Conserved Protein Domain Family
PBP1_Repressors_Sugar_Binding_like

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cd01537: PBP1_Repressors_Sugar_Binding_like 
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Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems
Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangements may have originated from a common ancestor.
Statistics
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PSSM-Id: 107250
View PSSM: cd01537
Aligned: 69 rows
Threshold Bit Score: 89.7382
Threshold Setting Gi: 149242062
Created: 1-Jul-2004
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
ligand binding
Conserved site includes 11 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site
Evidence:
  • Structure:1JWL; Escherichia coli LacI bound to 2-nitrophenyl-beta-fucoside, contacts calculated at 3.5 A.
    View structure with Cn3D
  • Structure:1GLG; Escherichia coli glucose/galactose binding protein complexed with D-galactose, contacts calculated at 3.5 A.
    View structure with Cn3D
  • Citation:PMID 8161535

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                      ##  #                                                    #       
1JWL_A       63 LIGVATssl---alhAPSQIVAAIKSRAdq-------lgASVVVSMversgveacktAVHNLLAqRVSGLIINyplddqd 132
1TM2_A        5 RIAFIPklv---gvgFFTSGGNGAQEAGka-------lgIDVTYDGptepsvsgqvqLVNNFVNqGYDAIIVSavspdgl 74
2FQW_A        6 VVGMVTdsgdiddksFNQQVWEGISRFAqe-------nnAKCKYVTastda--eyvpSLSAFADeNMGLVVACgsflvea 76
2H3H_A        3 TIGVIGksv----hpYWSQVEQGVKAAGka-------lgVDTKFFVpqkedinaqlqMLESFIAeGVNGIAIApsdptav 71
2HQB_A        7 XVGLLVedti-ddqgWNRKAYEGLLNIHsn-------ldVDVVLEEgvnse-qkahrRIKELVDgGVNLIFGHghafaey 77
gi 2507361   46 KLCALYpsl---kdsYWLSLNYGMQEAArry-----gvdLKVLEAGgysql-atqqaQIDQCKQwGAEAILLGssttsfp 116
gi 12721606  62 NVIFVAsdm---kngGVLGVIDGMKEATav-------agWKFDVLDgagsv-nnqlsALNQAIArKPDAIVIGgwnpnva 130
gi 14022391  44 RIALANgyi---antWRIQMVQTAKAYAaqkdvaaklkeFKVVSTGedvp---aqisAINNFIDsGYDAIVVNaqnptaf 117
gi 30018927  58 KIALIMqms---igtFSSQYIEGVKKQVel-------fgGSVQVYNsdndl-akmaaNLDTAINsKVDGILIDhgrseal 126
gi 52213503  34 KFDYIIhssa--sntFWQAVKKGMDEACtqv-----kaqCQMIFTQtegsv-seqasNLQAALAgKPDAIATTivddkai 105
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                        #                  #                                       ## #
1JWL_A      133 a-iaveaactNVPALFLDvsdq-------tpinSIIFSHe-dGTRLGVEHLValg----hqQIALLAGpls--svsARLR 197
1TM2_A       75 cpalkramqrGVKILTWDsdtkp-----ecrsyYINQGTpkqLGSMLVEMAAhqvd-kekaKVAFFYSspt--vtdQNQW 146
2FQW_A       77 v-ietsarfpKQKFLVIDavvqd-----rdnvvSAVFGQn-eGSFLVGVAAAlkakeagksAVGFIVGmel---gmMPLF 146
2H3H_A       72 iptikkalemGIPVVTLDtdspd-----sgryvYIGTDNy-qAGYTAGLIMKellg--gkgKVVIGTGslt--amnSLQR 141
2HQB_A       78 f-stihnqypDVHFVSFNgevkg------enitSLHFEGy-aXGYFGGXVAAsxs---ethKVGVIAAf------pWQPE 140
gi 2507361  117 ---dlqkqvaSLPVIELVnaida-----pqvksRVGVPWf-qMGYQPGRYLVqwah-gkplNVLLMPGpdn--aggSKEM 184
gi 12721606 131 kiplgkanknGITLVAWHatpepgpidkynifyNVTSDSd-qIAKLSAQLAVansd--gkaKVVILTDsly---eiALRK 204
