PASS2
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Superfamily Details

Superfamily summary
Superfamily Name:  PFL-like glycyl radical enzymes
Class Name:  Alpha and beta proteins (a/b)
Fold Name:  PFL-like glycyl radical enzymes
Number of Members:  7
Average Size: 
Members
SCOP ID Name Source
d1h16a- Pyruvate formate-lyase, PFL Escherichia coli [TaxId: 562]
d1r9da- Glycerol dehydratase DhaB1 Clostridium butyricum [TaxId: 1492]
d1rlra2 R1 subunit of ribonucleotide reductase, C-terminal domain Escherichia coli [TaxId: 562]
d1peqa2 R1 subunit of ribonucleotide reductase, C-terminal domain Salmonella typhimurium [TaxId: 90371]
d1l1la- B12-dependent (class II) ribonucleotide reductase Lactobacillus leichmannii [TaxId: 28039]
d1hk8a- Class III anaerobic ribonucleotide reductase NRDD subunit Bacteriophage T4 [TaxId: 10665]
d2ha9a1 Uncharacterized protein SP0239 Streptococcus pneumoniae [TaxId: 1313]

Alignment Based On Similarities In Structural Features using Comparer

                             10        20        30        40        50  
d1h16a-  (   1 )    selnekLatAWegFtkgdWqneVnVrdFiqknYtpyegdesflagateaT
d1hk8a-  (  26 )                                                      
d1l1la-  (   4 )                                               eIsLsae
d1peqa2  ( 175 )                                                      
d1r9da-  (   2 )                                          iskgFstqterI
d1rlra2  ( 222 )                                                      
d2ha9a1  (   2 )                                                      
                                                                      

                             60        70        80        90        100 
d1h16a-  (  51 )    ttLWdkVMe-------gVklEnrthaPvdFdtavaS----------tIts
d1hk8a-  (  26 )                                                      
d1l1la-  (  11 )    fidrVkasvkphwgkLGwVtYKrtYArwlpekgrsEnWdeTVkrVVegNI
d1peqa2  ( 175 )                                                      
d1r9da-  (  14 )    niLkaqIlnAkpcVeSeRAilITesfkq--tegqpailrRAlALkhILen
d1rlra2  ( 222 )                                                      
d2ha9a1  (   2 )                                                      
                                                                      

                             110       120       130       140       150 
d1h16a-  (  84 )    HdaGyInk----------qlEkIvGLqTeapLkRALIPfgGikmiegSCk
d1hk8a-  (  26 )                                                      
d1l1la-  (  61 )    nlDprLqdspslelkqsLteEAerLYkLIyGLGATPsgrNLwISgtdyQr
d1peqa2  ( 175 )                                                      
d1r9da-  (  62 )    IpItIr------------dqELIVGSlTkeprSSqVFPEFsNkwLqdEld
d1rlra2  ( 222 )                                                      
d2ha9a1  (   2 )                                                      
                                                                      

                             160       170       180       190       200 
d1h16a-  ( 124 )    ayn---------reld---------pmIkkiFteyrkTHNqGVfdvYtpd
d1hk8a-  (  26 )                      dsrvfptqrdlmagi----vskhiAknmVpsf
d1l1la-  ( 111 )    rtGDSLNnçWFVAIrpqkYGdSkIvPsyLgkqe-kAVSMPFSFLF---DE
d1peqa2  ( 175 )         lVsçFLLRIedn-------------meS---igravnSAl---qL
d1r9da-  ( 100 )    rLnkrt-----GDaFqIseeSkekLkdVFeyWng--kTTselAtsyMtee
d1rlra2  ( 222 )         fssçVLIECgds-------------ldS---InATssAIv---kY
d2ha9a1  (   2 )                                                      
                                                  a       aaaaaaa   aa

