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Conserved domains on  [gi|1172744619|gb|OQO99572|]
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hypothetical protein BSK33_15015 [Geobacillus sp. 44B]

Protein Classification

polysaccharide deacetylase family protein( domain architecture ID 10181050)

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; similar to Escherichia coli YadE

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_yadE_5s cd10966
Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and ...
 232-396 9.62e-75

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: 229.86  E-value: 9.62e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 232 PPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPAPQpfDPSGLQFLSKQEVAKMQDVFTFESHTNHFHLFD 311
Cdd:cd10966     1 PEKSVVITFDDGYKSNYEYAYPILKKYGFKATIFVIGSRIGEKPQ--DPKILQYLSIEELKEMRDVFEFQSHTYNMHRGG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 312 KKNGPYLLFKPYHEIMDDLKASIAKV-NATAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKGTVYPGDPVFELKRQWVYPH 390
Cdd:cd10966    79 GTGGHGLLALSEEEILADLKKSEEILgSSKAFAYPYGDYNDNAIEALKEAGVKLAFTTNEGKVTPGDDPYELPRVRITGG 158


                  ....*.
gi 1172744619 391 ITLQQF 396
Cdd:cd10966   159 TSLEDF 164
 
Name Accession Description Interval E-value
CE4_yadE_5s cd10966
Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and ...
 232-396 9.62e-75

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: 229.86  E-value: 9.62e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 232 PPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPAPQpfDPSGLQFLSKQEVAKMQDVFTFESHTNHFHLFD 311
Cdd:cd10966     1 PEKSVVITFDDGYKSNYEYAYPILKKYGFKATIFVIGSRIGEKPQ--DPKILQYLSIEELKEMRDVFEFQSHTYNMHRGG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 312 KKNGPYLLFKPYHEIMDDLKASIAKV-NATAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKGTVYPGDPVFELKRQWVYPH 390
Cdd:cd10966    79 GTGGHGLLALSEEEILADLKKSEEILgSSKAFAYPYGDYNDNAIEALKEAGVKLAFTTNEGKVTPGDDPYELPRVRITGG 158


                  ....*.
gi 1172744619 391 ITLQQF 396
Cdd:cd10966   159 TSLEDF 164
CDA1 COG0726
Peptidoglycan/xylan/chitin deacetylase, PgdA/NodB/CDA1 family [Carbohydrate transport and ...
 215-377 1.67e-21

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: 91.26  E-value: 1.67e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 215 TITPQQLLAYVKKEQLlPPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPAPqpfdpsglqflskQEVAKM 294
Cdd:COG0726     2 VLSLDELLPALRWGPL-PKKAVALTFDDGPREGTPRLLDLLKKYGVKATFFVVGSAVERHP-------------ELVREI 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 295 QDV-FTFESHTnHFHlfdkkngPYLLFKPYHEIMDDLKASIAKVNA------TAIAYPFGAYDKRTIQIVKDAGFTMAFT 367
Cdd:COG0726    68 AAAgHEIGNHT-YTH-------PDLTKLSEEEERAEIARAKEALEEltgkrpRGFRPPYGRYSPETLDLLAELGYRYILW 139

                         170
                  ....*....|
gi 1172744619 368 TKkgtVYPGD 377
Cdd:COG0726   140 DS---VDSDD 146
Polysacc_deac_1 pfam01522
Polysaccharide deacetylase; This domain is found in polysaccharide deacetylase. This family of ...
 231-365 1.64e-20

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: 86.52  E-value: 1.64e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 231 LPPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPAPqpfdpsglqflskQEVAKMQDV-FTFESHTnHFHl 309
Cdd:pfam01522   4 TPKKVVALTFDDGPSENTPAILDVLKKYGVKATFFVIGGNVERYP-------------DLVKRMVEAgHEIGNHT-WSH- 68

