Citrus Sinensis ID: 000829
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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Close Homologs for Annotation Transfer
Close Homologs in SWISS-PROT Database Detected by BLAST 
Original result of BLAST against SWISS-PROT Database
| ID | Alignment graph | Length |
Definition |
RBH(Q2H) |
RBH(H2Q) |
Q cover |
H cover |
Identity |
E-value |
| Query | 1265 | 2.2.26 [Sep-21-2011] | |||||||
| O14802 | 1390 | DNA-directed RNA polymera | yes | no | 0.966 | 0.879 | 0.509 | 0.0 | |
| Q5ZL98 | 1390 | DNA-directed RNA polymera | yes | no | 0.966 | 0.879 | 0.508 | 0.0 | |
| A4IF62 | 1390 | DNA-directed RNA polymera | yes | no | 0.966 | 0.879 | 0.508 | 0.0 | |
| O94666 | 1405 | DNA-directed RNA polymera | yes | no | 0.964 | 0.868 | 0.481 | 0.0 | |
| P04051 | 1460 | DNA-directed RNA polymera | yes | no | 0.971 | 0.841 | 0.467 | 0.0 | |
| Q6BI69 | 1457 | DNA-directed RNA polymera | yes | no | 0.965 | 0.838 | 0.464 | 0.0 | |
| Q86AQ5 | 1450 | DNA-directed RNA polymera | yes | no | 0.656 | 0.572 | 0.527 | 0.0 | |
| P25202 | 1741 | DNA-directed RNA polymera | N/A | no | 0.735 | 0.534 | 0.408 | 0.0 | |
| P08968 | 1530 | DNA-directed RNA polymera | N/A | no | 0.618 | 0.511 | 0.436 | 0.0 | |
| P18616 | 1839 | DNA-directed RNA polymera | no | no | 0.894 | 0.615 | 0.349 | 0.0 |
| >sp|O14802|RPC1_HUMAN DNA-directed RNA polymerase III subunit RPC1 OS=Homo sapiens GN=POLR3A PE=1 SV=2 | Back alignment and function desciption |
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Score = 1221 bits (3160), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 650/1275 (50%), Positives = 862/1275 (67%), Gaps = 52/1275 (4%)
Query: 1 MRNPKMEALRKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSK--- 57
++ P + L+K L K I KC K C CG NG VKK +L IIH++ K
Sbjct: 129 LKRPGLTYLQKRGLKKKISDKCR----KKNICHHCGAFNGTVKKC-GLLKIIHEKYKTNK 183
Query: 58 ------VTESLQEFASAITHTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLSE- 110
V+ LQ F +AI H KE + + A LNP+ VL LFKR+ D +L ++
Sbjct: 184 KVVDPIVSNFLQSFETAIEHNKEVEPLLGRAQENLNPLVVLNLFKRIPAEDVPLLLMNPE 243
Query: 111 --RPEKLIITNIAVPPIAIRPSVIMD-GSQSNENDITERLKRIIQTNASLQQELVEANSA 167
+P LI+T + VPP+ IRPSV+ D S +NE+D+T +L II N +++ +
Sbjct: 244 AGKPSDLILTRLLVPPLCIRPSVVSDLKSGTNEDDLTMKLTEIIFLNDVIKKHRISGAKT 303
Query: 168 FKSLAGWETLQVEVAQYINSDVRGVPFSMQVARPLSGFVQRLKGKQGRFRGNLSGKRVEY 227
+ W+ LQ++ A YINS++ G+P +M + GFVQRLKGKQGRFRGNLSGKRV++
Sbjct: 304 QMIMEDWDFLQLQCALYINSELSGIPLNMAPKKWTRGFVQRLKGKQGRFRGNLSGKRVDF 363
Query: 228 TGRTVISPDPNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMI-- 285
+GRTVISPDPNL+I EVA+P+ +A+ILT+PE+V+ NI LR+ +QNGP+ +PGA I
Sbjct: 364 SGRTVISPDPNLRIDEVAVPVHVAKILTFPEKVNKANINFLRKLVQNGPEVHPGANFIQQ 423
Query: 286 RYPDGTARVLYGKFRNQLAVELKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMP 345
R+ + YG R ++A ELK G IV+RHL DGDVVLFNRQPSLH++SIM H AR+ P
Sbjct: 424 RHTQMKRFLKYGN-REKMAQELKYGDIVERHLIDGDVVLFNRQPSLHKLSIMAHLARVKP 482
Query: 346 WRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVAST 405
RT RFNE VC PYNADFDGDEMN+H+PQTEEA+ EAL+LMG + NL TP+NGE L+A+
Sbjct: 483 HRTFRFNECVCTPYNADFDGDEMNLHLPQTEEAKAEALVLMGTKANLVTPRNGEPLIAAI 542
Query: 406 QDFLTSSFLITRKDTFYDRAAFSLMCCYMGDGMD---RVDLPTPAILKPVELWTGKQLFS 462
QDFLT ++L+T KDTF+DRA + + G D +V LP P ILKPV LWTGKQ+FS
Sbjct: 543 QDFLTGAYLLTLKDTFFDRAKACQIIASILVGKDEKIKVRLPPPTILKPVTLWTGKQIFS 602
Query: 463 VLIRPHANMRVYVNLTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLG 522
V++RP + V NL K K Y K E +C ND +V +NSEL+SG +
Sbjct: 603 VILRPSDDNPVRANLRTKGKQYCGKG-----------EDLCANDSYVTIQNSELMSGSMD 651
Query: 523 KATLGNGNKDGLYSVLLRDYGAHATSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSD 582
K TLG+G+K+ ++ +LLRD+G + + M+RLA+L+ ++ N GFSIGI DV P + L
Sbjct: 652 KGTLGSGSKNNIFYILLRDWGQNEAADAMSRLARLAPVYLSNRGFSIGIGDVTPGQGLLK 711
Query: 583 KKGKLISENYEVCNVKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSL 642
K +L++ Y+ C+ I+ N GKLQ +PGC A +TLEA+I L+ IR+ AG AC+ L
Sbjct: 712 AKYELLNAGYKKCDEYIEALNTGKLQQQPGCTAEETLEALILKELSVIRDHAGSACLREL 771
Query: 643 PWRNSPLIMSQCGSKGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAK 702
NSPL M+ CGSKGS INISQM+ACVGQQ++ G R P+GF +RSLPHF + +K PAAK
Sbjct: 772 DKSNSPLTMALCGSKGSFINISQMIACVGQQAISGSRVPDGFENRSLPHFEKHSKLPAAK 831
Query: 703 GFVANSFYSGLSATEFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVR 762
GFVANSFYSGL+ TEFFFHTM GREGLVDTAVKTA+TGYM RRL+K+LEDL QYD +VR
Sbjct: 832 GFVANSFYSGLTPTEFFFHTMAGREGLVDTAVKTAETGYMQRRLVKSLEDLCSQYDLTVR 891
Query: 763 NAGGCIVQFLYGDDGMDPANMEGKSGEPLNFDRLLMKVKATCPPAGQRYLSPQQVSEIVE 822
++ G I+QF+YG DG+DPA MEGK EPL F R+L +KA P + LS ++ E
Sbjct: 892 SSTGDIIQFIYGGDGLDPAAMEGKD-EPLEFKRVLDNIKAVFPCPSEPALSKNELILTTE 950
Query: 823 KQLAAYGKESCSEAFLNSLRKFFEGQQDKLDKKIKFVEDIGWDDKSQILEEVTHKTSGIT 882
+ C ++FL ++KF +G +K+ K + G +D V ++ IT
Sbjct: 951 SIMKKSEFLCCQDSFLQEIKKFIKGVSEKIKKT---RDKYGINDNGTTEPRVLYQLDRIT 1007
Query: 883 EKQLEVFIQTCFSRYRVKRVEAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNITQGV 942
Q+E F++TC +Y ++E G+A+GA+ AQSIGEPGTQMTLKTFHFAGVASMNIT GV
Sbjct: 1008 PTQVEKFLETCRDKYMRAQMEPGSAVGALCAQSIGEPGTQMTLKTFHFAGVASMNITLGV 1067
Query: 943 PRIKEIINGAKRISTPIITAELECNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLAS 1002
PRIKEIIN +K ISTPIITA+L+ +D+ + AR+VKGRIEKTLLG++++ I+ V
Sbjct: 1068 PRIKEIINASKAISTPIITAQLDKDDDADYARLVKGRIEKTLLGEISEYIEEVFLPDDCF 1127
Query: 1003 IVIALDMETIQDAHLCINADIVKESIVQTPKIKLKQQHIKVLDFRKLEIFPPVD-KSKIH 1061
I++ L +E I+ L +NA+ V+ SI T K+++K + V + + P + KS ++
Sbjct: 1128 ILVKLSLERIRLLRLEVNAETVRYSIC-TSKLRVKPGDVAVHGEAVVCVTPRENSKSSMY 1186
Query: 1062 FELYSLKNVLPMVIVKGIKTVERVVIAEKEKEKRKVKENGEKKKYRLLVEGTGLQAVMGA 1121
+ L LK LP V+V+GI V R VI + E K+KY+LLVEG L+AVM
Sbjct: 1187 YVLQFLKEDLPKVVVQGIPEVSRAVI--------HIDEQSGKEKYKLLVEGDNLRAVMAT 1238
Query: 1122 EGIDGCKTKSNHIFEVQQTLGIEAARICIIDEINETMKAHGMSIDKRHMMLLADLMTFRG 1181
G+ G +T SN+ +EV++TLGIEAAR II+EI TM HGMSID+RH+MLL+DLMT++G
Sbjct: 1239 HGVKGTRTTSNNTYEVEKTLGIEAARTTIINEIQYTMVNHGMSIDRRHVMLLSDLMTYKG 1298
Query: 1182 EVLGITRFGIQKMDKSVLMLASFEKTADHLFNASVNGRDDRIEGVSECIIMGIPMPLGTG 1241
EVLGITRFG+ KM +SVLMLASFEKTADHLF+A+ G+ D + GVSECIIMGIPM +GTG
Sbjct: 1299 EVLGITRFGLAKMKESVLMLASFEKTADHLFDAAYFGQKDSVCGVSECIIMGIPMNIGTG 1358
Query: 1242 ILKIRQ---RDAVPP 1253
+ K+ RD PP
Sbjct: 1359 LFKLLHKADRDPNPP 1373
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DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Largest and catalytic core component of RNA polymerase III which synthesizes small RNAs, such as 5S rRNA and tRNAs. Forms the polymerase active center together with the second largest subunit. A single stranded DNA template strand of the promoter is positioned within the central active site cleft of Pol III. A bridging helix emanates from RPC1 and crosses the cleft near the catalytic site and is thought to promote translocation of Pol III by acting as a ratchet that moves the RNA-DNA hybrid through the active site by switching from straight to bent conformations at each step of nucleotide addition (By similarity). Plays a key role in sensing and limiting infection by intracellular bacteria and DNA viruses. Acts as nuclear and cytosolic DNA sensor involved in innate immune response. Can sense non-self dsDNA that serves as template for transcription into dsRNA. The non-self RNA polymerase III transcripts, such as Epstein-Barr virus-encoded RNAs (EBERs) induce type I interferon and NF- Kappa-B through the RIG-I pathway. Homo sapiens (taxid: 9606) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6 |
| >sp|Q5ZL98|RPC1_CHICK DNA-directed RNA polymerase III subunit RPC1 OS=Gallus gallus GN=POLR3A PE=2 SV=1 | Back alignment and function description |
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| >sp|A4IF62|RPC1_BOVIN DNA-directed RNA polymerase III subunit RPC1 OS=Bos taurus GN=POLR3A PE=2 SV=1 | Back alignment and function description |
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| >sp|O94666|RPC1_SCHPO DNA-directed RNA polymerase III subunit rpc1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpc1 PE=2 SV=1 | Back alignment and function description |
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| >sp|P04051|RPC1_YEAST DNA-directed RNA polymerase III subunit RPC1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPO31 PE=1 SV=1 | Back alignment and function description |
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| >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 | Back alignment and function description |
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| >sp|Q86AQ5|RPC1_DICDI DNA-directed RNA polymerase III subunit rpc1 OS=Dictyostelium discoideum GN=polr3a PE=3 SV=1 | Back alignment and function description |
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| >sp|P25202|RPC1_GIAIN DNA-directed RNA polymerase III subunit RPC1 OS=Giardia intestinalis GN=RPOA3 PE=3 SV=1 | Back alignment and function description |
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| >sp|P08968|RPC1_TRYBB DNA-directed RNA polymerase III subunit RPC1 OS=Trypanosoma brucei brucei PE=3 SV=1 | Back alignment and function description |
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| >sp|P18616|RPB1_ARATH DNA-directed RNA polymerase II subunit RPB1 OS=Arabidopsis thaliana GN=RPB205 PE=1 SV=3 | Back alignment and function description |
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Close Homologs in the Non-Redundant Database Detected by BLAST
Original result of BLAST against Nonredundant Database
| GI | Alignment Graph | Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 1265 | ||||||
| 225435153 | 1383 | PREDICTED: DNA-directed RNA polymerase I | 0.981 | 0.897 | 0.752 | 0.0 | |
| 255582063 | 1383 | DNA-directed RNA polymerase III largest | 0.993 | 0.908 | 0.734 | 0.0 | |
