Click here to switch to the map view.

The map label for this gene is ybbD [H]

Identifier: 52784020

GI number: 52784020

Start: 168906

End: 170837

Strand: Reverse

Name: ybbD [H]

Synonym: BLi00187

Alternate gene names: 52784020

Gene position: 170837-168906 (Counterclockwise)

Preceding gene: 52784021

Following gene: 52784019

Centisome position: 4.05

GC content: 47.67

Gene sequence:

>1932_bases
ATGAAAAGATTTCTTCAATGCGCGTTGATTGCATTGCTGTTATCGTCTCTCGCTTTGCAGCCGGCCGCTCGCGAAGCAGA
AGCAAAACAGCGTCCGGAACAAAACATCAAACAAATGGTCAGCAGCATGTCGCTTGAAGAGAAAATCGGGCAAATGCTGA
TGCCTGACTTTAGAAACTGGAAGAAAAAAGGGGAATCGAGCGCCAAAGGATTAACAGAAATGAATGACGAAGTTGCTGGA
ATCATTGAAAAATACCGGCTCGGGGGCGTCATTCTTTTTGCTGAAAACGTCACAGGCACAGAGCAGACTGTACGGTTAAC
GGACGGCCTGCAACAAGCGAGCCCTGACATTCCGCTCTTTATCACGATCGATCAGGAAGGCGGGATTGTCACGAGACTCG
AATCAGGCACAAACCTGGCCGGCAATATGGCAGTCGGAGCATCGAGAAGCAGCAAAAACGCCTTCAGATCAGGAAAAATC
ATCGGAAAAGAATTATCATCACTGGGCATTAACGTGAATTTCAGTCCTGTACTTGATGTCAACAACAATCCCGACAACCC
TGTCATCGGCGTCCGTTCTTTCAGTTCCAAGCCTGAGCTGACTTCAAAGCTCGGCATCCAGATGATGAAGGGCCTTCAGG
ACGAGCAAATGATCGCCACAGCAAAGCACTTTCCCGGACACGGCGATACAGCGGTTGACAGTCATTACGGATTGCCGCTT
GTTCCGCATAATGAAAAAAGGCTGAGAAGTGTTGAACTTGCGCCATTTCAAAAGGCGATCGATGCAGGTATTGACATGAT
CATGACAGCGCATGTCCAGTTCCCCGCCTTTGACGATACTACCTATAAAAGCAAAAAAGACGGCGAGGACATCATGGTGC
CTGCTACGCTTTCCAAAAAAGTCATGACAGACCTTCTCCGCAAAGATCTCAGCTTTAAGGGCGTTGTTGTAACAGACGCT
TTAAATATGAAAGCCATTTCTGATAATTTCGGACAGGAGGAAGCCGTCGTCATGGCTGTTAAAGCAGGAGTCGACATCGC
ACTCATGCCCGCGCAAGTCACATCGCTTGAGACCGAAAAAAATCTGGCGCGTGTATTCGAAGCTCTTCTGACAGCCGTTA
AAAATGGGGATATCCCCATGGAACAAATCGATCAGTCGGTGGAGCGAATCCTTCAATTAAAAATAGACCGAGGCATCATA
GATCACACCGGCTCCGAACCGCTTCAGAAAAAAATCAAATACGCCTTGAAAACGGTCGGCAGCAGCAAACACATGAAATA
CGAAAAGAAAATGGCAAGGGATAGCGCCACTATCCTTAAAAACGACAAAAGCACCCTGCCGTTTAAACCGAAAAAAGGGG
ACACCGTCCTCATTCTCGCTCCATATGAAGAGCAAACAGCAGCAATCGCAAAGACCATCAGCAAAATAAGGAAAAACATC
AAGGTAGTCGAATACCGCTTTGCAGAAAAAACGTTTGAGGAAGAGATTCAAAAGAAAATTGACGAAGCCGATTATGTCAT
CACAGGATCATACGTCATCAAAAACGATCCGGTTGTGAACGACGGTGTCATTGATGACAGCATTCAAGACTCAAGCAAGT
GGGCAACCGCTTTTCCGCGCGCCGCCATGAAATACGCGCAGGCCAACGGAAAAAAATTCGTCTTAATGAGCCTGAGAAAC
CCTTATGACACGGCAAATTTTGAAGAAGCCGAAGCCGTGATTGCGGTATACGGCTTTAAAGGCTATGCAAACGGACGCTT
CAGGCAGCCGAATATCCCGGCCGGAGTGGAAGCCATTTTCGGAAAGGCAAAGCCTAAAGGAACATTGCCCGTAGACATTC
CTTCAGTCACGCGCCCCGGGGAAACCCTTTACCCGTATGGCTACGGATTGAATATTAAAAACGGCAAGCCGCTTCACAAA
GGAGGGTCATGA

