dbCAN-seq: a database of CAZyme sequence and annotation

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CAZyme Information: MGYG000002335_01827

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Basic Information help

Species

Yersinia enterocolitica

Lineage

Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Yersinia; Yersinia enterocolitica

CAZyme ID

MGYG000002335_01827

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	MGYG000002335_1\|CGC16	76734.6	6.0177

Genome Property

Genome Assembly ID	Genome Size	Genome Type	Country	Continent
MGYG000002335	4527941	Isolate	not provided	not provided

Gene Location

Start: 1997196; End: 1999220 Strand: +

Full Sequence Download help

Enzyme Prediction help

No EC number prediction in MGYG000002335_01827.

CAZyme Signature Domains help

Family	Start	End	Evalue	family coverage
GH153	315	665	1.6e-168	0.9914040114613181
CE4	104	273	5e-26	0.9307692307692308

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	9.61e-100	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	Query Start	Query End	Hit Start	Hit End
AJJ27693.1	1	674	1	674
QBP98561.1	1	674	1	674
ALG78939.1	1	674	1	674
VEB03550.1	1	674	1	674
VEF80506.1	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	3.40e-239	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	5.52e-233	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	1.19e-139	308	673	2	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	5.24e-104	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	9.37e-92	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	3.28e-250	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	4.65e-250	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	1.04e-09	48	308	168	405	Uncharacterized protein YadE OS=Escherichia coli (strain K12) OX=83333 GN=yadE PE=3 SV=2
P94361	1.50e-07	52	310	67	279	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
0.002676	0.611568	0.384704	0.000452	0.000303	0.000265

TMHMM Annotations download full data without filtering help

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