| 224060165 | 1394 | predicted protein [Populus trichocarpa] | 0.981 | 0.890 | 0.737 | 0.0 | |
| 449462093 | 1400 | PREDICTED: DNA-directed RNA polymerase I | 0.979 | 0.885 | 0.728 | 0.0 | |
| 356541271 | 1391 | PREDICTED: DNA-directed RNA polymerase I | 0.985 | 0.896 | 0.692 | 0.0 | |
| 297793561 | 1376 | hypothetical protein ARALYDRAFT_496142 [ | 0.977 | 0.898 | 0.683 | 0.0 | |
| 145359470 | 1376 | nuclear RNA polymerase C1 [Arabidopsis t | 0.977 | 0.898 | 0.683 | 0.0 | |
| 8777343 | 1383 | DNA-directed RNA polymerase II largest c | 0.977 | 0.893 | 0.676 | 0.0 | |
| 334188504 | 1391 | nuclear RNA polymerase C1 [Arabidopsis t | 0.971 | 0.883 | 0.672 | 0.0 | |
| 115459150 | 1383 | Os04g0492300 [Oryza sativa Japonica Grou | 0.979 | 0.895 | 0.649 | 0.0 |
| >gi|225435153|ref|XP_002284657.1| PREDICTED: DNA-directed RNA polymerase III subunit rpc1-like [Vitis vinifera] | Back alignment and taxonomy information |
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Score = 1932 bits (5006), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 959/1275 (75%), Positives = 1074/1275 (84%), Gaps = 34/1275 (2%)
Query: 1 MRNPKMEALRKTDLMKSIVKKCSTMAS--KAVKCPRCGYINGMVKKAVAVLGIIHDRSKV 58
MR+ KMEAL+K +LMK IV+KC+ MAS KAVKC RCGY+NG+VKKAV+VLGIIHDRSK+
Sbjct: 133 MRSQKMEALKKAELMKKIVQKCTAMASSKKAVKCSRCGYMNGIVKKAVSVLGIIHDRSKI 192
Query: 59 TE-SLQEFASAITHTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLSERPEKLII 117
+ SL+E +SAI+HTKESKA+ +V ILNPV VL LFKRM D DC++L L+ERPEKL++
Sbjct: 193 ADGSLEECSSAISHTKESKASFSVVD-ILNPVKVLSLFKRMMDEDCDLLNLAERPEKLVL 251
Query: 118 TNIAVPPIAIRPSVIMDG-SQSNENDITERLKRIIQTNASLQQELVEANSAFKSLAGWET 176
TNI VPPIAIRPSV MDG +QSNEND+TERLKRIIQ NASL QEL + S K LAGW+
Sbjct: 252 TNIGVPPIAIRPSVFMDGGTQSNENDVTERLKRIIQANASLHQELQDTGSTSKCLAGWDY 311
Query: 177 LQVEVAQYINSDVRGVPFSMQVARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPD 236
LQ+EVAQYINSDVRGVP +MQ ARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPD
Sbjct: 312 LQIEVAQYINSDVRGVPLAMQAARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPD 371
Query: 237 PNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYPDGTARVLY 296
PNLKITEVAIPI MA+IL+YPERVS HNIEKLRQCI NGP KYPGA++IRYPDG+ R L
Sbjct: 372 PNLKITEVAIPILMAKILSYPERVSHHNIEKLRQCILNGPFKYPGAKLIRYPDGSMRSLM 431
Query: 297 GKFRNQLAVELKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVC 356
R + A ELK G IV+RHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVC
Sbjct: 432 FSGRKRFADELKYGYIVERHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVC 491
Query: 357 NPYNADFDGDEMNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDFLTSSFLIT 416
NPYNADFDGDEMNMHVPQTEEARTEAL+LMGVQNNLCTPKNGEILVASTQDFLTSSFLIT
Sbjct: 492 NPYNADFDGDEMNMHVPQTEEARTEALMLMGVQNNLCTPKNGEILVASTQDFLTSSFLIT 551
Query: 417 RKDTFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPHANMRVYVN 476
RKDTFYDRAAFSLMC YMGDGMD VDLPTPAI+KPVELWTGKQLF+VL+RPHAN+RVY+N
Sbjct: 552 RKDTFYDRAAFSLMCSYMGDGMDLVDLPTPAIIKPVELWTGKQLFNVLLRPHANVRVYLN 611
Query: 477 LTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYS 536
LTV EKTY+ + + ETMCP+DGFVYFRNSELISGQLGKATLGNGNKDGL+S
Sbjct: 612 LTVMEKTYNKRRGK---------ETMCPSDGFVYFRNSELISGQLGKATLGNGNKDGLFS 662
Query: 537 VLLRDYGAHATSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISENYEVCN 596
VLLRDY AHA + CMNRLAKLSARWIGNHGFSIGIDDVQP L+D+K K I E YE C+
Sbjct: 663 VLLRDYNAHAAAACMNRLAKLSARWIGNHGFSIGIDDVQPGGLLNDQKSKRIEEGYENCH 722
Query: 597 VKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSPLIMSQCGS 656
I++YN+GKL+L+PGC+AAQTLEA IT +LN+IRE CM L WRNSPLIMSQCGS
Sbjct: 723 ELIQQYNKGKLKLQPGCNAAQTLEAEITGVLNKIRETTANVCMEELHWRNSPLIMSQCGS 782
Query: 657 KGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFYSGLSAT 716
KGSPINISQM+ACVGQQSVGGRRAP+GFIDR+LPHFPRK+K P AKGFVA+SFY+GL+AT
Sbjct: 783 KGSPINISQMIACVGQQSVGGRRAPDGFIDRTLPHFPRKSKTPDAKGFVASSFYTGLTAT 842
Query: 717 EFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQFLYGDD 776
EFFFHTMGGREGLVDTAVKTADTGYMSRRL+KALEDLSIQYD +VRNA G IVQFLYGDD
Sbjct: 843 EFFFHTMGGREGLVDTAVKTADTGYMSRRLMKALEDLSIQYDETVRNANGSIVQFLYGDD 902
Query: 777 GMDPANMEGKSGEPLNFDRLLMKVKATCPPAGQRYLSPQQVSEIVEKQLAAY--GKESCS 834
GMDPA MEGK G PLNF+RL +KVKATCP LS Q+ E V K+L + E CS
Sbjct: 903 GMDPARMEGKDGFPLNFNRLFLKVKATCPAGENASLSALQIEETV-KRLKEHNTSAEGCS 961
Query: 835 EAFLNSLRKFFEGQQDKLDKKIKFV----EDIGWDDKSQILEEVTHKTSGITEKQLEVFI 890
+AF +L F E ++K + + E +G ++ I E+ SGIT KQL+VF+
Sbjct: 962 DAFKTNLSGFLEECKEKFKNTREALGLHGEHVG-EENLDIQEKFAKNISGITSKQLQVFL 1020
Query: 891 QTCFSRYRVKRVEAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNITQGVPRIKEIIN 950
TC SRY++KR+EAGTAIGAIGA SIGEPGTQMTLKTFHFAGVASMN+T GVPRIKEIIN
Sbjct: 1021 DTCISRYQLKRIEAGTAIGAIGAHSIGEPGTQMTLKTFHFAGVASMNVTLGVPRIKEIIN 1080
Query: 951 GAKRISTPIITAELECNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDME 1010
GAKRISTPIITA LECN+N AR+VKGRIE+T LGQVAKSIKIV+TSRLA I +ALDME
Sbjct: 1081 GAKRISTPIITAALECNNNVKTARMVKGRIERTTLGQVAKSIKIVLTSRLALIAVALDME 1140
Query: 1011 TIQDAHLCINADIVKESIVQTPKIKLKQQHIKVLDFRKLEIFPPVDKSKIHFELYSLKNV 1070
IQ + L I+++IV+ESI++ +IKLKQQHIKVLD KLE+ P D+S IHFEL++LKN+
Sbjct: 1141 GIQASQLSIDSNIVRESILRNRRIKLKQQHIKVLDAGKLEVHPQGDRSTIHFELHALKNL 1200
Query: 1071 LPMVIVKGIKTVERVVIAEKEKEKRKVKENGEKKKYRLLVEGTGLQAVMGAEGIDGCKTK 1130
LP V+VKGI+TVER VI K+N K KY LLVEGTGLQ VMG EG+ G +T
Sbjct: 1201 LPTVVVKGIETVERAVIN---------KDN--KVKYNLLVEGTGLQTVMGTEGVIGRETT 1249
Query: 1131 SNHIFEVQQTLGIEAARICIIDEINETMKAHGMSIDKRHMMLLADLMTFRGEVLGITRFG 1190
SNHI EVQQTLGIEAAR CII+EI TM +HGMSID RHMMLLADLMTFRGEVLGITRFG
Sbjct: 1250 SNHIIEVQQTLGIEAARKCIINEIQYTMASHGMSIDIRHMMLLADLMTFRGEVLGITRFG 1309
Query: 1191 IQKMDKSVLMLASFEKTADHLFNASVNGRDDRIEGVSECIIMGIPMPLGTGILKIRQRDA 1250
IQKMDKSVLMLASFEKTADHLFNASV+GRDD+IEGVSECIIMGIPM LGTGILK+RQR
Sbjct: 1310 IQKMDKSVLMLASFEKTADHLFNASVSGRDDKIEGVSECIIMGIPMQLGTGILKVRQRLQ 1369
Query: 1251 VPPMLKYGAPDPIMS 1265
P L YG DPI+S
Sbjct: 1370 QVPELSYGL-DPIIS 1383
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Source: Vitis vinifera Species: Vitis vinifera Genus: Vitis Family: Vitaceae Order: Vitales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|255582063|ref|XP_002531828.1| DNA-directed RNA polymerase III largest subunit, putative [Ricinus communis] gi|223528524|gb|EEF30548.1| DNA-directed RNA polymerase III largest subunit, putative [Ricinus communis] | Back alignment and taxonomy information |
|---|
| >gi|224060165|ref|XP_002300065.1| predicted protein [Populus trichocarpa] gi|222847323|gb|EEE84870.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
|---|
| >gi|449462093|ref|XP_004148776.1| PREDICTED: DNA-directed RNA polymerase III subunit rpc1-like [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|356541271|ref|XP_003539102.1| PREDICTED: DNA-directed RNA polymerase III subunit rpc1-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|297793561|ref|XP_002864665.1| hypothetical protein ARALYDRAFT_496142 [Arabidopsis lyrata subsp. lyrata] gi|297310500|gb|EFH40924.1| hypothetical protein ARALYDRAFT_496142 [Arabidopsis lyrata subsp. lyrata] | Back alignment and taxonomy information |
|---|
| >gi|145359470|ref|NP_200812.2| nuclear RNA polymerase C1 [Arabidopsis thaliana] gi|332009886|gb|AED97269.1| nuclear RNA polymerase C1 [Arabidopsis thaliana] | Back alignment and taxonomy information |
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| >gi|8777343|dbj|BAA96933.1| DNA-directed RNA polymerase II largest chain [Arabidopsis thaliana] | Back alignment and taxonomy information |
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| >gi|334188504|ref|NP_001190573.1| nuclear RNA polymerase C1 [Arabidopsis thaliana] gi|332009887|gb|AED97270.1| nuclear RNA polymerase C1 [Arabidopsis thaliana] | Back alignment and taxonomy information |
|---|
| >gi|115459150|ref|NP_001053175.1| Os04g0492300 [Oryza sativa Japonica Group] gi|38346223|emb|CAE02045.2| OJ990528_30.3 [Oryza sativa Japonica Group] gi|38347455|emb|CAD41360.2| OSJNBa0076N16.24 [Oryza sativa Japonica Group] gi|113564746|dbj|BAF15089.1| Os04g0492300 [Oryza sativa Japonica Group] gi|116310339|emb|CAH67354.1| OSIGBa0130B08.14 [Oryza sativa Indica Group] gi|116310740|emb|CAH67535.1| H0425E08.3 [Oryza sativa Indica Group] gi|215768005|dbj|BAH00234.1| unnamed protein product [Oryza sativa Japonica Group] gi|218195112|gb|EEC77539.1| hypothetical protein OsI_16437 [Oryza sativa Indica Group] | Back alignment and taxonomy information |
|---|
Prediction of Gene Ontology (GO) Terms
Close Homologs with Gene Ontology terms Detected by BLAST
Original result of BLAST against Gene Ontology (AMIGO)
| ID |
Alignment graph |
Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 1265 | ||||||
| DICTYBASE|DDB_G0277199 | 1450 | rpc1 "RNA polymerase III, larg | 0.655 | 0.571 | 0.528 | 0.0 | |
| UNIPROTKB|O14802 | 1390 | POLR3A "DNA-directed RNA polym | 0.966 | 0.879 | 0.505 | 8.29999998789e-316 | |
| UNIPROTKB|F1S2E6 | 1390 | POLR3A "DNA-directed RNA polym | 0.966 | 0.879 | 0.504 | 5.7999999991e-315 | |
| UNIPROTKB|F1NIK7 | 1390 | POLR3A "DNA-directed RNA polym | 0.966 | 0.879 | 0.503 | 1.90000000008e-314 | |
| UNIPROTKB|Q5ZL98 | 1390 | POLR3A "DNA-directed RNA polym | 0.966 | 0.879 | 0.503 | 3.90000000001e-314 | |
| UNIPROTKB|A4IF62 | 1390 | POLR3A "DNA-directed RNA polym | 0.966 | 0.879 | 0.501 | 4.1000000002e-314 | |
| UNIPROTKB|J9P629 | 1390 | POLR3A "DNA-directed RNA polym | 0.966 | 0.879 | 0.501 | 5.20000000001e-314 | |
| ZFIN|ZDB-GENE-050208-103 | 1390 | polr3a "polymerase (RNA) III ( | 0.973 | 0.885 | 0.494 | 1.5e-312 | |
| SGD|S000005642 | 1460 | RPO31 "RNA polymerase III larg | 0.585 | 0.507 | 0.519 | 3.6e-306 | |
| UNIPROTKB|E9PTB6 | 1342 | Polr3a "DNA-directed RNA polym | 0.944 | 0.890 | 0.5 | 1.2e-305 |
| DICTYBASE|DDB_G0277199 rpc1 "RNA polymerase III, largest subunit" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
|---|
Score = 2302 (815.4 bits), Expect = 0., Sum P(2) = 0.
