BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 000291
(1714 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q5D869|NRPE1_ARATH DNA-directed RNA polymerase E subunit 1 OS=Arabidopsis thaliana
GN=NRPE1 PE=1 SV=1
Length = 1976
Score = 1233 bits (3190), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 631/1047 (60%), Positives = 770/1047 (73%), Gaps = 83/1047 (7%)
Query: 1 MEENTSSTILEGQIVGIRFGLATQKEICTASISDCSISHASQLANPFLGLPLEFGKCESC 60
MEE ++S IL+G+IVGI F LA+ EIC SIS+ +I+H SQL N FLGLPLEFGKCESC
Sbjct: 1 MEEESTSEILDGEIVGITFALASHHEICIQSISESAINHPSQLTNAFLGLPLEFGKCESC 60
Query: 61 GTSEPGKCEGHFGYIELPIPIYHPSHISELK---LTMYAFQLQIK-----NDGVAQRLLS 112
G +EP KCEGHFGYI+LP+PIYHP+H++ELK + L+IK + G+A RLL
Sbjct: 61 GATEPDKCEGHFGYIQLPVPIYHPAHVNELKQMLSLLCLKCLKIKKAKGTSGGLADRLLG 120
Query: 113 SCCE-----------------------------------------------VKEMLKR-- 123
CCE + +L R
Sbjct: 121 VCCEEASQISIKDRASDGASYLELKLPSRSRLQPGCWNFLERYGYRYGSDYTRPLLAREV 180
Query: 124 ------IPEETRKKLAGKGYFPQDGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLK 177
IPEE+RKKL KG+ PQ+GYILEYLPVPPNCLSVP+ SDG STMS D S LK
Sbjct: 181 KEILRRIPEESRKKLTAKGHIPQEGYILEYLPVPPNCLSVPEASDGFSTMSVDPSRIELK 240
Query: 178 KVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFGV-SQDP 236
VLK+V I+SSRSG NFES + E++++ V YL+VRGTAK++R++D R+GV
Sbjct: 241 DVLKKVIAIKSSRSGETNFESHKAEASEMFRVVDTYLQVRGTAKAARNIDMRYGVSKISD 300
Query: 237 NSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNI 296
+S++KAW EKMRTLFIRKGSGFSSRSVITGDAY+ VNE+G+P EIAQRITFEERV+VHN
Sbjct: 301 SSSSKAWTEKMRTLFIRKGSGFSSRSVITGDAYRHVNEVGIPIEIAQRITFEERVSVHNR 360
Query: 297 NYLQELVDNKLCLTYSDGSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHK 356
YLQ+LVD+KLCL+Y+ GS++YSLR+GSKGHT L+PGQVVHRR+MDGD VFINRPPTTHK
Sbjct: 361 GYLQKLVDDKLCLSYTQGSTTYSLRDGSKGHTELKPGQVVHRRVMDGDVVFINRPPTTHK 420
Query: 357 HSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLL 416
HSLQAL VYVH+D+TVKINPL+C PLSADFDGDC+HLFYPQSL+AKAEV+ELFSVEKQLL
Sbjct: 421 HSLQALRVYVHEDNTVKINPLMCSPLSADFDGDCVHLFYPQSLSAKAEVMELFSVEKQLL 480
Query: 417 SSHNGNLNLQLATDALLSLKVMFKKYFLDKAFTQQLAMFALSPLPRPALSK-ARCSARWT 475
SSH G L LQ+ +D+LLSL+VM ++ FLDKA QQLAM+ LP PAL K ++ WT
Sbjct: 481 SSHTGQLILQMGSDSLLSLRVMLERVFLDKATAQQLAMYGSLSLPPPALRKSSKSGPAWT 540
Query: 476 ALQILQSVLPPGFDSCGDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEF 535
QILQ P GDR+L+ S++LK DF D + S+INEIVTSIF EKGP+E L F
Sbjct: 541 VFQILQLAFPERLSCKGDRFLVDGSDLLKFDFGVDAMGSIINEIVTSIFLEKGPKETLGF 600
Query: 536 FDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQ----KEIQALYSLLYHRMSTQNELV 591
FDSLQPLLME+LFA+GFS+SLED S+S+A + I +EI + S L R+S ++E
Sbjct: 601 FDSLQPLLMESLFAEGFSLSLEDLSMSRADMDVIHNLIIREISPMVSRL--RLSYRDE-- 656
Query: 592 DLQIENHIRHVKMLVAKFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSK 651
LQ+EN I VK + A F+LKS ++ LID KS+SA++K+VQQ GFLGLQLSD+ KFY+K
Sbjct: 657 -LQLENSIHKVKEVAANFMLKSYSIRNLIDIKSNSAITKLVQQTGFLGLQLSDKKKFYTK 715
Query: 652 TLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLS 711
TLVED+A +R Y + + +G++KGCFFHGLDPYEEM HSI+ REVIVRSSRGL+
Sbjct: 716 TLVEDMAIFCKRKYGRISS--SGDFGIVKGCFFHGLDPYEEMAHSIAAREVIVRSSRGLA 773
Query: 712 EPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYAVNARKSHS-LFPAGEPVGVLAA 770
EPGTLFKNLMAVLRD+VI DGTVRN CSNS+IQF Y V++ + H LF AGEPVGVLAA
Sbjct: 774 EPGTLFKNLMAVLRDIVITNDGTVRNTCSNSVIQFKYGVDSERGHQGLFEAGEPVGVLAA 833
Query: 771 TAMSNPAYKAVLDSSPSSNNSWELMKEILLCRVSFNNDPIDRRVILYLNDCGCGRKYCQE 830
TAMSNPAYKAVLDSSP+SN+SWELMKE+LLC+V+F N DRRVILYLN+C CG+++CQE
Sbjct: 834 TAMSNPAYKAVLDSSPNSNSSWELMKEVLLCKVNFQNTTNDRRVILYLNECHCGKRFCQE 893
Query: 831 RAAYMVKNQLKRVSLKDAAVEFLIEYKKPEIISD----DEGLVGHIHLNKILLEDLRISM 886
AA V+N+L +VSLKD AVEFL+EY+K IS+ D L GHIHLNK LL+D ISM
Sbjct: 894 NAACTVRNKLNKVSLKDTAVEFLVEYRKQPTISEIFGIDSCLHGHIHLNKTLLQDWNISM 953
Query: 887 HDILPKCQETLKSFCKKKKMKKVVQFFKNTSLSISECCSFQQSCADKRSNMPCLMFVLRG 946
DI KC++ + S +KKK KK FK TSLS+SECCSF+ C K S+MPCL F
Sbjct: 954 QDIHQKCEDVINSLGQKKK-KKATDDFKRTSLSVSECCSFRDPCGSKGSDMPCLTFSY-N 1011
Query: 947 ASDSYLDKLSGVLANMIYPVLLETIIK 973
A+D L++ VL N +YPVLLE +IK
Sbjct: 1012 ATDPDLERTLDVLCNTVYPVLLEIVIK 1038
Score = 417 bits (1071), Expect = e-115, Method: Compositional matrix adjust.
Identities = 297/803 (36%), Positives = 402/803 (50%), Gaps = 136/803 (16%)
Query: 980 QRLSASVTMVAKGVLKEHLILLANSMTCAGDLVGFNSGGYKALSRSLNVQVPFTEATLFM 1039
QRLSASV MV+KGVLKEH+ILLAN+MTC+G ++GFNSGGYKAL+RSLN++ PFTEATL
Sbjct: 1130 QRLSASVRMVSKGVLKEHIILLANNMTCSGTMLGFNSGGYKALTRSLNIKAPFTEATLIA 1189
Query: 1040 PRKCFEKAAEKRHTDNLSSVVAACSWGKHVAVGTGSRFDLLWQTENEEFNQDDGVDVYDF 1099
PRKCFEKAAEK HTD+LS+VV +CSWGK V VGTGS+F+LLW + + + DVY F
Sbjct: 1190 PRKCFEKAAEKCHTDSLSTVVGSCSWGKRVDVGTGSQFELLWNQKETGLDDKEETDVYSF 1249
Query: 1100 LHMVRSSTGIEELDTGCLGEEVDGLEDEF-DWSLSPEHNLCSDKPVFEDLVEDQSWL-EN 1157
L MV S+T D D E+E +W+ SPE + +P FED + Q+ E
Sbjct: 1250 LQMVISTTNA---DAFVSSPGFDVTEEEMAEWAESPERDSALGEPKFEDSADFQNLHDEG 1306
Query: 1158 KQENANWDSEAD----CRKSSEDKWEKLGTSLEKPSSGWRT------EGAWGKSSDDKLE 1207
K ANW+ + C SE K P S W E AW + K
Sbjct: 1307 KPSGANWEKSSSWDNGCSGGSEWGVSKSTGGEANPESNWEKTTNVEKEDAWSSWNTRKDA 1366
Query: 1208 KAGSPSRKPSGWGTEASWGES-SCDKWENVGSPAAKSFSEWGTEASWGKSFGDKPENVSP 1266
+ S S WG + ++ + WE SPA K PEN P
Sbjct: 1367 QESSKSDSGGAWGIKTKDADADTTPNWET--SPAPKD--------------SIVPENNEP 1410
Query: 1267 AAKTSSGWG----SEASWGKSSGDRQENVGGSASKPLSGWGAK--ASWGKSSEDKLEEVE 1320
TS WG S+ SW K + G+ S P + WG+ A WG SS+ K E E
Sbjct: 1411 ---TSDVWGHKSVSDKSWDKKNW-------GTESAP-AAWGSTDAAVWG-SSDKKNSETE 1458
Query: 1321 TTVAKPSSAWGTE--------------ASWDKSSEVTLEKVAAPAENPLSGWGTEAQDSG 1366
+ A AWG+ W+K S T E+ + WG+ +
Sbjct: 1459 SDAA----AWGSRDKNNSDVGSGAGVLGPWNKKSSET--------ESNGATWGSSDKTKS 1506
Query: 1367 KSSDWSEWKDHANAT----ASWGRNGSEENSGWDTKASWKTKALDKLDDVGSAVENSSSV 1422
++ W+ W T A+WG G + + A+W D S E +
Sbjct: 1507 GAAAWNSWDKKNIETDSEPAAWGSQGKKNSETESGPAAWGA-----WDKKKSETEPGPAG 1561
Query: 1423 WGAREDFSTKGWEDSSKPSANEKSIVHQIGGWNV--------PDAKG-TDDSCWGKQKLT 1473
WG + K E P+A +G W+ P A G TD + WG
Sbjct: 1562 WGMGD---KKNSETELGPAA--------MGNWDKKKSDTKSGPAAWGSTDAAAWGSSDKN 1610
Query: 1474 ENAKGTDDSSWGKQKHTENESPQPASS-NAWDLPDATG----GSETEMQVW-----GQSR 1523
+ +D ++WG + +E A + +W P T +E + W +SR
Sbjct: 1611 NSETESDAAAWGSRNKKTSEIESGAGAWGSWGQPSPTAEDKDTNEDDRNPWVSLKETKSR 1670
Query: 1524 KEPFKKNRGWASSS--------------GEWKGKKNRPPRSPGVVNDDSTVNAMYTVTRQ 1569
++ K+ W + + +WKG +N PR P + + M+T TRQ
Sbjct: 1671 EKDDKERSQWGNPAKKFPSSGGWSNGGGADWKGNRNHTPRPP---RSEDNLAPMFTATRQ 1727
Query: 1570 RLDMFTSEEQDILSDVEPIMRSIRRIMHQSGYNDGDRLSADDKSFIFDNVFNYHPDKAMK 1629
RLD FTSEEQ++LSDVEP+MR++R+IMH S Y DGD +S DDK+F+ + + N+HP K K
Sbjct: 1728 RLDSFTSEEQELLSDVEPVMRTLRKIMHPSAYPDGDPISDDDKTFVLEKILNFHPQKETK 1787
Query: 1630 MGAGIDHFKVDKHGSFQDSRCLFVVSTDGSQQDFSYRKCLESFIRGKYPDLVDEFIGKYF 1689
+G+G+D VDKH F DSRC FVVSTDG++QDFSYRK L +++ KYPD +EFI KYF
Sbjct: 1788 LGSGVDFITVDKHTIFSDSRCFFVVSTDGAKQDFSYRKSLNNYLMKKYPDRAEEFIDKYF 1847
Query: 1690 RRPRSGGNR----EPSLPPVPEE 1708
+PR GNR + + PP E+
Sbjct: 1848 TKPRPSGNRDRNNQDATPPGEEQ 1870
>sp|Q9LQ02|NRPD1_ARATH DNA-directed RNA polymerase D subunit 1 OS=Arabidopsis thaliana
GN=NRPD1 PE=1 SV=1
Length = 1453
Score = 261 bits (668), Expect = 3e-68, Method: Compositional matrix adjust.
Identities = 285/1116 (25%), Positives = 477/1116 (42%), Gaps = 191/1116 (17%)
Query: 12 GQIVGIRFGLATQKEICTASISDCSISHASQLANPFLGLPLEFGKCESCGTSEPGKCEGH 71
G + I F ++ + S+ + + +Q+ + LGLP C +CG+ + CEGH
Sbjct: 13 GTLTSIGFSISNNNDRDKMSVLE--VEAPNQVTDSRLGLPNPDSVCRTCGSKDRKVCEGH 70
Query: 72 FGYIELPIPIYHPSHISELKLTMYAF----------QLQIKND----------GVAQRLL 111
FG I I +P + E+ + Q QI D L+
Sbjct: 71 FGVINFAYSIINPYFLKEVAALLNKICPGCKYIRKKQFQITEDQPERCRYCTLNTGYPLM 130
Query: 112 SSCCEVKEMLKR------IPEETRKKLAGKG----------YFPQDGYILEYLPVPPNCL 155
KE+ +R + EE+ KL +G + PQD I E P +
Sbjct: 131 KFRVTTKEVFRRSGIVVEVNEESLMKLKKRGVLTLPPDYWSFLPQDSNIDESCLKPTRRI 190
Query: 156 ----SVPDISDGVSTMSSDLSIAMLKKV-----------LKQVEIIRSSRSGTPNFESQE 200
V + G+ I M + + EI+ F+ +
Sbjct: 191 ITHAQVYALLLGIDQRLIKKDIPMFNSLGLTSFPVTPNGYRVTEIVHQFNGARLIFDERT 250
Query: 201 --------VESNDLQLA-----VGQYLEVRG-TAKSSRDVDARFGVSQDPNSTTK-AWLE 245
E N L+L+ QY + T SS+D + Q + T K L
Sbjct: 251 RIYKKLVGFEGNTLELSSRVMECMQYSRLFSETVSSSKDSANPY---QKKSDTPKLCGLR 307
Query: 246 KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHN-----INYLQ 300
M+ + + K S + R+V+ GD ++NEIG+P IA+R+ E +N N +++
Sbjct: 308 FMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLNQCNKERLVTSFVP 367
Query: 301 ELVDNKLCLTYSDGSSSYSLREGSKGHTF----LRPGQVVHRRIMDGDTVFINRPPTTHK 356
L+DNK +R G + L+ G + R +MDGDTV +NRPP+ H+
Sbjct: 368 TLLDNK----------EMHVRRGDRLVAIQVNDLQTGDKIFRSLMDGDTVLMNRPPSIHQ 417
Query: 357 HSLQALSVYV-HDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQL 415
HSL A++V + V +NP+ C P DFDGDC+H + PQS+ AK E+ EL +++KQL
Sbjct: 418 HSLIAMTVRILPTTSVVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELVALDKQL 477
Query: 416 LSSHNGNLNLQLATDALLS--LKVMFKKYFLDKAFTQQLAMFALSPLPRPALSKARCSA- 472
++ NG L L D+L + L + K +L++A QQL M+ LP PA+ KA S+
Sbjct: 478 INRQNGRNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAIIKASPSST 537
Query: 473 --RWTALQILQSVLPPGFDSCG--DRYLIKKSEVLK----GDFDRDTIPSVINEIVTSIF 524
+WT +Q+ + PPGFD + ++ E+L + RD + I ++
Sbjct: 538 EPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRDGEGNFIERLLKH-- 595
Query: 525 FEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSK--AALWNIQKEIQA------- 575
+KG +VL+ S Q +L + L G SVSL D LS + N+ +EI
Sbjct: 596 -DKG--KVLDIIYSAQEMLSQWLLMRGLSVSLADLYLSSDLQSRKNLTEEISYGLREAEQ 652
Query: 576 ------------------------------LYSLLYHRM--STQNELVDLQIENHIRHVK 603
L Y R +T +EL ++ R V+
Sbjct: 653 VCNKQQLMVESWRDFLAVNGEDKEEDSVSDLARFCYERQKSATLSELAVSAFKDAYRDVQ 712
Query: 604 MLVAKFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFER 663
L ++ +S++ + + S + K+VQ + +GLQ S + A+ +
Sbjct: 713 ALAYRYGDQSNSFLIMSKAGSKGNIGKLVQHSMCIGLQNSAVSLSFGFPRELTCAAWNDP 772
Query: 664 IYPM--------DLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGT 715
P+ YG+I+ F GL+P E HS+++R+ + L PGT
Sbjct: 773 NSPLRGAKGKDSTTTESYVPYGVIENSFLTGLNPLESFVHSVTSRDSSFSGNADL--PGT 830
Query: 716 LFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYAVNARKSHSLFPAGEPVGVLAATAMSN 775
L + LM +RD+ YDGTVRN N ++QF Y + GE +G L+A A+S
Sbjct: 831 LSRRLMFFMRDIYAAYDGTVRNSFGNQLVQFTYETDGPVEDI---TGEALGSLSACALSE 887
Query: 776 PAYKA------VLDSSPSSNNSWELMKEILLCRVSFNNDPIDRRVILYLNDCGCGRKYCQ 829
AY A +L++SP N +K +L C ++ + LYL++ +K+
Sbjct: 888 AAYSALDQPISLLETSPLLN-----LKNVLEC--GSKKGQREQTMSLYLSEYLSKKKHGF 940
Query: 830 ERAAYMVKNQLKRVSLKDAAVEFLIEYKKPEIISDDEGL-----VGHIHLNKILLEDLRI 884
E + +KN L+++S + +I + S + + V H H+++ +L+ ++
Sbjct: 941 EYGSLEIKNHLEKLSFSEIVSTSMIIFSP----SSNTKVPLSPWVCHFHISEKVLKRKQL 996
Query: 885 SMHDILPKCQETLKSFCKKKKMKKVVQFFKNTSLSISECCSFQQSCADKRSNMPCLMFVL 944
S ++ E KS ++ K+ V +NT + C S Q+ D C+ +
Sbjct: 997 SAESVVSSLNEQYKSRNRELKLDIVDLDIQNT----NHCSSDDQAMKDDNV---CITVTV 1049
Query: 945 RGASDSYLDKLSGVLANMIYPVLLETIIKENWWVRQ 980
AS + +L + +I P LL++ +K + +++
Sbjct: 1050 VEASKHSVLELDAIRLVLI-PFLLDSPVKGDQGIKK 1084
Score = 80.1 bits (196), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 41/119 (34%), Positives = 68/119 (57%), Gaps = 2/119 (1%)
Query: 982 LSASVTMVAKGVLKEHLILLANSMTCAGDLVGFNSGGYKALSRSLNVQVPFTEATLFMPR 1041
L ++V+ K +L+EHL+L+A+S++ G+ V N+ G+ + + PFT+A P
Sbjct: 1167 LESAVSDTGKEILREHLLLVADSLSVTGEFVALNAKGWSKQRQVESTPAPFTQACFSSPS 1226
Query: 1042 KCFEKAAEKRHTDNLSSVVAACSWGKHVAVGTGSRFDLLWQTENEEFNQDDGVDVYDFL 1100
+CF KAA++ D+L + A +WGK GTG +F+++ + F VDVYD L
Sbjct: 1227 QCFLKAAKEGVRDDLQGSIDALAWGKVPGFGTGDQFEIIISPKVHGFTTP--VDVYDLL 1283
Score = 56.6 bits (135), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 57/109 (52%), Gaps = 8/109 (7%)
Query: 1584 DVEPIMRSIRRIMHQSGYNDGDRLSADDKSFIFDNVFNYHPDKAMKMGAGIDHFKV--DK 1641
++E + +S++RI+H Y + L+ D+ + V HP+ K+G G+ +V K
Sbjct: 1338 NIELLSQSLKRILH--SYEINELLNERDEGLV-KMVLQLHPNSVEKIGPGVKGIRVAKSK 1394
Query: 1642 HGSFQDSRCLFVVSTDGSQQDFSYRKCLESFIRGKYPDLVDEFIGKYFR 1690
HG DS C VV DG+ +DFSY KC+ + P ++ + KY +
Sbjct: 1395 HG---DSCCFEVVRIDGTFEDFSYHKCVLGATKIIAPKKMNFYKSKYLK 1440
>sp|P17545|RPB1B_TRYBB DNA-directed RNA polymerase II subunit RPB1-B OS=Trypanosoma brucei
brucei GN=TRP5.9 PE=1 SV=1
Length = 1766
Score = 200 bits (509), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 187/679 (27%), Positives = 309/679 (45%), Gaps = 67/679 (9%)
Query: 116 EVKEMLKRIPEETRKKLAGKGYFPQDGY----ILEYLPVPPNCLSVPDISDGVSTMSSDL 171
+V+++L R+ ++ + + G+ PQ + +L LPVPP + P IS G +L
Sbjct: 216 KVRQVLDRVSDDDARLM---GFDPQRCHPRDLVLTVLPVPPPQVR-PAISFGGLRSDDEL 271
Query: 172 SIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFG 231
+ ++ V + ++ R S + + LQ V Y T V+
Sbjct: 272 THQIMSIVKRNNQLRRDKESDVQ--AAIDRSRALLQEHVATYFNNASTYYKPTKVNDTKK 329
Query: 232 VSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERV 291
+ + K ++R + K FS+R+VITGD V+E+GVPF +A +TF ERV
Sbjct: 330 L-KSLTERLKGKYGRLRGNLMGKRVDFSARTVITGDPNIDVDEVGVPFSVAMTLTFPERV 388
Query: 292 NVHNINYLQELVDNKLC-----LTYSDGSSS--YSLREGSKGHTFLRPGQVVHRRIMDGD 344
N N L E + + + +G+ + LR+ SK L G VV R +++GD
Sbjct: 389 NTINKKRLTEFARRTVYPSANYIHHPNGTITKLALLRDRSK--VTLNIGDVVERHVINGD 446
Query: 345 TVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAE 404
V NR PT H+ S+ V V + +T ++N P +ADFDGD ++L PQSL KAE
Sbjct: 447 VVLFNRQPTLHRMSMMGHRVRVLNYNTFRLNLSCTTPYNADFDGDEMNLHVPQSLLTKAE 506
Query: 405 VLELFSVEKQLLSSHNGNLNLQLATDALL-SLKVMFKKYFLDKAFTQQLAM-FALSPLPR 462
++E+ V K +S + + + D+LL S ++ K FLDK F Q +A+ L LP
Sbjct: 507 LIEMMMVPKNFVSPNKSAPCMGIVQDSLLGSYRLTDKDTFLDKYFVQSVALWLDLWQLPI 566
Query: 463 PALSKARCSARWTALQILQSVLP-----------PGFDSCGDRYLIKKSEVLKGDFDRDT 511
PA+ K R WT Q+ +LP P F +I++ ++L G +
Sbjct: 567 PAILKPR--PLWTGKQVFSLILPEVNHPATPQDRPPFPHNDSVVMIRRGQLLCGPITKSI 624
Query: 512 IPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAAL----- 566
+ + ++ IF E G +EV F + +Q + L GFSV ++D L
Sbjct: 625 VGAAPGSLIHVIFNEHGSDEVARFINGVQRVTTFFLLNFGFSVGVQDTVADSDTLRQMND 684
Query: 567 ------WNIQKEIQALYSLLYHRMSTQNELVDLQ--IENHIRHVKMLVAKFIL----KSS 614
N++K A + +R + L + + + + + AK L +++
Sbjct: 685 VLVKTRRNVEKIGAAANNRTLNRKAGMTLLQSFEADVNSALNKCREEAAKKALSNVRRTN 744
Query: 615 TLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGK----FYSKTLVEDIASHFERIYPMDLN 670
+ +I++ S + Q A F+G Q + F +TL HF M +
Sbjct: 745 SFKVMIEAGSKGTDLNICQIAVFVGQQNVAGSRIPFGFRRRTL-----PHF-----MLDD 794
Query: 671 YPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVIC 730
Y G+ + GL P+E H+++ RE ++ ++ S+ G L + L+ L DV
Sbjct: 795 YGETSRGMANRGYVEGLKPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALEDVHAA 854
Query: 731 YDGTVRNVCSNSIIQFDYA 749
YDGTVRN ++ +IQF Y
Sbjct: 855 YDGTVRN-ANDELIQFMYG 872
Score = 40.0 bits (92), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 14/78 (17%)
Query: 17 IRFGLATQKEICTASISDCSISHASQLANPF----------LGLPLEFGK-CESCGTSEP 65
++F + +++I + ++ C + HA AN + +PL CE+C P
Sbjct: 20 VQFEIFKERQIKSYAV--CLVEHAKSYANAADQSGEASMICVWVPLTSNSACETCHRKHP 77
Query: 66 GKCEGHFGYIELPIPIYH 83
+C GHFGYIEL P+++
Sbjct: 78 -ECPGHFGYIELAEPVFN 94
>sp|P17546|RPB1A_TRYBB DNA-directed RNA polymerase II subunit RPB1-A OS=Trypanosoma brucei
brucei GN=TRP4.8 PE=1 SV=1
Length = 1766
Score = 199 bits (507), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 187/679 (27%), Positives = 308/679 (45%), Gaps = 67/679 (9%)
Query: 116 EVKEMLKRIPEETRKKLAGKGYFPQDGY----ILEYLPVPPNCLSVPDISDGVSTMSSDL 171
+V+++L R+ ++ + + G+ PQ + +L LPVPP + P IS G +L
Sbjct: 216 KVRQVLDRVSDDDARLM---GFDPQRCHPRDLVLTVLPVPPPQVR-PAISFGGLRSDDEL 271
Query: 172 SIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFG 231
+ ++ V + ++ R S + + LQ V Y T V+
Sbjct: 272 THQIMSIVKRNNQLRRDKESDVQ--AAIDRSRALLQEHVATYFNNASTYYKPTKVNDTKK 329
Query: 232 VSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERV 291
+ + K ++R + K FS+R+VITGD V+E+GVPF +A +TF ERV
Sbjct: 330 L-KSLTERLKGKYGRLRGNLMGKRVDFSARTVITGDPNIDVDEVGVPFSVAMTLTFPERV 388
Query: 292 NVHNINYLQELVDNKLC-----LTYSDGSSS--YSLREGSKGHTFLRPGQVVHRRIMDGD 344
N N L E + + + +G+ + LR+ SK L G VV R +++GD
Sbjct: 389 NTVNKKRLTEFARRTVYPSANYIHHPNGTITKLALLRDRSK--VTLNIGDVVERHVINGD 446
Query: 345 TVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAE 404
V NR PT H+ S+ V V + T ++N P +ADFDGD ++L PQSL KAE
Sbjct: 447 VVLFNRQPTLHRMSMMGHRVRVLNYSTFRLNLSCTTPYNADFDGDEMNLHVPQSLLTKAE 506
Query: 405 VLELFSVEKQLLSSHNGNLNLQLATDALL-SLKVMFKKYFLDKAFTQQLAM-FALSPLPR 462
++E+ V K +S + + + D+LL S ++ K FLDK F Q +A+ L LP
Sbjct: 507 LIEMMMVPKNFVSPNKSAPCMGIVQDSLLGSYRLTDKDTFLDKYFVQSVALWLDLWQLPI 566
Query: 463 PALSKARCSARWTALQILQSVLP-----------PGFDSCGDRYLIKKSEVLKGDFDRDT 511
PA+ K R WT Q+ +LP P F +I++ ++L G +
Sbjct: 567 PAILKPR--PLWTGKQVFSLILPEVNHPATPQDRPPFPHNDSVVMIRRGQLLCGPITKSI 624
Query: 512 IPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAAL----- 566
+ + ++ IF E G +EV F + +Q + L GFSV ++D L
Sbjct: 625 VGAAPGSLIHVIFNEHGSDEVARFINGVQRVTTFFLLNFGFSVGVQDTVADSDTLRQMND 684
Query: 567 ------WNIQKEIQALYSLLYHRMSTQNELVDLQ--IENHIRHVKMLVAKFIL----KSS 614
N++K A + +R + L + + + + + AK L +++
Sbjct: 685 VLVKTRRNVEKIGAAANNRTLNRKAGMTLLQSFEADVNSALNKCREEAAKKALSNVRRTN 744
Query: 615 TLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGK----FYSKTLVEDIASHFERIYPMDLN 670
+ +I++ S + Q A F+G Q + F +TL HF M +
Sbjct: 745 SFKVMIEAGSKGTDLNICQIAVFVGQQNVAGSRIPFGFRRRTL-----PHF-----MLDD 794
Query: 671 YPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVIC 730
Y G+ + GL P+E H+++ RE ++ ++ S+ G L + L+ L DV
Sbjct: 795 YGETSRGMANRGYVEGLKPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALEDVHAA 854
Query: 731 YDGTVRNVCSNSIIQFDYA 749
YDGTVRN ++ +IQF Y
Sbjct: 855 YDGTVRN-ANDELIQFMYG 872
Score = 40.0 bits (92), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 14/78 (17%)
Query: 17 IRFGLATQKEICTASISDCSISHASQLANPF----------LGLPLEFGK-CESCGTSEP 65
++F + +++I + ++ C + HA AN + +PL CE+C P
Sbjct: 20 VQFEIFKERQIKSYAV--CLVEHAKSYANAADQSGEASMICVWVPLTSNSACETCHRKHP 77
Query: 66 GKCEGHFGYIELPIPIYH 83
+C GHFGYIEL P+++
Sbjct: 78 -ECPGHFGYIELAEPVFN 94
>sp|P36594|RPB1_SCHPO DNA-directed RNA polymerase II subunit rpb1 OS=Schizosaccharomyces
pombe (strain 972 / ATCC 24843) GN=rpb1 PE=1 SV=1
