Psyllid ID: psy16767
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
|---|
|
|
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 | 1020 | 2.2.26 [Sep-21-2011] | |||||||
| O95602 | 1720 | DNA-directed RNA polymera | yes | N/A | 0.969 | 0.575 | 0.422 | 0.0 | |
| O35134 | 1717 | DNA-directed RNA polymera | yes | N/A | 0.975 | 0.579 | 0.421 | 0.0 | |
| O54889 | 1716 | DNA-directed RNA polymera | yes | N/A | 0.973 | 0.578 | 0.414 | 0.0 | |
| P91875 | 1642 | DNA-directed RNA polymera | yes | N/A | 0.699 | 0.434 | 0.491 | 0.0 | |
| P15398 | 1689 | DNA-directed RNA polymera | yes | N/A | 0.911 | 0.550 | 0.377 | 0.0 | |
| P10964 | 1664 | DNA-directed RNA polymera | yes | N/A | 0.901 | 0.552 | 0.361 | 0.0 | |
| Q86H36 | 1615 | DNA-directed RNA polymera | yes | N/A | 0.599 | 0.378 | 0.415 | 1e-137 | |
| A4IF62 | 1390 | DNA-directed RNA polymera | no | N/A | 0.552 | 0.405 | 0.341 | 7e-78 | |
| O14802 | 1390 | DNA-directed RNA polymera | no | N/A | 0.552 | 0.405 | 0.338 | 6e-77 | |
| Q5ZL98 | 1390 | DNA-directed RNA polymera | no | N/A | 0.552 | 0.405 | 0.336 | 3e-76 |
| >sp|O95602|RPA1_HUMAN DNA-directed RNA polymerase I subunit RPA1 OS=Homo sapiens GN=POLR1A PE=1 SV=2 | Back alignment and function desciption |
|---|
Score = 815 bits (2106), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 483/1144 (42%), Positives = 659/1144 (57%), Gaps = 155/1144 (13%)
Query: 2 DGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLT 57
DG NA S +AEA L QYLVPKDG PL+GLIQDH++SGA ++ R F T
Sbjct: 590 DGDEMNAHFPQSELGRAEAYVLACTDQQYLVPKDGQPLAGLIQDHMVSGASMTTRGCFFT 649
Query: 58 RAEYMNLVYQALCILNTEIRTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELL 117
R YM LVY+ L ++ L P+I KP PLWTGKQV+ST++IN+ P+D + + L
Sbjct: 650 REHYMELVYRGLTDKVGRVKLLSPSILKPFPLWTGKQVVSTLLINIIPEDHIPLN----L 705
Query: 118 SG---ILDKKQFGSTQYGLV----HAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAV 170
SG I K T + ++ ++ V IR GELL G+LDK +GS+ YGLVH
Sbjct: 706 SGKAKITGKAWVKETPRSVPGFNPDSMCESQVIIREGELLCGVLDKAHYGSSAYGLVHCC 765
Query: 171 WDTHGAEHAISLLSCLAKLFTVYLQRV-GFTLGVRDILVRQERDRKRTKIINKARRLGTE 229
++ +G E + +L+CLA+LFT YLQ GFTLGV DILV+ + D KR +II ++ G +
Sbjct: 766 YEIYGGETSGKVLTCLARLFTAYLQLYRGFTLGVEDILVKPKADVKRQRIIEESTHCGPQ 825
Query: 230 AACNALGLPLDTDPEIISSQLQEAYASIPQFR-AQIDRQYKSLLDKVTNNINQVCLPEGL 288
A AL LP + + + Q+A+ Q ID ++K ++ +N IN+ C+P GL
Sbjct: 826 AVRAALNLPEAASYDEVRGKWQDAHLGKDQRDFNMIDLKFKEEVNHYSNEINKACMPFGL 885
Query: 289 IEPFPANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSP 348
FP N+LQ MV+SGAKGSTVNTMQISCLLGQIELEG+RP +M SG++LP F PYE +P
Sbjct: 886 HRQFPENSLQMMVQSGAKGSTVNTMQISCLLGQIELEGRRPPLMASGKSLPCFEPYEFTP 945
Query: 349 RAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDM 408
RAGGFV GRF+TGI+P EFFFHCMAGREGL+DTAVKTSRSGYLQRC++KHLEGL V YD+
Sbjct: 946 RAGGFVTGRFLTGIKPPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHLEGLVVQYDL 1005
Query: 409 TVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLLKKHPLSLA 468
TVRDSD S++Q LYGEDGLD+ K Q+L KQF FL N + I + + +L + A
Sbjct: 1006 TVRDSDGSVVQFLYGEDGLDIPKTQFLQPKQFPFLASNYEVIMKSQHLHEVLSRADPKKA 1065
Query: 469 LLLLLTFK--SSGKPNFIF-------------------------SPHRTKFTMDLLEQWY 501
L K S PN + R+ T ++L WY
Sbjct: 1066 LHHFRAIKKWQSKHPNTLLRRGAFLSYSQKIQEAVKALKLESENRNGRSPGTQEMLRMWY 1125
Query: 502 QLDDKARKKYRKKFKACPQPLISTFQPDAHFGSISENLADSVVKYTK---GRTDASH--- 555
+LD+++R+KY+KK ACP P +S ++PD +F S+SE V Y++ +T+ S+
Sbjct: 1126 ELDEESRRKYQKKAAACPDPSLSVWRPDIYFASVSETFETKVDDYSQEWAAQTEKSYEKS 1185
Query: 556 ---VDKFYDMIFYKNLLSLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGI 612
+D+ ++ K SL PGE VG+LAAQSIGEPSTQMTLNTFHFAGRG+MNVTLGI
Sbjct: 1186 ELSLDRLRTLLQLKWQRSLCEPGEAVGLLAAQSIGEPSTQMTLNTFHFAGRGEMNVTLGI 1245
Query: 613 PRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKVKIKE--W 670
PRLREILM+A+ IKTP M +P L + K K+ L K +TR+ + +VL+K+ ++E
Sbjct: 1246 PRLREILMVASANIKTPMMSVPVL-NTKKALKRVKSLKKQLTRVCLGEVLQKIDVQESFC 1304
Query: 671 LEISPEPHMNYQMKFCFIPAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKR--AAQGL 728
+E YQ++F F+P Y+ + ++P I+ E +F K L +I K+ A
Sbjct: 1305 MEEKQNKFQVYQLRFQFLPHAYYQQEKCLRPEDILRFMETRFFKLLMESIKKKNNKASAF 1364
Query: 729 KNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGR---------------VDVSSDE-ERDE 772
+N+N +R + D+ D+ GE LGR VD ++E + D
Sbjct: 1365 RNVN---TRRATQRDL-DNAGE--------LGRSRGEQEGDEEEEGHIVDAEAEEGDADA 1412
Query: 773 EDAVQSHKKVN----------------------QEEDNDFEE------PEDEERMSEREE 804
DA + K+ QEE N E +DEE EE
Sbjct: 1413 SDAKRKEKQEEEVDYESEEEEEREGEENDDEDMQEERNPHREGARKTQEQDEEVGLGTEE 1472
Query: 805 DDNTSNIGERFK-------IEFRDSTNVFVKDVVNQHNIVHKYSYDKKNHMWC------- 850
D + + + + + ++ V+ V H + Y YD + +WC
Sbjct: 1473 DPSLPALLTQPRKPTHSQEPQGPEAMERRVQAVREIHPFIDDYQYDTEESLWCQVTVKLP 1532
Query: 851 --KLLFLPSNLF-------------------------EEKESKHLLKTDGINVNFISQYR 883
K+ F S+L + E + +L T+GIN+ + +Y
Sbjct: 1533 LMKINFDMSSLVVSLAHGAVIYATKGITRCLLNETTNNKNEKELVLNTEGINLPELFKYA 1592
Query: 884 HLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVADYMTHSG 943
+LDL +LY NDIH +A+TYGIEAA RVI +E+K+VFAVYGI VDPRHLSLVADYM G
Sbjct: 1593 EVLDLRRLYSNDIHAIANTYGIEAALRVIEKEIKDVFAVYGIAVDPRHLSLVADYMCFEG 1652
Query: 944 TYVAMNRNGIRLNPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGL 1003
Y +NR GIR N S +Q+MTFE + ++QA+M G D LR+PSA +++G+ R GTGL
Sbjct: 1653 VYKPLNRFGIRSNSSPLQQMTFETSFQFLKQATMLGSHDELRSPSACLVVGKVVRGGTGL 1712
Query: 1004 FQLR 1007
F+L+
Sbjct: 1713 FELK 1716
|
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 I which synthesizes ribosomal RNA precursors. 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 I. A bridging helix emanates from RPA1 and crosses the cleft near the catalytic site and is thought to promote translocation of Pol I 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. Homo sapiens (taxid: 9606) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6 |
| >sp|O35134|RPA1_MOUSE DNA-directed RNA polymerase I subunit RPA1 OS=Mus musculus GN=Polr1a PE=1 SV=2 | Back alignment and function description |
|---|
| >sp|O54889|RPA1_RAT DNA-directed RNA polymerase I subunit RPA1 OS=Rattus norvegicus GN=Polr1a PE=1 SV=1 | Back alignment and function description |
|---|
| >sp|P91875|RPA1_DROME DNA-directed RNA polymerase I subunit RPA1 OS=Drosophila melanogaster GN=RpI1 PE=1 SV=2 | Back alignment and function description |
|---|
| >sp|P15398|RPA1_SCHPO DNA-directed RNA polymerase I subunit rpa1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpa1 PE=1 SV=2 | Back alignment and function description |
|---|
| >sp|P10964|RPA1_YEAST DNA-directed RNA polymerase I subunit RPA190 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPA190 PE=1 SV=2 | Back alignment and function description |
|---|