Identities = 454/859 (52%), Positives = 601/859 (69%)
Query: 1 MRNPKMEALRKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSK-VT 59
MRN KM+ L++ L+K I +C K +C +CG NGM+KK+ A IIH++ K T
Sbjct: 127 MRNKKMDNLQRKSLLKKIFLECR----KTKECLKCGSTNGMIKKSGA-FKIIHEKYKGKT 181
Query: 60 ESLQEFAS----AITHTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLSE---RP 112
ESLQ++ + AI + E K+ + A LNP+ L LFK+++ D E++ + RP
Sbjct: 182 ESLQDYYALYDDAIKYNPEMKSHIKKAQDDLNPLVALNLFKKISYQDIEIMNMDPVIGRP 241
Query: 113 EKLIITNIAVPPIAIRPSVIMDG-SQSNENDITERLKRIIQTNASLQQELVEANSAFKSL 171
E+LI+T + VPP++IRPSV MDG S +NE+D+T +L I+ N ++ + A + +
Sbjct: 242 ERLILTYMLVPPVSIRPSVPMDGGSGTNEDDLTMKLSEILHINEHIRSNVDRAEMS-AIM 300
Query: 172 AGWETLQVEVAQYINSDVRGVPFSMQVARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRT 231
W+ LQ A YINSDV G+P M+ + + G QRLKGK GRFRGNLSGKRV+++GRT
Sbjct: 301 EDWDYLQASCAIYINSDVPGLPLQMKPTKAVRGLSQRLKGKTGRFRGNLSGKRVDFSGRT 360
Query: 232 VISPDPNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYPDGT 291
VISPDPNL I EVA+P +A +TYPERV+D+NIE+L++ + NGPD++PGA I Y DG
Sbjct: 361 VISPDPNLNIDEVAVPQLIALTMTYPERVTDYNIERLQKYVINGPDRHPGANYIIYADGV 420
Query: 292 ARVL-YGKFRNQLAVELKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLR 350
+ L +G R + A ELK G IV+RH+ DGD++LFNRQPSLH++SIM H+AR+MPWRTLR
Sbjct: 421 KKWLKFGN-REKFAAELKIGDIVERHIIDGDIMLFNRQPSLHKLSIMSHKARVMPWRTLR 479
Query: 351 FNESVCNPYNADFDGDEMNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDFLT 410
FNE VC PYNADFDGDEMN+H+PQTEEAR EA +LMGV NNL TP+NGE LVA+TQDFLT
Sbjct: 480 FNECVCTPYNADFDGDEMNIHLPQTEEARAEATILMGVTNNLITPRNGEPLVAATQDFLT 539
Query: 411 SSFLITRKDTFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPHAN 470
+S+LI+R+D FY+R F+LMC + D + +DLP PAILKPVELWTGKQ+F VL+RP
Sbjct: 540 ASYLISRRDAFYERYRFALMCTHFADANEHIDLPPPAILKPVELWTGKQIFEVLLRPSVK 599
Query: 471 MRVYVNLTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGN 530
V N + +TYS L MCP DG+VYFRNSEL+ G + K+ +G GN
Sbjct: 600 SHVLCNFETRSRTYSKNLY------------MCPKDGYVYFRNSELMCGSIDKSIIGGGN 647
Query: 531 KDGLYSVLLRDYGAHATSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISE 590
K+ L+ +L+RD+ + CM RLAKL AR++G+ GFSIGI D++P ++L KK ++I
Sbjct: 648 KNSLFHILMRDFSPTIAANCMTRLAKLCARFLGDQGFSIGIPDIKPAEDLDRKKREIIET 707
Query: 591 NYEVCNVKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSPLI 650
Y+ C V +K+Y G LQL GC QT EA + L++IR+D GK C+ LP NSPLI
Sbjct: 708 AYKKCAVFLKDYESGSLQLSSGCSMEQTFEAKMNQTLSQIRDDCGKLCVNDLPNYNSPLI 767
Query: 651 MSQCGSKGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFY 710
M CGSKGS INI+QM+ CVGQQ V G R PNGF +R+ PHF AK P +KGFV+NSFY
Sbjct: 768 MGLCGSKGSNINIAQMICCVGQQIVNGTRIPNGFTNRTTPHFKHFAKNPKSKGFVSNSFY 827
Query: 711 SGLSATEFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQ 770
+G+ TEFFFHTMGGREGLVDTAVKTA+TGYM RRL+KALEDLS YD +VR++ G IVQ
Sbjct: 828 TGMIPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLMKALEDLSTHYDYTVRDSIGGIVQ 887
Query: 771 FLYGDDGMDPANMEGKSGEPLNFDRLLMKVKATCPPAGQRYLSPQQVSEIVEKQLAAYGK 830
F+YGDDG+DPA ME K P++F R +M VK+T + + P ++ ++VE + +
Sbjct: 888 FIYGDDGLDPAGMEAKD-RPVDFLRAMMSVKSTRQCRNEPEMKPFEIRKLVESIIDSSKF 946
Query: 831 ESCSEAFLNSLRKFFEGQQ 849
E+C++ F N +R FF G +
Sbjct: 947 EACTDLFKNEIRVFFNGNE 965
|
|
| UNIPROTKB|O14802 POLR3A "DNA-directed RNA polymerase III subunit RPC1" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|F1S2E6 POLR3A "DNA-directed RNA polymerase" [Sus scrofa (taxid:9823)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|F1NIK7 POLR3A "DNA-directed RNA polymerase" [Gallus gallus (taxid:9031)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|Q5ZL98 POLR3A "DNA-directed RNA polymerase III subunit RPC1" [Gallus gallus (taxid:9031)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|A4IF62 POLR3A "DNA-directed RNA polymerase III subunit RPC1" [Bos taurus (taxid:9913)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|J9P629 POLR3A "DNA-directed RNA polymerase" [Canis lupus familiaris (taxid:9615)] | Back alignment and assigned GO terms |
|---|
| ZFIN|ZDB-GENE-050208-103 polr3a "polymerase (RNA) III (DNA directed) polypeptide A" [Danio rerio (taxid:7955)] | Back alignment and assigned GO terms |
|---|
| SGD|S000005642 RPO31 "RNA polymerase III largest subunit C160" [Saccharomyces cerevisiae (taxid:4932)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|E9PTB6 Polr3a "DNA-directed RNA polymerase" [Rattus norvegicus (taxid:10116)] | Back alignment and assigned GO terms |
|---|
Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
| ID | Name | Annotated EC number | Identity | Query coverage | Hit coverage | RBH(Q2H) | RBH(H2Q) |
| O94666 | RPC1_SCHPO | 2, ., 7, ., 7, ., 6 | 0.4812 | 0.9644 | 0.8683 | yes | no |
| Q6BI69 | RPC1_DEBHA | 2, ., 7, ., 7, ., 6 | 0.4642 | 0.9652 | 0.8380 | yes | no |
| O14802 | RPC1_HUMAN | 2, ., 7, ., 7, ., 6 | 0.5098 | 0.9667 | 0.8798 | yes | no |
| Q5ZL98 | RPC1_CHICK | 2, ., 7, ., 7, ., 6 | 0.5082 | 0.9667 | 0.8798 | yes | no |
| P04051 | RPC1_YEAST | 2, ., 7, ., 7, ., 6 | 0.4679 | 0.9715 | 0.8417 | yes | no |
| A4IF62 | RPC1_BOVIN | 2, ., 7, ., 7, ., 6 | 0.5086 | 0.9660 | 0.8791 | yes | no |
EC Number Prediction by Ezypred Server
Original result from Ezypred Server
Fail to connect to Ezypred Server
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | 0.921 |
| 4th Layer | 2.7.7.6 | 0.914 |
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
Fail to connect to STRING server
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 1265 | |||
| PRK08566 | 882 | PRK08566, PRK08566, DNA-directed RNA polymerase su | 0.0 | |
| PRK14977 | 1321 | PRK14977, PRK14977, bifunctional DNA-directed RNA | 0.0 | |
| TIGR02390 | 867 | TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymer | 0.0 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 0.0 | |
| cd02736 | 300 | cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) o | 1e-172 | |
| pfam04998 | 447 | pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, do | 1e-138 | |
| smart00663 | 295 | smart00663, RPOLA_N, RNA polymerase I subunit A N- | 1e-132 | |
| cd06528 | 363 | cd06528, RNAP_A'', A'' subunit of Archaeal RNA Pol | 2e-94 | |
| PRK04309 | 383 | PRK04309, PRK04309, DNA-directed RNA polymerase su | 5e-93 | |
| TIGR02389 | 367 | TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymer | 2e-88 | |
| pfam00623 | 165 | pfam00623, RNA_pol_Rpb1_2, RNA polymerase Rpb1, do | 4e-87 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 8e-79 | |
| PRK14897 | 509 | PRK14897, PRK14897, unknown domain/DNA-directed RN | 1e-75 | |
| TIGR02386 | 1140 | TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, | 1e-59 | |
| PRK14898 | 858 | PRK14898, PRK14898, DNA-directed RNA polymerase su | 2e-57 | |
| cd02735 | 309 | cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of | 1e-53 | |
| PRK14906 | 1460 | PRK14906, PRK14906, DNA-directed RNA polymerase su | 5e-50 | |
| pfam04983 | 158 | pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, do | 1e-41 | |
| cd00630 | 158 | cd00630, RNAP_largest_subunit_C, Largest subunit o | 2e-40 | |
| pfam04997 | 330 | pfam04997, RNA_pol_Rpb1_1, RNA polymerase Rpb1, do | 8e-40 | |
| TIGR02387 | 619 | TIGR02387, rpoC1_cyan, DNA-directed RNA polymerase | 2e-39 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 9e-39 | |
| PRK02625 | 627 | PRK02625, rpoC1, DNA-directed RNA polymerase subun | 6e-37 | |
| CHL00018 | 663 | CHL00018, rpoC1, RNA polymerase beta' subunit | 2e-34 | |
| pfam05000 | 108 | pfam05000, RNA_pol_Rpb1_4, RNA polymerase Rpb1, do | 3e-34 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 1e-31 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 5e-24 | |
| cd00630 | 158 | cd00630, RNAP_largest_subunit_C, Largest subunit o | 1e-20 | |
| cd02655 | 204 | cd02655, RNAP_beta'_C, Largest subunit (beta') of | 3e-18 | |
| TIGR02386 | 1140 | TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, | 3e-16 | |
| PRK00566 | 1156 | PRK00566, PRK00566, DNA-directed RNA polymerase su | 7e-15 | |
| PRK00566 | 1156 | PRK00566, PRK00566, DNA-directed RNA polymerase su | 2e-14 | |
| PRK00566 | 1156 | PRK00566, PRK00566, DNA-directed RNA polymerase su | 2e-14 | |
| PRK14906 | 1460 | PRK14906, PRK14906, DNA-directed RNA polymerase su | 8e-14 | |
| PRK00566 | 1156 | PRK00566, PRK00566, DNA-directed RNA polymerase su | 3e-13 | |
| cd02737 | 381 | cd02737, RNAP_IV_NRPD1_C, Largest subunit (NRPD1) | 3e-11 | |
| TIGR02388 | 1227 | TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase | 1e-10 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 2e-10 | |
| CHL00117 | 1364 | CHL00117, rpoC2, RNA polymerase beta'' subunit; Re | 4e-09 | |
| PRK02597 | 1331 | PRK02597, rpoC2, DNA-directed RNA polymerase subun | 4e-09 | |
| TIGR02386 | 1140 | TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, | 1e-08 | |
| PRK02597 | 1331 | PRK02597, rpoC2, DNA-directed RNA polymerase subun | 3e-08 | |
| PRK14898 | 858 | PRK14898, PRK14898, DNA-directed RNA polymerase su | 1e-07 | |
| CHL00117 | 1364 | CHL00117, rpoC2, RNA polymerase beta'' subunit; Re | 2e-07 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 3e-07 | |
| TIGR02388 | 1227 | TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase | 3e-07 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 2e-06 | |
| cd02655 | 204 | cd02655, RNAP_beta'_C, Largest subunit (beta') of | 1e-05 | |
| PRK00566 | 1156 | PRK00566, PRK00566, DNA-directed RNA polymerase su | 2e-05 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 7e-05 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 7e-04 | |
| PRK14906 | 1460 | PRK14906, PRK14906, DNA-directed RNA polymerase su | 0.004 |
| >gnl|CDD|236292 PRK08566, PRK08566, DNA-directed RNA polymerase subunit A'; Validated | Back alignment and domain information |
|---|
Score = 758 bits (1959), Expect = 0.0
Identities = 325/814 (39%), Positives = 480/814 (58%), Gaps = 71/814 (8%)
Query: 5 KMEALRK-----TDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSKVT 59
K+E L++ DL+K + K+ A+K + CP CG I + K T
Sbjct: 120 KLERLKEWGSLADDLIKEVKKE----AAKRMVCPHCGEKQ---------YKIKFE--KPT 164
Query: 60 ESLQEFASAITHTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYL---SERPEKLI 116
+E L P ++ +++ D D E+L + RPE ++
Sbjct: 165 TFYEER--------------KEGLVKLTPSDIRERLEKIPDEDLELLGINPEVARPEWMV 210
Query: 117 ITNIAVPPIAIRPSVIMDGSQSNENDITERLKRIIQTNASLQQELVEANSA---FKSLAG 173
+T + VPP+ +RPS+ ++ Q +E+D+T +L II+ N L+ E +EA + + L
Sbjct: 211 LTVLPVPPVTVRPSITLETGQRSEDDLTHKLVDIIRINQRLK-ENIEAGAPQLIIEDL-- 267
Query: 174 WETLQVEVAQYINSDVRGVPFSMQVA-----RPLSGFVQRLKGKQGRFRGNLSGKRVEYT 228
WE LQ V Y ++++ G+P A RPL QRLKGK+GRFRGNLSGKRV ++
Sbjct: 268 WELLQYHVTTYFDNEIPGIP----PARHRSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFS 323
Query: 229 GRTVISPDPNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYP 288
RTVISPDPNL I EV +P +A+ LT PERV++ NIE+LR+ + NGP+K+PGA + P
Sbjct: 324 ARTVISPDPNLSINEVGVPEAIAKELTVPERVTEWNIEELREYVLNGPEKHPGANYVIRP 383
Query: 289 DGTARVLYGKFRNQLAVELKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRT 348
DG L K + +LA +L+ G IV+RHL DGD+VLFNRQPSLHRMSIM HR R++P +T
Sbjct: 384 DGRRIKLTDKNKEELAEKLEPGWIVERHLIDGDIVLFNRQPSLHRMSIMAHRVRVLPGKT 443
Query: 349 LRFNESVCNPYNADFDGDEMNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDF 408
R N +VC PYNADFDGDEMN+HVPQTEEAR EA +LM VQ ++ +P+ G ++ QD
Sbjct: 444 FRLNLAVCPPYNADFDGDEMNLHVPQTEEARAEARILMLVQEHILSPRYGGPIIGGIQDH 503
Query: 409 LTSSFLITRKDTFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPH 468
++ ++L+TRK T + + + G+D + P PAI WTGKQ+FS+ + P
Sbjct: 504 ISGAYLLTRKSTLFTKEEALDLLRAA--GIDELPEPEPAIENGKPYWTGKQIFSLFL-PK 560
Query: 469 ANMRVYVNLTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGN 528
+L ++ K E+ C +D +V +N +L+ G + K +G
Sbjct: 561 -------DLNLEFKAKICSGCDECKKED------CEHDAYVVIKNGKLLEGVIDKKAIGA 607
Query: 529 GNKDGLYSVLLRDYGAHATSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLI 588
+ + ++++YG ++ + +L+ R+I GF+ GIDD +E ++ ++I
Sbjct: 608 E-QGSILDRIVKEYGPERARRFLDSVTRLAIRFIMLRGFTTGIDDEDIPEEAKEEIDEII 666
Query: 589 SENYEVCNVKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSP 648
E + I+ Y G+L+ PG +TLE I +L + R++AG+ L N
Sbjct: 667 EEAEKRVEELIEAYENGELEPLPGRTLEETLEMKIMQVLGKARDEAGEIAEKYLGLDNPA 726
Query: 649 LIMSQCGSKGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANS 708
+IM++ G++GS +N++QM ACVGQQSV G R G+ DR+LPHF A+GFV +S
Sbjct: 727 VIMARTGARGSMLNLTQMAACVGQQSVRGERIRRGYRDRTLPHFKPGDLGAEARGFVRSS 786
Query: 709 FYSGLSATEFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCI 768
+ SGL+ TEFFFH MGGREGLVDTAV+T+ +GYM RRLI AL+DL ++YD +VR+ G I
Sbjct: 787 YKSGLTPTEFFFHAMGGREGLVDTAVRTSQSGYMQRRLINALQDLKVEYDGTVRDTRGNI 846
Query: 769 VQFLYGDDGMDPANMEGKSGEPLNFDRLLMKVKA 802
VQF YG+DG+DP M+ G+P++ DR++ +V
Sbjct: 847 VQFKYGEDGVDP--MKSDHGKPVDVDRIIERVLG 878
|
Length = 882 |
| >gnl|CDD|184940 PRK14977, PRK14977, bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|233843 TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymerase subunit A' | Back alignment and domain information |
|---|
| >gnl|CDD|223164 COG0086, RpoC, DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >gnl|CDD|132723 cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|147266 pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, domain 5 | Back alignment and domain information |
|---|
| >gnl|CDD|214767 smart00663, RPOLA_N, RNA polymerase I subunit A N-terminus | Back alignment and domain information |
|---|
| >gnl|CDD|132725 cd06528, RNAP_A'', A'' subunit of Archaeal RNA Polymerase (RNAP) | Back alignment and domain information |
|---|
