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Conserved domains on  [gi|1449540638|ref|WP_115861998|]
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MULTISPECIES: polysaccharide deacetylase family protein [unclassified Haloferax]

Protein Classification

polysaccharide deacetylase family protein( domain architecture ID 10181076)

polysaccharide deacetylase family protein belonging to the carbohydrate esterase 4 (CE4) superfamily, may catalyze the N- or O-deacetylation of substrates such as acetylated chitin, peptidoglycan, and acetylated xylan

CATH:  3.20.20.370
CAZY:  CE4
EC:  3.-.-.-
Gene Ontology:  GO:0005975|GO:0046872|GO:0016787
PubMed:  12644381
SCOP:  3001025

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CE4_DAC_u1_6s cd10970
Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide ...
 208-396 2.81e-72

Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 6-stranded beta/alpha barrel; This family contains uncharacterized prokaryotic polysaccharide deacetylases. Although their biological functions remain unknown, all members of the family contain a conserved domain with a 6-stranded beta/alpha barrel, which is similar to the catalytic NodB homology domain of rhizobial NodB-like proteins, belonging to the larger carbohydrate esterase 4 (CE4) superfamily.


:

Pssm-ID: 213027 [Multi-domain]  Cd Length: 194  Bit Score: 225.27  E-value: 2.81e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 208 GKVMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHRIPRDGMDEMVDAGWDMVSHPQRSDSFRDLSPVDQRAS 287
Cdd:cd10970     1 GKVSLTFDDGYESQYTTAFPILQEYGIPATAAVIPDSIGSSGRLTLDQLRELQDAGWEIASHTLTHTDLTELSADEQRAE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 288 IRESKAWLVENGFERGADFIIWPYGRYDESALDAASDYHYLGFVTVGGPTGAIS-DPQIVGRTDGDDVKK---AKQALDF 363
Cdd:cd10970    81 LTESKRWLEDNGFGDGADHFAYPYGRYDDEVLELVREYYDLGRSGGGGPNGRPPlDPYRLRRVTGEADTTteeVKTLLDR 160

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1449540638 364 AAQYDQLAVLMYHDVTGK-GRSVSPAAFAETMDY 396
Cdd:cd10970   161 AAAYNQWLILMFHDVGEEdGDDYSVARFEETLDY 194
 
Name Accession Description Interval E-value
CE4_DAC_u1_6s cd10970
Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide ...
 208-396 2.81e-72

Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 6-stranded beta/alpha barrel; This family contains uncharacterized prokaryotic polysaccharide deacetylases. Although their biological functions remain unknown, all members of the family contain a conserved domain with a 6-stranded beta/alpha barrel, which is similar to the catalytic NodB homology domain of rhizobial NodB-like proteins, belonging to the larger carbohydrate esterase 4 (CE4) superfamily.


Pssm-ID: 213027 [Multi-domain]  Cd Length: 194  Bit Score: 225.27  E-value: 2.81e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 208 GKVMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHRIPRDGMDEMVDAGWDMVSHPQRSDSFRDLSPVDQRAS 287
Cdd:cd10970     1 GKVSLTFDDGYESQYTTAFPILQEYGIPATAAVIPDSIGSSGRLTLDQLRELQDAGWEIASHTLTHTDLTELSADEQRAE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 288 IRESKAWLVENGFERGADFIIWPYGRYDESALDAASDYHYLGFVTVGGPTGAIS-DPQIVGRTDGDDVKK---AKQALDF 363
Cdd:cd10970    81 LTESKRWLEDNGFGDGADHFAYPYGRYDDEVLELVREYYDLGRSGGGGPNGRPPlDPYRLRRVTGEADTTteeVKTLLDR 160

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1449540638 364 AAQYDQLAVLMYHDVTGK-GRSVSPAAFAETMDY 396
Cdd:cd10970   161 AAAYNQWLILMFHDVGEEdGDDYSVARFEETLDY 194
CDA1 COG0726
Peptidoglycan/xylan/chitin deacetylase, PgdA/NodB/CDA1 family [Carbohydrate transport and ...
 191-332 9.61e-17

Peptidoglycan/xylan/chitin deacetylase, PgdA/NodB/CDA1 family [Carbohydrate transport and metabolism, Cell wall/membrane/envelope biogenesis];