                             210       220       230       240       250 
d1h16a-  ( 156 )    IlrCrkSGVLt-gLP---Day----gRgRIIGDYRRVALYG---IdyLmk
d1hk8a-  (  54 )    ImkahesGiIhVhdidySPAl---pfTnCCLVdLkgMLengFklg-----
d1l1la-  ( 157 )    LmK--gGgVGFSVarsNisqIprVdFaIdLqLVVdet----seSydaSvk
d1peqa2  ( 201 )    Skr--gGgVAFLLSNLreagApik--------------------------
d1r9da-  ( 143 )    TreAvncdVFtVgnY---yyn----GVgHVSVdYgkVLrvG---FngIin
d1rlra2  ( 248 )    VSq--ragIGINAGrIrAlgspir--------------------------
d2ha9a1  (   2 )                                                      
                    a        bb                                       

                             260       270       280       290       300 
d1h16a-  ( 195 )    dKlaqftslq-adle---ngvnleqtirlreeIaeQhrALgqMkeMAakY
d1hk8a-  (  96 )    --------------------------------------------------
d1l1la-  ( 201 )    vgAvGknelvqdadSiyyr-LpdtreGwVlANAlLIDLHFaqTNpdrkq-
d1peqa2  ( 223 )    --------------------------------------------------
d1r9da-  ( 183 )    eAkeqleknrsidpd---fikkekFLnSViiSCeAAitYVnrYakkAkei
d1rlra2  ( 270 )    --------------------------------------------------
d2ha9a1  (   2 )                                                      
                                                                      

                             310       320       330       340       350 
d1h16a-  ( 241 )    g--------------------yd--IsgPAtnAqeAIQWTYFGYLAAVKs
d1hk8a-  (  96 )    -----------------------naqietPksIgvATaiMAqITaqVash
d1l1la-  ( 249 )    -kLILDLsdIrpygaeihGfg-----------------------------
d1peqa2  ( 223 )    --------------------------------------------------
d1r9da-  ( 230 )    AdntsdakrkaeLneIAkICskV--sgeGAksFyeACQLFWFIHAIINiE
d1rlra2  ( 270 )    --------------------------------------------------
d2ha9a1  (   2 )                                        dirqvtetiaieeq
                                                                      

                             360       370       380       390       400 
d1h16a-  ( 269 )    qnGAAMSFGRTStFLDVYIerDlka-------------------------
d1hk8a-  ( 123 )    Q-YgGTTFAnVDkvLspYVkrTyakhiedAekwqia--------------
d1l1la-  ( 269 )    --------gtasGPmpLIsMLldVnevLnnkag-----------------
d1peqa2  ( 223 )    --------------------------------rie---------------
d1r9da-  ( 278 )    snGHSISPARFDqyMypyyendk---------------------------
d1rlra2  ( 270 )    --------------------------------gge---------------
d2ha9a1  (  17 )    nFdIrtItGIsLldCidpdinrAaekIyqkIttkaanlvavGdeIaaelg
                                       aa                             

                             410       420       430       440       450 
d1h16a-  ( 294 )    -----------------gkiteqeAQemVDHLVMKLRMVRFLrtpeydel
d1hk8a-  ( 158 )    -----------dalnyAqskTekdVydAFqaYeyeVntlfss--------
d1l1la-  ( 294 )    --------------------grLtAvdAADICNLIgkAvvag--------
d1peqa2  ( 226 )    -------------------nqssGVipvMkmLedAFsya-----------
d1r9da-  ( 301 )    ------------------nitdkfAqeLIDCIWIKLNDINKVRdeistkH
d1rlra2  ( 273 )    -------------------afhtgCipfYkhFqtaVkscsqggvr-----
d2ha9a1  (  68 )    IpIvnkrVsVTPISlIGaaTdatdYVvLAkALdkAAkeI-----------
                                             aaaaaaaaaaa              

                             460       470       480       490       500 
d1h16a-  ( 327 )    FSGdPIWATESIGGmGldgrTLVTkNSFRFLnTLyTM-----gpSPePNM
d1hk8a-  ( 189 )    -nGqtPfVTITFGtGt---dwTermIQkaILkNRikGlgrdgiTPifPKL
d1l1la-  ( 316 )    -----naElALGsn--------d---DqdFisMkqdqeklmhhRwA-Snn
d1peqa2  ( 252 )    ----qGaGAVYLHA--------HHpDIlrFLdtkrik--------t-LsL
d1r9da-  ( 333 )    FGGyPMYQNLIVGGqnsegkdatnkVSyMALeAAvHV-----k-LpqPSL
d1rlra2  ( 299 )    ----gGaATLFYPM--------WHLeVesLLvLknnrgvegnrVrh-MdY
d2ha9a1  ( 107 )    ---gVdfIgGFSAlVqk----gyqkGdeiLInSiprAla----eTdkVcS
                           bbbbbb             aaaaaa                bb