| >gnl|CDD|235277 PRK04309, PRK04309, DNA-directed RNA polymerase subunit A''; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|233842 TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymerase, subunit A'' | Back alignment and domain information |
|---|
| >gnl|CDD|216030 pfam00623, RNA_pol_Rpb1_2, RNA polymerase Rpb1, domain 2 | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|237853 PRK14897, PRK14897, unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|233840 TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, beta' subunit, predominant form | Back alignment and domain information |
|---|
| >gnl|CDD|237854 PRK14898, PRK14898, DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132722 cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|218361 pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, domain 3 | Back alignment and domain information |
|---|
| >gnl|CDD|132719 cd00630, RNAP_largest_subunit_C, Largest subunit of RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|218370 pfam04997, RNA_pol_Rpb1_1, RNA polymerase Rpb1, domain 1 | Back alignment and domain information |
|---|
| >gnl|CDD|131440 TIGR02387, rpoC1_cyan, DNA-directed RNA polymerase, gamma subunit | Back alignment and domain information |
|---|
| >gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|235055 PRK02625, rpoC1, DNA-directed RNA polymerase subunit gamma; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|214336 CHL00018, rpoC1, RNA polymerase beta' subunit | Back alignment and domain information |
|---|
| >gnl|CDD|218372 pfam05000, RNA_pol_Rpb1_4, RNA polymerase Rpb1, domain 4 | Back alignment and domain information |
|---|
| >gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|223164 COG0086, RpoC, DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >gnl|CDD|132719 cd00630, RNAP_largest_subunit_C, Largest subunit of RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132721 cd02655, RNAP_beta'_C, Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|233840 TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, beta' subunit, predominant form | Back alignment and domain information |
|---|
| >gnl|CDD|234794 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|234794 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|234794 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|234794 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132724 cd02737, RNAP_IV_NRPD1_C, Largest subunit (NRPD1) of Higher plant RNA polymerase IV, C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|233841 TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase, beta'' subunit | Back alignment and domain information |
|---|
| >gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|214368 CHL00117, rpoC2, RNA polymerase beta'' subunit; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|235052 PRK02597, rpoC2, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|233840 TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, beta' subunit, predominant form | Back alignment and domain information |
|---|
| >gnl|CDD|235052 PRK02597, rpoC2, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|237854 PRK14898, PRK14898, DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|214368 CHL00117, rpoC2, RNA polymerase beta'' subunit; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|233841 TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase, beta'' subunit | Back alignment and domain information |
|---|
| >gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132721 cd02655, RNAP_beta'_C, Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|234794 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1265 | |||
| KOG0261 | 1386 | consensus RNA polymerase III, large subunit [Trans | 100.0 | |
| PRK14977 | 1321 | bifunctional DNA-directed RNA polymerase A'/A'' su | 100.0 | |
| KOG0262 | 1640 | consensus RNA polymerase I, large subunit [Transcr | 100.0 | |
| KOG0260 | 1605 | consensus RNA polymerase II, large subunit [Transc | 100.0 | |
| TIGR02390 | 868 | RNA_pol_rpoA1 DNA-directed RNA polymerase subunit | 100.0 | |
| PRK08566 | 882 | DNA-directed RNA polymerase subunit A'; Validated | 100.0 | |
| TIGR02386 | 1140 | rpoC_TIGR DNA-directed RNA polymerase, beta' subun | 100.0 | |
| PRK00566 | 1156 | DNA-directed RNA polymerase subunit beta'; Provisi | 100.0 | |
| PRK14906 | 1460 | DNA-directed RNA polymerase subunit beta'/alpha do | 100.0 | |
| PRK09603 | 2890 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| PRK14844 | 2836 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 100.0 | |
| smart00663 | 295 | RPOLA_N RNA polymerase I subunit A N-terminus. | 100.0 | |
| TIGR02389 | 367 | RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit | 100.0 | |
| cd02584 | 410 | RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryoti | 100.0 | |
| cd06528 | 363 | RNAP_A'' A'' subunit of Archaeal RNA Polymerase (R | 100.0 | |
| PRK14897 | 509 | unknown domain/DNA-directed RNA polymerase subunit | 100.0 | |
| PRK04309 | 383 | DNA-directed RNA polymerase subunit A''; Validated | 100.0 | |
| PRK02625 | 627 | rpoC1 DNA-directed RNA polymerase subunit gamma; P | 100.0 | |
| cd02736 | 300 | RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryot | 100.0 | |
| CHL00018 | 663 | rpoC1 RNA polymerase beta' subunit | 100.0 | |
| TIGR02387 | 619 | rpoC1_cyan DNA-directed RNA polymerase, gamma subu | 100.0 | |
| cd02735 | 309 | RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic | 100.0 | |
| PF04998 | 277 | RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; Int | 100.0 | |
| cd02737 | 381 | RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher | 100.0 | |
| PRK02597 | 1331 | rpoC2 DNA-directed RNA polymerase subunit beta'; P | 100.0 | |
| TIGR02388 | 1227 | rpoC2_cyan DNA-directed RNA polymerase, beta'' sub | 100.0 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 100.0 | |
| CHL00117 | 1364 | rpoC2 RNA polymerase beta'' subunit; Reviewed | 100.0 | |
| PF00623 | 166 | RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; Int | 100.0 | |
| cd00630 | 158 | RNAP_largest_subunit_C Largest subunit of RNA poly | 100.0 | |
| cd02655 | 204 | RNAP_beta'_C Largest subunit (beta') of Bacterial | 100.0 | |
| PF04983 | 158 | RNA_pol_Rpb1_3: RNA polymerase Rpb1, domain 3; Int | 99.96 | |
| PF04997 | 337 | RNA_pol_Rpb1_1: RNA polymerase Rpb1, domain 1; Int | 99.96 | |
| PF05000 | 108 | RNA_pol_Rpb1_4: RNA polymerase Rpb1, domain 4; Int | 99.88 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 99.78 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 98.84 | |
| PF04992 | 187 | RNA_pol_Rpb1_6: RNA polymerase Rpb1, domain 6; Int | 84.47 |
| >KOG0261 consensus RNA polymerase III, large subunit [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=0 Score=2866.60 Aligned_cols=1223 Identities=58% Similarity=0.940 Sum_probs=1157.3
Q ss_pred CCCCchhHHHHHHHHHHHHHHhhhcCCCCCcCCCCCCCCCcEEecceeeeEEEeccc--------chhhHHHHhhhhhcc
Q 000829 1 MRNPKMEALRKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSK--------VTESLQEFASAITHT 72 (1265)
Q Consensus 1 ~~~~~~~~~~r~~~~k~i~~~c~~~~k~~~~C~~Cg~~~p~Vrk~~~~~ki~~~~~~--------~~~~~~~~~~~~~~~ 72 (1265)
||+|.++++.|+.+.|+|+++| |+..+|.|||+.||.|||....++|+|+.|+ .+.+..+|+.+.+.+
T Consensus 127 lr~p~~~~l~k~~l~kri~~~C----kK~~~C~hCg~~NG~VKK~~~~lkIiHd~~~~~~k~~~~~~~~~~~~~~~~~~n 202 (1386)
T KOG0261|consen 127 LRNPGLDNLRKKALLKRIVAKC----KKVNTCSHCGALNGTVKKAAALLKIIHDRFKLVKKSDPLVTNERGEFKTAISHN 202 (1386)
T ss_pred hhCCCCChHHHHHHHHHHHHHh----hccccccccCCcCceeeccccceeEeeehhhccccccchhhhhHHHHHHHhhcC
Confidence 6899999999999999999999 8999999999999999994432799999885 225667778888888
Q ss_pred hhhhhhhhccccccCHHHHHHHHHhcChhhHHhhcCC---CCcceEEEeeeeeCCCCCCCceecCC-CCcCCchhHHHHH
Q 000829 73 KESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLS---ERPEKLIITNIAVPPIAIRPSVIMDG-SQSNENDITERLK 148 (1265)
Q Consensus 73 ~e~~~~~~~~~~~L~P~~v~~ifk~I~~ed~~lL~~~---~~p~~~~l~~lpVpP~~~RP~~~~~~-~~~~~ddlt~~l~ 148 (1265)
++.+.+.....+.|+|+.|+++|+.|++.||+||++. .||+.++++++||||.|+|||+.+++ .+++|||||.+++
T Consensus 203 ~e~~~~~~~~~~~LnPl~vLnLFk~i~~~D~eLLg~~~~~~~P~~Li~t~~~vPP~cIRPSV~~~~k~gtnEDDlT~Klt 282 (1386)
T KOG0261|consen 203 KELEGHLSSCCEELNPLVVLNLFKQIKEDDCELLGMDSEEGRPENLIITRVPVPPVCIRPSVMSEDKAGTNEDDLTMKLT 282 (1386)
T ss_pred cchHhHHHHHHhhcChHHHHHHHhhCCccccceeeeccCcCCchheEEEeccCCccccccceeecCCCCCCccchhhhhh
Confidence 9988888777899999999999999999999999998 49999999999999999999999987 4699999999999
Q ss_pred HHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHhccCCCCCCccccCCCCchhhhhhhcCccccccccccCCCCCCc
Q 000829 149 RIIQTNASLQQELVEANSAFKSLAGWETLQVEVAQYINSDVRGVPFSMQVARPLSGFVQRLKGKQGRFRGNLSGKRVEYT 228 (1265)
Q Consensus 149 ~Ii~~n~~l~~~~~~~~~~~~~~~~~~~lq~~v~~~~~~~~~~~~~~~~~~~~~~~i~q~l~gK~G~fR~nl~GKRvd~s 228 (1265)
+|+..|..|++.+..|.+.+.+++.|+.||.+|+.||||+.+|.|..+.+++|++||.||||||+||||+||.|||||||
T Consensus 283 EIi~tn~vik~~~~~g~~~~~imE~Wd~lQl~~AlyINSEl~g~~~~~~p~kp~RGf~QRLKGKqGRFRgNLSGKRVDFS 362 (1386)
T KOG0261|consen 283 EIILTNDVIKKHLSKGTPINLIMEDWDFLQLQVALYINSELPGIPINMAPKKPTRGFVQRLKGKQGRFRGNLSGKRVDFS 362 (1386)
T ss_pred hhhhHHHHHHHHhhcCCCchhhhhhhHHHHHHHHHhhcccCCCCCCCCCCCCchHHHHHHhcccCCceeccccCceeecc
Confidence 99999999999999999999999999999999999999999999988877999999999999999999999999999999
Q ss_pred cceEEcCCCCCCCCcccccHHHHhhcCcceeechHHHHHHHHHHHcCCCCCCCceEEE-CCCCCeEEe-ccccchhhhhc
Q 000829 229 GRTVISPDPNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIR-YPDGTARVL-YGKFRNQLAVE 306 (1265)
Q Consensus 229 aRsVIspDp~l~~~evGvP~~~A~~Lt~pe~Vt~~Ni~~l~~lv~ng~~~~pGa~~i~-~~~g~~~~l-~~~~r~~~~~~ 306 (1265)
|||||||||||+|||||||..||+.|||||+||.+|+++||+||+|||++|||||||+ +.+|.++.| |+ +|.++|.+
T Consensus 363 GRTVISPDPNL~IdeVgVP~rvAkiLTfpE~Vt~~Ni~klr~lV~NGP~vhPGANyv~~r~~~~kr~L~yg-~R~kiA~e 441 (1386)
T KOG0261|consen 363 GRTVISPDPNLRIDEVGVPIRVAKILTFPERVTRANIRKLRQLVRNGPNVHPGANYVVQRGEGFKRFLKYG-NRDKIADE 441 (1386)
T ss_pred CceeeCCCCCcceeeccchHHHHHHhcchhhccHHHHHHHHHHHhcCCCCCCCcchhhhcccchhhHhhcC-cHHHHHHh
Confidence 9999999999999999999999999999999999999999999999999999999998 456778888 99 99999999
Q ss_pred ccccceeecccccCCeEEEecCCCccccceeeEEEEEecCCeeeeecccCCCCCCCCcccccccccCChHHHHHHHHHHc
Q 000829 307 LKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEALLLM 386 (1265)
Q Consensus 307 L~~g~iV~Rhl~dgD~VL~NRQPSLHk~Simah~vkv~~~kt~rln~~vc~~yNADFDGDEMN~h~PQs~~araEa~~Lm 386 (1265)
|++||+|||||+|||+|||||||||||||||+|+|||+||+|||||.|||+||||||||||||+||||++||||||.+||
T Consensus 442 Lk~GdvVERHL~DgDvVLFNRQPSLHkmSIM~H~akV~p~RTfRFNEcvCtPYNADFDGDEMNlHvPQTEEAraEA~~LM 521 (1386)
T KOG0261|consen 442 LKIGDVVERHLMDGDVVLFNRQPSLHKMSIMSHRAKVMPWRTFRFNECVCTPYNADFDGDEMNLHVPQTEEARAEALVLM 521 (1386)
T ss_pred hccchHHHhhcccCCEEEEcCCchHHHHHHHHHHhhcccCceeeccccccCCcCCCCCcccccccCCchHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccCCCCCccEeecccceeeeeeeeccCccCCHHHHHHHHHHhcCCCceeecCCCceeCcccccccceeeeeeec
Q 000829 387 GVQNNLCTPKNGEILVASTQDFLTSSFLITRKDTFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIR 466 (1265)
Q Consensus 387 ~~~~~~~sp~~g~pi~gliQD~l~g~~llT~~d~f~~~~~~~~l~~~~~~~~~~~~lp~Pai~kp~~lwTGKql~s~~l~ 466 (1265)
.+++|+++|++|+|+++.+||+++|+||||.+|+||+|++++|+++++.++...+++|||||+||..||||||+||.+++
T Consensus 522 gvknNlvTPr~GEpiiAAtQDFiTg~YLlt~KDtF~dRa~~~ql~s~~~d~~~~i~lppPaI~KP~~LwTGKQ~fsvlir 601 (1386)
T KOG0261|consen 522 GVKNNLVTPRNGEPIIAATQDFITGGYLLTHKDTFLDRAEFSQLCSYMSDAMTHIDLPPPAILKPVELWTGKQLFSVLIR 601 (1386)
T ss_pred ccccccccCCCCCceeehhhhhhhcceeeecccccccHHHHHHHHHHHhccccccCCCChhhcCceeeeccCEEEEEEec
Confidence 99999999999999999999999999999999999999999999999999988999999999999999999999999999
Q ss_pred CCCCcceEEEEeecccccccccccccCCccccccccCCCCCeeEEecCcceecccccccccCCCcccHHHHHHHHhChhh
Q 000829 467 PHANMRVYVNLTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYSVLLRDYGAHA 546 (1265)
Q Consensus 467 ~~~~~~~~in~~~~~k~~~~~~~~~~~~~~~~~~~~~~~d~~v~i~~gell~G~ldK~~lG~~~~~~Li~~i~~~yG~~~ 546 (1265)
|+....+.+|+..|++.|+.. ++.. +++|++||+|+|+|++|++|++||+.+|+|++.+||+.|.++||+.+
T Consensus 602 pn~~s~v~~Nl~~k~k~~~~~----~~k~----~~mc~nDg~v~irns~l~sG~ldKs~lG~g~k~~lfy~llrDyg~~a 673 (1386)
T KOG0261|consen 602 PNDDSPVRVNLDAKNKNFSLV----KGKS----FEMCPNDGYVIIRNSELISGVLDKSTLGSGKKDSLFYILLRDYGSMA 673 (1386)
T ss_pred cCCCCceEEeeccccceeecc----cCCC----cccCCCCCeEEEecchhhhcccccccccCCCccceEeeehhhcchHH
Confidence 999999999999999998542 2322 68999999999999999999999999999999999999999999999
Q ss_pred HHHHHhHHHHHHHHHHHhccceeeeccCCCCccchHHHHHHHHHHHHHHHHHHHHHHcCCCccCCCCCHHHHHHHHHHHH
Q 000829 547 TSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISENYEVCNVKIKEYNEGKLQLKPGCDAAQTLEAVITDI 626 (1265)
Q Consensus 547 a~~~l~~~~~l~~~~L~~~GFSigi~D~~~~~~~~~~~~~~i~~a~~~~~~~i~~~~~g~l~~~~~~~~~~~le~~i~~~ 626 (1265)
|++.|+++.+|+.+||.++||||||+|+.|.+.+.++|+++++.+|++|++.|.+|++|+++.+|||+.+++||+.|..+
T Consensus 674 Aa~am~rlaklc~r~lgnrGFSIGi~DVqPg~~L~~~k~~lv~~gY~kc~~~I~e~~kG~L~~qpg~~~eetLEa~I~~~ 753 (1386)
T KOG0261|consen 674 AADAMNRLAKLCARFLGNRGFSIGIDDVQPGEILSQEKEELVNRGYAKCDEKIEEYNKGKLQLQPGCNEEETLEAEILSE 753 (1386)
T ss_pred HHHHHHHHHHhhhhhccccccccccCCCCccHHHHHHHHHHHHhHHHHHHHHHHHHhccccccCCCCCHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCCCCCcceeeeccCCCCChhcHhHHhhcccccccCCCCCCCCCCCcccCCCCCCCCCCCccceec
Q 000829 627 LNRIREDAGKACMGSLPWRNSPLIMSQCGSKGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVA 706 (1265)
Q Consensus 627 l~~~~~~~~~~~~~~l~~~N~~~~M~~sGsKGS~~Ni~Qi~~~lGQQ~~~G~Rip~~~~~rtLP~f~~~~~~~~a~GfV~ 706 (1265)
||.+|+++|++|+.+|.+.|++++|+.||||||.+|+|||+||||||.+.|.|+|+||.+|+||||++++..|+|+|||.
