Catching up on all those GPCR structures that keep being published


I've missed quite a few rhodopsin-like GPCR structures, so catching up on some of this today. Below are representative structures of all the 22 sequence distinct rhodopsin-like GPCRs which are in the public domain as of today. I've done an initial alignment, and the areas the ambiguities are in, are variable between structures, and also within structure sets (same sequence, different ligand, cell, etc). It is incredible that there are now 22 of these, and of course, representative structures of some of the other GPCR superfamilies too.
  1. 4dkl - mouse mu opioid receptor 
  2. 4ej4 - mouse delta opioid receptor
  3. 4djh - human kappa opioid receptor
  4. 4ea3 - human nociceptin receptor
  5. 3odu - human CXCR4 receptor 
  6. 2lnl - human CXCR1 receptor (NMR)
  7. 4mbs - human CCR5 receptor
  8. 3vw7 - human PAR1 receptor
  9. 4ntj - human P2Y12 receptor
  10. 4grv - rat neurotensin receptor
  11. 3uon - human muscarinic M2 receptor 
  12. 4daj - rat muscarinic M3 receptor 
  13. 3rze - human histamine H1 receptor
  14. 2rh1 - human beta-2 adrenergic receptor 
  15. 2vt4 - turkey beta-1 adrenergic receptor 
  16. 4iaq - human 5HT1B receptor
  17. 3pbl - human dopamine D3 receptor
  18. 1ib4 - human 5HT2B receptor
  19. 2ydv - human adenosine A2a receptor 
  20. 3v2w - human sphingosine-1-phosphate receptor
  21. 1u19 - bovine rhodopsin
  22. 2z73 - squid rhodopsin
                           10        20        30        40        50        60        70    
4dkl   (  65 )                                             mvtaitimalYsiVcvvGlfgNflvmyvIvrytk
4ej4   (  41 )                                        rsasslalaiaitalYsavcavGllgNvlvmfgIvrytk
4djhA  (  55 )                                            spaipviitavysvvfvvGlvgNslVmfVIirytk
4ea3A  (  47 )                                            plglkvtIvglYlavcvgGllgNclvmyVIlrhtk
3oduA  (  27 )            pçfre-------------------------enanfnkiflptiYsiIfltGivgNglvilvMgyqkk
2lnl   (  29 )            pÇmle--------------------------tetLnkYvviiayalvFllsllgNslvMlvilysrv
4mbsA  (  19 )            pçqki-------------------------nvkqiaarllpplYslvfifGfvgNmlViliLinykr
3vw7   (  91 )                                     dasgYLtsswLtlfVPsvYtgVfvvSlplNimaivvFilkmk
4ntj   (  16 )            lÇtr---------------------------dykitqvlfPllYtvLffvGlitNglAmriFfqir-
4grvA  (  52 )                                    nsdldVnTdiyskvlvtaiYlalfvvGtvgNsvtlftlark s
3uon   (  20 )                                             tfevvfivlvagslSlvTiigNilVmvSIkvnrh
4dajA  (  64 )                                             iwqvvfiafltgflAlvTiigNilVivAFkvnkq
3rze   (  28 )                                                 mplvvvlsticlvTvglNllVlyAvrserk
