Citrus Sinensis ID: 000882
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 | 1238 | 2.2.26 [Sep-21-2011] | |||||||
| Q5D869 | 1976 | DNA-directed RNA polymera | yes | no | 0.778 | 0.487 | 0.604 | 0.0 | |
| Q9LQ02 | 1453 | DNA-directed RNA polymera | no | no | 0.739 | 0.629 | 0.252 | 3e-69 | |
| P17545 | 1766 | DNA-directed RNA polymera | N/A | no | 0.494 | 0.346 | 0.275 | 5e-50 | |
| P17546 | 1766 | DNA-directed RNA polymera | N/A | no | 0.494 | 0.346 | 0.275 | 9e-50 | |
| P36594 | 1752 | DNA-directed RNA polymera | yes | no | 0.457 | 0.323 | 0.269 | 2e-48 | |
| Q75A34 | 1745 | DNA-directed RNA polymera | yes | no | 0.452 | 0.320 | 0.268 | 4e-46 | |
| O94666 | 1405 | DNA-directed RNA polymera | no | no | 0.465 | 0.409 | 0.272 | 6e-45 | |
| P04050 | 1733 | DNA-directed RNA polymera | yes | no | 0.453 | 0.323 | 0.259 | 9e-44 | |
| P18616 | 1839 | DNA-directed RNA polymera | no | no | 0.495 | 0.333 | 0.257 | 5e-43 | |
| P35084 | 1727 | DNA-directed RNA polymera | yes | no | 0.505 | 0.362 | 0.249 | 9e-42 |
| >sp|Q5D869|NRPE1_ARATH DNA-directed RNA polymerase E subunit 1 OS=Arabidopsis thaliana GN=NRPE1 PE=1 SV=1 | Back alignment and function desciption |
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Score = 1234 bits (3192), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 633/1047 (60%), Positives = 773/1047 (73%), Gaps = 83/1047 (7%)
Query: 1 MEENTSSTILEGQIVGIRFGLATQKEICTASISDCSISHASQLANPFLGLPLEFGKCESC 60
MEE ++S IL+G+IVGI F LA+ EIC SIS+ +I+H SQL N FLGLPLEFGKCESC
Sbjct: 1 MEEESTSEILDGEIVGITFALASHHEICIQSISESAINHPSQLTNAFLGLPLEFGKCESC 60
Query: 61 GTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMY------------------------- 95
G +EP KCEGHFGYI+LP+PIYHP+H++ELK +
Sbjct: 61 GATEPDKCEGHFGYIQLPVPIYHPAHVNELKQMLSLLCLKCLKIKKAKGTSGGLADRLLG 120
Query: 96 -----AFQLQIKN---DGVA---------QRLLSSCC---------------------EV 117
A Q+ IK+ DG + RL C EV
Sbjct: 121 VCCEEASQISIKDRASDGASYLELKLPSRSRLQPGCWNFLERYGYRYGSDYTRPLLAREV 180
Query: 118 KEMLKRIPEETRKKLAGKGYFPQDGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLK 177
KE+L+RIPEE+RKKL KG+ PQ+GYILEYLPVPPNCLSVP+ SDG STMS D S LK
Sbjct: 181 KEILRRIPEESRKKLTAKGHIPQEGYILEYLPVPPNCLSVPEASDGFSTMSVDPSRIELK 240
Query: 178 KVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFGVSQDPN 237
VLK+V I+SSRSG NFES + E++++ V YL+VRGTAK++R++D R+GVS+ +
Sbjct: 241 DVLKKVIAIKSSRSGETNFESHKAEASEMFRVVDTYLQVRGTAKAARNIDMRYGVSKISD 300
Query: 238 STTK-AWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNI 296
S++ AW EKMRTLFIRKGSGFSSRSVITGDAY+ VNE+G+P EIAQRITFEERV+VHN
Sbjct: 301 SSSSKAWTEKMRTLFIRKGSGFSSRSVITGDAYRHVNEVGIPIEIAQRITFEERVSVHNR 360
Query: 297 NYLQELVDNKLCLTYSDGSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHK 356
YLQ+LVD+KLCL+Y+ GS++YSLR+GSKGHT L+PGQVVHRR+MDGD VFINRPPTTHK
Sbjct: 361 GYLQKLVDDKLCLSYTQGSTTYSLRDGSKGHTELKPGQVVHRRVMDGDVVFINRPPTTHK 420
Query: 357 HSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLL 416
HSLQAL VYVH+D+TVKINPL+C PLSADFDGDC+HLFYPQSL+AKAEV+ELFSVEKQLL
Sbjct: 421 HSLQALRVYVHEDNTVKINPLMCSPLSADFDGDCVHLFYPQSLSAKAEVMELFSVEKQLL 480
Query: 417 SSHNGNLNLQLATDALLSLKVMFKKYFLDKAFTQQLAMFALSPLPRPALSK-ARCSARWT 475
SSH G L LQ+ +D+LLSL+VM ++ FLDKA QQLAM+ LP PAL K ++ WT
Sbjct: 481 SSHTGQLILQMGSDSLLSLRVMLERVFLDKATAQQLAMYGSLSLPPPALRKSSKSGPAWT 540
Query: 476 ALQILQSVLPPGFDSCGDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLEF 535
QILQ P GDR+L+ S++LK DF D + S+INEIVTSIF EKGP+E L F
Sbjct: 541 VFQILQLAFPERLSCKGDRFLVDGSDLLKFDFGVDAMGSIINEIVTSIFLEKGPKETLGF 600
Query: 536 FDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQ----KEIQALYSLLYHRMSTQNELV 591
FDSLQPLLME+LFA+GFS+SLED S+S+A + I +EI + S L R+S ++E
Sbjct: 601 FDSLQPLLMESLFAEGFSLSLEDLSMSRADMDVIHNLIIREISPMVSRL--RLSYRDE-- 656
Query: 592 DLQIENHIRHVKMLVAKFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSK 651
LQ+EN I VK + A F+LKS ++ LID KS+SA++K+VQQ GFLGLQLSD+ KFY+K
Sbjct: 657 -LQLENSIHKVKEVAANFMLKSYSIRNLIDIKSNSAITKLVQQTGFLGLQLSDKKKFYTK 715
Query: 652 TLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLS 711
TLVED+A +R Y + + +G++KGCFFHGLDPYEEM HSI+ REVIVRSSRGL+
Sbjct: 716 TLVEDMAIFCKRKYGRISS--SGDFGIVKGCFFHGLDPYEEMAHSIAAREVIVRSSRGLA 773
Query: 712 EPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYAVNARKSH-SLFPAGEPVGVLAA 770
EPGTLFKNLMAVLRD+VI DGTVRN CSNS+IQF Y V++ + H LF AGEPVGVLAA
Sbjct: 774 EPGTLFKNLMAVLRDIVITNDGTVRNTCSNSVIQFKYGVDSERGHQGLFEAGEPVGVLAA 833
Query: 771 TAMSNPAYKAVLDSSPSSNNSWELMKEILLCRVSFNNDPIDRRVILYLNDCGCGRKYCQE 830
TAMSNPAYKAVLDSSP+SN+SWELMKE+LLC+V+F N DRRVILYLN+C CG+++CQE
Sbjct: 834 TAMSNPAYKAVLDSSPNSNSSWELMKEVLLCKVNFQNTTNDRRVILYLNECHCGKRFCQE 893
Query: 831 RAAYMVKNQLKRVSLKDAAVEFLIEYKKPEIISD----DEGLVGHIHLNKILLEDLRISM 886
AA V+N+L +VSLKD AVEFL+EY+K IS+ D L GHIHLNK LL+D ISM
Sbjct: 894 NAACTVRNKLNKVSLKDTAVEFLVEYRKQPTISEIFGIDSCLHGHIHLNKTLLQDWNISM 953
Query: 887 HDILPKCQETLKSFCKKKKMKKVVQFFKNTSLSISECCSFQQSCADKRSNMPCLMFVLRG 946
DI KC++ + S +KKK KK FK TSLS+SECCSF+ C K S+MPCL F
Sbjct: 954 QDIHQKCEDVINSLGQKKK-KKATDDFKRTSLSVSECCSFRDPCGSKGSDMPCLTFSYN- 1011
Query: 947 ASDSYLDKLSGVLANMIYPVLLETIIK 973
A+D L++ VL N +YPVLLE +IK
Sbjct: 1012 ATDPDLERTLDVLCNTVYPVLLEIVIK 1038
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DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates (By similarity). Largest and catalytic component of RNA polymerase IVb involved in RNA-directed DNA methylation-dependent (RdDM) silencing of endogenous repeated sequences, including transposable elements. Also required for full erasure of methylation when the RNA trigger is withdrawn. Seems also involved in the synthesis of short-interfering RNAs (siRNA). Essential component of a self-reinforcing loop coupling de novo DNA methylation to siRNA production. Involved in the maintenance of post-transcriptional RNA silencing. Arabidopsis thaliana (taxid: 3702) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6 |
| >sp|Q9LQ02|NRPD1_ARATH DNA-directed RNA polymerase D subunit 1 OS=Arabidopsis thaliana GN=NRPD1 PE=1 SV=1 | Back alignment and function description |
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| >sp|P17545|RPB1B_TRYBB DNA-directed RNA polymerase II subunit RPB1-B OS=Trypanosoma brucei brucei GN=TRP5.9 PE=1 SV=1 | Back alignment and function description |
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| >sp|P17546|RPB1A_TRYBB DNA-directed RNA polymerase II subunit RPB1-A OS=Trypanosoma brucei brucei GN=TRP4.8 PE=1 SV=1 | Back alignment and function description |
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| >sp|P36594|RPB1_SCHPO DNA-directed RNA polymerase II subunit rpb1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpb1 PE=1 SV=1 | Back alignment and function description |
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| >sp|Q75A34|RPB1_ASHGO DNA-directed RNA polymerase II subunit RPB1 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=RPB1 PE=3 SV=2 | 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|P04050|RPB1_YEAST DNA-directed RNA polymerase II subunit RPB1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPO21 PE=1 SV=2 | 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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| >sp|P35084|RPB1_DICDI DNA-directed RNA polymerase II subunit rpb1 OS=Dictyostelium discoideum GN=polr2a PE=2 SV=2 | 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 | 1238 | ||||||
| 225465870 | 1830 | PREDICTED: DNA-directed RNA polymerase E | 0.782 | 0.529 | 0.688 | 0.0 | |
| 449479984 | 1959 | PREDICTED: DNA-directed RNA polymerase E | 0.791 | 0.500 | 0.662 | 0.0 | |
| 449445170 | 2019 | PREDICTED: LOW QUALITY PROTEIN: DNA-dire | 0.791 | 0.485 | 0.644 | 0.0 | |
| 255543995 | 991 | DNA-directed RNA polymerase, putative [R | 0.728 | 0.910 | 0.697 | 0.0 | |
| 224072881 | 924 | RNA polymerase IV subunit [Populus trich | 0.690 | 0.925 | 0.706 | 0.0 | |
| 356546354 | 2020 | PREDICTED: DNA-directed RNA polymerase E | 0.777 | 0.476 | 0.634 | 0.0 | |
| 296090333 | 1890 | unnamed protein product [Vitis vinifera] | 0.690 | 0.452 | 0.736 | 0.0 | |
| 356555019 | 2098 | PREDICTED: DNA-directed RNA polymerase E | 0.807 | 0.476 | 0.600 | 0.0 | |