Length = 1752
Score = 191 bits (486), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 171/638 (26%), Positives = 288/638 (45%), Gaps = 71/638 (11%)
Query: 162 DGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYL--EVRGT 219
DG S DL+ + + + R + G P E E LQ V Y+ E+ G
Sbjct: 259 DGTSRGEDDLTHKLSDIIKANANVRRCEQEGAPAHIVSEYEQL-LQFHVATYMDNEIAGQ 317
Query: 220 AKSSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEI 275
++ + S P + +A L+ ++R + K FS+R+VITGD ++E+
Sbjct: 318 PQALQK-------SGRPLKSIRARLKGKEGRLRGNLMGKRVDFSARTVITGDPNLSLDEL 370
Query: 276 GVPFEIAQRITFEERVNVHNINYLQELVDNK------LCLTYSDGSSSYSLREGSK-GHT 328
GVP IA+ +T+ E V +NI LQELV N D LR + G
Sbjct: 371 GVPRSIAKTLTYPETVTPYNIYQLQELVRNGPDEHPGAKYIIRDTGERIDLRYHKRAGDI 430
Query: 329 FLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDG 388
LR G V R I DGD V NR P+ HK S+ + V T ++N + P +ADFDG
Sbjct: 431 PLRYGWRVERHIRDGDVVIFNRQPSLHKMSMMGHRIRVMPYSTFRLNLSVTSPYNADFDG 490
Query: 389 DCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSL-KVMFKKYFLDKA 447
D +++ PQS +AE+ E+ V KQ++S + + + D L + K + FL +
Sbjct: 491 DEMNMHVPQSEETRAEIQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLTRN 550
Query: 448 FTQQLAMFAL---SPLPRPALSKARCSARWTALQILQSVLPPGFDSCGDR---------- 494
+ ++ LP P + K + WT QIL ++P G + D
Sbjct: 551 AVMNIMLWVPDWDGILPPPVILKPKV--LWTGKQILSLIIPKGINLIRDDDKQSLSNPTD 608
Query: 495 --YLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGF 552
LI+ E++ G D+ T+ + +V +I+ EKGPE FF+ +Q ++ L +GF
Sbjct: 609 SGMLIENGEIIYGVVDKKTVGASQGGLVHTIWKEKGPEICKGFFNGIQRVVNYWLLHNGF 668
Query: 553 SVSLEDFSLSKAALWNIQKEI--------QALYSLLYHRMSTQNELVDLQ--------IE 596
S+ + D + + + + + + ++R+ + + + I
Sbjct: 669 SIGIGDTIADADTMKEVTRTVKEARRQVAECIQDAQHNRLKPEPGMTLRESFEAKVSRIL 728
Query: 597 NHIRHVKMLVAKFILK-SSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGK----FYSK 651
N R A+ LK S+ + ++ + S + + Q + +G Q+ + + F +
Sbjct: 729 NQARDNAGRSAEHSLKDSNNVKQMVAAGSKGSFINISQMSACVGQQIVEGKRIPFGFKYR 788
Query: 652 TLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLS 711
TL HF P D + P ++ G I+ + GL P E H+++ RE ++ ++ +
Sbjct: 789 TL-----PHF----PKDDDSPESR-GFIENSYLRGLTPQEFFFHAMAGREGLIDTAVKTA 838
Query: 712 EPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
E G + + L+ + DV++ YDGTVRN + IIQF Y
Sbjct: 839 ETGYIQRRLVKAMEDVMVRYDGTVRNAMGD-IIQFAYG 875
Score = 47.4 bits (111), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 47/85 (55%), Gaps = 11/85 (12%)
Query: 17 IRFGLATQKEICTASISDC----SISHASQ------LANPFLGLPLEFGKCESCGTSEPG 66
++FG+ + +EI + S++ ++ + Q L +P LG KC++CG +
Sbjct: 19 VQFGILSPEEIRSMSVAKIEFPETMDESGQRPRVGGLLDPRLGTIDRQFKCQTCGETM-A 77
Query: 67 KCEGHFGYIELPIPIYHPSHISELK 91
C GHFG+IEL P++H +S++K
Sbjct: 78 DCPGHFGHIELAKPVFHIGFLSKIK 102
>sp|Q75A34|RPB1_ASHGO DNA-directed RNA polymerase II subunit RPB1 OS=Ashbya gossypii
(strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL
Y-1056) GN=RPB1 PE=3 SV=2
Length = 1745
Score = 185 bits (470), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 172/624 (27%), Positives = 286/624 (45%), Gaps = 70/624 (11%)
Query: 176 LKKVLK-QVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLE--VRGTAKSSRDVDARFGV 232
L +LK + + R +G+P QE ES LQ V Y++ + G ++ +
Sbjct: 266 LGDILKANINVQRLEINGSPQHVIQESESL-LQFHVATYMDNDIAGQPQAVQK------- 317
Query: 233 SQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFE 288
S P + +A L+ ++R + K FS+R+VI+GD ++++GVP IA+ +T+
Sbjct: 318 SGRPIKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLDLDQVGVPKSIAKTLTYP 377
Query: 289 ERVNVHNINYLQELVDNK------LCLTYSDGSSSYSLREGSK-GHTFLRPGQVVHRRIM 341
E V +NI+ L +LV N D LR + G L+ G V R IM
Sbjct: 378 EVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDNGDRIDLRYSKRAGDIQLQYGWKVERHIM 437
Query: 342 DGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAA 401
D D V NR P+ HK S+ A V V T ++N + P +ADFDGD ++L PQS
Sbjct: 438 DDDPVLFNRQPSLHKMSMMAHRVKVMPYSTFRLNLSVTSPYNADFDGDEMNLHVPQSEET 497
Query: 402 KAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVM-FKKYFLDKAFTQQLAMFALSP- 459
+AE+ +L +V Q++S + + + D L ++ M + F++ Q L M P
Sbjct: 498 RAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKMTLRDTFIE--LDQVLNMLYWIPD 555
Query: 460 ----LPRPALSKARCSARWTALQILQSVLPPG-----FDSCGDRY--------LIKKSEV 502
+P P + K + W+ Q+L +P G FD G Y LI ++
Sbjct: 556 WDGVIPTPTILKPK--PLWSGKQLLSMAIPSGIHLQRFDE-GTTYLSPKDNGMLIIDGQI 612
Query: 503 LKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLED---- 558
+ G D+ T+ S ++ + EKGPE + F ++Q ++ L +GFS+ + D
Sbjct: 613 IFGVVDKKTVGSSSGGLIHVVTREKGPEVCAKLFGNIQKVVNYWLLHNGFSIGIGDTIAD 672
Query: 559 ----------FSLSKAALWNIQKEIQALYSLLYHRMSTQNELVD--LQIENHIRHVKMLV 606
+L+K + + KE QA H M+ + D ++ N R
Sbjct: 673 EKTMREITDAIALAKKKVEEVTKEAQANLLTAKHGMTLRESFEDNVVRYLNEARDKAGRS 732
Query: 607 AKFILKS-STLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIY 665
A+ LK + + ++ + S + + Q + +G Q S GK + + HF +
Sbjct: 733 AEVNLKDLNNVKQMVSAGSKGSFINIAQMSACVG-QQSVEGKRIAFGFADRTLPHFSK-- 789
Query: 666 PMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLR 725
D P +K G ++ + GL P E H++ RE ++ ++ +E G + + L+ L
Sbjct: 790 --DDYSPESK-GFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALE 846
Query: 726 DVVICYDGTVRNVCSNSIIQFDYA 749
D+++ YDGT RN N IIQF Y
Sbjct: 847 DIMVHYDGTTRNSLGN-IIQFVYG 869
Score = 46.2 bits (108), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 11/85 (12%)
Query: 17 IRFGLATQKEICTASISDCSI----------SHASQLANPFLGLPLEFGKCESCGTSEPG 66
++FGL + +E+ S++ + L +P LG KC++CG
Sbjct: 17 VQFGLFSPEEVRAISVAKIEFPETMDETQMRAKVGGLNDPRLGSIDRNFKCQTCGEGM-N 75
Query: 67 KCEGHFGYIELPIPIYHPSHISELK 91
C GHFG+IEL P++H IS++K
Sbjct: 76 DCPGHFGHIELAKPVFHIGFISKIK 100
>sp|O94666|RPC1_SCHPO DNA-directed RNA polymerase III subunit rpc1 OS=Schizosaccharomyces
pombe (strain 972 / ATCC 24843) GN=rpc1 PE=2 SV=1
Length = 1405
Score = 181 bits (458), Expect = 5e-44, Method: Compositional matrix adjust.
Identities = 185/676 (27%), Positives = 295/676 (43%), Gaps = 101/676 (14%)
Query: 147 YLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRS-GTPNFESQEVESND 205
Y+P PP C+ P ++ +T DL++ + +++ +IR++ S GTP E +
Sbjct: 250 YVPAPPVCIR-PSVAQEGATTEDDLTVK-ITEIIWTSSLIRAALSKGTPISNLME-QWEF 306
Query: 206 LQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSV 263
+QL++ Y+ E+ G S G Q K + R K FS R+V
Sbjct: 307 MQLSIAMYINSEMPGLRPSDMPSKPIRGFCQ----RLKGKQGRFRGNLSGKRVDFSGRTV 362
Query: 264 ITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN--------KLCLTYSDGS 315
I+ D R++++ VP+ IA+ +TF ERV N +LQ+ + N + G
Sbjct: 363 ISPDPNLRIDQVAVPYRIAKILTFPERVTTQNKKHLQDCIRNGPDVHPGANYVIDRESGF 422
Query: 316 SSYSLREGSKGHTF--LRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVK 373
+ LR G++ L+ G +V R + D D V NR P+ HK S+ A V V T++
Sbjct: 423 KRF-LRFGNRNRIADDLKIGDIVERHLHDNDVVLFNRQPSLHKLSIMAHLVKVRPWRTLR 481
Query: 374 INPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALL 433
N +CGP +ADFDGD ++L PQ+ AK E LEL ++ L+S NG + D +
Sbjct: 482 FNECVCGPYNADFDGDEMNLHVPQTEEAKTEALELMGIKNNLVSPRNGEPIIAATQDFIT 541
Query: 434 SLKVM-FKKYFLDKAFTQQLAMFALSP-----LPRPALSKARCSARWTALQILQSVLPPG 487
+ ++ K FLD+ + + + LP PA+ K RC WT Q+ ++ P
Sbjct: 542 AAYLLSLKDTFLDRKSISNICCYMMDASTHIDLPPPAIIKPRC--LWTGKQVFTVLMKPN 599
Query: 488 FDS-----------------------C-GDRYL-IKKSEVLKGDFDRDTI-PSVINEIVT 521
S C D YL I+ SE++ G D+ + + +
Sbjct: 600 RFSKVLVNLDAKTRSFSRIKSKTPEMCPKDGYLMIRNSEIIAGVVDKSVVGDGKKDSLFY 659
Query: 522 SIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQKEIQALYSLLY 581
I + G E E L + L GFS+ +ED K+ + QKEI L+
Sbjct: 660 VILRDYGALEAAEAITRLSKMCARFLGNRGFSIGIEDVQPGKS--LSSQKEI-----LVN 712
Query: 582 HRMSTQNELV------DLQIENHIRHVKMLVAKFILKSSTLGYLIDSKSDSAVSK----- 630
+T ++ + L+ + + L AK SSTL + D + + +
Sbjct: 713 KAYATSDDFIMQYAKGILECQPGMDQEATLEAKI---SSTLSKVRDDVGEICMDELGPAN 769
Query: 631 ----------------VVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPTA 674
V Q +G Q+ GK + HF + + +P A
Sbjct: 770 SPLIMATCGSKGSKINVSQMVACVGQQIIS-GKRVPDGFQDRSLPHFHK----NSKHPLA 824
Query: 675 KYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGT 734
K G + F+ GL P E + H+IS RE +V ++ +E G + + LM L D+ YDGT
Sbjct: 825 K-GFVSNSFYSGLTPTEFLFHAISGREGLVDTAVKTAETGYMSRRLMKSLEDLSSAYDGT 883
Query: 735 VRNVCSNS-IIQFDYA 749
VR+ SNS ++QF Y
Sbjct: 884 VRS--SNSDVVQFVYG 897
Score = 39.7 bits (91), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 57 CESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQ 98
C +CG S C GHFGY++L +P++ HI K T+ Q
Sbjct: 66 CATCGESM-ADCMGHFGYVKLALPVF---HIGYFKATLTILQ 103
Score = 35.0 bits (79), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 45/101 (44%), Gaps = 12/101 (11%)
Query: 987 TMVAKGVLKE--HLILLANSMTCAGDLVGFNSGGYKALSRSLNVQVPFTEAT--LFMPRK 1042
TM G+ + H++LL + MTC G+++G G + S+ F + T LF
Sbjct: 1288 TMAKHGLTVDPRHIMLLGDVMTCKGEVLGITRFGVAKMKDSVLALASFEKTTDHLF---- 1343
Query: 1043 CFEKAAEKRHTDNLSSVVAACSWGKHVAVGTGSRFDLLWQT 1083
AA + D++ + GK +GT F L+ +T
Sbjct: 1344 ---NAAARFAKDSIEGISECIVLGKLAPIGTNV-FQLIRRT 1380
>sp|P04050|RPB1_YEAST DNA-directed RNA polymerase II subunit RPB1 OS=Saccharomyces
cerevisiae (strain ATCC 204508 / S288c) GN=RPO21 PE=1
SV=2
Length = 1733
Score = 178 bits (451), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 163/628 (25%), Positives = 284/628 (45%), Gaps = 67/628 (10%)
Query: 170 DLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLE--VRGTAKSSRDVD 227
DL+ + + + + +G P+ +E ES LQ V Y++ + G ++ +
Sbjct: 261 DLTFKLADILKANISLETLEHNGAPHHAIEEAESL-LQFHVATYMDNDIAGQPQALQK-- 317
Query: 228 ARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQ 283
S P + +A L+ ++R + K FS+R+VI+GD ++++GVP IA+
Sbjct: 318 -----SGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVGVPKSIAK 372
Query: 284 RITFEERVNVHNINYLQELVDNK------LCLTYSDGSSSYSLREGSK-GHTFLRPGQVV 336
+T+ E V +NI+ L +LV N D LR + G L+ G V
Sbjct: 373 TLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKRAGDIQLQYGWKV 432
Query: 337 HRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYP 396
R IMD D V NR P+ HK S+ A V V T ++N + P +ADFDGD ++L P
Sbjct: 433 ERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNADFDGDEMNLHVP 492
Query: 397 QSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSL-KVMFKKYFLDKAFTQQLAMF 455
QS +AE+ +L +V Q++S + + + D L + K+ + F++ Q L M
Sbjct: 493 QSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIE--LDQVLNML 550
Query: 456 ALSP-----LPRPALSKARCSARWTALQILQSVLPPG-----FDSC-------GDRYLIK 498
P +P PA+ K + W+ QIL +P G FD + LI
Sbjct: 551 YWVPDWDGVIPTPAIIKPK--PLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDNGMLII 608
Query: 499 KSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSL-- 556
+++ G ++ T+ S ++ + EKGP+ + F ++Q ++ L +GFS +
Sbjct: 609 DGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGD 668
Query: 557 ------------EDFSLSKAALWNIQKEIQALYSLLYHRMSTQNELVD--LQIENHIRHV 602
E + +K + ++ KE QA H M+ + D ++ N R
Sbjct: 669 TIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFEDNVVRFLNEARDK 728
Query: 603 KMLVAKFILKS-STLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHF 661
+A+ LK + + ++ + S + + Q + +G Q S GK + V+ HF
Sbjct: 729 AGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVG-QQSVEGKRIAFGFVDRTLPHF 787
Query: 662 ERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLM 721
+ +Y G ++ + GL P E H++ RE ++ ++ +E G + + L+
Sbjct: 788 SKD-----DYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLV 842
Query: 722 AVLRDVVICYDGTVRNVCSNSIIQFDYA 749
L D+++ YD T RN N +IQF Y
Sbjct: 843 KALEDIMVHYDNTTRNSLGN-VIQFIYG 869
Score = 41.2 bits (95), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 44/87 (50%), Gaps = 15/87 (17%)
Query: 17 IRFGLATQKEICTASISDCSI----------SHASQLANPFLGLPLEFGKCESC--GTSE 64
++FGL + +E+ S++ + L +P LG KC++C G +E
Sbjct: 17 VQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSIDRNLKCQTCQEGMNE 76
Query: 65 PGKCEGHFGYIELPIPIYHPSHISELK 91
C GHFG+I+L P++H I+++K
Sbjct: 77 ---CPGHFGHIDLAKPVFHVGFIAKIK 100
>sp|P18616|RPB1_ARATH DNA-directed RNA polymerase II subunit RPB1 OS=Arabidopsis thaliana
GN=RPB205 PE=1 SV=3
Length = 1839
Score = 175 bits (443), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 178/693 (25%), Positives = 300/693 (43%), Gaps = 82/693 (11%)
Query: 117 VKEMLKRIPEETRKKLAGKGYFPQ-DGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAM 175
V +LKRI + + L F + D ILE LP+PP + + D S DL+ +
Sbjct: 218 VLSVLKRISDADCQLLGFNPKFARPDWMILEVLPIPPPPVRPSVMMDATSRSEDDLTHQL 277
Query: 176 LKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYL------EVRGTAKSSRDVDAR 229
+ + R ++G P E + LQ + Y + R T KS R + +
Sbjct: 278 AMIIRHNENLKRQEKNGAPAHIISEF-TQLLQFHIATYFDNELPGQPRATQKSGRPIKSI 336
Query: 230 FGVSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEE 289
S KA ++R + K FS+R+VIT D ++E+GVP+ IA +T+ E
Sbjct: 337 C-------SRLKAKEGRIRGNLMGKRVDFSARTVITPDPTINIDELGVPWSIALNLTYPE 389
Query: 290 RVNVHNINYLQELVDNKLCLTYSDGSSSYSLREGSK----------GHTFLRPGQVVHRR 339
V +NI L+ELVD + Y +R+ + L G V R
Sbjct: 390 TVTPYNIERLKELVDYGPHPPPGKTGAKYIIRDDGQRLDLRYLKKSSDQHLELGYKVERH 449
Query: 340 IMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSL 399
+ DGD V NR P+ HK S+ + + T ++N + P +ADFDGD +++ PQS
Sbjct: 450 LQDGDFVLFNRQPSLHKMSIMGHRIRIMPYSTFRLNLSVTSPYNADFDGDEMNMHVPQSF 509
Query: 400 AAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKK-YFLDKAFTQQLAMF--- 455
+AEVLEL V K ++S + + D LL + + K+ F++K M+
Sbjct: 510 ETRAEVLELMMVPKCIVSPQANRPVMGIVQDTLLGCRKITKRDTFIEKDVFMNTLMWWED 569
Query: 456 ALSPLPRPALSKARCSARWTALQILQSVLP----------------PGFDSCGDRYL-IK 498
+P PA+ K R WT Q+ ++P GF + GD + I+
Sbjct: 570 FDGKVPAPAILKPR--PLWTGKQVFNLIIPKQINLLRYSAWHADTETGFITPGDTQVRIE 627
Query: 499 KSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLED 558
+ E+L G + T+ + +V I+ E GP+ +F Q L+ L +GF++ + D
Sbjct: 628 RGELLAGTLCKKTLGTSNGSLVHVIWEEVGPDAARKFLGHTQWLVNYWLLQNGFTIGIGD 687
Query: 559 FSLSKAALWNIQKEIQALYSLLYHRMST-QNELVDLQ--------IENHIRHV------- 602
+ + I + I + + + Q + +D + EN + V
Sbjct: 688 TIADSSTMEKINETISNAKTAVKDLIRQFQGKELDPEPGRTMRDTFENRVNQVLNKARDD 747
Query: 603 -KMLVAKFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGK-----FYSKTLVED 656
K + +++ L ++ + S + + Q +G Q + GK F +TL
Sbjct: 748 AGSSAQKSLAETNNLKAMVTAGSKGSFINISQMTACVGQQ-NVEGKRIPFGFDGRTL--- 803
Query: 657 IASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTL 716
HF + +Y G ++ + GL P E H++ RE ++ ++ SE G +
Sbjct: 804 --PHFTKD-----DYGPESRGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYI 856
Query: 717 FKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+ L+ + D+++ YDGTVRN + +IQF Y
Sbjct: 857 QRRLVKAMEDIMVKYDGTVRNSLGD-VIQFLYG 888
Score = 42.4 bits (98), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 9/75 (12%)
Query: 17 IRFGLATQKEICTASISDCSISHASQ--------LANPFLGLPLEFGKCESCGTSEPGKC 68
++FG+ + EI S+ S ++ L++ LG KCE+C + +C
Sbjct: 18 VQFGILSPDEIRQMSVIHVEHSETTEKGKPKVGGLSDTRLGTIDRKVKCETC-MANMAEC 76
Query: 69 EGHFGYIELPIPIYH 83
GHFGY+EL P+YH
Sbjct: 77 PGHFGYLELAKPMYH 91
>sp|P35084|RPB1_DICDI DNA-directed RNA polymerase II subunit rpb1 OS=Dictyostelium
discoideum GN=polr2a PE=2 SV=2
Length = 1727
Score = 170 bits (431), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 176/706 (24%), Positives = 312/706 (44%), Gaps = 80/706 (11%)
Query: 101 IKNDGVAQRLLSSCCEVKEMLKRIPEETRKKLAGKGYFPQDGYILEYLPVPPNCLSVPDI 160
+ ++ + ++ + S V +LKRI +E + + + + +++ + P P I
Sbjct: 196 VTDESIEKKSVLSAERVLNILKRIKDEDSRAMGINPDWARADWMIATVLPVPPPPVRPSI 255
Query: 161 SDGVSTMSSDLSIAMLKKVLK-QVEIIRSSRSGTPNFESQEVESNDLQLAVGQYL--EVR 217
ST D L ++K E+ R ++G P E + LQ V Y+ E+
Sbjct: 256 MMDTSTRGEDDLTHKLADIVKANRELQRQEKNGAPAHIIAEA-TQFLQFHVATYVDNEIP 314
Query: 218 GTAKSSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVN 273
G ++ + S P + + L+ ++R + K FS+R+VIT D ++
Sbjct: 315 GLPQAQQR-------SGRPLKSIRQRLKGKEGRIRGNLMGKRVDFSARTVITADPNLSID 367
Query: 274 EIGVPFEIAQRITFEERVNVHNINYLQELVDN-------KLCLTYSDGSSSYSLREGSK- 325
++GVP IA +T+ E V NI+ ++EL+ N + DG+ + LR K
Sbjct: 368 QVGVPRSIALNLTYPETVTPFNIDKMRELIRNGPSEHPGAKYIIREDGTR-FDLRFVKKV 426
Query: 326 GHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSAD 385
T L G V R I DGD V NR P+ HK S+ + V T ++N + P +AD
Sbjct: 427 SDTHLECGYKVERHINDGDVVIFNRQPSLHKMSMMGHRIKVMPYSTFRLNLSVTSPYNAD 486
Query: 386 FDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKK-YFL 444
FDGD ++L PQ+L +AEV+E+ V +Q++S + + + D LL ++ K+ F+
Sbjct: 487 FDGDEMNLHVPQTLETRAEVIEIMMVPRQIVSPQSNRPVMGIVQDTLLGSRLFTKRDCFM 546
Query: 445 DKAFTQQLAMFALS---PLPRPALSKARCSARWTALQILQSVLP---------------P 486
+K + M+ S +P PA+ K + WT Q+ ++P P
Sbjct: 547 EKDLVMNILMWLPSWDGKVPPPAILKPK--QLWTGKQLFSLIIPDINLIRFTSTHNDKEP 604
Query: 487 GFDSCGD-RYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLME 545
S GD R +I++ E+L G + ++ + I+ + E G + F D Q ++
Sbjct: 605 NECSAGDTRVIIERGELLAGILCKRSLGAANGSIIHVVMNEHGHDTCRLFIDQTQTVVNH 664
Query: 546 NLFADGFSVSLEDFSLSKAALWNIQKEIQALYSLLYHR-MSTQNELVDLQ-----IENHI 599
L GF++ + D A + + I + + + + QN+ + Q IE
Sbjct: 665 WLINRGFTMGIGDTIADSATMAKVTLTISSAKNQVKELIIKAQNKQFECQPGKSVIETFE 724
Query: 600 RHVKMLVAKF-----------ILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGK- 647
+ V ++ K + + + L ++ + S + + Q +G Q + GK
Sbjct: 725 QKVNQVLNKARDTAGSSAQDSLSEDNNLKAMVTAGSKGSFINISQMMACVG-QQNVEGKR 783
Query: 648 ----FYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVI 703
F S+TL HF + +Y G ++ + GL P E H++ RE +
Sbjct: 784 IPFGFQSRTL-----PHFTKD-----DYGPESRGFVENSYLRGLTPQEFFFHAMGGREGL 833
Query: 704 VRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+ ++ SE G + + L+ + DV I YD TVRN + +IQF Y
Sbjct: 834 IDTAVKTSETGYIQRRLVKAMEDVSIKYDATVRNSLGD-VIQFAYG 878
Score = 42.0 bits (97), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 13/81 (16%)
Query: 17 IRFGLATQKEICTASISDCSISH----------ASQLANPFLGLPLEFGKCESCGTSEPG 66
++FG+ + EI S++ + H A L +P +G + +C++C +
Sbjct: 18 VQFGILSPDEIRNMSVA--RVEHPETYENGKPKAGGLLDPAMGTIDKTQRCQTCSGTM-A 74
Query: 67 KCEGHFGYIELPIPIYHPSHI 87
+C GHFG+IEL P++H I
Sbjct: 75 ECPGHFGHIELAKPVFHIGFI 95
>sp|Q5ZL98|RPC1_CHICK DNA-directed RNA polymerase III subunit RPC1 OS=Gallus gallus
GN=POLR3A PE=2 SV=1
Length = 1390
