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CAZyme Information: MGYG000002467_01966

You are here: Home > Sequence: MGYG000002467_01966

Basic Information | Genomic context | Full Sequence | Enzyme annotations |  CAZy signature domains |  CDD domains | CAZyme hits | PDB hits | Swiss-Prot hits | SignalP and Lipop annotations | TMHMM annotations

Basic Information help

Species Yersinia frederiksenii_C
Lineage Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Yersinia; Yersinia frederiksenii_C
CAZyme ID MGYG000002467_01966
CAZy Family CE4
CAZyme Description Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase
CAZyme Property
Protein Length CGC Molecular Weight Isoelectric Point
674 MGYG000002467_3|CGC4 76918.82 5.9749
Genome Property
Genome Assembly ID Genome Size Genome Type Country Continent
MGYG000002467 4928795 Isolate Finland Europe
Gene Location Start: 283900;  End: 285924  Strand: +

Full Sequence      Download help

Enzyme Prediction      help

No EC number prediction in MGYG000002467_01966.

CAZyme Signature Domains help

Family Start End Evalue family coverage
GH153 315 665 1.7e-168 0.9914040114613181
CE4 104 272 4.2e-28 0.9230769230769231

CDD Domains      download full data without filtering help

Cdd ID Domain E-Value qStart qEnd sStart sEnd Domain Description
PRK14582 pgaB 0.0 1 673 1 671
poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB.
pfam14883 GHL13 0.0 319 646 1 325
Hypothetical glycosyl hydrolase family 13. GHL13 is a family of hypothetical glycoside hydrolases.
TIGR03938 deacetyl_PgaB 0.0 48 667 1 619
poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB. Two well-characterized systems produce polysaccharide based on N-acetyl-D-glucosamine in straight chains with beta-1,6 linkages. These are encoded by the icaADBC operon in Staphylococcus species, where the system is designated polysaccharide intercellular adhesin (PIA), and the pgaABCD operon in Gram-negative bacteria such as E. coli. Both systems include a putative polysaccharide deacetylase. The PgaB protein, described here, contains an additional domain lacking from its Gram-positive counterpart IcaB (TIGR03933). Deacetylation by this protein appears necessary to allow export through the porin PgaA [Cell envelope, Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides]
PRK14581 hmsF 0.0 1 673 1 672
outer membrane N-deacetylase; Provisional
cd10964 CE4_PgaB_5s 1.11e-103 105 296 1 193
N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins. This family is represented by an outer membrane lipoprotein, poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase (PgaB, EC 3.5.1.-), encoded by Escherichia coli pgaB gene from the pgaABCD (formerly ycdSRQP) operon, which affects biofilm development by promoting abiotic surface binding and intercellular adhesion. PgaB catalyzes the N-deacetylation of poly-beta-1,6-N-acetyl-D-glucosamine (PGA), a biofilm adhesin polysaccharide that stabilizes biofilms of E. coli and other bacteria. PgaB contains an N-terminal NodB homology domain with a 5-stranded beta/alpha barrel, and a C-terminal carbohydrate binding domain required for PGA N-deacetylation, which may be involved in binding to unmodified poly-beta-1,6-GlcNAc and assisting catalysis by the deacetylase domain. This family also includes several orthologs of PgaB, such as the hemin storage system HmsF protein, encoded by Yersinia pestis hmsF gene from the hmsHFRS operon, which is essential for Y. pestis biofilm formation. Like PgaB, HmsF is an outer membrane protein with an N-terminal NodB homology domain, which is likely involved in the modification of the exopolysaccharide (EPS) component of the biofilm. HmsF also has a conserved but uncharacterized C-terminal domain that is present in other HmsF-like proteins in Gram-negative bacteria. This alignment model corresponds to the N-terminal NodB homology domain.

CAZyme Hits      help

Hit ID E-Value Query Start Query End Hit Start Hit End
AJJ25033.1 0.0 1 674 1 674
VTP74465.1 0.0 1 674 1 674
ARB85323.1 0.0 1 674 1 674
VDZ55621.1 0.0 1 674 1 674
QGR66136.1 0.0 1 674 1 674

PDB Hits      download full data without filtering help

Hit ID E-Value Query Start Query End Hit Start Hit End Description
4F9D_A 3.91e-243 43 655 5 617
Structureof Escherichia coli PgaB 42-655 in complex with nickel [Escherichia coli K-12],4F9D_B Structure of Escherichia coli PgaB 42-655 in complex with nickel [Escherichia coli K-12]
4F9J_A 2.24e-237 43 655 5 617
Structureof Escherichia coli PgaB 42-655 in complex with iron [Escherichia coli K-12],4F9J_B Structure of Escherichia coli PgaB 42-655 in complex with iron [Escherichia coli K-12]
4P7L_A 7.45e-141 311 673 5 367
Structureof Escherichia coli PgaB C-terminal domain, P212121 crystal form [Escherichia coli K-12],4P7N_A Structure of Escherichia coli PgaB C-terminal domain in complex with glucosamine [Escherichia coli K-12],4P7O_A Structure of Escherichia coli PgaB C-terminal domain, P1 crystal form [Escherichia coli K-12],4P7O_B Structure of Escherichia coli PgaB C-terminal domain, P1 crystal form [Escherichia coli K-12],4P7Q_A Structure of Escherichia coli PgaB C-terminal domain in complex with N-acetylglucosamine [Escherichia coli K-12],4P7R_A Structure of Escherichia coli PgaB C-terminal domain in complex with a poly-beta-1,6-N-acetyl-D-glucosamine (PNAG) hexamer [Escherichia coli K-12]
6AU1_A 1.54e-106 314 665 6 354
Structureof the PgaB (BpsB) glycoside hydrolase domain from Bordetella bronchiseptica [Bordetella bronchiseptica RB50],6AU1_B Structure of the PgaB (BpsB) glycoside hydrolase domain from Bordetella bronchiseptica [Bordetella bronchiseptica RB50]
3VUS_A 2.80e-94 43 310 1 268
Escherichiacoli PgaB N-terminal domain [Escherichia coli K-12],3VUS_B Escherichia coli PgaB N-terminal domain [Escherichia coli K-12]

Swiss-Prot Hits      download full data without filtering help

Hit ID E-Value Query Start Query End Hit Start Hit End Description
P75906 3.06e-253 16 673 15 672
Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase OS=Escherichia coli (strain K12) OX=83333 GN=pgaB PE=1 SV=1
Q8XAR3 4.34e-253 16 673 15 672
Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase OS=Escherichia coli O157:H7 OX=83334 GN=pgaB PE=3 SV=1
P31666 8.41e-12 48 278 168 374
Uncharacterized protein YadE OS=Escherichia coli (strain K12) OX=83333 GN=yadE PE=3 SV=2
P94361 1.86e-09 52 278 67 246
Putative polysaccharide deacetylase YxkH OS=Bacillus subtilis (strain 168) OX=224308 GN=yxkH PE=3 SV=1

SignalP and Lipop Annotations help

This protein is predicted as SP

Other SP_Sec_SPI LIPO_Sec_SPII TAT_Tat_SPI TATLIP_Sec_SPII PILIN_Sec_SPIII
0.002939 0.674755 0.321361 0.000366 0.000291 0.000263

TMHMM  Annotations      download full data without filtering help

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