain/function: PF00912 Transgly; PF00905 Transpeptidase [H]

EC number: 2.4.1.129; 3.4.-.- [C]

Molecular weight: Translated: 70645; Mature: 70645

Theoretical pI: Translated: 9.83; Mature: 9.83

Prosite motif: NA

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
2.3 %Met     (Translated Protein)
2.7 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
2.3 %Met     (Mature Protein)
2.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MRSFFGWIFLLMLIPIFVFTLMASGREAQNMKPLDQVLDEKINIKDIGLVQNSYMYDRDG
CCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCEEECEEECCEEECCCC
ALISEIVSDHQNRVFVPYKDIPEHVKQLFLTSEDRHFFQHKGFDFIGMARAAAANVKKGG
HHHHHHHHCCCCEEEECCHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHCCCCCC
IDQGASTITQQLSRNLYLNHERTFDRKFTELLYSYQLEKKLSKEEIFEKYLNTIYFNHGV
CCCHHHHHHHHHHHCEEECCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHEEECCCE
YGIGSASSFYFSKPLKSLSLAETAFICAIPNNPTLYDPLKHFDYTKTRQKRLLEGLKKAG
EECCCCCCHHHHCCHHHHHHHCEEEEEEECCCCCCCCHHHHCCCHHHHHHHHHHHHHHCC
VITEKEYSKAVKQKITLNVKEKKDDYPDYTTYVNEEFTKLVSATEGFDERLKKAKTKEEK
CCCHHHHHHHHHHHHEEEEHHCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
KKIEKELSNRISSLTTSGIKIYTALDTSMQNRVVQQVKNRLPYEGVQGGAVVINHQTHQI
HHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCEEE
VAMSGGKNYKKYDYNLAFQAYRQPGSSIKPLLDYGPYIEETGATAGSMIDASKFCSKEYC
EEECCCCCCEEEECCEEHHHHHCCCCCCCHHHHCCCCHHHCCCCCCCHHHHHHHHHHCCC
PNNFNERTYGTVSIKTAFKYSYNTPAVRMLNRVGVQKGFSYLKPFGFDKIVQNDYRLPAA
CCCCCCCEEEEEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCHH
LGGFTWGFSPLEMADAYTTFGNNGSYTSSHAITKVTDLKGKTLYKWKDKPQQVFSMRTNS
HCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHCCH
QMRELLAAVVKEGTGKKANFSGGYVGGKTGTSNGYRDLWFVGLTDTYTMSVWVGKEAKGT
HHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEEEECCCCCHH
VEYLHHAGPQLLIWRGTLQYAS
HHHHHHCCCEEEEEECCCCCCC
>Mature Secondary Structure
MRSFFGWIFLLMLIPIFVFTLMASGREAQNMKPLDQVLDEKINIKDIGLVQNSYMYDRDG
CCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCEEECEEECCEEECCCC
ALISEIVSDHQNRVFVPYKDIPEHVKQLFLTSEDRHFFQHKGFDFIGMARAAAANVKKGG
HHHHHHHHCCCCEEEECCHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHCCCCCC
IDQGASTITQQLSRNLYLNHERTFDRKFTELLYSYQLEKKLSKEEIFEKYLNTIYFNHGV
CCCHHHHHHHHHHHCEEECCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHEEECCCE
YGIGSASSFYFSKPLKSLSLAETAFICAIPNNPTLYDPLKHFDYTKTRQKRLLEGLKKAG
EECCCCCCHHHHCCHHHHHHHCEEEEEEECCCCCCCCHHHHCCCHHHHHHHHHHHHHHCC
VITEKEYSKAVKQKITLNVKEKKDDYPDYTTYVNEEFTKLVSATEGFDERLKKAKTKEEK
CCCHHHHHHHHHHHHEEEEHHCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
KKIEKELSNRISSLTTSGIKIYTALDTSMQNRVVQQVKNRLPYEGVQGGAVVINHQTHQI
HHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCEEE
VAMSGGKNYKKYDYNLAFQAYRQPGSSIKPLLDYGPYIEETGATAGSMIDASKFCSKEYC
EEECCCCCCEEEECCEEHHHHHCCCCCCCHHHHCCCCHHHCCCCCCCHHHHHHHHHHCCC
PNNFNERTYGTVSIKTAFKYSYNTPAVRMLNRVGVQKGFSYLKPFGFDKIVQNDYRLPAA
CCCCCCCEEEEEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCHH
LGGFTWGFSPLEMADAYTTFGNNGSYTSSHAITKVTDLKGKTLYKWKDKPQQVFSMRTNS
HCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHCCH
QMRELLAAVVKEGTGKKANFSGGYVGGKTGTSNGYRDLWFVGLTDTYTMSVWVGKEAKGT
HHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEEEECCCCCHH
VEYLHHAGPQLLIWRGTLQYAS
HHHHHHCCCEEEEEECCCCCCC

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: Transferases; Acyltransferases; Aminoacyltransferases [C]

Inhibitor: NA

Structure determination priority: 6.0

TargetDB status: NA

Availability: NA

References: 7961491; 9274030; 9384377 [H]