| >sp|Q86H36|RPA1_DICDI DNA-directed RNA polymerase I subunit rpa1 OS=Dictyostelium discoideum GN=polr1a PE=3 SV=1 | Back alignment and function description |
|---|
| >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 |
|---|
| >sp|O14802|RPC1_HUMAN DNA-directed RNA polymerase III subunit RPC1 OS=Homo sapiens GN=POLR3A PE=1 SV=2 | Back alignment and function description |
|---|
| >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 |
|---|
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 | 1020 | ||||||
| 345483754 | 1706 | PREDICTED: DNA-directed RNA polymerase I | 0.978 | 0.584 | 0.445 | 0.0 | |
| 91084933 | 1619 | PREDICTED: similar to DNA-directed RNA p | 0.963 | 0.607 | 0.470 | 0.0 | |
| 170067707 | 1692 | DNA-directed RNA polymerase I largest su | 0.970 | 0.585 | 0.437 | 0.0 | |
| 340715117 | 1713 | PREDICTED: LOW QUALITY PROTEIN: DNA-dire | 0.969 | 0.577 | 0.426 | 0.0 | |
| 383860778 | 1702 | PREDICTED: DNA-directed RNA polymerase I | 0.974 | 0.584 | 0.439 | 0.0 | |
| 350414724 | 1713 | PREDICTED: DNA-directed RNA polymerase I | 0.968 | 0.576 | 0.422 | 0.0 | |
| 125808018 | 1647 | GA10089 [Drosophila pseudoobscura pseudo | 0.970 | 0.601 | 0.442 | 0.0 | |
| 327275261 | 1690 | PREDICTED: DNA-directed RNA polymerase I | 0.970 | 0.585 | 0.437 | 0.0 | |
| 195150452 | 1647 | GL11448 [Drosophila persimilis] gi|19411 | 0.970 | 0.601 | 0.442 | 0.0 | |
| 157134596 | 1686 | DNA-directed RNA polymerase I largest su | 0.982 | 0.594 | 0.438 | 0.0 |
| >gi|345483754|ref|XP_001602617.2| PREDICTED: DNA-directed RNA polymerase I subunit RPA1-like [Nasonia vitripennis] | Back alignment and taxonomy information |
|---|
Score = 910 bits (2352), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 496/1114 (44%), Positives = 697/1114 (62%), Gaps = 116/1114 (10%)
Query: 1 MDGWTQNASHF-----LKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTF 55
DG NA HF +AE ++ NVS+QYLVPKDG+PLSGLIQDH+I+G +LSLR F
Sbjct: 581 FDGDEMNA-HFPQNELARAEGYYIANVSNQYLVPKDGTPLSGLIQDHMIAGVRLSLRGKF 639
Query: 56 LTRAEYMNLVYQALCILNTEIRTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGE 115
+ +YM LV+ AL ++ + LPP I KP+P+W+GKQV+ST+IIN+ P+ K +I
Sbjct: 640 FEKEDYMQLVFSALSVIQGNLILLPPAIIKPIPMWSGKQVISTIIINIIPRGKALI---N 696
Query: 116 LLSGILDKKQFGSTQYGLVH--------------AVWDTHVTIRHGELLSGILDKKQFGS 161
L +G + G+ ++ + + ++ V IR+GELL GILDKK +G+
Sbjct: 697 LTAG----AKIGAHEWQVTKPRPWKCGEEFKNPKTMSESEVIIRNGELLCGILDKKHYGA 752
Query: 162 TQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIIN 221
T +GL+H V++ +G + LLS K+F YLQR+GFTLG+ DILV+Q+ D+KRT+II+
Sbjct: 753 TPFGLIHCVFELYGGTTSSRLLSAFGKVFQSYLQRIGFTLGIEDILVKQKADKKRTEIIS 812
Query: 222 KARRLGTEAACNALGLPLDTDPEIISSQLQEAYASIPQFRAQIDRQYKSLLDKVTNNINQ 281
+ R++G + L +P DT EI++++++E+Y S P+FRAQ+DR+YK+ LD TNNIN+
Sbjct: 813 ECRKIGESIHKSILEVPEDTPMEIVTAKMEESYWSNPKFRAQVDRKYKTALDVYTNNINK 872
Query: 282 VCLPEGLIEPFPANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMVSGRTLPSF 341
CLP GLI+ FP NNLQ MV+SGAKGSTVNTMQISCLLGQIELEGKRP +M+SG++LPSF
Sbjct: 873 TCLPAGLIKTFPENNLQLMVQSGAKGSTVNTMQISCLLGQIELEGKRPPLMISGKSLPSF 932
Query: 342 LPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEG 401
Y+ +PRAGGF+DGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCL+KH+EG
Sbjct: 933 PAYDPAPRAGGFIDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLIKHMEG 992
Query: 402 LTVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLL- 460
L ++YD TVRDSD SL+Q+ YGEDGLD+ K ++L D+QF FL +N I +++ L
Sbjct: 993 LMINYDATVRDSDGSLVQIYYGEDGLDILKSRFLNDEQFEFLVENRNAIADEQLLKQLKA 1052
Query: 461 ------------------KKHPLSLALLLLLTF--------KSSGKPNFIFSPH--RTKF 492
K+H SL F K N I P R+K
Sbjct: 1053 NADPQKISKLVKKIHKWEKRHGSSLVKNRTSAFTKFSAEHAKPDSSKNKIIIPACGRSKA 1112
Query: 493 TMDLLEQWYQLDDKARKKYRKKFKACPQPLISTFQPDAHFGSISENLADSVVKYTKGR-- 550
++ L+++W + DD+ + YR + CP PL + ++ D FG +SE L + Y K +
Sbjct: 1113 SLSLMKKWIRTDDETKNMYRSQCDRCPDPLTAKYRQDLDFGVLSEKLESLIDNYLKKKSG 1172
Query: 551 --TDASHVDKFYDMIFYKNLLSLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNV 608
T + ++ +++ K + +L PGE VG+LAAQSIGEPSTQMTLNTFHFAGRG+MNV
Sbjct: 1173 SFTTSIGKEELREVLCAKVMNTLCPPGEPVGLLAAQSIGEPSTQMTLNTFHFAGRGEMNV 1232
Query: 609 TLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKVKIK 668
TLGIPRLREILMMA+K IKTPSMEIPF D+P L K+AN++ +T+ +A+VL+ +K++
Sbjct: 1233 TLGIPRLREILMMASKNIKTPSMEIPFKKDLPNLTKQANKVRLKLTKCYIANVLKHIKVE 1292
Query: 669 EWLEISPEPHMNYQMKFCFIPAHMYRDKTSVKPSKIIDHFERKFLKEL--EVAIAKRAAQ 726
L P+ M Y + ++P Y+++ V P II ER F +E+ ++ A ++
Sbjct: 1293 RKLVHQPQRQMQYTITVEYLPHRYYKNEFGVHPKDIITKTERLFFREIFRDIKKAAKSTG 1352
Query: 727 GLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDV-----SSDEER--DEEDAVQSH 779
+ N E+ + + ED D++ GAE + GR D+ SSDEE D+ DA +
Sbjct: 1353 SIVYFNEEKRQTKNEDSKLDEDDAGAEDEPKSRGRFDLGEMHESSDEEEVADDADATTAR 1412
Query: 780 KKVNQEEDNDFEE---------PEDEERMSEREEDDNTSNIGERFKIEFRDSTNVFVK-- 828
+E+ ++++ D + +E ++ +N + FR S + +
Sbjct: 1413 SVSRHQENREYDDPEEEEEEPEEADNDNENENDKVNNAPAANKDDDDNFRVSMHGINRIQ 1472
Query: 829 ------DVVNQHNIVHKYSYDKKNHMWCKLLF-LPSNL---------------------- 859
D+VN + Y YD + + WCKL F LP L
Sbjct: 1473 YEQRKLDIVNMYVHALDYDYDAEKNQWCKLKFWLPIKLTNIDMPTILRNVANKVVLWETP 1532
Query: 860 -------FEEKESKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVI 912
F+ + +LKTDGINV + +Y +LDL++LY NDI+ ++ TYGIEAANRVI
Sbjct: 1533 AIKRAFTFQNPSGETILKTDGINVVEMFKYNEILDLHRLYSNDIYGISQTYGIEAANRVI 1592
Query: 913 IREVKNVFAVYGIEVDPRHLSLVADYMTHSGTYVAMNRNGIRLNPSFIQKMTFEMPLEKI 972
++EVK+VF +YGI VD RHLSL+ADYMT G + ++R G+ + S +Q+M+FE L +
Sbjct: 1593 VKEVKDVFKMYGITVDTRHLSLIADYMTFEGRFQPLSRKGMEDSASPLQQMSFESSLNFL 1652
Query: 973 RQASMQGREDSLRAPSARVMLGQECRQGTGLFQL 1006
+ A++QG+ D L +PS+R+MLGQ C GTG F L
Sbjct: 1653 KNATLQGKNDDLTSPSSRLMLGQPCNSGTGAFSL 1686
|
Source: Nasonia vitripennis Species: Nasonia vitripennis Genus: Nasonia Family: Pteromalidae Order: Hymenoptera Class: Insecta Phylum: Arthropoda Superkingdom: Eukaryota |
| >gi|91084933|ref|XP_970918.1| PREDICTED: similar to DNA-directed RNA polymerase I largest subunit [Tribolium castaneum] gi|270008555|gb|EFA05003.1| hypothetical protein TcasGA2_TC015082 [Tribolium castaneum] | Back alignment and taxonomy information |
|---|
| >gi|170067707|ref|XP_001868588.1| DNA-directed RNA polymerase I largest subunit [Culex quinquefasciatus] gi|167863791|gb|EDS27174.1| DNA-directed RNA polymerase I largest subunit [Culex quinquefasciatus] | Back alignment and taxonomy information |
|---|
| >gi|340715117|ref|XP_003396066.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase I subunit RPA1-like [Bombus terrestris] | Back alignment and taxonomy information |
|---|
| >gi|383860778|ref|XP_003705866.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA1-like [Megachile rotundata] | Back alignment and taxonomy information |