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1172744619 310 fdkkngPYLLFKPYHEIMDDLK------ASIAKVNATAIAYPFGAYDKRTIQIVKDAGFTMA 365
Cdd:pfam01522  69 ------PNLTGLSPEEIRKEIEraqdalEKATGKRPRLFRPPYGSYNDTVLEVAKKLGYTAV 124
pgaB PRK14582
poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB;
172-371 6.20e-17

poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB;


Pssm-ID: 184754 [Multi-domain]  Cd Length: 671  Bit Score: 82.89  E-value: 6.20e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 172 GVPVLLYHHIL-EDKDERIFRATTTVPLSQFTnemnYLKEQHYTTITPQQLLAYVKKEQLLPPKSVLITFDDGLKSNDVY 250
Cdd:PRK14582   48 GFVAIAYHDVEdEAADQRFMSVRTSALREQFA----WLRENGYQPVSVAQILEAHRGGKPLPEKAVLLTFDDGYSSFYTR 123

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 251 AYPVLKRLNFKAtIFMITGRM--RPAPQPFDPSGLQ-----FLSKQEVAKMQDVFTFE--SHTNHFH------------- 308
Cdd:PRK14582  124 VFPILQAFQWPA-VWAPVGSWvdTPADQPVKFGGEMvpreyFATWQQVREVARSRLVEiaSHTWNSHygiqanpqgsllp 202

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1172744619 309 -----LFDKKNGPYLLFKPY-HEIMDD---LKASIAKV---NATAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKG 371
Cdd:PRK14582  203 aavnrAYFTDHARYETAAEYrERIRLDavkMTEYIRTKagkNPRVWVWPYGEANGIALEELKKLGYDMAFTLESG 277
 
Name Accession Description Interval E-value
CE4_yadE_5s cd10966
Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and ...
 232-396 9.62e-75

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: 229.86  E-value: 9.62e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 232 PPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPAPQpfDPSGLQFLSKQEVAKMQDVFTFESHTNHFHLFD 311
Cdd:cd10966     1 PEKSVVITFDDGYKSNYEYAYPILKKYGFKATIFVIGSRIGEKPQ--DPKILQYLSIEELKEMRDVFEFQSHTYNMHRGG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 312 KKNGPYLLFKPYHEIMDDLKASIAKV-NATAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKGTVYPGDPVFELKRQWVYPH 390
Cdd:cd10966    79 GTGGHGLLALSEEEILADLKKSEEILgSSKAFAYPYGDYNDNAIEALKEAGVKLAFTTNEGKVTPGDDPYELPRVRITGG 158


                  ....*.
gi 1172744619 391 ITLQQF 396
Cdd:cd10966   159 TSLEDF 164
CE4_NodB_like_5s_6s cd10918
Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a ...
 235-390 8.10e-43

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: 146.97  E-value: 8.10e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 235 SVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRM--RPAPQPFDPSGLQFLSKQEVAKMQD-VFTFESHT-NHfhlf 310
Cdd:cd10918     1 PVVLTFDDGYRDNYTYALPILKKYGLPATFFVITGYIggGNPWWAPAPPRPPYLTWDQLRELAAsGVEIGSHThTH---- 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 311 dkkngPYLLFKPYHEIMDDLKASIAKVNA------TAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKGTVYPGDPVFELKR 384
Cdd:cd10918    77 -----PDLTTLSDEELRRELAESKERLEEelgkpvRSFAYPYGRYNPRVIAALKEAGYKAAFTTDPGLNSPGDDPYALPR 151


                  ....*.
gi 1172744619 385 QWVYPH 390
Cdd:cd10918   152 INVSGD 157
CE4_Ecf1_like_5s cd10969
Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli ...
 200-384 2.66e-40