T Consensus 754 Ls~IRe~~G~~C~~eL~~~NsPliMa~CGSKGS~INiSQMvACVGQQ~ISG~RvPdGf~dRsLPHF~r~Sk~P~aKGFV~ 833 (1386)
T KOG0261|consen 754 LSTIREEAGKICIRELHPRNSPLIMALCGSKGSKINISQMVACVGQQIISGHRVPDGFEDRSLPHFERHSKTPAAKGFVA 833 (1386)
T ss_pred HHHHHHHHHHHHHHhcCcccChHHHHHhcCCCCcccHHHHHHHhhhhhhcCCcCCCccccccCccccccCCCccccchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCChhhhhhhhccccccchhcccccCcCChhHHHHHHHhhheEeeecCeEEcCCCcEEEEEecCCCcccccccCC
Q 000829 707 NSFYSGLSATEFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQFLYGDDGMDPANMEGK 786 (1265)
Q Consensus 707 ~sf~~GL~p~EfFfH~m~GReGLiDTAvKTa~sGYlqRrLvk~lEdl~v~YD~TVR~s~g~iiQf~YGeDG~d~~~~~~~ 786 (1265)
|||++||||+|||||+|||||||||||||||+||||||||||+||||.++||||||+|.|.||||.||+||+||..||++
T Consensus 834 NSFySGLTptEFfFHtm~GREGLVDTAVKTAETGYMqRRLmK~LEDL~~~YDgTVR~s~~~vvqF~YG~DglDPa~mEg~ 913 (1386)
T KOG0261|consen 834 NSFYSGLTPTEFFFHTMSGREGLVDTAVKTAETGYMQRRLMKSLEDLSVQYDGTVRNSNGDVVQFTYGGDGLDPAMMEGK 913 (1386)
T ss_pred hhcccCCCchhhheeecccccchhhhhhhhhhhhhHHHHHHHHHHHHHHhhcCceecCCCcEEEEeecCCCCChhhhcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCchhHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHHHHhhhhhhhhhhcccccCCCc
Q 000829 787 SGEPLNFDRLLMKVKATCPPAGQRYLSPQQVSEIVEKQLAAYGKESCSEAFLNSLRKFFEGQQDKLDKKIKFVEDIGWDD 866 (1265)
Q Consensus 787 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~l~~~~~~~~~~~l~~ 866 (1265)
+ .|+||+++|.+++++.+...+..+.++++.+..+..+.+ +|..+...|.+.+++|+.....++.+. ...++.+.
T Consensus 914 ~-~pv~f~r~~~~~~~~~~~~~~~~l~~~el~e~~~~~l~~-~f~~~~~~F~~~~~~~i~~~~~~~~~~---~~~~~d~~ 988 (1386)
T KOG0261|consen 914 D-QPVNFNRVFDHAKAIFPHRHDPPLSSEELDETLEEELLR-KFTEKGDPFVHELREFIASLSKKIKKL---QDKYGDEC 988 (1386)
T ss_pred C-CchhHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHH-HhhhhhhHHHHHHHHHHHHHHHHHHHH---hhhccccc
Confidence 8 999999999999999877788889999999888877654 454567788888899886544444333 22333333
Q ss_pred cchhhhhhhhhccCCCHHHHHHHHHHHHHhhhcccCCcCccceeecccccCCccccccccccccccccccceecccchhH
Q 000829 867 KSQILEEVTHKTSGITEKQLEVFIQTCFSRYRVKRVEAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNITQGVPRIK 946 (1265)
Q Consensus 867 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ky~~slv~PGEaVG~IAAQSIGEPsTQMTLnTFH~AGv~~~NVTlGvPRLk 946 (1265)
........+.+.+++|+++++.|+..|..||+++.++||+|||+|||||||||+|||||+|||||||++||+||||||+|
T Consensus 989 ~~~~~~~~~~~~~~~t~kql~~f~~~~~~ky~~a~~EpGTavGAi~aQSIGEPGTQMTLKTFHFAGVASMNiTlGVPRIk 1068 (1386)
T KOG0261|consen 989 GPKFCPDLLYQISRLTEKQLEKFVERCLDKYMRAKVEPGTAVGAIAAQSIGEPGTQMTLKTFHFAGVASMNITLGVPRIK 1068 (1386)
T ss_pred CCccCccceeeeeeccHHHHHHHHHHHHHHHHhhhcCCcchhhhhhcccCCCCCceeeeeeeeecceeeeeeccCcchHH
Confidence 22333446778899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcccccccceEEEEccCCCcHHHHHHHhcceeEEeccccceeEEEEEeCCccEEEEEeChhhHHHhhcccCHHHHHH
Q 000829 947 EIINGAKRISTPIITAELECNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDMETIQDAHLCINADIVKE 1026 (1265)
Q Consensus 947 EIinask~ikTP~~ti~l~~~~~~~~a~~v~~~le~~~L~di~~~i~~~y~~~~~~~~i~ld~~~i~~~~~~i~~~~i~~ 1026 (1265)
|||||+|+|+||+|+..|.++.|+..|+.||+|||+++|+||+++|+++|.|+.+++.|.+|.+.|..++++|+.++|..
T Consensus 1069 EIINAsk~ISTPIItA~L~n~~d~~~Ar~VKgRiEKt~L~dv~~yieeV~~p~~~fl~i~vd~~~I~~l~L~i~~~~I~~ 1148 (1386)
T KOG0261|consen 1069 EIINASKTISTPIITAELENPHDERSARVVKGRIEKTTLGDVCSYIEEVYGPDSCFLLIRVDLKRISLLQLEITIESIAY 1148 (1386)
T ss_pred HHHhhhcccCccceeeeecCchhHHHHHHHhhhhhhhhHHHHHHHHHHHhCCcceEEEEEecHhHHhhhhccccHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCcccccccCceeeeccceEEEeCCC-CCCcceeehHHHhhhcCCcEEecccCceEEEEeccccccchhhccCCccc
Q 000829 1027 SIVQTPKIKLKQQHIKVLDFRKLEIFPPV-DKSKIHFELYSLKNVLPMVIVKGIKTVERVVIAEKEKEKRKVKENGEKKK 1105 (1265)
Q Consensus 1027 ~i~~~~k~k~~~~~i~~~~~~~~~i~~~~-~~~~~~~~l~~l~~~l~~~~v~Gi~~I~r~~i~~~~~~~~~~~~~~~~~~ 1105 (1265)
+|....+.++++.++.+.++..++|.+.. .+.+.+|.|+.++..|++++|+|+|.|.|++|+.++ ..+.
T Consensus 1149 sI~~s~~~k~~~~~v~v~~~~~~~v~~~~~~~~S~~~~lq~lk~~L~~Vvv~gip~vnr~vi~~de----------~~~~ 1218 (1386)
T KOG0261|consen 1149 SILKSPKRKVKPNDVRVVGETTLRVTPVSDTKSSVYYNLQRLKRSLPNVVVKGIPEVNRAVINIDE----------KRGL 1218 (1386)
T ss_pred HHhcCCccccCCcceEEecceeEEEeecccccchhhhhHHHHHhhCCceEEecCcchhhhheeecc----------cCCc
Confidence 99999888888999999888777777753 334468999999999999999999999999998643 2344
Q ss_pred EEEEEeCccHHHhhccCCccccccccCCHHHHHHHhCHHHHHHHHHHHHHHHhhccccccCcccceeeecccccccEEEe
Q 000829 1106 YRLLVEGTGLQAVMGAEGIDGCKTKSNHIFEVQQTLGIEAARICIIDEINETMKAHGMSIDKRHMMLLADLMTFRGEVLG 1185 (1265)
Q Consensus 1106 ~~l~teG~nl~~~~~~~~VD~~~~~sNdI~ev~~~lGIEAAR~~Iv~Ei~~v~~~~Gi~Vd~RHl~LlAD~MT~~G~~~~ 1185 (1265)
|.|.+||.+|++||..+||+..+|+||+|.||.++|||||||.+||+||.++|+.||++||+||++||||+|||+|+++|
T Consensus 1219 y~L~vEG~gLr~Vm~t~GV~g~~TtsNnv~Ev~~vLGIEAAR~~II~EI~ytM~~HGmsiD~RHiMLLaDvMTyrGEVlG 1298 (1386)
T KOG0261|consen 1219 YKLLVEGTGLRAVMNTDGVKGRRTTSNNVLEVEKVLGIEAARTTIISEIGYTMSNHGMSIDPRHIMLLADVMTYRGEVLG 1298 (1386)
T ss_pred eEEEEeccchHHHhccCCccccccccCceEEeehhhchHHHHHHHHHHHHHHHHhcCcccCHHHHHHHHHHhhhcceeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccccccccCCcHhhHhcchHHHHHHHHhhhcCCcccccccccceeccCCCCCCccceEeeecCCC
Q 000829 1186 ITRFGIQKMDKSVLMLASFEKTADHLFNASVNGRDDRIEGVSECIIMGIPMPLGTGILKIRQRDAV 1251 (1265)
Q Consensus 1186 i~R~Gi~~~~~Spl~~aSFE~T~~~L~~AA~~g~~D~l~gvS~~Ii~Gk~~~~GTG~fdll~~~~~ 1251 (1265)
|||+|+++|++|+|+.||||+|.|||++||.+|+.|.+.|||||||+|.++++|||.|+|++..+.
