Conserved Protein Domain Family
R_switched_Alx

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TIGR03718: R_switched_Alx 
integral membrane protein, TerC family
Rfam model RF00080 describes a structured RNA element called the yybP-ykoY leader, or SraF, which may precede one or several genes in a genome. Members of this highly hydrophobic protein family often are preceded by a yybP-ykoY leader, which may serve as a riboswitch. From the larger group of TerC homologs (pfam03741), this subfamily contains TerC itself from Alcaligenes sp. plasmid IncHI2 pMER610 and from Proteus mirabilis. It also contains the alkaline-inducible E. coli protein Alx, which unlike the two TerC examples is preceded by a yybP-ykoY leader.
Statistics
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PSSM-Id: 274743
Aligned: 47 rows
Threshold Bit Score: 344.119
Created: 9-Oct-2014
Updated: 25-Oct-2021
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
WP_011645603  13 PLWLWFSFLSLICVLLWVDLGLLNK-KDGVVSAKKSAIMWAcFASLAVAFGFYIYFGY----------------QP---- 71  Hyphomonas nept...
WP_015923336  16 PLWMWAGFMLAVVALLAFDLGVLHR-KTREIGVRESLLMSLvYISLGLGFGGLVWMQL----------------GA---- 74  Caulobacter vib...
WP_011136655  13 PLWTWLAFLAGVLALLAFDLGILQK-SGREIGVRDSLKLSAfYIGIGLAFGGWVWWYR----------------GA---- 71  Chromobacterium...
WP_011165445  12 YWWFYAGFIAFVIGMLALDLGVFHK-HSHTVSFKEATIWSIvWVSIAMLFNVGLYYYTlhlyp------enpaiAK---- 80  Bdellovibrio ba...
WP_003598912  14 PVWMWLGFHALVAGLLAFDLGLLHRdKNHEIGVKESLLLTAfYFTLGLAFGGWIWWML----------------GF---- 73  Methylobacteriu...
WP_011681995  11 YWWFYAAFSGFVLLVLAMDLGIFHR-KLHAVGFREALTWTAlWAALSLLFCLGLYWYV----------------GSrhgp 73  Candidatus Soli...
WP_011446836  12 PAWFWLAFLGLVVVLTAFDLGVLHK-EDKAMGIGESLKLTAfYITIALAFGAWVWVEK----------------GA---- 70  Novosphingobium...
WP_011194334   2 HNLELTAFFLFVIFATWLDLFVLHK-DDHDIGLKEATVTSLaWILLAVLFSGYVYYRY----------------GT---- 60  Symbiobacterium...
WP_011526594   6 siteiiifliiiVSCLWFDLHA-HK-SDKVISVKNAFLWSSiWISLALLFAIYIGCMF----------------GL---- 63  Lawsonia intrac...
WP_002809319   2 TVSIWIGVIALIIGLLVLDLIVLNR-GARIVCVKESLVWTVtWVALALCFNVFVYFLYennwlgwsdlashnasGQ---- 76  Nitrosococcus o...
WP_011645603  72 ----DpqfyndptnlnqqAAVQFATGYLLETALAFDNIFVIGMVFTFFAVPREYQHRVLFWGILGAIIFRGIFISLGAAI 147 Hyphomonas nept...
WP_015923336  75 ----T-------------AGVEYLTGFVIEKSLAIDNVFVIALIFGFFAIPPALQHRVLFWGVLGVIVLRAIMIGVGAAL 137 Caulobacter vib...
WP_011136655  72 ----D-------------AGVQYFTGYLLEKSLSLDNVFVISLIFGSMAVPRAYQHRVLFWGILGAILMRALMIGAGAAL 134 Chromobacterium...
WP_011165445  81 ----Q-------------VGLEFLTGYVIEKSLSIDNIFVFVVVFGFFSIPPKYQHRVLFYGILGALIFRAIFIALGSVL 143 Bdellovibrio ba...
WP_003598912  74 ----D-------------PAQEYVTGLVIEKSLSMDNVFVIAVILTSLGVPRAAQHRVLVWGILAAVLLRGLMIGLGSAL 136 Methylobacteriu...
WP_011681995  74 evskQ-------------AAIEFLTGYVVEWSLSLDNMFVFALIFGFFAVPERYQHRILFYGILGAMVFRAIFIALGSAL 140 Candidatus Soli...
WP_011446836  71 ----D-------------LGMKYYTGFFIEKALSIDNVFVISLIFTFFAIPARFQYRALLWGIVAVIFLRGAMIAGGAAL 133 Novosphingobium...
WP_011194334  61 ----E-------------MWMQYITAYTMEKALSVDNLFVIATIFGFFGIRGGLQHRALAWGVIGAVAMRSLLIFLGVEA 123 Symbiobacterium...
WP_011526594  64 ----E-------------KAQLFLTGYLLEESLSVDNLFVIMAIFASFSIKDEMQHRVLYYGILGALVMRLLFVAVGSSL 126 Lawsonia intrac...
WP_002809319  77 ----Q-------------AAIQFLTGFLMEKSLSIDNIFVIAMIFSYLKIPVVEQHRMLLWGILGAVGLRVIMITLGVAL 139 Nitrosococcus o...
WP_011645603 148 VNEF-TWVLFIFAAFLLYTGGKMLFS----GGD-EDEP-ElnlhNNPVFKFLKKRLRVTDEITNHNFVV------RKpdp 214 Hyphomonas nept...
WP_015923336 138 VSQF-GWVLYIFAAFLILTGVKMLFA----GDK-PMDL-T----NNAALKWLRRVMPISDKLEGDRFFVqgidprTG--- 203 Caulobacter vib...