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: 142.43  E-value: 2.66e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 200 QFTNEMNYLKEQHYTTITPQQLLAYVKKEQLLPPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPA----P 275
Cdd:cd10969     3 TFEEQLKYLKKNGYRTLSLEELLAFLKGGKPLPKKSVLITFDDGYLDNYVYAYPILKKYGLKATIFVVTGFIDEAsgvrP 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 276 QPFDP----------------SGLQFLSKQEVAKMQD--VFTFESHT-NHF----HLFDKKNgpyllfkpyheimdDLKA 332
Cdd:cd10969    83 TLFDYwsgdmpeankifflkgRDEVFLSWEELREMEDsgVFDIQSHShSHTrveyELEESKR--------------LLEE 148

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1172744619 333 SIAKvNATAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKGTVYPGDPVFELKR 384
Cdd:cd10969   149 NLGK-KVDHFCWPWGHYSPESLRIAKELGFKFFFTTKKGVNVPGEDPDRIKR 199
CE4_IcaB_5s cd10965
Putative catalytic polysaccharide deacetylase domain of bacterial intercellular adhesion ...
 232-389 8.92e-22

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: 91.30  E-value: 8.92e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 232 PPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPAPQpfdpsGLQFLSKQEVAKMQD--VFTFESHTNHFHL 309
Cdd:cd10965     1 PGKYVVITFDDVDQTVYDNAFPILKKLKIPFTQFVITGQVGSTNF-----GLNLATWSQIKEMVAsgLVTFGLHTNDLHY 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 310 FDKKNGPYLLFKPYHEIMDDLKASIAKV------NATAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKGTVYPGDPVFELK 383
Cdd:cd10965    76 LVKDKKKLFTPASYSRFAEDYAKSQKCLkeklgkKTRYFAYPYGEGNKDTQKILKKQGIQYGFTLRDKVVTNDSDNYRIP 155


                  ....*.
gi 1172744619 384 RQWVYP 389
Cdd:cd10965   156 RILVTN 161
CDA1 COG0726
Peptidoglycan/xylan/chitin deacetylase, PgdA/NodB/CDA1 family [Carbohydrate transport and ...
 215-377 1.67e-21

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: 91.26  E-value: 1.67e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 215 TITPQQLLAYVKKEQLlPPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPAPqpfdpsglqflskQEVAKM 294
Cdd:COG0726     2 VLSLDELLPALRWGPL-PKKAVALTFDDGPREGTPRLLDLLKKYGVKATFFVVGSAVERHP-------------ELVREI 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 295 QDV-FTFESHTnHFHlfdkkngPYLLFKPYHEIMDDLKASIAKVNA------TAIAYPFGAYDKRTIQIVKDAGFTMAFT 367
Cdd:COG0726    68 AAAgHEIGNHT-YTH-------PDLTKLSEEEERAEIARAKEALEEltgkrpRGFRPPYGRYSPETLDLLAELGYRYILW 139

                         170
                  ....*....|
gi 1172744619 368 TKkgtVYPGD 377
Cdd:COG0726   140 DS---VDSDD 146
Polysacc_deac_1 pfam01522
Polysaccharide deacetylase; This domain is found in polysaccharide deacetylase. This family of ...
 231-365 1.64e-20

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: 86.52  E-value: 1.64e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 231 LPPKSVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRPAPqpfdpsglqflskQEVAKMQDV-FTFESHTnHFHl 309
Cdd:pfam01522   4 TPKKVVALTFDDGPSENTPAILDVLKKYGVKATFFVIGGNVERYP-------------DLVKRMVEAgHEIGNHT-WSH- 68

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1172744619 310 fdkkngPYLLFKPYHEIMDDLK------ASIAKVNATAIAYPFGAYDKRTIQIVKDAGFTMA 365
Cdd:pfam01522  69 ------PNLTGLSPEEIRKEIEraqdalEKATGKRPRLFRPPYGSYNDTVLEVAKKLGYTAV 124
CE4_PgaB_5s cd10964
N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1, ...
 231-388 1.09e-18

