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cd00576: RNR_PFL 
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RNR_PFL. Ribonucleotide reductase (RNR) and pyruvate formate lyase (PFL) have a structurally similar ten-stranded alpha-beta barrel active site domain and are believed to have diverged from a common ancestor. RNRs are found in all organisms and provide the only mechanism by which nucleotides are converted to deoxynucleotides, while PFL, an essential enzyme in anaerobic bacteria, catalyzes the conversion of pyruvate and CoA to acteylCoA and formate. Both RNR and PFL are glycyl radical enzymes.
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Statistics
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PSSM-Id: 73215
View PSSM: cd00576
Aligned: 8 rows
Created: 7-Mar-2002
Updated: 18-Mar-2007
Structure
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Program:
Drawing:
Aligned Rows:
Hierarchy
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active sitecatalytic
Feature Residues: 175,272,332,418,420,431. -Click on image for an interactive view with Cn3D
Feature 1: active site
Evidence:

cd00576 is part of a hierarchy of related CD models.
Use the graphical representation to navigate this hierarchy.
cd00576 is a member of the superfamily cl09939.
cd00576:RNR_PFLcd01675:RNR_IIIcd01676:RNR_II_monomercd01677:PFL2_DhaB_BssAcd01678:PFL1cd01679:RNR_Icd02888:RNR_II_dimer1H16 A1H18 A197137136580769222985334172563467917225475257796805470451891253250005818144814150238877154249429350146421850048766042699275752346552428379671293761723122593168010971R9E A1R9E B2820308548765286262503574185196820591622536514283791253024375289014223998408951244468571585485369076768206807508779162821112623954275682056131149904456476471518500614658067728300939174285621HK8 A34103723343959481679938273661453234662962502891919703656265539482989725952005325680560816820679250843575572416363174502618311489208082646826917171542526685494475087495367916506381993364876491717549184155971164657871542526839183098994254854614589982416151344504735015679535198873961991382068211599682111893203452242524015712792575645929915643151679191411L1L A66801255222988707238193353764731464457454R1R A4R1R C156771583914655197034501PEQ A5858592507305138829321588742313505991567455426553538219105851710384300195045701414439938540109574146679757213260871895081391465649256098720841111264428641765773051413506004610037730316299171039118266787307938955574141852000447488558854644698266810005391463919074701212235944252346160939751529050218311343518914602310054428198392622595273880691579117429654844681923447216340033598410332368631560437357239292580404214885016056707667462552335372887528493650508435594876550345657460216734134252273267926333324776972122415028210310343971732295761674055571487663007260347834102757538033444878204567907519671556746754514617544914537233004745885110175431208087021564289342557734145902721460181315897814183138631579059515839968200905185124667968562482537949085189389857234895572345507374816526217346685524916082440465817806787406126488911H16 A1H18 A197137136580769222985334172563467917225475257796805470451891253250005818144814150238877154249429350146421850048766042699275752346552428379671293761723122593168010971R9E A1R9E B2820308548765286262503574185196820591622536514283791253024375289014223998408951244468571585485369076768206807508779162821112623954275682056131149904456476471518500614658067728300939174285621HK8 A34103723343959481679938273661453234662962502891919703656265539482989725952005325680560816820679250843575572416363174502618311489208082646826917171542526685494475087495367916506381993364876491717549184155971164657871542526839183098994254854614589982416151344504735015679535198873961991382068211599682111893203452242524015712792575645929915643151679191411L1L A66801255222988707238193353764731464457454R1R A4R1R C156771583914655197034501PEQ A585859250730513882932158874231350599156745542655353821910585171038430019504570141443993854010957414667975721326087189508139146564925609872084111126442864176577305141350600461003773031629917103911826678730793895557414185200044748855885464469826681000539146391907470121223594425234616093975152905021831134351891460231005442819839262259527388069157911742965484468192344721634003359841033236863156043735723929258040421488501605670766746255233537288752849365050843559487655034565746021673413425227326792633332477697212241502821031034397173229576167405557148766300726034783410275753803344487820456790751967155674675451461754491453723300474588511017543120808702156428934255773414590272146018131589781418313863157905951583996820090518512466796856248253794908518938985723489557234550737481652621734668552491608244046581780678740612648891
cd00576 Sequence Cluster
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cd00576 Sequence Cluster
Sub-family Hierarchy
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CD Hierarchy
Sequence Alignment?
Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                             #                                          
1H16_A       153 TPDILRCRKSGVLTglp--------------dayGRGRIIGDYRrvalygidylmkdklaqftslqadlengvnleqtir 218
1R9E_A       140 TEETREAVNCDVFTvgny-------------yynGVGHVSVDYGkvlrvgfngiineakeqleknrsidpdfikkekfln 206
1HK8_A        51 PSFIMKAHESGIIHvhdidy---------spalpFTNCCLVDLKgmlengfklgna------------------------ 97
1L1L_A        82 AERLYKLIYGLGATpsgrnlwisgtdyqrrtgdsLNNCWFVAIRpqkygdskivp------------------------- 136
4R1R_A       193 VKRFYDAVSTFKISlptpimsg-----vrtptrqFSSCVLIECGdsl--------------------------------- 234
gi 47458851  149 IEAITKELADKNIIpagrilyg----agskkevtFFNCYVMPMIqdsr-------------------------------- 192
gi 17428562  607 AERFRWFNLSLSPTs-------------------GVGHVVPGYEallthgirgvsrqideaqq----------------- 650
gi 67919141  108 TPDDARAFYDEVAYmllrqmg------apnspqwFNTGLNFAYGidgpaqghfyvdpa---------------------- 159
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                   #    
1H16_A       219 l---------------------reeiaeqhralgqmkemaakygydisgpatnaqeaiQWTYFGYLAAVKSqNGaAMSFG 277
1R9E_A       207 sviisceaaityvnryakkakeiadntsdakrkaelneiakicskvsgegaksfyeacQLFWFIHAIINIEsNGhSISPA 286
1HK8_A        98 ----------------------------------------------qietpksigvatAIMAQITAQVASHqYG-GTTFA 130
1L1L_A       137 ------------------------------------------------sylgkqekavSMPFSFLFDELMK-GG-GVGFS 166
4R1R_A       235 -------------------------------------------------------dsiNATSSAIVKYVSQ-RA-GIGIN 257
gi 47458851  193 -------------------------------------------------------egiSKHRGQIMEIMSR-GG-GVGTN 215
gi 17428562  651 ----------------------------------------alaatdpqraeavapfyaGSRLALRGLAEYLeGLaGTAHD 690
gi 67919141  160 --------------------------------------------tqevresedaysrpQAHACFIQSVNDDlVNeGGIFD 195
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       278 rtstfldvyier-------------------------------------------------------------------- 289
1R9E_A       287 rfdqymypyye--------------------------------------------------------------------- 297
1HK8_A       131 nvdkvlspyvkrtyakhieda----------------------------------------------------------- 151
1L1L_A       167 varsnisqiprvdfaidlqlvvdetsesydasvkvgavgknelvqdadsiyyrlpdtregwvlanallidlhfaqtnpdr 246
4R1R_A       258 agriralgspi--------------------------------------------------------------------- 268
gi 47458851  216 gsslrpkdaia--------------------------------------------------------------------- 226
gi 17428562  691 taqalpqdqkiertnlaemearlrrlasgavpetvldalq---------------------------------------- 730
gi 67919141  196 lavrearvfkfgsgsgtnysnlrssgeklsgggsss-------------------------------------------- 231
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       290 ----------------------------------------dlkagkiteqeaQEMVDHLVMKLRMvrflrtpeydelfsg 329
1R9E_A       298 ------------------------------------------ndknitdkfaQELIDCIWIKLNDinkvrdeistkhfgg 335
1HK8_A       152 --------------------------------ekwqiadalnyaqsktekdvYDAFQAYEYEVNTlfss---------ng 190
1L1L_A       247 kqklildlsdirpygaeihgfggtasgpmplismlldvnevlnnkaggrltaVDAADICNLIGKAvvag---------nv 317
4R1R_A       269 ------------------------------------------rggeafhtgcIPFYKHFQTAVKSasqg---------gv 297
