RegulonDB RegulonDB 11.0: Gene Form
   

pgaB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

pgaA pgaB pgaC pgaD

Gene      
Name: pgaB    Texpresso search in the literature
Synonym(s): ECK1013, G6530, b1023, hmsF, ycdR
Genome position(nucleotides): 1087839 <-- 1089857
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 44.43
External database links:  
ASAP:
 ABE-0003467
ECHOBASE:
 EB3624
ECOLIHUB:
 pgaB
OU-MICROARRAY:
 b1023
STRING:
 511145.b1023
COLOMBOS: pgaB


Product      
Name: poly-β-1,6-N-acetyl-D-glucosamine N-deacetylase and β-1,6 glycoside hydrolase
Synonym(s): HmsF, PgaB, YcdR
Sequence: Get amino acid sequence Fasta Format
Cellular location: periplasmic space,outer membrane
Molecular weight: 77.413
Isoelectric point: 6.109
Motif(s):
 
Type Positions Sequence Comment
1 -> 20 MLRNGNKYLLMLVSIIMLTA
21 -> 672 CISQSRTSFIPPQDRESLLAEQPWPHNGFVAISWHNVEDEAADQRFMSVRTSALREQFAWLRENGYQPVSIAQIREAHRGGKPLPEKAVVLTFDDGYQSFYTRVFPILQAFQWPAVWAPVGSWVDTPADKQVKFGDELVDREYFATWQQVREVARSRLVELASHTWNSHYGIQANATGSLLPVYVNRAYFTDHARYETAAEYRERIRLDAVKMTEYLRTKVEVNPHVFVWPYGEANGIAIEELKKLGYDMFFTLESGLANASQLDSIPRVLIANNPSLKEFAQQIITVQEKSPQRIMHIDLDYVYDENLQQMDRNIDVLIQRVKDMQISTVYLQAFADPDGDGLVKEVWFPNRLLPMKADIFSRVAWQLRTRSGVNIYAWMPVLSWDLDPTLTRVKYLPTGEKKAQIHPEQYHRLSPFDDRVRAQVGMLYEDLAGHAAFDGILFHDDALLSDYEDASAPAITAYQQAGFSGSLSEIRQNPEQFKQWARFKSRALTDFTLELSARVKAIRGPHIKTARNIFALPVIQPESEAWFAQNYADFLKSYDWTAIMAMPYLEGVAEKSADQWLIQLTNQIKNIPQAKDKSILELQAQNWQKNGQHQAISSQQLAHWMSLLQLNGVKNYGYYPDNFLHNQPEIDLIRPEFSTAWYPKND UniProt: Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase.
55 -> 55 H catalytic acid (deacetylase)
102 -> 270 KPLPEKAVVLTFDDGYQSFYTRVFPILQAFQWPAVWAPVGSWVDTPADKQVKFGDELVDREYFATWQQVREVARSRLVELASHTWNSHYGIQANATGSLLPVYVNRAYFTDHARYETAAEYRERIRLDAVKMTEYLRTKVEVNPHVFVWPYGEANGIAIEELKKLGYDM
107 -> 349 KAVVLTFDDGYQSFYTRVFPILQAFQWPAVWAPVGSWVDTPADKQVKFGDELVDREYFATWQQVREVARSRLVELASHTWNSHYGIQANATGSLLPVYVNRAYFTDHARYETAAEYRERIRLDAVKMTEYLRTKVEVNPHVFVWPYGEANGIAIEELKKLGYDMFFTLESGLANASQLDSIPRVLIANNPSLKEFAQQIITVQEKSPQRIMHIDLDYVYDENLQQMDRNIDVLIQRVKDMQIS UniProt: NodB homology.

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.6 - biosynthesis of macromolecules (cellular constituents)
Gene Ontology Terms (GO)  
cellular_component GO:0009279 - cell outer membrane
GO:0016020 - membrane
GO:0030288 - outer membrane-bounded periplasmic space
GO:0031246 - intrinsic component of periplasmic side of cell outer membrane
molecular_function GO:0003824 - catalytic activity
GO:0005515 - protein binding
GO:0016787 - hydrolase activity
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
biological_process GO:0005975 - carbohydrate metabolic process
GO:0044010 - single-species biofilm formation
GO:0043708 - cell adhesion involved in biofilm formation
GO:0098732 - macromolecule deacylation
Note(s): Note(s): ...[more].
Reference(s): [1] Agladze K., et al., 2005
[2] Forman A., et al., 2019
[3] Rao S., et al., 2020
External database links:  
ALPHAFOLD:
 P75906
DIP:
 DIP-11513N
ECOCYC:
 G6530-MONOMER
ECOLIWIKI:
 b1023
INTERPRO:
 IPR023854
INTERPRO:
 IPR032772
INTERPRO:
 IPR011330
INTERPRO:
 IPR002509
MODBASE:
 P75906
PDB:
 3VUS
PDB:
 4P7L
PDB:
 4P7N
PDB:
 4P7O
PDB:
 4P7Q
PDB:
 4P7R
PDB:
 4F9J
PDB:
 4F9D
PFAM:
 PF01522
PFAM:
 PF14883
PRIDE:
 P75906
PROSITE:
 PS51677
PROSITE:
 PS51257
REFSEQ:
 NP_415542
SMR:
 P75906
UNIPROT:
 P75906


Operon      
Name: pgaABCD         
Operon arrangement:
Transcription unit        Promoter
pgaABCD


Transcriptional Regulation      
Display Regulation             
Activated by: NhaR
Repressed by: OmpR


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References


Reference(s)    

 [1] Agladze K., Wang X., Romeo T., 2005, Spatial periodicity of Escherichia coli K-12 biofilm microstructure initiates during a reversible, polar attachment phase of development and requires the polysaccharide adhesin PGA., J Bacteriol 187(24):8237-46

 [2] Forman A., Pfoh R., Eddenden A., Howell PL., Nitz M., 2019, Synthesis of defined mono-de-N-acetylated β-(1→6)-N-acetyl-d-glucosamine oligosaccharides to characterize PgaB hydrolase activity., Org Biomol Chem 17(43):9456-9466

 [3] Rao S., Bates GT., Matthews CR., Newport TD., Vickery ON., Stansfeld PJ., 2020, Characterizing Membrane Association and Periplasmic Transfer of Bacterial Lipoproteins through Molecular Dynamics Simulations., Structure 28(4):475-487.e3

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