| 297823913 | 1947 | NRPD1b [Arabidopsis lyrata subsp. lyrata | 0.768 | 0.488 | 0.609 | 0.0 | |
| 79571777 | 1976 | nuclear RNA polymerase D1B [Arabidopsis | 0.778 | 0.487 | 0.604 | 0.0 |
| >gi|225465870|ref|XP_002265533.1| PREDICTED: DNA-directed RNA polymerase E subunit 1 [Vitis vinifera] | Back alignment and taxonomy information |
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Score = 1421 bits (3678), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 719/1045 (68%), Positives = 829/1045 (79%), Gaps = 76/1045 (7%)
Query: 1 MEENTSSTILEGQIVGIRFGLATQKEICTASISDCSISHASQLANPFLGLPLEFGKCESC 60
MEE+ SSTIL+G+I GIRFGLAT++EIC AS+SDC ISHASQL NPFLGLPLEFGKCESC
Sbjct: 1 MEED-SSTILDGEISGIRFGLATRQEICIASVSDCPISHASQLTNPFLGLPLEFGKCESC 59
Query: 61 GTSEPGKCEGHFGYIELPIPIYHPSHISELKLTMYAF--------QLQIKNDGVAQRLLS 112
GT+EPG+CEGHFGYIELPIPIYHP H+SELK + + ++ N+G+ ++LL+
Sbjct: 60 GTAEPGQCEGHFGYIELPIPIYHPGHVSELKRMLSLLCLKCLKIRKSKVTNNGITEQLLA 119
Query: 113 SCCE------VKEM-------------------------------------LKRI----- 124
CC+ V+E L RI
Sbjct: 120 PCCQDSPQVSVREFRPTEGACFLELKIPSRSRPKDGFWDFLARYGYRYGHNLSRILLPSE 179
Query: 125 --------PEETRKKLAGKGYFPQDGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAML 176
PE+TRKKL KGYFPQDGYIL+YLPVPPNCLSVPDISDGVS MSSDLS++ML
Sbjct: 180 VMEILRRIPEDTRKKLVRKGYFPQDGYILQYLPVPPNCLSVPDISDGVSIMSSDLSVSML 239
Query: 177 KKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFGVSQDP 236
KKVLKQ+E+I+ SRSG PNFES ++E+N+LQ ++ QYLEVRGTAK+SR +D RFG S++P
Sbjct: 240 KKVLKQIEVIKGSRSGEPNFESHKIEANNLQSSIEQYLEVRGTAKTSRSLDTRFGSSKEP 299
Query: 237 N-STTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHN 295
N S+TKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIG+PFEIAQRITFEERVNVHN
Sbjct: 300 NESSTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGLPFEIAQRITFEERVNVHN 359
Query: 296 INYLQELVDNKLCLTYSDGSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTH 355
+ +LQ LVD KLCLTY DG S+YSLREGSKGHTFLRPGQVVHRRIMDGD VFINRPPTTH
Sbjct: 360 MKHLQNLVDEKLCLTYRDGLSTYSLREGSKGHTFLRPGQVVHRRIMDGDIVFINRPPTTH 419
Query: 356 KHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQL 415
KHSLQALSVYVHDDHTVKINPLICGPLSADFDGDC+HLFYPQSL AKAEVLELFSVEKQL
Sbjct: 420 KHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCVHLFYPQSLGAKAEVLELFSVEKQL 479
Query: 416 LSSHNGNLNLQLATDALLSLKVMFKKYFLDKAFTQQLAMFALSPLPRPALSKARCSAR-W 474
LSSH+GNLNLQLATD+LLSLKV+F++YFL+KA QQL MF LPRPAL K+ CS W
Sbjct: 480 LSSHSGNLNLQLATDSLLSLKVLFERYFLNKAAAQQLVMFVSMSLPRPALLKSPCSGPCW 539
Query: 475 TALQILQSVLPPGFDSCGDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVLE 534
TALQILQ+ LP FD G+R+ I KS +LK D++RD + S++NEIVTSIF EKGP EVL+
Sbjct: 540 TALQILQTALPSYFDCIGERHWISKSAILKVDYNRDVLQSLVNEIVTSIFSEKGPNEVLK 599
Query: 535 FFDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQKEIQALYSLLYHRMSTQNELVDLQ 594
FFDSLQPLLMENLF++GFSVSLEDFS+ NIQK ++ + SLLY+ S NEL+ LQ
Sbjct: 600 FFDSLQPLLMENLFSEGFSVSLEDFSIPSEVTQNIQKNVEDISSLLYNLRSMYNELLQLQ 659
Query: 595 IENHIRHVKMLVAKFILKSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLV 654
ENH+R K+ VA FIL SS LG LIDSKSDSA++KVVQQ GFLG QLS++GKFYS+TLV
Sbjct: 660 AENHLRLTKVPVANFILNSSALGNLIDSKSDSAINKVVQQIGFLGQQLSEKGKFYSRTLV 719
Query: 655 EDIASHFERIYPMD-LNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEP 713
E +A F+ YP +YP+ ++GLI+ CFFHGLDPYEEM HSISTRE+IVRSSRGLSEP
Sbjct: 720 EGMAYLFKSKYPFHGADYPSGEFGLIRSCFFHGLDPYEEMVHSISTREIIVRSSRGLSEP 779
Query: 714 GTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYAVNAR-KSHSLFPAGEPVGVLAATA 772
GTLFKNLMA+LRDVVICYDGTVRNVCSNSIIQF+Y V AR K FPAGEPVGVLAATA
Sbjct: 780 GTLFKNLMAILRDVVICYDGTVRNVCSNSIIQFEYGVKARTKPQHFFPAGEPVGVLAATA 839
Query: 773 MSNPAYKAVLDSSPSSNNSWELMKEILLCRVSFNNDPIDRRVILYLNDCGCGRKYCQERA 832
MSNPAYKAVLDSSPSSN+SWELMKEILLC+V+F ND IDRRVILYLNDC CGRKYC+E A
Sbjct: 840 MSNPAYKAVLDSSPSSNSSWELMKEILLCQVNFKNDLIDRRVILYLNDCDCGRKYCRENA 899
Query: 833 AYMVKNQLKRVSLKDAAVEFLIEYKKPEIISDDE----GLVGHIHLNKILLEDLRISMHD 888
AY+VKNQLK+ SLKD AVEF+IEY K +S GLVGHIHLNK+LL+DL +SM +
Sbjct: 900 AYLVKNQLKKASLKDTAVEFMIEYVKQHAVSGSSEPGTGLVGHIHLNKLLLQDLNVSMQE 959
Query: 889 ILPKCQETLKSFCKKKKMKKVVQFFKNTSLSISECCSFQQSCADKRSNMPCLMFVLRGAS 948
+ KC+ET+ SF KK K V FFK LS ECC+FQ SC K S+MPCL+F +G
Sbjct: 960 VCQKCEETINSFRKK---KNVGPFFKKIILSFRECCTFQHSCQSKGSDMPCLLFFWQGNR 1016
Query: 949 DSYLDKLSGVLANMIYPVLLETIIK 973
D L+++ +LA+ I PVLL+TIIK
Sbjct: 1017 DDNLEQILHILAHKICPVLLQTIIK 1041
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Source: Vitis vinifera Species: Vitis vinifera Genus: Vitis Family: Vitaceae Order: Vitales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|449479984|ref|XP_004155767.1| PREDICTED: DNA-directed RNA polymerase E subunit 1-like [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|449445170|ref|XP_004140346.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase E subunit 1-like [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|255543995|ref|XP_002513060.1| DNA-directed RNA polymerase, putative [Ricinus communis] gi|223548071|gb|EEF49563.1| DNA-directed RNA polymerase, putative [Ricinus communis] | Back alignment and taxonomy information |
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| >gi|224072881|ref|XP_002303925.1| RNA polymerase IV subunit [Populus trichocarpa] gi|222841357|gb|EEE78904.1| RNA polymerase IV subunit [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|356546354|ref|XP_003541591.1| PREDICTED: DNA-directed RNA polymerase E subunit 1-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|296090333|emb|CBI40152.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|356555019|ref|XP_003545837.1| PREDICTED: DNA-directed RNA polymerase E subunit 1-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|297823913|ref|XP_002879839.1| NRPD1b [Arabidopsis lyrata subsp. lyrata] gi|297325678|gb|EFH56098.1| NRPD1b [Arabidopsis lyrata subsp. lyrata] | Back alignment and taxonomy information |
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| >gi|79571777|ref|NP_181532.2| nuclear RNA polymerase D1B [Arabidopsis thaliana] gi|75320513|sp|Q5D869.1|NRPE1_ARATH RecName: Full=DNA-directed RNA polymerase E subunit 1; Short=Nuclear RNA polymerase E 1; AltName: Full=DNA-directed RNA polymerase D subunit 1b; Short=AtNRPD1b; Short=Nuclear RNA polymerase D 1b; AltName: Full=Protein DEFECTIVE IN MERISTEM SILENCING 5; AltName: Full=Protein DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 3; AltName: Full=Protein RNA-DIRECTED DNA METHYLATION DEFECTIVE 1; AltName: Full=RNA polymerase IV subunit 1; Short=POL IV 1 gi|59939210|gb|AAX12373.1| DNA-directed RNA polymerase alpha subunit [Arabidopsis thaliana] gi|62822917|gb|AAY15198.1| DNA-dependent RNA polymerase large subunit [Arabidopsis thaliana] gi|330254673|gb|AEC09767.1| nuclear RNA polymerase D1B [Arabidopsis thaliana] | Back alignment and taxonomy information |
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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 | 1238 | ||||||
| TAIR|locus:2061151 | 1976 | NRPD1B "nuclear RNA polymerase | 0.685 | 0.429 | 0.629 | 0.0 | |
| TAIR|locus:2015163 | 1453 | NRPD1A "nuclear RNA polymerase | 0.294 | 0.250 | 0.330 | 1.6e-78 | |
| POMBASE|SPBC28F2.12 | 1752 | rpb1 "RNA polymerase II large | 0.359 | 0.253 | 0.301 | 3.1e-55 | |
| POMBASE|SPBC651.08c | 1405 | rpc1 "DNA-directed RNA polymer | 0.272 | 0.239 | 0.299 | 5.8e-50 | |
| SGD|S000002299 | 1733 | RPO21 "RNA polymerase II large | 0.357 | 0.255 | 0.285 | 1.8e-46 | |
| DICTYBASE|DDB_G0279193 | 1727 | rpb1 "RNA polymerase II core s | 0.311 | 0.223 | 0.285 | 2.9e-43 | |
| FB|FBgn0030687 | 1383 | CG17209 [Drosophila melanogast | 0.340 | 0.304 | 0.286 | 3.4e-42 | |
| UNIPROTKB|G4MT89 | 1757 | MGG_04652 "DNA-directed RNA po | 0.390 | 0.275 | 0.280 | 3.9e-41 | |
| ASPGD|ASPL0000054301 | 1745 | AN0809 [Emericella nidulans (t | 0.287 | 0.204 | 0.303 | 6.3e-41 | |
| ASPGD|ASPL0000047704 | 1445 | AN10316 [Emericella nidulans ( | 0.307 | 0.263 | 0.278 | 5.8e-40 |
| TAIR|locus:2061151 NRPD1B "nuclear RNA polymerase D1B" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
|---|
Score = 2710 (959.0 bits), Expect = 0., Sum P(3) = 0.