Score = 167 bits (423), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 214/804 (26%), Positives = 334/804 (41%), Gaps = 124/804 (15%)
Query: 94 MYAFQLQIKNDGVAQRLLSSCCE------VKEMLKRIPEETRKKL-----AGKGYFPQDG 142
+ +F+ I+++ + LL E V + KRIP E L AGK P D
Sbjct: 194 LQSFETAIEHNKEVEPLLGRAQENLNPLVVLNLFKRIPAEDIPLLLMNPEAGK---PSD- 249
Query: 143 YILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVE 202
IL L VPP C+ +SD S + D L +++ ++I+ R + +
Sbjct: 250 LILTRLLVPPLCIRPSVVSDLKSGTNEDDLTMKLTEIIFLNDVIKKHRISGAKTQMIMED 309
Query: 203 SNDLQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIR------- 253
+ LQL Y+ E+ G ++ P T+ ++++++ R
Sbjct: 310 WDFLQLQCALYINSELSGIP-----------LNMAPKKWTRGFVQRLKGKQGRFRGNLSG 358
Query: 254 KGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN-------- 305
K FS R+VI+ D R++E+ VP +A+ +TF E+VN NIN++++LV N
Sbjct: 359 KRVDFSGRTVISPDPNLRIDEVAVPIHVAKILTFPEKVNKANINFMRKLVRNGPDVHPGA 418
Query: 306 ---KLCLTYSDGSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQAL 362
+ T Y RE K L+ G +V R ++DGD V NR P+ HK S+ A
Sbjct: 419 NFIQQRHTQMKRFLKYGNRE--KMAQELKFGDIVERHLIDGDIVLFNRQPSLHKLSIMAH 476
Query: 363 SVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGN 422
V T + N +C P +ADFDGD ++L PQ+ AKAE L L + L++ NG
Sbjct: 477 IARVKPHRTFRFNECVCTPYNADFDGDEMNLHLPQTEEAKAEALVLMGTKANLVTPRNGE 536
Query: 423 LNLQLATDALLSLKVM-FKKYFLDKAFTQQLAMFAL--------SPLPRPALSKARCSAR 473
+ D L ++ K F D+A Q+ L LP PA+ K
Sbjct: 537 PLIAAIQDFLTGAYLLTLKDTFFDRAKACQIIASILVGKDEKIKVRLPPPAILKP--VTL 594
Query: 474 WTALQILQSVLPP-------------GFDSCG--------DRYL-IKKSEVLKGDFDRDT 511
WT Q+ S+L P G CG D Y+ I+ SE++ G D+ T
Sbjct: 595 WTGKQVFSSILKPSDDCPVKANLRTKGKQYCGKGEDLCYNDSYVTIQNSELMSGSMDKGT 654
Query: 512 IPS-VINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLED-----------F 559
+ S N I + + G E + L L L GFS+ + D +
Sbjct: 655 LGSGSKNNIFYILLRDWGQVEAADAMSRLARLAPVYLSNRGFSIGIGDVTPGQGLLKAKY 714
Query: 560 SLSKAALWNIQKEIQALYS--LLYHRMSTQNELVDLQIENHIRHVKMLVAKFILK----- 612
L A + I+AL + L T E ++ I + ++ L+
Sbjct: 715 ELLHAGYKKCDEYIEALNTGKLQQQPGCTAEETLEALILKELSVIRDHAGSACLRELDKS 774
Query: 613 -SSTLGYLIDSKSD----SAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPM 667
S + L SK S + V Q G ++ D F +++L HFE+ +
Sbjct: 775 NSPLIMALCGSKGSFINISQMIACVGQQAISGSRVPD--GFENRSL-----PHFEKHSKL 827
Query: 668 DLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDV 727
P AK G + F+ GL P E H+++ RE +V ++ +E G + + L+ L D+
Sbjct: 828 ----PAAK-GFVANSFYSGLTPTEFFFHTMAGREGLVDTAVKTAETGYMQRRLVKSLEDL 882
Query: 728 VICYDGTVRNVCSNSIIQFDYAVNARKSHSLFPAGEPVGVLAATAMSNPAYKAVLDSSPS 787
YD TVR+ + IIQF Y + ++ EP+ Y + + S
Sbjct: 883 CSQYDLTVRS-STGDIIQFIYGGDGLDPAAMEGKDEPLEFKRVLDNIRAVYPCRSEPALS 941
Query: 788 SN----NSWELMK--EILLCRVSF 805
N S +MK E L CR SF
Sbjct: 942 KNELVLTSESIMKKNEFLCCRDSF 965
Score = 40.0 bits (92), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 14/61 (22%)
Query: 57 CESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQLQIKNDGVAQRLLSSCCE 116
CE+CG + C GH+GYI+L +P +H + F+ I G+ Q + +CC
Sbjct: 69 CETCGKNL-ADCLGHYGYIDLELPCFHVGY----------FKAVI---GILQMICKTCCR 114
Query: 117 V 117
+
Sbjct: 115 I 115
>sp|P35074|RPB1_CAEBR DNA-directed RNA polymerase II subunit RPB1 OS=Caenorhabditis
briggsae GN=rpb-1 PE=3 SV=2
Length = 1853
Score = 166 bits (420), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 168/708 (23%), Positives = 307/708 (43%), Gaps = 79/708 (11%)
Query: 101 IKNDGVAQRLLSSCCEVKEMLKRIPEETRKKLAGKGYFPQDGYIL-EYLPVPPNCLSVPD 159
+ D ++++ + V E+ K+I +E + F + +++ LPVPP +
Sbjct: 199 VNEDTQERKIMLTAERVLEVFKQITDEDILVIGMDPQFARPEWMICTVLPVPPLAVRPAV 258
Query: 160 ISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGT 219
++ G + DL+ + + ++ R+ +G + V ++D++L QY
Sbjct: 259 VTFGSAKNQDDLTHKLSDIIKTNQQLQRNEANGA----AAHVLTDDVRLL--QYHVATLV 312
Query: 220 AKSSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEI 275
+ P + K L+ ++R + K FS+R+VIT D ++ +
Sbjct: 313 DNCIPGLPTATQKGGRPLKSIKQRLKGKEGRIRGNLMGKRVDFSARTVITADPNLPIDTV 372
Query: 276 GVPFEIAQRITFEERVNVHNINYLQELVDNKLCLTYSDGSSSYSLRE-GSK--------- 325
GVP IAQ +TF E V N++ LQELV N+ Y + Y +RE G++
Sbjct: 373 GVPRTIAQNLTFPEIVTPFNVDKLQELV-NRGDTQYP--GAKYIIRENGARVDLRYHPRA 429
Query: 326 GHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSAD 385
L+PG V R + DGD + NR PT HK S+ V + T ++N + P +AD
Sbjct: 430 ADLHLQPGYRVERHMKDGDIIVFNRQPTLHKMSMMGHRVKILPWSTFRMNLSVTSPYNAD 489
Query: 386 FDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKK-YFL 444
FDGD ++L PQSL +AE+ E+ V +QL++ + + D L ++++M K+ F+
Sbjct: 490 FDGDEMNLHLPQSLETRAEIEEIAMVPRQLITPQANKPVMGIVQDTLCAVRMMTKRDIFI 549
Query: 445 DKAFTQQLAMFALS---PLPRPALSKARCSARWTALQILQSVLPPGFD------------ 489
D F L M+ + +P+PA+ K + WT Q+ ++P +
Sbjct: 550 DWPFMMDLLMYLPTWDGKVPQPAILKPK--PLWTGKQVFSLIIPGNVNVLRTHSTHPDSE 607
Query: 490 --------SCGD-RYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQ 540
S GD + LI+ E+L G T+ ++ + E G E F+ +Q
Sbjct: 608 DSGPYKWISPGDTKVLIEHGELLSGIVCSKTVGKSAGNLLHVVALELGHEIAANFYSHIQ 667
Query: 541 PLLMENLFADGFSVSLEDFSLSKAALWNIQKEI----QALYSLLYH-------------- 582
++ L +G ++ + D ++ +IQ I Q + ++
Sbjct: 668 TVINAWLLREGHTIGIGDTIADQSTYLDIQNTIRKAKQDVVDVIEKAHNDDLEPTPGNTL 727
Query: 583 RMSTQNELVDLQIENHIR-HVKMLVAKFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQ 641
R + +N++ QI N R K + + + ++ S S + + Q +G Q
Sbjct: 728 RQTFENKVN--QILNDARDRTGSSAQKSLSEFNNFKSMVVSGSKGSKINISQVIACVG-Q 784
Query: 642 LSDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTRE 701
+ GK HF + +Y G ++ + GL P E H++ RE
Sbjct: 785 QNVEGKRIPFGFRHRTLPHF-----IKDDYGPESKGFVENSYLAGLTPSEFFFHAMGGRE 839
Query: 702 VIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
++ ++ +E G + + L+ + V++ YDGTVRN + ++Q Y
Sbjct: 840 GLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSLAQ-MVQLRYG 886
Score = 37.7 bits (86), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 9/75 (12%)
Query: 17 IRFGLATQKEICTASISDCSISHASQ--------LANPFLGLPLEFGKCESCGTSEPGKC 68
++FG+ +EI S++ + L +P G+ G+C +C + C
Sbjct: 18 VQFGILGPEEIKRMSVAHVEFPEVYENGKPKMGGLMDPRQGVIDRRGRCMTCAGNL-TDC 76
Query: 69 EGHFGYIELPIPIYH 83
GHFG++EL P++H
Sbjct: 77 PGHFGHLELAKPVFH 91
>sp|P11512|RPOA1_SULAC DNA-directed RNA polymerase subunit A' OS=Sulfolobus acidocaldarius
(strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 /
NCIMB 11770) GN=rpoA1 PE=3 SV=2
Length = 880
Score = 166 bits (420), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 225/890 (25%), Positives = 370/890 (41%), Gaps = 170/890 (19%)
Query: 11 EGQIVGIRFGLATQKEICTASISDCSISHASQ---------LANPFLGLPLEFGKCESCG 61
E I G++FG+ + EI S++ S + +P LG+ KC CG
Sbjct: 3 EKIIRGVKFGVLSPNEIRQMSVTAIITSEVYDEDGTPIEGGVMDPKLGVIEPGQKCPVCG 62
Query: 62 TSEPGKCEGHFGYIELPIP---IYHPSHISEL---------------------------- 90
+ G C GHFG+IEL P I + HI +
Sbjct: 63 NTLAG-CPGHFGHIELIKPVIHIGYVKHIYDFLRSTCWRCGRIKIKEQDLERYKRIYNAI 121
Query: 91 ---------KLTMYAFQLQIKN-------------------------DGVAQRLLSSCCE 116
+L Y ++ IKN +G +L S E
Sbjct: 122 KLRWPSAARRLVEYIKKISIKNLECPHCGEKQFKIKLEKPYNFNEERNGSIVKL--SPSE 179
Query: 117 VKEMLKRIPEETRKKLAGKGYFPQDG----YILEYLPVPPNCLSVPDISDGVSTMSSDLS 172
+++ L+RIP+ + L GY P+ IL LPVPP + P I+ + D
Sbjct: 180 IRDRLERIPDSDVELL---GYDPKSSRPEWMILTVLPVPPITIR-PSITIESGIRAEDDL 235
Query: 173 IAMLKKVLKQVEIIRSS-RSGTPNFESQEVESNDLQLAVGQYL--EVRGTAKSSRDVDAR 229
L +++ E ++ S +G P +++ + LQ V Y E+ G +
Sbjct: 236 THKLVDIIRLNERLKESIEAGAPQLIIEDL-WDLLQYHVATYFDNEIPGLPPAKHR---- 290
Query: 230 FGVSQDPNSTTKAWLEKMRTLFIRKGSG----FSSRSVITGDAYKRVNEIGVPFEIAQRI 285
S P T L+ F SG FS+R+VI+ D ++E+G+P+ IA+ +
Sbjct: 291 ---SGRPLRTLAQRLKGKEGRFRGNLSGKRVDFSARTVISPDPNLSIDEVGIPYTIARML 347
Query: 286 TFEERVNVHNINYLQELVDNKL-------CLTYSDGSSS--YSLREGSKGHTFLRPGQVV 336
T ERV NI +++ + N + DG +++ + + + G VV
Sbjct: 348 TVPERVTNINIERIRQYIINGPDKWPGANYVIKPDGRRIDLRYVKDRKELASSITAGYVV 407
Query: 337 HRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYP 396
R ++DGD V NR P+ H+ S+ A V V T ++N L C P +ADFDGD ++L P
Sbjct: 408 ERHLVDGDVVLFNRQPSLHRISMMAHKVRVLPGRTFRLNLLDCPPYNADFDGDEMNLHVP 467
Query: 397 QSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATD-----ALLSLKVMFKKYFLDKAFTQQ 451
QS A AE EL V K +++ G + D LLS+K +++ T
Sbjct: 468 QSEEAIAEARELMLVHKNIITPRYGGPIIGGGQDYISGAYLLSVKTTL--LTVEEVATIL 525
Query: 452 LAMFALSPLPRPALSKARCSARWTALQILQSVLPPGFD------------SCGDR----- 494
+ L PA+ + +T Q++ LP F+ +C D
Sbjct: 526 GVTDFVGELGEPAILAPK--PYYTGKQVISLFLPKDFNFHGPANISKGPRACKDEICPHD 583
Query: 495 --YLIKKSEVLKGDFDRDTIPSVINEIVTSIFF----EKGPEEVLEFFDSLQPLLMENLF 548
+IK +L+G FD+ I N+ S+ E G E D++ + + L
Sbjct: 584 SFIVIKNGLLLEGVFDKKAIG---NQQPESMLHWSIREYGTEYGKWLMDNVFKMFIRFLE 640
Query: 549 ADGFSVSLEDFSLSKAALWNIQKEIQALYSLL--YHRMSTQNEL-------VDLQIENHI 599
GF+++LED ++ A I +I+ YS + Y R + +L ++ +E++I
Sbjct: 641 MRGFTMTLEDITIPDEAQNEITTKIKEGYSQVDEYIRKFNEGQLEPIPGRTIEESLESYI 700
Query: 600 -------RHVKMLVA-KFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSK 651
R V +A K++ + + + + + + + Q LG Q S RG+ +
Sbjct: 701 LDTLDKLRKVAGEIATKYLDPFNNVYIMAITGARGSELNITQMTALLG-QQSVRGERIRR 759
Query: 652 TLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLS 711
E S F+ D+ P A+ G +K F GL PYE H+ RE +V ++ S
Sbjct: 760 GYRERTLSLFKY---GDIA-PEAR-GFVKNSFMRGLSPYEMFFHAAGGREGLVDTAVKTS 814
Query: 712 EPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYAVNARKSHSLFPA 761
+ G + + L+ L D+ I YDGTVR++ + I+Q Y +A H ++ A
Sbjct: 815 QSGYMQRRLINALSDLRIEYDGTVRSLYGD-IVQVVYGDDA--VHPMYSA 861
>sp|P0CX02|RPOA1_HALSA DNA-directed RNA polymerase subunit A' OS=Halobacterium salinarum
(strain ATCC 700922 / JCM 11081 / NRC-1) GN=rpoA1 PE=3
SV=1
Length = 971
Score = 165 bits (418), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 166/651 (25%), Positives = 283/651 (43%), Gaps = 67/651 (10%)
Query: 144 ILEYLPVPPNCLSVPDIS-DGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVE 202
IL LPVPP + P I+ D DL+ ++ + + + +G P +++
Sbjct: 280 ILTVLPVPP-VTARPSITLDNGQRSEDDLTHKLVDIIRINQRFMENREAGAPQLIIEDLW 338
Query: 203 SNDLQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGS 256
LQ V ++ E+ GT + S P T L+ + R K
Sbjct: 339 EL-LQYHVTTFMDNEISGTPPARHR-------SGRPLKTLSQRLKGKEGRFRGSLSGKRV 390
Query: 257 GFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN-------KLCL 309
FS+R+VI+ D +NE+GVP +A +T VN N+ + V N +
Sbjct: 391 NFSARTVISPDPTLSLNEVGVPDRVATEMTQTMVVNEQNLERARRYVRNGPEGHPGANYV 450
Query: 310 TYSDGSS-SYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHD 368
T DG + + + + PG V R ++DGD + NR P+ H+ S+ A V V
Sbjct: 451 TRPDGRRVRVTEKVCEELAERVEPGWEVQRHLIDGDIIIFNRQPSLHRMSIMAHEVVVMP 510
Query: 369 DHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLA 428
T ++N ++C P +ADFDGD +++ Q+ A+AE L V++Q+LS G +
Sbjct: 511 YKTFRLNTVVCPPYNADFDGDEMNMHALQNEEARAEARVLMRVQEQILSPRFGENIIGAI 570
Query: 429 TDALLSLKVMFKK--YFLDKAFTQQLAMFALSPLPRPALSKARCSARWTALQILQSVLPP 486
D + ++ F + + L + LP A + WT QI +LP
Sbjct: 571 QDHISGTYLLTNDNPRFNETQASDLLRQTRIDELPAAAGTDEDGDQYWTGHQIFSELLPD 630
Query: 487 GFD-----SCGDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQP 541
+ GD +I+ ++L+G D + +EIV +I G F + +
Sbjct: 631 DLSLEFTGTTGDTVVIEDGQLLEGTIADDEVGEYGSEIVDTITKVHGNTRARIFINEVAS 690
Query: 542 LLMENLFADGFSVSLEDFSLSKAALWNIQKEIQALYSLLYHRMST--QNELVDLQIENHI 599
L M ++ GFS+ ++D ++S A I + IQ+ Y + + T +L L
Sbjct: 691 LAMRSIMHFGFSIGIDDETVSTEARERIDEAIQSAYDRVQELIETYENGDLESLPGRTVD 750
Query: 600 RHVKMLVAKFILKSSTLGYLIDSKSDSA---------------------VSKVVQQAGFL 638
++M + + TLG DS D A + + Q AG +
Sbjct: 751 ETLEMKIMQ------TLGKARDSAGDVAEENFDEDNPAVVMANSGARGSMLNLTQMAGCV 804
Query: 639 GLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSIS 698
G Q + RG+ ++ + SHF P DL+ + +G ++ + GL P E H++
Sbjct: 805 G-QQAVRGERINRGYEDRTLSHF---APNDLS--SEAHGFVENSYTSGLTPKEFFFHAMG 858
Query: 699 TREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
RE +V ++ S+ G L + L+ L ++ YDGTVR+ S++I+QF++
Sbjct: 859 GREGLVDTAVRTSKSGYLQRRLINALSELETQYDGTVRD-TSDTIVQFEFG 908
Score = 41.6 bits (96), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 43 LANPFLGLPLEFGKCESCGTSEPGKCEGHFGYIELPIPIYH 83
L +P LG+ +C++CG G C GHFG+IEL P+ H
Sbjct: 48 LMDPRLGVIDPGLECKTCG-QRSGGCNGHFGHIELAAPVIH 87
>sp|B0R8D4|RPOA1_HALS3 DNA-directed RNA polymerase subunit A' OS=Halobacterium salinarum
(strain ATCC 29341 / DSM 671 / R1) GN=rpoA1 PE=1 SV=1
Length = 971
Score = 165 bits (418), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 166/651 (25%), Positives = 283/651 (43%), Gaps = 67/651 (10%)
Query: 144 ILEYLPVPPNCLSVPDIS-DGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVE 202
IL LPVPP + P I+ D DL+ ++ + + + +G P +++
Sbjct: 280 ILTVLPVPP-VTARPSITLDNGQRSEDDLTHKLVDIIRINQRFMENREAGAPQLIIEDLW 338
Query: 203 SNDLQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGS 256
LQ V ++ E+ GT + S P T L+ + R K
Sbjct: 339 EL-LQYHVTTFMDNEISGTPPARHR-------SGRPLKTLSQRLKGKEGRFRGSLSGKRV 390
Query: 257 GFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN-------KLCL 309
FS+R+VI+ D +NE+GVP +A +T VN N+ + V N +
Sbjct: 391 NFSARTVISPDPTLSLNEVGVPDRVATEMTQTMVVNEQNLERARRYVRNGPEGHPGANYV 450
Query: 310 TYSDGSS-SYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHD 368
T DG + + + + PG V R ++DGD + NR P+ H+ S+ A V V
Sbjct: 451 TRPDGRRVRVTEKVCEELAERVEPGWEVQRHLIDGDIIIFNRQPSLHRMSIMAHEVVVMP 510
Query: 369 DHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLA 428
T ++N ++C P +ADFDGD +++ Q+ A+AE L V++Q+LS G +
Sbjct: 511 YKTFRLNTVVCPPYNADFDGDEMNMHALQNEEARAEARVLMRVQEQILSPRFGENIIGAI 570
Query: 429 TDALLSLKVMFKK--YFLDKAFTQQLAMFALSPLPRPALSKARCSARWTALQILQSVLPP 486
D + ++ F + + L + LP A + WT QI +LP
Sbjct: 571 QDHISGTYLLTNDNPRFNETQASDLLRQTRIDELPAAAGTDEDGDQYWTGHQIFSELLPD 630
Query: 487 GFD-----SCGDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQP 541
+ GD +I+ ++L+G D + +EIV +I G F + +
Sbjct: 631 DLSLEFTGTTGDTVVIEDGQLLEGTIADDEVGEYGSEIVDTITKVHGNTRARIFINEVAS 690
Query: 542 LLMENLFADGFSVSLEDFSLSKAALWNIQKEIQALYSLLYHRMST--QNELVDLQIENHI 599
L M ++ GFS+ ++D ++S A I + IQ+ Y + + T +L L
Sbjct: 691 LAMRSIMHFGFSIGIDDETVSTEARERIDEAIQSAYDRVQELIETYENGDLESLPGRTVD 750
Query: 600 RHVKMLVAKFILKSSTLGYLIDSKSDSA---------------------VSKVVQQAGFL 638
++M + + TLG DS D A + + Q AG +
Sbjct: 751 ETLEMKIMQ------TLGKARDSAGDVAEENFDEDNPAVVMANSGARGSMLNLTQMAGCV 804
Query: 639 GLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSIS 698
G Q + RG+ ++ + SHF P DL+ + +G ++ + GL P E H++
Sbjct: 805 G-QQAVRGERINRGYEDRTLSHF---APNDLS--SEAHGFVENSYTSGLTPKEFFFHAMG 858
Query: 699 TREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
RE +V ++ S+ G L + L+ L ++ YDGTVR+ S++I+QF++
Sbjct: 859 GREGLVDTAVRTSKSGYLQRRLINALSELETQYDGTVRD-TSDTIVQFEFG 908
Score = 41.6 bits (96), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 43 LANPFLGLPLEFGKCESCGTSEPGKCEGHFGYIELPIPIYH 83
L +P LG+ +C++CG G C GHFG+IEL P+ H
Sbjct: 48 LMDPRLGVIDPGLECKTCG-QRSGGCNGHFGHIELAAPVIH 87
>sp|P16356|RPB1_CAEEL DNA-directed RNA polymerase II subunit RPB1 OS=Caenorhabditis
elegans GN=ama-1 PE=1 SV=3
Length = 1856
Score = 164 bits (415), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 168/713 (23%), Positives = 311/713 (43%), Gaps = 89/713 (12%)
Query: 101 IKNDGVAQRLLSSCCEVKEMLKRIPEETRKKLAGKGYFPQDGYIL-EYLPVPPNCLSVPD 159
+ D ++++ + V E+ ++I +E + F + +++ LPVPP +
Sbjct: 199 VNEDTQERKIMLTAERVLEVFQQITDEDILVIGMDPQFARPEWMICTVLPVPPLAVRPAV 258
Query: 160 ISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESND---LQLAVGQYLE- 215
++ G + DL+ + + ++ R+ +G + V ++D LQ V ++
Sbjct: 259 VTFGSAKNQDDLTHKLSDIIKTNQQLQRNEANGA----AAHVLTDDVRLLQFHVATLVDN 314
Query: 216 -VRGTAKSSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYK 270
+ G +++ P + K L+ ++R + K FS+R+VIT D
Sbjct: 315 CIPGLPTATQK-------GGRPLKSIKQRLKGKEGRIRGNLMGKRVDFSARTVITADPNL 367
Query: 271 RVNEIGVPFEIAQRITFEERVNVHNINYLQELVDNKLCLTYSDGSSSYSLRE-GSK---- 325
++ +GVP IAQ +TF E V N++ LQELV N+ Y + Y +RE G++
Sbjct: 368 PIDTVGVPRTIAQNLTFPEIVTPFNVDKLQELV-NRGDTQYP--GAKYIIRENGARVDLR 424
Query: 326 -----GHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICG 380
L+PG V R + DGD + NR PT HK S+ V + T ++N +
Sbjct: 425 YHPRAADLHLQPGYRVERHMKDGDIIVFNRQPTLHKMSMMGHRVKILPWSTFRMNLSVTS 484
Query: 381 PLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFK 440
P +ADFDGD ++L PQSL +AE+ E+ V +QL++ + + D L ++++M K
Sbjct: 485 PYNADFDGDEMNLHLPQSLETRAEIEEIAMVPRQLITPQANKPVMGIVQDTLCAVRMMTK 544
Query: 441 K-YFLDKAFTQQLAMFALS---PLPRPALSKARCSARWTALQILQSVLPPGFD------- 489
+ F+D F L M+ + +P+PA+ K + WT Q+ ++P +
Sbjct: 545 RDVFIDWPFMMDLLMYLPTWDGKVPQPAILKPK--PLWTGKQVFSLIIPGNVNVLRTHST 602
Query: 490 -------------SCGD-RYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEF 535
S GD + +I+ E+L G T+ ++ + E G E F
Sbjct: 603 HPDSEDSGPYKWISPGDTKVIIEHGELLSGIVCSKTVGKSAGNLLHVVTLELGYEIAANF 662
Query: 536 FDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQKEI----QALYSLLYH--------- 582
+ +Q ++ L +G ++ + D +A +IQ I Q + ++
Sbjct: 663 YSHIQTVINAWLIREGHTIGIGDTIADQATYLDIQNTIRKAKQDVVDVIEKAHNDDLEPT 722
Query: 583 -----RMSTQNELVDLQIENHIR-HVKMLVAKFILKSSTLGYLIDSKSDSAVSKVVQQAG 636
R + +N++ QI N R K + + + ++ S S + + Q
Sbjct: 723 PGNTLRQTFENKVN--QILNDARDRTGSSAQKSLSEFNNFKSMVVSGSKGSKINISQVIA 780
Query: 637 FLGLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHS 696
+G Q + GK HF + +Y G ++ + GL P E H+
Sbjct: 781 CVG-QQNVEGKRIPFGFRHRTLPHF-----IKDDYGPESKGFVENSYLAGLTPSEFFFHA 834
Query: 697 ISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+ RE ++ ++ +E G + + L+ + V++ YDGTVRN + ++Q Y
Sbjct: 835 MGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSLAQ-MVQLRYG 886
Score = 40.4 bits (93), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 61/130 (46%), Gaps = 23/130 (17%)
Query: 17 IRFGLATQKEICTASISDCSISHASQLANPFLGLPLE--------FGKCESCGTSEPGKC 68
++FG+ +EI S++ + P LG ++ G+C +C + C
Sbjct: 18 VQFGILGPEEIKRMSVAHVEFPEVYENGKPKLGGLMDPRQGVIDRRGRCMTCAGNL-TDC 76
Query: 69 EGHFGYIELPIPIYHPSHISE-LKL----TMYAFQLQIKNDGVAQRLLSSCCEVKEMLKR 123
GHFG++EL P++H +++ LK+ Y +L I D A R+L E+LK+
Sbjct: 77 PGHFGHLELAKPVFHIGFLTKTLKILRCVCFYCGRLLI--DKSAPRVL-------EILKK 127
Query: 124 IPEETRKKLA 133
++K+L
Sbjct: 128 TGTNSKKRLT 137
>sp|P24928|RPB1_HUMAN DNA-directed RNA polymerase II subunit RPB1 OS=Homo sapiens
GN=POLR2A PE=1 SV=2
