Conserved Protein Domain Family
PBP1_ABC_sugar_binding_like

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cd01536: PBP1_ABC_sugar_binding_like 
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Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily
Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2) receptors such as LsrB and LuxP which are highly homologous to periplasmic pentose/hexose sugar-binding proteins.
Statistics
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PSSM-Id: 107249
View PSSM: cd01536
Aligned: 206 rows
Threshold Bit Score: 54.9955
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 5 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Structure:1GLG_A; Escherichia coli periplasmic binding protein binds 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                      #                                                                 
1GLG_A         4 RIGVTIyky--ddnFMSVVRKAIEQDAka--apDVQLLMNDsqn-dqSKQNDQIDVLLAk---GVKALAINlvdpaaagt 75
gi 89210248   63 GVSVFCakts-ndhFNHHIEAGFNLAFnefkhfGVKYNLYWtstedpDKQVEKMYAVLEkd-kDIDGVIVMplnvekvke 140
gi 89210439   62 YIYAFVvksy-nekFNSEIIRGLKAAYrefknyGVKLKIVElgaeepERQFNQIEGFLDe--rQIDGIILTplmeqvke- 137
gi 145848057  69 KIGVILtpd--ynpFIHDIISGINRAKkefsafGIEVIIKLmts-ldPSEEIRIINDLTe--nGVSGMAVFpldhpnvya 143
gi 160934751  63 TIGCLLpsd--kitFFHDVIRGFFRAErelsdfGVSLRLKEvrg-ydPEIHLAALRELLa--eNVSALCVAtietpeita 137
gi 56911479   62 HVAVVYkey--payFWEQIETGIGQAElelrdyGVTVHRFRlpv-eaFTESPERIQEILad-dTIDAVAIAalgdais-- 135
gi 19715144   61 VYSFIVesr--nsyYTEQIKLGIKGAKkeykhyNLEIIEIVtni-nkPMEQVLKLKKLLnsdkQIDGIIIIpldktkil- 136
gi 149280061  68 RIAALIpavsnetgYWNAPLKGINEAAseirnfGVSADFYFfdq-nnKKTFRDQCAVILd--nGYDGILLApmfeeeamd 144
gi 88714224   65 KIAVLLpdsn-ldpYWKPARKGIKSAAqefkpfGVLVEEFLynp-ydKESFIHRSNEAMn--vDPDVVLMAplfqeesik 140
gi 146301924  52 HFAVFLpkse-tleYWQSQTDGIEKAAlefgkfGIVLDYFFyd--ynLASFKESVKKVMe--fDCDGLLFApifyedsvr 126
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                       #                                                                
1GLG_A        76 viekargqNVPVVFFNkepsrkaldsydkayYVGTDSkeSGIIQGDLIAkhwaanqgwdlnkdgqIQFVLLKGepg---h 152
gi 89210248  141 iarvckekNIEFGTVNmdidc-----ddrlfFVGNDDysGGRIAGDILSnll----------tgrGNIAIIGSvyq---y 202
gi 89210439  138 vikrfkdkNIPVATLDmdikg-----sernfFVGPNYykLGRVAAELMAkfi----------kkeGKILVISSsyd---f 199
gi 145848057 144 llnsliekGIAVITFNspape-----vkslcFIGQDHykGGRTAAGLMCkil----------pkdARIGIIISstk---l 205
gi 160934751 138 llnqtaaeGVPVAAINidlph-----vnrlfYIGSNYlaGGRTAGGLLSlma----------kgpVSLFVVAGssn---i 199
gi 56911479  136 --pylkasKKPICTFNvdaqn-----sgrlfYVGCDYysSGRLAAELVAklv----------paqGKVGVLLGgnh---d 195
