2C1G,1NY1,2IW0,2W3Z,2C71,2CC0,2VYO


Conserved Protein Domain Family
CE4_NodB_like_6s_7s

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cd10917: CE4_NodB_like_6s_7s 
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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.
Statistics
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PSSM-Id: 213022
Aligned: 298 rows
Threshold Bit Score: 66.1033
Created: 31-May-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
  • Structure:2C1G; Streptococcus pnemoniae Peptidoglycan deacetylase binds acetate/Zn2+ complex, contacts at 4A.
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  • Structure:2IW0; Glomerella lindemuthiana Chitin deacetylase binds acetate ion/Zn2+ complex, contacts at 4A.
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  • Structure:2CC0; Streptomyces lividans Family 4 carbohydrate esterase binds Zn2+/acetate complex, contacts at 4A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                ##                                                   #   #               
2C1G_A        236 KVVALTFDDGpnpaTTPQVLETLAKydiKATFFVLGknv-sgnEDLVKRIKSe-GHVVGNHSWSHPils-----qlsLDE 308  Streptococcus...
2W3Z_A        107 KLVFLTFDDGvdpnMTPKILDVLAQqhvHATFFLVGcnitdkvKPILQRQITe-GHALGIHSFSHVysllypnrvgnTQQ 185  Streptococcus...
YP_004719133   59 PWMAITVDTGtg-gDPDRLLPLFVQlkvPVTFFVSGp------PRTWWGLATrdGMTVESQTFGYInlt-----thtTRQ 126  Sulfobacillus...
ZP_02950323    72 KILSISFEGIddndTMTNVLELLDKykvKATFIVSGids-aenPDILNQIKDe-GHEIGNASLNYKnnvd----dksKEE 145  Clostridium b...
YP_001559318   74 KLIALTFQGLsdaeTNRKILDLMAEyerKGTFFVPGila-aedSNTIIAMNSe-GHRIGNNTLSETkhme----eytKED 147  Clostridium p...
ZP_07305733    27 RTVALTFDGGpdpvWTPRLLDLLREnnaRATFFVHGaqa-aryPELMRRIRAe-GHEIGSNTYTGAvlg-----essAPR 99   Streptomyces ...
YP_001696301   42 PKVALTFNGFadnqTMELLLAKLDEsnmKATFFLEGlrv-aqePELVRDILKr-GHDVQNGTLSFPdvt-----alnYDQ 114  Lysinibacillu...
ZP_08280512    60 KELALTFNGMgdkaTMTALIDELETygiKATFFLPGirv-aeePDIAGAILAg-GHEIENNTLNQLdmn-----kldYDQ 132  Paenibacillus...
ZP_05390097    72 NVVSLSFDGLsdkdTMNKIVTMLNEhgiKATFFVPGiea-aedSSIVKMIQKs-GHDIGSGTLSSTknme----klsSKE 145  Clostridium c...
YP_004412616   74 PHVAIVIDGLpdrtTTARLLDVLKKhgaSAVFFVEGqna-anqPETIELIREa-GQEIGNYTFVGIaaaq----elpQER 147  Selenomonas s...
Feature 1                                    ###                              #                   
2C1G_A        309 AKKQITDTEDVLTKvlg--sssKLMRPPYGa----iTDDIRNSLd----------LSFIMWd----------------VD 356  Streptococcus...
2W3Z_A        186 IVSEVTRTQNALKDqlgqnfktGVWRYPGGhlswtgLEAADKQLaa-------qgIQWMDWn----------------AA 242  Streptococcus...
YP_004719133  127 DERDLIASLAAIRQatg--rrpYFLRPPYGa----vDARVIRLAar-------lgLHVVLWtpg------------hyIA 181  Sulfobacillus...
ZP_02950323   146 LIYDFSKSNKIIEDiin--dkvNLLKCKSEt----ySDELLEAAyacgneyvldsDSYLNY-----------------QS 202  Clostridium b...