                             510       520       530       540       550 
d1h16a-  ( 372 )    TILWS-e----------------------------------------kLp
d1hk8a-  ( 235 )    VMFVe-e----------------------------------------gvN
d1l1la-  ( 353 )    sVaVd-safs----------------------------------------
d1peqa2  ( 289 )    GVVIP-diTFrLakenaqMALFSPydIqrrygkpFgdIa--IserydeLi
d1r9da-  ( 377 )    SVRIw-n----------------------------------------kTp
d1rlra2  ( 336 )    GVQIN-klMYtrLlkgedITLFSPsdVp-gLydAFFadqeeFerlYtkYE
d2ha9a1  ( 146 )    svniGst-------------------------------------------
                    bbbb                                              

                             560       570       580       590       600 
d1h16a-  ( 381 )    ------------lnFkkFAAkVSidtSSL-QYENDdLMrpdfn-------
d1hk8a-  ( 244 )    lyk-----ddpNydIKqlALeCASkR-MYPDIISAknNkaITgSs-----
d1l1la-  ( 362 )    --------------gYqpIaagIren-GePgIVNldLSknygRivdgyqa
d1peqa2  ( 336 )    adphVrktyinArdFFqtLAeIQfes-gyPYIMFEdtVnraNPIa-----
d1r9da-  ( 386 )    ------------deFLlrAAELTreglGLPAYYNDeVIipALvsr--gLt
d1rlra2  ( 384 )    kddsirkqrvkAveLFslMMqeRast-grIYIQNVDhCNthSPFdp----
d2ha9a1  ( 153 )    -----ksGiNtAvadGriiketanlsd-----------------------
                                aaaaaaaaaaaaaa    bbbbaaaaaa          

                             610       620       630       640       650 
d1h16a-  ( 411 )    ---nDdYAIACCV-SPMiVG-------------kqMQFF-GARANLAKTM
d1hk8a-  ( 283 )    ----vpVSPMGCR-SFLsvwk---dstgneildGRNNLG-vVTLNLPrIA
d1l1la-  ( 397 )    giDgdVeGTNpcgEISLAn----------------GEnlFEVFPlIAe
d1peqa2  ( 380 )    ---grInMSNlcSEILQvNsaSryddnldythiGhDISÇNlgSlNIAhVM
d1r9da-  ( 422 )    ledArdYGIIGCV-EPQkpG-------------kTEGWHDSAFFNLARIV
d1rlra2  ( 429 )    -aiApVrQSNlcLEIALPTkpLnd---vnden-GEIALÇtlsafnLGaIn
d2ha9a1  ( 196 )    -------------aafhgvg------------eadviInVgVSG-PgvVk
                                                        bb  bbbbbaaaaa

                             660       670       680       690       700 
d1h16a-  ( 443 )    LYAINGGvDEklkmqVGpksepIkgdvLnydeVmerMdhFMdwLAkqYIt
d1hk8a-  ( 324 )    LdS-yi------------------gtqfn----eqkfvelFnerMdlCfe
d1l1la-  ( 431 )    e-----------------------------------qgwdlqeVFaLAAr
d1peqa2  ( 427 )    d-----------------------------------sp-dIgrtVetaIr
d1r9da-  ( 458 )    eLTInsGfd--knkqiGpktqnFe-eMksfdeFmkAYkaQMeyFVkHMCc
d1rlra2  ( 474 )    n-----------------------------------ld-eLdelAilaVr
d2ha9a1  ( 221 )    ralekvr-----------------------gqsfdvvaetVkkTAfkitr
                    a                                       aaaaaaaaaa