Length = 1970
Score = 164 bits (414), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 192/763 (25%), Positives = 321/763 (42%), Gaps = 99/763 (12%)
Query: 53 EFGKCESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQLQIKNDGVAQRLLS 112
+FG + G + K +GH G Y P I L +YA + D +++L
Sbjct: 163 KFGVEQPEGDEDLTKEKGHGGCGR-----YQP-RIRRSGLELYAEWKHVNEDSQEKKILL 216
Query: 113 SCCEVKEMLKRIPEETRKKLAGKGYFPQDGY-ILEYLPVPPNCLSVPDISDGVSTMSSDL 171
S V E+ KRI +E L + + + + I+ LPVPP + + G + DL
Sbjct: 217 SPERVHEIFKRISDEECFVLGMEPRYARPEWMIVTVLPVPPLSVRPAVVMQGSARNQDDL 276
Query: 172 SIAMLKKVLKQVEIIRSSRSGTPNFESQEVESND---LQLAVGQYL--EVRGTAKSSRDV 226
+ K+ V+I R N + V + D LQ V + E+ G ++ +
Sbjct: 277 T----HKLADIVKINNQLRRNEQNGAAAHVIAEDVKLLQFHVATMVDNELPGLPRAMQK- 331
Query: 227 DARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIA 282
S P + K L+ ++R + K FS+R+VIT D ++++GVP IA
Sbjct: 332 ------SGRPLKSLKQRLKGKEGRVRGNLMGKRVDFSARTVITPDPNLSIDQVGVPRSIA 385
Query: 283 QRITFEERVNVHNINYLQELVDNK------LCLTYSDGSSSYSLREGSKGHTF-LRPGQV 335
+TF E V NI+ LQELV D LR K L+ G
Sbjct: 386 ANMTFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLRFHPKPSDLHLQTGYK 445
Query: 336 VHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFY 395
V R + DGD V NR PT HK S+ V + T ++N + P +ADFDGD ++L
Sbjct: 446 VERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVTTPYNADFDGDEMNLHL 505
Query: 396 PQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKK-YFLDKAFTQQLAM 454
PQSL +AE+ EL V + +++ + + + D L +++ K+ FL++ L M
Sbjct: 506 PQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFTKRDVFLERGEVMNLLM 565
Query: 455 FALS---PLPRPALSKARCSARWTALQILQSVLPPGFDSC-------------------- 491
F + +P+PA+ K R WT QI S++ PG +C
Sbjct: 566 FLSTWDGKVPQPAILKPR--PLWTGKQIF-SLIIPGHINCIRTHSTHPDDEDSGPYKHIS 622
Query: 492 -GD-RYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFA 549
GD + +++ E++ G + ++ + +V + E G + F+ ++Q ++ L
Sbjct: 623 PGDTKVVVENGELIMGILCKKSLGTSAGSLVHISYLEMGHDITRLFYSNIQTVINNWLLI 682
Query: 550 DGFSVSLEDFSLSKAALWNIQKEIQALYSLLYHRM--STQNEL-------VDLQIENHIR 600
+G ++ + D +IQ I+ + + + NEL + EN +
Sbjct: 683 EGHTIGIGDSIADSKTYQDIQNTIKKAKQDVIEVIEKAHNNELEPTPGNTLRQTFENQVN 742
Query: 601 HV-------------KMLVAKFILKSSTLGYLIDSKSD-SAVSKVVQQAGFLGLQLSDRG 646
+ K L KS + SK + S V VV Q G ++
Sbjct: 743 RILNDARDKTGSSAQKSLSEYNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKRIP--F 800
Query: 647 KFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRS 706
F +TL HF + +Y G ++ + GL P E H++ RE ++ +
Sbjct: 801 GFKHRTL-----PHF-----IKDDYGPESRGFVENSYLAGLTPTEFFFHAMGGREGLIDT 850
Query: 707 SRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+ +E G + + L+ + V++ YD TVRN N ++Q Y
Sbjct: 851 AVKTAETGYIQRRLIKSMESVMVKYDATVRNSI-NQVVQLRYG 892
Score = 42.4 bits (98), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 11/77 (14%)
Query: 17 IRFGLATQKEICTASISDCSISHASQ----------LANPFLGLPLEFGKCESCGTSEPG 66
++FG+ + E+ S+++ I + L +P G+ G+C++C +
Sbjct: 21 VQFGVLSPDELKRMSVTEGGIKYPETTEGGRPKLGGLMDPRQGVIERTGRCQTCAGNM-T 79
Query: 67 KCEGHFGYIELPIPIYH 83
+C GHFG+IEL P++H
Sbjct: 80 ECPGHFGHIELAKPVFH 96
>sp|P08775|RPB1_MOUSE DNA-directed RNA polymerase II subunit RPB1 OS=Mus musculus
GN=Polr2a PE=1 SV=3
Length = 1970
Score = 164 bits (414), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 192/763 (25%), Positives = 321/763 (42%), Gaps = 99/763 (12%)
Query: 53 EFGKCESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQLQIKNDGVAQRLLS 112
+FG + G + K +GH G Y P I L +YA + D +++L
Sbjct: 163 KFGVEQPEGDEDLTKEKGHGGCGR-----YQP-RIRRSGLELYAEWKHVNEDSQEKKILL 216
Query: 113 SCCEVKEMLKRIPEETRKKLAGKGYFPQDGY-ILEYLPVPPNCLSVPDISDGVSTMSSDL 171
S V E+ KRI +E L + + + + I+ LPVPP + + G + DL
Sbjct: 217 SPERVHEIFKRISDEECFVLGMEPRYARPEWMIVTVLPVPPLSVRPAVVMQGSARNQDDL 276
Query: 172 SIAMLKKVLKQVEIIRSSRSGTPNFESQEVESND---LQLAVGQYL--EVRGTAKSSRDV 226
+ K+ V+I R N + V + D LQ V + E+ G ++ +
Sbjct: 277 T----HKLADIVKINNQLRRNEQNGAAAHVIAEDVKLLQFHVATMVDNELPGLPRAMQK- 331
Query: 227 DARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIA 282
S P + K L+ ++R + K FS+R+VIT D ++++GVP IA
Sbjct: 332 ------SGRPLKSLKQRLKGKEGRVRGNLMGKRVDFSARTVITPDPNLSIDQVGVPRSIA 385
Query: 283 QRITFEERVNVHNINYLQELVDNK------LCLTYSDGSSSYSLREGSKGHTF-LRPGQV 335
+TF E V NI+ LQELV D LR K L+ G
Sbjct: 386 ANMTFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLRFHPKPSDLHLQTGYK 445
Query: 336 VHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFY 395
V R + DGD V NR PT HK S+ V + T ++N + P +ADFDGD ++L
Sbjct: 446 VERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVTTPYNADFDGDEMNLHL 505
Query: 396 PQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKK-YFLDKAFTQQLAM 454
PQSL +AE+ EL V + +++ + + + D L +++ K+ FL++ L M
Sbjct: 506 PQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFTKRDVFLERGEVMNLLM 565
Query: 455 FALS---PLPRPALSKARCSARWTALQILQSVLPPGFDSC-------------------- 491
F + +P+PA+ K R WT QI S++ PG +C
Sbjct: 566 FLSTWDGKVPQPAILKPR--PLWTGKQIF-SLIIPGHINCIRTHSTHPDDEDSGPYKHIS 622
Query: 492 -GD-RYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFA 549
GD + +++ E++ G + ++ + +V + E G + F+ ++Q ++ L
Sbjct: 623 PGDTKVVVENGELIMGILCKKSLGTSAGSLVHISYLEMGHDITRLFYSNIQTVINNWLLI 682
Query: 550 DGFSVSLEDFSLSKAALWNIQKEIQALYSLLYHRM--STQNEL-------VDLQIENHIR 600
+G ++ + D +IQ I+ + + + NEL + EN +
Sbjct: 683 EGHTIGIGDSIADSKTYQDIQNTIKKAKQDVIEVIEKAHNNELEPTPGNTLRQTFENQVN 742
Query: 601 HV-------------KMLVAKFILKSSTLGYLIDSKSD-SAVSKVVQQAGFLGLQLSDRG 646
+ K L KS + SK + S V VV Q G ++
Sbjct: 743 RILNDARDKTGSSAQKSLSEYNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKRIP--F 800
Query: 647 KFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRS 706
F +TL HF + +Y G ++ + GL P E H++ RE ++ +
Sbjct: 801 GFKHRTL-----PHF-----IKDDYGPESRGFVENSYLAGLTPTEFFFHAMGGREGLIDT 850
Query: 707 SRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+ +E G + + L+ + V++ YD TVRN N ++Q Y
Sbjct: 851 AVKTAETGYIQRRLIKSMESVMVKYDATVRNSI-NQVVQLRYG 892
Score = 42.7 bits (99), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 11/77 (14%)
Query: 17 IRFGLATQKEICTASISDCSISHASQ----------LANPFLGLPLEFGKCESCGTSEPG 66
++FG+ + E+ S+++ I + L +P G+ G+C++C +
Sbjct: 21 VQFGVLSPDELKRMSVTEGGIKYPETTEGGRPKLGGLMDPRQGVIERTGRCQTCAGNM-T 79
Query: 67 KCEGHFGYIELPIPIYH 83
+C GHFG+IEL P++H
Sbjct: 80 ECPGHFGHIELAKPVFH 96
>sp|A4IF62|RPC1_BOVIN DNA-directed RNA polymerase III subunit RPC1 OS=Bos taurus
GN=POLR3A PE=2 SV=1
Length = 1390
Score = 162 bits (411), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 218/841 (25%), Positives = 347/841 (41%), Gaps = 143/841 (17%)
Query: 94 MYAFQLQIKNDGVAQRLLSSCCE------VKEMLKRIPEETRKKL-----AGKGYFPQDG 142
+ +F+ I+++ + LL E V + KRIP E L AGK P D
Sbjct: 194 LQSFETAIEHNKEVEPLLGKAQENLNPLVVLNLFKRIPAEDIPLLLMNPEAGK---PSD- 249
Query: 143 YILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVE 202
IL L VPP C+ +SD S + D L +++ ++I+ R + +
Sbjct: 250 LILTRLLVPPLCIRPSVVSDLKSGTNEDDLTMKLTEIIFLNDVIKKHRISGAKTQMIMED 309
Query: 203 SNDLQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIR------- 253
+ LQL Y+ E+ G ++ P T+ ++++++ R
Sbjct: 310 WDFLQLQCALYINSELSGIP-----------LNMAPKKWTRGFVQRLKGKQGRFRGNLSG 358
Query: 254 KGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN-------- 305
K FS R+VI+ D R++E+ VP +A+ +TF E+VN NIN+L++LV N
Sbjct: 359 KRVDFSGRTVISPDPNLRIDEVAVPVHVAKILTFPEKVNKANINFLRKLVRNGPEVHPGA 418
Query: 306 ---KLCLTYSDGSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQAL 362
+ T Y RE K L+ G +V R ++DGD V NR P+ HK S+ A
Sbjct: 419 NFIQQRHTQMKRFLKYGNRE--KMAQELKFGDIVERHLIDGDVVLFNRQPSLHKLSIMAH 476
Query: 363 SVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGN 422
V T + N +C P +ADFDGD ++L PQ+ AKAE L L + L++ NG
Sbjct: 477 LARVKPHRTFRFNECVCTPYNADFDGDEMNLHLPQTEEAKAEALVLMGTKANLVTPRNGE 536
Query: 423 LNLQLATDALLSLKVM-FKKYFLDKAFTQQLAMFAL--------SPLPRPALSKARCSAR 473
+ D L ++ K F D+A Q+ L LP P + K
Sbjct: 537 PLIAAIQDFLTGAYLLTLKDTFFDRAKACQIIASILVGKDEKIKVRLPPPTILKP--VTL 594
Query: 474 WTALQILQSVLPPGFDS-------------CG--------DRYL-IKKSEVLKGDFDRDT 511
WT QI +L P D+ CG D Y+ I+ SE++ G D+ T
Sbjct: 595 WTGKQIFSVILRPSDDNPVRANLRTKGKQYCGRGEDLCVNDSYVTIQNSELMSGSMDKGT 654
Query: 512 IPS-VINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLED-----------F 559
+ S N I + + G E + L L L GFS+ + D +
Sbjct: 655 LGSGSKNNIFYILLRDWGQNEAADAMSRLARLAPVYLSNRGFSIGIGDVTPGQGLLKAKY 714
Query: 560 SLSKAALWNIQKEIQALYS--LLYHRMSTQNELVDLQIENHIR----HVKMLVAKFILKS 613
L A + I+AL + L T E ++ I + H + + KS
Sbjct: 715 ELLNAGYKKCDEYIEALNTGKLQQQPGCTAEETLEALILKELSVIRDHAGSACLRELDKS 774
Query: 614 STLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGK----FYSKTLVEDIASHFERIYPMDL 669
++ + S + + Q +G Q + F +++L HFE+ +
Sbjct: 775 NSPLTMALCGSKGSFINISQMIACVGQQAISGSRVPDGFENRSL-----PHFEKHSKL-- 827
Query: 670 NYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVI 729
P AK G + F+ GL P E H+++ RE +V ++ +E G + + L+ L D+
Sbjct: 828 --PAAK-GFVANSFYSGLTPTEFFFHTMAGREGLVDTAVKTAETGYMQRRLVKSLEDLCS 884
Query: 730 CYDGTVRNVCSNSIIQFDYAVNARKSHSLFPAGEPVGVLAATAMSNPAYKAVLDSSPSSN 789
YD TVR+ + IIQF Y + ++ EP+ +K VLD+
Sbjct: 885 QYDLTVRS-STGDIIQFIYGGDGLDPAAMEGKDEPL-----------EFKRVLDN----- 927
Query: 790 NSWELMKEILLCR----VSFNNDPIDRRVILYLNDCGCGRKYCQERAAYMVKNQLKRVSL 845
+K + CR +S N + I+ N+ C CQ+ +K +K VS
Sbjct: 928 -----IKAVFPCRSEPALSKNELLLSAESIMKKNEFLC----CQDSFLQEIKKFIKEVSE 978
Query: 846 K 846
K
Sbjct: 979 K 979
Score = 40.0 bits (92), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 14/61 (22%)
Query: 57 CESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQLQIKNDGVAQRLLSSCCE 116
CE+CG + C GH+GYI+L +P +H + F+ I G+ Q + +CC
Sbjct: 69 CETCGKNL-ADCLGHYGYIDLELPCFHVGY----------FRAVI---GILQMICKTCCH 114
Query: 117 V 117
+
Sbjct: 115 I 115
>sp|O14802|RPC1_HUMAN DNA-directed RNA polymerase III subunit RPC1 OS=Homo sapiens
GN=POLR3A PE=1 SV=2
Length = 1390
Score = 162 bits (409), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 197/740 (26%), Positives = 311/740 (42%), Gaps = 114/740 (15%)
Query: 94 MYAFQLQIKNDGVAQRLLSSCCE------VKEMLKRIPEETRKKL-----AGKGYFPQDG 142
+ +F+ I+++ + LL E V + KRIP E L AGK P D
Sbjct: 194 LQSFETAIEHNKEVEPLLGRAQENLNPLVVLNLFKRIPAEDVPLLLMNPEAGK---PSD- 249
Query: 143 YILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVE 202
IL L VPP C+ +SD S + D L +++ ++I+ R + +
Sbjct: 250 LILTRLLVPPLCIRPSVVSDLKSGTNEDDLTMKLTEIIFLNDVIKKHRISGAKTQMIMED 309
Query: 203 SNDLQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIR------- 253
+ LQL Y+ E+ G ++ P T+ ++++++ R
Sbjct: 310 WDFLQLQCALYINSELSGIP-----------LNMAPKKWTRGFVQRLKGKQGRFRGNLSG 358
Query: 254 KGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN-------- 305
K FS R+VI+ D R++E+ VP +A+ +TF E+VN NIN+L++LV N
Sbjct: 359 KRVDFSGRTVISPDPNLRIDEVAVPVHVAKILTFPEKVNKANINFLRKLVQNGPEVHPGA 418
Query: 306 ---KLCLTYSDGSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQAL 362
+ T Y RE K L+ G +V R ++DGD V NR P+ HK S+ A
Sbjct: 419 NFIQQRHTQMKRFLKYGNRE--KMAQELKYGDIVERHLIDGDVVLFNRQPSLHKLSIMAH 476
Query: 363 SVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGN 422
V T + N +C P +ADFDGD ++L PQ+ AKAE L L + L++ NG
Sbjct: 477 LARVKPHRTFRFNECVCTPYNADFDGDEMNLHLPQTEEAKAEALVLMGTKANLVTPRNGE 536
Query: 423 LNLQLATDALLSLKVM-FKKYFLDKAFTQQLAMFAL--------SPLPRPALSKARCSAR 473
+ D L ++ K F D+A Q+ L LP P + K
Sbjct: 537 PLIAAIQDFLTGAYLLTLKDTFFDRAKACQIIASILVGKDEKIKVRLPPPTILKP--VTL 594
Query: 474 WTALQILQSVLPPGFDS-------------CG--------DRYL-IKKSEVLKGDFDRDT 511
WT QI +L P D+ CG D Y+ I+ SE++ G D+ T
Sbjct: 595 WTGKQIFSVILRPSDDNPVRANLRTKGKQYCGKGEDLCANDSYVTIQNSELMSGSMDKGT 654
Query: 512 IPS-VINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLED-----------F 559
+ S N I + + G E + L L L GFS+ + D +
Sbjct: 655 LGSGSKNNIFYILLRDWGQNEAADAMSRLARLAPVYLSNRGFSIGIGDVTPGQGLLKAKY 714
Query: 560 SLSKAALWNIQKEIQALYS--LLYHRMSTQNELVDLQIENHIR----HVKMLVAKFILKS 613
L A + I+AL + L T E ++ I + H + + KS
Sbjct: 715 ELLNAGYKKCDEYIEALNTGKLQQQPGCTAEETLEALILKELSVIRDHAGSACLRELDKS 774
Query: 614 STLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGK----FYSKTLVEDIASHFERIYPMDL 669
++ + S + + Q +G Q + F +++L HFE+ +
Sbjct: 775 NSPLTMALCGSKGSFINISQMIACVGQQAISGSRVPDGFENRSL-----PHFEKHSKL-- 827
Query: 670 NYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVI 729
P AK G + F+ GL P E H+++ RE +V ++ +E G + + L+ L D+
Sbjct: 828 --PAAK-GFVANSFYSGLTPTEFFFHTMAGREGLVDTAVKTAETGYMQRRLVKSLEDLCS 884
Query: 730 CYDGTVRNVCSNSIIQFDYA 749
YD TVR+ + IIQF Y
Sbjct: 885 QYDLTVRS-STGDIIQFIYG 903
Score = 40.0 bits (92), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 14/61 (22%)
Query: 57 CESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQLQIKNDGVAQRLLSSCCE 116
CE+CG + C GH+GYI+L +P +H + F+ I G+ Q + +CC
Sbjct: 69 CETCGKNL-ADCLGHYGYIDLELPCFHVGY----------FRAVI---GILQMICKTCCH 114
Query: 117 V 117
+
Sbjct: 115 I 115
>sp|P04052|RPB1_DROME DNA-directed RNA polymerase II subunit RPB1 OS=Drosophila
melanogaster GN=RpII215 PE=3 SV=4
Length = 1887
Score = 160 bits (405), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 181/742 (24%), Positives = 304/742 (40%), Gaps = 79/742 (10%)
Query: 64 EPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQLQIKNDGVAQRLLSSCCEVKEMLKR 123
+P K GH G Y PS I L + A D ++++ S V E+LK
Sbjct: 166 DPNKKPGHGGCGH-----YQPS-IRRTGLDLTAEWKHQNEDSQEKKIVVSAERVWEILKH 219
Query: 124 IPEETRKKLA-GKGYFPQDGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQ 182
I +E L Y D I+ LPVPP + + G + DL+ + +
Sbjct: 220 ITDEECFILGMDPKYARPDWMIVTVLPVPPLAVRPAVVMFGAAKNQDDLTHKLSDIIKAN 279
Query: 183 VEIIRSSRSGTPNFESQEVESNDLQLAVGQYLE--VRGTAKSSRDVDARFGVSQDPNSTT 240
E+ ++ SG QE LQ V ++ + G ++ + S P
Sbjct: 280 NELRKNEASGAAAHVIQE-NIKMLQFHVATLVDNDMPGMPRAMQK-------SGKPLKAI 331
Query: 241 KAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNI 296
KA L+ ++R + K FS+R+VIT D R++++GVP IAQ +TF E V NI
Sbjct: 332 KARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNLTFPELVTPFNI 391
Query: 297 NYLQELVDNK------LCLTYSDGSSSYSLREGSKGHTF-LRPGQVVHRRIMDGDTVFIN 349
+ +QELV D LR K L+ G V R + D D V N
Sbjct: 392 DRMQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKSSDLHLQCGYKVERHLRDDDLVIFN 451
Query: 350 RPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELF 409
R PT HK S+ V V T ++N P +ADFDGD ++L PQS+ +AEV +
Sbjct: 452 RQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFDGDEMNLHVPQSMETRAEVENIH 511
Query: 410 SVEKQLLSSHNGNLNLQLATDALLSLKVMFKK-YFLDKAFTQQLAMFALS---PLPRPAL 465
+Q+++ + + D L +++ M K+ F+ + L MF + +P+P +
Sbjct: 512 ITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITREQVMNLLMFLPTWDAKMPQPCI 571
Query: 466 SKARCSARWTALQILQSVLPPGFD--------------------SCGD-RYLIKKSEVLK 504
K R WT QI ++P + S GD + +++ E++
Sbjct: 572 LKPR--PLWTGKQIFSLIIPGNVNMIRTHSTHPDEEDEGPYKWISPGDTKVMVEHGELIM 629
Query: 505 GDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKA 564
G + ++ + ++ F E G + F+ ++Q ++ L +G S+ + D
Sbjct: 630 GILCKKSLGTSAGSLLHICFLELGHDIAGRFYGNIQTVINNWLLFEGHSIGIGDTIADPQ 689
Query: 565 ALWNIQKEIQALYSLLY------HRM---STQNELVDLQIENHIRHV--------KMLVA 607
IQ+ I+ + H M T + EN + +
Sbjct: 690 TYNEIQQAIKKAKDDVINVIQKAHNMELEPTPGNTLRQTFENKVNRILNDARDKTGGSAK 749
Query: 608 KFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPM 667
K + + + L ++ S S + + Q +G Q + GK + HF +
Sbjct: 750 KSLTEYNNLKAMVVSGSKGSNINISQVIACVG-QQNVEGKRIPYGFRKRTLPHF-----I 803
Query: 668 DLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDV 727
+Y G ++ + GL P E H++ RE ++ ++ +E G + + L+ + V
Sbjct: 804 KDDYGPESRGFVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESV 863
Query: 728 VICYDGTVRNVCSNSIIQFDYA 749
++ YDGTVRN +IQ Y
Sbjct: 864 MVNYDGTVRNSVGQ-LIQLRYG 884
Score = 41.2 bits (95), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 44/87 (50%), Gaps = 11/87 (12%)
Query: 13 QIVGIRFGLATQKEICTASISDCSISHASQ----------LANPFLGLPLEFGKCESCGT 62
Q+ ++FG+ + EI S+++ + A L +P G+ +C++C
Sbjct: 13 QVKRVQFGILSPDEIRRMSVTEGGVQFAETMEGGRPKLGGLMDPRQGVIDRTSRCQTCAG 72
Query: 63 SEPGKCEGHFGYIELPIPIYHPSHISE 89
+ +C GHFG+I+L P++H I++
Sbjct: 73 NM-TECPGHFGHIDLAKPVFHIGFITK 98
>sp|P04051|RPC1_YEAST DNA-directed RNA polymerase III subunit RPC1 OS=Saccharomyces
cerevisiae (strain ATCC 204508 / S288c) GN=RPO31 PE=1
SV=1
Length = 1460
Score = 158 bits (400), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 171/687 (24%), Positives = 296/687 (43%), Gaps = 105/687 (15%)
Query: 143 YILEYLPVPPNCLSVPDI--SDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQE 200
YI YLP PP C+ P + D ++ DL++ L +++ +I++ + +
Sbjct: 256 YIWRYLPAPPVCIR-PSVMMQDSPASNEDDLTVK-LTEIVWTSSLIKAGLDKGISINNMM 313
Query: 201 VESNDLQLAVGQYLE--------VRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFI 252
+ LQL V Y+ + G++ V G Q K + R
Sbjct: 314 EHWDYLQLTVAMYINSDSVNPAMLPGSSNGGGKVKPIRGFCQ----RLKGKQGRFRGNLS 369
Query: 253 RKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN------- 305
K FS R+VI+ D ++E+ VP +A+ +T+ E+V +N + LQEL+ N
Sbjct: 370 GKRVDFSGRTVISPDPNLSIDEVAVPDRVAKVLTYPEKVTRYNRHKLQELIVNGPNVHPG 429
Query: 306 KLCLTYSDGSSSYSLREGSKGHTF--LRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALS 363
L + + +LR G + L+ G VV R + DGD V NR P+ H+ S+ +
Sbjct: 430 ANYLLKRNEDARRNLRYGDRMKLAKNLQIGDVVERHLEDGDVVLFNRQPSLHRLSILSHY 489
Query: 364 VYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNL 423
+ T ++N +C P +ADFDGD ++L PQ+ A+AE + L V+ LL+ +G
Sbjct: 490 AKIRPWRTFRLNECVCTPYNADFDGDEMNLHVPQTEEARAEAINLMGVKNNLLTPKSGEP 549
Query: 424 NLQLATDALL-SLKVMFKKYFLDKA-FTQQLAMFALS----PLPRPALSKARCSARWTAL 477
+ D + S + K F D+A TQ L+M + +P PA+ K WT
Sbjct: 550 IIAATQDFITGSYLISHKDSFYDRATLTQLLSMMSDGIEHFDIPPPAIMKP--YYLWTGK 607
Query: 478 QILQSVLPPGFDSC--------------------------GDRY-LIKKSEVLKGDFDRD 510
Q+ ++ P +S D + +I+ S++L G D+
Sbjct: 608 QVFSLLIKPNHNSPVVINLDAKNKVFVPPKSKSLPNEMSQNDGFVIIRGSQILSGVMDKS 667
Query: 511 TI-PSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAALWNI 569
+ + + +I + GP+E + + L L GFS+ + D + + ++
Sbjct: 668 VLGDGKKHSVFYTILRDYGPQEAANAMNRMAKLCARFLGNRGFSIGINDVTPAD----DL 723
Query: 570 QKEIQALYSLLYHR------------MSTQ-----NELVDLQIENHIRHVKMLVAKFILK 612
+++ + L + YH+ + TQ + ++ +I + V+ V +