Identities = 547/869 (62%), Positives = 663/869 (76%)
Query: 116 EVKEMLKRIPEETRKKLAGKGYFPQDGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAM 175
EVKE+L+RIPEE+RKKL KG+ PQ+GYILEYLPVPPNCLSVP+ SDG STMS D S
Sbjct: 179 EVKEILRRIPEESRKKLTAKGHIPQEGYILEYLPVPPNCLSVPEASDGFSTMSVDPSRIE 238
Query: 176 LKKVLKQVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFGVSQ- 234
LK VLK+V I+SSRSG NFES + E++++ V YL+VRGTAK++R++D R+GVS+
Sbjct: 239 LKDVLKKVIAIKSSRSGETNFESHKAEASEMFRVVDTYLQVRGTAKAARNIDMRYGVSKI 298
Query: 235 DPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVH 294
+S++KAW EKMRTLFIRKGSGFSSRSVITGDAY+ VNE+G+P EIAQRITFEERV+VH
Sbjct: 299 SDSSSSKAWTEKMRTLFIRKGSGFSSRSVITGDAYRHVNEVGIPIEIAQRITFEERVSVH 358
Query: 295 NINYLQELVDNKLCLTYSDGSSSYSLREGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTT 354
N YLQ+LVD+KLCL+Y+ GS++YSLR+GSKGHT L+PGQVVHRR+MDGD VFINRPPTT
Sbjct: 359 NRGYLQKLVDDKLCLSYTQGSTTYSLRDGSKGHTELKPGQVVHRRVMDGDVVFINRPPTT 418
Query: 355 HKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQ 414
HKHSLQAL VYVH+D+TVKINPL+C PLSADFDGDC+HLFYPQSL+AKAEV+ELFSVEKQ
Sbjct: 419 HKHSLQALRVYVHEDNTVKINPLMCSPLSADFDGDCVHLFYPQSLSAKAEVMELFSVEKQ 478
Query: 415 LLSSHNGNLNLQLATDALLSLKVMFKKYFLDKAFTQQLAMFALSPLPRPALSKARCSA-R 473
LLSSH G L LQ+ +D+LLSL+VM ++ FLDKA QQLAM+ LP PAL K+ S
Sbjct: 479 LLSSHTGQLILQMGSDSLLSLRVMLERVFLDKATAQQLAMYGSLSLPPPALRKSSKSGPA 538
Query: 474 WTALQILQSVLPPGFDSCGDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFFEKGPEEVL 533
WT QILQ P GDR+L+ S++LK DF D + S+INEIVTSIF EKGP+E L
Sbjct: 539 WTVFQILQLAFPERLSCKGDRFLVDGSDLLKFDFGVDAMGSIINEIVTSIFLEKGPKETL 598
Query: 534 EFFDSLQPLLMENLFADGFSVSLEDFSLSKA---ALWN-IQKEIQALYSLLYHRMSTQNE 589
FFDSLQPLLME+LFA+GFS+SLED S+S+A + N I +EI + S L R+S ++E
Sbjct: 599 GFFDSLQPLLMESLFAEGFSLSLEDLSMSRADMDVIHNLIIREISPMVSRL--RLSYRDE 656
Query: 590 LVDLQIENHIRHVKMLVAKFILKSSTLGYLIXXXXXXXXXXXXXXXGFLGLQLSDRGKFY 649
L Q+EN I VK + A F+LKS ++ LI GFLGLQLSD+ KFY
Sbjct: 657 L---QLENSIHKVKEVAANFMLKSYSIRNLIDIKSNSAITKLVQQTGFLGLQLSDKKKFY 713
Query: 650 SKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRG 709
+KTLVED+A +R Y + + +G++KGCFFHGLDPYEEM HSI+ REVIVRSSRG
Sbjct: 714 TKTLVEDMAIFCKRKYGRISS--SGDFGIVKGCFFHGLDPYEEMAHSIAAREVIVRSSRG 771
Query: 710 LSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYAVNARKSHS-LFPAGEPVGVL 768
L+EPGTLFKNLMAVLRD+VI DGTVRN CSNS+IQF Y V++ + H LF AGEPVGVL
Sbjct: 772 LAEPGTLFKNLMAVLRDIVITNDGTVRNTCSNSVIQFKYGVDSERGHQGLFEAGEPVGVL 831
Query: 769 AATAMSNPAYKAVLDSSPSSNNSWELMKEILLCRVSFNNDPIDRRVILYLNDCGCGRKYC 828
AATAMSNPAYKAVLDSSP+SN+SWELMKE+LLC+V+F N DRRVILYLN+C CG+++C
Sbjct: 832 AATAMSNPAYKAVLDSSPNSNSSWELMKEVLLCKVNFQNTTNDRRVILYLNECHCGKRFC 891
Query: 829 QERAAYMVKNQLKRVSLKDAAVEFLIEYKKPEIISD----DEGLVGHIHLNKILLEDLRI 884
QE AA V+N+L +VSLKD AVEFL+EY+K IS+ D L GHIHLNK LL+D I
Sbjct: 892 QENAACTVRNKLNKVSLKDTAVEFLVEYRKQPTISEIFGIDSCLHGHIHLNKTLLQDWNI 951
Query: 885 SMHDILPKCQETLXXXXXXXXXXXXXXXXXNTSLSISECCSFQQSCADKRSNMPCLMFVL 944
SM DI KC++ + TSLS+SECCSF+ C K S+MPCL F
Sbjct: 952 SMQDIHQKCEDVINSLGQKKKKKATDDFK-RTSLSVSECCSFRDPCGSKGSDMPCLTFSY 1010
Query: 945 RGASDSYLDKLSGVLANMIYPVLLETIIK 973
A+D L++ VL N +YPVLLE +IK
Sbjct: 1011 N-ATDPDLERTLDVLCNTVYPVLLEIVIK 1038
|
|
| TAIR|locus:2015163 NRPD1A "nuclear RNA polymerase D1A" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
|---|
| POMBASE|SPBC28F2.12 rpb1 "RNA polymerase II large subunit Rpb1" [Schizosaccharomyces pombe (taxid:4896)] | Back alignment and assigned GO terms |
|---|
| POMBASE|SPBC651.08c rpc1 "DNA-directed RNA polymerase III complex large subunit Rpc1 (predicted)" [Schizosaccharomyces pombe (taxid:4896)] | Back alignment and assigned GO terms |
|---|
| SGD|S000002299 RPO21 "RNA polymerase II largest subunit B220" [Saccharomyces cerevisiae (taxid:4932)] | Back alignment and assigned GO terms |
|---|
| DICTYBASE|DDB_G0279193 rpb1 "RNA polymerase II core subunit" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
|---|
| FB|FBgn0030687 CG17209 [Drosophila melanogaster (taxid:7227)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|G4MT89 MGG_04652 "DNA-directed RNA polymerase" [Magnaporthe oryzae 70-15 (taxid:242507)] | Back alignment and assigned GO terms |
|---|
| ASPGD|ASPL0000054301 AN0809 [Emericella nidulans (taxid:162425)] | Back alignment and assigned GO terms |
|---|
| ASPGD|ASPL0000047704 AN10316 [Emericella nidulans (taxid:162425)] | 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
No confident hit for EC number transfering in SWISSPROT detected by BLAST
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 | LOW CONFIDENCE prediction! |
| 4th Layer | 2.7.7.6 | 0.737 |
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
 |
 |
 |
 |
 |
 |
 |
 |
 |
|||
 | GSVIVG00030927001 | RecName- Full=DNA-directed RNA polymerase; EC=2.7.7.6; (1830 aa) | |||||||||
(Vitis vinifera) | |||||||||||
 | GSVIVG00037254001 | • | • | 0.470 | |||||||
 | GSVIVG00032775001 | • | 0.441 |
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 | 1238 | |||
| smart00663 | 295 | smart00663, RPOLA_N, RNA polymerase I subunit A N- | 1e-69 | |
| TIGR02390 | 867 | TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymer | 6e-51 | |
| PRK08566 | 882 | PRK08566, PRK08566, DNA-directed RNA polymerase su | 4e-50 | |
| PRK14977 | 1321 | PRK14977, PRK14977, bifunctional DNA-directed RNA | 9e-50 | |
| cd02737 | 381 | cd02737, RNAP_IV_NRPD1_C, Largest subunit (NRPD1) | 1e-49 | |
| cd02737 | 381 | cd02737, RNAP_IV_NRPD1_C, Largest subunit (NRPD1) | 1e-44 | |
| pfam00623 | 165 | pfam00623, RNA_pol_Rpb1_2, RNA polymerase Rpb1, do | 9e-38 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 9e-32 | |
| pfam04983 | 158 | pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, do | 6e-10 | |
| TIGR02387 | 619 | TIGR02387, rpoC1_cyan, DNA-directed RNA polymerase | 6e-09 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 1e-08 | |
| CHL00018 | 663 | CHL00018, rpoC1, RNA polymerase beta' subunit | 2e-08 | |
| PRK14906 | 1460 | PRK14906, PRK14906, DNA-directed RNA polymerase su | 2e-08 | |
| PRK02625 | 627 | PRK02625, rpoC1, DNA-directed RNA polymerase subun | 3e-08 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 1e-07 | |
| cd00630 | 158 | cd00630, RNAP_largest_subunit_C, Largest subunit o | 5e-07 | |
| TIGR02386 | 1140 | TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, | 2e-06 | |
| TIGR02390 | 867 | TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymer | 1e-04 | |
| PRK00566 | 1156 | PRK00566, PRK00566, DNA-directed RNA polymerase su | 1e-04 | |
| cd02736 | 300 | cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) o | 3e-04 | |
| PRK08566 | 882 | PRK08566, PRK08566, DNA-directed RNA polymerase su | 5e-04 | |
| pfam04997 | 330 | pfam04997, RNA_pol_Rpb1_1, RNA polymerase Rpb1, do | 8e-04 | |
| cd02735 | 309 | cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of | 0.001 | |
| PRK14977 | 1321 | PRK14977, PRK14977, bifunctional DNA-directed RNA | 0.002 |
| >gnl|CDD|214767 smart00663, RPOLA_N, RNA polymerase I subunit A N-terminus | Back alignment and domain information |
|---|
Score = 235 bits (601), Expect = 1e-69
Identities = 106/307 (34%), Positives = 152/307 (49%), Gaps = 25/307 (8%)
Query: 141 DGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSSRS-GTPNFESQ 199
+ IL LPVPP CL P + + D +L+ ++K+ ++ G P+ +
Sbjct: 1 EWMILTVLPVPPPCLR-PSVQLDGGRFAEDDLTHLLRDIIKRNNRLKRLLELGAPSIIIR 59
Query: 200 EVESNDLQLAVGQYLEV----RGTAKSSRDVDARFGVSQDPNSTTKAWLEK----MRTLF 251
+ LQ AV ++ R KS R P + L+ R
Sbjct: 60 NEKRL-LQEAVDTLIDNEGLPRANQKSGR-----------PLKSLSQRLKGKEGRFRQNL 107
Query: 252 IRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDNKL-CLT 310
+ K FS+RSVIT D ++NE+GVP EIA +TF E V NI+ L++LV N
Sbjct: 108 LGKRVDFSARSVITPDPNLKLNEVGVPKEIALELTFPEIVTPLNIDKLRKLVRNGPNGAK 167
Query: 311 YSDGSSSYSLR--EGSKGHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHD 368
Y +L+ + SK L+ G +V R ++DGD V NR PT H+ S+QA V V +
Sbjct: 168 YIIRGKKTNLKLAKKSKIANHLKIGDIVERHVIDGDVVLFNRQPTLHRMSIQAHRVRVLE 227
Query: 369 DHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLA 428
T+++NPL+C P +ADFDGD ++L PQSL A+AE EL V +LS NG +
Sbjct: 228 GKTIRLNPLVCSPYNADFDGDEMNLHVPQSLEARAEARELMLVPNNILSPKNGKPIIGPI 287
Query: 429 TDALLSL 435
D LL L
Sbjct: 288 QDMLLGL 294
|
Length = 295 |
| >gnl|CDD|233843 TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymerase subunit A' | Back alignment and domain information |
|---|
| >gnl|CDD|236292 PRK08566, PRK08566, DNA-directed RNA polymerase subunit A'; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|184940 PRK14977, PRK14977, bifunctional DNA-directed RNA polymerase A'/A'' subunit; 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|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|216030 pfam00623, RNA_pol_Rpb1_2, RNA polymerase Rpb1, domain 2 | 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|218361 pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, domain 3 | Back alignment and domain information |
|---|
| >gnl|CDD|131440 TIGR02387, rpoC1_cyan, DNA-directed RNA polymerase, gamma 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|214336 CHL00018, rpoC1, RNA polymerase beta' subunit | 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|235055 PRK02625, rpoC1, DNA-directed RNA polymerase subunit gamma; 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|132719 cd00630, RNAP_largest_subunit_C, Largest subunit of 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|233843 TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymerase subunit A' | Back alignment and domain information |
|---|
| >gnl|CDD|234794 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional | 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|236292 PRK08566, PRK08566, DNA-directed RNA polymerase subunit A'; Validated | 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|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|184940 PRK14977, PRK14977, bifunctional DNA-directed RNA polymerase A'/A'' subunit; 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 | 1238 | |||
| KOG0261 | 1386 | consensus RNA polymerase III, large subunit [Trans | 100.0 | |
| PRK14977 | 1321 | bifunctional DNA-directed RNA polymerase A'/A'' su | 100.0 | |
| KOG0260 | 1605 | consensus RNA polymerase II, large subunit [Transc | 100.0 | |
| KOG0262 | 1640 | consensus RNA polymerase I, large subunit [Transcr | 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 | |
| PRK14844 | 2836 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| PRK09603 | 2890 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 100.0 | |
| PRK02625 | 627 | rpoC1 DNA-directed RNA polymerase subunit gamma; P | 100.0 | |
| TIGR02387 | 619 | rpoC1_cyan DNA-directed RNA polymerase, gamma subu | 100.0 | |
| CHL00018 | 663 | rpoC1 RNA polymerase beta' subunit | 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 | |
| PF00623 | 166 | RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; Int | 100.0 | |
| PRK04309 | 383 | DNA-directed RNA polymerase subunit A''; Validated | 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 | |
| cd02584 | 410 | RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryoti | 100.0 | |
| cd02737 | 381 | RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher | 100.0 | |
| cd02736 | 300 | RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryot | 100.0 | |
| cd02735 | 309 | RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic | 100.0 | |
| TIGR02388 | 1227 | rpoC2_cyan DNA-directed RNA polymerase, beta'' sub | 100.0 | |
| PRK02597 | 1331 | rpoC2 DNA-directed RNA polymerase subunit beta'; P | 100.0 | |
| PF04998 | 277 | RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; Int | 100.0 | |
| CHL00117 | 1364 | rpoC2 RNA polymerase beta'' subunit; Reviewed | 100.0 | |
| PF04997 | 337 | RNA_pol_Rpb1_1: RNA polymerase Rpb1, domain 1; Int | 100.0 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 100.0 | |
| cd00630 | 158 | RNAP_largest_subunit_C Largest subunit of RNA poly | 99.96 | |
| PF04983 | 158 | RNA_pol_Rpb1_3: RNA polymerase Rpb1, domain 3; Int | 99.96 | |
| cd02655 | 204 | RNAP_beta'_C Largest subunit (beta') of Bacterial | 99.92 | |
| PF05000 | 108 | RNA_pol_Rpb1_4: RNA polymerase Rpb1, domain 4; Int | 99.51 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 99.16 | |
| TIGR02388 | 1227 | rpoC2_cyan DNA-directed RNA polymerase, beta'' sub | 99.12 | |
| CHL00117 | 1364 | rpoC2 RNA polymerase beta'' subunit; Reviewed | 99.11 | |
| PRK02597 | 1331 | rpoC2 DNA-directed RNA polymerase subunit beta'; P | 99.08 | |
| KOG0260 | 1605 | consensus RNA polymerase II, large subunit [Transc | 97.97 | |
| PF04990 | 135 | RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; Int | 97.38 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 96.89 |
| >KOG0261 consensus RNA polymerase III, large subunit [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.1e-248 Score=2147.17 Aligned_cols=1056 Identities=23% Similarity=0.358 Sum_probs=918.9
Q ss_pred CCCCCcccccccceEEEecCChHHHHhccccccc-----------ccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCc
Q 000882 3 ENTSSTILEGQIVGIRFGLATQKEICTASISDCS-----------ISHASQLANPFLGLPLEFGKCESCGTSEPGKCEGH 71 (1238)
Q Consensus 3 ~~~~~~~~~~~I~~I~Fgl~S~eEI~k~Sv~~~~-----------I~~~~gl~DprlG~~~~~~~C~TCg~~~~~~CpGH 71 (1238)
+|+.....+++|++|+|+++|++||++.+++++. .+.++|++|||||++++...|+|||.+. .+|+||
T Consensus 2 k~~~e~~~~kki~~i~F~~~s~~ei~~~a~v~v~~~~LY~~~~~~~P~~~G~LD~rMGvs~K~~~C~TCg~~l-a~C~GH 80 (1386)
T KOG0261|consen 2 KQFREDEIPKKIKHIQFSILSPEEIRQQAEVEVSSKDLYDISTQRAPLPNGPLDPRMGVSNKKDKCATCGEGL-ADCIGH 80 (1386)
T ss_pred CccccccccceeeeEeeccCCHHHHHhcceEEeeccchhhhhcccCCCcCCCcCcccCCCCCCCccchhccch-hhcccc
Confidence 5778888999999999999999999999987431 1235799999999999999999999997 799999
Q ss_pred ceeEEcCcccccccChHHHHHHHHhhccccc-------------------------CchHHHHHHHhH--------h---
Q 000882 72 FGYIELPIPIYHPSHISELKLTMYAFQLQIK-------------------------NDGVAQRLLSSC--------C--- 115 (1238)
Q Consensus 72 FGhIeL~~PVfHpgf~k~i~~IL~~iCl~l~-------------------------~~~~~~~~~~~C--------C--- 115 (1238)
|||++|++||||+|||+.+++||||||..|. +.++.++++.+| |
T Consensus 81 fGy~~L~LPVFhiGyfk~ti~iLq~ICK~Cs~ilL~~~~k~~fl~~lr~p~~~~l~k~~l~kri~~~CkK~~~C~hCg~~ 160 (1386)
T KOG0261|consen 81 FGYLKLALPVFHIGYFKATIQILQCICKNCSSILLSEEDKRQFLKKLRNPGLDNLRKKALLKRIVAKCKKVNTCSHCGAL 160 (1386)
T ss_pred cceEeecceeeeehhHHHHHHHHHHHHHhhhhhhcCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHhhccccccccCCc
Confidence 9999999999999999999999999993321 224456666666 3
Q ss_pred -----------------------------------------------------------HHHHHHccCChhHHHHhccCC
Q 000882 116 -----------------------------------------------------------EVKEMLKRIPEETRKKLAGKG 136 (1238)
Q Consensus 116 -----------------------------------------------------------ev~~i~k~I~~ed~~~L~~~~ 136 (1238)
.|+++|++|++.|+++|+...