|---|
| >gi|350414724|ref|XP_003490399.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA1-like [Bombus impatiens] | Back alignment and taxonomy information |
|---|
| >gi|125808018|ref|XP_001360603.1| GA10089 [Drosophila pseudoobscura pseudoobscura] gi|54635775|gb|EAL25178.1| GA10089 [Drosophila pseudoobscura pseudoobscura] | Back alignment and taxonomy information |
|---|
| >gi|327275261|ref|XP_003222392.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA1-like [Anolis carolinensis] | Back alignment and taxonomy information |
|---|
| >gi|195150452|ref|XP_002016168.1| GL11448 [Drosophila persimilis] gi|194110015|gb|EDW32058.1| GL11448 [Drosophila persimilis] | Back alignment and taxonomy information |
|---|
| >gi|157134596|ref|XP_001663321.1| DNA-directed RNA polymerase I largest subunit [Aedes aegypti] gi|108870419|gb|EAT34644.1| AAEL013134-PA [Aedes aegypti] | 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 | 1020 | ||||||
| FB|FBgn0019938 | 1642 | RpI1 "RNA polymerase I subunit | 0.434 | 0.269 | 0.558 | 3.4e-220 | |
| UNIPROTKB|O95602 | 1720 | POLR1A "DNA-directed RNA polym | 0.438 | 0.259 | 0.534 | 2.3e-213 | |
| UNIPROTKB|F1SVC3 | 1723 | POLR1A "DNA-directed RNA polym | 0.442 | 0.261 | 0.536 | 9.4e-213 | |
| MGI|MGI:1096397 | 1717 | Polr1a "polymerase (RNA) I pol | 0.441 | 0.262 | 0.531 | 9.5e-212 | |
| UNIPROTKB|J9P5G4 | 1717 | POLR1A "DNA-directed RNA polym | 0.444 | 0.263 | 0.530 | 1.1e-211 | |
| UNIPROTKB|E2R0G4 | 1746 | POLR1A "DNA-directed RNA polym | 0.444 | 0.259 | 0.530 | 3.1e-211 | |
| UNIPROTKB|E1BIX2 | 1717 | POLR1A "DNA-directed RNA polym | 0.442 | 0.262 | 0.530 | 3.8e-211 | |
| UNIPROTKB|B9ZVN9 | 1659 | POLR1A "DNA-directed RNA polym | 0.438 | 0.269 | 0.534 | 6.2e-211 | |
| UNIPROTKB|G3V7B7 | 1716 | Polr1a "DNA-directed RNA polym | 0.441 | 0.262 | 0.529 | 1.4e-210 | |
| RGD|620824 | 1716 | Polr1a "polymerase (RNA) I pol | 0.441 | 0.262 | 0.529 | 7.9e-210 |
| FB|FBgn0019938 RpI1 "RNA polymerase I subunit" [Drosophila melanogaster (taxid:7227)] | Back alignment and assigned GO terms |
|---|
Score = 1272 (452.8 bits), Expect = 3.4e-220, Sum P(3) = 3.4e-220
Identities = 256/458 (55%), Positives = 331/458 (72%)
Query: 2 DGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLT 57
DG NA S +AEA L+NV+S YLVPKDG+PL GLIQDHVISG KLS+R F
Sbjct: 567 DGDEMNAHYPQSEVARAEAYNLVNVASNYLVPKDGTPLGGLIQDHVISGVKLSIRGRFFN 626
Query: 58 RAEYMNLVYQALCILNTEIRTLPPTIWKPMPLWTGKQVLSTVIINLTPK--DKVIIRHGE 115
R +Y LV+Q L L +I+ LPPTI KP LW+GKQ+LST+IIN+ P+ +++ +
Sbjct: 627 REDYQQLVFQGLSQLKKDIKLLPPTILKPAVLWSGKQILSTIIINIIPEGYERINLDSFA 686
Query: 116 LLSGI---LDKKQ---FGSTQYGLVHAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHA 169
++G + + + G+ G + + ++ V IR+GELL G+LDK+Q+G+T YGL+H
Sbjct: 687 KIAGKNWNVSRPRPPICGTNPEG--NDLSESQVQIRNGELLVGVLDKQQYGATTYGLIHC 744
Query: 170 VWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTE 229
+++ +G + + LL+ K+FT +LQ GFTLGV+DILV DRKR KII + R +G
Sbjct: 745 MYELYGGDVSTLLLTAFTKVFTFFLQLEGFTLGVKDILVTDVADRKRRKIIRECRNVGNS 804
Query: 230 AACNALGLPLDTDPEIISSQLQEAYASIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLI 289
A AL L + + + +++ AY +FR +DR+YKSLLD TN+IN CLP GLI
Sbjct: 805 AVAAALELEDEPPHDELVEKMEAAYVKDSKFRVLLDRKYKSLLDGYTNDINSTCLPRGLI 864
Query: 290 EPFPANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPR 349
FP+NNLQ MV SGAKGS VNTMQISCLLGQIELEGKRP +M+SG++LPSF +E SP+
Sbjct: 865 TKFPSNNLQLMVLSGAKGSMVNTMQISCLLGQIELEGKRPPLMISGKSLPSFTSFETSPK 924
Query: 350 AGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMT 409
+GGF+DGRFMTGIQPQ+FFFHCMAGREGLIDTAVKTSRSGYLQRCL+KHLEGL+VHYD+T
Sbjct: 925 SGGFIDGRFMTGIQPQDFFFHCMAGREGLIDTAVKTSRSGYLQRCLIKHLEGLSVHYDLT 984
Query: 410 VRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFS-FLEDN 446
VRDSD S++Q LYGEDGLD+ K ++ DK + FL N
Sbjct: 985 VRDSDNSVVQFLYGEDGLDILKSKFFNDKFCADFLTQN 1022
|
|
| UNIPROTKB|O95602 POLR1A "DNA-directed RNA polymerase I subunit RPA1" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|F1SVC3 POLR1A "DNA-directed RNA polymerase" [Sus scrofa (taxid:9823)] | Back alignment and assigned GO terms |
|---|
| MGI|MGI:1096397 Polr1a "polymerase (RNA) I polypeptide A" [Mus musculus (taxid:10090)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|J9P5G4 POLR1A "DNA-directed RNA polymerase" [Canis lupus familiaris (taxid:9615)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|E2R0G4 POLR1A "DNA-directed RNA polymerase" [Canis lupus familiaris (taxid:9615)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|E1BIX2 POLR1A "DNA-directed RNA polymerase" [Bos taurus (taxid:9913)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|B9ZVN9 POLR1A "DNA-directed RNA polymerase" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|G3V7B7 Polr1a "DNA-directed RNA polymerase" [Rattus norvegicus (taxid:10116)] | Back alignment and assigned GO terms |
|---|
| RGD|620824 Polr1a "polymerase (RNA) I polypeptide A" [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
No confident hit for EC number transfering in SWISSPROT detected by BLAST
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | 0.691 |
| 4th Layer | 2.7.7.6 | 0.737 |
Prediction of Functionally Associated Proteins
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 1020 | |||
| pfam04998 | 447 | pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, do | 1e-75 | |
| PRK08566 | 882 | PRK08566, PRK08566, DNA-directed RNA polymerase su | 1e-69 | |
| PRK14977 | 1321 | PRK14977, PRK14977, bifunctional DNA-directed RNA | 1e-68 | |
| TIGR02390 | 867 | TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymer | 2e-68 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 2e-64 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-62 | |
| cd02735 | 309 | cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of | 8e-62 | |
| cd02735 | 309 | cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of | 5e-55 | |
| pfam04983 | 158 | pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, do | 1e-37 | |
| TIGR02389 | 367 | TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymer | 3e-27 | |
| cd06528 | 363 | cd06528, RNAP_A'', A'' subunit of Archaeal RNA Pol | 5e-27 | |
| cd02736 | 300 | cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) o | 5e-27 | |
| pfam04998 | 447 | pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, do | 1e-26 | |
| PRK04309 | 383 | PRK04309, PRK04309, DNA-directed RNA polymerase su | 2e-26 | |
| cd00630 | 158 | cd00630, RNAP_largest_subunit_C, Largest subunit o | 4e-24 | |
| PRK14897 | 509 | PRK14897, PRK14897, unknown domain/DNA-directed RN | 4e-23 | |
| pfam05000 | 108 | pfam05000, RNA_pol_Rpb1_4, RNA polymerase Rpb1, do | 1e-22 | |