YP_001559318  148 LVKDFSRTNNIIQTiig--kapNTLLCNSTt----hTPELLQAAhacg---ndkvVKSTHYls--------------yQS 204  Clostridium p...
ZP_07305733   100 FQAELELTQSALAGttg--qrtNLLRMPRTtspdtlCGREWQAArka------tgYGYVLVaadkgarkpaqgivrqlSQ 171  Streptomyces ...
YP_001696301  115 TYEEIYLTNQIFEEhlg--ykpKFVRSRSGd----iTDNMRLAAaa-------ldMKAVIGl---------------sIN 166  Lysinibacillu...
ZP_08280512   133 IYKEIKLANDVIERetg--aqpRYVRTRSGdy---pEDVPLAAAhl--------gMKAVVSy---------------nIN 184  Paenibacillus...
ZP_05390097   146 LVTDFCRTNKILKIitg--knpVLLKCNSTv----ySDSILKAAy---------aSGNKYV-----------------VE 193  Clostridium c...
YP_004412616  148 LLAEICRTQRVVEVlaa--tkpKFFRAPRTv----yDEELLRALraagv--ecavKESAHYa---------------pGW 204  Selenomonas s...
Feature 1                                                          # #                            
2C1G_A        357 SLDWksk-----neASILTEIQhqv------------------anGSIVLMHDIhsp----------------------- 390  Streptococcus...
2W3Z_A        243 VGDAeplatrpttvASMLAFLDgsaki-------------atnpnVQVVLMHDIsekt---------------------- 287  Streptococcus...
YP_004719133  182 SAASdrh-----llEGLLAHAGp----------------------GVILAISDEppaa---------------------- 212  Sulfobacillus...
ZP_02950323   203 FKNY----------EEAYGYVNrl-------------------knGSILSIKLNgvldeteytnktnnektsid---ves 250  Clostridium b...
YP_001559318  205 FKNY----------NQVLGYIKgl-------------------ekGAILTIKMDgtldeeeyeapvkpdkpaidkapsin 255  Clostridium p...
ZP_07305733   172 TESAyqear-rllsNRTVDRFTtvsdglklvpytspsltqrwlgqGLIWVTSLGqvf----------------------- 227  Streptomyces ...
YP_001696301  167 PLDRkmqsa-qdliDYIDKYIDr----------------------GSIIHLNTYinp----------------------- 200  Lysinibacillu...
ZP_08280512   185 PKDRdmqsa-eaigEYVARFVSr----------------------GGIISMNTDvnpe---------------------- 219  Paenibacillus...
ZP_05390097   194 SNYYlnyqs-fknyDQAYRYVNsl-------------------krGTIISIKLEgvldsteykgkeekpaidkq----an 249  Clostridium c...
YP_004412616  205 LKDEa--------gAAAYAATVp---------------------aGSIIAIDIAvpveapaqdvaiedarpavdk-qptv 254  Selenomonas s...
Feature 1                                    
2C1G_A        391 --------------tvnALPRVIEYLK 403  Streptococcus pneumoniae
2W3Z_A        288 -------------itlaSLPQIIRYYK 301  Streptococcus mutans UA159
YP_004719133  213 -------------plrlALTVAVESFR 226  Sulfobacillus acidophilus TPY
ZP_02950323   251 gikekdveekhqvttfeMLEWLLRAIS 277  Clostridium butyricum 5521
YP_001559318  256 sedmsldsltkeerllkMMEWILQALK 282  Clostridium phytofermentans ISDg
ZP_07305733   228 ---------------stAMIWILGVAG 239  Streptomyces viridochromogenes DSM 40736
YP_001696301  201 --------------aiiDAIPLLAQLA 213  Lysinibacillus sphaericus C3-41
ZP_08280512   220 --------------vvsSIKYIAKAVD 232  Paenibacillus sp. HGF5
ZP_05390097   250 vnidnklgiseeksekeKEDNIVQIVG 276  Clostridium carboxidivorans P7
YP_004412616  255 edkpaeerkaapvdaadELDWLLTALE 281  Selenomonas sputigena ATCC 35185

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