T Consensus 161 NG~VKK~~~~lkIiHd~~~~~~k~~~~~~~~~~~~~~~~~~n~e~~~~~~~~~~~LnPl~vLnLFk~i~~~D~eLLg~~~ 240 (1386)
T KOG0261|consen 161 NGTVKKAAALLKIIHDRFKLVKKSDPLVTNERGEFKTAISHNKELEGHLSSCCEELNPLVVLNLFKQIKEDDCELLGMDS 240 (1386)
T ss_pred CceeeccccceeEeeehhhccccccchhhhhHHHHHHHhhcCcchHhHHHHHHhhcChHHHHHHHhhCCccccceeeecc
Confidence 578999999999999996431
Q ss_pred -CCCCCceEEEeeccCCCCCCCccccCC-CccccchhhHHHHHHHHHHHHHHHhh-hcCCCCcchhhhhhhHHHHHHHHH
Q 000882 137 -YFPQDGYILEYLPVPPNCLSVPDISDG-VSTMSSDLSIAMLKKVLKQVEIIRSS-RSGTPNFESQEVESNDLQLAVGQY 213 (1238)
Q Consensus 137 -~~~~~~~il~~lpVpP~~~Rp~~~~~~-~~~~~~Dlt~~~l~~I~~~~~~l~~~-~~g~~~~~~~~~~~~~LQ~~v~~~ 213 (1238)
--+|+.+|++++||||.|+||++++++ ...++||+|+ +|.+|+-.|..|++. ..|+|.... ...|+.||.+|+.|
T Consensus 241 ~~~~P~~Li~t~~~vPP~cIRPSV~~~~k~gtnEDDlT~-KltEIi~tn~vik~~~~~g~~~~~i-mE~Wd~lQl~~Aly 318 (1386)
T KOG0261|consen 241 EEGRPENLIITRVPVPPVCIRPSVMSEDKAGTNEDDLTM-KLTEIILTNDVIKKHLSKGTPINLI-MEDWDFLQLQVALY 318 (1386)
T ss_pred CcCCchheEEEeccCCccccccceeecCCCCCCccchhh-hhhhhhhHHHHHHHHhhcCCCchhh-hhhhHHHHHHHHHh
Confidence 225889999999999999999999977 3467899999 699999999999986 567775554 45699999999999
Q ss_pred Hhc--cCCcccCCCcccCCCCCCCCCcchhhhhhhhhccccccCCCCCcceeEeCCCCccccccccchhhhccccccccc
Q 000882 214 LEV--RGTAKSSRDVDARFGVSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERV 291 (1238)
Q Consensus 214 ~~~--~~~~k~~~~~~~~~~~~k~~~~~iKgk~gr~R~nllGKRVdfSaRsVIspDP~L~i~evGvP~~iA~~LT~pE~V 291 (1238)
||+ +|.+....+... ..-..+++|||+||||+||.||||||||||||||||||+|||||||..||+.|||||+|
T Consensus 319 INSEl~g~~~~~~p~kp----~RGf~QRLKGKqGRFRgNLSGKRVDFSGRTVISPDPNL~IdeVgVP~rvAkiLTfpE~V 394 (1386)
T KOG0261|consen 319 INSELPGIPINMAPKKP----TRGFVQRLKGKQGRFRGNLSGKRVDFSGRTVISPDPNLRIDEVGVPIRVAKILTFPERV 394 (1386)
T ss_pred hcccCCCCCCCCCCCCc----hHHHHHHhcccCCceeccccCceeeccCceeeCCCCCcceeeccchHHHHHHhcchhhc
Confidence 984 444433211000 00123799999999999999999999999999999999999999999999999999999
Q ss_pred chhhHHHHHHHHHcCCcc-------ccCCCCceEEeccCCCC--cccccCcceeeeeeeccCeEeeeCCCCCCcccccce
Q 000882 292 NVHNINYLQELVDNKLCL-------TYSDGSSSYSLREGSKG--HTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQAL 362 (1238)
Q Consensus 292 t~~Ni~~l~~lV~ng~~~-------~~~~~~~~~~l~~~~~~--~~~L~~g~iV~Rhl~dgD~VL~NRqPSLHr~Simah 362 (1238)
|.+||++||+||.|||.+ +.+..+.+..|+||+|. +..|++||+|||||+|||+|||||||||||||||+|
T Consensus 395 t~~Ni~klr~lV~NGP~vhPGANyv~~r~~~~kr~L~yg~R~kiA~eLk~GdvVERHL~DgDvVLFNRQPSLHkmSIM~H 474 (1386)
T KOG0261|consen 395 TRANIRKLRQLVRNGPNVHPGANYVVQRGEGFKRFLKYGNRDKIADELKIGDVVERHLMDGDVVLFNRQPSLHKMSIMSH 474 (1386)
T ss_pred cHHHHHHHHHHHhcCCCCCCCcchhhhcccchhhHhhcCcHHHHHHhhccchHHHhhcccCCEEEEcCCchHHHHHHHHH
Confidence 999999999999999972 11222334456677654 478999999999999999999999999999999999
Q ss_pred EEEecCCCeeeecccCCCCCCCccCccccccccCCCHHHHHHHHHHhccccccccCCCCCceEeechhhhhHHHhhh-cc
Q 000882 363 SVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMF-KK 441 (1238)
Q Consensus 363 ~v~v~~~~T~rln~~vC~pyNADFDGDeMn~H~PQs~eAraEa~~Lm~~~~nilsp~~G~Piigl~QD~llg~~llt-kd 441 (1238)
++||+||+|||||.|||+||||||||||||+||||++||||||.+||.+.+|+++|+||+||++.+||+|+|+||+| ||
T Consensus 475 ~akV~p~RTfRFNEcvCtPYNADFDGDEMNlHvPQTEEAraEA~~LMgvknNlvTPr~GEpiiAAtQDFiTg~YLlt~KD 554 (1386)
T KOG0261|consen 475 RAKVMPWRTFRFNECVCTPYNADFDGDEMNLHVPQTEEARAEALVLMGVKNNLVTPRNGEPIIAATQDFITGGYLLTHKD 554 (1386)
T ss_pred HhhcccCceeeccccccCCcCCCCCcccccccCCchHHHHHHHHHHhccccccccCCCCCceeehhhhhhhcceeeeccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998 99
Q ss_pred ccCCHHHHHHHhcccc-----cccccccccccccccccchhhhccccCCCCcc------------------------c-c
Q 000882 442 YFLDKAFTQQLAMFAL-----SPLPRPALSKARCSARWTALQILQSVLPPGFD------------------------S-C 491 (1238)
Q Consensus 442 ~fl~~~~~~~l~~~~~-----~~lp~PaI~Kp~~~~lwTGKQi~S~~LP~~~~------------------------~-~ 491 (1238)
+||+|+++.||+.++. +.+|||||+||. .||||||+||.++.++.+ | .
T Consensus 555 tF~dRa~~~ql~s~~~d~~~~i~lppPaI~KP~--~LwTGKQ~fsvlirpn~~s~v~~Nl~~k~k~~~~~~~k~~~mc~n 632 (1386)
T KOG0261|consen 555 TFLDRAEFSQLCSYMSDAMTHIDLPPPAILKPV--ELWTGKQLFSVLIRPNDDSPVRVNLDAKNKNFSLVKGKSFEMCPN 632 (1386)
T ss_pred ccccHHHHHHHHHHHhccccccCCCChhhcCce--eeeccCEEEEEEeccCCCCceEEeeccccceeecccCCCcccCCC
Confidence 9999999999987664 469999999999 999999999999954321 1 3
Q ss_pred CcEEEEecccccccccccCCccch-HHHHHHHHHHhhCHHHHHhchhhhHHHHHHHHHhcCceeecCccccCHHHHHHHH
Q 000882 492 GDRYLIKKSEVLKGDFDRDTIPSV-INEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQ 570 (1238)
Q Consensus 492 ~~~viI~~gell~G~ldK~~lG~s-~~~LI~~i~~~~G~~~a~~fLd~lqrL~~~~L~~~GFSiGi~D~~~~~~~~~~i~ 570 (1238)
++.|+|+|+++++|++||+++|.. ..+||+.+.++||+.+|++.|+++.+|+.+||..+||||||+|+.+.+...+++.
