1TM2,1TJY,3D02,4WZZ,5BRA,5GTA


Conserved Protein Domain Family
PBP1_LsrB_Quorum_Sensing-like

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cd06302: PBP1_LsrB_Quorum_Sensing-like 
Click on image for an interactive view with Cn3D
periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs
Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type 1 periplasmic binding protein superfamily. LsrB, which is part of the ABC transporter complex LsrABCD, binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding protein in interspecies signaling.
Statistics
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PSSM-Id: 380525
Aligned: 31 rows
Threshold Bit Score: 257.941
Created: 21-Jul-2006
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
ligand binding
Conserved site includes 14 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Structure:1TJY; Salmonella typhimurium LsrB binds R-ThmF (autoinducer-2), contacts at 4A
    View structure with Cn3D
  • Structure:4WWZ; Lachnoclostridium phytofermentans rhamnose-binding protein binds alpha-L-rhamnose, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1           #     ##                                                                  
1TM2_A      5 RIAFIPKlvgvgFFTSGGNGAQEAGKa-----lGIDVTYDGpte--psvSGQVQLVNNFVNqGYDAIIVSAVSPDGLCPA 77  Salmonella typhimu...
1TJY_A      5 RIAFIPKlvgvgFFTSGGNGAQEAGKa-----lGIDVTYDGpte--psvSGQVQLVNNFVNqGYDAIIVSAVSPDGLCPA 77  Salmonella typhimu...
4WZZ_A     56 TYAIIVKsagnpYNQKESEGYKQVIEa-----nGGKCVIQEpks--ataEDQITCINNAISqGVDCIAIAANDTDALEPA 128 Clostridium phytof...
5GTA_A     29 RIAFIPKlvgvgFFTSGGNGAQEAGKa-----lGIDVTYDGpte--psvSGQVQLVNNFVNqGYDAIIVSAVSPDGLCPA 101 Salmonella enteric...
AEF81223   31 KIAMLPKfkgenYFDAVKVGAQEAVDelnkggaGIQFLYDGptqdqatnQKQVDILEGWIAqKVSVIIVSPNDPTAIAPT 110 Treponema azotonut...
CEK19903   46 KIVFVFKvggisYSDACKAGAEQANNdp---qiDATVEYEApdq--asaGKQAEIIDQARVgGANAIVVSPDDAQAVVPA 120 Chthonomonas calid...
SCJ80969   81 KIAVLPKmkgenYWDACQVGAEDAAKelkdagyDVELLYDGppqdqatnQKQVDLLEGWIAqGVDAVAVGCVDASAISPT 160 uncultured Clostri...
ODT20705   22 TIAVVPLalghpWWVRAEEGAKRAAEe-----lGIEVVFTAper--edaARQVDVFNDVINnGADAIVIAAVDPATLARP 94  Kaistia sp. SCN 65-12
OHD71982   21 KLYYVPKftgfiFFELAGQGAKKACDe-----lGVDMVTLGttq--ndvEGYVQILQNLVPqKPQIMVTTSSDANAPVPV 93  Spirochaetes bacte...
SHE24368   49 KILMIPKytglkYFDVSGDGGRAAAEa-----lGVQYDYIGsqe--ataTAQSTTITNAIAqKPSAMVVSAIDEDAVAPA 121 Actinomyces glycer...
Feature 1                   #             #                                         ##  #     
1TM2_A     78 LKRAMQrGVKILTWDsdtkpecrsyYINQGTPKQLGSMLVEMAAhqv------dkEKAKVAFFYSsptvtDQNQWVKEAK 151 Salmonella typhimu...
1TJY_A     78 LKRAMQrGVKILTWDsdtkpecrsyYINQGTPKQLGSMLVEMAAhqv------dkEKAKVAFFYSsptvtDQNQWVKEAK 151 Salmonella typhimu...
4WZZ_A    129 LTEAKNqGIHVLSLDsatnansrkvFVNQAGTTQIAQALXDAILdi-------sgGSGDWAVLSAastatNQNAWIDGXK 201 Clostridium phytof...
5GTA_A    102 LKRAMQrGVKILTWDsdtkpecrsyYINQGTPKQLGSMLVEMAAhqv------dkEKAKVAFFYSsptvtDQNQWVKEAK 175 Salmonella enteric...
AEF81223  111 LKRAQSqGIKVLTYDadaqadardlFVNQVVSAGVAQGLVKSMAdklqakgygpsKTANLAIVSSaktdaNQQEWLAEVK 190 Treponema azotonut...
CEK19903  121 LDKAADaGIQTFTWDsdapaskrkfYVAAVDDVQIGVEIADALAka-------igGKGKVLIFSGqrtaqNLNKHVEGML 193 Chthonomonas calid...
SCJ80969  161 LKKAQEkGIKIVTFDsdsepdardlFINQASYEGVAKALVENAAaelkekgygpeNPVNIAIMGQtktdtNVEAWNSNIQ 240 uncultured Clostri...
ODT20705   95 ISKAIKdGVPVFGFDigapgtdaiyTASGWEAVSSGTNIAKGLAee-------igGKGKVAILTGglgspLLAKRQKAIE 167 Kaistia sp. SCN 65-12
OHD71982   94 LKKMKAaGATIVTFDspvgkggqdlYVNMAPYRVQAIAELESALyn-------npKGGKVIWLAPspnitLFNKVKEEID 166 Spirochaetes bacte...
