PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159JSNZLGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 10-JUN-2013

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⊟Summary

• organism: Staphylococcus aureus COL
locus tag: SACOL2691 [new locus tag: SACOL_RS14085 ]
pan locus tag^?: SAUPAN006413000
symbol: icaB
pan gene symbol^?: icaB
• synonym:
• product: intercellular adhesion protein B

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SACOL2691 [new locus tag: SACOL_RS14085 ]
• symbol: icaB
• product: intercellular adhesion protein B
• replicon: chromosome
• strand: +
• coordinates: 2764824..2765702
• length: 879
• essential: unknown other strains

⊟Accession numbers

• Gene ID: 3238687 NCBI
• RefSeq: YP_187478 NCBI
• BioCyc: see SACOL_RS14085
• MicrobesOnline: 914157 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
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  GTGAAGTATAGAAAATTTATAATTTTAGTGTTGAGTATCTTGATCATATTGCCTGTAAGC
  ACACTGGATGGTCATCATATTGCAAATGCAGATGACGATTCACCTAAAAAACTGAAATAT
  AAAGAAAATAGTGCTCTGGCATTAAATTATCACCGTGTAAGAAAAGCGAATTTTCTGAAT
  AATTTTATTTACTTCTTTTCTAGTAGTAAAGAAATTAAAAATTATAGTGTTAGTCAATCA
  CAATTTGAATCTCAAATAAAATGGCTAAAATCACATGATGCTAAATTTTTAACCTTGAAA
  GAATTTTTATATTACAAGAAAAAAGGTAAGTTTCCAAAACGAAGTGTATGGATTAACTTT
  GATGATATGGATGAAACTATTTATGAAAATGCTTATCCAATCTTAAAAAAATATAAAATA
  CCGGCAACTGGGTTTATTATCACAGGTCATGTTGGGGAAGAAAACTTTCACAACCTCGAT
  ATGATTAGTAAAAAAGAACTAAAAGAAATGTATAAAACTGGGTTATGGGAATTTGAAACA
  CATACCCACGATTTGCATAACTTATCTAAAAATAATAAGTCAAAATTAATGAAAGCTTCT
  GAAGCTACAATCATAAAAGATTTAAACAAAAGTGAAAAATATCTAACTAAAAACTTTAAA
  AAGTCGCAGAAAACTATAGCCTATCCTTATGGCTTGATGAATGACGATAAATTACCGGTA
  ATCAAAAAAGCTGGGTTAAAATACGGTTTTTCATTAGAGGAAAAAGCAGTCACTCCGAAC
  TCCAATGATTATTACATCCCTAGAATATTAATTAGTGATGATGCTTTTGAGCATTTAATT
  AAGAGATGGGACGGATTCCATGAAAAAGATGAGACTTGA
  60
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⊟Protein

⊟General

• locus tag: SACOL2691 [new locus tag: SACOL_RS14085 ]
• symbol: IcaB
• description: intercellular adhesion protein B
• length: 292
• theoretical pI: 9.88176
• theoretical MW: 34335.3
• GRAVY: -0.611301

⊟Function

• reaction:
  EC 3.5.1.-?  ExPASy
• ⊞TIGRFAM:
  Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides intercellular adhesin biosynthesis polysaccharide N-deacetylase (TIGR03933; EC 3.5.1.-; HMM-score: 456.6)
  Cellular processes Cellular processes Pathogenesis intercellular adhesin biosynthesis polysaccharide N-deacetylase (TIGR03933; EC 3.5.1.-; HMM-score: 456.6)
  and 3 more
  Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB (TIGR03938; EC 3.5.1.-; HMM-score: 110.5)
  Cellular processes Cellular processes Sporulation and germination polysaccharide deacetylase family sporulation protein PdaB (TIGR02764; HMM-score: 26.4)
  chitooligosaccharide deacetylase NodB (TIGR04243; EC 3.5.1.-; HMM-score: 17.1)
• TheSEED  :
  • Polysaccharide intercellular adhesin (PIA) biosynthesis deacetylase IcaB (EC 3.-.-.-)
  Regulation and Cell signaling Quorum sensing and biofilm formation Biofilm formation in Staphylococcus  Polysaccharide intercellular adhesin (PIA) biosynthesis deacetylase IcaB (EC 3.-.-.-)
• ⊞PFAM:
  GH_CE (CL0158) Polysacc_deac_1; Polysaccharide deacetylase (PF01522; HMM-score: 108.8)
  and 1 more
  Dim_A_B_barrel (CL0032) DUF6974; Domain of unknown function (DUF6974) (PF22388; HMM-score: 12.6)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors:
• effectors:

⊟Localization

• ⊞PSORTb: Extracellular
  • Cytoplasmic Score: 0
  • Cytoplasmic Membrane Score: 0
  • Cellwall Score: 0
  • Extracellular Score: 10
  • Internal Helix: 1
• ⊞DeepLocPro: Extracellular
  • Cytoplasmic Score: 0.0002
  • Cytoplasmic Membrane Score: 0.0116
  • Cell wall & surface Score: 0.0011
  • Extracellular Score: 0.9871
• ⊞LocateP: N-terminally anchored (No CS)
  • Prediction by SwissProt Classification: Membrane
  • Pathway Prediction: Sec-(SPI)
  • Intracellular possibility: 0.17
  • Signal peptide possibility: 0.5
  • N-terminally Anchored Score: 7
  • Predicted Cleavage Site: No CleavageSite
• ⊞SignalP: Signal peptide SP(Sec/SPI) length 30 aa
  • SP(Sec/SPI): 0.983646
  • TAT(Tat/SPI): 0.001645
  • LIPO(Sec/SPII): 0.006414
  • Cleavage Site: CS pos: 30-31. ANA-DD. Pr: 0.9296
• predicted transmembrane helices (TMHMM): 1

⊟Accession numbers

• GI: 57651061 NCBI
• RefSeq: YP_187478 NCBI
• UniProt: Q5HCM9 UniProt

⊟Protein sequence

• MKYRKFIILVLSILIILPVSTLDGHHIANADDDSPKKLKYKENSALALNYHRVRKANFLNNFIYFFSSSKEIKNYSVSQSQFESQIKWLKSHDAKFLTLKEFLYYKKKGKFPKRSVWINFDDMDETIYENAYPILKKYKIPATGFIITGHVGEENFHNLDMISKKELKEMYKTGLWEFETHTHDLHNLSKNNKSKLMKASEATIIKDLNKSEKYLTKNFKKSQKTIAYPYGLMNDDKLPVIKKAGLKYGFSLEEKAVTPNSNDYYIPRILISDDAFEHLIKRWDGFHEKDET

⊟Experimental data

• experimentally validated:
• protein localization:
• quantitative data / protein copy number per cell:
• interaction partners:

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: icaA > icaD > icaB > icaC

⊟Regulation

• ⊞regulators: CodY (repression) regulon, IcaR (repression) regulon

  CodY	(TF)	important in Amino acid metabolism; RegPrecise    transcription unit transferred from N315 data RegPrecise
  IcaR	(TF)	important in Intercellular adhesion; RegPrecise    transcription unit transferred from N315 data RegPrecise

⊟Transcription pattern

• S.aureus Expression Data Browser: data available for NCTC8325

⊟Protein synthesis (provided by Aureolib)

• Aureolib: no data available

⊟Protein stability

• half-life: no data available

⊞Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊞Other Information

You are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications

Ursula Fluckiger, Martina Ulrich, Andrea Steinhuber, Gerd Döring, Dietrich Mack, Regine Landmann, Christiane Goerke, Christiane Wolz
Biofilm formation, icaADBC transcription, and polysaccharide intercellular adhesin synthesis by staphylococci in a device-related infection model.
Infect Immun: 2005, 73(3);1811-9
[PubMed:15731082] [WorldCat.org] [DOI] (P p)C Heilmann, O Schweitzer, C Gerke, N Vanittanakom, D Mack, F Götz
Molecular basis of intercellular adhesion in the biofilm-forming Staphylococcus epidermidis.
Mol Microbiol: 1996, 20(5);1083-91
[PubMed:8809760] [WorldCat.org] [DOI] (P p)