Sbjct: 724 KQKKEELVEIAYHKCDELITLFNKGELETQPGCNEEQTLEAKIGGLLSKVREEVGDVCIN 783
Query: 613 S----------STLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFE 662
+T G + + S + VV Q G ++ D F ++L HF
Sbjct: 784 ELDNWNAPLIMATCGSKGSTLNVSQMVAVVGQQIISGNRVPD--GFQDRSL-----PHF- 835
Query: 663 RIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMA 722
P + P +K G ++ FF GL P E + H+IS RE +V ++ +E G + + LM
Sbjct: 836 ---PKNSKTPQSK-GFVRNSFFSGLSPPEFLFHAISGREGLVDTAVKTAETGYMSRRLMK 891
Query: 723 VLRDVVICYDGTVRNVCSNSIIQFDYA 749
L D+ YD TVR +N I+QF Y
Sbjct: 892 SLEDLSCQYDNTVRT-SANGIVQFTYG 917
Score = 35.8 bits (81), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 40 ASQLANPFLGLPLEFGKCESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQL 99
A+ +P +G+ +C +C C GHFG+++L +P++ HI K T+ Q
Sbjct: 50 ANGALDPKMGVSSSSLECATC-HGNLASCHGHFGHLKLALPVF---HIGYFKATIQILQG 105
Query: 100 QIKN 103
KN
Sbjct: 106 ICKN 109
>sp|Q7T6X5|RPO1_MIMIV DNA-directed RNA polymerase subunit 1 OS=Acanthamoeba polyphaga
mimivirus GN=RPO1 PE=1 SV=2
Length = 1495
Score = 157 bits (396), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 169/660 (25%), Positives = 293/660 (44%), Gaps = 100/660 (15%)
Query: 139 PQDGYILEYLPVPPNCLSVPDISDGV---STMSSDLSIAMLKKVLKQVEIIRSSRSGTPN 195
P+D IL + PVPP + P I + TM DL+ ++ ++K E +++++
Sbjct: 235 PEDMIILNF-PVPPVQVR-PSIRAEILSSPTMDDDLTHKLID-IIKSNENLKNTKGDGSL 291
Query: 196 FESQEVESND----LQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRT 249
+ + ND LQL V + ++ G A+S Q TK+ E++R
Sbjct: 292 IKYTSI--NDDFMLLQLHVATFFANDMAGLARSQ----------QKNKKVTKSMSERLRG 339
Query: 250 L-------FIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQEL 302
+ K S+R+VIT D +NE+GVP IA+ +TF+E V HNI YL +L
Sbjct: 340 KEGRIRGNLMGKRVDMSARTVITSDPNIALNEVGVPLIIAKNLTFDEIVTEHNIEYLTQL 399
Query: 303 VDN-KLCLTYSDGSSSYSL-REGSK-GHTF----------LRPGQVVHRRIMDGDTVFIN 349
V N K ++ + + EG++ GH + L+PG +V R+++DGD V N
Sbjct: 400 VKNGKRVYPGANFVIKHVIDAEGNESGHIYHLKYVDKPISLKPGDIVKRQLIDGDIVIFN 459
Query: 350 RPPTTHKHSLQALSVYVHDDH---TVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVL 406
R P+ HK S+ +V D+ T ++N + P +ADFDGD ++L PQS+ E+L
Sbjct: 460 RQPSLHKLSMMGHKCHVIPDNNLLTFRVNVSVTDPYNADFDGDEMNLHVPQSIQTATEIL 519
Query: 407 ELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKKYF-LDKAFTQQLAMFALSPLPRPAL 465
+ + ++ +S N+ ++ D L+ V + +D + M L
Sbjct: 520 LIANASRRFVSPATSNIAIKAKQDTLMGSYVQTEPDMEIDWRDAMSILMSTSVKLDNDIP 579
Query: 466 SKARCSARWTALQILQSVLPPGFDSCGDR------YLIKKSEVLKGDFDRDTIPSVINEI 519
S ++ QI +P G + + IK E+ G + I S++
Sbjct: 580 KYQNVSGKFLYSQI----IPEGLNITKRKNDKEFQLKIKNGELTDGTLGKSEISSILQR- 634
Query: 520 VTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQKEIQALYSL 579
I+F+ G +E EF D Q ++++ L G++VS++D + +K Q +Y L
Sbjct: 635 ---IWFQYGSKETQEFIDDAQRMILQFLMRYGYTVSIKDTVIG-------EKVNQYIYDL 684
Query: 580 LYHRMSTQNELV---------------DLQIENHIRHV----KMLVAKFILKSSTLGYLI 620
+ + + +++++ +++ V K V + K+S + I
Sbjct: 685 IETKRKETLAFITEYDNDPYVMTKDAFEIKLQENLKSVQDEIKNTVMRNFDKNSGIFIAI 744
Query: 621 DSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFE-RIYPMDLNYPTAKY--G 677
S S Q AG +G Q+ GK I F R PM + + + G
Sbjct: 745 SSGSSGEPMNAGQIAGCIG-QVIVEGK--------RIQIRFNGRTLPMFPKFDDSAFSRG 795
Query: 678 LIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRN 737
+ F GL P+E ++ RE I+ ++ ++ G + + L+ +L D+ YDGTVRN
Sbjct: 796 FCRNSFIEGLGPFEFFFQVMAGREGIINTAIKTADTGYIQRKLVKMLEDIKQEYDGTVRN 855
Score = 36.6 bits (83), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 48 LGLPLEFGKCESCGTSEPGKCEGHFGYIELPIPIYHPSHISELK 91
LG+ +C +CG + +C GHFG+I+ P++H ++ LK
Sbjct: 66 LGVTESHLECSTCGETAL-RCPGHFGHIKFVEPVFHMGYLIYLK 108
>sp|P41556|RPOA1_METVS DNA-directed RNA polymerase subunit A' OS=Methanococcus vannielii
(strain SB / ATCC 35089 / DSM 1224) GN=rpoA1 PE=3 SV=1
Length = 889
Score = 156 bits (395), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 169/705 (23%), Positives = 295/705 (41%), Gaps = 75/705 (10%)
Query: 104 DGVAQRLLSSCCEVKEMLKRIPEETRKKLAGKGYFPQDGY-ILEYLPVPPNCLSVPDISD 162
DG +Q+ L+S EV+E+L++IP E K L + Y +L LPVPP + +
Sbjct: 171 DGKSQKQLTSS-EVREILEKIPNEDCKLLGINSRVARPEYMVLTVLPVPPVTVRPSITLE 229
Query: 163 GVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTA-K 221
DL+ ++ + + + G PN +++ + LQ + Y +
Sbjct: 230 SGERSEDDLTHKLVDIIRINQRLEENINGGAPNLIIEDL-WDLLQYHINTYFDNEAPGIP 288
Query: 222 SSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGV 277
+R R P T L+ + R K FS+R+VI+ D +NE+G+
Sbjct: 289 PARHRSGR------PLRTLAQRLKGKEGRFRHNLAGKRVNFSARTVISPDPRLSINEVGI 342
Query: 278 PFEIAQRITFEERVNVHNINYLQELVDN------------KLCLTYSDGSSSYSLREGSK 325
P IA+ +T E+V +NI +++L++N K T Y ++
Sbjct: 343 PELIAKELTVPEKVTPYNIERIRKLIENGSDKHPGVNYVIKKVKTKDGKEEEYKIKITDT 402
Query: 326 GHTF----LRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGP 381
+ G VV R + DGD V NR P+ H+ S+ A V V T + N +C P
Sbjct: 403 NKKMWVENIVDGMVVERHLGDGDVVLYNRQPSLHRMSIMAHKVKVLPYRTFRHNLCVCPP 462
Query: 382 LSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKK 441
+ADFDGD +++ PQS A+AE L VEK ++S G + D + V+
Sbjct: 463 YNADFDGDEMNVHVPQSEEARAEAETLMLVEKHIISPRYGGPIIGAIHDFVSGAYVLTSS 522
Query: 442 YFL-DKAFTQQLAMFALSPLPRPALSKARCSARWTALQILQSVLPPGFD----------- 489
F+ D+A T + S L P + ++ + LP G +
Sbjct: 523 NFIKDEALTLLKSSGFGSELGEPDFVENGIEY-YSGKSLFSKTLPKGLNLQYKAKVCKKC 581
Query: 490 -SC------GDRY-LIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQP 541
C D + +I+ +++G D++ + ++ +I + G E+ F DS
Sbjct: 582 VQCKREECENDAFVIIRNGRLVQGVIDKNGFGAETGVVLNTIVKDFGSEDARTFLDSATK 641
Query: 542 LLMENLFADGFSVSLEDFSLSKAALWNIQ----------KEIQALYS------LLYHRMS 585
+ ++++ GF+ ++D + A+ IQ +EI Y L +
Sbjct: 642 MSVKSMMLRGFTTGIDDEDIPSEAIQEIQDLLDKAESDVQEIVERYEGGTLDPLPGRGIE 701
Query: 586 TQNELVDLQIENHIRHVKMLVA-KFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSD 644
E +QI R VA K++ K + + + + ++ + A +G Q S
Sbjct: 702 ESREAYIMQILGKARDDTGKVAEKYLSKENHAALMARTGARGSLLNITMMAASVG-QQSV 760
Query: 645 RGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIV 704
RG + HF + + +G ++ C+ GL P E H++ RE +V
Sbjct: 761 RGGRVFRGYRGRTLPHFG-----EGSLDAKSHGFVRSCYKKGLAPTEYFFHAMGGREGLV 815
Query: 705 RSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+ ++ G + + L+ L+D+ YDGTVR+ I+QF+Y
Sbjct: 816 DQAVRTAQSGYMQRRLVNALQDIKAEYDGTVRD-SRGIIVQFNYG 859
>sp|Q980R2|RPOA1_SULSO DNA-directed RNA polymerase subunit A' OS=Sulfolobus solfataricus
(strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) GN=rpoA1
PE=1 SV=1
Length = 880
Score = 155 bits (392), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 192/707 (27%), Positives = 311/707 (43%), Gaps = 82/707 (11%)
Query: 102 KNDGVAQRLLSSCCEVKEMLKRIPEETRKKLAGKGYFPQDG----YILEYLPVPPNCLSV 157
+ +GVA+ + +++E L++IP+ + L GY P IL LPVPP +
Sbjct: 168 RKEGVAK---LTPSDIRERLEKIPDSDVEIL---GYDPTTSRPEWMILTVLPVPPITIRP 221
Query: 158 PDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYL--E 215
+ + DL+ ++ V + S +G P +++ + LQ V Y E
Sbjct: 222 SIMIESGIRAEDDLTHKLVDIVRINERLKESIDAGAPQLIIEDL-WDLLQYHVATYFDNE 280
Query: 216 VRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSG----FSSRSVITGDAYKR 271
+ G S S P T L+ F SG FSSR+VI+ D
Sbjct: 281 IPGLPPSKHR-------SGRPLRTLAQRLKGKEGRFRGNLSGKRVDFSSRTVISPDPNIS 333
Query: 272 VNEIGVPFEIAQRITFEERVNVHNINYLQELVDNKL-------CLTYSDGSSS--YSLRE 322
++E+GVP IA+ +T ER+ NI L++ V N + DG +++
Sbjct: 334 IDEVGVPEIIAKTLTVPERITPWNIEKLRQFVINGPDKWPGANYVIRPDGRRIDLRYVKD 393
Query: 323 GSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPL 382
+ + L PG ++ R ++DGD V NR P+ H+ S+ A V V T ++N L+C P
Sbjct: 394 RKELASTLAPGYIIERHLIDGDIVLFNRQPSLHRISMMAHRVRVLKGLTFRLNLLVCPPY 453
Query: 383 SADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALL-SLKVMFKK 441
+ADFDGD ++L PQS A AE E+ V K +++ G + A D + + + K
Sbjct: 454 NADFDGDEMNLHVPQSEEAIAEAKEIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKT 513
Query: 442 YFLDKAFTQQLAMFA--LSPLPRPALSKARCSARWTALQILQSVLPPGFDSCGDRYLIKK 499
L K QQ+ A L PA+ R +T Q++ + LP F+ G +
Sbjct: 514 TLLTKEEAQQILGVADVKIDLGEPAILAPR--EYYTGKQVISAFLPKDFNFHGQANVSSG 571
Query: 500 SEVLKG-DFDRDTIPSVINEIVTSIFFEKG------PEEVL-----EFFDSLQPLLMENL 547
+ K D D+ + N I+ F+K PE +L E+ D LM+NL
Sbjct: 572 PRLCKNEDCPHDSYVVIKNGILLEGVFDKKAIGNQQPESILHWLIKEYSDEYGKWLMDNL 631
Query: 548 F--------ADGFSVSLEDFSLS---KAALWN-IQKEIQALYSLLYHRMSTQNELV---- 591
F GF++ LED SL K ++N I + + +L+ + + E +
Sbjct: 632 FRVFIRFVELQGFTMRLEDVSLGDDVKKEIYNEIDRAKVEVDNLIQKYKNGELEPIPGRT 691
Query: 592 -DLQIENHI-------RHVKMLVAKFILKSSTLGYLI-DSKSDSAVSKVVQQAGFLGLQL 642
+ +EN+I R +A L Y++ + + +V + Q A LG Q
Sbjct: 692 LEESLENYILDTLDKLRSTAGDIASKYLDPFNFAYVMARTGARGSVLNITQMAAMLG-QQ 750
Query: 643 SDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREV 702
S RG+ + + HF+ P D++ P A+ G I F GL P E H+ RE
Sbjct: 751 SVRGERIKRGYMTRTLPHFK---PYDIS-PEAR-GFIYSSFRTGLKPTELFFHAAGGREG 805
Query: 703 IVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+V ++ S+ G + + L+ L D+ YDGTVR++ ++Q Y
Sbjct: 806 LVDTAVRTSQSGYMQRRLINALSDLRAEYDGTVRSLYG-EVVQVAYG 851
Score = 45.8 bits (107), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 39/82 (47%), Gaps = 10/82 (12%)
Query: 11 EGQIVGIRFGLATQKEICTASISDCSISHA---------SQLANPFLGLPLEFGKCESCG 61
E I GI+FG+ + EI S++ + +P LG+ KC +CG
Sbjct: 3 EKNIKGIKFGILSPDEIRKMSVTAIITPDVYDEDGTPIEGSVMDPRLGVIEPGQKCPTCG 62
Query: 62 TSEPGKCEGHFGYIELPIPIYH 83
+ G C GHFG+IEL P+ H
Sbjct: 63 NTL-GNCPGHFGHIELVRPVIH 83
>sp|Q6BI69|RPC1_DEBHA DNA-directed RNA polymerase III subunit RPC1 OS=Debaryomyces
hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC
0083 / IGC 2968) GN=RPC1 PE=3 SV=2
Length = 1457
Score = 153 bits (387), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 173/674 (25%), Positives = 289/674 (42%), Gaps = 82/674 (12%)
Query: 143 YILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVE 202
YI YLP PP C+ P + + DL+I L +++ +I++ + + +
Sbjct: 255 YIWRYLPAPPVCIR-PSVMMDAQSNEDDLTIK-LTEIVWTSSLIKAGIEKGISINNLMEQ 312
Query: 203 SNDLQLAVGQYLEVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSG----F 258
+ LQL+V Y+ + S P L+ + F SG F
Sbjct: 313 WDYLQLSVAMYINSDSANPALLPSSGGGSKSSKPIRGFCQRLKGKQGRFRGNLSGKRVDF 372
Query: 259 SSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELV-------DNKLCLTY 311
S R+VI+ D +++E+ VP +A+ +T+ E+ +N LQ+L+ L
Sbjct: 373 SGRTVISPDPNLKIDEVAVPDRVAKVLTYPEKCTRYNRKKLQKLILSGPNVHPGANYLLK 432
Query: 312 SDGSSSYSLREGSKGHTF--LRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDD 369
+ S+ +LR G + L G VV R I DGD V NR P+ H+ S+ + +
Sbjct: 433 QNESAKRNLRFGDRVKLAKNLHIGDVVERHIEDGDIVLFNRQPSLHRLSILSHYAKIRPW 492
Query: 370 HTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLAT 429
T ++N +C P +ADFDGD +++ PQ+ A+AE + L V+ LL+ +G +
Sbjct: 493 RTFRLNECVCTPYNADFDGDEMNIHVPQTEEARAEAINLMGVKNNLLTPKSGEPIIAATQ 552
Query: 430 DALL-SLKVMFKKYFLDKA-FTQQLAMFALS----PLPRPALSKARCSARWTALQILQSV 483
D + S V K F D+A Q L M + + +P PA+ K WT Q+ +
Sbjct: 553 DFITGSYLVSHKDSFFDRASLVQLLCMMSDADIQFDIPPPAIFKP--VMLWTGKQVFSLL 610
Query: 484 LPP--------GFDSCGDRY------------------LIKKSEVLKGDFDRDTI-PSVI 516
+ P D+ Y +I+ S++L G D+ T+
Sbjct: 611 IKPNKKSNVVINLDAKNKTYTPPAKGFPNEMSPNDGFVIIRGSQILSGVMDKSTLGDGKK 670
Query: 517 NEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDF----SLSKAALWNIQKE 572
+ + +I + GP+E + + L L GFS+ + D L + +++
Sbjct: 671 HSVFYTILRDYGPDEAANAMNRMAKLCARYLGNRGFSIGINDVIPGSDLKQKKELMVEQA 730
Query: 573 IQALYSL--LYHR--MSTQ-----NELVDLQIENHIRHVKMLVAKFILKS--STLGYLID 621
L LY+R + TQ + ++ +I + V+ V + + S LI
Sbjct: 731 YLKCDELIDLYNRGNLETQPGCNEEQTLEAKIGGLLSKVREEVGEICINELDSANAPLIM 790
Query: 622 SK--SDSAVSKVVQQAGFLGLQLSDRGK----FYSKTLVEDIASHFERIYPMDLNYPTAK 675
+ S + V Q +G Q+ + F ++L HF + + P +K
Sbjct: 791 ATCGSKGSTLNVSQMVAVVGQQIISGNRVPDGFQDRSL-----PHFTK----NSKTPQSK 841
Query: 676 YGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTV 735
G ++ FF GL P E + HSIS RE +V ++ +E G + + LM L D+ YD TV
Sbjct: 842 -GFVRNSFFSGLTPPEFLFHSISGREGLVDTAVKTAETGYMSRRLMKSLDDLSAQYDHTV 900
Query: 736 RNVCSNSIIQFDYA 749
RN SN I+QF Y
Sbjct: 901 RN-SSNGIVQFTYG 913
Score = 38.1 bits (87), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 41/101 (40%), Gaps = 15/101 (14%)
Query: 14 IVGIRFGLATQKEICTAS-----------ISDCSISHASQLANPFLGLPLEFGKCESCGT 62
I GI FG + K+I S + I + +G+ +C +C
Sbjct: 13 IKGIEFGALSAKDIIAQSEVEVHTRDLYDLEKGRIPKDGGALDTKMGISSNANECATC-H 71
Query: 63 SEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAFQLQIKN 103
C GHFG+I+L +P++ H+ K T+ Q KN
Sbjct: 72 GNLASCHGHFGHIKLALPVF---HVGYFKATIQVLQCICKN 109
>sp|Q03585|RPOA1_THEAC DNA-directed RNA polymerase subunit A' OS=Thermoplasma acidophilum
(strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 /
AMRC-C165) GN=rpoA1 PE=3 SV=1
Length = 885
Score = 149 bits (375), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 195/880 (22%), Positives = 355/880 (40%), Gaps = 171/880 (19%)
Query: 13 QIVGIRFGLATQKEICTASISDCSISHASQLANPFLGLPLEFG-------------KCES 59
+I I+F L + EI +S + A + G P+E G +C +
Sbjct: 7 RISSIKFALLSPDEI--RKLSQVKVITADTYDDD--GYPIEHGLMDLHMGVIEPGLRCAT 62
Query: 60 CGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAF-----QLQIKNDGV-------- 106
CG + +C GHFG+IEL +P+ H + E+K+ + A ++++ +D +
Sbjct: 63 CG-GKVDECPGHFGHIELAMPVVHVGFVKEIKMFLDATCRSCGRIKLTDDEIRTYLPEIQ 121
Query: 107 -----------------------AQRLLSSCC---------------------------E 116
+QR++ C E
Sbjct: 122 KMDFETGDPEDIEILTKKYVDLASQRMVCPHCGAQQSKIILDKPTTFREEGTNVKITPKE 181
Query: 117 VKEMLKRIPEETRKKLAGKGYFPQDG----YILEYLPVPPNCLSVPDISDGVSTMSSDLS 172
++E L+RIP++ L G+ P+ +L LPVPP + P I+ S D
Sbjct: 182 IRERLERIPDD---DLIFFGFNPKTARPEWMVLTVLPVPPINVR-PSITLETGERSEDDL 237
Query: 173 IAMLKKVLKQVEIIRSSR-SGTPNFESQEVESNDLQLAVGQYLEVRGTA-KSSRDVDARF 230
L +++ + +R SR +G+P +++ + LQ V Y + + +R R
Sbjct: 238 THKLVDIIRISQRLRESRDNGSPQLIIEDL-WDLLQFHVTTYFDNQTPGIPPARHRSGR- 295
Query: 231 GVSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEER 290
+ K + R+ K FSSR+VI+ + Y VNE+GVP A+ +T
Sbjct: 296 -ALKTLVQRLKGKEGRFRSNLSGKRVSFSSRTVISPEPYLSVNEVGVPERAARELTVPVI 354
Query: 291 VNVHNINYLQELVDNKLCLTYSDG----SSSYSLR-----------EGSKGHTFLRPGQV 335
VN NI+ ++EL+ G +Y +R ++ + G
Sbjct: 355 VNQFNIDEMRELIKRGRNPRDQFGRYVTGVNYVIRPDGRRIKITDQNAAENADRIDIGWT 414
Query: 336 VHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFY 395
V R++M+GD V NR P+ H+ S+ +V + T + N +C P +ADFDGD ++L
Sbjct: 415 VERQLMEGDIVLFNRQPSLHRMSMMGHTVRILPGQTFRFNLAVCTPYNADFDGDEMNLHV 474
Query: 396 PQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKKYFLDKAFTQQLAMF 455
Q A+AE + V++Q++S G + D + +L ++ + +T + +
Sbjct: 475 IQKEEARAEARIIMKVQEQIMSPRFGGPIIGGIHDHVTALFLLTHN---NPRYTHEEMVH 531
Query: 456 ALSPLPRPALSKARC---SARWTALQILQSVLPPGF-------------------DSCGD 493
++ L L +AR + I ++LP G D D
Sbjct: 532 IMAYLEPDLLPEARIENGEKYYYGRDIFSTILPKGLNVRFRSKLCSGSSERCEFEDDPSD 591
Query: 494 RYL-IKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGF 552
Y+ I +++ G D + I+ IF + G +E F D + L + + GF
Sbjct: 592 TYVEIVDGKMIHGTIDEAAVSPFSGAIIDKIFRKFGSQEAARFIDRMTRLAVGFITYRGF 651
Query: 553 SVSLEDFSLSKAALWNIQKEIQALYSLLYHRMST--QNEL-----------VDLQIENHI 599
S + D+ + ++A+ I++ + + + T + EL ++++I +
Sbjct: 652 STGISDYDIPESAVARIEELVAQAEDRINKLIETFRRGELQPAPGRSVEDTLEMEILSEA 711
Query: 600 RHVKMLVAKFILKSSTLGY------LIDSKSDSAVSKVVQQAGFLGLQLSDRGK----FY 649
V+ K + SS LG + S + + + + + AG +G Q G+ +Y
Sbjct: 712 GVVRDESGK--IASSYLGLKVPSVIMARSGARATMLNISEVAGIVGQQSVRGGRLNRGYY 769
Query: 650 SKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRG 709
++TL HF+R + G ++ + GL P E HSI RE +V ++
Sbjct: 770 NRTL-----PHFKR-----GDIGADARGFVRSSYMTGLSPTEYFFHSIGGREGLVDTAVR 819
Query: 710 LSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
S G + + L+ D+ + V++ S+IQ Y
Sbjct: 820 TSRSGYMQRRLINAFEDLKVDDSREVKDTV-GSLIQIRYG 858
>sp|Q8SSC4|RPB1_ENCCU DNA-directed RNA polymerase II subunit RPB1 OS=Encephalitozoon
cuniculi (strain GB-M1) GN=RPB1 PE=3 SV=1
Length = 1599
Score = 143 bits (360), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 168/674 (24%), Positives = 288/674 (42%), Gaps = 107/674 (15%)
Query: 144 ILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVES 203
IL L VPP + + +G DL+ + + + + + G P ++ E
Sbjct: 206 ILTVLLVPPPAVRPSIVMEGSLRGEDDLTHKLADIIKSNGYLKKYEQEGAPGHIVRDYEQ 265
Query: 204 NDLQLAVGQYLE--VRGTAKSSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGSG 257
LQ V +++ + G ++ + S P + A L+ ++R + K
Sbjct: 266 L-LQFHVATFIDNDIGGLPQALQK-------SGRPLKSLSARLKGKEGRIRGNLMGKRVD 317
Query: 258 FSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDNKLCLTYSDGSSS 317
FS+R+VIT D + E+GVP EIA+ TF E+V NI+ L++LV ++
Sbjct: 318 FSARTVITPDPNISLEEVGVPLEIAKIHTFPEKVTSFNIDRLEKLVRAG---PNEHPGAN 374
Query: 318 YSLR-EGSK-------GHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDD 369
Y LR +G K L G VV R + GD V NR P+ HK S+ A V +
Sbjct: 375 YVLRSDGQKIDLNFNRSDIRLEEGYVVERHMQSGDVVLFNRQPSLHKMSMMAHYARVMGN 434
Query: 370 HTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLAT 429
T ++N + P +ADFDGD ++L PQS +KAE+ EL V +Q++S + + +
Sbjct: 435 KTFRLNLSVTSPYNADFDGDEMNLHMPQSYTSKAELEELALVSRQIISPQSNKPVMGIVQ 494
Query: 430 DALLSLKVM-FKKYFLDKAFTQQLAMFA--------------------------LSPLPR 462
D L L++ + FL++ L ++A + L +
Sbjct: 495 DTLTGLRLFTLRDTFLNEREVMSL-LYAVNLEFCDIPLGDAVQTGLRKGKDYDIMKILRK 553
Query: 463 PALSKARCSARWTALQILQSVLPP----GFDS---------CGD-RYLIKKSEVLKGDFD 508
PA++K WT Q+L VLP G S GD R +I+ + G D
Sbjct: 554 PAIAKP--MRLWTGKQVLSFVLPNLNYIGLSSEHDDDDKENIGDTRVIIQDGYIHSGVID 611
Query: 509 RDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADG---FSVSLED------- 558
+ + +V IF + GP+ +FFD +Q ++ N F G FS+ + D
Sbjct: 612 KKAAGATQGGLVHIIFNDFGPKRAAQFFDGVQRMI--NAFMTGIHTFSMGIGDTIADPKT 669
Query: 559 FSLSKAALWNIQKEIQALYSLLYHRMSTQNELVDL-------QIENHI-------RHVKM 604
+ ++A+ ++E+ AL + QN L L E+H+ R V
Sbjct: 670 VKVVESAIRKAKEEVSALIE-----NARQNRLERLPGMTMKESFESHLNLVLNRARDVSG 724
Query: 605 LVAKFIL-KSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFER 663
A+ L +++ + ++ + S + + Q +G Q + GK HF +
Sbjct: 725 TSAQRSLSENNNMKTMVLAGSKGSFINISQVTACVG-QQNVEGKRIPFGFSHRTLPHFVK 783
Query: 664 IYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAV 723
+Y G ++ + GLDP E H++ RE ++ ++ +E G + + L+