Upstream 100 bases:

>100_bases
GAATCAATTCGAAGGTGATGAATTTGCAACCGGAAAGTACGGCAGCGTCATTACAGCTGTTTACGAGGCGTTACATCACC
AATAGGAGGCGACCCTTTAT

Downstream 100 bases:

>100_bases
TGGGAAAAAAAGCAATCTGGCTGCTTGCTGGAATGTTTGTCTTCAGTACACTAACCGCAGCAGCTGCCTTTCCGGACAAA
GAAAAAAAAGCAAAGGTCTC

Product: YbbD

Products: NA

Alternate protein names: ORF1 [H]

Number of amino acids: Translated: 643; Mature: 643

Protein sequence:

>643_residues
MKRFLQCALIALLLSSLALQPAAREAEAKQRPEQNIKQMVSSMSLEEKIGQMLMPDFRNWKKKGESSAKGLTEMNDEVAG
IIEKYRLGGVILFAENVTGTEQTVRLTDGLQQASPDIPLFITIDQEGGIVTRLESGTNLAGNMAVGASRSSKNAFRSGKI
IGKELSSLGINVNFSPVLDVNNNPDNPVIGVRSFSSKPELTSKLGIQMMKGLQDEQMIATAKHFPGHGDTAVDSHYGLPL
VPHNEKRLRSVELAPFQKAIDAGIDMIMTAHVQFPAFDDTTYKSKKDGEDIMVPATLSKKVMTDLLRKDLSFKGVVVTDA
LNMKAISDNFGQEEAVVMAVKAGVDIALMPAQVTSLETEKNLARVFEALLTAVKNGDIPMEQIDQSVERILQLKIDRGII
DHTGSEPLQKKIKYALKTVGSSKHMKYEKKMARDSATILKNDKSTLPFKPKKGDTVLILAPYEEQTAAIAKTISKIRKNI
KVVEYRFAEKTFEEEIQKKIDEADYVITGSYVIKNDPVVNDGVIDDSIQDSSKWATAFPRAAMKYAQANGKKFVLMSLRN
PYDTANFEEAEAVIAVYGFKGYANGRFRQPNIPAGVEAIFGKAKPKGTLPVDIPSVTRPGETLYPYGYGLNIKNGKPLHK
GGS

Sequences:

>Translated_643_residues
MKRFLQCALIALLLSSLALQPAAREAEAKQRPEQNIKQMVSSMSLEEKIGQMLMPDFRNWKKKGESSAKGLTEMNDEVAG
IIEKYRLGGVILFAENVTGTEQTVRLTDGLQQASPDIPLFITIDQEGGIVTRLESGTNLAGNMAVGASRSSKNAFRSGKI
IGKELSSLGINVNFSPVLDVNNNPDNPVIGVRSFSSKPELTSKLGIQMMKGLQDEQMIATAKHFPGHGDTAVDSHYGLPL
VPHNEKRLRSVELAPFQKAIDAGIDMIMTAHVQFPAFDDTTYKSKKDGEDIMVPATLSKKVMTDLLRKDLSFKGVVVTDA
LNMKAISDNFGQEEAVVMAVKAGVDIALMPAQVTSLETEKNLARVFEALLTAVKNGDIPMEQIDQSVERILQLKIDRGII
DHTGSEPLQKKIKYALKTVGSSKHMKYEKKMARDSATILKNDKSTLPFKPKKGDTVLILAPYEEQTAAIAKTISKIRKNI
KVVEYRFAEKTFEEEIQKKIDEADYVITGSYVIKNDPVVNDGVIDDSIQDSSKWATAFPRAAMKYAQANGKKFVLMSLRN
PYDTANFEEAEAVIAVYGFKGYANGRFRQPNIPAGVEAIFGKAKPKGTLPVDIPSVTRPGETLYPYGYGLNIKNGKPLHK
GGS
>Mature_643_residues
MKRFLQCALIALLLSSLALQPAAREAEAKQRPEQNIKQMVSSMSLEEKIGQMLMPDFRNWKKKGESSAKGLTEMNDEVAG
IIEKYRLGGVILFAENVTGTEQTVRLTDGLQQASPDIPLFITIDQEGGIVTRLESGTNLAGNMAVGASRSSKNAFRSGKI
IGKELSSLGINVNFSPVLDVNNNPDNPVIGVRSFSSKPELTSKLGIQMMKGLQDEQMIATAKHFPGHGDTAVDSHYGLPL
VPHNEKRLRSVELAPFQKAIDAGIDMIMTAHVQFPAFDDTTYKSKKDGEDIMVPATLSKKVMTDLLRKDLSFKGVVVTDA
LNMKAISDNFGQEEAVVMAVKAGVDIALMPAQVTSLETEKNLARVFEALLTAVKNGDIPMEQIDQSVERILQLKIDRGII
DHTGSEPLQKKIKYALKTVGSSKHMKYEKKMARDSATILKNDKSTLPFKPKKGDTVLILAPYEEQTAAIAKTISKIRKNI
KVVEYRFAEKTFEEEIQKKIDEADYVITGSYVIKNDPVVNDGVIDDSIQDSSKWATAFPRAAMKYAQANGKKFVLMSLRN
PYDTANFEEAEAVIAVYGFKGYANGRFRQPNIPAGVEAIFGKAKPKGTLPVDIPSVTRPGETLYPYGYGLNIKNGKPLHK
GGS

Specific function: Hydrolyses the beta-1,4-glycosidic bond between N-acetylglucosamine and anhydro-N-acetylmuramic acid in cell wall degradation products following their importation into the cell during the process for recycling cell wall muropeptides [C]

COG id: COG1472

COG function: function code G; Beta-glucosidase-related glycosidases

Gene ontology:

Cell location: Cell membrane; Lipid-anchor (Potential) [H]

Metaboloic importance: Unknown [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the glycosyl hydrolase 3 family [H]

Homologues:

Organism=Escherichia coli, GI1787350, Length=283, Percent_Identity=29.3286219081272, Blast_Score=117, Evalue=3e-27,
Organism=Escherichia coli, GI1788453, Length=715, Percent_Identity=22.6573426573427, Blast_Score=106, Evalue=6e-24,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR019800
- InterPro:   IPR002772
- InterPro:   IPR001764
- InterPro:   IPR017853 [H]

Pfam domain/function: PF00933 Glyco_hydro_3; PF01915 Glyco_hydro_3_C [H]