gi 14022391 118 gpvikrakeaGVVLVAFDnildt------kdaiNVNVDQk-gLGELWGKWLVshvp--nggKVLEVRGvag--tsvDTDR 186
gi 30018927 127 kpgvekalqaNIPVVAFDndlrl------pgvtIIDQDDy-sLAWKSLKTLAedln--gqgNIAVVWVggf---apMERR 194
gi 52213503 106 epilkearnkGVTVLAANvdsskga-kgsvrqaFIGQGFd-aAGYALAQKLAekfp--ksgPVNVLVGisapgqnwSEQR 181
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                       
1JWL_A      198 LAGWHKYltrnq------iqpiAEREGdw--saMSGFQQTMQMLNegi-----vptAMLVandqmALGAMRAITESglrv 264
1TM2_A      147 VKEAKAKisqehp----gweivTTQFGyn--daTKSLQTAEGIIKayp-----dldAIIApdanaLPAAAQAAENLkr-- 213
2FQW_A      147 EAGFEAGvkavd-----pdiqvVVEVAntfsdpQKGQALAAKLYDsg-------vnVIFQvaggtGNGVIKEARDRrln- 213
2H3H_A      142 IQGFKDAikdse------ieivDILNDee--dgARAVSLAEAALNahp-----dldAFFGvyaynGPAQALVVKNAgkv- 207
2HQB_A      141 VEGFVDGakyxn------eseaFVRYVgewtdaDKALELFQELQKeq-------vdVFYPagdgyHVPVVEAIKDQg--- 204
gi 2507361  185 VEGFRAAiagsp------vrivDIALGdn--diEIQRNLLQEMLErhp------eiDVVAgtaiaAEAAMGEGRNLkt-- 248
gi 12721606 205 ANVMKDVieqc-------keckVLEFIdt--plADTSSRMPSLTFsllqkygddlqYTLAindlyFDFMAPSLRSAnkg- 274
gi 14022391 187 HNGIHEVldasg-----kkwavTEVVGkw--ddGVAQKASADAIAtng------pfDGVTgq-ggDTGIVQAMIDAkh-- 250
gi 30018927 195 NVIIDAFykrypn----ikevaRFGTAsnn-tpLDTQTQVEALLKkypkk--gdlqAIFAswdefAKGTVKALEQAgr-- 265
gi 52213503 182 GAGVMRFmadykaanpgrkitwKRIDSgt--dlAVTAERVGAYLNanp------dtTAYFdtgfwHAGVAKALKDRgvp- 252
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                #                      #                                               
1JWL_A      265 gadISVVGYDdtedss------cyippLTTIKQDfRLLGQTSVDRllqlsq----------------------------- 309
1TM2_A      214 -nnLAIVGFStpnvmrp---yvqrgtvKEFGLWDvVQQGKISVYVanallknmpmnvgdsldipgigkvtvspnseqgyh 289
2FQW_A      214 gqdVWVIGVDrdqymdgv-ydgsksvvLTSMVKRaDVAAERISKMaydgs------------------------------ 262
2H3H_A      208 -gkVKIVCFDttpdilq---yvkegviQATMGQRpYMMGYLSVTVlylmnkigvqntl---------------mmlpkvk 268
2HQB_A      205 ---DFAIGYVgdqadl------ggstiLTSTVQHvDDLYVLVAKRfqeg------------------------------- 244
gi 2507361  249 --pLTVVSFYlshqvyr---glkrgrvIMAASDQmVWQGELAVEQairql------------------------------ 293
gi 12721606 275 empYNISAGDgsvtayqr--irtnnhqFATVPEPlNLHGWQLVDElnraf------------------------------ 322
gi 14022391 251 --pFVPFGGEtengfrkfcaahaadglKCSSAGTgPAQVAVAIKTaiaale----------------------------- 299
gi 30018927 266 -tdIKVYGIDlsnedlql-mqkenspwTATAATDpAEVGKVQVRFlykkiag---------------------------- 315
gi 52213503 253 pgkILLGGFDivpdvln---smkagyiQVEVDQQpFLQGYLPVIQanlikk----------------------------- 300
                       330       340
                ....*....|....*....|
Feature 1                           
1JWL_A      310 -gqavkGNQLLp-----VSL 323
1TM2_A      290 yeakgnGIVLLp----eRVI 305
2FQW_A      263 --fpggQSIMFgledkaVGI 280
2H3H_A      269 vdgkvdYVIDTg-----VDV 283
2HQB_A      245 --klesGNLYYdfqdgvVSL 262
gi 2507361  294 -qgqsvSDNVSp-----PIL 307
gi 12721606 323 -akekpSGYITp-----AHL 336
gi 14022391 300 -gnvvpQSVKLp-----LAI 313
gi 30018927 316 eqtpdiYSLEPy-----LVK 330
gi 52213503 301 -yklsaWDVETg-----KGL 314

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