T Consensus 633 Dg~v~irns~l~sG~ldKs~lG~g~k~~lfy~llrDyg~~aAa~am~rlaklc~r~lgnrGFSIGi~DVqPg~~L~~~k~ 712 (1386)
T KOG0261|consen 633 DGYVIIRNSELISGVLDKSTLGSGKKDSLFYILLRDYGSMAAADAMNRLAKLCARFLGNRGFSIGIDDVQPGEILSQEKE 712 (1386)
T ss_pred CCeEEEecchhhhcccccccccCCCccceEeeehhhcchHHHHHHHHHHHHhhhhhccccccccccCCCCccHHHHHHHH
Confidence 567889999999999999999984 7999999999999999999999999999999999999999999999999888888
Q ss_pred HHHHHHHHHHHhhhhh-------------hHHHHHHHHHHHHHHHHHHHHHHHHh----cCCccccccccchhhhhhHHH
Q 000882 571 KEIQALYSLLYHRMST-------------QNELVDLQIENHIRHVKMLVAKFILK----SSTLGYLIDSKSDSAVSKVVQ 633 (1238)
Q Consensus 571 ~~i~~~~~~~~~~~~~-------------~~~~le~~~~~~l~~~~~~i~~~~~~----~n~l~~Mi~sGSKGS~~Ni~Q 633 (1238)
+.++..+..+.++... .++++|+.+..+|+.+|+.+++.|++ .|+..+|+.+|||||.+|++|
T Consensus 713 ~lv~~gY~kc~~~I~e~~kG~L~~qpg~~~eetLEa~I~~~Ls~IRe~~G~~C~~eL~~~NsPliMa~CGSKGS~INiSQ 792 (1386)
T KOG0261|consen 713 ELVNRGYAKCDEKIEEYNKGKLQLQPGCNEEETLEAEILSELSTIREEAGKICIRELHPRNSPLIMALCGSKGSKINISQ 792 (1386)
T ss_pred HHHHhHHHHHHHHHHHHhccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccChHHHHHhcCCCCcccHHH
Confidence 8888877777665443 36899999999999999999999986 588999999999999999999
Q ss_pred HHhhcccccccCCccccccccccccccccccCCCCCCCCCCCcceecccccccCCccceEEeeccccceeeecccccCCC
Q 000882 634 QAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEP 713 (1238)
Q Consensus 634 i~g~lGqQ~~~ggr~~~r~l~~~~~~~f~~~~p~~~d~~~~a~GfV~ssF~~GL~P~EfFfHamagREGLiDTAvkTa~s 713 (1238)
|++|||||.+.|.| ++.++.+|.+|||+++ ...|+|+|||.|||++||+|+|||||+|+|||||||||||||+|
T Consensus 793 MvACVGQQ~ISG~R-vPdGf~dRsLPHF~r~-----Sk~P~aKGFV~NSFySGLTptEFfFHtm~GREGLVDTAVKTAET 866 (1386)
T KOG0261|consen 793 MVACVGQQIISGHR-VPDGFEDRSLPHFERH-----SKTPAAKGFVANSFYSGLTPTEFFFHTMSGREGLVDTAVKTAET 866 (1386)
T ss_pred HHHHhhhhhhcCCc-CCCccccccCcccccc-----CCCccccchhhhhcccCCCchhhheeecccccchhhhhhhhhhh
Confidence 99999999998765 6788999999999864 56789999999999999999999999999999999999999999
Q ss_pred CchhHHHHHHHheeEEEecceEeccCCCceeeeeeecccccc--------------------------------------
Q 000882 714 GTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDYAVNARKS-------------------------------------- 755 (1238)
Q Consensus 714 GYL~RrLv~~l~d~~v~YD~tvr~~~~~~iiqf~yg~dg~~~-------------------------------------- 755 (1238)
|||||||||.|||+.++||||||+ +.+.||||.||+||+|+
T Consensus 867 GYMqRRLmK~LEDL~~~YDgTVR~-s~~~vvqF~YG~DglDPa~mEg~~~pv~f~r~~~~~~~~~~~~~~~~l~~~el~e 945 (1386)
T KOG0261|consen 867 GYMQRRLMKSLEDLSVQYDGTVRN-SNGDVVQFTYGGDGLDPAMMEGKDQPVNFNRVFDHAKAIFPHRHDPPLSSEELDE 945 (1386)
T ss_pred hhHHHHHHHHHHHHHHhhcCceec-CCCcEEEEeecCCCCChhhhcCCCCchhHHHHHHHHHhcCCCCCCCCCCHHHHHH
Confidence 999999999999999999999999 47999999999999762
Q ss_pred ---------------------------------------------------------------------------cCcCC
Q 000882 756 ---------------------------------------------------------------------------HSLFP 760 (1238)
Q Consensus 756 ---------------------------------------------------------------------------~~lv~ 760 (1238)
+..++
T Consensus 946 ~~~~~l~~~f~~~~~~F~~~~~~~i~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~t~kql~~f~~~~~~ky~~a~~E 1025 (1386)
T KOG0261|consen 946 TLEEELLRKFTEKGDPFVHELREFIASLSKKIKKLQDKYGDECGPKFCPDLLYQISRLTEKQLEKFVERCLDKYMRAKVE 1025 (1386)
T ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhcccccCCccCccceeeeeeccHHHHHHHHHHHHHHHHhhhcC
Confidence 23469
Q ss_pred CCCeeeeeccccCCchHHHhhhccC-------CCCCCchHHHHHHHHhhccCCCCCCCceEEEEcCCCCCCCccccHHHH
Q 000882 761 AGEPVGVLAATAMSNPAYKAVLDSS-------PSSNNSWELMKEILLCRVSFNNDPIDRRVILYLNDCGCGRKYCQERAA 833 (1238)
Q Consensus 761 ~Ge~VG~laaqsigep~tq~~l~t~-------~~~~~g~~rlkEil~~~~~~k~~~~d~~~~l~L~~~~~~~~~~~e~~a 833 (1238)
||.+||.+||||||||+|||||+|+ +|+|+|+||+|||++|.+++++| .++--|.++ .++..|
T Consensus 1026 pGTavGAi~aQSIGEPGTQMTLKTFHFAGVASMNiTlGVPRIkEIINAsk~ISTP----IItA~L~n~------~d~~~A 1095 (1386)
T KOG0261|consen 1026 PGTAVGAIAAQSIGEPGTQMTLKTFHFAGVASMNITLGVPRIKEIINASKTISTP----IITAELENP------HDERSA 1095 (1386)
T ss_pred CcchhhhhhcccCCCCCceeeeeeeeecceeeeeeccCcchHHHHHhhhcccCcc----ceeeeecCc------hhHHHH
Confidence 9999999999999999999999996 48999999999999999986665 566667665 488999
Q ss_pred HHHHhhhceechhhhhheeeEEecCCccccCCCceEEEEEecHHHHhhcCC--CHhhHHHHHHHh-hhhh----------
Q 000882 834 YMVKNQLKRVSLKDAAVEFLIEYKKPEIISDDEGLVGHIHLNKILLEDLRI--SMHDILPKCQET-LKSF---------- 900 (1238)
Q Consensus 834 ~~V~~~le~vtl~dv~~~i~i~y~~~~~~~~~~~~v~~i~Ld~e~L~~~~l--t~~~I~~~l~~~-~~~~---------- 900 (1238)
+.||.+||+++|+||++.+...|.++.+ ++.|.||.+.+...+| ++++|.-.+-+. ....
T Consensus 1096 r~VKgRiEKt~L~dv~~yieeV~~p~~~-------fl~i~vd~~~I~~l~L~i~~~~I~~sI~~s~~~k~~~~~v~v~~~ 1168 (1386)
T KOG0261|consen 1096 RVVKGRIEKTTLGDVCSYIEEVYGPDSC-------FLLIRVDLKRISLLQLEITIESIAYSILKSPKRKVKPNDVRVVGE 1168 (1386)
T ss_pred HHHhhhhhhhhHHHHHHHHHHHhCCcce-------EEEEEecHhHHhhhhccccHHHHHHHHhcCCccccCCcceEEecc
Confidence 9999999999999999999999999987 7889999998887765 578888655442 1110
Q ss_pred ------h-hhhh------hHHHHHhhccceeeccccccccccccccCCCcceEEEEEeecC-----Ccccccchhhcccc
Q 000882 901 ------C-KKKK------MKKVVQFFKNTSLSISECCSFQQSCADKRSNMPCLMFVLRGAS-----DSYLDKLSGVLANM 962 (1238)
Q Consensus 901 ------~-~~~~------~~~i~~~~~~~~i~~~g~~~~~~~~~~~~~~~~~lt~~~~~~~-----~~~~vd~~~~~sn~ 962 (1238)
. ..++ ...+...++++.+ +|+..+++.+++-++..--..+.++|.+ .++||..++|.+|+
T Consensus 1169 ~~~~v~~~~~~~~S~~~~lq~lk~~L~~Vvv--~gip~vnr~vi~~de~~~~y~L~vEG~gLr~Vm~t~GV~g~~TtsNn 1246 (1386)
T KOG0261|consen 1169 TTLRVTPVSDTKSSVYYNLQRLKRSLPNVVV--KGIPEVNRAVINIDEKRGLYKLLVEGTGLRAVMNTDGVKGRRTTSNN 1246 (1386)
T ss_pred eeEEEeecccccchhhhhHHHHHhhCCceEE--ecCcchhhhheeecccCCceEEEEeccchHHHhccCCccccccccCc
Confidence 0 0011 1245688888888 8999999998876442222445799987 78999999999999
Q ss_pred hhhHHHHhhhchhHHHH----HHHHHHHhhhhccccccceeeecccccccceEeeecccccccccccccccccchhhccc
Q 000882 963 IYPVLLETIIKENWWVR----QRLSASVTMVAKGVLKEHLILLANSMTCAGDLVGFNSGGYKALSRSLNVQVPFTEATLF 1038 (1238)
Q Consensus 963 I~ei~r~tiikGi~w~R----~~l~~~~~~~~~~V~~rHl~Llad~MT~~G~~~~~~r~G~~~~~~s~l~~a~Fe~~t~~ 1038 (1238)
+.||. -+.|||++| +.+..++...|.+||+||+|||||.|||+|||.||||+|+++|+.|+|++||||+
T Consensus 1247 v~Ev~---~vLGIEAAR~~II~EI~ytM~~HGmsiD~RHiMLLaDvMTyrGEVlGITRfGl~KM~~SVL~lASFEk---- 1319 (1386)
T KOG0261|consen 1247 VLEVE---KVLGIEAARTTIISEIGYTMSNHGMSIDPRHIMLLADVMTYRGEVLGITRFGLAKMKDSVLMLASFEK---- 1319 (1386)
T ss_pred eEEee---hhhchHHHHHHHHHHHHHHHHhcCcccCHHHHHHHHHHhhhcceeeeeeehhhHHHHHHHHHHHhhhh----
Confidence 99999 779999999 5567788888899999999999999999999999999999999999999999999
Q ss_pred ChHHHHHHHHhhcCCCCCCcccchhccCCcccccccceEEEEecCCCccccCCCccccccccccc
Q 000882 1039 MPRKCFEKAAEKRHTDNLSSVVAACSWGKHVAVGTGSRFDLLWQTENEEFNQDDGVDVYDFLHMV 1103 (1238)
Q Consensus 1039 t~~~~l~~Aa~~g~~D~l~gv~~~ii~Gk~~~~GTG~~f~l~~~~~~~~~~~~~~~~~y~~l~~~ 1103 (1238)
|. +||++||.+|.+|.+.||||+||+|+++++|||. |+|++.... +..++....|++-|+.-
T Consensus 1320 T~-DhLF~AA~~~k~D~I~GVSEcIIlG~pm~iGTG~-fkl~~~~~~-~~~~~~~~~if~~~~~~ 1381 (1386)
T KOG0261|consen 1320 TA-DHLFDAAAYGKKDAIEGVSECIILGIPMCIGTGI-FKLLQRTDD-KKVLKPKPPIFSSLNLH 1381 (1386)
T ss_pred hh-HHHHHHHHhcCcccccchhhheecccceeccccH-HHHHHhcCC-cccCCCCCCcccccccc
Confidence 44 9999999999999999999999999999999999 999997655 44444457788877654
|
|
| >PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | Back alignment and domain information |
|---|
| >KOG0260 consensus RNA polymerase II, large subunit [Transcription] | Back alignment and domain information |
|---|
| >KOG0262 consensus RNA polymerase I, 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 |
|---|
| >PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >COG0086 RpoC DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >PRK02625 rpoC1 DNA-directed RNA polymerase subunit gamma; Provisional | Back alignment and domain information |
|---|
| >TIGR02387 rpoC1_cyan DNA-directed RNA polymerase, gamma subunit | Back alignment and domain information |
|---|
| >CHL00018 rpoC1 RNA polymerase beta' subunit | 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 |
|---|
| >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 |
|---|
| >PRK04309 DNA-directed RNA polymerase subunit A''; Validated | 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 |
|---|
| >cd02584 RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | 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 |
|---|
| >cd02736 RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain | 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 |
|---|
| >TIGR02388 rpoC2_cyan DNA-directed RNA polymerase, beta'' subunit | Back alignment and domain information |
|---|
| >PRK02597 rpoC2 DNA-directed RNA polymerase subunit beta'; Provisional | 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 |
|---|
| >CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed | 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 |
|---|
| >PRK14898 DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >cd00630 RNAP_largest_subunit_C Largest subunit of 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 |
|---|
| >cd02655 RNAP_beta'_C Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain | 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 |
|---|
| >TIGR02388 rpoC2_cyan DNA-directed RNA polymerase, beta'' subunit | Back alignment and domain information |
|---|
| >CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed | Back alignment and domain information |
|---|