gi 47458851  227 ------------------------------------------isvggkssgaVSWLNDISQLTNLvqqg---------gs 255
gi 17428562  731 -------------lvlachatlhlcgepvavgrldrlirpfqekaplgetqlQEAIDCFWLKLGEk-------------- 783
gi 67919141  232 -----------------glmsflkifdsaagaiksggttrraakmvivdidhPDVERFIEWKAREed------------- 281
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1           #                                                                            
1H16_A       330 dpIWATESIGgmgldgrtlvtkNSFRFLNTLYTmgp-------------------------------------------- 365
1R9E_A       336 ypMYQNLIVGgqnsegkdatnkVSYMALEAAVHvkl-------------------------------------------- 371
1HK8_A       191 qtPFVTITFGtgtdw---termIQKAILKNRIKglgrdg----------------------------------------- 226
1L1L_A       318 rrSAELALGSn-----------DDQDFISMKQDqeklm------------------------------------------ 344
4R1R_A       298 rgGAATLFYPmw--------hlEVESLLVLKNNrgveg------------------------------------------ 327
gi 47458851  256 rrGAQMIMLGvw--------hpDIVEFIISKMQkpnilkfikdkfhhplikeavnfklnfrplsqekqmnidailahknl 327
gi 17428562  784 -tLLNRIFID------------DRQELGNLAMGnragpypkgqsvnqwiqqvtvggln---------------------- 828
gi 67919141  282 -kVAALVAGSr-----------ICSRFLKAIVDeaiangsdrsenlnlqlliknalaravpmnyivr---------vlal 340
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       366 --------------------------spePNMTILWSEKlpl-------------------------------------- 381
1R9E_A       372 ---------------------------pqPSLSVRIWNKtpd-------------------------------------- 386
1HK8_A       227 ------------------------itpifPKLVMFVEEGvnlykd----------------------------------- 247
1L1L_A       345 ------------------------hhrwaSNNSVAVDSAfs--------------------------------------- 361
4R1R_A       328 ------------------------nrvrhMDYGVQINKLmytrllkgeditlfspsdvpglydaffa----dqeeferly 379
gi 47458851  328 mphgvvvnaenlkkaggeyeindpgflsgANISVALTSDfmdavknnemyelrfpdlekftkeqkafydkewhnigdvke 407
gi 17428562  829 ----adgsweysdvtlaclrassrlpfnaPVLSLRVSRDmps-------------------------------------- 866
gi 67919141  341 vdqgyttldfeeydthyeseayqtvggqnSNNTVRVTNAfmkavenddm------------------------------- 389
                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       382 -----------------nfKKFAAKVSIDT-----------SSLQYENDDLMRPDfnnd--------------------- 412
1R9E_A       387 -----------------efLLRAAELTREGl----------GLPAYYNDEVIIPAlvsrgltl----------------- 422
1HK8_A       248 -------------dpnydiKQLALECASKR-----------MYPDIISAKNNKAItgss--------------------- 282
1L1L_A       362 ------------------gYQPIAAGIREN-----------GEPGIVNLDLSKNYgrivdgyqa---------------- 396
4R1R_A       380 tkyekddsirkqrvkavelFSLMMQERAST-----------GRIYIQNVDHCNTHspfdpa------------------- 429
gi 47458851  408 wgklgypvkvystikakelWDLINLCSTYS-----------AEPGVFFIDRANELtnaqsy------------------- 457
gi 17428562  867 ----------------awrKRLLAEAARGQls-------ggASPILLNDDKIIPAlsssgiaigprasadeaarwnaavr 923
gi 67919141  390 ----------walrerttdKTARAVRARDLwekvlmsawkcADPGLQFDTTINEWhtcpqs------------------- 440
                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                   #  #                     #                                           