| cd00630 | 158 | cd00630, RNAP_largest_subunit_C, Largest subunit o | 6e-22 | |
| cd06528 | 363 | cd06528, RNAP_A'', A'' subunit of Archaeal RNA Pol | 2e-21 | |
| cd02736 | 300 | cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) o | 9e-21 | |
| TIGR02389 | 367 | TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymer | 2e-20 | |
| PRK04309 | 383 | PRK04309, PRK04309, DNA-directed RNA polymerase su | 6e-19 | |
| PRK14897 | 509 | PRK14897, PRK14897, unknown domain/DNA-directed RN | 2e-17 | |
| PRK14898 | 858 | PRK14898, PRK14898, DNA-directed RNA polymerase su | 1e-13 | |
| cd02655 | 204 | cd02655, RNAP_beta'_C, Largest subunit (beta') of | 2e-12 | |
| PRK14977 | 1321 | PRK14977, PRK14977, bifunctional DNA-directed RNA | 5e-12 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 5e-12 | |
| TIGR02386 | 1140 | TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, | 3e-10 | |
| PRK00566 | 1156 | PRK00566, PRK00566, DNA-directed RNA polymerase su | 6e-10 | |
| PRK14898 | 858 | PRK14898, PRK14898, DNA-directed RNA polymerase su | 9e-09 | |
| cd02737 | 381 | cd02737, RNAP_IV_NRPD1_C, Largest subunit (NRPD1) | 3e-08 | |
| CHL00117 | 1364 | CHL00117, rpoC2, RNA polymerase beta'' subunit; Re | 8e-08 | |
| smart00663 | 295 | smart00663, RPOLA_N, RNA polymerase I subunit A N- | 9e-08 | |
| PRK14906 | 1460 | PRK14906, PRK14906, DNA-directed RNA polymerase su | 9e-08 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 1e-07 | |
| PRK02597 | 1331 | PRK02597, rpoC2, DNA-directed RNA polymerase subun | 5e-07 | |
| TIGR02386 | 1140 | TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, | 6e-07 | |
| PRK14906 | 1460 | PRK14906, PRK14906, DNA-directed RNA polymerase su | 4e-06 | |
| TIGR02388 | 1227 | TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase | 6e-06 | |
| TIGR02388 | 1227 | TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase | 4e-05 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 4e-05 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 1e-04 | |
| pfam09073 | 424 | pfam09073, BUD22, BUD22 | 5e-04 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 0.001 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 0.001 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 0.002 | |
| PRK05901 | 509 | PRK05901, PRK05901, RNA polymerase sigma factor; P | 0.002 | |
| PRK14898 | 858 | PRK14898, PRK14898, DNA-directed RNA polymerase su | 0.003 | |
| CHL00117 | 1364 | CHL00117, rpoC2, RNA polymerase beta'' subunit; Re | 0.004 | |
| pfam04050 | 171 | pfam04050, Upf2, Up-frameshift suppressor 2 | 0.004 |
| >gnl|CDD|147266 pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, domain 5 | Back alignment and domain information |
|---|
Score = 255 bits (654), Expect = 1e-75
Identities = 105/361 (29%), Positives = 146/361 (40%), Gaps = 72/361 (19%)
Query: 361 GIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQV 420
G+ PQEFFFH M GREGLIDTAVKT+ +GYLQR LVK LE L V YD TVR+S ++Q
Sbjct: 1 GLTPQEFFFHTMGGREGLIDTAVKTAETGYLQRRLVKALEDLVVQYDDTVRNSGGEIVQF 60
Query: 421 LYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLLKKHPLSLALLLLLTFKSSGK 480
LYGEDGLD K + + ++ K L L L+ L T
Sbjct: 61 LYGEDGLDPLKIEGQGRFTIEDSDLKLE-----KKFKIDLNDVLLLLSEFSLSTLL---- 111
Query: 481 PNFIFSPHRTKFTMDLLEQWYQLDDKARKKYRKKFKACPQPLISTFQPDAHFGSISENLA 540
+++ ++ +
Sbjct: 112 --------------------FEILLRSGIE------------------------------ 121
Query: 541 DSVVKYTKGRTDASHVDKFYDMIFYKNLLSLANPGENVGVLAAQSIGEPSTQMTLNTFHF 600
S ++ ++ F K SL PGE VG++AAQSIGEP TQMTLNTFHF
Sbjct: 122 -SKRVRSELTCNSKAGVCFLCYGRDKYRRSLVEPGEAVGIIAAQSIGEPGTQMTLNTFHF 180
Query: 601 AGRGDMNVTLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKAN-RLAKSMTRITMA 659
AG NVTLG+PRL+EI+ +A K + + + R K++ +
Sbjct: 181 AGVASKNVTLGVPRLKEIINVAKNNKKPVITVLLIKNIVSDKARVKKQREEKTLLLL--- 237
Query: 660 DVLEKVKIKEWLEISPEPHMNYQ-----MKFCFIPAHMYRDKTSVKPSKIIDHFERKFLK 714
+KV I + + + + II + + K
Sbjct: 238 ---KKVTIIIVIYYDDDSESTVIKKDRIWVLAYFVIPEEVAEEVALAIIIIGKRKSRKRK 294
Query: 715 E 715
+
Sbjct: 295 K 295
|
RNA polymerases catalyze the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 5, represents the discontinuous cleft domain that is required to from the central cleft or channel where the DNA is bound. Length = 447 |
| >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|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|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|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|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|218361 pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, domain 3 | 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|132725 cd06528, RNAP_A'', A'' subunit of Archaeal RNA Polymerase (RNAP) | 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|235277 PRK04309, PRK04309, DNA-directed RNA polymerase subunit A''; Validated | 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|237853 PRK14897, PRK14897, unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | 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|132719 cd00630, RNAP_largest_subunit_C, Largest subunit of RNA polymerase (RNAP), C-terminal domain | 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|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|233842 TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymerase, subunit A'' | Back alignment and domain information |
|---|
| >gnl|CDD|235277 PRK04309, PRK04309, DNA-directed RNA polymerase subunit A''; Validated | 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|237854 PRK14898, PRK14898, DNA-directed RNA polymerase subunit A''; 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|184940 PRK14977, PRK14977, bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | 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|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|237854 PRK14898, PRK14898, DNA-directed RNA polymerase subunit A''; 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|214368 CHL00117, rpoC2, RNA polymerase beta'' subunit; Reviewed | 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|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; 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|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|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|233841 TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase, beta'' subunit | 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|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|220102 pfam09073, BUD22, BUD22 | 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|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | 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|235640 PRK05901, PRK05901, RNA polymerase sigma factor; 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|217861 pfam04050, Upf2, Up-frameshift suppressor 2 | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1020 | |||