2rh1   (  29 )                                            devwvvgmgivmslivlaIvfgNvlVitAIakfer
2vt4A  (  40 )                                               weagmsllmalVvllIvagNvlViaAigstqr
4iaq   (  38 )                                     yiyQdsislpwkvllvmllalitlaTtlsNafViatVyrtrk
3pblA  (  32 )                                                   yalsYcalilaIvfgNglVcmAVlkera
4ib4   (  48 )                                          eeqgnklhwAallilmviipTigGNtlVilAVslekk
2ydv   (   3 )                                             imgssvYitvElaiavlAilgNvlVcwAvwlnsn
3v2w   (  17 )           sdyvnydIIvrHYnyTgklnisa                ltsvvfiliCcfIileNifvlltiwktkk
1u19A  (   1 )            mnGtegpnfyVPfsnktgvVrsPFeapQyyLaepwqFsmlAayMflLimlGfpiNflTlyVTvqHkk
2z73A  (   9 )         etwwyNpsIvVhpHWref--------------dqvpdavYyslGifIgiCgiiGcggNgiViyLFtktks
                                                              aaaaaaaaaaaaaaaaaaaaaaaaaaaa   

                      80        90        100       110       120       130       140       150 
4dkl   (  99 )    MktAtniYIfNLAlADalATsTLpfqsvnylmg---tWpfgnilÇkiviSidYyNMFTSIfTLctMSvdRyiAVC
4ej4   (  80 )    LktATniYIfNLAlADalATstLpfqsakylme---tWpfgellÇkaVlSidYyNMFTSIfTLtmMSvDRyiavc
4djhA  (  90 )    mktaTniYIfNLAlADalVTtTMpfqstvylmn---sWpfgdvlÇkiVlsiDyyNMfTSIfTLtmMSvdRyiaVc
4ea3A  (  82 )    mktatNiYIfNLAlADtlVLlTLpfQGtdillg---fWpfgnalÇktVIaiDyyNMFTSTfTLtaMSvdryvaic
3oduA  (  69 )    lrsmtdkYRlhLSvADllFVitLpfWavDAva----nWyfgnflÇkaVHviYTVNlYSSVwILAfISlDRylAiV
2lnl   (  70 )    GrsvTdvyLlnLalaDllfaltlpiwaaSkvn----gwifgtfLÇkvVslLkEvnfYsgilLlacIsvdrylaiv
4mbsA  (  61 )    lksMtdIYLlnLAiSdlfFLlTVpfWahyaaaq----WdfgntmÇqlLTglYFiGFFSgIfFIilLTiDRylaVv
3vw7   ( 133 )    vkkPAVVyMlhLAtADvlFVsvLpfkisYyfsg--SdWqfgselÇrfVtAaFYcnMYASIlLMtvISiDrflAVv
4ntj   (  55 )    sksnFiIFLknTViSDllMIltFpfkilsdakl      lrtfvcqvtsVifyfTMYISIsFLGlITidryqktt
4grvA  (  98 )    lqstvhyHlgsLalSDllILllAMpvElyNFIWvhhpWafgdagÇrgyYflRDactYATAlNVasLSvaRylAic
3uon   (  54 )    LqtvnnyflfSLAcADliiGvfSMnlytlytvi--gyWplgpvvÇdlWlalDYvVSNAsVmNLliiSfdryfcvt
4dajA  (  98 )    LktvnnyFllSLAcADliIGviSMnlFttyiim--nrWalgnlaÇdlwLSiDYvASNAsVmNLlvISfDryfsit
3rze   (  58 )    LhtvGnlYIvsLSvADliVGavVMpmnilyllm--skwsLgrplÇlfWLSmDYVASTASIfSVfiLCiDryrsvq
2rh1   (  64 )    LqtvtnyFItsLAcADlvMGlaVVpfgaahilm--kmWtfgnfwçefWTSiDVlCVTASIeTLcvIAvdryfAIt
2vt4A  (  72 )    LqtltnlFItsLAcADlvvGllVVpfgatlvvr--gtWlwgsflçelWTSlDVlCVTAsIeTLcvIAiDrylait
4iaq   (  80 )    LhtpanyLiasLAvTDllVSilVMpiStmytvt--grWtlgqvvÇdfWlssDItCCTASIwHLCviAldrywait
3pblA  (  60 )    LqtttnyLVvsLAvADllvAtlVMpwvvylevt-ggvWnfsricÇdvFVTlDVmMcTAsIwNLCaISidRytAVv
4ib4   (  85 )    LqyatnyFlmsLAvADllVGlfVMpiaLltimf-eamWplplvlÇpawLflDVlfSTASIwHLCaIsvdryiaIk
2ydv   (  37 )    LqnvtnyFVvsAAaADilVGvlAIpfaiaIst----GfçaaçhgÇLfiACfVLVLTASSIfSLlaIAiDryiair
