dbCAN-seq: a database of CAZyme sequence and annotation

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CAZyme Information: MGYG000004251_01140

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Basic Information help

Species

Lineage

Bacteria; Proteobacteria; Gammaproteobacteria; Burkholderiales; Burkholderiaceae; Oxalobacter;

CAZyme ID

MGYG000004251_01140

CAZy Family

CE4

CAZyme Description

Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase

CAZyme Property

Protein Length	CGC	Molecular Weight	Isoelectric Point
669		75939.67	6.4117

Genome Property

Genome Assembly ID	Genome Size	Genome Type	Country	Continent
MGYG000004251	1695871	MAG	United Kingdom	Europe

Gene Location

Start: 244; End: 2253 Strand: +

Full Sequence Download help

Enzyme Prediction help

No EC number prediction in MGYG000004251_01140.

CAZyme Signature Domains help

Family	Start	End	Evalue	family coverage
GH153	326	666	4.3e-138	0.9914040114613181
CE4	97	269	1.2e-25	0.9461538461538461

CDD Domains download full data without filtering help

Cdd ID	Domain	E-Value	qStart	qEnd	sStart	sEnd	Domain Description
PRK14582	pgaB	0.0	15	666	7	663	poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB.
PRK14581	hmsF	0.0	41	667	48	670	outer membrane N-deacetylase; Provisional
TIGR03938	deacetyl_PgaB	0.0	41	668	2	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]
pfam14883	GHL13	8.67e-159	330	647	1	325	Hypothetical glycosyl hydrolase family 13. GHL13 is a family of hypothetical glycoside hydrolases.
cd10964	CE4_PgaB_5s	4.53e-102	100	288	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
ARQ78211.1	0.0	1	669	43	711
QDX33244.1	0.0	1	669	1	669
ARQ46010.1	0.0	1	669	1	669
AJF07372.1	7.62e-185	43	668	27	638
CCA83834.1	7.63e-179	15	668	12	679

PDB Hits download full data without filtering help

Hit ID	E-Value	Query Start	Query End	Hit Start	Hit End	Description
4F9D_A	1.14e-140	42	657	12	618	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	1.74e-136	42	657	12	618	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]
6AU1_A	1.04e-98	321	669	2	357	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]
4P7L_A	2.87e-90	326	666	9	359	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]
4U10_A	8.54e-55	45	264	7	225	Probingthe structure and mechanism of de-N-acetylase from aggregatibacter actinomycetemcomitans [Aggregatibacter actinomycetemcomitans],4U10_B Probing the structure and mechanism of de-N-acetylase from aggregatibacter actinomycetemcomitans [Aggregatibacter actinomycetemcomitans]

Swiss-Prot Hits download full data without filtering help

Hit ID	E-Value	Query Start	Query End	Hit Start	Hit End	Description
P75906	3.58e-141	42	666	49	664	Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase OS=Escherichia coli (strain K12) OX=83333 GN=pgaB PE=1 SV=1
Q8XAR3	5.05e-141	42	666	49	664	Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase OS=Escherichia coli O157:H7 OX=83334 GN=pgaB PE=3 SV=1
Q6TYB1	6.65e-14	41	288	43	273	Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase OS=Staphylococcus epidermidis OX=1282 GN=icaB PE=1 SV=2
Q5HKP8	6.65e-14	41	288	43	273	Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase OS=Staphylococcus epidermidis (strain ATCC 35984 / RP62A) OX=176279 GN=icaB PE=3 SV=1
Q7A349	7.70e-12	48	288	60	274	Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase OS=Staphylococcus aureus (strain N315) OX=158879 GN=icaB 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
0.000346	0.999034	0.000157	0.000167	0.000141	0.000130

TMHMM Annotations download full data without filtering help

start	end
17	36