Sbjct: 784 D-----DYTGKSRGFVENSYLTGLDPEEFFFHAMGGREGLIDTAIKTAETGYIQRRLVKA 838
Query: 724 LRDVVICYDGTVRN 737
L D ++ D +VR+
Sbjct: 839 LEDAIVRQDESVRS 852
Score = 49.3 bits (116), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 53/111 (47%), Gaps = 14/111 (12%)
Query: 13 QIVGIRFGLATQKEICTASIS--------DCSISHASQLANPFLGLPLEFGKCESCGTSE 64
QI I+FGL + E+ S++ + + L + +G C+SCG +
Sbjct: 9 QIKSIQFGLFSPDEVRNGSVALIVHPEVMEGGVPKTGGLIDLRMGTTDRMYLCQSCG-GD 67
Query: 65 PGKCEGHFGYIELPIPIYHPSHISELK-----LTMYAFQLQIKNDGVAQRL 110
C GHFG+IEL P++H +IS++K + Y +++I G+ L
Sbjct: 68 NFSCPGHFGHIELTKPMFHVGYISKIKKVLECVCFYCSKIKIPRKGIKSTL 118
>sp|P31813|RPOA1_THECE DNA-directed RNA polymerase subunit A' OS=Thermococcus celer
GN=rpoA1 PE=3 SV=1
Length = 905
Score = 140 bits (352), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 179/763 (23%), Positives = 310/763 (40%), Gaps = 122/763 (15%)
Query: 71 HFGYIELPIPIYHPSHISELKLTMYAFQLQIKNDGVAQRLLSSCCEVKEMLKRIPEETRK 130
H G + PI P T+Y ++L+ +G + EV++ L++IP+ +
Sbjct: 149 HCGSPQFPIKFERP--------TVY-WELRKDEEGNEYKHRMMPSEVRDRLEKIPD---R 196
Query: 131 KLAGKGYFPQDG----YILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEII 186
L G + +L LPVPP + P I+ + D L +++ +
Sbjct: 197 DLPLIGLDAEKARPEWMVLTVLPVPPVTMR-PSITLESGIRAEDDLTHKLVDIIRINNRL 255
Query: 187 RSS-RSGTPNFESQEVESNDLQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAW 243
+S+ +G P +++ + LQ V Y+ E G + S P T
Sbjct: 256 KSNIEAGAPQLIIEDL-WDLLQYHVTTYINNETSGIPPAKHK-------SGRPLKTLSQR 307
Query: 244 LEKMRTLFIRKGSG----FSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYL 299
L+ F SG FS+R+VI+ D +NE+GVP IA +T E+V N L
Sbjct: 308 LKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPMAIAMELTVPEKVTEFNFEKL 367
Query: 300 QELVDNKLCLTYSDGSSSYSLREGSKGHTF----------LRPGQVVHRRIMDGDTVFIN 349
+++V N G++ EG + L G V R ++DGD V N
Sbjct: 368 RKMVLN--GPEKYPGANYVIDPEGRRIRLMENNLETVAEKLDIGWTVERHLLDGDVVLFN 425
Query: 350 RPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELF 409
R P+ H+ S+ A V V T ++N +C P +ADFDGD ++L PQ+ A+AE L
Sbjct: 426 RQPSLHRMSIMAHRVRVMPYRTFRLNLSVCPPYNADFDGDEMNLHVPQTEEAQAEAKILM 485
Query: 410 SVEKQLLSSHNGNLNLQLATDALLSLKVMFKK-YFLDKAFTQQLAMFA---LSPLPRPAL 465
V+ ++S G + D + ++ ++ + ++ +Q+ MFA + LP P
Sbjct: 486 EVQNHIISPRYGGPLIAGIQDHISGGYLLTREGAYFERTEVEQMLMFAGVDVDRLPEPDK 545
Query: 466 SKARCSARWTALQILQSVLP--------------PG----FDSCGDRYLIKKSE------ 501
+ W+ I +LP PG + + LI E
Sbjct: 546 VENGVEL-WSGKTIFSLLLPKDLTIWYRNKLCDEPGRCEALEKLIEEKLIPDEEEVRALA 604
Query: 502 -----------VLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFAD 550
+L G D+ +++ I E G E +F D + L + +
Sbjct: 605 YDGFTYILNGKLLSGAIDKTAYGREDGKLLDIIVREYGVERARQFLDQVTKLAIWVITHK 664
Query: 551 GFSVSLEDFSLSKAALWNIQKEIQALYSLLYHRMSTQNELVDLQIENHIRHVKMLVAKFI 610
GF+ +++D L AL I++ I+ + N L++ + + +
Sbjct: 665 GFTTAIDDEDLPTEALDRIREIIREAEERV-------NRLIEAYRNGELEPIPGKTLEET 717
Query: 611 LKSSTLGYLIDSKSDSA------------------------VSKVVQQAGFLGLQLSDRG 646
L+S + L +++ ++ + + Q A LG Q S RG
Sbjct: 718 LESKIMAALAEARDNAGKVAERYLGMSNHAVIMAKTGARGKILNITQMAAMLG-QQSIRG 776
Query: 647 KFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRS 706
K + E + +HF+ P DL G + + GL P E H++ RE +V +
Sbjct: 777 KRLYRGYRERVLTHFK---PGDLG--ARARGFVINSYKSGLTPQEYFFHAMGGREGLVDT 831
Query: 707 SRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+ ++ G + + L+ L+D+ + YDGTVR+ + I+QF Y
Sbjct: 832 AVRTAQSGYMQRRLINALQDLKVEYDGTVRD-PTGIIVQFRYG 873
Score = 42.7 bits (99), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 43/85 (50%), Gaps = 19/85 (22%)
Query: 13 QIVG-IRFGLATQKEICTASISDCSISHASQLANPFLGLPLEFG-------------KCE 58
+++G I FG+ + +EI S ++ ++ G P+E G +CE
Sbjct: 6 KVIGSIDFGILSPQEIRKMSAAEITVPDTYDED----GYPIEGGLMDKRLGVIDPGLRCE 61
Query: 59 SCGTSEPGKCEGHFGYIELPIPIYH 83
+CG + G+C GHFG++EL P+ H
Sbjct: 62 TCG-ARAGECPGHFGHVELARPVIH 85
>sp|Q6GZW7|RPB1_FRG3G Putative DNA-directed RNA polymerase 008R OS=Frog virus 3 (isolate
Goorha) GN=FV3-008R PE=3 SV=1
Length = 1293
Score = 132 bits (333), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 194/878 (22%), Positives = 342/878 (38%), Gaps = 161/878 (18%)
Query: 13 QIVGIRFGLATQKEICTASISD----CSISHASQLANPFLG---LPLEFGKCESCGTSEP 65
Q+ G+ FG+ + +EI S+ + C + + +P +G + + C +C +
Sbjct: 10 QVEGLLFGVCSPEEILATSVVEVTKSCLKAETGSVYDPRMGSAGVDDDDALCPTCENTG- 68
Query: 66 GKCEGHFGYIEL--PIPIYHPSHISELKLTMYAF-------------QLQIKNDGVAQRL 110
+C GHFG+IEL P+ +++ ++ LK + N AQR
Sbjct: 69 RECPGHFGHIELAKPVVLFYKETVAWLKRCCHVCGTVGNEPRPFFFAPYSACNACGAQRP 128
Query: 111 LSSC------CEVKEMLKRI---PEETRKKLA------------------GKG---YFPQ 140
L C ++ ++R PE +L GKG F
Sbjct: 129 LVRLVDAHDPCAIRVTVRRKDGEPETMPPELILATLDRVRDSDVDRVLGRGKGSHVRFHP 188
Query: 141 DGYILEYLPVPPNCLSVPDI---SDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFE 197
++ +PV P C P+ DG M D + +++K + I++ P E
Sbjct: 189 RRLVMTRMPVLPPCCR-PNARQWPDG--AMQDDNLSVFVSQIVKVNQRIKALEPDNPAVE 245
Query: 198 SQEVESNDLQLAVGQYLE-VRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGS 256
+ L+L +++ +G + + G+ + K L + + R+
Sbjct: 246 GLVAQ---LRLKTLCFVDNTKGKVMHATNRKPMAGIKE--RIGKKGGLLRQNIMGKRRNQ 300
Query: 257 GFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELV-DNKLC------- 308
+ RSV+ D V+E+GVP IA +T V N++ L+ ++ D ++
Sbjct: 301 --TGRSVVGPDGTLEVDEVGVPEAIADNLTVPVMVTPFNVSSLEAMMRDGRVSSVEMRDG 358
Query: 309 ---------------LTYSDGSS--------------SYSLREGSKGHTFLRP------- 332
+ +DGS S LR G T RP
Sbjct: 359 TVHRPSEWRPSHGDHMETADGSPLGRVTRPSYDARDPSVVLRSWKTGETVTRPPPFSWPK 418
Query: 333 ---GQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGD 389
G V R ++DGD V +NR PT H++S+ + V T+++N + + DFDGD
Sbjct: 419 LEPGMTVTRCLVDGDPVALNRQPTLHRNSMLGMRVKRLPGKTIRLNLSVTSGFNMDFDGD 478
Query: 390 CIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKKYFLDKAFT 449
+L+ PQ A++E + L + + ++S+ + + L D +L +M
Sbjct: 479 EGNLYLPQGPQARSETMLLMNPKSVIMSARGPHAEVSLVQDGVLGCHLMSLN-------- 530
Query: 450 QQLAMFALSPLPRPALSKARCSAR------W---------TALQILQSVLPPGFD-SCGD 493
S +P P A C W T +L SVLP CG
Sbjct: 531 --------SEIPCPPEELATCLMEVHGCEGWDVRDVEKGATPRDLLSSVLPSTLTVDCGG 582
Query: 494 RYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFS 553
I+ +++ G + S + +IV ++ E G + + D LQ L L FS
Sbjct: 583 GCRIESGKIVSGHLTK----SAVKKIVRAVCLENGGDAAGKLVDKLQFLTNAWLSHRPFS 638
Query: 554 VSLEDFSLSKAALWNIQKEIQALYS-LLYHRMSTQNELVDLQIENHIRHVKMLVAKFILK 612
V D L++ ++ A+ S +L + + V + + + + +
Sbjct: 639 VGYSD-CLTERPEETVRMVADAVCSKILEAEAADDEDGVSVALCGARDRGQAVTCAALTP 697
Query: 613 SSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIAS--HFERIYPMDLN 670
+ + + ++S + + Q AG LG Q G K + S H+ R++ DL
Sbjct: 698 DNRMAVMSRAQSKGDMFNLTQIAGLLGQQYVG-GSRPGKEIDGGRRSLPHYPRVW--DLE 754
Query: 671 YPTAKY---GLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDV 727
T KY G ++ F GL+P E H+ S RE ++ +S+ G + ++ + D+
Sbjct: 755 QTTLKYESRGFVRSSFLKGLNPREVFFHAKSGREGMISTSQMTGVTGYAERKMVKLNEDL 814
Query: 728 VICYDGTVRNVCSNSIIQFDYAVNARKSHSLFPAGEPV 765
V YDGTVR+ N ++QF Y + + G PV
Sbjct: 815 VSAYDGTVRDAMGN-VVQFVYGGHGMDPQRCWSDGCPV 851
>sp|Q196X0|RPB1_IIV3 Probable DNA-directed RNA polymerase II subunit RPB1 homolog
OS=Invertebrate iridescent virus 3 GN=IIV3-090L PE=3
SV=1
Length = 1377
Score = 129 bits (324), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 205/950 (21%), Positives = 359/950 (37%), Gaps = 218/950 (22%)
Query: 14 IVGIRFGLATQKEICTAS---ISDCSISHASQ-LANPFLGLPLEFGKCESCGTSEPGKCE 69
I I FG+ + +EI S ++ +S + + + F+G C++C + +C
Sbjct: 10 IAKISFGVLSPEEILKMSCCKVTSVKVSDKGENIYSKFMGTIENGENCKTCD-RDVWECP 68
Query: 70 GHFGYIELPIPIYHPSHISE-------LKLTMYAFQL---QIKNDGVAQRL--------- 110
GHFG+ L +P+ +P I++ + Y F + +K + + +R
Sbjct: 69 GHFGHFHLEVPVVNPIFINDACNILRCICFNCYKFIVSVDHLKLENLVRRFQDILLYVKN 128
Query: 111 LSSC--CE--------VKEML---KRIPEETRKKLAGK-----------GYFPQ----DG 142
+ C CE V E++ + P +TRK L G+ P
Sbjct: 129 IKHCYNCESEKLPLSVVNEIIVDEDKNPLDTRKLLRVLENVDDETVRFLGFNPTMSHPKN 188
Query: 143 YILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKV----------LKQVEIIRS---- 188
+I P+ P C P + + DL+ +++ + LK+ E+ R
Sbjct: 189 FIFTVFPILPPCCR-PYVMSEENCCDDDLTYQLIEIIKNNQYLGDEFLKKAELKRKKSLL 247
Query: 189 SRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFGVSQDPNSTTKAWLE--- 245
S P + ++ +L + Y ++ A+ + P + K +
Sbjct: 248 QSSLPPTTDIKQKHLTNLWFRISTYF-------NNSKKKAKHAATAKPITGLKERIAGKE 300
Query: 246 -KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELV- 303
++R + K S R+V+ D R+NE+ VP E+A+ +T V N + L +LV
Sbjct: 301 GQIRHNLLGKRCDQSGRTVVGPDPTLRLNELCVPKEMAEILTIPVHVTPFNRDALTQLVN 360
Query: 304 ----------------------------------------------DNKLCLTYSD---- 313
D K L D
Sbjct: 361 SNKANFLIKAANPKRSINLKNVINYRGTLLYFGDIIERDGTRITITDTKFVLQPGDTIIR 420
Query: 314 -GSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTV 372
G + +R + L G V+ R++MDGD V +NR PT HK S+ A V + T+
Sbjct: 421 NGKALKEIRYPERKQIELEVGDVIKRQLMDGDYVLLNRQPTLHKASMMAFKVVIKPVKTL 480
Query: 373 KINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDAL 432
KIN I P + DFDGD +++ PQS A AE+ EL K ++S NG N+ + D+L
Sbjct: 481 KINLAITKPFNCDFDGDEMNIHVPQSYEAIAELKELSCASKCIMSVQNGKPNVAIVQDSL 540
Query: 433 LSL----------KVMFKKYFLDKAFT-----------QQLAMFALSPLPRPA------- 464
+ L + + + F + T Q+ S P
Sbjct: 541 IGLWFLSRDQWFCQTLKRSQFFNLLLTIDKAQNFLTRMDQICHVLKSKFPSKGNWEGSGL 600
Query: 465 -----LSKARCSARWTALQILQSVLPPGFDSC-GDRYLIKKSEVLKGDFDRDTIPSVINE 518
+S + +L + P FD C GD I+ L+G +++ V+N
Sbjct: 601 DGDGRVSPKVGRMVFNGRGLLSFLFPYDFDYCGGDGLSIESGVFLEGTLEKN----VVNT 656
Query: 519 IVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQKEIQALYS 578
++ I+ + G V +F D++Q L L GF+++ D +++ I EI +L
Sbjct: 657 LIKYIYKDYGETVVADFVDNIQFLTNHYLVDRGFTINASDCLKNES----IAPEIVSLTR 712
Query: 579 LLYHRMSTQNELV---------DLQIENHIRHVKMLVAKFILKS-STLGYLIDSKSDSAV 628
+ + +T ++ L I N M ++K L S + +S S ++
Sbjct: 713 ATFSKATTVRDVTINPFIQEQKTLAILNSCTDQCMKLSKECLSSDNNFCVTTESGSKGSI 772
Query: 629 SKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLD 688
+ Q LG Q D + Y ++P D + G I F GL
Sbjct: 773 FNICQITSLLGQQTIDGKRVYG------------LLHPQDNEF--QDRGFIANSFVEGLS 818
Query: 689 PYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDY 748
P E + H+++ R+ ++ ++ S G + + + D+ I D TVR+
Sbjct: 819 PREFLHHAMAGRKGVIDTALLTSVSGYGQRQGVKLNEDIKIYPDYTVRD----------- 867
Query: 749 AVNARKSHSLFPAGEPVGVLAATAMSNPAYKAVLDSSPSSNNSWELMKEI 798
VN R +F GE A +P+ V+D + N + L+ +
Sbjct: 868 -VNGRLYQYIF--GE--------AGYDPSQTIVVDGHQTICNVYRLVNRL 906
Score = 35.8 bits (81), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 48/100 (48%), Gaps = 10/100 (10%)
Query: 981 RLSASVTMVAKGVLKEHLILLANSMTCAGDLVGFNSGGYKALSR-SLNVQVPFTEATLFM 1039
R+ V ++ GV H+ L A+ +T G + ++L+R ++ + PF++
Sbjct: 1238 RIKELVEIIGTGVDLSHIKLRADRLTFTGTI--------QSLTRYTMRGEKPFSKVGFEE 1289
Query: 1040 PRKCFEKAAEKRHTDNLSSVVAACSWGKHVAVGTGSRFDL 1079
+ F K A D+L+ V A+ GK VGT S FD+
Sbjct: 1290 IMENFYKTARDAEVDDLTGVSASIMCGKRAKVGT-SMFDI 1328
>sp|O27125|RPOA1_METTH DNA-directed RNA polymerase subunit A' OS=Methanothermobacter
thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM
10044 / NBRC 100330 / Delta H) GN=rpoA1 PE=3 SV=1
Length = 870
Score = 126 bits (317), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 161/680 (23%), Positives = 283/680 (41%), Gaps = 87/680 (12%)
Query: 116 EVKEMLKRIPEETRKKLAGKGYFPQDG----YILEYLPVPPNCLSVPDISDGVSTMSSDL 171
EV+E L+RI ++ L G P+ +L LPVPP + P I+ S D
Sbjct: 175 EVRERLERISDDDALIL---GVNPEVARPEWMVLTVLPVPPVTVR-PSITLETGERSEDD 230
Query: 172 SIAMLKKVLKQVEIIRSS-RSGTPNFESQEVESNDLQLAVGQYLEVRGT-AKSSRDVDAR 229
L +L+ + ++ + +G P +++ LQ V Y + + +R R
Sbjct: 231 LTHKLVDILRINQRLKENMEAGAPQLIVEDLWEL-LQYHVTTYFDNEASGVPPARHRSGR 289
Query: 230 FGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRI 285
P T L+ + R+ K FS+R+VI+ D +NE+GVP IA+ +
Sbjct: 290 ------PLKTLAQRLKGKEGRFRSNLSGKRVNFSARTVISPDPNISINEVGVPEIIAREV 343
Query: 286 TFEERVNVHNINYLQELVDNKLCLTYSDGSSSYSLR-EGSKGHTF----------LRPGQ 334
T V NI+ ++E ++N + ++Y +R +G K + L+PG
Sbjct: 344 TVPVYVTEWNIDRMREYIENGPDV---HPGANYVIRPDGRKIRIYNETKEVVLENLKPGY 400
Query: 335 VVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLF 394
+V R + DGD V NR P+ H+ S+ A V V T ++N +C P +ADFDGD +++
Sbjct: 401 IVERHLKDGDIVLFNRQPSLHRMSMMAHQVRVLPYKTFRLNLCVCPPYNADFDGDEMNMH 460
Query: 395 YPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKK--YFLDKAFTQQL 452
Q+ ++AE L V++ +LS G + D + ++ +K F ++ Q L
Sbjct: 461 VFQTEESRAEAKTLMRVQEHILSPRFGGPIIGGIHDHISGAYLLTRKSAVFSEEKVFQIL 520
Query: 453 AMFALSPLPRPALSKARCSARWTALQILQSVLPPGFDSC------------------GDR 494
L PLP S+ R WT +I VLP + D
Sbjct: 521 KKAGL-PLPD---SRGR---DWTGKEIFSMVLPDDLNMVYRAEVCRKCEECLEMECENDA 573
Query: 495 Y-LIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFS 553
Y +I+ +++ G D + +I+ I E G + EF DS L + + GF+
Sbjct: 574 YVVIENGQLISGVIDEKAYGAFAGKILDHIVKEYGTDAAREFLDSATKLAIAGIMHAGFT 633
Query: 554 VSLEDFSLSKAALWNIQKEIQ----------------ALYSLLYHRMSTQNELVDLQIEN 597
S D + + A I+ ++ L L + E+ +Q+
Sbjct: 634 TSTNDEEIPEEARERIEAHLRNAEARVDQLIEAYENGELEPLPGRSLEETLEMKIMQVLG 693
Query: 598 HIRHVKMLVAK--FILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVE 655
R +A+ F + + + + + ++ + Q +G Q S RG S+
Sbjct: 694 EARDKSGEIAESYFDMDENHAVIMALTGARGSMLNLTQITACVG-QQSVRGGRISRGYDN 752
Query: 656 DIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGT 715
HF++ G + + GLDP E H++ RE +V ++ ++ G
Sbjct: 753 RTLPHFKK-----GELGAKSRGFVHSSYKEGLDPIEFFFHAMGGREGLVDTAIRTAQSGY 807
Query: 716 LFKNLMAVLRDVVICYDGTV 735
+ + L+ L+D+ + +G V
Sbjct: 808 MQRRLVNALQDLTVDENGRV 827
Score = 39.7 bits (91), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 10/80 (12%)
Query: 13 QIVGIRFGLATQKEICTASISDCSISHA---------SQLANPFLGLPLEFGKCESCGTS 63
+I I FGL + ++I S++ + L +P LG+ +C +CG +
Sbjct: 7 KISQINFGLMSPEDIRKMSVTQIVTPDTYDEDGYPIENGLMDPRLGVIDPSLRCRTCG-A 65
Query: 64 EPGKCEGHFGYIELPIPIYH 83
+ G+C GHFG I L P+ H
Sbjct: 66 KGGECPGHFGSINLARPVIH 85
>sp|Q86AQ5|RPC1_DICDI DNA-directed RNA polymerase III subunit rpc1 OS=Dictyostelium
discoideum GN=polr3a PE=3 SV=1
Length = 1450
Score = 117 bits (293), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 114/372 (30%), Positives = 172/372 (46%), Gaps = 41/372 (11%)
Query: 144 ILEYLPVPPNCL--SVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEV 201
IL Y+ VPP + SVP + G T DL++ L ++L E IRS N + E+
Sbjct: 245 ILTYMLVPPVSIRPSVP-MDGGSGTNEDDLTMK-LSEILHINEHIRS------NVDRAEM 296
Query: 202 ES-----NDLQLAVGQYL--EVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRK 254
+ + LQ + Y+ +V G + A G+SQ K + R K
Sbjct: 297 SAIMEDWDYLQASCAIYINSDVPGLPLQMKPTKAVRGLSQ----RLKGKTGRFRGNLSGK 352
Query: 255 GSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN-------KL 307
FS R+VI+ D ++E+ VP IA +T+ ERV +NI LQ+ V N
Sbjct: 353 RVDFSGRTVISPDPNLNIDEVAVPQLIALTMTYPERVTDYNIERLQKYVINGPDRHPGAN 412
Query: 308 CLTYSDGSSSYSLREGS--KGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVY 365
+ Y+DG + L+ G+ K L+ G +V R I+DGD + NR P+ HK S+ +
Sbjct: 413 YIIYADGVKKW-LKFGNREKFAAELKIGDIVERHIIDGDIMLFNRQPSLHKLSIMSHKAR 471
Query: 366 VHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNL 425
V T++ N +C P +ADFDGD +++ PQ+ A+AE L V L++ NG L
Sbjct: 472 VMPWRTLRFNECVCTPYNADFDGDEMNIHLPQTEEARAEATILMGVTNNLITPRNGE-PL 530
Query: 426 QLATDALLSLKVMFKK---YFLDKAFTQQLAMFALS----PLPRPALSKARCSARWTALQ 478
AT L+ + + ++ F FA + LP PA+ K WT Q
Sbjct: 531 VAATQDFLTASYLISRRDAFYERYRFALMCTHFADANEHIDLPPPAILKP--VELWTGKQ 588
Query: 479 ILQSVLPPGFDS 490
I + +L P S
Sbjct: 589 IFEVLLRPSVKS 600
>sp|P14248|RPB1_PLAFD DNA-directed RNA polymerase II subunit RPB1 OS=Plasmodium
falciparum (isolate CDC / Honduras) GN=RPII PE=3 SV=1
Length = 2452
Score = 114 bits (286), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 107/397 (26%), Positives = 177/397 (44%), Gaps = 43/397 (10%)
Query: 113 SCCEVKEMLKRIPEETRKKLAGKGYFPQD-----GYILEYLPVPPNCLSVPDISDGVSTM 167
S E E+LK+I +E L F D IL +P+PP C + P + G
Sbjct: 237 SAEEALEILKKIRKEEMSILG----FNSDRCVPASLILTCIPIPPPC-ARPYVQYGNQRS 291
Query: 168 SSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLE--VRG----TAK 221
DL++ +L V +++ R + G + Q++ S LQ + + + G T +
Sbjct: 292 EDDLTLKLLDIVKTNIQLKRQTDRGAKSHVLQDLCS-LLQFHITTLFDNDIPGMPIATTR 350
Query: 222 SSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEI 281
S + + A + K ++R + K FS+R+VITGD ++ IGVP +
Sbjct: 351 SKKPIKAI-------RTRLKGKEGRLRGNLMGKRVDFSARTVITGDPNLNIDYIGVPKSV 403
Query: 282 AQRITFEERVNVHNINYLQELVDNK------LCLTYSDGSSSYSLREGSKG-HTFLRPGQ 334
A +TF E V N + L++LV+ D + Y LR + L G
Sbjct: 404 AMTLTFCETVTPLNYDNLKKLVERGPYEWPGAKYIIRDNGTKYDLRHVRRNSEKELEYGY 463
Query: 335 VVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLF 394
V R + D D + NR P+ HK S+ + T ++N + P +ADFDGD ++L
Sbjct: 464 KVERHMTDEDYILFNRQPSLHKMSIMGHKAKILPYSTFRLNLSVTSPYNADFDGDEMNLH 523
Query: 395 YPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKKYFLDKAFTQQLAM 454
QS ++E+ L V++Q++S + + D+LL+++ ++ D T++ M
Sbjct: 524 LAQSHETRSEIKHLMIVQRQIVSPQGNKPVMGIVQDSLLAIRKFTRR---DNFLTKEEVM 580
Query: 455 FAL-------SPLPRPALSKARCSARWTALQILQSVL 484
L +P PA+ K R A WT QI +L
Sbjct: 581 SLLIWIPYWNHVIPTPAIIKPR--ALWTGKQIFSMLL 615
Score = 57.4 bits (137), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 64/273 (23%), Positives = 117/273 (42%), Gaps = 24/273 (8%)
Query: 494 RYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFS 553
+ +IK +E+L G + T+ S ++ ++ E GP++ +F +LQ + L GF+
Sbjct: 764 KVIIKNNELLSGIICKRTVGSSSGSLIHVLWHEMGPDKTKDFLSALQKVTNNWLEYVGFT 823
Query: 554 VSLEDFSLSKAALWNIQK-------EIQALYS------LLYHRMSTQNELVDLQIENHIR 600
VS D S L +++ E+ L L + E + ++ N +
Sbjct: 824 VSCSDIIASNKVLGKVREILDKSKSEVSKLVEKAQKGELECQPGKSLYESFETRVNNELN 883
Query: 601 HVKMLVAKFILKS----STLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVED 656
+ + K +S + + ++ S S ++ + Q +G Q + GK
Sbjct: 884 CAREMAGKVASESLDERNNIFSMVASGSKGSIINISQIISCVGQQ-NVEGKRIPFGFNHR 942
Query: 657 IASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTL 716
HF + +Y G + + GL P E H++ RE I+ ++ SE G +
Sbjct: 943 SLPHF-----IKFDYGPESRGFVSNSYLSGLTPQEVFFHAMGGREGIIDTACKTSETGYI 997
Query: 717 FKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+ L+ + DV++ YD TVRN + IIQF Y
Sbjct: 998 QRRLIKAMEDVMVQYDRTVRNSYGD-IIQFLYG 1029