WP_011136655 135 VAEF-QWVLLLFGIFLLWAGLKMLFS----GDD-EATPlA----EQKFYQWLRRRMRLTPALHGNAFLV------RGerh 198 Chromobacterium...
WP_011165445 144 M-QY-QAVVLIFGVFLIFTGIKMMFQ----PDK-EVDP-S----QNWLIKWLKKHIRVADRMHEDHFFI------KE--- 202 Bdellovibrio ba...
WP_003598912 137 VQQA-HWVLSVFAAFLIYVGIKMLVS----KEEdEHDI-Q----NSASMRLLKKWVRVTDKPEGQHFIV------RRpdp 200 Methylobacteriu...
WP_011681995 141 LQN--AWMVVVFGLFLCATGVKMLVT----RER-PVDL-N----RSPIVRLLQRYIPIASTGDGHRFLQ------RV--- 199 Candidatus Soli...
WP_011446836 134 VEQA-YWVLYIFAAFLVFTGIKMFFT----SDH-DPDI-G----NNPVVRWISRHMRVTKELHDQHFFV------KVpdg 196 Novosphingobium...
WP_011194334 124 VERF-SWLLPVFGVFLVVTGFKMLREn---DEE-KASL-E----DNKVYRLLSRVLPVYPGYDGHAVIT------RR--- 184 Symbiobacterium...
WP_011526594 127 VTLFgPYALASFGIFVLWTAWKMWKEqkkkHSE-IIDY-S----KHWSVKIARWLMPVHPQLDGHNFFI------KVse- 193 Lawsonia intrac...
WP_002809319 140 MERF-QWIVYLFGGLLLATAVKMLMI----RHG-NVNI-N----RNPLLIMVKKFYPVVDDFKGGYFFS------TL--- 199 Nitrosococcus o...
WP_011645603 215 ltgKMTRYATPLLLALLMVETVDIIFAVDSVPAIFAVTRDPFIVYTSNIFAILGLRSMYFMLSAAVERFKYLKYGLAAVL 294 Hyphomonas nept...
WP_015923336 204 ---KAARLATPLFLALVLVELADLVFAVDSVPAIFAITTDPYIVYTSNIMAILGLRALYFALAAVLHRFAYLKQALAVLL 280 Caulobacter vib...
WP_011136655 199 -glARGWWATPLLLTLILVESADLVFAVDSIPAIFAVTQDPFLVYTSNIFAILGLRALYFALAAMVHRFHYLKYALALVL 277 Chromobacterium...
WP_011165445 203 ---NGVKLATPLFIALVFLEFTDIIFAVDSVPAIFAITKEPMLVFTSNIFAILGLRSLYFLLAGVVDKFHLLKYGLALTL 279 Bdellovibrio ba...
WP_003598912 201 ktgKMVRWLTPLAVALVLVNIADVIFAVDSVPAIFAITTDPFIVYTSNIFAILGLRALYFALAAMVDRFAYLKTALALIL 280 Methylobacteriu...
WP_011681995 200 ---DGRLLATPLLVTLVFIEISDIIFAIDSVPAIFAITREPLIVFTSNVFAILGLRSMYFLLAGAVHRFHLLRYGLALVL 276 Candidatus Soli...
WP_011446836 197 ktgKMVNAATPLFLALVVINLADLVFAVDSVPAIFAITTDTFVVYTSNIMAILGLRALYFALAAMIDRFAYLKYALAAVL 276 Novosphingobium...
WP_011194334 185 ---NGRWELTLLGMAIVMVEATDLLFAVDSIPAVMAISQDFFIVLTSNIFAILGLRALYFLLAGILGKFRYLSLGLAFVL 261 Symbiobacterium...
WP_011526594 194 -hnRLIWKATPLFLCLLVIEFSDVMFAFDSIPAIIAITQEPFLIYTSNIFAILGLRSLYFLLAAAKRYLRYLEKSIIVIL 272 Lawsonia intrac...
WP_002809319 200 ---NGSRAVTPLLLALILVVSTNLIFALDSIPAIFAVTQDPFLVFTCNVFSVLGLHALYFTIAGHVERFRYIKLSLVFIL 276 Nitrosococcus o...
WP_011645603 295 VLIGIK---IfwnF-LLy-kEL--H--IVPyleAHWSL 323 Hyphomonas neptunium
WP_015923336 281 VFIGGK---I---F-IAdalGW--E--KFP---ATLSL 304 Caulobacter vibrioides
WP_011136655 278 VLIGVKvglV---Y-LHd-aGLvaF--KLP---TAWSL 305 Chromobacterium violaceum
WP_011165445 280 VFVGLK---M---V-WLn-kLFg-G--HFP---IGISL 303 Bdellovibrio bacteriovorus
WP_003598912 281 LFIGAK---I---V-VAdtlEL--V--HLP---PWVSL 304 Methylobacterium extorquens
WP_011681995 277 IFVGLK---M---AwLNq-iSN--G--HFP---MGPSL 300 Candidatus Solibacter usitatus
WP_011446836 277 VFIGSK---I---F-VSd-fIL--GgdKFP---PVMSL 301 Novosphingobium aromaticivorans
WP_011194334 262 LFIGGK---M---L-VLp-fGI-----HVE---TWISL 283 Symbiobacterium thermophilum
WP_011526594 273 AYIGFK---M---L-LDv-vGI--I--HIS---PLVSL 295 Lawsonia intracellularis
WP_002809319 277 VYFAIK---I---T-LIy-----yY--PIP---NIISL 297 Nitrosococcus oceani
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