3v2w   (  76 )    FhrpMYyFIgnLAlSDllaGvaYtaNlllsga---tTykLtPaqWFlREGsMFvALSASVfSLlaIAieryitml
1u19A  (  68 )    LrtplNyILlnLAvADlfMVfg-GFtTTlyTSl-hGyFvfgptGÇnlEGffATLGGEIaLWSLvvLaieRyvvVc
2z73A  (  65 )    LqtpanmFiinLAfSDftFSlvNGfplMtiSCf-lkkWifgfaaÇkvYGfiGGiFGFMsIMTMAMiSiDrynViG
                     aaaaaaaaaaaaaaaaaa aaaaaaaaa          aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa

                           160       170       180       190       200       210       220   
4dkl   ( 171 )    hpvkaldf---rtprnAkivnvcNwilSsaiGlpVmfmAttkyrqg--------------sidçtltfsh-ptwy
4ej4   ( 152 )    hpvkaldf---rtpakAklinicIwvlAsgvGvpimvmAvtqprdg--------------avvÇmlqfps-pswy
4djhA  ( 162 )    hpvkaldf---rtplkAkiinicIwllSssvGisAivlGGtkvred------------vdvieÇslqFpdddysw
4ea3A  ( 154 )    hp          tsskAqavnvaIwalAsvvGvpvaimGsAqvede--------------eieÇlveipt-pqdy
3oduA  ( 140 )    hatn---sqrprkllAekvVyvgVwipAlllT-ipDfif--Anvsead-----------dryiÇdrfyp---ndl
2lnl   ( 141 )    haTr----tltqkrhlvkfvclgcwglsmnlS-lpFflf--RQayhpN----------NsSPvÇyEVlg-ndtak
4mbsA  ( 132 )    havfAlka---rtvtfGvvtsvitwvvAvfaS-lpNiif--Trsqkeg-----------lhytÇsshfpysqyqf
3vw7   ( 206 )    ypm        rtlgrAsftClaiwalAiagV-vpLllkeQtiqvpg-----------lgitTçhdvlsetLleg
4ntj   ( 128 )    rpfkt      knllgAkilsvviwafMfllS-lpNmil                              ksefgl
4grvA  ( 173 )    hpfkaktl---msrsrtkkfisaIwlaSallAipMlftMGlqnrSadg--------thpgGlVÇTPiv----dta
3uon   ( 127 )    kpltypvk---rttkmAgmmiaaAwvlSfilwapaIlfwqfivg-----------vrtVedgeÇyIqff------
4dajA  ( 171 )    rpltyrak---rttkrAgvmiglAwviSfvlWApaIlfwqyfvg-----------krtVppgeÇfIqfl------
3rze   ( 131 )    qplrylky---rtktrAsatilgawflSfl-WvipIlgwnh                 rredkÇeTdfy------
2rh1   ( 137 )    spfkyqSl---ltknkArviilmvwivSgltSflpIqmhwyr-----athqeAinÇyae-etçÇdff--------
2vt4A  ( 145 )    spfryqsl---mtrarAkviictvwaiSalvSflpImmhwWr-----dedpqAlkçyqd-pgçÇdfv--------
4iaq   ( 153 )    daveysak---rtpkraavmialvwvfSisISl-pPffwrqa                   seÇvvntd------
3pblA  ( 134 )    mpvhyqhgtgqsscrrValmitavwvlAfaVSc-pLlfgfNtTg---------------dptvÇsIs--------
4ib4   ( 159 )    kpiqanqy---nsratAfikitvVwliSigiAi-pVpikgiet              npnnitÇvLtke------
2ydv   ( 108 )    iplryngl---vtgtrAkgiiaicwvlSfaIGltPmlgwnnÇgqp--kegkahsqgÇgegqvAÇlFedVV-----
3v2w   ( 148 )    k           nnfrlfllisacwviSlilGglPimgwn----------------ÇisalssÇSTVLP------
1u19A  ( 141 )    kpmsn----frfgenhaimgvafTwvmAlaCAapPlvgwSrYIPE-------------GMQCSÇGIDYYTpheet
2z73A  ( 139 )    rpmaas---kkMshrrAfimiifVwlwSvlwAigPifgwGaYtLE-------------GVLCNÇSFdYIsr--ds
                               aaaaaaaaaaaaaaaaaaa  aaa                                      

                      230       240       250       260       270       280       290       300 
4dkl   ( 228 )    wenllKicVfifAfimPvliItvcyglmilrlksvr                   ekdrnlrritrMVlvVvavF