Pssm-ID: 440490 [Multi-domain]  Cd Length: 195  Bit Score: 78.16  E-value: 9.61e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 191 TARFYVDSLRAKPRaDAGKVMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHRIprdgMDEMVDAGWDMVSHP 270
Cdd:COG0726     4 SLDELLPALRWGPL-PKKAVALTFDDGPREGTPRLLDLLKKYGVKATFFVVGSAVERHPEL----VREIAAAGHEIGNHT 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1449540638 271 QRSDSFRDLSPVDQRASIRESKAWLVENgFERGADFIIWPYGRYDESALDAASDYHYLGFVT 332
Cdd:COG0726    79 YTHPDLTKLSEEEERAEIARAKEALEEL-TGKRPRGFRPPYGRYSPETLDLLAELGYRYILW 139
Polysacc_deac_1 pfam01522
Polysaccharide deacetylase; This domain is found in polysaccharide deacetylase. This family of ...
 202-333 7.67e-12

Polysaccharide deacetylase; This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase. It also includes chitin deacetylase from yeast, and endoxylanases which hydrolyses glucosidic bonds in xylan.


Pssm-ID: 426305 [Multi-domain]  Cd Length: 124  Bit Score: 62.25  E-value: 7.67e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 202 KPRADAGKVMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSShripRDGMDEMVDAGWDMVSHPQRSDSFRDLSP 281
Cdd:pfam01522   1 KGPTPKKVVALTFDDGPSENTPAILDVLKKYGVKATFFVIGGNVERY----PDLVKRMVEAGHEIGNHTWSHPNLTGLSP 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1449540638 282 VDQRASIRESKAWLVENgFERGADFIIWPYGRYDESALDAASDyhyLGFVTV 333
Cdd:pfam01522  77 EEIRKEIERAQDALEKA-TGKRPRLFRPPYGSYNDTVLEVAKK---LGYTAV 124
 
Name Accession Description Interval E-value
CE4_DAC_u1_6s cd10970
Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide ...
 208-396 2.81e-72

Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 6-stranded beta/alpha barrel; This family contains uncharacterized prokaryotic polysaccharide deacetylases. Although their biological functions remain unknown, all members of the family contain a conserved domain with a 6-stranded beta/alpha barrel, which is similar to the catalytic NodB homology domain of rhizobial NodB-like proteins, belonging to the larger carbohydrate esterase 4 (CE4) superfamily.


Pssm-ID: 213027 [Multi-domain]  Cd Length: 194  Bit Score: 225.27  E-value: 2.81e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 208 GKVMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHRIPRDGMDEMVDAGWDMVSHPQRSDSFRDLSPVDQRAS 287
Cdd:cd10970     1 GKVSLTFDDGYESQYTTAFPILQEYGIPATAAVIPDSIGSSGRLTLDQLRELQDAGWEIASHTLTHTDLTELSADEQRAE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 288 IRESKAWLVENGFERGADFIIWPYGRYDESALDAASDYHYLGFVTVGGPTGAIS-DPQIVGRTDGDDVKK---AKQALDF 363
Cdd:cd10970    81 LTESKRWLEDNGFGDGADHFAYPYGRYDDEVLELVREYYDLGRSGGGGPNGRPPlDPYRLRRVTGEADTTteeVKTLLDR 160

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1449540638 364 AAQYDQLAVLMYHDVTGK-GRSVSPAAFAETMDY 396
Cdd:cd10970   161 AAAYNQWLILMFHDVGEEdGDDYSVARFEETLDY 194
CE4_NodB_like_5s_6s cd10918
Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a ...
 210-348 5.25e-25

Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; This family belongs to the large and functionally diverse carbohydrate esterase 4 (CE4) superfamily, whose members show strong sequence similarity with some variability due to their distinct carbohydrate substrates. It includes bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, hemin storage system HmsF protein in gram-negative species, intercellular adhesion proteins IcaB, and many uncharacterized prokaryotic polysaccharide deacetylases. It also includes a putative polysaccharide deacetylase YxkH encoded by the Bacillus subtilis yxkH gene, which is one of six polysaccharide deacetylase gene homologs present in the Bacillus subtilis genome. Sequence comparison shows all family members contain a conserved domain similar to the catalytic NodB homology domain of rhizobial NodB-like proteins, which consists of a deformed (beta/alpha)8 barrel fold with 6 or 7 strands. However, in this family, most proteins have 5 strands and some have 6 strands. Moreover, long insertions are found in many family members, whose function remains unknown.