>sp|P09846|RPOA1_METTW DNA-directed RNA polymerase subunit A' OS=Methanothermobacter
thermoautotrophicus (strain Winter) GN=rpoA1 PE=3 SV=2
Length = 865
Score = 112 bits (280), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 127/503 (25%), Positives = 213/503 (42%), Gaps = 68/503 (13%)
Query: 116 EVKEMLKRIPEETRKKLAGKGYFPQDG----YILEYLPVPPNCLSVPDISDGVSTMSSDL 171
EV+E L+RI + L G P+ +L LPVPP + P I+ S D
Sbjct: 175 EVRERLERITDNDSLLL---GVNPEVARPEWMVLTVLPVPPVTVR-PSITLETGERSEDD 230
Query: 172 SIAMLKKVLKQVEIIRSS-RSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARF 230
L +L+ + ++ + +G P +++ LQ V Y + + V
Sbjct: 231 LTHKLVDILRINQRLKENMEAGAPQLIVEDL-WELLQYHVTTYFDNEASG-----VPPAR 284
Query: 231 GVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRIT 286
S P T L+ + R+ K FS+R+V++ D VNE+GVP IA+ +T
Sbjct: 285 HRSGRPLKTLAQRLKGKEGRFRSNLSGKRVNFSARTVVSPDPNVSVNEVGVPELIAKEVT 344
Query: 287 FEERVNVHNINYLQELVDNKLCLTYSDGSSSYSLR-EGSKGHTF----------LRPGQV 335
V NI+ ++E ++N + ++Y +R +G K + L+PG +
Sbjct: 345 VPVYVTEWNIDRMKEHIENGPDV---HPGANYVIRPDGRKIRAYNETKDVVLENLKPGYI 401
Query: 336 VHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFY 395
V R + DGD V NR P+ H+ S+ A V V T ++N +C P +ADFDGD +++
Sbjct: 402 VERHLKDGDIVLFNRQPSLHRMSMMAHEVRVLPYKTFRLNLCVCPPYNADFDGDEMNMHV 461
Query: 396 PQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKKYFLDKAFTQQLAMF 455
Q+ ++AE L V+ +LS +L+ ++ + +Q +F
Sbjct: 462 FQTEESRAEAKTLMRVQDHILSPRFRDLS-----------SGVYTTISQEHTSSQGKRLF 510
Query: 456 AL-SPLPRPALSKA----RCSARWTALQILQSVLPPGF------------DSC------G 492
++ S P P +A R WT +I VLP D C
Sbjct: 511 SVRSRPPDPQEGRAPPPDREGREWTVKEIFSMVLPDDLNMVYLAEICRKCDECLEMDWEN 570
Query: 493 DRY-LIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADG 551
D Y +I+ +++ G D + +I+ I E G + EF DS L + + G
Sbjct: 571 DAYVVIENGQLITGVIDEKAYGAFAGKILDQIVKEYGSDAAKEFLDSATKLAIAGIMHAG 630
Query: 552 FSVSLEDFSLSKAALWNIQKEIQ 574
F+ S D + + A I+ ++
Sbjct: 631 FTTSTNDEEIPEEAKERIEAHLR 653
Score = 42.4 bits (98), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 10/80 (12%)
Query: 13 QIVGIRFGLATQKEICTASISDCSISHA---------SQLANPFLGLPLEFGKCESCGTS 63
+I I FGL + ++I S++ ++L +P LG+ +C SCG +
Sbjct: 7 KISQINFGLMSPEDIRKMSVAQIVTPDTYDEDGYPIENELMDPRLGVIGSSLRCRSCG-A 65
Query: 64 EPGKCEGHFGYIELPIPIYH 83
+ G+C GHFG I L P+ H
Sbjct: 66 KGGECPGHFGSINLARPVIH 85
>sp|P08968|RPC1_TRYBB DNA-directed RNA polymerase III subunit RPC1 OS=Trypanosoma brucei
brucei PE=3 SV=1
Length = 1530
Score = 109 bits (272), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 76/246 (30%), Positives = 121/246 (49%), Gaps = 20/246 (8%)
Query: 258 FSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDNKLCLTYSDGSSS 317
+S RSVI+ D V+E+ VP +A+ +T+ +RV N ++ LV N + + ++
Sbjct: 366 YSGRSVISPDPNLDVDELAVPLHVARVLTYPQRVFKANHELMRRLVRNGPHV-HPGATTV 424
Query: 318 YSLREGSKG--------HTF---LRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYV 366
Y +EGSK H L G +V R +M+GD V NR P+ H+ S+ A V
Sbjct: 425 YLAQEGSKKSLKNERDRHRLAARLAVGDIVERHVMNGDLVLFNRQPSLHRVSMMAHRARV 484
Query: 367 HDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQ 426
T + N C P +ADFDGD +++ + Q+ A+AE L+L S + ++S+ NG +
Sbjct: 485 LPFRTFRFNECCCAPYNADFDGDEMNVHFVQTEKARAEALQLMSTARNIISAKNGEPIIA 544
Query: 427 LATDAL-LSLKVMFKKYFLDKAFTQQLAMFALSP-----LPRPALSKARCSARWTALQIL 480
D L + V + F D+ Q+ L P LP PA+ K WT Q+
Sbjct: 545 CTQDFLAAAYLVTSRDVFFDRGEFSQMVSHWLGPVTQFRLPIPAILKP--VELWTGKQLF 602
Query: 481 QSVLPP 486
+ ++ P
Sbjct: 603 ELIVRP 608
Score = 53.1 bits (126), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 66/144 (45%), Gaps = 7/144 (4%)
Query: 606 VAKFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIY 665
V + ++T ++ S S + + Q +G Q + GK + HF R
Sbjct: 769 VQTLSIHNNTPLIMVQSGSKGSALNIAQMMACVGQQ-TVSGKRILDAFQDRSLPHFHRFE 827
Query: 666 PMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLR 725
P A+ G + F+ GL P E H+++ RE +V ++ +E G +++ LM +
Sbjct: 828 ----EAPAAR-GFVANSFYSGLSPTEFFFHTMAGREGLVDTAVKTAETGYIYRRLMKAME 882
Query: 726 DVVICYDGTVRNVCSNSIIQFDYA 749
++ + YDGTVRN +IQ +
Sbjct: 883 NLSVRYDGTVRNT-KGDVIQLRFG 905
Score = 34.7 bits (78), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 5/75 (6%)
Query: 13 QIVGIRFGLATQKEICTASISDCS--ISHASQ--LANPFLGLPLEFGKCESCGTSEPGKC 68
+I + +GL ++ ++ S+ C + + + + LG+ CE+CG + +C
Sbjct: 26 EISALHYGLLSRNDVHRLSVLPCRRVVGDVKEYGVNDARLGVCDRLSICETCGLNSI-EC 84
Query: 69 EGHFGYIELPIPIYH 83
GH G+I+L P++H
Sbjct: 85 VGHPGHIDLEAPVFH 99
>sp|P25202|RPC1_GIAIN DNA-directed RNA polymerase III subunit RPC1 OS=Giardia intestinalis
GN=RPOA3 PE=3 SV=1
Length = 1741
Score = 108 bits (270), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 120/504 (23%), Positives = 201/504 (39%), Gaps = 98/504 (19%)
Query: 330 LRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGD 389
LRP +V+R ++ DT+ NR P+ H+ S+ + +H++ T NP++C P +ADFDGD
Sbjct: 667 LRPNDIVYRHLLPNDTLLFNRQPSLHRMSIMQFNAVIHENRTFSFNPVVCSPFNADFDGD 726
Query: 390 CIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVM----------- 438
+++FY Q A+AE L + ++S +G + L D L + ++
Sbjct: 727 EMNIFYMQGQEARAEAGILMGSHENIISPRHGECMIGLTQDFLTGIYLLSGKGIFMTRQE 786
Query: 439 ---------------------------FKKYFLDKAFTQQ--LAMFALSPLPRPALSKAR 469
F K D+ T++ + + L +P + R
Sbjct: 787 YCQHVSYGCDGFGDATYGVSLYNYGREFIKSIHDRRGTEEDTVGFVKVPCLSQPCIVYPR 846
Query: 470 CSARWTALQILQSVLPPG--FDSCG-----------------------DRYLIKKSEVLK 504
++ Q+L SVL G FDS D +I+ SE L
Sbjct: 847 --QLYSGKQVL-SVLMKGNDFDSVNINLEHGDKTYKKDSDRRALSVNDDYIIIQNSEHLV 903
Query: 505 GDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKA 564
G + + S N I + GP + L GF++ ++D S+
Sbjct: 904 GRLTKTFLASSKNCIFYFLVQNYGPVSAARIMLRFAKVAARFLMNYGFTIGIDDVMPSQR 963
Query: 565 ALWNIQKEIQALYSLLYHRM-------------STQNELVDLQIENHIRHVKMLVAKFIL 611
L + +Q Y ++ ST E ++ + + +V+ A+ L
Sbjct: 964 VLGKKEVIVQEGYEKAQEKIRDYESGKLEAIPGSTVQETLEATLNQILSNVRESCAQIAL 1023
Query: 612 KSS--TLGYLIDSKSDSAVS--KVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPM 667
K T LI S S S + Q LG Q F +D + R P
Sbjct: 1024 KELHFTNKPLIMSLCGSKGSPINIAQMIIILGQQ-----SFGGSRAPDDF---YTRSTPY 1075
Query: 668 DLNY---PTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVL 724
+Y P AK G I F+ GL P+E + H+ + R+ ++ S+ ++ G L + L+ L
Sbjct: 1076 FYHYSKEPNAK-GFILNSFYTGLLPFEFLAHARAGRDGVIDSACKTADTGYLQRRLVKCL 1134
Query: 725 RDVVICYDGTVRNVCSNSIIQFDY 748
D+ + YD TVRN S++QF +
Sbjct: 1135 EDLSVSYDFTVRN-SKKSVVQFRF 1157
Score = 51.6 bits (122), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 50/175 (28%), Positives = 82/175 (46%), Gaps = 13/175 (7%)
Query: 139 PQDGYILEYLPVPPNCLSVPDISDG--VSTMSSDLSIAMLKKVL----KQVEIIRSSRSG 192
PQD IL ++PVPP+CL P + G T +L+ + L ++L K E + S
Sbjct: 303 PQD-VILTHIPVPPSCLR-PSVQSGSGAGTTEDNLT-SHLVRILTINDKLKEAMVSGAVA 359
Query: 193 TPNFESQ--EVESNDLQLAVGQYLEVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTL 250
T ++ ++ + L +G+ K+ D + G KA + R+
Sbjct: 360 TSKVYAKWDQLNMDVSLLYIGKIPGGVQPVKNKTDSGTKEGTGIIDRLKGKAG--RFRSN 417
Query: 251 FIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN 305
K FS R+VI+ + Y + ++ +P IAQ +TF E V NI +L+EL+ N
Sbjct: 418 LSGKRVNFSGRTVISPNPYLSMQQVAIPRLIAQNLTFPEIVTSRNIRFLRELILN 472
Score = 46.2 bits (108), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 48 LGLPLEFGKCESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTM 94
LGL + GKC +CG + C GHFG I L +P++HP I++ + +
Sbjct: 70 LGLSDKVGKCATCG-KDTKMCIGHFGTISLALPVFHPGLINDARTML 115
>sp|A5DCV3|RPB1_PICGU DNA-directed RNA polymerase II subunit RPB1 (Fragments)
OS=Meyerozyma guilliermondii (strain ATCC 6260 / CBS 566
/ DSM 6381 / JCM 1539 / NBRC 10279 / NRRL Y-324) GN=RPB1
PE=3 SV=2
Length = 1579
Score = 108 bits (269), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 84/307 (27%), Positives = 140/307 (45%), Gaps = 30/307 (9%)
Query: 170 DLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLE---------VRGTA 220
DL+ + + + + R G+P E E+ LQ V Y++ ++ T
Sbjct: 265 DLTFKLADVIKANINVQRLELDGSPQHVISEFEAL-LQFHVATYMDNDIAGQPQALQKTG 323
Query: 221 KSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFE 280
+ + + AR K ++R + K FS+R+VI+GD ++++GVP
Sbjct: 324 RPIKSIRARL----------KGKEGRLRGNLMGKRVDFSARTVISGDPNLDLDQVGVPIS 373
Query: 281 IAQRITFEERVNVHNINYLQELVDNK------LCLTYSDGSSSYSLREGSK-GHTFLRPG 333
IA+ +T+ E V +NI+ L E V N D LR + G L+ G
Sbjct: 374 IARTLTYPEIVTPYNIHRLTEYVRNGPNEHPGAKYVIRDTGDRIDLRYNKRAGDIALQYG 433
Query: 334 QVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHL 393
V R +MD D V NR P+ HK S+ V V T ++N + P +ADFDGD ++L
Sbjct: 434 WKVERHLMDDDPVLFNRQPSLHKMSMMCHRVKVMPYSTFRLNLSVTSPYNADFDGDEMNL 493
Query: 394 FYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVM-FKKYFLDKAFTQQL 452
PQS +AE+ E+ +V Q++S + + + D L ++ M + F++ + Q +
Sbjct: 494 HVPQSPETRAELSEICAVPLQIVSPQSNKPVMGIVQDTLCGVRKMTLRDIFIE--YDQVM 551
Query: 453 AMFALSP 459
M P
Sbjct: 552 NMLYWIP 558
Score = 53.1 bits (126), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/131 (25%), Positives = 63/131 (48%), Gaps = 7/131 (5%)
Query: 619 LIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGL 678
++ S S + + Q + +G Q+ + GK + HF + +Y G
Sbjct: 578 MVVSGSKGSFINISQMSACVGQQIVE-GKRIPFGFADRSLPHFTKD-----DYSPESKGF 631
Query: 679 IKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNV 738
++ + GL P E H+++ RE ++ ++ +E G + + L+ L D+++ YDGT RN
Sbjct: 632 VENSYLRGLTPQEFFFHAMAGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDGTTRNS 691
Query: 739 CSNSIIQFDYA 749
+ IIQF Y
Sbjct: 692 LGD-IIQFVYG 701
Score = 47.0 bits (110), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 48/85 (56%), Gaps = 11/85 (12%)
Query: 17 IRFGLATQKEICTASISDC----SISHASQ------LANPFLGLPLEFGKCESCGTSEPG 66
++FGL + +E+ S++ ++ A++ L +P LG KC++CG +
Sbjct: 18 VQFGLLSPEEVRAISVAKIEYPETMDQATKRPREGGLNDPRLGSIDRNFKCQTCG-EDMA 76
Query: 67 KCEGHFGYIELPIPIYHPSHISELK 91
+C GHFG+IEL P++H I+++K
Sbjct: 77 ECPGHFGHIELAKPVFHIGFIAKIK 101
>sp|O55766|RPB1_IIV6 Probable DNA-directed RNA polymerase II subunit RPB1 homolog
OS=Invertebrate iridescent virus 6 GN=IIV6-176R PE=3
SV=1
Length = 1026
Score = 108 bits (269), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 115/466 (24%), Positives = 193/466 (41%), Gaps = 66/466 (14%)
Query: 324 SKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLS 383
SK L G +VHR + +GD + +NR PT HK S+ AL V + D T K N P +
Sbjct: 527 SKKFIKLEEGWIVHRYLQNGDILVLNRQPTLHKASMMALRVKIMDVKTFKFNLACTKPYN 586
Query: 384 ADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKKYF 443
ADFDGD ++ PQS +KAE+ L + ++ ++S +G NL + D+L +M K+
Sbjct: 587 ADFDGDEMNAHAPQSEESKAELFTLSTPKQCIMSCQSGKPNLTIVQDSLTGAYLMSKENN 646
Query: 444 LDKAFTQ---QLAMFALSP------------LPRP-----ALSKARCSARWTALQILQSV 483
D T + L+ L R L K S + L S+
Sbjct: 647 NDATLTNGEFNDILMVLTQNDEYNGDVVDYFLKRKEDVSNTLKKLGFSGTVLNGKGLLSL 706
Query: 484 LPPGFDSCGDRYL------IKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFD 537
L P D Y+ I + + G + + S + ++ ++ E G E F +
Sbjct: 707 LFP-----NDLYINEEDLKINRGVIYDGCLTKKYLSSTESSLIKILYKEYGVETCATFLN 761
Query: 538 SLQPLLMENLFADGFSVSLEDFSLSKAALWNIQKEIQALYSLLYHRMSTQNELVD----L 593
++Q L L FS+ D K L ++ Q L +M+TQN + +
Sbjct: 762 NIQFLTNRWLMISSFSIHAGDCIKQKEVLGTVE---QCLMESEKIKMTTQNPFIREQKIM 818
Query: 594 QIENHIRHVKMLVAKFILKSSTLGY--------LIDSKSDSAVSKVVQQAGFLGLQLSDR 645
Q ++ + V M +AK LK + ++S S + Q LG Q+++
Sbjct: 819 QTLSNAKDVGMKIAKDALKRDNVNLHAQNNFLTTVESGSKGDHLNIAQITSLLGQQITEG 878
Query: 646 GKFYSKTLVEDIASHFERIYP--------------MDLNYPTAKYGLIKGCFFHGLDPYE 691
+ V+ + S+ +R P DL G I F GL+P E
Sbjct: 879 QR------VKPLLSNGKRTLPHYILKEENNDTEHFHDLLEEYESQGFISSSFAQGLNPKE 932
Query: 692 EMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRN 737
H ++ R+ + ++ + G + + + + D+ + YDGTV++
Sbjct: 933 FFFHCMAGRQGVCDTAMSTATSGYIMRRNVKLTEDIKVAYDGTVQD 978
Score = 47.0 bits (110), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 38/59 (64%)
Query: 246 KMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVD 304
++R + K S+R+VI D +++E+ VP EIAQ +TF + VN HNI+ L +LV+
Sbjct: 375 QIRNNLLGKRCEMSARTVIGPDPTLKIDEVIVPKEIAQSLTFPDFVNKHNIDRLTKLVN 433
Score = 44.3 bits (103), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 47/93 (50%), Gaps = 12/93 (12%)
Query: 13 QIVGIRFGLATQK--------EICTASISDCSISHASQLANPFLGLPLEFGKCESCGTSE 64
+I I FG+ + + E+ TA IS ++ + +P G P+ CE+C +E
Sbjct: 13 EIESISFGMMSSEDIRQMSSFEVKTAKISSTNL--LETVHDPKSG-PIGSAPCETCHQNE 69
Query: 65 PGKCEGHFGYIELPIPIYHPSHISELKLTMYAF 97
C GHFG+IEL +PI HP I+ + + F
Sbjct: 70 -WDCPGHFGHIELNVPIIHPLFINHVVNILKIF 101
>sp|Q42463|DCL_SOLLC Protein DCL, chloroplastic OS=Solanum lycopersicum GN=DCL PE=2 SV=1
Length = 224
Score = 107 bits (266), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 50/116 (43%), Positives = 68/116 (58%)
Query: 1578 EQDILSDVEPIMRSIRRIMHQSGYNDGDRLSADDKSFIFDNVFNYHPDKAMKMGAGIDHF 1637
E IL D P++ +R I+H Y GDRLS D + I + YHP+ K+G G+D+
Sbjct: 106 EDQILEDTVPLVGFVRMILHSGKYAIGDRLSPDHQRTILQRLLPYHPECDKKIGPGVDYI 165
Query: 1638 KVDKHGSFQDSRCLFVVSTDGSQQDFSYRKCLESFIRGKYPDLVDEFIGKYFRRPR 1693
V H F++SRCLF+V DG DFSY KC++ IR YP D FI ++FR+ R
Sbjct: 166 TVGYHPDFENSRCLFIVRKDGETVDFSYWKCIKGLIRKNYPLYADSFILRHFRKRR 221
>sp|P10964|RPA1_YEAST DNA-directed RNA polymerase I subunit RPA190 OS=Saccharomyces
cerevisiae (strain ATCC 204508 / S288c) GN=RPA190 PE=1
SV=2
Length = 1664
Score = 100 bits (250), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 132/542 (24%), Positives = 222/542 (40%), Gaps = 89/542 (16%)
Query: 93 TMYAFQLQIKN--DGVAQRLLSSCCEVKEMLKRIPEETRKKLAGKGYFPQDGYILEYLPV 150
+ Y ++KN D V ++ C ++ + P +RK + D + ++ L V
Sbjct: 312 STYILSTEVKNILDTVFRK---EQCVLQYVFHSRPNLSRKLVKA------DSFFMDVLVV 362
Query: 151 PPNCLSVPD-ISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLA 209
PP +P + + V S + +L KVL +IR + +V D ++
Sbjct: 363 PPTRFRLPSKLGEEVHENSQN---QLLSKVLTTSLLIRDLNDDLSKLQKDKVSLEDRRVI 419
Query: 210 VGQYLEVRGTAKSSRDVDARFGVSQDPNSTT--------KAWLEKMRTLFIRKGSG---- 257
+ + T ++ DV+A ++ T+ K LEK LF + G
Sbjct: 420 FSRLMNAFVTIQN--DVNAFIDSTKAQGRTSGKVPIPGVKQALEKKEGLFRKHMMGKRVN 477
Query: 258 FSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN-------KLCLT 310
+++RSVI+ D NEIGVP A ++T+ E V +NI L++ V N +
Sbjct: 478 YAARSVISPDPNIETNEIGVPPVFAVKLTYPEPVTAYNIAELRQAVINGPDKWPGATQIQ 537
Query: 311 YSDGSSSYSL-----REGSKGHTFLRP---------GQVVHRRIMDGDTVFINRPPTTHK 356
DGS + + + + L P + V+R I + D V +NR PT HK
Sbjct: 538 NEDGSLVSLIGMSVEQRKALANQLLTPSSNVSTHTLNKKVYRHIKNRDVVLMNRQPTLHK 597
Query: 357 HSLQALSVYV-HDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQL 415
S+ V V ++ T++++ G +ADFDGD +++ +PQ+ A+AE L L + + Q
Sbjct: 598 ASMMGHKVRVLPNEKTLRLHYANTGAYNADFDGDEMNMHFPQNENARAEALNLANTDSQY 657
Query: 416 LSSHNGNLNLQLATDALLS-LKVMFKKYFLDKAFTQQLAMFALSP------------LPR 462
L+ +G+ L D + + + + K F + QQ + P LP
Sbjct: 658 LTPTSGSPVRGLIQDHISAGVWLTSKDSFFTREQYQQYIYGCIRPEDGHTTRSKIVTLP- 716
Query: 463 PALSKARCSARWTALQILQSVL----PP------------------GFDSCGDRYLIKKS 500
P + K WT QI+ +VL PP G S + L K
Sbjct: 717 PTIFKPY--PLWTGKQIITTVLLNVTPPDMPGINLISKNKIKNEYWGKGSLENEVLFKDG 774
Query: 501 EVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFS 560
+L G D+ + IV S+ GPE + L L + A F+ ++D
Sbjct: 775 ALLCGILDKSQYGASKYGIVHSLHEVYGPEVAAKVLSVLGRLFTNYITATAFTCGMDDLR 834
Query: 561 LS 562
L+
Sbjct: 835 LT 836
Score = 49.7 bits (117), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 46/100 (46%), Gaps = 25/100 (25%)
Query: 13 QIVGIRFGLATQKEICTASISDCSISHASQLANPF----LGLPLEFGK------------ 56
+I + FG+ T KEI S A Q+ NP LG P+ G
Sbjct: 10 EITSVDFGILTAKEIRNLS--------AKQITNPTVLDNLGHPVSGGLYDLALGAFLRNL 61
Query: 57 CESCGTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYA 96
C +CG E C GH G+IELP+P Y+P ++L + + A
Sbjct: 62 CSTCGLDEKF-CPGHQGHIELPVPCYNPLFFNQLYIYLRA 100
Score = 43.9 bits (102), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 677 GLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVR 736
G +KG F+ G+ P E H ++ RE ++ ++ S G L + L L V + YD ++R
Sbjct: 980 GYVKGRFYSGIKPQEYYFHCMAGREGLIDTAVKTSRSGYLQRCLTKQLEGVHVSYDNSIR 1039
Query: 737 NVCSNSIIQFDYAVNA 752
+ +++QF Y +A
Sbjct: 1040 D-ADGTLVQFMYGGDA 1054
>sp|O54889|RPA1_RAT DNA-directed RNA polymerase I subunit RPA1 OS=Rattus norvegicus
GN=Polr1a PE=1 SV=1
Length = 1716
Score = 100 bits (249), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 137/612 (22%), Positives = 239/612 (39%), Gaps = 112/612 (18%)
Query: 241 KAWLEKMRTLFIRKGSG----FSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNI 296
+ LEK LF + G +++RSVI D Y NEIG+P A ++T+ + V N+
Sbjct: 425 RQILEKKEGLFRKHMMGKRVDYAARSVICPDMYINTNEIGIPMVFATKLTYPQPVTPWNV 484
Query: 297 NYLQELVDN-----------------KLCLTYSDGSS----SYSLREGSKGHTFLRPGQV 335
L++ V N + L+ D + + L S G + +V
Sbjct: 485 QELRQAVINGPNVHPGASMVINEDGSRTALSAVDATQREAVAKQLLTPSTGIPKPQGAKV 544
Query: 336 VHRRIMDGDTVFINRPPTTHKHSLQALSVYV-HDDHTVKINPLICGPLSADFDGDCIHLF 394
V R + +GD + +NR PT H+ S+QA ++ ++ ++++ C +ADFDGD ++
Sbjct: 545 VCRHVKNGDILLLNRQPTLHRPSIQAHRAHILPEEKVLRLHYANCKAYNADFDGDEMNAH 604
Query: 395 YPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLS-LKVMFKKYFLDKAFTQQLA 453
+PQS +AE L ++Q L +G L D ++S + + F + +L
Sbjct: 605 FPQSELGRAEAYVLACTDQQYLVPKDGQPLAGLIQDHMVSGANMTIRGCFFTREQYMELV 664
Query: 454 MFALS------PLPRPALSKARCSARWTALQILQSVL----------------------- 484
L+ L PA+ K WT Q++ ++L
Sbjct: 665 YRGLTDKVGRVKLFPPAILKP--FPLWTGKQVVSTLLINIIPEDYTPLNLTGKAKIGSKA 722
Query: 485 --------PPGFDS---CGDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVL 533
P FD C + +I++ E+L G D+ S +V + G E
Sbjct: 723 WVKEKPRPVPDFDPDSMCESQVIIREGELLCGVLDKAHYGSSAYGLVHCCYEIYGGETSG 782
Query: 534 EFFDSLQPLLMENL-FADGFSVSLEDFSLSKAALWNIQK--------------------- 571
L L L GF++ +ED + A Q+
Sbjct: 783 RVLTCLARLFTAYLQLYRGFTLGVEDILVKPNADVMRQRIIEESTQCGPRAVRAALNLPE 842
Query: 572 -----EIQALYS-LLYHRMSTQNELVDLQIENHIRHVKMLVAKFIL--------KSSTLG 617
EIQ + ++ + ++D++ + + H + K + + L
Sbjct: 843 AASCDEIQGKWQDAIWRKDQRDFNMIDMKFKEEVNHYSNEINKACMPFGLHRQFPENNLQ 902
Query: 618 YLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYG 677
++ S + + +Q + LG Q+ G+ FE P + P A G
Sbjct: 903 MMVQSGAKGSTVNTMQISCLLG-QIELEGRRPPLMASGKSLPCFE---PYEFT-PRAG-G 956
Query: 678 LIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRN 737
