3N0X,3NND


Conserved Protein Domain Family
PBP1_SBP-like

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cd06328: PBP1_SBP-like 
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periplasmic substrate-binding domain of active transport proteins (substrate binding proteins or SBPs)
Periplasmic substrate-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Statistics
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PSSM-Id: 380551
Aligned: 22 rows
Threshold Bit Score: 327.72
Created: 11-Jan-2008
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
putative ligandtetramer
Conserved site includes 9 residues -Click on image for an interactive view with Cn3D
Feature 1:putative ligand binding site [chemical binding site]
Evidence:
  • Comment:based on sequence similarity to the periplasmic Leu/Ile/Val-binding protein with bound valine

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                     
3N0X_A      6 KIALIYGKTGpleaYAKQTETGLXXGLEYATk------------------GTXTLDGRKIVVITKDDqskpDLSKAALAE 67  Rhodopseudomonas p...
3NND_B      8 KIALIYGKTGpleaYAKQTETGLXXGLEYATk------------------GTXTLDGRKIVVITKDDqskpDLSKAALAE 69  Rhodopseudomonas p...
ODU94620   58 KIGMIYPRTGplsaYGEEYRQGLEAGLAFVTh------------------GTGKVDGKQIEVDWKDGagnpSQAVSQAKT 119 Rhodanobacter sp. ...
AJB42096   36 VIGIVTDRTGalsyYGDMSINGFILGLMYALeipsfetvtpnlewklnwqGKTIHIIAATNVPAGQQipdpATATKAAED 115 Thermofilum carbox...
ADG87145   40 KVGVLTSTSGlvagYGKQFIEGFKAGLDHATk------------------GTGEVAGRKIEVTYHDDagdpAKATAEATD 101 Thermobispora bisp...
OJV95976   99 VIGLITSRTGayaaYGEMLERGFMLGLNYYTq------------------GTNKINGHEVKVLIEDDssdpDKAVAAARK 160 Chloroflexi bacter...
SED03535   22 HVGVTTSLTGsfgtYGNMIKDGLEAGLYCSTd------------------GTNEVDGKPIEFVYADDggdpEQTLAAATR 83  Rhodococcus jostii
KFN39279   33 RVGRIDCFTGfleyMAKETQRGFELGIQYATn------------------GTNKINGRPIEIIKEDSqlnpQIARQKALK 94  Smithella sp. F21
SFI26839   50 TVGVITSETGplagYGKQYLDGFKAGLDYATd------------------GTNEVGGTTITVDYRDDagdpDTAVNLAKE 111 Hymenobacter sp. u...
SDN17991   39 SIGVVTDTSGpyahLGNSVIRGIKLGLAQSLdadte---------gladsNTVEGSGITVEILAEDSglaaDTGRQKARK 109 Haloarchaeobius ir...
Feature 1                  ###                      ###                                       
3N0X_A     68 AYQddGADIAIGTSSSaa-aLADLPVAEENKKILIVEPAVADQITGekwnrYIFRTGRNSSQDAISNAVAIGkq-----g 141 Rhodopseudomonas p...
3NND_B     70 AYQddGADIAIGTSSSaa-aLADLPVAEENKKILIVEPAVADQITGekwnrYIFRTGRNSSQDAISNAVAIGkq-----g 143 Rhodopseudomonas p...
ODU94620  120 LIGq-GYKILAGPADSav-aLQVAAVAAQNKVLFISGPAAVDQITGin--rYTFRSGRQTWQDVKTAAAIMDapa----g 191 Rhodanobacter sp. ...
AJB42096  116 LIQnkGAEILVGCSDSps-aIALTQIAQKYKVVFLVVPAADHEITKtylnrYVFQISSTTWHDAIAGGTFATtl-----g 189 Thermofilum carbox...
ADG87145  102 LIGk-GYKILTGTVSSgv-aMQLAPLAGQNKVLYIAGAAAADGVTGsn--aYTFRSGRQTWQDVKAAEGLAGgvq----g 173 Thermobispora bisp...