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: 83.55  E-value: 1.09e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 231 LPPKSVLITFDDGLKSndVY--AYPVLKRLNFKATIFMITGRMR-PAPQPFDPSGLQ-----FLSKQEVAKMQD--VFTF 300
Cdd:cd10964     1 LPAKAVLLTFDDGYQS--FYtrVYPLLKAYKYPAVLALVGSWLEtPAGKKVDYGGEQlprdrFLSWEQIREMQAsgLVEI 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 301 ESHTNHFH------------------LFDKKNGPYLLFKPYHE-IMDDLKASIA------KVNATAIAYPFGAYDKRTIQ 355
Cdd:cd10964    79 ASHSHDLHhgipanpqgnllpaattrQYDPKTGRYETDAEYRQrIRNDLKKSSAlikkhtGRAPRVMVWPYGAYNGTLIE 158

                         170       180       190
                  ....*....|....*....|....*....|...
gi 1172744619 356 IVKDAGFTMAFTTKKGTVYPGDPVFELKRQWVY 388
Cdd:cd10964   159 EAAKLGMQLTFTLEDGANNADQSLSSIPRILVE 191
CE4_DAC_u4_5s cd10973
Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide ...
 234-384 5.32e-17

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: 77.70  E-value: 5.32e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 234 KSVLITFDDGLKSNDVYAYPVLKRLNFKATIFmitgrmrPAPQPFDPSGLQFLSKQEVAKM-QDVFTFESHT-NHFHLFD 311
Cdd:cd10973     1 KTVVITIDDGYKSVYTNAFPILKKYGYPFTLF-------VYTEAIGRGYPDYLSWDQIREMaKYGVEIANHSySHPHLVR 73

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1172744619 312 KKNGPYLLFKPYheIMDDLKASIA------KVNATAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKGTVYPGDPVFELKR 384
Cdd:cd10973    74 LGEKMQEQWLEW--IRQDIEKSQQrfekelGKKPKLFAYPYGEYNPAIIKLVKEAGFEAAFQQSGGVVSAGTDLTALPR 150
pgaB PRK14582
poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB;
172-371 6.20e-17

poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB;


Pssm-ID: 184754 [Multi-domain]  Cd Length: 671  Bit Score: 82.89  E-value: 6.20e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 172 GVPVLLYHHIL-EDKDERIFRATTTVPLSQFTnemnYLKEQHYTTITPQQLLAYVKKEQLLPPKSVLITFDDGLKSNDVY 250
Cdd:PRK14582   48 GFVAIAYHDVEdEAADQRFMSVRTSALREQFA----WLRENGYQPVSVAQILEAHRGGKPLPEKAVLLTFDDGYSSFYTR 123

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 251 AYPVLKRLNFKAtIFMITGRM--RPAPQPFDPSGLQ-----FLSKQEVAKMQDVFTFE--SHTNHFH------------- 308
Cdd:PRK14582  124 VFPILQAFQWPA-VWAPVGSWvdTPADQPVKFGGEMvpreyFATWQQVREVARSRLVEiaSHTWNSHygiqanpqgsllp 202

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1172744619 309 -----LFDKKNGPYLLFKPY-HEIMDD---LKASIAKV---NATAIAYPFGAYDKRTIQIVKDAGFTMAFTTKKG 371
Cdd:PRK14582  203 aavnrAYFTDHARYETAAEYrERIRLDavkMTEYIRTKagkNPRVWVWPYGEANGIALEELKKLGYDMAFTLESG 277
CE4_DAC_u1_6s cd10970
Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide ...
 236-378 6.05e-16

