3C2U,1YIF,2EXH,1YRZ,1Y7B,1YI7


Conserved Protein Domain Family
GH43_SXA-like

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cd09000: GH43_SXA-like 
Click on image for an interactive view with Cn3D
Glycosyl hydrolase family 43, such as Selenomonas ruminantium beta-D-xylosidase SXA
This glycosyl hydrolase family 43 (GH43) includes enzymes that have been characterized to mainly have beta-1,4-xylosidase (beta-D-xylosidase;xylan 1,4-beta-xylosidase; EC 3.2.1.37) activity, including Selenomonas ruminantium (Xsa;Sxa;SXA), Bifidobacterium adolescentis ATCC 15703 (XylC;XynB;BAD_0428) and Bacillus sp. KK-1 XylB. They are part of an array of hemicellulases that are involved in the final breakdown of plant cell-wall whereby they degrade xylan. They hydrolyze beta-1,4 glycosidic bonds between two xylose units in short xylooligosaccharides. These are inverting enzymes (i.e. they invert the stereochemistry of the anomeric carbon atom of the substrate) that have an aspartate as the catalytic general base, a glutamate as the catalytic general acid and another aspartate that is responsible for pKa modulation and orienting the catalytic acid. These enzymes possess an additional C-terminal beta-sandwich domain that restricts access for substrates to a portion of the active site to form a pocket. The active-site pockets comprise of two subsites, with binding capacity for two monosaccharide moieties and a single route of access for small molecules such as substrate. A common structural feature of GH43 enzymes is a 5-bladed beta-propeller domain that contains the catalytic acid and catalytic base. A long V-shaped groove, partially enclosed at one end, forms a single extended substrate-binding surface across the face of the propeller.
Statistics
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PSSM-Id: 350114
Aligned: 59 rows
Threshold Bit Score: 456.239
Created: 25-May-2010
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
active sitechemical
Conserved site includes 3 residues -Click on image for an interactive view with Cn3D
Feature 1: active site [active site], 3 residue positions
Conserved feature residue pattern:[DEN] [DEN] [DEN]Click to see conserved feature residue pattern help
Evidence:
  • Comment:Three active site residues of the beta-propeller architecture of glycoside hydrolase families GH32, GH43, GH62 and GH68.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1              #                                                                      
3C2U_A      5 NPVLKGFNPDPSIVRAGDDYYIATSTFEWFPGVQIHHSKDLVHWHLVAHPLSTTEFLDmkgNPDSGGIWAPDLSYA--DG 82  Selenomonas rumina...
EPJ37425    6 NPVLRGFAPDPSLIRVGDWYYVATSSFEWFPTIPVHRSRDLAHWEYAGHVRGAAPGGSlagVPDSGGIWAPSLSWD--GE 83  Streptomyces afgha...
OOM82276    6 NPILKGFNPDPCICKGNGKYYIATSTFEWFPGVQIYESSDLVNWELKCVPLNNIEYLDlkgIQDSAGIWAPALSFY--ED 83  Clostridium puniceum
SHH45456    4 NPIISGFNPDPSIIRVGEDYYIATSTFEWFPGIPIYKSKDLKNWELFTHVVTKKEQIDlrgIDSALGIWAPALSYDkvKE 83  Clostridium granti...
API88708    4 NPIIKGFSPDPCICKANGKYYLATSTFEWYPGVEIWESTNLVDWDLVKRPLVHEKHMNltgIPDSGGIWAPALSYH--DG 81  Marinilactibacillu...
KRF26516   16 NPVVPGFHPDPSIVRVGDTYVLANSTFEWWPGVRLHTSTDLRNWVPAGHVLTDPAVLDlrdVPDSGGLWAPSLSHD--GE 93  Phycicoccus sp. So...
SKB73065    6 NPVLPGFSPDPSLIRVGDWYYLANSSFEWFPAVPIHRSRDLRTWEFAGSFDGHAEALGlqgIQDSGGVWAPSLSWA--DG 83  Arthrobacter sp. 3...