SHE24368  122 LKSAMEaGIKVVTYDadsavdsrsvFVNQLSYELAASSMLDSALqn-------dpEGGLCAFVSAsptatNHKKHVELMK 194 Actinomyces glycer...
Feature 1                                                          ###                        
1TM2_A    152 AKisqe-----hpgwEIVTTQFGYNDaTKSLQTAEGIIKAYP----DLDAIIAPDANALPAAAQAAENLkr----nnLAI 218 Salmonella typhimu...
1TJY_A    152 AKisqe-----hpgwEIVTTQFGYNDaTKSLQTAEGIIKAYP----DLDAIIAPDANALPAAAQAAENLkr----nnLAI 218 Salmonella typhimu...
4WZZ_A    202 TVxqdsk----ysklNLIGVYYGDDEyQASCDQTEAILAADP----NIKVICAPTTVGIXAAAKVLQDKgls---gkVKL 270 Clostridium phytof...
5GTA_A    176 AKisqe-----hpgwEIVTTQFGYNDaTKSLQTAEGIIKAYP----DLDAIIAPDANALPAAAQAAENLkr----nnLAI 242 Salmonella enteric...
AEF81223  191 KLlassqyswmvirnEDTDVYYPGPDeTNNLTQSGTVIGRMGpgadQIQGAIGLTSMSVPALGSQYEAAsqkpdptkVAI 270 Treponema azotonut...
CEK19903  194 EGfkky-----pgitVAQPIYYNDDDkTKAVALAVQALQANP----DAVGIACANSVSPPAAGEALRKLgrv---gkVKV 261 Chthonomonas calid...
SCJ80969  241 ELiktdeynwmklqnPDSDIYYPGADeVETQTQAGTLISRMGegadKIQCAFGITSMTAPALGSQYEAStnkppvdkIVL 320 uncultured Clostri...
ODT20705  168 DTlasy------pdiEVVGVYASDNDfAVALGQAESVLQAHP----DLAGFASVVTTGVPASVQAAVNAgkq---gkVAI 234 Kaistia sp. SCN 65-12
OHD71982  167 NLvktvp---kykvfQFVDTLYMADDpDKAYSVTTSAMEAHP----DLAGFISSSGMSNPASNKAIQDTgrt---gkVYS 236 Spirochaetes bacte...
SHE24368  195 QLidsdek--ysslsYIDTVQYAEDDaTKSEEIARNLMQANP----DLKFIISSSVVTTPAAAKAIENAgrq---geVFA 265 Actinomyces glycer...
Feature 1       #                        ##                                                   
1TM2_A    219 VGFSTPnvm--rpYVQRg---TVKEFGLWDVVQQGKISVYVANAllknmp----mnvgdSLdip-----giGKVtvspns 284 Salmonella typhimu...
1TJY_A    219 VGFSTPnvm--rpYVQRg---TVKEFGLWDVVQQGKISVYVANAllknmp----mnvgdSLdip-----giGKVtvspns 284 Salmonella typhimu...
4WZZ_A    271 TGLGLPsex--adYIGDddqhSCPYXFLWNPIQLGNLAAYASISlvngti---tgaadqSFtvpdktlgdnGSYkitaa- 344 Clostridium phytof...
5GTA_A    243 VGFSTPnvm--rpYVQRg---TVKEFGLWDVVQQGKISVYVANAllknmp----mnvgdSLdip-----giGKVtvspns 308 Salmonella enteric...
AEF81223  271 TGLATPnaiksyiKSSSn---PLDAGVLWNCMDLGYLAIQSGYQmskgt------itgsSAsvt-----agRLGakd--- 333 Treponema azotonut...
CEK19903  262 WGLALPset--rtYLKDg---SVTGLYLWDPTKLTYYTAYLVRQalkg-------dmpkDGekl-----pgLAQpir--- 321 Chthonomonas calid...
SCJ80969  321 TGVATPnalksyiLNEQn---PLKFGVLWNTMDLGYLAVQAAYQlatgd------itadSTqmt-----ttRLGass--- 383 uncultured Clostri...
ODT20705  235 WGVAMPkqn--aeAVKKg---WAKGALALDPGQMTYLGVLMAHRyatag------klpaEGddy-----awAGKpvi--- 295 Kaistia sp. SCN 65-12
OHD71982  237 TGMALPstm--etFLRDg---VNKQFALWSPYWFGYMSAWLAINihrgdlkvqdgkvvdVPnvg-----krKMYmtp--- 303 Spirochaetes bacte...
SHE24368  266 PGFSMPssm--tqFIEDg---TAKAFALWDPAQLGQVAVEVAHQlvagti----tgaegEKatv-----egVGEfei--- 328 Actinomyces glycer...
Feature 1                                 
1TM2_A    285 eqgyhyeakgnGIVLLPeRVIFNKDNID 312 Salmonella typhimurium LT2
1TJY_A    285 eqgyhyeakgnGIVLLPeRVIFNKDNID 312 Salmonella typhimurium LT2
4WZZ_A    345 -------adggTEIILGaPFKFEPSNIA 365 Clostridium phytofermentans ISDg
5GTA_A    309 eqgyhyeakgnGIVLLPeRVIFNKDNID 336 Salmonella enterica subsp. enterica serovar Typhi
AEF81223  334 --------ianKMVVLGpALVFDAANVD 353 Treponema azotonutricium ZAS-9
CEK19903  322 --------vngPIVTLPlRITITKDNVD 341 Chthonomonas calidirosea
SCJ80969  384 --------ingGEVLLGdPLVITKDNVE 403 uncultured Clostridium sp.
ODT20705  296 --------daaNKMAYVpDTRLTPENID 315 Kaistia sp. SCN 65-12
OHD71982  304 --------devMYTDLNmMLFFRKGHET 323 Spirochaetes bacterium RBG_16_67_19
SHE24368  329 --------ladGELDVDmPIIFTADNIG 348 Actinomyces glycerinitolerans

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