4ej4   ( 209 )    wdtvtkicvflfAfvvPiliitvcyglMllrlrsvr                   ekdrslrriTrMVlvVvgaF
4djhA  ( 222 )    wdlfmkicVfifAfviPvliIivcytlMilrlksvrllsg              rekdrnlrritrLVlvVVavF
4ea3A  ( 211 )    wgpvfaiciflfSFivPvlvIsvcyslMirrlrgvrlls-------------gsrekdrnlrritrLVlvVvavF
3oduA  ( 195 )    wvvvfqfqhimvglilPgivIlsCyciIisklshs                     kghqkrkalktTviLilaF
2lnl   ( 198 )    wrmvLrilPHtfGfivplfvmlfcygftlrtlf---------------------kahmgqkhrAmrvIfaVvlif
4mbsA  ( 190 )    wknfQTlkIVilGlvlPllvmvicysgIlktllr                       ekkrhrdvrlIftIMivY
3vw7   ( 266 )    yyayyfsafSavfFfvpliiStvCyvsIirclsssa                   anrskksrAlfLSaaVfcIF
4ntj   ( 185 )    vwheiVnyiCqviFwinfliVivcYtlItkelyrsyvrt              rgvgkv rkkvnvkvfiIiaVF
4grvA  ( 233 )    tvkvvIqvNtfmSFlfPmlvIsilNtvIAnkLtvmv                     vqalrhGVlvAraVviaf
3uon   ( 182 )    snaavtfgtAiaaFylpviiMtvlywhisrasksri                   pppsrekkvtrtilaIllaF
4dajA  ( 226 )    septitfgtAiaaFymPvtiMtilywrIyketek                       like   aqTlsaIllaF
3rze   ( 186 )    dvtwfkvmtaiinFylPtllMlwfyakIykaVrqhc                   lhmnrerkaakQLgfIMaaF
2rh1   ( 195 )    TnqayaiasSivSFyvplviMvfvYsrVfqeakrql                   kfclkeHkaLktlgiIMgtF
2vt4A  ( 203 )    TnrayaiasSiiSFyipLliMifvalrvyreakeq                       irehkalktlgiImgvF
4iaq   ( 205 )    -hilytvySTvgAFyfPtllLialygrIyvearsri                   lmaarerkaTktLgiIlgaF
3pblA  ( 185 )    -npdFViySSvvSFylPfgvTvlvyarIyvvlkqrrrk-----------------gvplrekkatqMVaiVlgaF
4ib4   ( 213 )    rFgdfMlfgSlaAFftPlaiMivtyfltihALqkka                   qtisneqraskvlgivFflF
2ydv   ( 173 )    pmnYMVyfNffaCVlvPlllMlgvylrIflaarrqlkqmesq             stlqkevhaakSLaiIvglF
3v2w   ( 197 )    LYhkhYIlfCTtvFtllllsIvilYcriyslvrtr                   asrssenvaLlkTViiVLsvF
1u19A  ( 199 )    nNesFViyMfvvHfiiPlivIffcygqLvftvkeaaaq------------qqesattqkaekevTrMviiMviaF
2z73A  ( 196 )    ttrsNIlcMFilGffgPiliiffCyfnIvmsvsnhekemaamakrlnakelrkaqaganaemrlAkIsivIVsqF
                    aaaaaaaaaaa aaaaaaaaaaaaaaaaa                            aaaaaaaaaaaaaaaa

                           310       320       330       340       350       360       370   
4dkl   ( 290 )    ivcWtpIHiyViikaliti--------pettfqtvswhfcialGYtNSclNpvlYafldenFkrCfrefci    
4ej4   ( 271 )    vvCWapIHifVivwtlvdi-------nrrdplvvaalhlcialGYaNSslNpvlYaflDenfkrc          
4djhA  ( 284 )    vvcWtpIHifilvealgs             aalssyyfcIalGytNSslNPilYafldenFkrcfrdfcfp   
4ea3A  ( 273 )    vgcWtpVQvfvlaqglgvq--------pssetavailrfctAlGYvNSclNpilYafldenFkacfr        
3oduA  ( 249 )    facWlpyyigisidsfillei-ikqgçefentvhkwisitEAlAFfHCclNpilyaflgakfktsaqhalts   
2lnl   ( 252 )    llcwlpynlvlLadTlmrtq-viqesçeRrNnIGraLdatEilGflhsclnpiiyafigqnfrhgflkilamhg 
4mbsA  ( 245 )    flfWapYNivLllnTfqeff--glnnçsSsnrldqamqvtetlGMtHCciNpiiYafvgeefrnyllvffq    