Pssm-ID: 213023 [Multi-domain]  Cd Length: 157  Bit Score: 99.98  E-value: 5.25e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 210 VMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHRIPRDG------MD-----EMVDAGWDMVSHPQRSDSFRD 278
Cdd:cd10918     2 VVLTFDDGYRDNYTYALPILKKYGLPATFFVITGYIGGGNPWWAPApprppyLTwdqlrELAASGVEIGSHTHTHPDLTT 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1449540638 279 LSPVDQRASIRESKAWLvENGFERGADFIIWPYGRYDESALDAASDYHY-LGFVTVGGPTGAISDPQIVGR 348
Cdd:cd10918    82 LSDEELRRELAESKERL-EEELGKPVRSFAYPYGRYNPRVIAALKEAGYkAAFTTDPGLNSPGDDPYALPR 151
CDA1 COG0726
Peptidoglycan/xylan/chitin deacetylase, PgdA/NodB/CDA1 family [Carbohydrate transport and ...
 191-332 9.61e-17

Peptidoglycan/xylan/chitin deacetylase, PgdA/NodB/CDA1 family [Carbohydrate transport and metabolism, Cell wall/membrane/envelope biogenesis];


Pssm-ID: 440490 [Multi-domain]  Cd Length: 195  Bit Score: 78.16  E-value: 9.61e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 191 TARFYVDSLRAKPRaDAGKVMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHRIprdgMDEMVDAGWDMVSHP 270
Cdd:COG0726     4 SLDELLPALRWGPL-PKKAVALTFDDGPREGTPRLLDLLKKYGVKATFFVVGSAVERHPEL----VREIAAAGHEIGNHT 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1449540638 271 QRSDSFRDLSPVDQRASIRESKAWLVENgFERGADFIIWPYGRYDESALDAASDYHYLGFVT 332
Cdd:COG0726    79 YTHPDLTKLSEEEERAEIARAKEALEEL-TGKRPRGFRPPYGRYSPETLDLLAELGYRYILW 139
CE4_GLA_like_6s cd10967
Putative catalytic NodB homology domain of gellan lyase and similar proteins; This family is ...
 208-399 1.15e-13

Putative catalytic NodB homology domain of gellan lyase and similar proteins; This family is represented by the extracellular polysaccharide-degrading enzyme, gellan lyase (gellanase, EC 4.2.2.-), from Bacillus sp. The enzyme acts on gellan exolytically and releases a tetrasaccharide of glucuronyl-glucosyl-rhamnosyl-glucose with unsaturated glucuronic acid at the nonreducing terminus. The family also includes many uncharacterized prokaryotic polysaccharide deacetylases, which show high sequence similarity to Bacillus sp. gellan lyase. Although their biological functions remain unknown, all members of the family contain a conserved domain with a 6-stranded beta/alpha barrel, which is similar to the catalytic NodB homology domain of rhizobial NodB-like proteins, belonging to the larger carbohydrate esterase 4 (CE4) superfamily.


Pssm-ID: 200589 [Multi-domain]  Cd Length: 202  Bit Score: 69.33  E-value: 1.15e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 208 GKVMITFDDNTRSQYDTAyPILESHGFPGVVGVIPWTVGSSHRIPRDGMDEMVDAGWDM----VSHPqrsdSFRDLSPVD 283
Cdd:cd10967     1 LAVSLTFDDGYAQDLRAA-PLLAKYGLKGTFFVNSGLLGRRGYLDLEELRELAAAGHEIgshtVTHP----DLTSLPPAE 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 284 QRASIRESKAWLVENGFERGADFiIWPYGRYDESALDAASDYH-YL----GFVTVGGPTGAISDPQ-----IVGRTDGDD 353
Cdd:cd10967    76 LRREIAESRAALEEIGGFPVTSF-AYPFGSTNPSIVPLLARGFiAArgvgGGGNPPNPSDPPADPAdchnaDSLALGGPE 154

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1449540638 354 VKKAKQALDFAAQYDQLAVLMYHDVTGKGR--SVSPAAFAETMDYVDE 399
Cdd:cd10967   155 LLLAPDLLDAAKKNGGWLVLWGHSVEGDGTkySVSWEALEALLAYLAE 202
Polysacc_deac_1 pfam01522
Polysaccharide deacetylase; This domain is found in polysaccharide deacetylase. This family of ...
 202-333 7.67e-12

Polysaccharide deacetylase; This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase. It also includes chitin deacetylase from yeast, and endoxylanases which hydrolyses glucosidic bonds in xylan.