                             710       720       730       740       750 
d1h16a-  ( 493 )    ALniIHymHDkysy--EaSLMAL--Hdr-----dV--------irtMACG
d1hk8a-  ( 351 )    ALmcRIssLkgvkAtvApILYqeGAFGvrlkpdddIIelFkngrSsVSLG
d1l1la-  ( 446 )    YAKRVTf-S---pY-dWeiSreiIqkN-----------------rRIGIS
d1peqa2  ( 441 )    glTavSdms---hirsVpSIaagnaas-----------------hAIGLG
d1r9da-  ( 505 )    ADncIDiAHaerAP--lPFLSSM--VdnCIgkGkSLQdgGAe-ynfSGPQ
d1rlra2  ( 488 )    alDalLdyQ---dY-pIpAAkrGAmGR-----------------RTLGIG
d2ha9a1  ( 248 )    IGqlVGqAserlg----------------------------vefgivdls
                    aaaaaaa          aaaa                         bbbb

                             760       770       780       790       800 
d1h16a-  ( 526 )    IA---GLSVAADSLSAIkya-----kVkPird----edglAidFeieg--
d1hk8a-  ( 401 )    YI---GIhELniLVg-----------------------------------
d1l1la-  ( 474 )    MS---gIqDWLltrLg----nrVVtgfkddfDpeth--------------
d1peqa2  ( 471 )    QM---NLHGYLAre-g----IaYGs-------------------------
d1r9da-  ( 550 )    GV---GVANIGDSLVAVkkIVfdenkit---pseLkktLn-ndFknseei
d1rlra2  ( 517 )    Vi---NFAyYLAkh-g----krYsd-------------------------
d2ha9a1  ( 271 )    laptdsvarVLeegle-----tvGth------------------------
                    bb    aaaaaaa                                     

                             810       820       830       840       850 
d1h16a-  ( 562 )    -----eypqFGnndprVDdlAvdLVerFmkkIqklhTyrd----------
d1hk8a-  ( 413 )    -----------------rdiGreILtkMnahLkqwtertg----------
d1l1la-  ( 503 )    ------eaikvPvy---dkrAikmVdqLykaVvkaDqdYSktLgcn----
d1peqa2  ( 488 )    --------------peAlDFTNLYFYTITwhAVhTSMrLArergktFagf
d1r9da-  ( 593 )    qalLknApkFGndideVDnlAreGalVYCrEVnkytNpRg----------
d1rlra2  ( 534 )    --------------gsAnnlTHkTFEAIQyyLLkASNeLAkeqg-aCpwf
d2ha9a1  ( 297 )    ---------------gttaalallndqvkkggv-----------------
                                     aaaaaaaaaaaaaaaa                 

                             860       870       880       890       900 
d1h16a-  ( 597 )    --------------------------------------------------
d1hk8a-  ( 436 )    --------------------------------------------------
d1l1la-  ( 540 )    --------------------------------------------------
d1peqa2  ( 524 )    aqSrYasGdyFtqYlqddwqPktakVraLFarsgItlPtremWlkLrddV
d1r9da-  ( 633 )    --------------------------------------------------
d1rlra2  ( 569 )    neTtYakGiLpidtyk-------kdLdtiAn---eplhy--dWeaLresI
d2ha9a1  ( 337 )    --------------------------------------------------
                                                                      

                             910       920       930       940       950 
d1h16a-  ( 597 )    ------AiptQSVLTI-tSNVvYGkkT----gnTPDgRrag----apFGP
d1hk8a-  ( 436 )    ------FaFsLySTpaenLcyrFCklDtekygsvkdVTdkg-----wYTn
d1l1la-  ( 540 )    -----eSiKhTTVkpsgtVAkLAgASeGMhfhygayLIqrirFqdsdpLL
d1peqa2  ( 574 )    mryGIYNqNLQAVppTgsiSyinhATsSIhPivak--ieirkegk-----
d1r9da-  ( 633 )    ------gnFQPGLYPS-SINvyFGslT----gATPDGrksg----qpLad
d1rlra2  ( 607 )    kthgLrNSTLSALmpsetsSqisnAtngIePprgy--vsikas-k-----
d2ha9a1  ( 337 )    --------------------------------------------------
                                      aaaaa                           