+ G F G+ P E H ++ RE +V ++ S G L + ++ L +VI YD TVR+
Sbjct: 957 FVTGRFLTGIRPPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHLEGLVIQYDLTVRD 1016
Query: 738 VCSNSIIQFDYA 749
S++QF Y
Sbjct: 1017 -SDGSVVQFLYG 1027
Score = 35.8 bits (81), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 8/80 (10%)
Query: 13 QIVGIRFGLATQKEICTASI-SDCSISHASQLANPFL-GL-PLEFGKCES---CGT--SE 64
++ GI FG+ + +E+ S+ S + + L NP GL L G +S C T +
Sbjct: 11 RLQGISFGMYSAEELKKLSVKSITNPRYVDSLGNPSADGLYDLALGPADSKEVCSTCVQD 70
Query: 65 PGKCEGHFGYIELPIPIYHP 84
C GH G+I+LP+ +Y+P
Sbjct: 71 FNNCSGHLGHIDLPLTVYNP 90
>sp|P27625|RPC1_PLAFA DNA-directed RNA polymerase III subunit RPC1 OS=Plasmodium
falciparum PE=3 SV=1
Length = 2339
Score = 97.8 bits (242), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 61/177 (34%), Positives = 90/177 (50%), Gaps = 10/177 (5%)
Query: 319 SLREGSKGHTF--LRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINP 376
SL+ +K H L G VV R I DGD V NR P+ H+ S+ + D T + N
Sbjct: 543 SLKYANKNHVIQNLNIGDVVERHICDGDIVLFNRQPSLHRMSIMCHKAKIMDFKTFRFNE 602
Query: 377 LICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDAL-LSL 435
+C P +ADFDGD ++L PQ+ A+AE L L +V+ L++ NG + + L D L S
Sbjct: 603 CVCSPYNADFDGDEMNLDVPQTEEARAEALYLMNVKHNLITPKNGEVIIALTQDFLSASY 662
Query: 436 KVMFKKYFLDK-AFTQQLAMFA----LSPLPRPALSKARCSARWTALQILQSVLPPG 487
+ K FLD+ F + F+ LP PA+ K + WT Q++ ++ P
Sbjct: 663 IITNKDTFLDRDTFCLLCSYFSDASLYIELPIPAILKPK--ELWTGKQLISVLIKPN 717
Score = 47.4 bits (111), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 49/175 (28%), Positives = 78/175 (44%), Gaps = 26/175 (14%)
Query: 144 ILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQE--- 200
I+ L VPPN + I D T DL+ +L ++ + I + T +++ +
Sbjct: 247 IITALLVPPNTIRPSVIIDEHGTAEDDLT-CILSEITQLNNTIYNQ--CTNGYQTNQFLG 303
Query: 201 -VESNDLQL---------AVGQYLEVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTL 250
VE LQ+ AV Q L + +K R + R K + R
Sbjct: 304 NVEFLQLQITRFINSDSPAVSQLLATQNISKPGRGICQRL----------KGKEGRFRCN 353
Query: 251 FIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN 305
K FSSR+VI+ D ++E+ +P IA R+T+ E VN +NI+ L+ L+ N
Sbjct: 354 LSGKRVDFSSRTVISPDPNISIDEVVIPKIIAMRLTYPETVNKYNIDKLKMLIKN 408
Score = 45.1 bits (105), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 15/97 (15%)
Query: 13 QIVGIRFGLATQKEICTASISDCSISHASQLAN------PFLGLPLEFGK------CESC 60
+I IRFG+ ++++I S+ I + N P+ L L+ G CE+C
Sbjct: 34 EIKSIRFGIMSKEDI--IKYSEVKIMNREMYKNNSGIPYPYGVLDLKLGAHKSNSVCETC 91
Query: 61 GTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAF 97
+ C GHFGYIEL P++H + + +Y
Sbjct: 92 N-KKLINCSGHFGYIELNYPVFHIGYYKYIIHILYCI 127
Score = 40.8 bits (94), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 44/85 (51%), Gaps = 6/85 (7%)
Query: 997 HLILLANSMTCAGDLVGFNSGGYKALSRSLNVQVPFTEATLFMPRKCFEKAAEKRHTDNL 1056
H++LLA+ M GD++G N G + +S + F E + F K + D +
Sbjct: 2236 HIMLLADIMAFTGDILGINRFGIQKARQSTLMLASFEETNEHLFVSSFFK-----NVDEI 2290
Query: 1057 SSVVAACSWGKHVAVGTGSRFDLLW 1081
+++ + GK++ +GTG+ F LL+
Sbjct: 2291 NNISESIIVGKNIPIGTGA-FQLLY 2314
>sp|P15398|RPA1_SCHPO DNA-directed RNA polymerase I subunit rpa1 OS=Schizosaccharomyces
pombe (strain 972 / ATCC 24843) GN=rpa1 PE=1 SV=2
Length = 1689
Score = 92.0 bits (227), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 127/530 (23%), Positives = 215/530 (40%), Gaps = 101/530 (19%)
Query: 117 VKE--MLKRIPEETRKKLAGKGYFPQDGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIA 174
VKE +L R+ R K A D + L+ + VPP P G + ++
Sbjct: 337 VKENVVLSRLYAHKRGKPASA-----DMFFLQNIAVPPTRFR-PASKMG-DEVHENIQNE 389
Query: 175 MLKKVLKQ-VEIIRSSRSGTPNFESQEVE-----SNDLQLAVGQYLEVRGTAKSSRDVDA 228
+L ++L+ ++I S+ T E E S +L + +++++ DV++
Sbjct: 390 LLTRILQSSIQIASLSKDSTVEVNPDEKEGLERRSRAFELLINAFVQLQ------HDVNS 443
Query: 229 RFGVSQDPNST---------TKAWLEKMRTLFIRKGSG----FSSRSVITGDAYKRVNEI 275
+++P+S K LEK LF + G +++RSVI+ D NEI
Sbjct: 444 LIDSNRNPSSGGQSRTVPPGIKQILEKKEGLFRKHMMGKRVNYAARSVISPDPNIETNEI 503
Query: 276 GVPFEIAQRITFEERVNVHNINYLQELVDN-------KLCLTYSDGSSSYSL-----REG 323
GVP A ++T+ E V ++N N ++ V N + DG+ + +
Sbjct: 504 GVPPVFATKLTYPEPVTLYNFNEMRNAVINGPHKWPGASHIQNEDGTLISLMPLTIEQRT 563
Query: 324 SKGHTFLRP-----------------GQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYV 366
+ + L P + V+R + +GD + +NR PT HK S+ A +
Sbjct: 564 ALANQLLTPQSNLISSPYSYSRLINTNKKVYRHVRNGDMLILNRQPTLHKPSMMAHKARI 623
Query: 367 -HDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNL 425
+ T++++ C +ADFDGD +++ +PQS A++E + + + Q L +G+
Sbjct: 624 LPGEKTIRMHYANCNSYNADFDGDEMNMHFPQSTNARSEAQFIANTDSQYLVPTSGDPLR 683
Query: 426 QLATD-ALLSLKVMFKKYFLDKAFTQQLAMFALSP-----------LPRPALSKARCSAR 473
L D ++ + + K F + QQL AL P LP PA+ R
Sbjct: 684 GLIQDHVVMGVWLTCKDTFYTRDEYQQLLFQALKPDETGMYGRIKTLP-PAIQ--RPGIY 740
Query: 474 WTALQILQSVL-------PPGF---------------DSCGDRYLIKKSEVLKGDFDRDT 511
WT QI+ SVL PG DS L E+L G D+ +
Sbjct: 741 WTGKQIISSVLLNLKPSDRPGLNLKSKAKVPGKYWSPDSEEGSVLFDDGELLCGILDKSS 800
Query: 512 IPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSL 561
+ +V S+ GP+ L L GF+ ++D L
Sbjct: 801 FGASAFGLVHSVHELYGPDIAGRLLSVLSRLFTAYAQMRGFTCRMDDLRL 850
Score = 43.9 bits (102), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 45/88 (51%), Gaps = 12/88 (13%)
Query: 13 QIVGIRFGL--------ATQKEICTASISDCSISHASQ--LANPFLGLPLEFGKCESCGT 62
+I ++FG+ + K+I + D +++H + L + LG L+ C +C
Sbjct: 10 EIKSVKFGIYDVDDVEKISVKQIVNPVLLD-NLNHPTNGGLYDLALGPYLKNSVCATCHL 68
Query: 63 SEPGKCEGHFGYIELPIPIYHPSHISEL 90
E C GHFG+I LPIP YHP S++
Sbjct: 69 DE-RYCPGHFGHIVLPIPAYHPLFFSQM 95
Score = 43.5 bits (101), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 677 GLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVR 736
G I F G+ P E H ++ RE ++ ++ S G L + LM L + + YD TVR
Sbjct: 993 GFIASRFLTGIAPQEYYFHCMAGREGLIDTAVKTSRSGYLQRCLMKHLEGLCVQYDHTVR 1052
Query: 737 NVCSNSIIQFDYA 749
+ SI+QF Y
Sbjct: 1053 D-SDGSIVQFHYG 1064
>sp|P91875|RPA1_DROME DNA-directed RNA polymerase I subunit RPA1 OS=Drosophila
melanogaster GN=RpI1 PE=1 SV=2
Length = 1642
Score = 90.1 bits (222), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 83/305 (27%), Positives = 145/305 (47%), Gaps = 42/305 (13%)
Query: 206 LQLAVGQYLEVRGTAKSSRDVDARFGVSQDPNSTTKAWLEK----MRTLFIRKGSGFSSR 261
LQ++V L+V SR++ + G+ Q +EK +R+ + K +++R
Sbjct: 377 LQMSVDVLLDV----NMSREMKSGEGLKQ--------IIEKKSGLIRSHMMGKRVNYAAR 424
Query: 262 SVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDN-------KLCLTYSDG 314
+VIT D V+EIG+P A+++++ V N+ L+++V N + +G
Sbjct: 425 TVITPDPNINVDEIGIPDIFAKKLSYPVPVTEWNVTELRKMVMNGPDVHPGANYIQDKNG 484
Query: 315 SSSY------SLREGSKGHTFLRPG---QVVHRRIMDGDTVFINRPPTTHKHSLQALSVY 365
++Y S RE P ++VHR +++GD + +NR P+ HK S+
Sbjct: 485 FTTYIPADNASKRESLAKLLLSNPKDGIKIVHRHVLNGDVLLLNRQPSLHKPSIMGHKAR 544
Query: 366 V-HDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLN 424
+ H + T +++ C +ADFDGD ++ YPQS A+AE L +V L +G
Sbjct: 545 ILHGEKTFRLHYSNCKAYNADFDGDEMNAHYPQSEVARAEAYNLVNVASNYLVPKDGTPL 604
Query: 425 LQLATDALLS-LKVMFKKYFLDKAFTQQLAMFALSPLPR------PALSKARCSARWTAL 477
L D ++S +K+ + F ++ QQL LS L + P + K + W+
Sbjct: 605 GGLIQDHVISGVKLSIRGRFFNREDYQQLVFQGLSQLKKDIKLLPPTILKP--AVLWSGK 662
Query: 478 QILQS 482
QIL +
Sbjct: 663 QILST 667
Score = 38.9 bits (89), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 7/57 (12%)
Query: 54 FGKC-ESCGTS-EPGKCEGHFGYIELPIPIYHPSHISELK-----LTMYAFQLQIKN 103
+G+C + CGT + C GH G+IEL P+Y+P I ++ ++ ++LQ+K+
Sbjct: 59 YGRCMDPCGTCLKLQDCPGHMGHIELGTPVYNPFFIKFVQRLLCIFCLHCYKLQMKD 115
>sp|Q58445|RPOA1_METJA DNA-directed RNA polymerase subunit A' OS=Methanocaldococcus
jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM
10045 / NBRC 100440) GN=rpoA1 PE=3 SV=2
Length = 1341
Score = 87.4 bits (215), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 99/407 (24%), Positives = 170/407 (41%), Gaps = 43/407 (10%)
Query: 379 CGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVM 438
C P +ADFDGD ++L PQS A+AE L VEK +LS G + D + ++
Sbjct: 912 CPPYNADFDGDEMNLHVPQSEEARAEAEALMLVEKHILSPRFGGPIIGAIHDFISGAYLL 971
Query: 439 FKKYFLDKAFTQQLAMFALSPLPRPALSKARCSARWTALQILQSVLPPGF---------- 488
YF T L + ++ +I LP G
Sbjct: 972 TSNYFTKDEATLILRSGGIKDELWEPDKVENGVPLYSGKKIFSKALPKGLNLRYKAKICR 1031
Query: 489 --DSCG------DRY-LIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSL 539
D C D Y +IK E++KG D++ + I+ +I E GPE +F DS
Sbjct: 1032 KCDVCKKEECEYDAYVVIKDGELIKGVIDKNGYGAEAGLILHTIVKEFGPEAGRKFLDSA 1091
Query: 540 QPLLMENLFADGFSVSLEDFSLSKAALWNIQKEI----QALYSLLYHRMSTQNELV---- 591
+ + + GF+ ++D L + AL I+K + + + ++ + EL+
Sbjct: 1092 TKMAIRAVMLRGFTTGIDDEDLPEEALKEIEKVLDEAEEKVKEIIEKYERGELELLPGLN 1151
Query: 592 -----DLQIENHIRHVK----MLVAKFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQL 642
+ I N +R + + +++ + + + + + + Q A LG Q
Sbjct: 1152 LEESREAYISNVLREARDKAGAIAERYLGLDNHAVIMAVTGARGNILNLTQMAACLG-QQ 1210
Query: 643 SDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREV 702
S RGK + + HFE+ DL +G ++ + GL P E H++ RE
Sbjct: 1211 SVRGKRIFRGYRGRVLPHFEK---GDLG--ARSHGFVRSSYKKGLSPTEFFFHAMGGREG 1265
Query: 703 IVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYA 749
+V + ++ G + + L+ L+D+ +DGTVR+ +IQF Y
Sbjct: 1266 LVDQAVRTAQSGYMQRRLINALQDLKTEFDGTVRD-SRGIMIQFKYG 1311
Score = 79.7 bits (195), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 87/319 (27%), Positives = 139/319 (43%), Gaps = 42/319 (13%)
Query: 104 DGVAQRLLSSCCEVKEMLKRIPEETRKKLAGKGYFPQDG----YILEYLPVPPNCLSVPD 159
DG ++ L+ +V+E+L++IP+E L G P+ +L LPVPP + P
Sbjct: 171 DGNEEKTLTPS-DVREILEKIPDEDCILL---GLNPEVARPEWMVLTVLPVPPVTVR-PS 225
Query: 160 ISDGVSTMSSD-LSIAMLKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYL--EV 216
I+ S D L+ ++ + + + G PN +++ N LQ V Y E
Sbjct: 226 ITLETGERSEDDLTHKLVDIIRINNRLEENIEGGAPNLIIEDL-WNLLQYHVNTYFDNEA 284
Query: 217 RGTAKSSRDVDARFGVSQDPNSTTKAWLE----KMRTLFIRKGSGFSSRSVITGDAYKRV 272
G + S P T L+ + R K FSSR+VI+ D +
Sbjct: 285 PGIPPAKHR-------SGRPLKTLAQRLKGKEGRFRYNLAGKRVNFSSRTVISPDPCLSI 337
Query: 273 NEIGVPFEIAQRITFEERVNVHNINYLQELVDNK-----------LCLTYSDGS-SSYSL 320
NE+GVP +A+ +T E+V +NI +++L+ N + DG+ Y +
Sbjct: 338 NEVGVPEVVAKELTVPEKVTKYNIERIRQLLRNGSEKHPGVNYVIRKMIGRDGTEQEYKV 397
Query: 321 REGSKGHTF----LRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINP 376
+ F +R G +V R +MDGD V NR P+ H+ S+ A V V T + N
Sbjct: 398 KITESNKDFWAENIREGDIVERHLMDGDIVLYNRQPSLHRMSIMAHRVRVLPYRTFRHNL 457
Query: 377 LIC--GPLSADFDGDCIHL 393
+C G + DG I +
Sbjct: 458 CVCVDGDTTVLLDGKLIKI 476
Score = 36.6 bits (83), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 57 CESCGTSEPGKCEGHFGYIELPIPIYH 83
C++CG G+C GHFG+IEL P+ H
Sbjct: 62 CKTCG-GRIGECPGHFGHIELAKPVIH 87
>sp|Q86H36|RPA1_DICDI DNA-directed RNA polymerase I subunit rpa1 OS=Dictyostelium
discoideum GN=polr1a PE=3 SV=1
Length = 1615
Score = 84.0 bits (206), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 99/391 (25%), Positives = 159/391 (40%), Gaps = 72/391 (18%)
Query: 141 DGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSS---RSGTPNFE 197
D + PV P P+ +G S + K ++K ++IR S G F
Sbjct: 334 DSLFMRVFPVTPARYRPPNFVNG--RRSEHPQNSHYKGMVKSNKMIRQSIDAGEGKAKFL 391
Query: 198 SQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSG 257
V DLQ+ V + + ++ +V + K LEK LF + G
Sbjct: 392 VNSV--CDLQMHVNNMYDNSKSNSNTNEVA----------NGIKQILEKKEGLFRKHMMG 439
Query: 258 ----FSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDNKLCLTYSD 313
+++R+VI+ D NE+GVP A+ +TF + V N N L + V N
Sbjct: 440 KRVNYAARTVISPDISLETNEMGVPQYFAKTLTFPQPVTSFNYNQLAQAVIN-------- 491
Query: 314 GSSSY---SLREGSKGH-----------------TFLRP--------GQVVHRRIMDGDT 345
G Y + E GH T L + V+R ++ GD
Sbjct: 492 GPEQYPGANFIEDENGHLINLSKESQEKRIALSKTLLTSHPHAPRGVNKKVYRHLLSGDY 551
Query: 346 VFINRPPTTHKHSLQALSVYV--HDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKA 403
V NR PT HK + V V ++ T++++ C +ADFDGD +++ +PQSL A A
Sbjct: 552 VLANRQPTLHKPGIMGHRVKVLGKNEKTLRMHYSNCSTYNADFDGDEMNIHFPQSLLASA 611
Query: 404 EVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKKYFLDKAFTQ---QLAMFA---- 456
E+ E+ + Q L NG L D +L+ ++ K+ D FT+ Q ++A
Sbjct: 612 EIREICANNYQYLVPRNGAPLRGLIQDHILTGVLLTKR---DTLFTKADFQAILYASCWS 668
Query: 457 ---LSPLPRPALSKARCSARWTALQILQSVL 484
P+ P + W+ Q++ + L
Sbjct: 669 VNTKHPIVTPPPCILKPVPLWSGKQLISAAL 699
Score = 39.7 bits (91), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 677 GLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVR 736
G + F G+ P + H ++ RE ++ ++ S G L + L+ L + + YD TVR
Sbjct: 943 GFVMDRFLTGVRPQDYFFHCMAGREGLIDTAVKTSRSGYLQRCLIKHLEGLSVQYDNTVR 1002
Query: 737 NVCSNSIIQFDYA 749
S+IQF+Y
Sbjct: 1003 E-SDGSVIQFNYG 1014
Score = 37.4 bits (85), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 43 LANPFLGLPLEFGKCESCGTSEPGKCEGHFGYIELPIPIYHP 84
L +P LG +C +C + + +C GHFG+IEL IP Y+P
Sbjct: 51 LHDPALGPTGPAERCATC-SLDFIECPGHFGHIELAIPCYNP 91
>sp|Q06FX0|RPOC1_PELHO DNA-directed RNA polymerase subunit beta' OS=Pelargonium hortorum
GN=rpoC1 PE=3 SV=1
Length = 701
Score = 81.3 bits (199), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 76/282 (26%), Positives = 129/282 (45%), Gaps = 23/282 (8%)
Query: 144 ILEYLPV-PPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRSGTPNFESQEVE 202
IL LPV PP + IS+ V +SSDL+ + K+V+ +I+ S G Q +
Sbjct: 287 ILRLLPVLPPELRPIFKISE-VQFISSDLN-TLYKEVISNNKILSDSLLGCKFVPEQLLT 344
Query: 203 SND--LQLAVGQYLEVRGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSGFSS 260
+ +Q+AV Q L+ R + + RD + + S K + R + + +S
Sbjct: 345 GQEKIVQVAVDQLLDNRISGQPRRDRNKQLYKSFSDILAGKEG--RFRQTLLGRRVDYSG 402
Query: 261 RSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDNKLCLTYSDGSSSYSL 320
RSVI +++ G+P EIA + + ++ L+ +L S ++ +
Sbjct: 403 RSVIVVGPSLALHQCGLPREIA--------LELFQTFIIRSLIRQRLA--SSVKTAKKQI 452
Query: 321 REGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICG 380
RE R + ++ V +NR PT H+ +QA + + + ++PL+C
Sbjct: 453 REQE------RIVWDILEEVVQEHPVLLNRAPTLHRLGIQAFQPILTKERAIYLHPLVCK 506
Query: 381 PLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGN 422
+ADFDGD + + P SL A+AE L + LLS NG+
Sbjct: 507 GFNADFDGDQMAVHLPLSLEAQAEAYLLMFSTQNLLSPGNGD 548
>sp|A0T0D8|RPOC1_PHATC DNA-directed RNA polymerase subunit beta' OS=Phaeodactylum
tricornutum (strain CCAP 1055/1) GN=rpoC1 PE=3 SV=1
Length = 696
Score = 79.0 bits (193), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 79/316 (25%), Positives = 138/316 (43%), Gaps = 22/316 (6%)
Query: 118 KEMLKRIPEETRKKLAGKGYFPQDGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLK 177
++ +KRI + L G G P IL LPV P L +G +SDL+ +
Sbjct: 295 EQAIKRI--RILENLVGTGSSPA-WMILTILPVIPPALRPMIQLEGGRFATSDLNELYRR 351
Query: 178 KVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFGVSQDPN 237
+ + ++R P + E LQ AV ++ K + + R + +
Sbjct: 352 IITRNNRLLRLLEIDAPQLIIRN-EKRLLQEAVDTLIDNGKRGKIALSANNR--PLKSLS 408
Query: 238 STTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNIN 297
K + R + K +S RSVI R+N+ G+P+E+A + +
Sbjct: 409 DIIKGKHGRFRQNLLGKRVDYSGRSVIVVGPSLRLNQCGLPYEMA--------IELFQPF 460
Query: 298 YLQELVDNKLCLTYSDGSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKH 357
++EL++ L S+ + +L + + + + P V +++ +F+NR PT H+
Sbjct: 461 IIRELINQGLA---SNMKIAKNLIQ--QNESIIDP---VLEKVLKSHPIFLNRAPTLHRL 512
Query: 358 SLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLS 417
+QA + +K++PL+C +ADFDGD + + P SL A+AE L LS
Sbjct: 513 GIQAFEPILVQGRAIKLHPLVCSAFNADFDGDQMAVHIPLSLEAQAECYMLMLAPYNFLS 572
Query: 418 SHNGNLNLQLATDALL 433
NG + + D +L
Sbjct: 573 PANGEPIIMPSQDMVL 588
>sp|B7ICR2|RPOC_THEAB DNA-directed RNA polymerase subunit beta' OS=Thermosipho africanus
(strain TCF52B) GN=rpoC PE=3 SV=1
Length = 1649
Score = 76.6 bits (187), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 116/491 (23%), Positives = 196/491 (39%), Gaps = 89/491 (18%)
Query: 102 KNDGVAQRLLSSCCEVKEMLKRIPEETRKKLAGKGYFPQDGYILEYLPVPPNCLSVPDIS 161
K+ G A++LL VK++LK ET+ + +LE +PV P PDI
Sbjct: 492 KSSGRAKKLLRRLKIVKDLLK---SETK----------PEWMVLEAIPVVP-----PDIR 533
Query: 162 DGVSTMSSDLSIAMLKKVLKQVEIIRSSR-SGTPNFESQEV----ESNDLQLAVGQYLEV 216
+ + L + ++V I R++R S E+ E LQ AV +
Sbjct: 534 PMIQVEGGRFATTDLNDLYRRV-INRNNRLKKLYEMNSPEIIIKNEKRMLQEAVDSLIYN 592
Query: 217 RGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSG----FSSRSVITGDAYKRV 272
K+ D + R P + L+ + F R G +S R+VI + ++
Sbjct: 593 GRMGKAVTDRNGR------PLKSLTDLLKGKKGRFRRNLLGKRVDYSGRAVIVVGPHLKI 646
Query: 273 NEIGVPFEIAQRITFEERVNVHNINYLQELVDNKLCLTYSDGSSSYSLREGSKG--HTFL 330
+E G+P ++A + F+ V L EL++ D +S + R+ K L
Sbjct: 647 HECGLPKKMAMEL-FKPFV-------LAELLNK-------DDETSKTARKMKKAIIEKEL 691
Query: 331 RPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDC 390
V I+ G V +NR PT H+ SLQA + + + ++++PL+C P +ADFDGD
Sbjct: 692 PQAYEVLEEIIKGHPVLLNRAPTLHRMSLQAFEPRLIEGNAIQLHPLVCPPFNADFDGDQ 751
Query: 391 IHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKKYFLDKAF-- 448
+ + P S AA+AE L ++S +G D + ++ +DK F
Sbjct: 752 MAVHVPLSAAAQAEAKFLMLSRYNIISPAHGKPISMPGKDIVAG---VYYLTMVDKNFDS 808
Query: 449 ------------TQQLAM---FALSPLPRPALSKARCSARWTAL--QILQSVLPPGFDSC 491
++ + F L P L K T I S++P F
Sbjct: 809 VKEKDIKWKFSSIEEAGLAYEFGYIKLHDPILVKVDDKVIKTTYGRLIFASIVPDEFK-- 866
Query: 492 GDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADG 551
D+++ I ++V + F + G + + D ++ L G
Sbjct: 867 --------------DYNKTYGKGAIKDLVYNTFKKYGVDRTADLLDDIKDLGFHYATISG 912
Query: 552 FSVSLEDFSLS 562
+VS+ DF +S
Sbjct: 913 LTVSITDFYIS 923
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.315 0.131 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 655,505,371
Number of Sequences: 539616
Number of extensions: 28903822
Number of successful extensions: 74561
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 908
Number of HSP's successfully gapped in prelim test: 176
Number of HSP's that attempted gapping in prelim test: 71229
Number of HSP's gapped (non-prelim): 2545
length of query: 1714
length of database: 191,569,459
effective HSP length: 132
effective length of query: 1582
effective length of database: 120,340,147
effective search space: 190378112554
effective search space used: 190378112554
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 69 (31.2 bits)