| >PRK02597 rpoC2 DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >KOG0260 consensus RNA polymerase II, large subunit [Transcription] | Back alignment and domain information |
|---|
| >PF04990 RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; InterPro: IPR007073 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PRK14898 DNA-directed RNA polymerase subunit A''; Provisional | 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 | 1238 | ||||
| 3h0g_A | 1752 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 2e-47 | ||
| 4a3c_A | 1732 | Rna Polymerase Ii Initial Transcribing Complex With | 5e-43 | ||
| 1i3q_A | 1733 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 6e-43 | ||
| 3j0k_A | 1455 | Orientation Of Rna Polymerase Ii Within The Human V | 1e-42 | ||
| 2waq_A | 880 | The Complete Structure Of The Archaeal 13-Subunit D | 9e-40 | ||
| 2pmz_A | 880 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 2e-39 | ||
| 3iyd_D | 1413 | Three-Dimensional Em Structure Of An Intact Activat | 1e-11 | ||
| 3lu0_D | 1407 | Molecular Model Of Escherichia Coli Core Rna Polyme | 1e-11 | ||
| 4gzy_D | 1534 | Crystal Structures Of Bacterial Rna Polymerase Paus | 2e-09 | ||
| 1iw7_D | 1524 | Crystal Structure Of The Rna Polymerase Holoenzyme | 2e-09 | ||
| 2gho_D | 1233 | Recombinant Thermus Aquaticus Rna Polymerase For St | 3e-09 | ||
| 1hqm_D | 1265 | Crystal Structure Of Thermus Aquaticus Core Rna Pol | 3e-09 | ||
| 1i6v_D | 1264 | Thermus Aquaticus Core Rna Polymerase-Rifampicin Co | 4e-09 | ||
| 1l9u_D | 1524 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 4e-09 | ||
| 3qqc_A | 436 | Crystal Structure Of Archaeal Spt45 BOUND TO THE RN | 9e-04 |
| >pdb|3H0G|A Chain A, Rna Polymerase Ii From Schizosaccharomyces Pombe Length = 1752 | 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|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|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|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|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|2GHO|D Chain D, Recombinant Thermus Aquaticus Rna Polymerase For Structural Studies Length = 1233 | 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|1I6V|D Chain D, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex Length = 1264 | 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|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
| >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 |
|---|
Score = 306 bits (785), Expect = 1e-88
Identities = 217/883 (24%), Positives = 338/883 (38%), Gaps = 184/883 (20%)
Query: 13 QIVGIRFGLATQKEICTASISDCSISHASQ-----------LANPFLGLPLEFGKCESCG 61
I GI+FG+ + EI +S +I + +P LG+ KC +CG
Sbjct: 5 NIKGIKFGILSPDEI--RKMSVTAIITPDVYDEDGTPIEGSVMDPRLGVIEPGQKCPTCG 62
Query: 62 TSEPGKCEGHFGYIELPIPIYHPSHISELKLTM-------YAFQLQIKNDGVAQRLLSSC 114
+ G C GHFG+IEL P+ H + + + ++ R+ ++
Sbjct: 63 NTL-GNCPGHFGHIELVRPVIHVGFVKHVYEFLKATCRRCGRVKISEDEIEKYSRIYNAI 121
Query: 115 --------------------------------------------CEVKEMLKRI-PEETR 129
E KE + ++ P + R
Sbjct: 122 KKRWPSAARRLTEYVKKTAMKAQVCPHCGEKQFKIKLEKPYNFYEERKEGVAKLTPSDIR 181
Query: 130 KKLAGKGYFPQDGYIL--------------EYLPVPPNCL--SVPDISDGVSTMSSDLSI 173
++L + D IL LPVPP + S+ + + DL+
Sbjct: 182 ERL--EKVPESDVEILGYDPTTSRPEWMILTVLPVPPITIRPSI--MIESGIRAEDDLTH 237
Query: 174 AMLKKVLKQVEIIRSS-RSGTPNFESQEVESNDLQLAVGQYL--EVRGTAKSSRDVDARF 230
L +++ E ++ S +G P +++ + LQ V Y E+ G S
Sbjct: 238 -KLVDIVRINERLKESIDAGAPQLIIEDLW-DLLQYHVATYFDNEIPGLPPSKHR----- 290
Query: 231 GVSQDPNSTTKAWLEK----MRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRIT 286
S P T L+ R K FSSR+VI+ D ++E+GVP IA+ +T
Sbjct: 291 --SGRPLRTLAQRLKGKEGRFRGNLSGKRVDFSSRTVISPDPNISIDEVGVPEIIARTLT 348
Query: 287 FEERVNVHNINYLQELVDN-------KLCLTYSDGS--SSYSLREGSKGHTFLRPGQVVH 337
ER+ NI L++ V N + DG +++ + + L PG VV
Sbjct: 349 VPERITPWNIEKLRQFVINGPDKWPGANYVIRPDGRRIDLRYVKDRKELASTLAPGYVVE 408
Query: 338 RRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQ 397
R + DGD V NR P+ H+ S+ A V V T ++N L+C P +ADFDGD ++L PQ
Sbjct: 409 RHLTDGDVVLFNRQPSLHRISMMAHRVRVLKGLTFRLNLLVCPPYNADFDGDEMNLHVPQ 468
Query: 398 SLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMFKK-YFLDKAFTQQLAMFA 456
S A AE E+ V K +++ G + A D + ++ K L K QQ+ A
Sbjct: 469 SEEAIAEAKEIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKTTLLTKEEAQQILGVA 528
Query: 457 LSP--LPRPALSKARCSARWTALQILQSVLPPGF------------------DSCGDRY- 495
L PA+ R +T Q++ + LP F D D Y
Sbjct: 529 DVKIDLGEPAILAPR--EYYTGKQVVSAFLPKDFNFHGQANVSSGPRLCKNEDCPHDSYV 586
Query: 496 LIKKSEVLKGDFDRDTI-PSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSV 554
+IK +L+G FD+ I I+ + E E D+L + + + GF++
Sbjct: 587 VIKNGILLEGVFDKKAIGNQQPESILHWLIKEYSDEYGKWLMDNLFRVFIRFVELQGFTM 646
Query: 555 SLEDFSLSKAALWNIQKEIQALYS------LLYHRMSTQN----------ELVDLQIENH 598
LED SL I EI Y + E L +
Sbjct: 647 RLEDVSLGDDVKKEIYNEIDRAKVEVDNLIQKYKNGELEPIPGRTLEESLENYILDTLDK 706
Query: 599 IRHVKMLVAKFILKSS-TLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGK-----FYSKT 652
+R +A L + + + +V + Q A LG Q S RG+ + ++T
Sbjct: 707 LRSTAGDIASKYLDPFNFAYVMARTGARGSVLNITQMAAMLGQQ-SVRGERIKRGYMTRT 765
Query: 653 LVEDIASHFERIYPMDLNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGL-- 710
L HF+ P D++ P A+ G I F GL P E H+ RE GL
Sbjct: 766 L-----PHFK---PYDIS-PEAR-GFIYSSFRTGLKPTELFFHAAGGRE-------GLVD 808
Query: 711 -----SEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDY 748
S+ G + + L+ L D+ YDGTVR+ +IQ Y
Sbjct: 809 TAVRTSQSGYMQRRLINALSDLRAEYDGTVRS-LYGEVIQVAY 850
|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
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 |
| 1238 | ||||
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 2e-75 | |
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 1e-11 | |
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 2e-04 | |
| d1smyd_ | 1504 | e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus t | 1e-59 |
| >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 = 272 bits (697), Expect = 2e-75
Identities = 190/860 (22%), Positives = 348/860 (40%), Gaps = 66/860 (7%)
Query: 116 EVKEMLKRIPEETRKKLAGKGYFPQ-DGYILEYLPVPPNCLSVPDISDGVSTMSSDLSIA 174
E+ + K I + L F + + IL LPVPP + + DL+
Sbjct: 205 EILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPPVRPSISFNESQRGEDDLTF- 263
Query: 175 MLKKVLK-QVEIIRSSRSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSSRDVDARFGVS 233
L +LK + + +G P+ +E ES LQ V Y+ A + +
Sbjct: 264 KLADILKANISLETLEHNGAPHHAIEEAESL-LQFHVATYM-DNDIAGQPQALQKSGRPV 321
Query: 234 QDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNV 293
+ + K ++R + K FS+R+VI+GD ++++GVP IA+ +T+ E V
Sbjct: 322 KSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVGVPKSIAKTLTYPEVVTP 381
Query: 294 HNINYLQELVDN------KLCLTYSDGSSSYSLRE-GSKGHTFLRPGQVVHRRIMDGDTV 346
+NI+ L +LV N D LR G L+ G V R IMD D V
Sbjct: 382 YNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKRAGDIQLQYGWKVERHIMDNDPV 441
Query: 347 FINRPPTTHKHSLQALSVYVHDDHTVKINPLICGPLSADFDGDCIHLFYPQSLAAKAEVL 406
NR P+ HK S+ A V V T ++N + P +ADFDGD ++L PQS +AE+
Sbjct: 442 LFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNADFDGDEMNLHVPQSEETRAELS 501
Query: 407 ELFSVEKQLLSSHNGNLNLQLATDALLSLKVM-FKKYFLDKAFTQQLAMFALS---PLPR 462
+L +V Q++S + + + D L ++ + + F++ + + +P
Sbjct: 502 QLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLYWVPDWDGVIPT 561
Query: 463 PALSKARCSARWTALQILQSVLPPG------------FDSCGDRYLIKKSEVLKGDFDRD 510
PA + W+ QIL +P G + LI +++ G ++
Sbjct: 562 PA--IIKPKPLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDNGMLIIDGQIIFGVVEKK 619
Query: 511 TIPSVINEIVTSIFFEKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAAL---- 566
T+ S ++ + EKGP+ + F ++Q ++ L +GFS + D +
Sbjct: 620 TVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREIT 679
Query: 567 ----------WNIQKEIQALYSLLYHRMSTQNELVD--LQIENHIRHVKMLVAKFILKSS 614
++ KE QA H M+ + D ++ N R +A+ LK
Sbjct: 680 ETIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDL 739
Query: 615 TLGY-LIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPMDLNYPT 673
++ + S + + Q + +G Q S GK + V+ HF + +Y
Sbjct: 740 NNVKQMVMAGSKGSFINIAQMSACVGQQ-SVEGKRIAFGFVDRTLPHFSKD-----DYSP 793
Query: 674 AKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDG 733
G ++ + GL P E H++ RE ++ ++ +E G + + L+ L D+++ YD
Sbjct: 794 ESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDN 853
Query: 734 TVRNVCSNSIIQFDYAVNARKSHSLFPAGEPVGVLAATAMSNPAYKAVLDSSPSSNNSWE 793
T RN ++IQF Y + + + + A +L++ + + S
Sbjct: 854 TTRNSL-GNVIQFIYGEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLL 912
Query: 794 LMKEILLCRVSFNNDPIDRRVILYLNDCGCGRKYCQERAAYMVKNQLKRVSLKDAAVEFL 853
+L + +D + D R+ + A R +++A F
Sbjct: 913 ESGSEILGDLK-LQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFH 971
Query: 854 IEYKKPEIISDDEGLVGHIHLNKILLEDLRI--SMHDILPKCQETLKSFCKKKKM----- 906
I++ KP ++ + ++G K L E+L + ++I+ Q +
Sbjct: 972 IDHTKPSDLTIKDIVLG----VKDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLAT 1027
Query: 907 KKVVQFFKNTSLSISECCSF 926
++V+Q ++ T + S
Sbjct: 1028 RRVLQEYRLTKQAFDWVLSN 1047
|
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 1449 | Back information, alignment and structure |
|---|
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 1449 | Back information, alignment and structure |
|---|
| >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 | 1238 | |||
