2H5E


Conserved Protein Domain Family
RF3

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cd04169: RF3 
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Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria
Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Statistics
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PSSM-Id: 206732
Aligned: 28 rows
Threshold Bit Score: 438.954
Created: 15-Dec-2005
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
  next features
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:GTP/Mg2+ binding site [chemical binding site]
Evidence:
  • Structure:2H5E: Escherichia coli RF3 binds GDP; contacts at 4.0A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                  ######                                                               
2H5E_A       12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYh-------DCLV 84  Escherichia coli...
YP_121111    21 RRRTFAVISHPDAGKSTLTEALALHARMISEAGAIHGKAGRKSTVSDWMEMEKARGISVSSTALQFNYraag-sdiDSVI 99  Nocardia farcini...
CAI37671     10 RRRTFAVIAHPDAGKSTLTEALALHAHMIKEAGAVHGKAGRKSTVSDWMDMEKDRGISIASSALQFEYapedhdgePFMI 89  Corynebacterium ...
BAB76078     15 LRRNFAIISHPDAGKTTLTEKLLLYGGAIHEAGAVKARRAQRKATSDWMAMEQQRGISITSTVLQFEYq-------NCQI 87  Nostoc sp. PCC 7120
NP_295276    23 RRRTFAIISHPDAGKTTITEKLLLYGGAIQEAGSVTAKEGRSHTKSDWMSIEQQRGISISSSALTFEYa-------GRHV 95  Deinococcus radi...
YP_192176    15 RRRTFAIISHPDAGKTTLTERILRAGGAIQMAGNVRAKGERRRTKSDWMGIERDRGISVVTSVMTFEYg-------DCVF 87  Gluconobacter ox...
CAF24297     14 KRRTFAIISHPDAGKTTLTEKLLLYSGMIHTAGMVRGRKGRKAAASDWMAMEQERGISITASAMQFTYn-------NTII 86  Parachlamydia sp...
ZP_00056266  10 LRRTFAIISHPDAGKTTLTEKLLMFGGAIQMAGAVRARGEQRRTRSDWMAIEKERGISVSASVMSFEYg-------GLSF 82  Magnetospirillum...
NP_968977    13 RRRTFAIISHPDAGKTTLTEKLLYHGGVIHETGEVKGKQGTKAVTSDWMAMEREKGISITSSVMTFDFd-------GLRV 85  Bdellovibrio bac...
YP_288420    21 RRRTFAVISHPDAGKSTLTEALALHTEAITSAGAVHGKGDRKGVISDWMEIEQDRGISITSAALRLEYn-------GCVL 93  Thermobifida fus...
Feature 1                                                                ## #                   
2H5E_A       85 NLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPILTFMNKLDRDIRDPMELLDEVENELKI 164 Escherichia coli...
YP_121111   100 NLVDTPGHSDFSEDTYRVLTAVDAAVMLIDAAKGLEPQTLKLFQVCRHRGIPVITVINKWDRPGRAPLELLDEIEERIGL 179 Nocardia farcini...
CAI37671     90 NLVDTPGHADFSEDTYRVLSAVDAAVMLIDGAKGLEPQTLKLFRVCKARGLPIVTVVNKWDRPGRSPLELVDEIVNEIQL 169 Corynebacterium ...
BAB76078     88 NLLDTPGHQDFSEDTYRTLAAADNAVMLIDVAKGLEPQTRKLFEVCKLRGLPIFTFINKLDRPGREPLELLDEIEQELGL 167 Nostoc sp. PCC 7120
NP_295276    96 NLLDTPGHQDFSEDTYRTLTAADSALMVLDAARGVQTQTEKLFAVCRNRGIPILTFVNKMDRPALDPFDLLSQVEDTLKI 175 Deinococcus radi...
YP_192176    88 NLLDTPGHEDFSEDTYRTLTAVDCAVMVIDAAKGIEDRTRKLFEICRLRDIPIVTFINKMDREAQDCFALLDEIASTLAL 167 Gluconobacter ox...
