2CB3,1LBA,1OHT,2F2L,1Z6I,2EAX,1SXR,1YCK,2R2K,2BGX,1YB0,2RKQ,1TWQ


Conserved Protein Domain Family
PGRP

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cd06583: PGRP 
Click on image for an interactive view with Cn3D
Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20 kDa) extracellular proteins; intermediate PGRPs (PGRP-I) that are 40-45 kDa and are predicted to be transmembrane proteins; and long PGRPs (PGRP-L), up to 90 kDa, which may be either intracellular or transmembrane. Several structures of PGRPs are known in insects and mammals, some bound with substrates like Muramyl Tripeptide (MTP) or Tracheal Cytotoxin (TCT). The substrate binding site is conserved in PGRP-LCx, PGRP-LE, and PGRP-Ialpha proteins. This family includes Zn-dependent N-Acetylmuramoyl-L-alanine Amidase, EC:3.5.1.28. This enzyme cleaves the amide bond between N-acetylmuramoyl and L-amino acids, preferentially D-lactyl-L-Ala, in bacterial cell walls. The structure for the bacteriophage T7 lysozyme shows that two of the conserved histidines and a cysteine are zinc binding residues. Site-directed mutagenesis of T7 lysozyme indicates that two conserved residues, a Tyr and a Lys, are important for amidase activity.
Statistics
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PSSM-Id: 133475
View PSSM: cd06583
Aligned: 289 rows
Threshold Bit Score: 51.5206
Threshold Setting Gi: 170017387
Created: 8-Jan-2008
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 13 residues -Click on image for an interactive view with Cn3D
Feature 1:substrate binding site [chemical binding site]
Evidence:
  • Structure:2CB3_B; Drosophila PGRP-LE binds Tracheal Cytotoxin (TCT), contacts determined at 3.5A
    View structure with Cn3D
  • Structure:1TWQ_A; Human PGRP-Ialpha binds Muramyl Tripeptide (MTP), contacts determined at 3.5A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                ##                                    #   #                  #         #
2CB3_B        28 PVKYVVILHTATEssek---rainVRLIRDMQSfhie-----srgwNDIAYNFLVGCdg-----nIYEGR---GWKTVGA 91  fruit fly
ZP_01462990  546 DYTTVVIHHSGNGg----------ETNPKEIESkhmt-----ekgwEDVGYHYLIPPsg-----vIYEGR---DLRYKGS 602 Stigmatella aur...
NP_794385     68 DYTMIALHHAGRSvgc-----glgAEQMRDIQKehq-------akfDDIGYHYGIDCmg-----kVFEGR---DIRFKGS 127 Pseudomonas syr...
YP_001511722  29 SKQYIVIHHAGDAndnivkvypdeKAAMKRYQEihmd-----sngwADIGYHYCVGIkg-----tILQGR---NDTKEGV 95  Alkaliphilus or...
YP_001922420 117 KPTLLVFHHTASSnlt-----ptkIHEMHMAKKw------------SGIGYHFYIRKdg-----tVYRGR---PEEAIGA 171 Clostridium bot...
NP_833366     19 KVNKLIIHHTAEDgw--------dVYKTHEFHQtvr--------gwSGIGYNYFIEKdg-----tVVEGR---GLHIGAH 74  Bacillus cereus...
YP_847868    140 QWKYIIIHHTATDig--------nASLIDRTHEdrg--------fwYGLGYHFLIDNgtlgkgdgQIEASprwVKQQCGA 203 Syntrophobacter...
NP_822105    704 VYRWITIHHSADPvt-------ytHEGPRTIQRahfa------ddkADIGYHYIIDGag-----tIYEGR---PLGIEGS 762 Streptomyces av...
ZP_01856689   53 DWEYIVIHHTASS-----------TGSVESIHElhskkkdksgnswLGIGYHFVIGNgngm-pdgAIESTfrwREQMHGA 120 Planctomyces ma...
NP_561481     88 SPKRLIIHHSATDs----------PETPEDIHKfhld------ngwSGIGYHFYIREdg-----tIYKGR---DENVIGA 143 Clostridium per...
Feature 1        #      #                                                                     #  
2CB3_B        92 HTLg--YNRISLGISFIGCfmke-----------------------lptADALNMCRNLLARGVEDGhistdyRLICHCQ 146 fruit fly
ZP_01462990  603 HVEk--ANTQKIGILVMGDfesnwwd-----------------addeptAAQLTSAGELILTLKLEFkt--ltLLGGHRD 661 Stigmatella aur...
NP_794385    128 SVHn--YNTGVIGIVLLENlttaeeggdvvalarqaletlngnmdqkipAVQIDALLTLIHALTSVFkv---tTLGGHRE 202 Pseudomonas syr...
YP_001511722  96 HTPg--YNYCSIAVMIHGNydir-----------------------sltSTQKSKLVSLLAWLCYTNnis-psKIYGHGD 149 Alkaliphilus or...
YP_001922420 172 HIKg--QNKNTLGICIEGNleee-----------------------qptEQEIEALEKLSTYLIIKYni---yGVQGHGD 223 Clostridium bot...
NP_833366     75 AKD---HNRHTIGICMTGNfdky-----------------------dptPAQVNALYSLCKMFMKQFaik-keNILGHRE 127 Bacillus cereus...
YP_847868    204 HCKaggMNDKGIGIALVGNfnee-----------------------qpsSSQLRSLDYLLKTLMDYYrip-agRVVGHRD 259 Syntrophobacter...
NP_822105    763 HAEl--FNAGNLGIVLTGDfgprwqnq--------------warydhptPKQLTTLDVLVDVLAVRFgi---sSVWGHQP 823 Streptomyces av...
ZP_01856689  121 HAGnnkYNQHGIGICLVGNfene-----------------------ppsEAQLAAVKKLVGVLKAEYnin-sdHVQGHRD 176 Planctomyces ma...
NP_561481    144 HAKn--ANYNTLGICIEGNfeke-----------------------glkEAQKNSLVKLGTYLSLKYpi---kDILPHRE 195 Clostridium per...
Feature 1         #        ###    
2CB3_B       147 CNS-------TESPGRR 156 fruit fly
ZP_01462990  662 YKTt------TECPGDI 672 Stigmatella aurantiaca DW4/3-1
NP_794385    203 FPMqag--egKICPGNI 217 Pseudomonas syringae pv. tomato str. DC3000
YP_001511722 150 LAS-------SSCPGSS 159 Alkaliphilus oremlandii OhILAs
YP_001922420 224 TYD-------TLCPGEN 233 Clostridium botulinum E3 str. Alaska E43
NP_833366    128 LEGv-----tKSCPGNR 139 Bacillus cereus ATCC 14579
YP_847868    260 VDGa-----aTDCPGRR 271 Syntrophobacter fumaroxidans MPOB
NP_822105    824 RKKqsrapasTQCPGEY 840 Streptomyces avermitilis MA-4680
ZP_01856689  177 VKA-------TACPGKY 186 Planctomyces maris DSM 8797
NP_561481    196 VVD-------TLCPGKL 205 Clostridium perfringens str. 13

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