ARB22340    4 NPVFKGFNPDPSICRRGDDYYVAVSSFEWFPGLPVYHSRDLKHWQLLTHVLTDDNNPDlkkLPSAKGIWAPSLTWCeeEK 83  Klebsiella oxytoca
OQM55322    4 NPIFKGFNPDPAICRKGDDYYVAVSTFEWFPGIPIYHSKDMKHWELLTHVLTDDTTPNltkLPSAKGIWAPCLTYNeaED 83  Bifidobacterium de...
ORI90814    6 NPIIPGMAPDPSIIRVENKYYIATSTFHWTPAIQLFESTDLKNWQLIDHVLKKEEISLk-gTNTPAGIWAPHLSYDahKK 84  Leuconostoc mesent...
Feature 1                                                 #                                   
3C2U_A     83 KFWLIYTDVKVvdgmWKDCHNYLTTAEDIkGPWSKPILLNgaGFDASLFHDpSGKKYLVNMYWDqrvy--hhnFYGIALQ 160 Selenomonas rumina...
EPJ37425   84 RFWVTYTVVRSvgtpYFDLDTYVSTATEVsGEWSAPRRVAshGFDPALFHE-DGRLWLLNLQNDhrpg--grrFAGIVVT 160 Streptomyces afgha...
OOM82276   84 NFYLVYTIAKQidgyFKDVYNYVITSKSIeGPWSKPVFINgsGFDPSMYHE-DGKHYVINPQWDprpleghnkFNGLILQ 162 Clostridium puniceum
SHH45456   84 RFYMCFSVINGatnnNFDVNNYLMYTNDItAEWSMPIYLNssGFDPALFHDdDGKKWIVNLEWDfrkg--yehPGAIVIE 161 Clostridium granti...
API88708   82 KFWLFYTICKQidgvFKDVENYITTCEKInGEWDSPIYIHssGFDPSLFHD-GDRKYVLNPQWDyrstngkvrFKGIELR 160 Marinilactibacillu...
KRF26516   94 IFWLVVGLVHAwsgpFKDVDILLTTATDIgGPWTEPVRLGggGFDPSIFHH-EGRHWLANMRWDhrpe--efsFAGITLQ 170 Phycicoccus sp. So...
SKB73065   84 TFWLVFTVVTGfggpHKDMDTYVTKAPEVaGPWAPPVRVTttGFDPSLFHH-NGRHWLVNMEWDhrpn-grgrFAGINIQ 161 Arthrobacter sp. 3...
ARB22340   84 LFYVIYGVMNSmnsrYFDVDNYLITASEItGPWSEPVYLHsaGFDASILHDtDGKKWIVSLEWEtreg--yekPGAICLV 161 Klebsiella oxytoca
OQM55322   84 MFYVIYGVMNSmnarYFDVNNYLIKSKSIeGPWSEPVYLTssGFDASILHDdDGRKYIVSLEWEtreg--yekPGVICCV 161 Bifidobacterium de...
ORI90814   85 RYRIAYSHMLNmagrEFNADSYALWSESIhGPWSEPIYLTsiGFDPSIFHDdDGKKYIAILEWEsrpn--yqaPGHIVIA 162 Leuconostoc mesent...
Feature 1                                 #                                                   
3C2U_A    161 EYSvaEEKLIGkp--eiIYKGtdi-ayTEGPHLYYINDMYYLMTAEGGTTYQHSETIARSKtihGPYEIQPDYPLLSAWk 237 Selenomonas rumina...
EPJ37425  161 ELD--RDTLAPvgptrlLLQHdr---lIEGPKLLRRAGWYYLMLAEGGTGWEHGVRVARSReltGPYELDERPLLTTRDd 235 Streptomyces afgha...
OOM82276  163 EFDf-EKGMVGes--kiVFPGsgt-ggSEGPHIIKKDDYYYIIAAEGGTGRHHSICVARAKsiwGPYEVSPYHPLITAWv 238 Clostridium puniceum
SHH45456  162 EYDpiNEILMGga--trIFKGgtdrgcQEGPQIYKRNNYYYLVTAEGGTGYGHGVVVSRAEnikGPYKTFDRKPIITSQp 239 Clostridium granti...
API88708  161 EFSyeKSKFVGes--htIFTGtat-ggAEGPNIIKKNGYYYLICAEGGTGRHHSIVVARSRqltGPYELSPYGTLITSFh 237 Marinilactibacillu...