| KOG0262|consensus | 1640 | 100.0 | ||
| KOG0261|consensus | 1386 | 100.0 | ||
| PRK14977 | 1321 | bifunctional DNA-directed RNA polymerase A'/A'' su | 100.0 | |
| KOG0260|consensus | 1605 | 100.0 | ||
| PRK00566 | 1156 | DNA-directed RNA polymerase subunit beta'; Provisi | 100.0 | |
| TIGR02386 | 1140 | rpoC_TIGR DNA-directed RNA polymerase, beta' subun | 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 | |
| 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 | |
| TIGR02389 | 367 | RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit | 100.0 | |
| cd02735 | 309 | RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic | 100.0 | |
| cd02584 | 410 | RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryoti | 100.0 | |
| PRK14897 | 509 | unknown domain/DNA-directed RNA polymerase subunit | 100.0 | |
| cd06528 | 363 | RNAP_A'' A'' subunit of Archaeal RNA Polymerase (R | 100.0 | |
| PRK04309 | 383 | DNA-directed RNA polymerase subunit A''; Validated | 100.0 | |
| cd02736 | 300 | RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryot | 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 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 100.0 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 100.0 | |
| TIGR02388 | 1227 | rpoC2_cyan DNA-directed RNA polymerase, beta'' sub | 100.0 | |
| CHL00117 | 1364 | rpoC2 RNA polymerase beta'' subunit; Reviewed | 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 | 99.97 | |
| PF05000 | 108 | RNA_pol_Rpb1_4: RNA polymerase Rpb1, domain 4; Int | 99.85 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 99.68 | |
| TIGR02388 | 1227 | rpoC2_cyan DNA-directed RNA polymerase, beta'' sub | 99.63 | |
| CHL00117 | 1364 | rpoC2 RNA polymerase beta'' subunit; Reviewed | 99.59 | |
| CHL00018 | 663 | rpoC1 RNA polymerase beta' subunit | 99.48 | |
| PRK02625 | 627 | rpoC1 DNA-directed RNA polymerase subunit gamma; P | 99.47 | |
| TIGR02387 | 619 | rpoC1_cyan DNA-directed RNA polymerase, gamma subu | 99.47 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 98.63 |
| >KOG0262|consensus | Back alignment and domain information |
|---|
Probab=100.00 E-value=6.1e-237 Score=2053.82 Aligned_cols=969 Identities=46% Similarity=0.769 Sum_probs=829.4
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeecccccccChHHHHHHHHHHhcccCccc
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALCILNTEI 76 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d~fl~~~~~~~l~~~~~~~~~~~i 76 (1020)
|||||||+ |+.|||||++|+++.+||+.|++|.|++|||||||+++++||.||+||+|++|+||++.++....++|
T Consensus 601 FDGDEMN~HfPQse~araEa~~ian~dsqYLvPt~G~PlrGLIQDHiVsgv~LT~rd~Fftre~y~qLv~~~l~~~~~rI 680 (1640)
T KOG0262|consen 601 FDGDEMNVHFPQSEIARAEAYNIANTDSQYLVPTDGTPLRGLIQDHIVSGVLLTMRDSFFTREDYQQLVFAGLSDTFKRI 680 (1640)
T ss_pred CCcchhcccCCchhhHHHHHHHHhccCCceeccCCCCchhhhhhhheeeeEEEEecccccCHHHHHHHHHHhhhhhccce
Confidence 99999999 99999999999999999999999999999999999999999999999999999999999888877899
Q ss_pred ccCCCccccCCCCCCCcEEEEEEccccCCCCCccccccccccc-cccccccCccccCccccccCceEEEeccceeeeccC
Q psy16767 77 RTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSG-ILDKKQFGSTQYGLVHAVWDTHVTIRHGELLSGILD 155 (1020)
Q Consensus 77 ~l~~Pailkp~~lwTGKqv~s~~l~~~~P~~~~~in~~~~~~~-k~~~~~~~~~~~~~~~~~~d~~v~I~~Gell~G~Ld 155 (1020)
+++||+|+||.+|||||||||++|+|++|++++.||+ +++ |+|+++|.....- ..++++.|+||+||||+|+||
T Consensus 681 ~~lpPtIlkP~~LWTGKQVIsTil~Ni~P~~~p~iNl---~~kaKip~~~W~~~s~e--~~l~Es~v~ir~GellcGVLD 755 (1640)
T KOG0262|consen 681 KLLPPTILKPAPLWTGKQVISTILKNIIPEGHPPINL---ESKAKIPGKAWRVHSEE--PKLNESQVLIREGELLCGVLD 755 (1640)
T ss_pred eccCccccccccccccchHHHHHHHhcCCCCCCcccc---hhcccCchhhcCCCCCc--ccCCcceEEEecCceEEEeec
Confidence 9999999999999999999999999999999999999 999 9999999732211 247889999999999999999
Q ss_pred cccccCcchhHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhcceeeeeCccccChHHHHHHHHHHHHHHHHHHHHHHHHc
Q psy16767 156 KKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNAL 235 (1020)
Q Consensus 156 K~~lG~~~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~L~~~GfSvgi~D~~~~~~~~~~r~~~i~~a~~~~~~~~~~~~ 235 (1020)
|+++|++.+||+|+||+.||+++++.+|+++.||++.||+.+|||||++|+++.++++++|+++|++++..+.++.++++
T Consensus 756 Ka~~Gat~yGLvH~~~ElYG~~~s~~lLs~~srlFT~ylq~~GFT~GvdDlll~~~~D~kR~~il~e~~~vG~qa~~~~~ 835 (1640)
T KOG0262|consen 756 KAQFGATAYGLVHCCHELYGGETSGKLLSVFSRLFTAYLQMHGFTLGVDDLLLDKDADKKRREILRESRNVGNQAAKEAF 835 (1640)
T ss_pred hhhcCchhhhhhhhhhhhhCccchhhHHHHHHHHHHHHHHHhccccccceeeechhhhHHHHHHHHhhhcccHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCChhHHHHhhcCCcchhhHHHH
Q psy16767 236 GLPLDTDPEIISSQLQEAYASIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVNTMQI 315 (1020)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~l~~~~~~i~~~~~~~~~~~~~~~N~~~~M~~SGAKGS~~N~~Qi 315 (1020)
+++.+.+.+++..+|+..+..+.+..+.||..+++.+|.++++|.+.|+|.|+.+.||.|++.+|+.||||||.+|++||
T Consensus 836 ~l~~da~~del~~~le~~y~~d~~~~~~LD~~~k~~~n~~ts~I~~~cvP~GLlk~FP~N~mqlM~~SGAKGS~VN~~QI 915 (1640)
T KOG0262|consen 836 GLDVDAPPDELRSRLEAIYLKDADKLAMLDRVMKSELNGYTSEIVKKCVPDGLLKKFPENNMQLMIQSGAKGSNVNTSQI 915 (1640)
T ss_pred CCCCCCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHhhhhHHHHhhhccchhhhcCCcchHHHHHHhcCCcccccHHHH
Confidence 99999999999999998888788889999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccceeecCCCCCCCCCCCcccCCCCCCCCcccccccccccccCCChhhHHHhhcccccchhhhccccCCcchhHHHH
Q psy16767 316 SCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCL 395 (1020)
Q Consensus 316 ~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~GfI~~sF~~GL~p~EfFfH~m~gReGLiDTAvKTa~sGYLqRrL 395 (1020)
+||||||+|||+|+|+|.+|||||||.|+|.+|+|||||.++|++|+.|+|||||||||||||||||||||+||||||||
T Consensus 916 SclLGQqeLEGkRvPlMvSGKtLPsF~p~e~spraGGfI~~RFlTGi~PqeyfFHCMAGREGLIDTAVKTSRSGYLQRCL 995 (1640)
T KOG0262|consen 916 SCLLGQQELEGKRVPLMVSGKTLPSFAPYETSPRAGGFIDGRFLTGIKPQEYFFHCMAGREGLIDTAVKTSRSGYLQRCL 995 (1640)
T ss_pred HHhhhhHhhcCCccceeecCCccCCcCCCCCCCCCCCcccceeecCCCchHHhhhhhccccchhhhHHhcccchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhcceEEeeceEEEeCCCcEEEEEecCcccccchhcccccccchhhhhhHHHHhhHHHHHhhhccCchhHHHHHHHhh
Q psy16767 396 VKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLLKKHPLSLALLLLLTF 475 (1020)
Q Consensus 396 vk~lEdl~V~yd~tvr~~~~~iiqf~yg~dg~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 475 (1020)
|||||+|+|+||.||||+||+||||.|||||+|.+|++|++. +.|..+|++.+-. +. +...+.+.+-..
