2W3Z


Conserved Protein Domain Family
CE4_SmPgdA_like

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cd10944: CE4_SmPgdA_like 
Click on image for an interactive view with Cn3D
Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins
This family is represented by a putative polysaccharide deacetylase PgdA from the oral pathogen Streptococcus mutans (SmPgdA) and Bacillus subtilis YheN (BsYheN), which are members of the carbohydrate esterase 4 (CE4) superfamily. SmPgdA is an extracellular metal-dependent polysaccharide deacetylase with a typical CE4 fold, with metal bound to a His-His-Asp triad. It possesses de-N-acetylase activity toward a hexamer of chitooligosaccharide N-acetylglucosamine, but not shorter chitooligosaccharides or a synthetic peptidoglycan tetrasaccharide. SmPgdA plays a role in tuning cell surface properties and in interactions with (salivary) agglutinin, an essential component of the innate immune system, most likely through deacetylation of an as-yet-unidentified polysaccharide. SmPgdA shows significant homology to the catalytic domains of peptidoglycan deacetylases from Streptococcus pneumoniae (SpPgdA) and Listeria monocytogenes (LmPgdA), both of which are involved in the bacterial defense mechanism against human mucosal lysozyme. The Bacillus subtilis genome contains six polysaccharide deacetylase gene homologs: pdaA, pdaB (previously known as ybaN), yheN, yjeA, yxkH and ylxY. The biological function of BsYheN is still unknown. This family also includes many uncharacterized polysaccharide deacetylases mainly found in bacteria.
Statistics
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PSSM-Id: 200569
Aligned: 69 rows
Threshold Bit Score: 203.548
Created: 26-Apr-2011
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 10 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:2W3Z; Streptococcus mutans CE4 esterase binds phosphate ion/Zn2+ complex, contacts at 4A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1               ##                                                    #   #              
2W3Z_A       107 KLVFLTFDDGVDpNMTPKILDVLAQQHVHATFFLVGcni--tdKVKPILQRQITEGHALGIHSFSHVYSLLYpnrvgnTQ 184 Streptococcus m...
NP_979498     79 KVVYLTFDDGPS-ELTGKFLDVLKEQNVASTFFMQGsnl-qntGFQENVKRAVKEGHYIGAHSMTHNSDKLYk-----KG 151 Bacillus cereus...
ZP_06622408   77 KFAYLTFDDGPS-RNTSAILDILDSYGIKGTFFVLGtaidnysDSEAMLKRMANDGHYIGMHSMTHDYAYLYgda-naAS 154 Turicibacter sp...
NP_844383     69 KVAYLTFDDGPG-KYTAELLNTLKQHDAKATFFLIGan---vkEFPDLVKRENAEGHYVGMHSMTHNFAKLYk-----NG 139 Bacillus anthra...
ZP_06620757   37 KVVYLTFDDGPS-KRSEEFIEILQRYDVKATFFYIGsn---vsRYPDTVKAVHEAGFYIGLHSMTHDRQIIYnp--dtPE 110 Turicibacter sp...
ZP_04854005  160 KVIYLTFDDGPS-KYTEQLLDILEHYQIHGTFFMIGnq---lsKNEKIVNQALQEGHYIGLHSMTHNKKILYdg--kgSA 233 Paenibacillus s...