gi 19715144  137 elinpyleRIKFITVSvfls-------kkiaYVGTDYqkCGRLAAELLTktl----------nsnDKVLVIDNgdd---n 196
gi 149280061 145 fldncakrDLPFVLINsdleh-----qprvaYIGPDLfqSGYLAGHLTKylv----------keaQQVLIVNIsreitfq 209
gi 88714224  141 vyelckerKVLLALFNnyids-----iqgefFIGQDLeqCGRIGANLIDkmv----------kkdYEIAIIHInme---- 201
gi 146301924 127 flkdyeskNIPIVMIDsnise-----enehaYVGQNAfqSGYLAGRLISfav----------kneRHVLIFKItreiest 191
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1             #                                                                          
1GLG_A       153 pdAEARTTYVIKElndkgikteqLQLDTAMWd-tAQAKDKMDAWLSgpnankieVVIAnndamAMGAVEALKAHnk---s 228
gi 89210248  203 vsSYKRLKGFMDIvmer--shldISTWQNVKd-lDEAYKITKQILKekt--dihGIFTtv-eiLYVARALKELGkr---- 272
gi 89210439  200 ysVRERLKGFLDKigey--shieTTGPYYEYs-lEKIYDITRRKFDke----itGIYTtf-gtEYAVKALVDMGin---r 268
gi 145848057 206 scHQQRLLGFQNKisetrpdikiVGISENQDk-kEDAFRITLEYCNklp--dldGIYItg-ggIAGVGSALDIIdds--e 279
gi 160934751 200 hsHHLRIEGFAQVmkeketaytlVDVQVTQDd-sEVAYEATKRVLQehp--einYIYIttsgsAPGVCRALEELerk--k 274
gi 56911479  196 yqAREKLQGFREGleefrlelckAVRLGESDl-pFQPGQQWQKEMAgl-----dGLYVat-aeLGNVAEFFSKYpkh--q 266
gi 19715144  197 isSKYYLNGFLDRannd---kmnIVGPIKKNg-vEESLQFLKTILKken---isSIFInr-yaQDILLELSDNIlkrqkn 268
gi 149280061 210 hhLLKKEEGFRAClaahdlsievGKVDINETs-yDAVQQRLLELFDlnk---pdLVFVtn-srVSSVARFLQENai---e 281
gi 88714224  202 phMQLKENGFRNYfkelgyqenkLTIKRFNTsnlANFENEVFSFIKtnp--nikAFFVtn-skVHLLVAELQKFkf---- 274
gi 146301924 192 svYQQRIKGFYSYfkdhdeltnfNFSEFTLKd-sGIDQLNLEMFSGv------nSIFVpn-srAYIVAEFLEKNni---k 260
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
Feature 1               #                   #                                         
1GLG_A       229 sIPVFGVDalpealalvksgALAGTVLNDaNNQAKATFDLAKnladgkgaadgtnwkidnKVVRVpYVG 297
gi 89210248  273 dVVLVGYDlnkkvksyikqgIINSVLYQRpFLQGYLALKYMLnyliye-------nttptKEVTIgYDI 334
gi 89210439  269 eVIVIANDlneeiedcvkkgYVQAIVYQRpFMQGYIAGKKMFdcifkn-------mtpskDKYFVgYDI 330
gi 145848057 280 nIHVICHDltegsihllqtqVVDFVLGQEpVNQGYLLIKTLFeylvk--------nitphKIIDIpVTI 340
gi 160934751 275 rVTVIAFDdnkenkrlmkegSIDVLLCQEsFRQGYDAINHLFyylvd--------gtvpkAEYFThTVI 335
gi 56911479  267 vAALVGHDmndliykhlrtqMIAATITQDpVSQGYLAIKKLFslmvle-------dedakQSTITkLEI 328
gi 19715144  269 iTTGIGNRirkl----imerKILATVADDvYSTGYKACQLMVdmlyke-------fgksvKKIILePQI 326
gi 149280061 282 gVQLIGYDfleeniaylkngTIDFLICQKpQEQGYRGLMSLYqhlis--------aptveQLQYMpIDI 342
gi 88714224  275 kCTVVGFDlldenikylengEIDFLIHQKpKRQAYLGVGYLAeyflf--------gkpvpTQRFLpIDI 335
gi 146301924 261 gVRIIGFDllkenieylnkgVIDFLINQRpEDQGYMGINYLYkklvl--------qedteRTHYIpLEI 321

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