T Consensus 996 iKhLEgl~V~YD~TVRDsDgsvVQF~YGEDglDitKssfl~~--~~f~~~Ny~avl~-----~~---~~~~v~s~~d~~- 1064 (1640)
T KOG0262|consen 996 IKHLEGLKVHYDLTVRDSDGSVVQFMYGEDGLDITKSSFLNK--KEFPTDNYEAVLL-----KY---KSESVLSAFDIK- 1064 (1640)
T ss_pred HHhhhhcEEeccceEEcCCCcEEEEeecCccccccHHhhcch--hhhhhhhHHHHHh-----hh---ChHHHhhhhhhH-
Confidence 999999999999999999999999999999999999999984 5566888776521 10 011111111000
Q ss_pred hcCCCCCcccCCCcchhHHHHH-----HHHHhhcHHHHHHHHHhccCCCCCCcccCCCCcccccchHHHHHHHHHHhhcc
Q psy16767 476 KSSGKPNFIFSPHRTKFTMDLL-----EQWYQLDDKARKKYRKKFKACPQPLISTFQPDAHFGSISENLADSVVKYTKGR 550 (1020)
Q Consensus 476 ~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~l~~~~~~~ 550 (1020)
......+.++ .+|.++ -++. .||+|+.++|+|..++|++||+++..++.|...+
T Consensus 1065 ------------~a~~~~k~i~kw~kk~~w~~~--------~k~~-~cpdpv~~k~~p~~y~gsvsekf~~~i~~f~~~~ 1123 (1640)
T KOG0262|consen 1065 ------------KASKYIKKILKWKKKHMWFEL--------DKKI-ACPDPVLAKYNPDKYLGSVSEKFRKKIDDFDDEN 1123 (1640)
T ss_pred ------------HHHHHHHHHHHHHhhhccchh--------hccc-CCCChhhhhcchhhhhccccHHHHHHHHHHHHHh
Confidence 0000001111 112221 2334 3999999999999999999999999999998776
Q ss_pred Ccc-----hhHHHHHHHHHHhhhcccCCCCCcchhhhhcccCCccccccccccccCCccccccccChhhHHHHHHHhhcC
Q psy16767 551 TDA-----SHVDKFYDMIFYKNLLSLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKA 625 (1020)
Q Consensus 551 ~~~-----~~~~~~~~~~~~ky~~slv~pGe~VG~iAAQSIGEP~TQmTLnTFH~AG~~~~nvTlGvPRLkEIi~~ASk~ 625 (1020)
+.. -+++.|+.++..||++||++|||+||+||||||||||||||||||||||+|+|||||||||||||||+||++
T Consensus 1124 ~k~~~s~~~~~~~lr~ll~~K~~~SLa~PGE~VGvlAAQSIGEPSTQMTLNTFHfAGrGemNVTLGIPRLREIlMtASan 1203 (1640)
T KOG0262|consen 1124 AKKEKSEEPSEEKLRRLLQLKYIRSLADPGEPVGVLAAQSIGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMTASAN 1203 (1640)
T ss_pred hhhhccccchHHHHHHHHHHHHHHHhcCCCCcceeeeecccCCCcceeehhheeeccccceeeeecchHHHHHHHHHhhc
Confidence 322 356789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCeEEEEcCCCCchhHHHHHHHHhhccceehhhhcceeEEEEEeecCCC-CCcceEEEEEEecccccccccCCChhhH
Q psy16767 626 IKTPSMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKVKIKEWLEISPE-PHMNYQMKFCFIPAHMYRDKTSVKPSKI 704 (1020)
Q Consensus 626 iKTP~mtv~L~~~~~~~~~~a~~i~~~l~~v~L~dvi~~i~v~~~~~~~~~-~~~~y~i~~~l~~~~~~~~~~~i~~~~i 704 (1020)
||||+||||+.++.+. ++|..++.+|.+++|+||++++.|.+.+...++ .++.|.++|+|++.+.|..+|++++++|
T Consensus 1204 IkTP~mt~pi~~g~s~--~ra~~i~~~l~rV~L~evlk~v~vte~~t~~~~~~~~~y~lr~~~~~~~~y~~e~~v~~e~i 1281 (1640)
T KOG0262|consen 1204 IKTPSMTVPIKNGVSD--ERADDITKELRRVTLKEVLKKVGVTEKITMVENQSCKKYKLRFDLLPREEYQEEYDVRPEDI 1281 (1640)
T ss_pred cCCCceeeeccCCccH--HHHHHHHHHHHHHHHHHHHhheeeeEEEEeeccccceEEEEEEeecCHHHhhhhcCCCHHHH
Confidence 9999999999999887 899999999999999999999999999887766 4689999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHccccccccccccccccCCCCcccCCccccccccCC-CcCCCCccccchhhhhhhhhhcc
Q psy16767 705 IDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALG-RVDVSSDEERDEEDAVQSHKKVN 783 (1020)
Q Consensus 705 ~~~~~~~f~~~~~~~i~k~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~d~~~~~~~~~ 783 (1020)
.+.++..|++.+..+|+|...+. ..+.....+.+ .++..+..+.+.+ .++..+ +.+.+++++.++.|+...++..+
T Consensus 1282 ~~~m~~~Flk~L~~aI~k~~~k~-~~~~~~~~dd~-~~~~~~~~~~~~~-~~~~~~~~~~~e~~~~~ddddas~~k~~~k 1358 (1640)
T KOG0262|consen 1282 EEVMENRFLKLLERAIKKKLKKA-KYTRGMSNDDA-DPDDGNEVDNNDE-VGGEDNEDSDDESEDDEDDDDASDAKLHKK 1358 (1640)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh-HHhhccccccC-CccccccCCcccc-ccCCccccccccccccCcccchhHHHHhhh
Confidence 99999999999999998877662 11222221111 1111111110000 001111 11111111122224555677777
Q ss_pred ccccCCCCCcchHHhhh-hcccccCCCc----ccccc-----hhh-cc--cc-----hhHHHHHHhhccccceeeecccc
Q psy16767 784 QEEDNDFEEPEDEERMS-EREEDDNTSN----IGERF-----KIE-FR--DS-----TNVFVKDVVNQHNIVHKYSYDKK 845 (1020)
Q Consensus 784 ~~~~~~~~~~d~~~~~~-~~~~~~~~~~----~~~~~-----~~~-~~--~~-----~~~~i~~v~~~~~~i~~~~~d~~ 845 (1020)
..++.+||++|+++... .+.+++++++ .++.. ..+ +. +. ...+++.++..++.|+.|+||.+
T Consensus 1359 ~~~~~dYe~~de~e~~~~~~~e~~~~~e~~e~d~e~g~dg~~~~~~~~~e~~~~~~~~er~~qs~~~~~~fi~~y~fd~~ 1438 (1640)
T KOG0262|consen 1359 TEEEADYESEDEDERVEEREDEGDEDEESDEDDEEVGLDGTPEPEEEDQEGQPEVNAVERREQSVKKRHDFISRYTFDKE 1438 (1640)
T ss_pred hccccCcCCCchhhhhhhhhcccccccccccchhhcccCCCCCcccccccCCchhhHHHHHHHHHHHHHHHhhhhccccc
Confidence 77889999888754431 1111111111 00000 000 00 00 23446677777778899999999
Q ss_pred CCceEEEEe-ccc------------------cee-----------ccC---CceEEEEEeccchhhhhccCCcccccccc
Q psy16767 846 NHMWCKLLF-LPS------------------NLF-----------EEK---ESKHLLKTDGINVNFISQYRHLLDLNKLY 892 (1020)
Q Consensus 846 ~~~~~~~~~-lp~------------------~~~-----------~~~---~~e~~l~teG~nl~~~~~~~~~iD~~r~~ 892 (1020)
.++||+|.+ +|. +++ ..+ ++.-+|.|+|+||.++|.+.+++|++++|
T Consensus 1439 ~~~wcev~~~lp~~~~k~~mssiVe~~~~~~vI~q~~gIeRc~~~~~~~~~k~~~~l~TeGVnl~a~~~~~d~LDv~~ly 1518 (1640)
T KOG0262|consen 1439 SGKWCEVELKLPLDKEKLDMSSIVESIAPKSVIHQVPGIERCVVSEPQDDVKEKSVLLTEGVNLPALFDHADILDVNRLY 1518 (1640)
T ss_pred cCcEEEEEEEecCCCcchHHHHHHHHHhcceeeeccCCceeeeccCCcccccccceehhcCccHHHHHHHHhhhhhhhhc
Confidence 999999999 872 121 111 22238999999999999999999999999
Q ss_pred cccHHHHHHhhhHHHHHHHHHHHHHhhhhccCcccCcchhhhhcccceeeeeEEeeeccccccCcchhhhhcchhHHHHH
Q psy16767 893 VNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVADYMTHSGTYVAMNRNGIRLNPSFIQKMTFEMPLEKI 972 (1020)
Q Consensus 893 sNdi~~i~~~~GIEAar~~i~~ei~~v~~~~g~~v~~rHl~LlAD~MT~~G~~~~~nR~G~~~~~spl~kaSFE~t~~~L 972 (1020)
||||++|+++|||||||++|++||.+||+.|||+||+|||+||||||||+|.|.||||+||..++|||+|||||+|+.||
T Consensus 1519 SNDI~ail~tyGVEAar~~Iv~Ev~~VF~vYGIsVd~RHLsLiADYMTf~G~y~pfnR~Gm~~ssSP~qkMsFETt~~Fl 1598 (1640)
T KOG0262|consen 1519 SNDIHAILNTYGVEAARNAIVNEVNNVFKVYGISVDIRHLSLIADYMTFEGGYQPFNRMGMESSSSPLQKMSFETTCQFL 1598 (1640)
T ss_pred cchHHHHHHHhhHHHHHHHHHHHHHHhhhheeeeecHHHHHHHHHHHhhccccccccccccccCCChhHhhhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCccCCCcccceecCCccccCccceEEeeccc
Q psy16767 973 RQASMQGREDSLRAPSARVMLGQECRQGTGLFQLRNREK 1011 (1020)
Q Consensus 973 ~~AA~~g~~D~l~svSa~Ii~Gk~~~~GTG~fdll~~~~ 1011 (1020)
.+||++|+.|.|++|||||+||++++.|||+|||++++.