                             960       970       980       990       1000
d1h16a-  ( 632 )    GAnPmhgrDq-----------------------------------kgAva
d1hk8a-  ( 475 )    SFhVsve-en-----------------------------------itpfe
d1l1la-  ( 585 )    pALkaCgyrteaDiytenttCVeFPikavgAd---npnfasagtV-sIae
d1peqa2  ( 617 )    --------------------tgrvyypAPfMtnenldmYqdAydI-gpek
d1r9da-  ( 668 )    GVSPsrgcDv-----------------------------------sgPta
d1rlra2  ( 649 )    --------------------dgilrqvvpd-yehlhdaYElLweMpgNdg
d2ha9a1  ( 337 )    -------------------------------------iaAvqngslnlek
                                                                   aaa

                             1010      1020      1030      1040      1050
d1h16a-  ( 647 )    SLtSVakLpFayAkDGISYTFsIvpnaLgkddevrktnLAglMdgYFhhe
d1hk8a-  ( 489 )    kIsrEap-YHfiAtGGHISyVelpdmkn------nlkgLeaVWdyAAq--
d1l1la-  ( 631 )    qFATQAFLQtyWSDNAVsCtItFqd--------seGdqVeslLrqYrf--
d1peqa2  ( 646 )    IIdTYAeAtr-HVdQGLSLtLFFpd-------tattrdInkaQiyAwr--
d1r9da-  ( 683 )    ACnSVSkLdHfiASNGTLFNQkFhpsaLk--gdnGLmnLsslIrsYFd--
d1rlra2  ( 678 )    YLqLVGIMQk-FIDQSISAntNYdpsr-fpsgkvpmqqlLkDLLtAYk--
d2ha9a1  ( 350 )    lea-taics----------diaipe-------dtpaetiAa-iadeaaig
                    aaaaaa              bbb            aaaaaaaaaaaaa  

                             1060      1070      1080      1090      1100
d1h16a-  ( 697 )    asieggQHLNVNVM---nremLldAMe---------------npekypql
d1hk8a-  ( 530 )    ----hLDYFgVnMpVDkCftcgstheMtptengfvCsicgetdpkk-MnT
d1l1la-  ( 671 )    ----itKstsLlpyfgg---------slqqapkepidketyekrsqeit-
d1peqa2  ( 686 )    ---kgIKSLyyIrLrq-----------------------l          
d1r9da-  ( 729 )    ---qkGFHVQFNVi---dkkiLlaAqk---------------npekyqdl
d1rlra2  ( 724 )    ---fgVKTLYyQntrd-----------------------diddLsnfqL 
d2ha9a1  ( 387 )    vinieftapvkvn-----------------------gassvdfisrggqi
                           bb  bb                                     

                             1110      1120      1130
d1h16a-  ( 729 )    TIRVSGYAVrFnsLtkeQqqDVItrtFtqsm
d1hk8a-  ( 575 )    IrRtcAyLgnpn                   
d1l1la-  ( 707 )    -------------gnveevFsqlnsdvkdle
d1peqa2                                            
d1r9da-  ( 758 )    IVRVAGYSAQFisLdksiqndIiarteh-vm
d1rlra2                                            
d2ha9a1  ( 437 )    papi                           
                                                   

solvent inaccessible: UPPER CASE X
solvent accesible: lower case x
alpha helix: red x
beta strand: blue x
3 - 10 helix: maroon x
hydrogen bond to main chain amide: bold x
hydrogen bond to mainchain carbonyl: underline x
disulphide bond: cedilla ç
positive phi: italic x

Jmol view

Jmol Model View
Jmol Command prompt
Response Logs

Tree based on RMSD between structures

Matrices

1. Percentage Identity Matrix  [View | Download]
2. Distance Matrix  [View | Download]

PCA based on sequence identity

1. PCA  [View]
2. Plot file  [Download]

CUSP Results

CUSP Result   [View | Download]

Alistat - Alignment Statistics

Alignment Statistics  [Download]

SMotif - Conserved Structural Motifs

SMotif Result   [View | Download]

MeanRMS

MeanRMS  [Download]