CAF24297     87 NVLDTPGHEDFSEDTYRTLTAADCAIMVIDAAKGVERQTRKLFEVCRLRKIPVLTFINKMDMPGQDPLDLMNEVENVLQI 166 Parachlamydia sp...
ZP_00056266  83 NLLDTPGHEDFSEDTYRTLTAVDSAVMVLDAAKGIETQTLKLFEVCRLRDVPIITFVNKVDREGRETFDLLHEVEKTLAL 162 Magnetospirillum...
NP_968977    86 NLLDTPGHKDFSEDTYRVLMAVESACMLIDVAKGVEERTKKLYEVCRLRKIPIFTFVNKLDREGKDPLTLIDEVEKTLNM 165 Bdellovibrio bac...
YP_288420    94 NLLDTPGHADFSEDTYRVLSAVDCAVMLLDSAKGLEPQTLKLFDVARSRGIPVITFVNKWDRPGREPLELLDEIEQRIGL 173 Thermobifida fus...
Feature 1                                                                                       
2H5E_A      165 GCAPITWPIGCGKLFKGVYHLYkdetyly----qsgkghTIQEVRIVKGLnnpdldaavgedlaqqLRDELELVKGASNE 240 Escherichia coli...
YP_121111   180 TPTPLFLPVGIAGDFRGLLRRGpegaaveyihftrtaggATIAPEDSLTPeqaqere---geawttAAEESELLSATGQD 256 Nocardia farcini...
CAI37671    170 QPTPLFWPVGEAGDFRGLARINddgeaeeyihflrtaggSTIAPEEHYTPeqavere---edvwetAAEEVELLAADGAL 246 Corynebacterium ...
BAB76078    168 QTYAVNWPIGMGDRFKGVFDRHkqqihlf----ersahgSKEARDTTVELgdprieelleedlyyqLKNDLELLEGVGPE 243 Nostoc sp. PCC 7120
NP_295276   176 TVVPLTWPIGDGPDFKGVYDLQtgqvlaf----ertsggKHRAPVQTAGLsdpqldvlvgkdlaakLREDVELIQAAMPE 251 Deinococcus radi...
YP_192176   168 DTSPATWPIGRAAKFIGTYDLRt----------------KEVHTKEPIGEddpr---------iiqMREEVELAEAALPE 222 Gluconobacter ox...
CAF24297    167 HSSAFNWPIGTGKEFCGVLNCAtkeclff---tkiaaggAQKAAITRIPLyneetkerlgkeyfekLIQELELLEMAGNP 243 Parachlamydia sp...
ZP_00056266 163 DVSPVTWPIGMGRDLKGVYDLVndrvimf----dpgrgdHIAEISVDASLdspkldeavgkaaadrLREEVELVRGGYPE 238 Magnetospirillum...
NP_968977   166 QCYPVTWPLGIGQRFRGIYNRLtkeiwiyd--qrreeveDYKIIPFEKGKddqilydyldkesadqVLEELDLIESALPP 243 Bdellovibrio bac...
YP_288420   174 RPTPLNWPVGVAGDFRGLIDRTagnrytk---lhrtpggATKAREEPMDAvqaaeve---gaaweqAMEELALLEEIGAD 247 Thermobifida fus...
Feature 1                        ###                   
2H5E_A      241 FDKELFLAGEITPVFFGTALGNFGVDHMLDGLVEWAPAP 279 Escherichia coli BW2952
YP_121111   257 HDQELFLAGQTSPVIYASAMLNFGVRQLLETLVTFAPPP 295 Nocardia farcinica IFM 10152
CAI37671    247 HDQELFLECTTSPLIFASAMLNFGVHQILDTLCALAPAP 285 Corynebacterium jeikeium K411
BAB76078    244 LDLDLVHQGKMTPVFFGSAMTNFGVELFLKYFLDYALKP 282 Nostoc sp. PCC 7120
NP_295276   252 FEQDAFLAGELTPVFFGSAMNNFGVEHFLSNFVELAPPP 290 Deinococcus radiodurans R1
YP_192176   223 FDRESFDAGHLSPVFFGSAMKEIGVTDLLDALVAYGPAP 261 Gluconobacter oxydans 621H
CAF24297    244 FSQKEFLAGNVTPIFFASALTNFGIEPFFDAFVNLAPAP 282 Parachlamydia sp. UWE25
ZP_00056266 239 FDLESFLAGHLTPVFFGSALKTFGVAELLKGIGRLAPPP 277 Magnetospirillum magnetotacticum MS-1
NP_968977   244 FDVNEFLNGTISPVTFGSAKQNFGVDTFLQFFTKYAPGP 282 Bdellovibrio bacteriovorus HD100
YP_288420   248 YDEESFLAGKSSPVLFGAALPNFGVSALLRALINLAPAP 286 Thermobifida fusca YX

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