T Consensus 1299 ITRfGl~KM~~SVL~lASFEkT~DhLF~AA~~~k~D~I~GVSEcIIlG~pm~iGTG~fkl~~~~~~ 1364 (1386)
T KOG0261|consen 1299 ITRFGLAKMKDSVLMLASFEKTADHLFDAAAYGKKDAIEGVSECIILGIPMCIGTGIFKLLQRTDD 1364 (1386)
T ss_pred eeehhhHHHHHHHHHHHhhhhhhHHHHHHHHhcCcccccchhhheecccceeccccHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999999999999998765
|
|
| >PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | Back alignment and domain information |
|---|
| >KOG0262 consensus RNA polymerase I, large subunit [Transcription] | Back alignment and domain information |
|---|
| >KOG0260 consensus RNA polymerase II, large subunit [Transcription] | Back alignment and domain information |
|---|
| >TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A' | Back alignment and domain information |
|---|
| >PRK08566 DNA-directed RNA polymerase subunit A'; Validated | Back alignment and domain information |
|---|
| >TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form | Back alignment and domain information |
|---|
| >PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional | Back alignment and domain information |
|---|
| >PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >COG0086 RpoC DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >smart00663 RPOLA_N RNA polymerase I subunit A N-terminus | Back alignment and domain information |
|---|
| >TIGR02389 RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit A'' | Back alignment and domain information |
|---|
| >cd02584 RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >cd06528 RNAP_A'' A'' subunit of Archaeal RNA Polymerase (RNAP) | Back alignment and domain information |
|---|
| >PRK14897 unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | Back alignment and domain information |
|---|
| >PRK04309 DNA-directed RNA polymerase subunit A''; Validated | Back alignment and domain information |
|---|
| >PRK02625 rpoC1 DNA-directed RNA polymerase subunit gamma; Provisional | Back alignment and domain information |
|---|
| >cd02736 RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain | Back alignment and domain information |
|---|
| >CHL00018 rpoC1 RNA polymerase beta' subunit | Back alignment and domain information |
|---|
| >TIGR02387 rpoC1_cyan DNA-directed RNA polymerase, gamma subunit | Back alignment and domain information |
|---|
| >cd02735 RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain | Back alignment and domain information |
|---|
| >PF04998 RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; InterPro: IPR007081 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >cd02737 RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher plant RNA polymerase IV, C-terminal domain | Back alignment and domain information |
|---|
| >PRK02597 rpoC2 DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >TIGR02388 rpoC2_cyan DNA-directed RNA polymerase, beta'' subunit | Back alignment and domain information |
|---|
| >PRK14898 DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed | Back alignment and domain information |
|---|
| >PF00623 RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; InterPro: IPR000722 RNA polymerases catalyse the DNA dependent polymerisation of RNA from DNA, using the four ribonucleoside triphosphates as substrates | Back alignment and domain information |
|---|
| >cd00630 RNAP_largest_subunit_C Largest subunit of RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >cd02655 RNAP_beta'_C Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >PF04983 RNA_pol_Rpb1_3: RNA polymerase Rpb1, domain 3; InterPro: IPR007066 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PF04997 RNA_pol_Rpb1_1: RNA polymerase Rpb1, domain 1; InterPro: IPR007080 RNA polymerases catalyse the DNA-dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PF05000 RNA_pol_Rpb1_4: RNA polymerase Rpb1, domain 4; InterPro: IPR007083 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >COG0086 RpoC DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >PRK14898 DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >PF04992 RNA_pol_Rpb1_6: RNA polymerase Rpb1, domain 6; InterPro: IPR007075 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 1265 | ||||
| 3j0k_A | 1455 | Orientation Of Rna Polymerase Ii Within The Human V | 1e-158 | ||
| 3j0k_A | 1455 | Orientation Of Rna Polymerase Ii Within The Human V | 4e-20 | ||
| 4a3c_A | 1732 | Rna Polymerase Ii Initial Transcribing Complex With | 1e-158 | ||
| 4a3c_A | 1732 | Rna Polymerase Ii Initial Transcribing Complex With | 3e-20 | ||
| 1i3q_A | 1733 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 1e-158 | ||
| 1i3q_A | 1733 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 3e-20 | ||
| 2waq_A | 880 | The Complete Structure Of The Archaeal 13-Subunit D | 1e-151 | ||
| 2pmz_A | 880 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 1e-151 | ||
| 3h0g_A | 1752 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 1e-146 | ||
| 3h0g_A | 1752 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 2e-43 | ||
| 3iyd_D | 1413 | Three-Dimensional Em Structure Of An Intact Activat | 3e-59 | ||
| 3lu0_D | 1407 | Molecular Model Of Escherichia Coli Core Rna Polyme | 3e-59 | ||
| 1i6v_D | 1264 | Thermus Aquaticus Core Rna Polymerase-Rifampicin Co | 5e-52 | ||
| 1i6v_D | 1264 | Thermus Aquaticus Core Rna Polymerase-Rifampicin Co | 3e-10 | ||
| 1hqm_D | 1265 | Crystal Structure Of Thermus Aquaticus Core Rna Pol | 3e-51 | ||
| 1hqm_D | 1265 | Crystal Structure Of Thermus Aquaticus Core Rna Pol | 3e-10 | ||
| 1l9u_D | 1524 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 4e-51 | ||
| 1l9u_D | 1524 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 3e-10 | ||
| 2gho_D | 1233 | Recombinant Thermus Aquaticus Rna Polymerase For St | 4e-51 | ||
| 2gho_D | 1233 | Recombinant Thermus Aquaticus Rna Polymerase For St | 3e-10 | ||
| 4gzy_D | 1534 | Crystal Structures Of Bacterial Rna Polymerase Paus | 5e-50 | ||
| 4gzy_D | 1534 | Crystal Structures Of Bacterial Rna Polymerase Paus | 1e-10 | ||
| 1iw7_D | 1524 | Crystal Structure Of The Rna Polymerase Holoenzyme | 5e-50 | ||
| 1iw7_D | 1524 | Crystal Structure Of The Rna Polymerase Holoenzyme | 1e-10 | ||
| 2y0s_C | 395 | Crystal Structure Of Sulfolobus Shibatae Rna Polyme | 8e-49 | ||
| 2waq_C | 395 | The Complete Structure Of The Archaeal 13-Subunit D | 9e-49 | ||
| 2pmz_C | 392 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 4e-48 | ||
| 3hkz_C | 395 | The X-Ray Crystal Structure Of Rna Polymerase From | 4e-48 | ||
| 3qqc_A | 436 | Crystal Structure Of Archaeal Spt45 BOUND TO THE RN | 3e-19 |
| >pdb|3J0K|A Chain A, Orientation Of Rna Polymerase Ii Within The Human Vp16-Mediator-Pol Ii-Tfiif Assembly Length = 1455 | Back alignment and structure |
|
| >pdb|3J0K|A Chain A, Orientation Of Rna Polymerase Ii Within The Human Vp16-Mediator-Pol Ii-Tfiif Assembly Length = 1455 | Back alignment and structure |
| >pdb|4A3C|A Chain A, Rna Polymerase Ii Initial Transcribing Complex With A 5nt Dna-Rna Hybrid Length = 1732 | Back alignment and structure |
| >pdb|4A3C|A Chain A, Rna Polymerase Ii Initial Transcribing Complex With A 5nt Dna-Rna Hybrid Length = 1732 | Back alignment and structure |
| >pdb|1I3Q|A Chain A, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution Length = 1733 | Back alignment and structure |
| >pdb|1I3Q|A Chain A, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution Length = 1733 | Back alignment and structure |
| >pdb|2WAQ|A Chain A, The Complete Structure Of The Archaeal 13-Subunit Dna- Directed Rna Polymerase Length = 880 | Back alignment and structure |
| >pdb|2PMZ|A Chain A, Archaeal Rna Polymerase From Sulfolobus Solfataricus Length = 880 | Back alignment and structure |
| >pdb|3H0G|A Chain A, Rna Polymerase Ii From Schizosaccharomyces Pombe Length = 1752 | Back alignment and structure |
| >pdb|3H0G|A Chain A, Rna Polymerase Ii From Schizosaccharomyces Pombe Length = 1752 | Back alignment and structure |
| >pdb|3IYD|D Chain D, Three-Dimensional Em Structure Of An Intact Activator-Dependent Transcription Initiation Complex Length = 1413 | Back alignment and structure |
| >pdb|3LU0|D Chain D, Molecular Model Of Escherichia Coli Core Rna Polymerase Length = 1407 | Back alignment and structure |
| >pdb|1I6V|D Chain D, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex Length = 1264 | Back alignment and structure |
| >pdb|1I6V|D Chain D, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex Length = 1264 | Back alignment and structure |
| >pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core Rna Polymerase- Includes Complete Structure With Side-Chains (Except For Disordered Regions)-Further Refined From Original Deposition-Contains Additional Sequence Information Length = 1265 | Back alignment and structure |
| >pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core Rna Polymerase- Includes Complete Structure With Side-Chains (Except For Disordered Regions)-Further Refined From Original Deposition-Contains Additional Sequence Information Length = 1265 | Back alignment and structure |
| >pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1524 | Back alignment and structure |
| >pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1524 | Back alignment and structure |
| >pdb|2GHO|D Chain D, Recombinant Thermus Aquaticus Rna Polymerase For Structural Studies Length = 1233 | Back alignment and structure |
| >pdb|2GHO|D Chain D, Recombinant Thermus Aquaticus Rna Polymerase For Structural Studies Length = 1233 | Back alignment and structure |
| >pdb|4GZY|D Chain D, Crystal Structures Of Bacterial Rna Polymerase Paused Elongation Complexes Length = 1534 | Back alignment and structure |
| >pdb|4GZY|D Chain D, Crystal Structures Of Bacterial Rna Polymerase Paused Elongation Complexes Length = 1534 | Back alignment and structure |
| >pdb|1IW7|D Chain D, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution Length = 1524 | Back alignment and structure |
| >pdb|1IW7|D Chain D, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution Length = 1524 | Back alignment and structure |
| >pdb|2Y0S|C Chain C, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In P21 Space Group Length = 395 | Back alignment and structure |
| >pdb|2WAQ|C Chain C, The Complete Structure Of The Archaeal 13-Subunit Dna- Directed Rna Polymerase Length = 395 | Back alignment and structure |
| >pdb|2PMZ|C Chain C, Archaeal Rna Polymerase From Sulfolobus Solfataricus Length = 392 | Back alignment and structure |
| >pdb|3HKZ|C Chain C, The X-Ray Crystal Structure Of Rna Polymerase From Archaea Length = 395 | Back alignment and structure |
| >pdb|3QQC|A Chain A, Crystal Structure Of Archaeal Spt45 BOUND TO THE RNAP CLAMP DOMAIN Length = 436 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733 | Back alignment and structure |
|---|
Score = 1252 bits (3240), Expect = 0.0
Identities = 423/1373 (30%), Positives = 655/1373 (47%), Gaps = 137/1373 (9%)
Query: 1 MRNPKMEALRKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSKVTE 60
N M K T+ + C + V+ G + + + +
Sbjct: 117 EHNELMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRK 176
Query: 61 SLQEFASAITHTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLS---ERPEKLII 117
+ + + + A +L+ +L +FK ++ D L + RPE +I+
Sbjct: 177 DGLKLVGSWKKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMIL 236
Query: 118 TNIAVPPIAIRPSVIMDGSQSNENDITERLKRIIQTNASLQQELVEANSAFKSLAGWETL 177
T + VPP +RPS+ + SQ E+D+T +L I++ N SL+ L
Sbjct: 237 TCLPVPPPPVRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLL 296
Query: 178 QVEVAQYINSDVRGVPFSMQ-VARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPD 236
Q VA Y+++D+ G P ++Q RP+ RLKGK+GR RGNL GKRV+++ RTVIS D
Sbjct: 297 QFHVATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGD 356
Query: 237 PNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYPDGTARVLY 296
PNL++ +V +P +A+ LTYPE V+ +NI++L Q ++NGP+++PGA+ + G L
Sbjct: 357 PNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLR 416
Query: 297 GKFRNQLAVELKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVC 356
+ ++L+ G V+RH+ D D VLFNRQPSLH+MS+M HR +++P+ T R N SV
Sbjct: 417 YS-KRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVT 475
Query: 357 NPYNADFDGDEMNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDFLTSSFLIT 416
+PYNADFDGDEMN+HVPQ+EE R E L V + +P++ + + QD L +T
Sbjct: 476 SPYNADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLT 535
Query: 417 RKDTFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPHANMRVYVN 476
+DTF + M ++ D +PTPAI+KP LW+GKQ+ SV I ++
Sbjct: 536 LRDTFIELDQVLNMLYWVPDW--DGVIPTPAIIKPKPLWSGKQILSVAIPNG------IH 587
Query: 477 LTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYS 536
L ++ + P D + + ++I G + K T+G+ N GL
Sbjct: 588 LQRFDEGT---------------TLLSPKDNGMLIIDGQIIFGVVEKKTVGSSNG-GLIH 631
Query: 537 VLLRDYGAHATSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISENYEVCN 596
V+ R+ G + + K+ W+ ++GFS GI D + + I+E +
Sbjct: 632 VVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVL 691
Query: 597 VKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSPLIMSQCGS 656
KE L K G ++ E + LN R+ AG+ +L N+ M GS
Sbjct: 692 DVTKEAQANLLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGS 751
Query: 657 KGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFYSGLSAT 716
KGS INI+QM ACVGQQSV G+R GF+DR+LPHF + P +KGFV NS+ GL+
Sbjct: 752 KGSFINIAQMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQ 811
Query: 717 EFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQFLYGDD 776
EFFFH MGGREGL+DTAVKTA+TGY+ RRL+KALED+ + YDN+ RN+ G ++QF+YG+D
Sbjct: 812 EFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGED 871
Query: 777 GMDPANMEGKSGEPLN-FDRLLMKVKATCPPAGQRYLSPQQVSEIVE------------- 822
GMD A++E +S + + D K L P + E
Sbjct: 872 GMDAAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDE 931
Query: 823 --KQLAA----------------YGKESCSEAFLNSLRKFFEGQQDKLDKKIKFVEDIGW 864
KQL + N+ + F D IK + G
Sbjct: 932 EYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVL-GV 990
Query: 865 DDKSQILEEVTHKTS------------------------------GITEKQLEVFIQTCF 894
D + L + K +T++ + +
Sbjct: 991 KDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIE 1050
Query: 895 SRYRVKRVEAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNITQGVPRIKEIINGAKR 954
+++ V G +G + AQSIGEP TQMTL TFHFAGVAS +T GVPR+KEI+N AK
Sbjct: 1051 AQFLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVAKN 1110
Query: 955 ISTPIITAEL--ECNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDMETI 1012
+ TP +T L ++ A++++ IE T L V + +I S VI D E I