3vw7   ( 323 )    iiCFgpTNvlLiaHYsflsh------tstteaAYfaYLlcvCvSSiSCciDplIyyyAssec             
4ntj   ( 246 )    fiCFvpFHfaripytlsqtr--dvfdçtaentlfyvkestlwlTSlNAClNpfIYfflcksFrnslism      
4grvA  ( 318 )    vvcWlpYHvRRlmFCyisdeq---WttflFdfYHyfYmlTNalAYasSAinpilYnlvsanFrqv          
3uon   ( 397 )    iitWapYNvmVlintfçap--------ç---ipntvwtiGywlCYinstiNpacYalcnatFkktfkhllm    
4dajA  ( 500 )    iitWtpyNimVlvntfçds--------ç---ipktywnlgywlCYiNStvNPvcYalcnktFrttfkt       
3rze   ( 425 )    ilCWipYFiffmviafçkn--------ç---cnehlhmftiWlGYiNStlNPliYplCnenFkktfkrilhi   
2rh1   ( 283 )    tlcWlpFFiVNivhviqdn-----------lirkevyillNwiGYvNSgfNpliYc-rspdfriAfqellcl   
2vt4A  ( 300 )    tlCWlpFFlvnivnvfnrd-----------lvpdwlfvafnwlGYAnSAmnpiiYc-rspdfrkAfkrlla    
4iaq   ( 324 )    ivCWlpFFiiSlvmpi                hlaifdffTwlGYlNSliNPiiYtmsnedFkqafhklirfk  
3pblA  ( 339 )    ivCWlpFFltHvlnthçqt--------ç--hvspelysattwlGYvNsalNPviYttfnieFrkAflkilsc   
4ib4   ( 334 )    llmWcpFFitNitLvlçds--------çnqttlqmlLeifvWiGYvSSGvNPlvyTlfnktFrdAfgrYitcnyr
2ydv   ( 243 )    alCWlpLHiiNcftffçpd--------ç-shaplwlMylAivlSHtNSvvNPfiyAyrireFrqTFrkiirshvl
3v2w   ( 266 )    iacwapLFiLLllDvgçkvk------tç---diLfrAeyfLvlAvlNSgtNPiiytltNkemrrafiri      
1u19A  ( 262 )    liCWlpYAgvAfyIfthqgsd----------fgpifMTipAFfAKtSAvyNPviYimmnkqFrnCmvttlccgkn
2z73A  ( 271 )    llSWspYAvvAllAQfgplew----------VtpyaAQlpVMfAKaSaihNPmiYsvsHpkFreAIsqtfpwvLt
                  aaaaaaaaaaaaaaa                  aaaaaaaaaaaaa   aaaaaaaa  aaaaaaaaa       

                      380       390       400       410 
4dkl                                                    
4ej4                                                    
4djhA                                                   
4ea3A                                                   
3oduA                                                   
2lnl                                                    
4mbsA                                                   
3vw7                                                    
4ntj                                                    
4grvA                                                   
3uon                                                    
4dajA                                                   
3rze                                                    
2rh1                                                    
2vt4A                                                   
4iaq                                                    
3pblA                                                   
4ib4                                                    
2ydv   ( 309 )    rqqepfkaa                             
3v2w                                                    
1u19A  ( 327 )    plgddeasttVsktetsqvapa                
2z73A  ( 336 )    ccqfddketeddkdaeteipage