| 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=1951.90 Aligned_cols=1049 Identities=22% Similarity=0.348 Sum_probs=890.2
Q ss_pred CCCCCCCCCCCCCEEEEECCCHHHHHHCCCCCCCC-------C---CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 87788644543005898349969998605455212-------5---7888889988999999888998999999788853
Q 000882 3 ENTSSTILEGQIVGIRFGLATQKEICTASISDCSI-------S---HASQLANPFLGLPLEFGKCESCGTSEPGKCEGHF 72 (1238)
Q Consensus 3 ~~~~~~~~~~~I~~I~F~l~S~eeI~~~Sv~~~~i-------~---~~~gl~DprlG~~~~~~~C~TCg~~~~~~CpGHF 72 (1238)
+|++|..|.++|++|+|+++||+||+++|+.++.. + ..+||+|||||+++++..|+|||.+. .+|||||
T Consensus 2 ~~~~~~~p~~~i~~i~f~~~s~eeIr~~S~~ei~~~~~~~~~~~~p~~~Gl~d~rlG~~~~~~~C~tC~~~~-~~CpGHf 80 (1449)
T d1twfa_ 2 GQQYSSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSIDRNLKCQTCQEGM-NECPGHF 80 (1449)
T ss_dssp CCSCCCSCBCCCCEEECCBCCHHHHHHTCCCCCCCSCCSCTTSCCSCCSSSSCSSSCCCTTCCCSSSCCCCT-TSCCCCC
T ss_pred CCCCCCCCCCEECEEEEEECCHHHHHHHCCEEECCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCC-CCCCCCC
T ss_conf 987886765640667999258999998535698077856289999999997666338999869998999877-4999998
Q ss_pred EEEECCCCCCCCCCHHHHHHHHHHHCCCCC-----C-CHHH-------------HHHHHHH-------------------
Q ss_conf 258757611245473889999975301346-----7-0179-------------9999768-------------------
Q 000882 73 GYIELPIPIYHPSHISELKLTMYAFQLQIK-----N-DGVA-------------QRLLSSC------------------- 114 (1238)
Q Consensus 73 GhIeL~~PVfHp~f~~~i~~IL~~iCl~i~-----~-~g~~-------------~~i~~~C------------------- 114 (1238)
|||||+.|||||+|++.++++|+++|+.|. . .... ..+...|
T Consensus 81 GhIeL~~PV~h~~f~~~~~~~L~~~C~~C~~l~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (1449)
T d1twfa_ 81 GHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNELMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQL 160 (1449)
T ss_dssp CCEEEEEEEECGGGHHHHHHHHHHBCTTTCCBSCCTTSHHHHHHHTCCSHHHHHHHHHHHHTTCCBCCSEECCSSCTTSC
T ss_pred EEEEECCCCHHHHHHHHHHHHHHHHHHCCCCEEECCCHHHHHHHHHHCCHHHHHHHHHHHHHHHEECCCCCCCHHHHHHH
T ss_conf 75672662543899999999999852105778516638999988753056655678998742314300001001325666
Q ss_pred -----H--------------------------------------HHHHHHCCCCHHHHHHHCCC-CCCCCCCEEEEEECC
Q ss_conf -----6--------------------------------------99999716994589871259-999998568984126
Q 000882 115 -----C--------------------------------------EVKEMLKRIPEETRKKLAGK-GYFPQDGYILEYLPV 150 (1238)
Q Consensus 115 -----C--------------------------------------ev~~IlkkIpded~~~L~~~-g~~ppe~lIL~~lpV 150 (1238)
| +++++|++|+++|+..|+.. ...+|+||||++|||
T Consensus 161 ~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~~i~~~~~~~l~~~~~~~~p~~~~l~~lpV 240 (1449)
T d1twfa_ 161 VSRGGCGNTQPTIRKDGLKLVGSWKKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPV 240 (1449)
T ss_dssp EECCSCCCBCCCCEECSSCEEEEECSSSSCTTSCSCEEEEECHHHHHHHHTTSCHHHHHHTTCBTTTBCGGGGEEEEECC
T ss_pred HHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHEECCHHHHHHHHHHCCHHHHHHHCCCCCCCCHHHEEEEEEEC
T ss_conf 52378776774343334777778877532034453543148999999999738886898747886789867887662336
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH-HCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC-CCCCC
Q ss_conf 999888863138975445202699999999999999950-0699996313444657999999997302976667-77556
Q 000882 151 PPNCLSVPDISDGVSTMSSDLSIAMLKKVLKQVEIIRSS-RSGTPNFESQEVESNDLQLAVGQYLEVRGTAKSS-RDVDA 228 (1238)
Q Consensus 151 PP~~iRp~~~~~g~~~~~~Dlt~~~l~~Ii~~~~~l~~~-~~g~~~~~~~~~~~~~LQ~~v~~~~~~~~~~k~~-~~~~~ 228 (1238)
||||+||++..++..+.++|+|. +|++|++.|++|++. ..++|.... .++|.+||.+|+.|+|+....++. .....
T Consensus 241 ~P~~~RP~~~~~~~~~~~~dlt~-~~~~Ii~~n~~l~~~~~~~~~~~~~-~~~~~~LQ~~v~~~~dn~~~~~~~~~~~~~ 318 (1449)
T d1twfa_ 241 PPPPVRPSISFNESQRGEDDLTF-KLADILKANISLETLEHNGAPHHAI-EEAESLLQFHVATYMDNDIAGQPQALQKSG 318 (1449)
T ss_dssp CCTTTSCCCCCSSSCCCCCHHHH-HHHHHHHHHHHHHHHHSSCCCHHHH-HHHHHHHHHHHHHHHCCCSSCCCCCSSCTT
T ss_pred CCCCCCCCEEECCCCCCCCHHHH-HHHHHHHHHHHHHHHHHCCCCHHHH-HHHHHHHHHHHHHHCCCCCCCCCHHCCCCC
T ss_conf 99876871694898626786899-9999999999999998739957789-999999999999843556568840004667
Q ss_pred CCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHCCCCCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 77888999930145553210011346879776516728999653334462662111443443224439999999981786
Q 000882 229 RFGVSQDPNSTTKAWLEKMRTLFIRKGSGFSSRSVITGDAYKRVNEIGVPFEIAQRITFEERVNVHNINYLQELVDNKLC 308 (1238)
Q Consensus 229 ~~~~~k~~~~~~k~~~~~~r~~l~gKRvdfs~RsVI~pDP~l~i~evgiP~~~A~~Lt~pe~Vt~~Ni~~l~~lv~ng~~ 308 (1238)
...+.+.++++||.||||+|+|||||||||||||||||+|+++|||||..||++|||||+||+||+++|+++|.|||.
T Consensus 319 --~~~k~i~~~L~gK~GrfR~nl~GKRVd~s~RsVI~pdp~l~~~evGvP~~~A~~Lt~pe~v~~~n~~~l~~~v~ng~~ 396 (1449)
T d1twfa_ 319 --RPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPN 396 (1449)
T ss_dssp --CCCCCSTTSCTTTTTTSSGGGTTCSCCSEEEEEEEECTTSCTTEEEEEHHHHTTCEEEEECCTTTHHHHHHHHHHTTT
T ss_pred --CCCCCHHHHHCCCHHHHHHHCCCCCCCCCCCEEECCCCCCCEEECCCHHHHHHHCCCCEEECHHHHHHHHHHHHCCCC
T ss_conf --776206667516104432112655336665304525875310012118999961897825408999999999970874
Q ss_pred C------CCCCCCCEEEECCCCC-CCCCCCCCCEEEEEEECCCEEEEECCCCCCCCCCCCEEEEECCCCEEEECCCCCCC
Q ss_conf 4------1479995288136998-86445686444200321573866179987746532017996579814422567798
Q 000882 309 L------TYSDGSSSYSLREGSK-GHTFLRPGQVVHRRIMDGDTVFINRPPTTHKHSLQALSVYVHDDHTVKINPLICGP 381 (1238)
Q Consensus 309 ~------~~~~~~~~~~l~~~~~-~~~~L~~g~iV~Rhl~dgD~VL~NRqPSLHr~Simah~v~i~~~~tirln~~vC~p 381 (1238)
. ...+.+..+.+++..+ ....+++||+|+||++|||+|||||||||||+|||||+|+|++++||||||+||+|
T Consensus 397 ~~pga~~~~~~~g~~~~l~~~~~~~~~~l~~g~~V~r~l~~gd~Vl~NRqPtLHr~si~a~~~~v~~~ktirl~~~vc~~ 476 (1449)
T d1twfa_ 397 EHPGAKYVIRDSGDRIDLRYSKRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSP 476 (1449)
T ss_dssp SSSCEEEEECTTCCEEETTSCTTTTCCCCCTTCEEEEECCTTCEEEEECSSCCSGGGEEEEEEEEESSSSEEECGGGHHH
T ss_pred CCCCCCCEECCCCCEEEEECCHHHHHHHCCCCCEEEEEEECCEEEEECCCCCHHHHCCCCCEEEEECCCEEEECCCCCCC
T ss_conf 47762000004672698851112221103666389999724706895476413331101224686148547852110111
Q ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEEECHHHHHHHHHHH-CCCCCCHHHHHHHHCCCCC--
Q ss_conf 9886674600035678798899999971353322447999944751113455787630-3566799999987102355--
Q 000882 382 LSADFDGDCIHLFYPQSLAAKAEVLELFSVEKQLLSSHNGNLNLQLATDALLSLKVMF-KKYFLDKAFTQQLAMFALS-- 458 (1238)
Q Consensus 382 yNADFDGDeMniH~PQs~eAraEa~~Lm~~~~~ilsP~~G~PiigliQD~llg~~llt-kd~fl~~~~~~ql~~~~~~-- 458 (1238)
|||||||||||+|+|||++|||||++||++++|+++|++|+|+++++||+|+|+|+|| +|+|++++++++++|+...
T Consensus 477 yNADFDGDeMnvhvPqs~~A~aEa~~Lm~~~~nilsp~~G~pi~~~~QD~~lg~y~LT~~~~f~~~~~~~~~~~~~~~~~ 556 (1449)
T d1twfa_ 477 YNADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLYWVPDWD 556 (1449)
T ss_dssp HTCCSSSCEEEEECCCSHHHHHHHHHHTBGGGGSEETTTTEESCCCCHHHHHHHHHHHSTTCEEEHHHHHHHHHHSTTCC
T ss_pred CCCCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCC
T ss_conf 14554565478971688889999999864132534666786243102130423120113644578999999997354546
Q ss_pred -CCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCC------------CCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf -65632320332455431000023457998534------------68679996342365555567753238779999998
Q 000882 459 -PLPRPALSKARCSARWTALQILQSVLPPGFDS------------CGDRYLIKKSEVLKGDFDRDTIPSVINEIVTSIFF 525 (1238)
Q Consensus 459 -~lp~PaIlKp~~~~lWTGKQi~S~~lP~~~~~------------~~~~viI~~Gell~g~ldK~~lg~s~~~Li~~i~~ 525 (1238)
.+|+|||+||. ++|||||+||+++|.++.+ .++.++|++|+++.|++||+++|++.++|+|.+++
T Consensus 557 ~~~~~p~~~~~~--~~~tgkqi~s~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~g~l~~g~l~k~~~g~~~~~li~~i~~ 634 (1449)
T d1twfa_ 557 GVIPTPAIIKPK--PLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTR 634 (1449)
T ss_dssp SCCCCCSBCSSS--CEEEHHHHHHHHSCTTCCEEECCTTCCTTCTTCCSEEEETTEEEESCCCHHHHSSCTTSHHHHHHH
T ss_pred CCCCCCEEEEEE--ECCCCCEEEEEECCCCCEEEECCCCCCCCCCCCCEEEEECCEEEECCCHHHHCCCCCCCCCCCCCC
T ss_conf 544687077632--012564689997268730232157862115677659987786664310264416543452000000
Q ss_pred HHCHHHHHHCHHHHHHHHHHHHHHCCCEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHH
Q ss_conf 529789995163349999999982483321076545989999999999999999986664-------------3488999
Q 000882 526 EKGPEEVLEFFDSLQPLLMENLFADGFSVSLEDFSLSKAALWNIQKEIQALYSLLYHRMS-------------TQNELVD 592 (1238)
Q Consensus 526 ~~G~~~a~~~L~~lq~L~~~~L~~~GFSigi~Dl~~~~~~~~~i~~~i~~~~~~~~~~~~-------------~~~~~le 592 (1238)
.||++.|+.||+.+|+++++|++++|||+|++|+++++...+.+.+.+.+..+.+.+... ..++..+
T Consensus 635 ~~G~~~~~~~l~~~~~l~~~~l~~~Gfs~gi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e 714 (1449)
T d1twfa_ 635 EKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFE 714 (1449)
T ss_dssp HHCHHHHHHHHHHHHHHHHHHHHTTCBCCCGGGGCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCCTTCCHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHCCHHEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH
T ss_conf 00379999999888778999998652100521212442046888888888766578899999876641356872789999
Q ss_pred HHHHHHHHHHHHHHHHHHH----HCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 9999999999999999987----129743120321002356687897410352146985444454211122233448899
Q 000882 593 LQIENHIRHVKMLVAKFIL----KSSTLGYLIDSKSDSAVSKVVQQAGFLGLQLSDRGKFYSKTLVEDIASHFERIYPMD 668 (1238)
Q Consensus 593 ~~~~~~l~~~~~~i~~~~~----~~n~l~~Mi~sGSKGS~~Ni~Qi~g~lGqQ~~~g~r~~~r~l~~~~~~~f~~~~p~~ 668 (1238)
..+.+.|+++++.+++.+. +.|++.+|+.||||||+.|++||+||+|||.++|+| +.....++++|||..