ZP_06621023   54 KVMYLTFDDGPS-EYTKKIVDILDEHQVPATFFFIGkn---vdGKEDSVRYAAKHGHTIGLHSISHNRDVIYne--aePY 127 Turicibacter sp...
YP_003463580  78 KTVYLTFDDGPT-PYLNNFISVLKKEEVPGTFFFVGstl--tqMSKETASTIVKSGFSIGLHSYTHDARQLYre---tSP 151 Listeria seelig...
EGQ26409     172 ANVYLTFDDGPN-RFTSANTAILKKYNVKGTFFFIGnq---mkDQRKIVKETAAAGHYIGSHSMTHDANKVYq----tTK 243 Sporosarcina ne...
YP_001813008  84 KVAYLTFEDGPT-ALTSDILKSLKEQEVKATFFLIGsn---inEQPDVVRSMAKAGHYIGPHSETHDYDTLYk-----KK 154 Exiguobacterium...
Feature 1                                    ###                       #                         
2W3Z_A       185 QIVSEVTRTQNALKDQLGqnfKTGVWRYPGGHLswtgLEAADKQLAAqGIQWMDWNAAVGDAepla-trptTVASMLAFL 263 Streptococcus m...
NP_979498    152 QFVPEMKETLALIHNITGa--TPKLVRPPYGSApglkSDEIRNQIVEaGMKVWDWTIDSNDWkl-----kdNSTQIIENV 224 Bacillus cereus...
ZP_06622408  155 NFAGEMKEEQALIKEITGg-fESKLCRAPYGTGgt-fTDEHVVALNEiSVKCWDWDVDSYDWes-----gaTVDSIMKNV 227 Turicibacter sp...
NP_844383    140 EYVNEMKEDQSLIANIIGk--SPKLTRPPYGSMpg-lNEGLRNKVVEgGFKVWDWTIDSLDWkynkmqvdaAAAQIAQNV 216 Bacillus anthra...
ZP_06620757  111 ALTQELLQEQDLLEGIIGv--RPTLFRPPYGSVpg-iTPAMADSLIEhDFKIWDWTIDSKDWkq------kSANEILETI 181 Turicibacter sp...
ZP_04854005  234 HFIEEFTKEQKLMEKLTGt--SPTLIRAPYGSKpe-iGEKFRGDIAKaGFKMWDWTVDSMDWky-----pnSPSTILKEV 305 Paenibacillus s...
ZP_06621023  128 KLLEESLELQSYLEPLIGy--KTVIIRPPYGSSf--mPDVIFNNVGEaGFKLWDWSIDTNDWre-----etTVESIMTFL 198 Turicibacter sp...
YP_003463580 152 TFIPEMERLKKDVQKKTGv--TTNLVRAPYGSTy--lTDKEYQKVKQaGFKLLDWNIDSNDWry-----kdNSNSVIQSV 222 Listeria seelig...
EGQ26409     244 SFMDEMNKGLRLIEQITGn--DTKLVRVPYGSKpy-vTAAMRNELIRyDYKLWDWNVDSEDWkyt----nqQAGRIVKNI 316 Sporosarcina ne...
YP_001813008 155 QYVPEMLRVQKQINQLTNh--SPLLTRPPYGSTpg-iTKSIAKEIEQaKLRVWDWSIDSMDWyy-----kdSAKEVANTV 226 Exiguobacterium...
Feature 1                         # #                            
2W3Z_A       264 DGSakia--tnpNVQVVLMHDIsekTITLASLPQIIRYYKDRGYTFAV 309 Streptococcus mutans UA159
NP_979498    225 KKQtt------eEVEVVLMHEK---AQTLQALPEIITFYKEQGYEFGV 263 Bacillus cereus ATCC 10987
ZP_06622408  228 ESNmklw--nypSNTVILFHEK---DITVQVLPVVIQYYLDLGYEFLP 270 Turicibacter sp. PC909
NP_844383    217 LTNat------kPQEVILMHDIh--PQSVAAVPAILKGLKEKGYEFEA 256 Bacillus anthracis str. Ames
ZP_06620757  182 KKQtn------aPVEIVLMHEK---ELTLEALANIIEFYQSQGYEFRM 220 Turicibacter sp. PC909
ZP_04854005  306 KRQth------rDTEVILWHEK---AQTVKILPQIIEYLQSKGYAFAV 344 Paenibacillus sp. D14
ZP_06621023  199 NEFpa------gEREILLEHEL---PITLEVLPLIISHYKEQGYLFKA 237 Turicibacter sp. PC909
YP_003463580 223 MTQvkhm-eksnEPLVILFHER---KNTLNALPTIIKQLKEKGYTFAA 266 Listeria seeligeri serovar 1/2b str. SLCC3954
EGQ26409     317 QTGvkkayatgnRNIVILMHDR---SQTAKVLPEIIEWLQAQGYVLKP 361 Sporosarcina newyorkensis 2681
YP_001813008 227 ISRae------gPVEIILLHEQ---PQTLQALPAIVAGLKKKGYQFSI 265 Exiguobacterium sibiricum 255-15

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