T Consensus 1599 ~~Aa~~g~~D~L~sPSArLvvG~~~r~GTG~Fdll~~v~ 1637 (1640)
T KOG0262|consen 1599 KQAALFGEEDELSSPSARLVVGLPVRGGTGSFDLLQKVD 1637 (1640)
T ss_pred HHHHhcCcccccCCCcceeEeccccCCCcceeeeeccCC
Confidence 999999999999999999999999999999999999875
|
|
| >KOG0261|consensus | Back alignment and domain information |
|---|
| >PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | Back alignment and domain information |
|---|
| >KOG0260|consensus | Back alignment and domain information |
|---|
| >PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form | 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 |
|---|
| >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 |
|---|
| >TIGR02389 RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit A'' | 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 |
|---|
| >cd02584 RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >PRK14897 unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | Back alignment and domain information |
|---|
| >cd06528 RNAP_A'' A'' subunit of Archaeal RNA Polymerase (RNAP) | Back alignment and domain information |
|---|
| >PRK04309 DNA-directed RNA polymerase subunit A''; Validated | 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 |
|---|
| >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 |
|---|
| >PRK14898 DNA-directed RNA polymerase subunit A''; Provisional | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >CHL00018 rpoC1 RNA polymerase beta' subunit | 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 |
|---|
| >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 | 1020 | ||||
| 3h0g_A | 1752 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 3e-65 | ||
| 3h0g_A | 1752 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 1e-18 | ||
| 3h0g_A | 1752 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 6e-15 | ||
| 4a3c_A | 1732 | Rna Polymerase Ii Initial Transcribing Complex With | 2e-57 | ||
| 4a3c_A | 1732 | Rna Polymerase Ii Initial Transcribing Complex With | 1e-18 | ||
| 4a3c_A | 1732 | Rna Polymerase Ii Initial Transcribing Complex With | 2e-14 | ||
| 1i3q_A | 1733 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 2e-57 | ||
| 1i3q_A | 1733 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 1e-18 | ||
| 1i3q_A | 1733 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 2e-14 | ||
| 3j0k_A | 1455 | Orientation Of Rna Polymerase Ii Within The Human V | 3e-57 | ||
| 3j0k_A | 1455 | Orientation Of Rna Polymerase Ii Within The Human V | 1e-18 | ||
| 3j0k_A | 1455 | Orientation Of Rna Polymerase Ii Within The Human V | 2e-14 | ||
| 2waq_A | 880 | The Complete Structure Of The Archaeal 13-Subunit D | 2e-45 | ||
| 2pmz_A | 880 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 2e-45 | ||
| 2waq_C | 395 | The Complete Structure Of The Archaeal 13-Subunit D | 3e-17 | ||
| 2waq_C | 395 | The Complete Structure Of The Archaeal 13-Subunit D | 5e-17 | ||
| 2y0s_C | 395 | Crystal Structure Of Sulfolobus Shibatae Rna Polyme | 3e-17 | ||
| 2y0s_C | 395 | Crystal Structure Of Sulfolobus Shibatae Rna Polyme | 5e-17 | ||
| 3hkz_C | 395 | The X-Ray Crystal Structure Of Rna Polymerase From | 3e-17 | ||
| 3hkz_C | 395 | The X-Ray Crystal Structure Of Rna Polymerase From | 1e-16 | ||
| 2pmz_C | 392 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 3e-17 | ||
| 2pmz_C | 392 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 1e-16 | ||
| 4gzy_D | 1534 | Crystal Structures Of Bacterial Rna Polymerase Paus | 1e-08 | ||
| 1iw7_D | 1524 | Crystal Structure Of The Rna Polymerase Holoenzyme | 1e-08 | ||
| 1l9u_D | 1524 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 1e-07 | ||
| 1l9u_D | 1524 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 2e-07 | ||
| 2gho_D | 1233 | Recombinant Thermus Aquaticus Rna Polymerase For St | 2e-07 | ||
| 2gho_D | 1233 | Recombinant Thermus Aquaticus Rna Polymerase For St | 2e-07 | ||
| 1i6v_D | 1264 | Thermus Aquaticus Core Rna Polymerase-Rifampicin Co | 2e-07 | ||
| 1hqm_D | 1265 | Crystal Structure Of Thermus Aquaticus Core Rna Pol | 2e-07 | ||
| 3iyd_D | 1413 | Three-Dimensional Em Structure Of An Intact Activat | 8e-06 | ||
| 3lu0_D | 1407 | Molecular Model Of Escherichia Coli Core Rna Polyme | 8e-06 |
| >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|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|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|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|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|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|2WAQ|C Chain C, The Complete Structure Of The Archaeal 13-Subunit Dna- Directed Rna Polymerase 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|2Y0S|C Chain C, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In P21 Space Group Length = 395 | 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|3HKZ|C Chain C, The X-Ray Crystal Structure Of Rna Polymerase From Archaea Length = 395 | 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|2PMZ|C Chain C, Archaeal Rna Polymerase From Sulfolobus Solfataricus Length = 392 | Back alignment and structure |
| >pdb|2PMZ|C Chain C, Archaeal Rna Polymerase From Sulfolobus Solfataricus Length = 392 | 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|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|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|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 |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >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 |
|---|
Score = 689 bits (1779), Expect = 0.0
Identities = 274/1049 (26%), Positives = 454/1049 (43%), Gaps = 128/1049 (12%)
Query: 9 SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQA 68
S +AE + V Q + P+ P+ G++QD + K SLRD FLTR MN++
Sbjct: 500 SEETRAEIQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLTRNAVMNIML-- 557
Query: 69 LCILNTEIRTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSGILDKKQFGS 128
+ + + PP I KP LWTGKQ+LS +I PK +IR D KQ S
Sbjct: 558 -WVPDWDGILPPPVILKPKVLWTGKQILSLII----PKGINLIR--------DDDKQSLS 604
Query: 129 TQYGLVHAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAK 188
D+ + I +GE++ G++DKK G++Q GLVH +W G E + + +
Sbjct: 605 N-------PTDSGMLIENGEIIYGVVDKKTVGASQGGLVHTIWKEKGPEICKGFFNGIQR 657