T Consensus 715 ~~v~~~~~~~~~~~~~~~~~~~~~~N~~~~M~~SGakGs~~n~~Qi~g~~Gqq~~~g~r-i~~~~~~r~lp~f~~----- 788 (1449)
T d1twfa_ 715 DNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQSVEGKR-IAFGFVDRTLPHFSK----- 788 (1449)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHTSSCCHHHHHHHHSCCEECCBTTBS-CCCCBTTBSSTTSCT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHEECCCCCCCCCHHHHHHHHHHHCCCCCC-CCCCCCCCCCCCCCC-----
T ss_conf 99999999999999998766440255267641211457831468887665332015753-554666666666788-----
Q ss_pred CCCCCCCCCEECCCCCCCCCCCCEEEEECCCCCEEEECCCCCCCCCCHHHHHHHHHHEEEEEECCEEECCCCCCEEEEEE
Q ss_conf 89998776400143233589663078623542101112344479884027899987406897410474357885022361
Q 000882 669 LNYPTAKYGLIKGCFFHGLDPYEEMTHSISTREVIVRSSRGLSEPGTLFKNLMAVLRDVVICYDGTVRNVCSNSIIQFDY 748 (1238)
Q Consensus 669 ~d~~~~a~GfV~~sF~~GL~P~EfFfH~magREGLiDtAvkTa~sGyL~R~L~~~l~d~~v~yd~Tvr~~~~~~IiQf~y 748 (1238)
++..|+++|||.+||++||+|+|||||||||||||+|||+|||+|||||||||++|||++|+||+|||+ +++.||||.|
T Consensus 789 ~~~~~~~~GfI~~sf~~GL~p~Eyf~h~~~gReGLiDTAvkTa~sGYl~RrLvk~ledv~v~yD~tvr~-~~g~IiQf~Y 867 (1449)
T d1twfa_ 789 DDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRN-SLGNVIQFIY 867 (1449)
T ss_dssp TCCSTTTTTEECSCTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCEECTTSCEEC-TTCCEEESSG
T ss_pred CCCCCCCCCCCCCHHHHHHCCHHEEEEECCCHHHHHHHCCCCCCCHHHHHHHHHHHCCEEEEECCCCCC-CCCEEEEEEE
T ss_conf 999813267603235541120212543123021133320254640889999999755759974686676-8955999997
Q ss_pred ECCCCCC-------------------------------------------------------------------------
Q ss_conf 0144544-------------------------------------------------------------------------
Q 000882 749 AVNARKS------------------------------------------------------------------------- 755 (1238)
Q Consensus 749 g~~g~~~------------------------------------------------------------------------- 755 (1238)
|+||+|+
T Consensus 868 GeDg~d~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~~~i~~~~~~~l~~~r~~l~~~~~ 947 (1449)
T d1twfa_ 868 GEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVFV 947 (1449)
T ss_dssp GGTTBCGGGEEEEECGGGSSCHHHHHHHHCCCTTCTTTSCCTTTBTTHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred CCCCCCCEEEEEEECCEECCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 57554311788753142425248766550000046544457567654577741188888878999999887888998715
Q ss_pred --------------------------------------------------------------------------------
Q ss_conf --------------------------------------------------------------------------------
Q 000882 756 -------------------------------------------------------------------------------- 755 (1238)
Q Consensus 756 -------------------------------------------------------------------------------- 755 (1238)
T Consensus 948 ~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 1027 (1449)
T d1twfa_ 948 DGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLAT 1027 (1449)
T ss_dssp TCCCEEEEESCHHHHHHHHHHHTTCCTTSCBCCCHHHHHHHHHHHHTTCCSCCCCSHHHHHHHHHTTHHHHHHHHHHSCH
T ss_pred CCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHEECCCCHHHHHHCCCCCCEEEEEECCCCCH
T ss_conf 75434357600999998645541025576444548999998888876430101431122333015420022200143202
Q ss_pred --------------------------CCCCCCCCEEEEECCCCCCCHHHHHHHCCCC-------CCCCCHHHHHHHHHHH
Q ss_conf --------------------------6767899706652112379067886316699-------9888067899998731
Q 000882 756 --------------------------HSLFPAGEPVGVLAATAMSNPAYKAVLDSSP-------SSNNSWELMKEILLCR 802 (1238)
Q Consensus 756 --------------------------~~l~~~Ge~VG~laaqsigepa~q~~L~t~~-------~~~~g~~rlkEil~~~ 802 (1238)
+++++|||+||++||||||||+|||||+||+ ++|+|+||++|+++++
T Consensus 1028 ~~~~~~~~l~~~~~~~~~~~~~~ky~~slv~pGEaVGiiAAQSIGEP~TQmTLnTFH~AG~~~~nvT~GiPRl~EIl~as 1107 (1449)
T d1twfa_ 1028 RRVLQEYRLTKQAFDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVA 1107 (1449)
T ss_dssp HHHHHTSCCCHHHHHHHHHHHHHHHHHHBCCTTCCHHHHHHHHHHHHHTTCCC----------CCSCCHHHHHHHHTTTC
T ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCEEEECCCCCCHHHHHHEEEE
T ss_conf 34344436689999889988888876645513675121212221661335555432211244300135504333222200
Q ss_pred CCCCCCCCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHCEECHHHHHHEEEEEECCCCCCC-------------------
Q ss_conf 1379999884189972788878764327999999862201026444311368842886445-------------------
Q 000882 803 VSFNNDPIDRRVILYLNDCGCGRKYCQERAAYMVKNQLKRVSLKDAAVEFLIEYKKPEIIS------------------- 863 (1238)
Q Consensus 803 ~~~k~~~~~~~~~l~L~~~~~~~~~~~e~~a~~V~~~le~v~l~~i~~~i~i~y~~~~~~~------------------- 863 (1238)
++ +++|.|+++|.+... .+++.|+.++..+++++++++.....+.|.++...+
T Consensus 1108 k~----iktp~~~v~l~~~~~----~~~~~~k~~~~~i~~~~l~~vv~~~~v~~~~~~~~~~i~~~~~~i~~~~~~~~~~ 1179 (1449)
T d1twfa_ 1108 KN----MKTPSLTVYLEPGHA----ADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEE 1179 (1449)
T ss_dssp SS----CSSCEEEEEBCSSSS----SCHHHHHHHHHHHSCEEGGGTEEEEEEEECCCSSSCSSGGGHHHHHTSSCC----
T ss_pred CC----CCCCCEEEEECCCCC----HHHHHHHHHHHEEEEEECCCEEEEEEEEECCCCCEEEEEEECCEEEEEEEECCCH
T ss_conf 25----678621577402210----3599988665314663001046645999737773389987513436777842512
Q ss_pred ------CCCCEEEEEEECHHHHHHCCCCHHHHHHHHHHHHHHHH--------------------HH--------HHHH--
Q ss_conf ------79960899991388886319997547999998544343--------------------10--------1238--
Q 000882 864 ------DDEGLVGHIHLNKILLEDLRISMHDILPKCQETLKSFC--------------------KK--------KKMK-- 907 (1238)
Q Consensus 864 ------~~~~~v~~i~Ld~~~L~~~~lt~~~I~~~l~~~~~~~~--------------------~~--------~~~~-- 907 (1238)
..++|++++++|++.+..+++++.+|..++......-. .. ....
T Consensus 1180 ~~~~~~~~~~~ilrl~l~~~~~~~k~i~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~l 1259 (1449)
T d1twfa_ 1180 AEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDLFVIWSEDNDEKLIIRCRVVRPKSLDAETEAEEDHML 1259 (1449)
T ss_dssp ------CCCSEEEEEEECHHHHHHTTCCHHHHHHHHHHHHGGGEEEEECCTTSSSCEEEEEEC----------CCTTHHH
T ss_pred HEEEECCCCCCEEEEEECHHHCCCCCCCHHHHHHHHHHHCCCCEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCHHHHH
T ss_conf 20230135772389997155514678877887899998608985899468886447885366775321000365668999
Q ss_pred -H-HHHHHCCCEEECCCCCCCCCCCCCCC-------------CCCCEEEEEEEECC-----CCCCCCCHHHCCCCHHHHH
Q ss_conf -9-98762033120144233345211458-------------99456999982047-----7654320000023114687
Q 000882 908 -K-VVQFFKNTSLSISECCSFQQSCADKR-------------SNMPCLMFVLRGAS-----DSYLDKLSGVLANMIYPVL 967 (1238)
Q Consensus 908 -~-~~~~~~~~~i~~~g~~~~~~~~~~~~-------------~~~~~l~~~~~~~~-----~~~~vd~~~t~sn~I~ei~ 967 (1238)
. ....++++.+ +|+..++++++.+. ...++ +.++|.+ ..+.+|+.++++|+|++|+
T Consensus 1260 ~~i~~~~l~~~~v--~Gi~~I~rv~i~~~~~~~~~~~~~~~~~~~~v--l~teG~nl~~~l~~~~iD~~~~~sNdI~dil 1335 (1449)
T d1twfa_ 1260 KKIENTMLENITL--RGVENIERVVMMKYDRKVPSPTGEYVKEPEWV--LETDGVNLSEVMTVPGIDPTRIYTNSFIDIM 1335 (1449)
T ss_dssp HHHHHHHHHHCEE--ESCTTCCCEEEEEEEEEEECTTSSEEEEEEEE--EEEESCCHHHHTTSTTBCTTTCBCSCHHHHH
T ss_pred HHHHHHCCCCCEE--ECCCCEEEEEEECCCCEEECCCCCCCCCCCEE--EECCCCCHHHHHCCCCCCCCCCCCCCHHHHH
T ss_conf 9877413388087--07888479999624653417887372587099--9868387888860699164207408699999
Q ss_pred HHHHHCHHHHHHHHH----HHHHHHHHCCCCCCCEEEECCCCCCCCEEEEECCCCCCCCCCCCCCCCCCHHHCCCCHHHH
Q ss_conf 874540118999999----9999666125541100122155101330765324321233446332345102101480899
Q 000882 968 LETIIKENWWVRQRL----SASVTMVAKGVLKEHLILLANSMTCAGDLVGFNSGGYKALSRSLNVQVPFTEATLFMPRKC 1043 (1238)
Q Consensus 968 r~tiIkGiew~R~~l----~~~~~~~~~~v~~rHl~Llad~MT~~G~~~~~~r~G~~~~~~s~l~~a~Fe~~~~~t~~~~ 1043 (1238)
-++||||+|+.| ..++..+|.+||+|||.|+||.||++|.+.||||+|+++++.|++++||||+ |+ ++
T Consensus 1336 ---~~lGIEAar~~ii~EI~~V~~~~Gi~Id~rHi~LIad~MT~~G~~~~i~R~gi~~~~~S~l~~aSFEe----T~-~v 1407 (1449)
T d1twfa_ 1336 ---EVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEE----TV-EI 1407 (1449)
T ss_dssp ---HHHCHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTTTBSSCCCSSSCSSSCSSCCTTSSCCSSC----SH-HH
T ss_pred ---HHHHHHHHHHHHHHHHHHHHHHCCCEECHHHHHHHHHHHCCCCEEEECCHHHHCCCCCCHHHHHHCHH----HH-HH
T ss_conf ---97729999999999999999865958879999999999775885710118981469858988700643----99-99
Q ss_pred HHHHHHHCCCCCCCCCCCHHCCCCCCCCCCCCEEEEEECCCCC
Q ss_conf 9999721398778852011004875665456507998417775
Q 000882 1044 FEKAAEKRHTDNLSSVVAACSWGKHVAVGTGSRFDLLWQTENE 1086 (1238)
Q Consensus 1044 l~~Aa~~g~~D~l~gv~~~ii~Gk~~~~GTG~~f~l~~~~~~~ 1086 (1238)
|.+||.+|++|.|+|++||||+|+++|+|||+ |||++|.+.+
T Consensus 1408 L~~AAi~g~~D~L~G~senIi~G~~ip~GTG~-fdll~d~~~l 1449 (1449)
T d1twfa_ 1408 LFEAGASAELDDCRGVSENVILGQMAPIGTGA-FDVMIDEESL 1449 (1449)
T ss_dssp HHHHHHHTCEECCCSHHHHHHTTCCCSSGGGS-SEEEECSCCC
T ss_pred HHHHHHCCCCCCCCCCHHHEECCCCCCCCCCC-CEEEECHHHC
T ss_conf 99999639914278807870268988986516-2888665319
|
| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
|---|