1H16_A       413 -----dyaIACC-VSPMiv-----------gkQMQFFg-----------ARANLAKTmlyainggvdeklkmqvgpksep 464
1R9E_A       423 -edardygIIGC-VEPQkp-----------gkTEGWHd----------sAFFNLARIveltinsgfdknkqigpkt---q 476
1HK8_A       283 ----vpvsPMGC-RSFLsvwkdst-gneildgRNNLGv-----------VTLNLPRIaldsyigtq-------------- 331
1L1L_A       397 gidgdvegTNPCgEISLan------------gEPCNL------------FEVFPLIAeeq-------------------- 432
4R1R_A       430 --iapvrqSNLClEIALptkplndvndengeiALCTL------------SAFNLGAInn--------------------- 474
gi 47458851  458 --gqkvvcTNPCgEQPLap------------ySVCNL------------AAINLANFvdkhtg----------------- 494
gi 17428562  924 redahdyaCDGC-YEPQf-------------vGANWFhlggvtllqmleVALNQGRQmqsagpvdlfgknv--------- 980
gi 67919141  441 ---grinaSNPC-SEYMfl-----------ddTACNL------------ASLNLIHFvdestgki--------------- 478
                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       465 ikgdvlnydevmermdhFMDWLAKQYITALNIIHymhdkysyeas-----------------lmalhdrdviRTMACGIA 527
1R9E_A       477 nfeemksfdefmkaykaQMEYFVKHMCCADNCIDiahaeraplpflssmvd-----ncigkgkslqdggaeyNFSGPQGV 551
1HK8_A       332 ---------fneqkfveLFNERMDLCFEALMCRIsslkgvkatvapilyqegafgvrlkpdddiielfkngrSSVSLGYI 402
1L1L_A       433 ---------------gwDLQEVFALAARYAKRVTfspydwei----------------------sreiiqknRRIGISMS 475
4R1R_A       475 ---------------ldELEELAILAVRALDALLdyqdypipa---------------------akrgamgrRTLGIGVI 518
gi 47458851  495 ------------kidypKLENTVKLGIRFQDNIIdktyyflke---------------------nkdqalgeRRVGLGVM 541
gi 17428562  981 ---sfrsqpasaiasyaELEEVFFKHLEWTFARQmegtv-----------------------------adfgRMEGVCPS 1028
gi 67919141  479 ---------rvrellhaSALWTVVLEISVLMAHFpskdia--------------------------rlsyeyRTLGLGFA 523
                        730       740       750       760       770       780       790       800
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       528 GLSVAADSLSaikyakvkpirdedglai--------------------dfeiegeypqfgnndprvDDLAVDLVERFMKK 587
1R9E_A       552 GVANIGDSLVavkkivfdenkitpselkktlnnd--------fknseeiqallknapkfgndidevDNLAREGALVYCRE 623
1HK8_A       403 GIHELNILVG--------------------------------------------------------RDIGREILTKMNAH 426
1L1L_A       476 GIQDWLLTRLgnrvvtgfkddfd-------------------------------petheaikvpvyDKRAIKMVDQLYKA 524
4R1R_A       519 NFAYYLAKHGkrys------------------------------------------------dgsaNNLTHKTFEAIQYY 550
gi 47458851  542 GLHDMLIWSGlkyg------------------------------------------------skeaNKVVDKVFETIATS 573
gi 17428562 1029 PLLNLFIHDClakgrdiyaggarynvfgpcftslantinalwairvmcfdqataittlselvqallCNWGENMIDPLVHP 1108
gi 67919141  524 NLGTVLMVLGipydspkalalagaisalmtgqayvts--aemakdlgafagyaanskdmlrvirnhRRAAHNLSEEEYEG 601
                        810       820       830       840       850       860       870       880
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       588 IQKLhty------------------------------------------------------------------------- 594
1R9E_A       624 VNKYtnp------------------------------------------------------------------------- 630
1HK8_A       427 LKQWter------------------------------------------------------------------------- 433
1L1L_A       525 VVKAdqdysk---------------------------------------------------------------------- 534