Sbjct: 1111 MKTPSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEII 1170
Query: 1013 QDAHLCINADIVKESIVQTPKIKLKQQHIKVLDFRKLE------------------IFPP 1054
Q ++ + + Q+P + + ++ + L I+
Sbjct: 1171 QLHFSLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDLFVIWSE 1230
Query: 1055 VDKSKI---------------------HFELYSLKNVLPMVIVKGIKTVERVVIAEKEKE 1093
+ K+ H +L + ++G++ +ERVV+ + +++
Sbjct: 1231 DNDEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENITLRGVENIERVVMMKYDRK 1290
Query: 1094 K-RKVKENGEKKKYRLLVEGTGLQAVMGAEGIDGCKTKSNHIFEVQQTLGIEAARICIID 1152
E ++ ++ L +G L VM GID + +N ++ + LGIEA R +
Sbjct: 1291 VPSPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFIDIMEVLGIEAGRAALYK 1350
Query: 1153 EINETMKAHGMSIDKRHMMLLADLMTFRGEVLGITRFGIQKMDKSVLMLASFEKTADHLF 1212
E+ + + G ++ RHM LL D+MT +G + +TR G + + LM SFE+T + LF
Sbjct: 1351 EVYNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILF 1410
Query: 1213 NASVNGRDDRIEGVSECIIMGIPMPLGTGILKIRQRDAVPPMLKYGAPDPIMS 1265
A + D GVSE +I+G P+GTG + L P+ ++
Sbjct: 1411 EAGASAELDDCRGVSENVILGQMAPIGTGAFDVMID---EESLVKYMPEQKIT 1460
|
| >3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752 | Back alignment and structure |
|---|
| >4ayb_A DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_A 2y0s_A 2waq_A 4b1o_A 4b1p_W 2pmz_A 3hkz_A Length = 880 | Back alignment and structure |
|---|
| >4ayb_C DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_C 4b1o_C 4b1p_Y 2waq_C 2wb1_C 3hkz_C 2pmz_C Length = 395 | Back alignment and structure |
|---|
| >3qqc_A DNA-directed RNA polymerase subunit B, DNA-direct polymerase subunit A', DNA-directed...; transcription, fusion protein, chimera protein, multiprotein; 3.30A {Pyrococcus furiosus} Length = 436 | Back alignment and structure |
|---|
| >1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D- structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB: 1i6v_D* 2gho_D Length = 1265 | Back alignment and structure |
|---|
| >1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D- structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB: 1i6v_D* 2gho_D Length = 1265 | Back alignment and structure |
|---|
| >1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D- structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB: 1i6v_D* 2gho_D Length = 1265 | Back alignment and structure |
|---|
| >2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D Length = 1524 | Back alignment and structure |
|---|
| >2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D Length = 1524 | Back alignment and structure |
|---|
| >2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D Length = 1524 | Back alignment and structure |
|---|
| >3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_D* Length = 1407 | Back alignment and structure |
|---|
| >3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_D* Length = 1407 | Back alignment and structure |
|---|
| >3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_D* Length = 1407 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
No hit with probability above 80.00
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
E-value |
| 1265 | ||||
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 0.0 | |
| d1smyd_ | 1504 | e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus t | 0.0 |
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 1449 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: beta and beta-prime subunits of DNA dependent RNA-polymerase superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase family: RNA-polymerase beta-prime domain: RBP1 species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Score = 806 bits (2083), Expect = 0.0
Identities = 430/1351 (31%), Positives = 654/1351 (48%), Gaps = 148/1351 (10%)
Query: 2 RNPKMEALRKTDLMKSIVKKCSTMASKAVKCPRCGYINGMVKKAVAVLGIIHDRSKVTES 61
R + L KT ++ ++ V CG ++K V
Sbjct: 133 RFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRK--------DGLKLVGSW 184
Query: 62 LQEFASAITHTKESKAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLSE---RPEKLIIT 118
++ A+ E + +L+ +L +FK ++ D L +E RPE +I+T
Sbjct: 185 KKDRATGDADEPELR--------VLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILT 236
Query: 119 NIAVPPIAIRPSVIMDGSQSNENDITERLKRIIQTNASLQQELVEANSAFKSLAGWETLQ 178
+ VPP +RPS+ + SQ E+D+T +L I++ N SL+ LQ
Sbjct: 237 CLPVPPPPVRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLLQ 296
Query: 179 VEVAQYINSDVRGVPFSMQ-VARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRTVISPDP 237
VA Y+++D+ G P ++Q RP+ RLKGK+GR RGNL GKRV+++ RTVIS DP
Sbjct: 297 FHVATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDP 356
Query: 238 NLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYPDGTARVLYG 297
NL++ +V +P +A+ LTYPE V+ +NI++L Q ++NGP+++PGA+ + G L
Sbjct: 357 NLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRY 416
Query: 298 KFRNQLAVELKSGCIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCN 357
R ++L+ G V+RH+ D D VLFNRQPSLH+MS+M HR +++P+ T R N SV +
Sbjct: 417 SKRAG-DIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTS 475
Query: 358 PYNADFDGDEMNMHVPQTEEARTEALLLMGVQNNLCTPKNGEILVASTQDFLTSSFLITR 417
PYNADFDGDEMN+HVPQ+EE R E L V + +P++ + + QD L +T
Sbjct: 476 PYNADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTL 535
Query: 418 KDTFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPHANMRVYVNL 477
+DTF + M ++ D +PTPAI+KP LW+GKQ+ SV I +++
Sbjct: 536 RDTFIELDQVLNMLYWVPDW--DGVIPTPAIIKPKPLWSGKQILSVAI----PNGIHLQR 589
Query: 478 TVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYSV 537
+ T + P D + + ++I G + K T+G+ N GL V
Sbjct: 590 FDEGTTL-----------------LSPKDNGMLIIDGQIIFGVVEKKTVGSSNG-GLIHV 631
Query: 538 LLRDYGAHATSGCMNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISENYEVCNV 597
+ R+ G + + K+ W+ ++GFS GI D + + I+E +
Sbjct: 632 VTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLD 691
Query: 598 KIKEYNEGKLQLKPGCDAAQTLEAVITDILNRIREDAGKACMGSLPWRNSPLIMSQCGSK 657
KE L K G ++ E + LN R+ AG+ +L N+ M GSK
Sbjct: 692 VTKEAQANLLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSK 751
Query: 658 GSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFYSGLSATE 717
GS INI+QM ACVGQQSV G+R GF+DR+LPHF + P +KGFV NS+ GL+ E
Sbjct: 752 GSFINIAQMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQE 811
Query: 718 FFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQFLYGDDG 777
FFFH MGGREGL+DTAVKTA+TGY+ RRL+KALED+ + YDN+ RN+ G ++QF+YG+DG
Sbjct: 812 FFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDG 871
Query: 778 MDPANMEGKSGEPL-NFDRLLMKVKATCPPAGQRYLSP---QQVSEIVE----------- 822
MD A++E +S + + D K L P + SEI+
Sbjct: 872 MDAAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEE 931
Query: 823 -KQLAAYGKESCS---------------EAFLNSLRKFFEGQQDKLDKKIKFVEDIGWDD 866
KQL K + + ++ F K +G D
Sbjct: 932 YKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKD 991
Query: 867 KSQILEEVTHKTSGITEKQLE---VFIQTCFSRYRVKRV--------------------- 902
+ L + K I Q + +F SR +RV
Sbjct: 992 LQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQ 1051
Query: 903 ------EAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNITQGVPRIKEIINGAKRIS 956
G +G + AQSIGEP TQMTL TFHFAGVAS +T GVPR+KEI+N AK +
Sbjct: 1052 FLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVAKNMK 1111
Query: 957 TPIITAELE--CNDNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLASIVIALDMETIQD 1014
TP +T LE ++ A++++ IE T L V + +I S VI D E IQ
Sbjct: 1112 TPSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQL 1171
Query: 1015 AHLCINADIVKESIVQTPKI--------KLKQQHIKVLDF-------------------- 1046
++ + + Q+P + + + + +
Sbjct: 1172 HFSLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDLFVIWSEDN 1231
Query: 1047 -----------RKLEIFPPVDKSKIHFELYSLKNVLPMVIVKGIKTVERVVIAEKEKE-K 1094
R + + + H +L + ++G++ +ERVV+ + +++
Sbjct: 1232 DEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENITLRGVENIERVVMMKYDRKVP 1291
Query: 1095 RKVKENGEKKKYRLLVEGTGLQAVMGAEGIDGCKTKSNHIFEVQQTLGIEAARICIIDEI 1154
E ++ ++ L +G L VM GID + +N ++ + LGIEA R + E+
Sbjct: 1292 SPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFIDIMEVLGIEAGRAALYKEV 1351
Query: 1155 NETMKAHGMSIDKRHMMLLADLMTFRGEVLGITRFGIQKMDKSVLMLASFEKTADHLFNA 1214
+ + G ++ RHM LL D+MT +G + +TR G + + LM SFE+T + LF A
Sbjct: 1352 YNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILFEA 1411
Query: 1215 SVNGRDDRIEGVSECIIMGIPMPLGTGILKI 1245
+ D GVSE +I+G P+GTG +
Sbjct: 1412 GASAELDDCRGVSENVILGQMAPIGTGAFDV 1442
|
| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} Length = 1504 | Back information, alignment and structure |
|---|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1265 | |||
| d1twfa_ | 1449 | RBP1 {Baker's yeast (Saccharomyces cerevisiae) [Ta | 100.0 | |
| d1smyd_ | 1504 | RNA-polymerase beta-prime {Thermus thermophilus [T | 100.0 |
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: beta and beta-prime subunits of DNA dependent RNA-polymerase superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase family: RNA-polymerase beta-prime domain: RBP1 species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Probab=100.00 E-value=0 Score=2287.07 Aligned_cols=1181 Identities=34% Similarity=0.545 Sum_probs=982.5
Q ss_pred HHHHHHHHHHHHHCCCCCC----------------CCCCCCCCCCCEEECCEEEEEEEECCCCHHHHHHHHHHHHCCHHH
Q ss_conf 9999999999230379977----------------698989989717832302218983245214578776631002124
Q 000829 12 TDLMKSIVKKCSTMASKAV----------------KCPRCGYINGMVKKAVAVLGIIHDRSKVTESLQEFASAITHTKES 75 (1265)
Q Consensus 12 ~~~~k~i~~~c~~~~k~~k----------------~C~~Cg~~~p~IkK~~~~~ki~~~~~~~~~~~~~~~~~~~~~~e~ 75 (1265)
+.+..++.+.| +... .|++|++.+|.+++.. ++++.... ......+..
T Consensus 131 ~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~--~~~~~~~~----------~~~~~~~~~ 194 (1449)
T d1twfa_ 131 KKRFAAIWTLC----KTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRKDG--LKLVGSWK----------KDRATGDAD 194 (1449)
T ss_dssp HHHHHHHHHHH----TTCCBCCSEECCSSCTTSCEECCSCCCBCCCCEECS--SCEEEEEC----------SSSSCTTSC
T ss_pred HHHHHHHHHHH----HHHEECCCCCCCHHHHHHHHHCCCCCCCCHHHHHHH--HHHHHHHH----------HHHHCCCCC
T ss_conf 65567899874----231430000100132566652378776774343334--77777887----------753203445
Q ss_pred HHHHHCCCCCCCHHHHHHHHHHCCHHHHHHHCCC---CCCCEEEEEEEEECCCCCCCCEECCCCCCCCCHHHHHHHHHHH
Q ss_conf 5542001434699999999972382248762599---9955078863120899999924218987677325899999999
Q 000829 76 KAAVNVATYILNPVNVLFLFKRMTDTDCEVLYLS---ERPEKLIITNIAVPPIAIRPSVIMDGSQSNENDITERLKRIIQ 152 (1265)
Q Consensus 76 ~~~~~~~~~~L~P~~v~~il~~i~~~d~~~l~~~---~~p~~~~l~~lpVpP~~~RP~~~~~~~~~~~ddlt~~l~~Ii~ 152 (1265)
....+.|+|.+++++|++||++|+.+|++. ++|+||||++||||||++||++.++++.+++||||.+|++|++
T Consensus 195 ----~~~~~~l~~~~~~~i~~~i~~~~~~~l~~~~~~~~p~~~~l~~lpV~P~~~RP~~~~~~~~~~~~dlt~~~~~Ii~ 270 (1449)
T d1twfa_ 195 ----EPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPPVRPSISFNESQRGEDDLTFKLADILK 270 (1449)
T ss_dssp ----SCEEEEECHHHHHHHHTTSCHHHHHHTTCBTTTBCGGGGEEEEECCCCTTTSCCCCCSSSCCCCCHHHHHHHHHHH
T ss_pred ----CHHHEECCHHHHHHHHHHCCHHHHHHHCCCCCCCCHHHEEEEEEECCCCCCCCCEEECCCCCCCCHHHHHHHHHHH
T ss_conf ----3543148999999999738886898747886789867887662336998768716948986267868999999999
Q ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC-CCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCE
Q ss_conf 9899999999700001256779879999987743689999765567-887201343205765411245568778986622
Q 000829 153 TNASLQQELVEANSAFKSLAGWETLQVEVAQYINSDVRGVPFSMQV-ARPLSGFVQRLKGKQGRFRGNLSGKRVEYTGRT 231 (1265)
Q Consensus 153 ~n~~l~~~~~~~~~~~~~~~~~~~lq~~v~~~~~~~~~~~~~~~~~-~~~~~~i~qrl~gK~G~fR~nl~GKRvd~s~Rs 231 (1265)
.|++|++.+..+++...+.+.|.+||.+|+.|+||+.++.+..... ++|++|++|||+||+||||+|||||||||||||
T Consensus 271 ~n~~l~~~~~~~~~~~~~~~~~~~LQ~~v~~~~dn~~~~~~~~~~~~~~~~k~i~~~L~gK~GrfR~nl~GKRVd~s~Rs 350 (1449)
T d1twfa_ 271 ANISLETLEHNGAPHHAIEEAESLLQFHVATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSART 350 (1449)
T ss_dssp HHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHHCCCSSCCCCCSSCTTCCCCCSTTSCTTTTTTSSGGGTTCSCCSEEEE
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCHHCCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCCCCCE
T ss_conf 99999999873995778999999999999984355656884000466777620666751610443211265533666530
Q ss_pred EECCCCCCCCCCCCCCHHHHHHCCCCEEECHHHHHHHHHHHHCCCCCCCCCEEEECCCCCEEEE-CCCCCHHHHHCCCCC
Q ss_conf 7808999877755563888864594403364779999999992999998850777799983786-242303454126531
Q 000829 232 VISPDPNLKITEVAIPIRMARILTYPERVSDHNIEKLRQCIQNGPDKYPGARMIRYPDGTARVL-YGKFRNQLAVELKSG 310 (1265)
Q Consensus 232 VI~pDp~l~~~evgiP~~~A~~Lt~Pe~Vt~~Ni~~lr~lv~nG~~~~pGa~~i~~~~g~~~~l-~~~~r~~~~~~L~~g 310 (1265)
||||||+|+++|||||..||++|||||+||+||+++|+++|.|||+.||||++++..+|.++.| +. +......+++|
T Consensus 351 VI~pdp~l~~~evGvP~~~A~~Lt~pe~v~~~n~~~l~~~v~ng~~~~pga~~~~~~~g~~~~l~~~--~~~~~~~l~~g 428 (1449)
T d1twfa_ 351 VISGDPNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYS--KRAGDIQLQYG 428 (1449)
T ss_dssp EEEECTTSCTTEEEEEHHHHTTCEEEEECCTTTHHHHHHHHHHTTTSSSCEEEEECTTCCEEETTSC--TTTTCCCCCTT
T ss_pred EECCCCCCCEEECCCHHHHHHHCCCCEEECHHHHHHHHHHHHCCCCCCCCCCCEECCCCCEEEEECC--HHHHHHHCCCC
T ss_conf 4525875310012118999961897825408999999999970874477620000046726988511--12221103666
Q ss_pred CEEECCCCCCCEEEEECCCCCCCCCEEEEEEEEECCCEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCC
Q ss_conf 31101013698699815887664643448999826981342024689888997645323456882889999998728886
Q 000829 311 CIVDRHLEDGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEALLLMGVQN 390 (1265)
Q Consensus 311 ~iV~Rhl~~gd~vl~NRqPsLHk~si~~~~~~v~~~~t~r~~~~~c~~yNADFDGDeMn~h~Pqs~~araEa~~Lm~~~~ 390 (1265)
|+|+|||+|||+|||||||||||+|||||+|+++|++||||||+||+||||||||||||+|+|||++|||||++||++.+
T Consensus 429 ~~V~r~l~~gd~Vl~NRqPtLHr~si~a~~~~v~~~ktirl~~~vc~~yNADFDGDeMnvhvPqs~~A~aEa~~Lm~~~~ 508 (1449)
T d1twfa_ 429 WKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNADFDGDEMNLHVPQSEETRAELSQLCAVPL 508 (1449)
T ss_dssp CEEEEECCTTCEEEEECSSCCSGGGEEEEEEEEESSSSEEECGGGHHHHTCCSSSCEEEEECCCSHHHHHHHHHHTBGGG
T ss_pred CEEEEEEECCEEEEECCCCCHHHHCCCCCEEEEECCCEEEECCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHC
T ss_conf 38999972470689547641333110122468614854785211011114554565478971688889999999864132
Q ss_pred CCCCCCCCCCCEEECCCCEEEEEEEECCCCCCCHHHHHHHHHHHCCCCCEEECCCCCEECCCCCCCCCEEEEEEECCCCC
Q ss_conf 21159999951720134000336650257667999999999983389840324788300763233664015544058888
Q 000829 391 NLCTPKNGEILVASTQDFLTSSFLITRKDTFYDRAAFSLMCCYMGDGMDRVDLPTPAILKPVELWTGKQLFSVLIRPHAN 470 (1265)
Q Consensus 391 ~~~sp~~G~pi~gliQD~i~g~~llT~~d~f~~~~~~~~l~~~~~~~~~~~~l~~Pailkp~~lwTGKQi~s~il~~~~~ 470 (1265)
|+++|++|+|++|++||+|+|+|+||.+|+|++++++++++++..+. ...+|+|+|+||+++|||||+||+++|..