EC number: 3.2.1.52

Molecular weight: Translated: 70548; Mature: 70548

Theoretical pI: Translated: 9.50; Mature: 9.50

Prosite motif: NA

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.2 %Cys     (Translated Protein)
3.4 %Met     (Translated Protein)
3.6 %Cys+Met (Translated Protein)
0.2 %Cys     (Mature Protein)
3.4 %Met     (Mature Protein)
3.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKRFLQCALIALLLSSLALQPAAREAEAKQRPEQNIKQMVSSMSLEEKIGQMLMPDFRNW
CHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHHHHCCHHHHHHHHHCHHHHHH
KKKGESSAKGLTEMNDEVAGIIEKYRLGGVILFAENVTGTEQTVRLTDGLQQASPDIPLF
HHCCCCHHCCHHHHHHHHHHHHHHHHCCEEEEEECCCCCCCCEEEHHHCHHHCCCCCCEE
ITIDQEGGIVTRLESGTNLAGNMAVGASRSSKNAFRSGKIIGKELSSLGINVNFSPVLDV
EEEECCCCEEEEECCCCCCCCCEEECCCCCCCHHHHCCCHHHHHHHHCCCCCCCCEEEEC
NNNPDNPVIGVRSFSSKPELTSKLGIQMMKGLQDEQMIATAKHFPGHGDTAVDSHYGLPL
CCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCC
VPHNEKRLRSVELAPFQKAIDAGIDMIMTAHVQFPAFDDTTYKSKKDGEDIMVPATLSKK
CCCCHHHHHCCCCHHHHHHHHHCHHEEEEEEEECCCCCCCCCCCCCCCCCEEEEHHHHHH
VMTDLLRKDLSFKGVVVTDALNMKAISDNFGQEEAVVMAVKAGVDIALMPAQVTSLETEK
HHHHHHHHCCCCCCEEEECCCCCEECCCCCCCCCEEEEEEECCCCEEEECHHHHHHHHHH
NLARVFEALLTAVKNGDIPMEQIDQSVERILQLKIDRGIIDHTGSEPLQKKIKYALKTVG
HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCC
SSKHMKYEKKMARDSATILKNDKSTLPFKPKKGDTVLILAPYEEQTAAIAKTISKIRKNI
CCHHHHHHHHHHHCCHHHEECCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHCC
KVVEYRFAEKTFEEEIQKKIDEADYVITGSYVIKNDPVVNDGVIDDSIQDSSKWATAFPR
EEEEHHHHHHHHHHHHHHHHCCCCEEEECCEEEECCCCCCCCCCCCCCCCCCHHHHHHHH
AAMKYAQANGKKFVLMSLRNPYDTANFEEAEAVIAVYGFKGYANGRFRQPNIPAGVEAIF
HHHHHHHCCCCEEEEEEECCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHH
GKAKPKGTLPVDIPSVTRPGETLYPYGYGLNIKNGKPLHKGGS
CCCCCCCCCCCCCCCCCCCCCEECCCCEEEECCCCCCCCCCCC
>Mature Secondary Structure
MKRFLQCALIALLLSSLALQPAAREAEAKQRPEQNIKQMVSSMSLEEKIGQMLMPDFRNW
CHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHHHHCCHHHHHHHHHCHHHHHH
KKKGESSAKGLTEMNDEVAGIIEKYRLGGVILFAENVTGTEQTVRLTDGLQQASPDIPLF
HHCCCCHHCCHHHHHHHHHHHHHHHHCCEEEEEECCCCCCCCEEEHHHCHHHCCCCCCEE
ITIDQEGGIVTRLESGTNLAGNMAVGASRSSKNAFRSGKIIGKELSSLGINVNFSPVLDV
EEEECCCCEEEEECCCCCCCCCEEECCCCCCCHHHHCCCHHHHHHHHCCCCCCCCEEEEC
NNNPDNPVIGVRSFSSKPELTSKLGIQMMKGLQDEQMIATAKHFPGHGDTAVDSHYGLPL
CCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCC
VPHNEKRLRSVELAPFQKAIDAGIDMIMTAHVQFPAFDDTTYKSKKDGEDIMVPATLSKK
CCCCHHHHHCCCCHHHHHHHHHCHHEEEEEEEECCCCCCCCCCCCCCCCCEEEEHHHHHH
VMTDLLRKDLSFKGVVVTDALNMKAISDNFGQEEAVVMAVKAGVDIALMPAQVTSLETEK
HHHHHHHHCCCCCCEEEECCCCCEECCCCCCCCCEEEEEEECCCCEEEECHHHHHHHHHH
NLARVFEALLTAVKNGDIPMEQIDQSVERILQLKIDRGIIDHTGSEPLQKKIKYALKTVG
HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCC
SSKHMKYEKKMARDSATILKNDKSTLPFKPKKGDTVLILAPYEEQTAAIAKTISKIRKNI
CCHHHHHHHHHHHCCHHHEECCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHCC
KVVEYRFAEKTFEEEIQKKIDEADYVITGSYVIKNDPVVNDGVIDDSIQDSSKWATAFPR
EEEEHHHHHHHHHHHHHHHHCCCCEEEECCEEEECCCCCCCCCCCCCCCCCCHHHHHHHH
AAMKYAQANGKKFVLMSLRNPYDTANFEEAEAVIAVYGFKGYANGRFRQPNIPAGVEAIF
HHHHHHHCCCCEEEEEEECCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHH
GKAKPKGTLPVDIPSVTRPGETLYPYGYGLNIKNGKPLHKGGS
CCCCCCCCCCCCCCCCCCCCCEECCCCEEEECCCCCCCCCCCC

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: NA

Inhibitor: NA

Structure determination priority: 6.0

TargetDB status: NA

Availability: NA

References: 8011666; 9274029; 9384377 [H]