4R1R_A       551 LLKAsnelakeqgacpwfnettyakgilpidty-------------------------kkdldtianeplhydwealres 605
gi 47458851  574 AYLTsielgkekgsfpfftsverflq---------------------------------------sgyvkklpqividaf 614
gi 17428562 1109 TVLAgdatrvsqaatrfrqlrsialslprwgrgnadidrfgneicqrvagiavqvmaqprdgladqyrrkamaygtpahp 1188
gi 67919141  602 LSVKprgidseycptelfeaa--------------------------------------------------gkiwdealq 631
                        890       900       910       920       930       940       950       960
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       595 -----rdAIPTQSVL---------TITSNVVYGkktgntpd---grragapFGPGANPMHgrd----------------- 640
1R9E_A       631 -----rgGNFQPGLY---------PSSINVYFGsltgatpd---grksgqpLADGVSPSRgcd----------------- 676
1HK8_A       434 -----tgFAFSLYSTp--------AENLCYRFCkldtekygsvkdvtdkgwYTNSFHVSVee------------------ 482
1L1L_A       535 -tlgcneSIKHTTVKp--------SGTVAKLAG------------------ASEGMHFHYgayliqrirfqdsdpllpal 587
4R1R_A       606 ikthglrNSTLSALMp--------SETSSQISN------------------ATNGIEPPRgyvsikaskdgilrqvv--- 656
gi 47458851  615 kktkairNSHLLTIAp--------TGSTGTMAG------------------VSTGLEPYYafkyfrsgrlgkfievdqdi 668
gi 17428562 1189 fggfcmqPGVGTFASyveqglgcaASADGRLSGq----------------pLGTDMSPSPspldlpatdasqqrvdgvla 1252
gi 67919141  632 kgkkhgfRNAQVSVIa-------pTGTIGLVMDc-----------------DTTGVEPEFaivkfkklagggyfkivn-- 685
                        970       980       990      1000      1010      1020      1030      1040
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1H16_A       641 -------------------------------------qkGAVASLTSVAKLpfa-yaKDGISYTFSIVPnalgkd--dev 680
1R9E_A       677 -------------------------------------vsGPTAACNSVSKLdhf-iaSNGTLFNQKFHPsalkg----dn 714
1HK8_A       483 -------------------------------------niTPFEKISREAPYhf--iaTGGHISYVELPDmkn-------- 515
1L1L_A       588 kacgyrteadiytenttcvefpikavgadnpnfasagtvSIAEQFATQAFLqty-wsDNAVSCTITFQDse--------- 657
4R1R_A       657 ----------------------pdyehlhdayellwempGNDGYLQLVGIMqk--fiDQSISANTNYDPsrfpsg---kv 709
gi 47458851  669 vae-------------wkkiknwpadkalpeifssamdlKPEEHVKVQNLIqr--wiDSSISKTVNAPKgys-------- 725
gi 17428562 1253 lk---------------gitatdafgfangapvdlnideSIGESRLVEILDafv-egAGSNILTVTTADqatflaaansp 1316
gi 67919141  686 ---------------------qsvhkalerlgytsaqidDIEKYCKGHGTLsgcptiSRQWLKSRGFTDekie------q 738
                       1050      1060      1070
                 ....*....|....*....|....*....|...
Feature 1                                         
1H16_A       681 rktNLAGLMDGYFhheas-ieggQHL---NVNV 709
1R9E_A       715 glmNLSSLIRSYFdq------kgFHV---QFNV 738
1HK8_A       516 nlkGLEAVWDYAAqh-------lDYF---GVNM 538
1L1L_A       658 -gdQVESLLRQYRfi-------tKST---SLLP 679
4R1R_A       710 pmqQLLKDLLTAYkf------gvKTLy--YQNT 734
gi 47458851  726 -veDVEKVFMSLYdgg-----skGGTv--YVDG 750
gi 17428562 1317 esfDLLRVRMGGWtem----fvaMHAthqKVHP 1345
gi 67919141  739 velQLETVFDIRFafnkwilgeeFCLs-lGFTD 770

Citing CDD
Marchler-Bauer A et al. (2009), "CDD: specific functional annotation with the Conserved Domain Database.", Nucleic Acids Res. 37(D)205-10.
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Click on image for an interactive view with Cn3D
Feature Residues: 175,272,332,418,420,431. -Click on image for an interactive view with Cn3D