T Consensus 509 nilsp~~G~pi~~~~QD~~lg~y~LT~~~~f~~~~~~~~~~~~~~~~--~~~~~~p~~~~~~~~~tgkqi~s~~l~~~-- 584 (1449)
T d1twfa_ 509 QIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLYWVPDW--DGVIPTPAIIKPKPLWSGKQILSVAIPNG-- 584 (1449)
T ss_dssp GSEETTTTEESCCCCHHHHHHHHHHHSTTCEEEHHHHHHHHHHSTTC--CSCCCCCSBCSSSCEEEHHHHHHHHSCTT--
T ss_pred CCCCCCCCCEEEEECCCHHHHHHHHHCCCCCCCHHHHHHHHHHCCCC--CCCCCCCEEEEEEECCCCCEEEEEECCCC--
T ss_conf 53466678624310213042312011364457899999999735454--65446870776320125646899972687--
Q ss_pred CCEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCEECCCCCCCCCCCCCCCHHHHHHHHHCHHHHHHH
Q ss_conf 62479776313011355444568732323456889980388368420013455433688743289999997193268899
Q 000829 471 MRVYVNLTVKEKTYSNKLIRTEGDEEIRIETMCPNDGFVYFRNSELISGQLGKATLGNGNKDGLYSVLLRDYGAHATSGC 550 (1265)
Q Consensus 471 ~~~~in~~~~~k~~~~~~~~~~g~~~~~~~~~~~~d~~v~i~~gell~G~ldK~~lG~~~~~~li~~i~~~yG~~~a~~~ 550 (1265)
+++...... . ..++..|+.++|+||+|++|++||+++|+ +.++|+|.++++||+++|+.|
T Consensus 585 ----~~~~~~~~~----------~-----~~~~~~~~~~~i~~g~l~~g~l~k~~~g~-~~~~li~~i~~~~G~~~~~~~ 644 (1449)
T d1twfa_ 585 ----IHLQRFDEG----------T-----TLLSPKDNGMLIIDGQIIFGVVEKKTVGS-SNGGLIHVVTREKGPQVCAKL 644 (1449)
T ss_dssp ----CCEEECCTT----------C-----CTTCTTCCSEEEETTEEEESCCCHHHHSS-CTTSHHHHHHHHHCHHHHHHH
T ss_pred ----CEEEECCCC----------C-----CCCCCCCCEEEEECCEEEECCCHHHHCCC-CCCCCCCCCCCCCCHHHHHHH
T ss_conf ----302321578----------6-----21156776599877866643102644165-434520000000037999999
Q ss_pred HHHHHHHHHHHHHHCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 85999999999984064121256899920048999999999999999999987299866989997899999999999999
Q 000829 551 MNRLAKLSARWIGNHGFSIGIDDVQPKKELSDKKGKLISENYEVCNVKIKEYNEGKLQLKPGCDAAQTLEAVITDILNRI 630 (1265)
Q Consensus 551 l~~~~~l~~~~l~~~GfSigi~D~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~i~~~l~~~ 630 (1265)
|+.+++|+++|++.+|||+|++|+++++...+++.+.++++++++.++..++..+.++..++.+..+.+|..+...|+++
T Consensus 645 l~~~~~l~~~~l~~~Gfs~gi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~v~~~~~~~ 724 (1449)
T d1twfa_ 645 FGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFEDNVVRFLNEA 724 (1449)
T ss_dssp HHHHHHHHHHHHHTTCBCCCGGGGCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCHHEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 98887789999986521005212124420468888888887665788999998766413568727899999999999999
Q ss_pred HHHHHHHHHCCCCCCCCCEEEECCCCCCCHHCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCC
Q ss_conf 99999988627999994222312478889132757761356553589778999877656799999989776530144563
Q 000829 631 REDAGKACMGSLPWRNSPLIMSQCGSKGSPINISQMVACVGQQSVGGRRAPNGFIDRSLPHFPRKAKEPAAKGFVANSFY 710 (1265)
Q Consensus 631 ~~~~~~~~~~~l~~~N~~~~M~~sGsKGS~~Ni~Qi~~~lGQQ~i~G~Rip~g~~~rtLP~f~~~~~~~~a~GfI~~sF~ 710 (1265)
++++++.+...+.++|++++|+.||||||.+|++||+||+|||.++|+|+|.++++|+||||.+++.+|+|+|||.+||+
T Consensus 725 ~~~~~~~~~~~~~~~N~~~~M~~SGakGs~~n~~Qi~g~~Gqq~~~g~ri~~~~~~r~lp~f~~~~~~~~~~GfI~~sf~ 804 (1449)
T d1twfa_ 725 RDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYL 804 (1449)
T ss_dssp HHHHHHHHHHHSCTTCHHHHHHHHTSSCCHHHHHHHHSCCEECCBTTBSCCCCBTTBSSTTSCTTCCSTTTTTEECSCTT
T ss_pred HHHHHHHHHHHHHCCCCHHHHEECCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
T ss_conf 99999987664402552676412114578314688876653320157535546666666667889998132676032355
Q ss_pred CCCCHHHHHHHHCCCCCCCHHCCCCCCCCCHHHHHHHHHHHHEEEEECCEEECCCCCEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf 48991234665024653000001004767714799999743137521281775898199997068886444336888998
Q 000829 711 SGLSATEFFFHTMGGREGLVDTAVKTADTGYMSRRLIKALEDLSIQYDNSVRNAGGCIVQFLYGDDGMDPANMEGKSGEP 790 (1265)
Q Consensus 711 ~GL~p~EfFfH~m~GReGLiDTAvKTa~sGYlqRrLik~lEdl~v~YD~TVR~s~g~IiQF~YGeDGld~~~~e~~~~~~ 790 (1265)
+||+|+|||||||||||||+|||||||+||||||||||+|||++|+||+||||++|+||||.|||||+||++++.+....
T Consensus 805 ~GL~p~Eyf~h~~~gReGLiDTAvkTa~sGYl~RrLvk~ledv~v~yD~tvr~~~g~IiQf~YGeDg~d~~~~e~~~~~~ 884 (1449)
T d1twfa_ 805 RGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDAAHIEKQSLDT 884 (1449)
T ss_dssp TCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCEECTTSCEECTTCCEEESSGGGTTBCGGGEEEEECGG
T ss_pred HHHCCHHEEEEECCCHHHHHHHCCCCCCCHHHHHHHHHHHCCEEEEECCCCCCCCCEEEEEEECCCCCCCEEEEEEECCE
T ss_conf 41120212543123021133320254640889999999755759974686676895599999757554311788753142
Q ss_pred CH-HHHHHHHHHHCCCCCCCCCCC------HH------HHHHHHHH----H------HHHCC------C-----------
Q ss_conf 32-699999988319999997789------77------79999999----9------85308------7-----------
Q 000829 791 LN-FDRLLMKVKATCPPAGQRYLS------PQ------QVSEIVEK----Q------LAAYG------K----------- 830 (1265)
Q Consensus 791 ~~-~~~~~~~~~~~~~~~~~~~~~------~~------~~~~~~~~----~------l~~~~------~----------- 830 (1265)
+. -...+..............+. .. ....+.+. + +.... +
T Consensus 885 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~~~i~~~~~~~l~~~r~~l~~~~~~~~~~~~~p~~~~~~~~ 964 (1449)
T d1twfa_ 885 IGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQ 964 (1449)
T ss_dssp GSSCHHHHHHHHCCCTTCTTTSCCTTTBTTHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCEEEEESCHHHHHH
T ss_pred ECCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHH
T ss_conf 42524876655000004654445756765457774118888887899999988788899871575434357600999998
Q ss_pred --------------CCCHHHHHHHHHHHHHHHHHHHHHHHHCCCC---------CCCC-----CCCHHHHHHHHHCCCCC
Q ss_conf --------------7621999999999999864322124101133---------5888-----53202445642035879
Q 000829 831 --------------ESCSEAFLNSLRKFFEGQQDKLDKKIKFVED---------IGWD-----DKSQILEEVTHKTSGIT 882 (1265)
Q Consensus 831 --------------~~~~~~~~~~i~~~i~~~~~~l~~~~~~~~~---------~~l~-----~~~~~~~~~~~~~~~l~ 882 (1265)
+.........+.+.. +.+.. .+.. .... .....+.+.....++++
T Consensus 965 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~ 1037 (1449)
T d1twfa_ 965 NAQQTFHIDHTKPSDLTIKDIVLGVKDLQ----ENLLV---LRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLT 1037 (1449)
T ss_dssp HHHHHTTCCTTSCBCCCHHHHHHHHHHHH----TTCCS---CCCCSHHHHHHHHHTTHHHHHHHHHHSCHHHHHHTSCCC
T ss_pred HHHHHCCCCCCCCCCCCHHHHHHHHHHHH----HHHHE---ECCCCHHHHHHCCCCCCEEEEEECCCCCHHHHHHHCCCC
T ss_conf 64554102557644454899999888887----64301---014311223330154200222001432023434443668
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCHHHHHHHCCCCCCCCEEEE
Q ss_conf 99999999999985201458869601000002469843214013444465211210103301574432255445454998
Q 000829 883 EKQLEVFIQTCFSRYRVKRVEAGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNITQGVPRIKEIINGAKRISTPIITA 962 (1265)
Q Consensus 883 ~~~~~~~~~~~~~~y~~~~~~pGEaVGiIAAQSIGEPsTQMTLnTFH~AGv~~~nVTlGiPRLkEIinask~ikTP~i~~ 962 (1265)
++.+.+++..|+.+|.+++++||||||+|||||||||+|||||||||+||++++|||+|+|||+||++++++++||.|++
T Consensus 1038 ~~~~~~~~~~~~~ky~~slv~pGEaVGiiAAQSIGEP~TQmTLnTFH~AG~~~~nvT~GiPRl~EIl~ask~iktp~~~v 1117 (1449)
T d1twfa_ 1038 KQAFDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVAKNMKTPSLTV 1117 (1449)
T ss_dssp HHHHHHHHHHHHHHHHHHBCCTTCCHHHHHHHHHHHHHTTCCC----------CCSCCHHHHHHHHTTTCSSCSSCEEEE
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCEEEECCCCCCHHHHHHEEEECCCCCCCEEE
T ss_conf 99998899888888766455136751212122216613355554322112443001355043332222002567862157
Q ss_pred ECCCC--CCHHHHHHHHCCEEEEECCCCCEEEEEEEECCCC--------------------------------EEEEEEC
Q ss_conf 72687--7387999975013587424542128999907961--------------------------------9999948
Q 000829 963 ELECN--DNENAARVVKGRIEKTLLGQVAKSIKIVMTSRLA--------------------------------SIVIALD 1008 (1265)
Q Consensus 963 ~l~~~--~~~~~a~~i~~~le~~~L~di~~~i~~~~~~~~~--------------------------------~~~i~ld 1008 (1265)
++.++ .+.+.++.++..++++++++++...+++|+++.. ..+++++
T Consensus 1118 ~l~~~~~~~~~~~k~~~~~i~~~~l~~vv~~~~v~~~~~~~~~~i~~~~~~i~~~~~~~~~~~~~~~~~~~~~ilrl~l~ 1197 (1449)
T d1twfa_ 1118 YLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELD 1197 (1449)
T ss_dssp EBCSSSSSCHHHHHHHHHHHSCEEGGGTEEEEEEEECCCSSSCSSGGGHHHHHTSSCC----------CCCSEEEEEEEC
T ss_pred EECCCCCHHHHHHHHHHHEEEEEECCCEEEEEEEEECCCCCEEEEEEECCEEEEEEEECCCHHEEEECCCCCCEEEEEEC
T ss_conf 74022103599988665314663001046645999737773389987513436777842512202301357723899971
Q ss_pred HHHHHHHHCCCCHHHHHHHHHCCCCCCCCCCCEEEEC-----CCEEEEECC-----C--CCCCCEEEHHHH-HHHCCCCE
Q ss_conf 3668772414599999999860864423457526605-----634899289-----9--998514425778-61057728
Q 000829 1009 METIQDAHLCINADIVKESIVQTPKIKLKQQHIKVLD-----FRKLEIFPP-----V--DKSKIHFELYSL-KNVLPMVI 1075 (1265)
Q Consensus 1009 ~~~i~~~~~~i~~~~i~~~i~~~~~~k~~~~~v~~~~-----~~~i~i~~~-----~--~~~~~~~~l~~l-~~~l~~~~ 1075 (1265)
...+... .+++.++..++...... +...+.. ...++.... + ........+..+ ...+.++.
T Consensus 1198 ~~~~~~k--~i~~~~i~~~i~~~~~~----~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~l~~i~~~~l~~~~ 1271 (1449)
T d1twfa_ 1198 RAAMNDK--DLTMGQVGERIKQTFKN----DLFVIWSEDNDEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENIT 1271 (1449)
T ss_dssp HHHHHHT--TCCHHHHHHHHHHHHGG----GEEEEECCTTSSSCEEEEEEC----------CCTTHHHHHHHHHHHHHCE
T ss_pred HHHCCCC--CCCHHHHHHHHHHHCCC----CEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCE
T ss_conf 5551467--88778878999986089----85899468886447885366775321000365668999987741338808
Q ss_pred EECCCCCEEEEEECCCCCCCH-HHCCCCCCCEEEEEECCCHHHHHCCCCCCCCCCCCCCHHHHHHHHCHHHHHHHHHHHH
Q ss_conf 714137117999412311000-0024876428999907667776314774466455677999999847999999999999
Q 000829 1076 VKGIKTVERVVIAEKEKEKRK-VKENGEKKKYRLLVEGTGLQAVMGAEGIDGCKTKSNHIFEVQQTLGIEAARICIIDEI 1154 (1265)
Q Consensus 1076 i~Gi~~I~r~~i~~~~~~~~~-~~~~~~~~~~~l~teG~nl~~i~~~~~VD~~r~~sNdI~~v~~~lGIEAAR~~Ii~Ei 1154 (1265)
|+|+++|+|+.+...+..... ..+...+++|.|+|||+|+.++|..++||+++++||||++|+++|||||||++|++||
T Consensus 1272 v~Gi~~I~rv~i~~~~~~~~~~~~~~~~~~~~vl~teG~nl~~~l~~~~iD~~~~~sNdI~dil~~lGIEAar~~ii~EI 1351 (1449)
T d1twfa_ 1272 LRGVENIERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFIDIMEVLGIEAGRAALYKEV 1351 (1449)
T ss_dssp EESCTTCCCEEEEEEEEEEECTTSSEEEEEEEEEEEESCCHHHHTTSTTBCTTTCBCSCHHHHHHHHCHHHHHHHHHHHH
T ss_pred EECCCCEEEEEEECCCCEEECCCCCCCCCCCEEEECCCCCHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 70788847999962465341788737258709998683878888606991642074086999999772999999999999
Q ss_pred HHHHHCCCCCCCCCCCEEEECCCCCCCEEEEECCCCCCCCCCCHHHHHCCHHHHHHHHHHHHCCCCCCCCCCCCCEECCC
Q ss_conf 89860266655720010000001101279742012234568707557010688999999442298655555333311057
Q 000829 1155 NETMKAHGMSIDKRHMMLLADLMTFRGEVLGITRFGIQKMDKSVLMLASFEKTADHLFNASVNGRDDRIEGVSECIIMGI 1234 (1265)
Q Consensus 1155 ~~v~~~~Gi~Vd~RHl~LlAD~MT~~G~~~~itR~Gi~~~~~Spl~~aSFE~T~~~L~~AA~~g~~D~l~gvS~~Ii~Gk 1234 (1265)
+.||+.||++||+|||+||||+||++|.++||||+||+++++|||++||||+|+++|++||++|++|+|+|+|||||+|+
T Consensus 1352 ~~V~~~~Gi~Id~rHi~LIad~MT~~G~~~~i~R~gi~~~~~S~l~~aSFEeT~~vL~~AAi~g~~D~L~G~senIi~G~ 1431 (1449)
T d1twfa_ 1352 YNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQ 1431 (1449)
T ss_dssp HHHHHTTTCCCCHHHHHHHHHHTTTBSSCCCSSSCSSSCSSCCTTSSCCSSCSHHHHHHHHHHTCEECCCSHHHHHHTTC
T ss_pred HHHHHHCCCEECHHHHHHHHHHHCCCCEEEECCHHHHCCCCCCHHHHHHCHHHHHHHHHHHHCCCCCCCCCCHHHEECCC
T ss_conf 99998659588799999999997758857101189814698589887006439999999996399142788078702689
Q ss_pred CCCCCCCCEEEEECCCC
Q ss_conf 77778653375213899
Q 000829 1235 PMPLGTGILKIRQRDAV 1251 (1265)
Q Consensus 1235 ~~~~GTG~fdll~~~~~ 1251 (1265)
++|+|||+|||++|.+.
T Consensus 1432 ~ip~GTG~fdll~d~~~ 1448 (1449)
T d1twfa_ 1432 MAPIGTGAFDVMIDEES 1448 (1449)
T ss_dssp CCSSGGGSSEEEECSCC
T ss_pred CCCCCCCCCEEEECHHH
T ss_conf 88986516288866531
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| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
|---|