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: 75.81  E-value: 6.05e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 236 VLITFDDGLKSNDVYAYPVLKRLNFKATIFMITGRMRpapqpfdpsGLQFLSKQEVAKMQDV-FTFESHT-NHFHLFDkk 313
Cdd:cd10970     3 VSLTFDDGYESQYTTAFPILQEYGIPATAAVIPDSIG---------SSGRLTLDQLRELQDAgWEIASHTlTHTDLTE-- 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1172744619 314 NGPYLLFKPYHEIMDDLKASIAKVNATAIAYPFGAYDKRTIQIVKDAgFTMAFTTKKGTVYPGDP 378
Cdd:cd10970    72 LSADEQRAELTESKRWLEDNGFGDGADHFAYPYGRYDDEVLELVREY-YDLGRSGGGGPNGRPPL 135
hmsF PRK14581
outer membrane N-deacetylase; Provisional
 175-401 1.19e-14

outer membrane N-deacetylase; Provisional


Pssm-ID: 184753 [Multi-domain]  Cd Length: 672  Bit Score: 75.78  E-value: 1.19e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 175 VLLYHHILEDK-DERIFRATTTVPLSQFTnemnYLKEQHYTTITPQQLLAYVKKEQLLPPKSVLITFDDGLKSNDVYAYP 253
Cdd:PRK14581   51 VIAYHDVEDDSaDQRYLSVRSSALNEQFV----WLRDNGYHVVSVDQILAARNGGPTLPDKAVLLTFDDGYSSFYRRVYP 126

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 254 VLKRLNFKATIFMI-TGRMRPAPQPFDPSGL-----QFLSKQEVAKMQDVFTFE--SHTNHFH----------------- 308
Cdd:PRK14581  127 LLKAYKWSAVLAPVgTWIDTATDKKVDFGGLstdrdRFATWKQITEMSKSGLVEigAHTYASHygvianpqgntepaaan 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 309 -LFDKKNGPYLLFKPYHEIMDDLKASIAK--VNATA-----IAYPFGAYDKRTIQIVKDAGFTMAFTTKKGTVYPGDpVF 380
Cdd:PRK14581  207 lQYDPKTKQYETVEAFKQRMEKDVALITQriVQATGkqprvWVWPYGAPNGTVLNILRQHGYQLAMTLDPGVANIND-LM 285

                         250       260
                  ....*....|....*....|.
gi 1172744619 381 ELKRQWVYPHITLQQFEQLLS 401
Cdd:PRK14581  286 NIPRILISNNPSLKDFALTVT 306
CE4_Mlr8448_like_5s cd10968
Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its ...
 234-393 1.61e-13

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: 68.04  E-value: 1.61e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 234 KSVLITFDDGLKSNDVYAYPVLKRLNFKATIF----MITGRMRP---APQPFDPSGLQFLSKQEVAkmqdvfTFESHT-N 305
Cdd:cd10968     1 RFAVLTFDDGYRDNLEFALPVFERHGVPFTIYvttgFPDGTGELwwlTLECLDWDELRRLAADPLV------TIGAHTiT 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 306 HFHLFDKKNGpyllfKPYHEImDDLKASIAKV---NATAIAYPFG---AYDKRTIQIVKDAGFTMAFTTKKGTVYPGDpv 379
Cdd:cd10968    75 HPNLARLSDD-----EARREI-AASRARLEAElgrEVRHFAYPYGdrtAAGPREADLAREAGFATAVTTRPGVLFAEH-- 146

                         170
                  ....*....|....
gi 1172744619 380 feLKRQWVYPHITL 393
Cdd:cd10968   147 --RENLHALPRISL 158
CE4_GLA_like_6s cd10967
Putative catalytic NodB homology domain of gellan lyase and similar proteins; This family is ...
 234-393 1.78e-09

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: 57.00  E-value: 1.78e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 234 KSVLITFDDGLKSnDVYAYPVLKRLNFKATIFMITGRMrPAPQPFDPSGLQFLSKQ--EVAkmqdvftfeSHTnHFHLFD 311
Cdd:cd10967     1 LAVSLTFDDGYAQ-DLRAAPLLAKYGLKGTFFVNSGLL-GRRGYLDLEELRELAAAghEIG---------SHT-VTHPDL 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 312 KKNGPYLLFKpyhEIMDDLKA--SIAKVNATAIAYPFGAYDkRTIQIVKDAGFTMAFTTKKGTVYPGDPVFELKRQWVYP 389
Cdd:cd10967    69 TSLPPAELRR---EIAESRAAleEIGGFPVTSFAYPFGSTN-PSIVPLLARGFIAARGVGGGGNPPNPSDPPADPADCHN 144