OJV95976  161 LVQqeGAEILVGTPGSpaaqAVSAVNDTELKKIFMATPVADPSLAGlsfsrYLFRLSSSPDQAVMTGATYAAtlasatrn 240 Chloroflexi bacter...
SED03535   84 MVGd-GINILTGTTSSaa-aVQLGHFAEQQNLLYISGAAGIDDVTGln--aNTFRASRQAYQEAAALSSVLEkt-----n 154 Rhodococcus jostii
KFN39279   95 LIDqdKVHFLVGAVSStd-tLALQPLAGKEKVPLIVTGATATSITGanwnkYTFRVNRNNLQDAITWGHALGap-----g 168 Smithella sp. F21
SFI26839  112 LIGe-GVNILAGSASSgv-aLAVAEQAAQNQVLFLSGPAAADAVTGin--dYTFRTGRQSAQDVATAGTFLDdis----g 183 Hymenobacter sp. u...
SDN17991  110 LVQsdEVDILQGSVSSsv-aAAVQDVATDASTPMFVDTAAATSLTGencnkYTFRTSQTTYQDALAGGQYAAenl----g 184 Haloarchaeobius ir...
Feature 1                #                                                         #          
3N0X_A    142 vTIATLAQDYaFGRDGVAAFKEALaktgATLATEEYVpt-tTTDFTAVGQRLFDAlkdkpgkkIIWVIWAGgg--dPLTK 218 Rhodopseudomonas p...
3NND_B    144 vTIATLAQDYaFGRDGVAAFKEALaktgATLATEEYVpt-tTTDFTAVGQRLFDAlkdkpgkkIIWVIWAGgg--dPLTK 220 Rhodopseudomonas p...
ODU94620  192 kHVLVFAQDYaFGQANAAAVKAVLga-eGAHVTNLLVpl-tTTDFTPFAQKITNAkp-----dLLFVAWAGtsaypMWNT 264 Rhodanobacter sp. ...
AJB42096  190 kTVAFLAPSNsWGRSTVDAWSTIIqqkgGSVVAAIYApv-tTTDFTPYIQSLLASka-----eVFIPVWSGataltLYQQ 263 Thermofilum carbox...
ADG87145  174 kKVMVFAQDYaFGQANVDAVKAVLgeagGATVTPVLVpl-kTTDFTPFARQIVDAkp-----dLVFVAWAGdtapnMWRT 247 Thermobispora bisp...
OJV95976  241 eRIASFYPATpAGQSLNTTWKEAAlatdDNISWVEVAvpttATDFTTYIQKVLNAnp-----dVLVLNWSGsttakLYLQ 315 Chloroflexi bacter...
SED03535  155 kKTVVLAQDYaFGQQYASTVTGILes-sGSEVEKVLVpl-dTNEFTPYARRISELkp-----dLLIVVYYGdgapsMWQA 227 Rhodococcus jostii
KFN39279  169 lKVALLAEDTaAGHEAMDALKKVLvqkgSKLVYEAYAsh-tTTDFTPILQKIVAAkp-----aFCALWWAGan--sPWNQ 240 Smithella sp. F21
SFI26839  184 kTVTVFAQNNaFGQGNEAAVKAILgg-kGATVNSVLVae-dVTEFTPFAQQVLTAqp-----dLVFVAWAGatsgaMWQA 256 Hymenobacter sp. u...
SDN17991  185 sSFYFVGADYsWGHDSVAQWKSVIeengGSAAGESFVsp-gTSNYTPYLQNAEESga-----dSIVVALTGtdgirFSRD 258 Haloarchaeobius ir...
Feature 1                         #                                                           
3N0X_A    219 LQDXDPKRy-gIELSTGGNILPalaa---ykrLPGXEGATYYYYDI-PKNPINEWLVTEHQKRFNapp------------ 281 Rhodopseudomonas p...
3NND_B    221 LQDXDPKRy-gIELSTGGNILPalaa---ykrLPGXEGATYYYYDI-PKNPINEWLVTEHQKRFNapp------------ 283 Rhodopseudomonas p...