Pssm-ID: 426305 [Multi-domain]  Cd Length: 124  Bit Score: 62.25  E-value: 7.67e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 202 KPRADAGKVMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSShripRDGMDEMVDAGWDMVSHPQRSDSFRDLSP 281
Cdd:pfam01522   1 KGPTPKKVVALTFDDGPSENTPAILDVLKKYGVKATFFVIGGNVERY----PDLVKRMVEAGHEIGNHTWSHPNLTGLSP 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1449540638 282 VDQRASIRESKAWLVENgFERGADFIIWPYGRYDESALDAASDyhyLGFVTV 333
Cdd:pfam01522  77 EEIRKEIERAQDALEKA-TGKRPRLFRPPYGSYNDTVLEVAKK---LGYTAV 124
CE4_yadE_5s cd10966
Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and ...
 210-334 2.15e-11

Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; This family contains an uncharacterized protein yadE from Escherichia coli and its bacterial homologs. Although its molecular function remains unknown, yadE shows high sequence similarity with the catalytic NodB homology domain of outer membrane lipoprotein PgaB and the surface-attached protein intercellular adhesion protein IcaB. Both PgaB and IcaB are essential in bacterial biofilm formation.


Pssm-ID: 213024 [Multi-domain]  Cd Length: 164  Bit Score: 61.91  E-value: 2.15e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 210 VMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHRIPR-------DGMDEMVDaGWDMVSHP--------QRSD 274
Cdd:cd10966     5 VVITFDDGYKSNYEYAYPILKKYGFKATIFVIGSRIGEKPQDPKilqylsiEELKEMRD-VFEFQSHTynmhrgggTGGH 83

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1449540638 275 SFRDLSPVDQRASIRESKAWLvengfeRGADFIIWPYGRYDESALDAASDYHYL-------GFVTVG 334
Cdd:cd10966    84 GLLALSEEEILADLKKSEEIL------GSSKAFAYPYGDYNDNAIEALKEAGVKlafttneGKVTPG 144
CE4_Ecf1_like_5s cd10969
Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli ...
 210-356 2.68e-11

Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; This family contains a hypothetical protein Ecf1 from Escherichia coli and its prokaryotic homologs. Although their biochemical properties remain to be determined, members in this family contain a conserved domain with a 5-stranded beta/alpha barrel, which is similar to the catalytic NodB homology domain of rhizobial NodB-like proteins, belonging to the larger carbohydrate esterase 4 (CE4) superfamily.


Pssm-ID: 213026 [Multi-domain]  Cd Length: 218  Bit Score: 62.69  E-value: 2.68e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 210 VMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHRIPRDGMD-----------------------------EMV 260
Cdd:cd10969    39 VLITFDDGYLDNYVYAYPILKKYGLKATIFVVTGFIDEASGVRPTLFDywsgdmpeankifflkgrdevflsweelrEME 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 261 DAG-WDMVSHpqrSDSFRDLspvdqRASIRESKAWLVEN-GFErgADFIIWPYGRYDESALDAASDYHYLGFVTVG-GPT 337
Cdd:cd10969   119 DSGvFDIQSH---SHSHTRV-----EYELEESKRLLEENlGKK--VDHFCWPWGHYSPESLRIAKELGFKFFFTTKkGVN 188

                         170       180
                  ....*....|....*....|
gi 1449540638 338 GAISDPQIVGR-TDGDDVKK 356
Cdd:cd10969   189 VPGEDPDRIKRiTVKKDGGF 208
CE4_DAC_u4_5s cd10973
Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide ...
 210-348 7.72e-11

Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; This family contains many uncharacterized bacterial polysaccharide deacetylases. Although their biological functions remain unknown, all members of the family are predicted to contain a conserved domain with a 5-stranded beta/alpha barrel, which is similar to the catalytic NodB homology domain of rhizobial NodB-like proteins, belonging to the larger carbohydrate esterase 4 (CE4) superfamily.


Pssm-ID: 213028 [Multi-domain]  Cd Length: 157  Bit Score: 59.98  E-value: 7.72e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 210 VMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTV--GSSHRIPRDGMDEMVDAGWDMVSHpqrsdSFRDLSPVDQRAS 287
Cdd:cd10973     3 VVITIDDGYKSVYTNAFPILKKYGYPFTLFVYTEAIgrGYPDYLSWDQIREMAKYGVEIANH-----SYSHPHLVRLGEK 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1449540638 288 IRESKAWLVENGFERGADFII-----------WPYGRYDESALDAASDYHYLGFVTV-GGPTGAISDPQIVGR 348
Cdd:cd10973    78 MQEQWLEWIRQDIEKSQQRFEkelgkkpklfaYPYGEYNPAIIKLVKEAGFEAAFQQsGGVVSAGTDLTALPR 150
CE4_PgaB_5s cd10964
N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1, ...
 210-348 6.77e-07

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.