KRF26516  171 EVT--AAGVVGee--rlIFSSee---lLEGPNLYHHDGWFHLMLAEGGTGWNHGIRIAKSRsleGPYEVDPEPLLTTRDs 243 Phycicoccus sp. So...
SKB73065  162 ELDtdGTSTISep--qvIHRRve---lVEGPNMYFIGGYFYLMLAEGGTGSNHGIAMMRARdmfGPFEEDPRGPVLTSRd 236 Arthrobacter sp. 3...
ARB22340  162 EYSpqTRSVVGyp--qrIWRGgtdrgcIEAPHLTRRGDYYYLMVAEGGTGYGHAVTMARATqvaGPYEGDPQNPIVTSWp 239 Klebsiella oxytoca
OQM55322  162 EYDpeTEHVVGyp--krIWRGatdrgcIEAPHLTKRDGWYYIMCAEGGTGYNHAVTMGRSRnvwGPYEPDPKGPLVTSQp 239 Bifidobacterium de...
ORI90814  163 EFNfeKQKIVGsw--hrVTTGftsrgaAEAPIIYKRNGYYYLMIAAGGTGYAHGVEIGRSKdifGPYESHPSGEPIITSs 240 Leuconostoc mesent...
Feature 1                                                                                     
3C2U_A    238 ev------------------hnpLQKCGHASLVETqNGQWYLAHLTGRPLpapagfpsrereqhafCPLGRETAIQKIEW 299 Selenomonas rumina...
EPJ37425  236 pd-------------------vpLQKAGHGELVETpDGQWLLGHLTARPLhtpr---------grrCPLGRETAIQAVTW 287 Streptomyces afgha...
OOM82276  239 kd-------------------tiLKKSGHGNFVETdDGEWYMTHLCARYLnnk-----------dvCVLGRETALQKLEW 288 Clostridium puniceum
SHH45456  240 edfnergvees-mkihrfnpesyLQRAGHGNIVETqNGEVYVTHLCSRPIlpe-----------irSILGRETAIQKCRW 307 Clostridium granti...
API88708  238 dm------------------gnpLQKAGHGNIIQSyEGRWYLVHLTSRYIseq----------srvCQLGRESAIQEIIW 289 Marinilactibacillu...
KRF26516  244 pg-------------------wpLQKAGHGELVRDpDGGWAIVHLASRPLmskr---------glvCVLGRETCVQPVVW 295 Phycicoccus sp. So...
SKB73065  237 sp------------------thaLQKAGHGEIVVDqDGTLFLAHLASRWLpkdg---------rrySILGRETCIQRLAM 289 Arthrobacter sp. 3...
ARB22340  240 enfnarhdadh-lkphyfnpqtyLQKAGHGSYVETpTGEVWLTHLCSRPFrqa-----------lrCPLGRETAIQKMVW 307 Klebsiella oxytoca
OQM55322  240 kesneradddh-lkpryfnpesiLQKSGHGSYVDLpNGETYLVHLTSRPFvpe-----------lrCTLGRETAIQKMTW 307 Bifidobacterium de...
ORI90814  241 pehlfslgdpdagqfemynpnsnIQKSGHGSLVETpNGEWYVAHLMSRPLpgt-----------tlNPLGRETGIQKVNW 309 Leuconostoc mesent...
Feature 1             
3C2U_A    300 Q-DGWPVV 306 Selenomonas ruminantium
EPJ37425  288 DaEGWPRL 295 Streptomyces afghaniensis 772
OOM82276  289 I-DGWPRM 295 Clostridium puniceum
SHH45456  308 TkDNWLEL 315 Clostridium grantii DSM 8605
API88708  290 Q-DGWPRL 296 Marinilactibacillus sp. 15R
KRF26516  296 E-DGWLRL 302 Phycicoccus sp. Soil803
SKB73065  290 TaDQWLRL 297 Arthrobacter sp. 31Cvi3.1E
ARB22340  308 SdDGWLRM 315 Klebsiella oxytoca
OQM55322  308 TdDGWLRM 315 Bifidobacterium dentium
ORI90814  310 TaDGWLQM 317 Leuconostoc mesenteroides subsp. mesenteroides

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