                  ....
gi 1172744619 390 HITL 393
Cdd:cd10967   145 ADSL 148
CE4_DAC_u2_5s cd10971
Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide ...
 235-384 3.55e-09

Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; This family contains many uncharacterized prokaryotic polysaccharide deacetylases. Although their biological functions remain unknown, all members of this 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: 200593 [Multi-domain]  Cd Length: 198  Bit Score: 56.16  E-value: 3.55e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 235 SVLITFDDGLKSNDVYAYPVLKRLNFKATIFMITG--------------------RMRPAPQPFdpSGLQFLSKQEVAKM 294
Cdd:cd10971     1 AILLTFDDGYKDHYTYVLPELEERGIQGSFFVPAKpveehkvldvnkihfilfikRLLQYELPE--KLRTEILDKLFKKY 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 295 QDVFTFE-----------------------SHT-NHFHL--FDKKngpyllfkpyhEIMDDLKAS-------IAKVNATA 341
Cdd:cd10971    79 VDISEEAfakelymtkdqikqleragmhigSHGyDHYWLgrLSPE-----------EQEAEIKKSlkflsevGGGHDRWT 147

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1172744619 342 IAYPFGAYDKRTIQIVKDAGFTMAFTTKKG-TVYPGDPVFELKR 384
Cdd:cd10971   148 FCYPYGSFNEETLEILKENGCRLGFTTEVAiADLDDLEPLELPR 191
CE4_NodB_like_6s_7s cd10917
Catalytic NodB homology domain of rhizobial NodB-like proteins; This family belongs to the ...
 234-377 2.46e-07

Catalytic NodB homology domain of rhizobial NodB-like proteins; 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 many rhizobial NodB chitooligosaccharide N-deacetylase (EC 3.5.1.-)-like proteins, mainly from bacteria and eukaryotes, such as chitin deacetylases (EC 3.5.1.41), bacterial peptidoglycan N-acetylglucosamine deacetylases (EC 3.5.1.-), and acetylxylan esterases (EC 3.1.1.72), which catalyze the N- or O-deacetylation of substrates such as acetylated chitin, peptidoglycan, and acetylated xylan. All members of this family contain a catalytic NodB homology domain with the same overall topology and a deformed (beta/alpha)8 barrel fold with 6- or 7 strands. Their catalytic activity is dependent on the presence of a divalent cation, preferably cobalt or zinc, and they employ a conserved His-His-Asp zinc-binding triad closely associated with the conserved catalytic base (aspartic acid) and acid (histidine) to carry out acid/base catalysis. Several family members show diversity both in metal ion specificities and in the residues that coordinate the metal.


Pssm-ID: 213022 [Multi-domain]  Cd Length: 171  Bit Score: 50.31  E-value: 2.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172744619 234 KSVLITFDDGlkSNDVYAYPV---LKRLNFKATIFMITGRMRPAPQpfdpsglqfLSKQEVAKMQDVftfESHT-NHfhl 309
Cdd:cd10917     1 KVVALTFDDG--PDPEYTPKIldiLAEYGVKATFFVVGENVEKHPD---------LVRRIVAEGHEI---GNHTySH--- 63

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1172744619 310 fdkkngPYLLFKPYHEIMDDLKASIAKVNATAIA------YPFGAYDKRTIQIVKDAGFTMAFttkkGTVYPGD 377
Cdd:cd10917    64 ------PDLTKLSPEEIRAEIERTQDAIEEATGVrprlfrPPYGAYNPEVLAAAAELGLTVVL----WSVDSLD 127
 
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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