Pssm-ID: 200586 [Multi-domain]  Cd Length: 193  Bit Score: 49.26  E-value: 6.77e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 210 VMITFDDNTRSQYDTAYPILESHGFPGVVGVI-PWTVGSSHR--------IPRD------GMDEMVDAGW-DMVSH---- 269
Cdd:cd10964     6 VLLTFDDGYQSFYTRVYPLLKAYKYPAVLALVgSWLETPAGKkvdyggeqLPRDrflsweQIREMQASGLvEIASHshdl 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 270 -------PQRSD----SFRDLSPVDQRASIRESKAWLVENGFERGADFI-----------IWPYGRYDESALDAASDYHY 327
Cdd:cd10964    86 hhgipanPQGNLlpaaTTRQYDPKTGRYETDAEYRQRIRNDLKKSSALIkkhtgraprvmVWPYGAYNGTLIEEAAKLGM 165

                         170       180
                  ....*....|....*....|..
gi 1449540638 328 -LGFVTVGGPTGAISDPQIVGR 348
Cdd:cd10964   166 qLTFTLEDGANNADQSLSSIPR 187
CE4_IcaB_5s cd10965
Putative catalytic polysaccharide deacetylase domain of bacterial intercellular adhesion ...
 210-321 8.43e-06

Putative catalytic polysaccharide deacetylase domain of bacterial intercellular adhesion protein IcaB and similar proteins; The family is represented by the surface-attached protein intercellular adhesion protein IcaB (Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase, EC 3.5.1.-), encoded by Staphylococcus epidermidis icaB gene from the icaABC gene cluster that is involved in the synthesis of polysaccharide intercellular adhesin (PIA), which is located mainly on the cell surface. IcaB is a secreted, cell wall-associated protein that plays a crucial role in exopolysaccharide modification in bacterial biofilm formation. It catalyzes the N-deacetylation of poly-beta-1,6-N-acetyl-D-glucosamine (PNAG, also referred to as PIA), a biofilm adhesin polysaccharide. IcaB shows high homology to the N-terminal NodB homology domain of Escherichia coli PgaB. At this point, they are classified in the same family.


Pssm-ID: 200587 [Multi-domain]  Cd Length: 172  Bit Score: 45.84  E-value: 8.43e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 210 VMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSShripRDG--------MDEMVDAG-WDMVSHPQRSDSFRDLS 280
Cdd:cd10965     5 VVITFDDVDQTVYDNAFPILKKLKIPFTQFVITGQVGST----NFGlnlatwsqIKEMVASGlVTFGLHTNDLHYLVKDK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1449540638 281 PV------DQRAS--IRESKAWLVENgFERGADFIIWPYGRYDESALDA 321
Cdd:cd10965    81 KKlftpasYSRFAedYAKSQKCLKEK-LGKKTRYFAYPYGEGNKDTQKI 128
CE4_Mlr8448_like_5s cd10968
Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its ...
 210-332 6.24e-04

Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; This family contains Mesorhizobium loti Mlr8448 protein and its bacterial homologs. Although their biochemical properties are yet to be determined, members in this subfamily contain a conserved domain with a 5-stranded beta/alpha barrel, which is similar to the catalytic NodB homology domain of rhizobial NodB-like proteins, belonging to the larger carbohydrate esterase 4 (CE4) superfamily.


Pssm-ID: 213025 [Multi-domain]  Cd Length: 161  Bit Score: 40.31  E-value: 6.24e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1449540638 210 VMITFDDNTRSQYDTAYPILESHGFPGVVGVIPWTVGSSHR-------------IPRDGMDEMVDAGWDMVSHPqrsdSF 276
Cdd:cd10968     3 AVLTFDDGYRDNLEFALPVFERHGVPFTIYVTTGFPDGTGElwwltlecldwdeLRRLAADPLVTIGAHTITHP----NL 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1449540638 277 RDLSPVDQRASIRESKAwLVENGFERGADFIIWPYG---RYDESALDAASDyhyLGFVT 332
Cdd:cd10968    79 ARLSDDEARREIAASRA-RLEAELGREVRHFAYPYGdrtAAGPREADLARE---AGFAT 133
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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