ODU94620  265 LDQQGIFDh--TTVVTGLGNVAtyga--ygpaTTKLRFLSYYFPDA-PDNAVNAAMKDLITKAGGtp------------- 326 Rhodanobacter sp. ...
AJB42096  264 INASGVYQk--MKVTSGIPDLAtlnllkmglyLPNYKGMMKYAWNLpQNNPVNDWLVSKYVELYKkkalptmgsvllafp 341 Thermofilum carbox...
ADG87145  248 LAQQGVFDv--TKVVTTLADRAtfgs--fgpaGDKIDFVAHYFAEA-TDNEPAKALASALGTTADi-------------- 308 Thermobispora bisp...
OJV95976  316 MQAKNVFSe--IDTISPVGDGTslka--agddLIGTLGVSSYWYQF-PKTAENDALVKAFKDKYNtfp------------ 378 Chloroflexi bacter...
SED03535  228 MSQQGILDt--TTVASVLVEKShwsi--ygdaAEKINFVTHYYPGA-PGGEMNECLTERVPDADL--------------- 287 Rhodococcus jostii
KFN39279  241 MIEAFKPAn--IKISTSTLDIAhlaly-lnvtDRLGRLFCLYYYDI-SKNPINDWLIKNYQAAYGmpp------------ 304 Smithella sp. F21
SFI26839  257 MSQQGVLDd--IPVVTGLGDTAtfga--ygeaSERISFLNHYFAGA-PDNDVNAAMVEAVEAAGGtp------------- 318 Hymenobacter sp. u...
SDN17991  259 LADFGTDFevtATGVTTVPWMQqvg-----taATGFSGIPKYFWPF-PDNSTNDWIIEQYSSQWNavp------------ 320 Haloarchaeobius ir...
Feature 1                                                                       
3N0X_A    282 --dfFTAGGFSAAXAVVTAVQkakst---dteklIAAXEGXEFDTPKGKXVFRKeDHQALQSXYHF 342 Rhodopseudomonas palustris
3NND_B    284 --dfFTAGGFSAAXAVVTAVQkakst---dteklIAAXEGXEFDTPKGKXVFRKeDHQALQSXYHF 344 Rhodopseudomonas palustris
ODU94620  327 --dlFSPDGFVAAQMIAHAVEatqgsg--dvdgmIKALEGWSFDAPKGRQTIRAsDHAMLQPEYVA 388 Rhodanobacter sp. SCN 66-43
AJB42096  342 lpdlFVGEGFVAGHALGLALKktggst--dseklINALEGLTFTSVKGDIKIRKeDHRTVQDMYIA 405 Thermofilum carboxyditrophus 1505
ADG87145  309 ----FHTDGFTAAQMVVRAIEqggdd----vekmITALEGWTFTSPKGEMTIRAeDHALLQPMFHA 366 Thermobispora bispora DSM 43833
OJV95976  379 --dlYVPDGFAAFSAIQAALArtggdt--dpeklIPALEGMSFATPKGKETFRKeDHLALQPMYIV 440 Chloroflexi bacterium 54-19
SED03535  288 ----STHDGFVAAQQIVHAIStagpd---dvegmIEALNGWSFEAPKGPMTIRSgDHALLQDMYLV 346 Rhodococcus jostii
KFN39279  305 --tySTEVGMAGALLMCEALKktngnt--dpdalVAAMEGLKFETAKGTRIMRAeDHTALQEMYVV 366 Smithella sp. F21
SFI26839  319 --dlFTPDGFNAALMLVHAIEegkgd----vdamISALEGFEFDGPKGAMMVRAsDHALLQEMYQV 378 Hymenobacter sp. unc380mfsha3.1
SDN17991  321 --siFTAGAHAAGYAIGQGMQsagsndadplieqWHGMTIEKTARGDGAYTIREcDHQAEFPMYLG 384 Haloarchaeobius iranensis

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