Query: 189 LFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALGLPLDTDPEIISS 248
+ +L GF++G+ D + + ++ T+ + +ARR E +A L +P +
Sbjct: 658 VVNYWLLHNGFSIGIGDTIADADTMKEVTRTVKEARRQVAECIQDAQHNRLKPEPGMT-- 715
Query: 249 QLQEAYASIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGS 308
+ +++ + ++ N +NN++ MV +G+KGS
Sbjct: 716 ---------------LRESFEAKVSRILNQARDNAGRSAEHSLKDSNNVKQMVAAGSKGS 760
Query: 309 TVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFF 368
+N Q+S +GQ +EGKR RTLP F + SP + GF++ ++ G+ PQEFF
Sbjct: 761 FINISQMSACVGQQIVEGKRIPFGFKYRTLPHFPKDDDSPESRGFIENSYLRGLTPQEFF 820
Query: 369 FHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLD 428
FH MAGREGLIDTAVKT+ +GY+QR LVK +E + V YD TVR++ +IQ YGEDGLD
Sbjct: 821 FHAMAGREGLIDTAVKTAETGYIQRRLVKAMEDVMVRYDGTVRNAMGDIIQFAYGEDGLD 880
Query: 429 VTKRQYLT-----------DKQFSFLEDNIKWICSYKVILNLLKKHPLSLALL------L 471
T +Y +K++ + + Y + N ++ LL L
Sbjct: 881 ATLVEYQVFDSLRLSTKQFEKKYRIDLMEDRSLSLY--MENSIENDSSVQDLLDEEYTQL 938
Query: 472 LLTFKSSGKPNFIFSPHRTKFTMDLLEQWYQLDDKARKKYRKKFKACPQ----------- 520
+ + K F R +++ + +K P
Sbjct: 939 VADRELLCKFIFPKGDARWPLPVNVQRIIQNALQIFHLEAKKPTDLLPSDIINGLNELIA 998
Query: 521 ---------PLISTFQPDAH--FGSISENLADSVVKYTKGRTDASHVDKFYDMIFYKNLL 569
+ Q +A F + + + R + + + +
Sbjct: 999 KLTIFRGSDRITRDVQNNATLLFQILLRSKFAVKRVIMEYRLNKVAFEWIMGEVEARFQQ 1058
Query: 570 SLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTP 629
++ +PGE VG LAAQSIGEP+TQMTLNTFH+AG NVTLG+PRL+EIL K IKTP
Sbjct: 1059 AVVSPGEMVGTLAAQSIGEPATQMTLNTFHYAGVSSKNVTLGVPRLKEIL-NVAKNIKTP 1117
Query: 630 SMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKVKIKEWLEISPEPHMNYQMKFCFIP 689
S+ I +P + A + + T++ V +I P+P + ++
Sbjct: 1118 SLTIYLMPWIAANMDLAKNVQTQIEHTTLSTVTSATEIHY----DPDP-QDTVIEEDKDF 1172
Query: 690 AHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEG 749
+ + + + L+ LE+ AK + L ++ + +
Sbjct: 1173 VEAFFAIPDEEVEENLYKQSPWLLR-LELDRAKMLDKKLSMSDVAGKIAESFER------ 1225
Query: 750 EGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTS 809
D+ + D D + ++ +++D E+ ++ +
Sbjct: 1226 -------------DLFTIWSEDNADKLIIRCRIIRDDDRKAEDDDNMIEEDVFLKTIEGH 1272
Query: 810 NIGERFKIEFRDSTNVFVKDVVNQHNIVHKYSYDKKNHMWCKLLFLPSNLFEEKESKHLL 869
+ + T V++ + HK ++ + E+ + +L
Sbjct: 1273 MLESISLRGVPNITRVYMME--------HKIVRQIEDGTF------------ERADEWVL 1312
Query: 870 KTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDP 929
+TDGIN+ +D + Y N + GIEA +++E++NV G V+
Sbjct: 1313 ETDGINLTEAMTVEG-VDATRTYSNSFVEILQILGIEATRSALLKELRNVIEFDGSYVNY 1371
Query: 930 RHLSLVADYMTHSGTYVAMNRNGI-RLNPSFIQKMTFEMPLEKIRQASMQGREDSLRAPS 988
RHL+L+ D MT G +A+ R+GI R + + +FE +E + A+ G +D + S
Sbjct: 1372 RHLALLCDVMTSRGHLMAITRHGINRAETGALMRCSFEETVEILMDAAASGEKDDCKGIS 1431
Query: 989 ARVMLGQECRQGTGLFQLRNREKKKKKVE 1017
+MLGQ GTG F + +
Sbjct: 1432 ENIMLGQLAPMGTGAFDIYLDQDMLMNYS 1460
|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1020 | |||
| 3h0g_A | 1752 | DNA-directed RNA polymerase II subunit RPB1; trans | 100.0 | |
| 1twf_A | 1733 | B220, DNA-directed RNA polymerase II largest subun | 100.0 | |
| 1hqm_D | 1265 | DNA-directed RNA polymerase; transferase, transcri | 100.0 | |
| 2a6h_D | 1524 | DNA-directed RNA polymerase beta' chain; RNA polym | 100.0 | |
| 3lu0_D | 1407 | DNA-directed RNA polymerase subunit beta'; E. coli | 100.0 | |
| 4ayb_A | 880 | DNA-directed RNA polymerase; transferase, multi-su | 100.0 | |
| 4ayb_C | 395 | DNA-directed RNA polymerase; transferase, multi-su | 100.0 | |
| 3qqc_A | 436 | DNA-directed RNA polymerase subunit B, DNA-direct | 94.31 |
| >3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} | Back alignment and structure |
|---|
Probab=100.00 E-value=1.5e-180 Score=1732.60 Aligned_cols=866 Identities=30% Similarity=0.440 Sum_probs=642.3
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeecccccccChHHHHHHHHHHhcccCccc
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALCILNTEI 76 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d~fl~~~~~~~l~~~~~~~~~~~i 76 (1020)
|||||||| |+||||||++||++++||++|++|+||+|++||+|+|+|+||++|+||+++++++++++ +..+++
T Consensus 488 FDGDeMnvHvPqs~eAraEa~~Lm~~~~nilsP~~G~Pi~~~~QD~vlg~y~lT~~~~f~~~~e~~~l~~~-~~~~~~-- 564 (1752)
T 3h0g_A 488 FDGDEMNMHVPQSEETRAEIQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLTRNAVMNIMLW-VPDWDG-- 564 (1752)
T ss_dssp SSSCEEEEECCCSTTHHHHHHHTCCTTTTSEETTTTEESCCCCTHHHHHHHHHHSTTCEEETHHHHGGGGC-SSSCCS--
T ss_pred cccceeeeeccCCHHHHHHHHHHhcCccceecCCCCCceeeecchhhhheeeeccccccCCHHHHHHHHHh-hcccCC--
Confidence 99999999 99999999999999999999999999999999999999999999999999999999987 333443
Q ss_pred ccCCCccccCCCCCCCcEEEEEEccccCCCCCccccccccccc-cccccccCccccCccccccCceEEEeccceeeeccC
Q psy16767 77 RTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSG-ILDKKQFGSTQYGLVHAVWDTHVTIRHGELLSGILD 155 (1020)
Q Consensus 77 ~l~~Pailkp~~lwTGKqv~s~~l~~~~P~~~~~in~~~~~~~-k~~~~~~~~~~~~~~~~~~d~~v~I~~Gell~G~Ld 155 (1020)
.+|+|||+||+++||||||||++| |.+ +|+ ..+ +. ... .+..|+.|+|+|||||+|+||
T Consensus 565 ~~~~pai~kp~~~wtGkqifs~il----p~~---~~~---~~~~~~-~~~---------~~~~d~~v~i~~gell~g~l~ 624 (1752)
T 3h0g_A 565 ILPPPVILKPKVLWTGKQILSLII----PKG---INL---IRDDDK-QSL---------SNPTDSGMLIENGEIIYGVVD 624 (1752)
T ss_dssp SCCCCSBCSSSCEEETTHHHHTTS----CSS---BCE---ECCCSS-CCS---------SCTTTCSEEECBSCEEEECCS
T ss_pred ccCccceecCcCCCchhhHHhhhC----cCC---CCc---eecccc-ccC---------cCCCcCeEEEEcCeEEecccc
Confidence 589999999999999999999988 876 455 322 21 111 134689999999999999999
Q ss_pred cccccCcchhHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhcceeeeeCccccChHHHHHHHHHHHHHHHHHHHHHHHHc
Q psy16767 156 KKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNAL 235 (1020)
Q Consensus 156 K~~lG~~~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~L~~~GfSvgi~D~~~~~~~~~~r~~~i~~a~~~~~~~~~~~~ 235 (1020)
|++||++.++|||.||++||+++|+.|||++++|+++||+++||||||+|++++++..+++.++|++|++++.++++++.
T Consensus 625 K~~lg~~~~~li~~i~~~~G~~~~~~~ld~~~~l~~~~l~~~GfSigi~D~~~~~~~~~~~~~~i~~a~~~v~~~~~~~~ 704 (1752)
T 3h0g_A 625 KKTVGASQGGLVHTIWKEKGPEICKGFFNGIQRVVNYWLLHNGFSIGIGDTIADADTMKEVTRTVKEARRQVAECIQDAQ 704 (1752)
T ss_dssp HHHHSSCTTCHHHHSSSSSCTTTHHHHHHHHHHHHHHHHHHHCCCCCGGGGSCCSHHHHHHHHHHHTTTHHHHHHHTTTT
T ss_pred hHHhccCcccHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHhcCceechhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999988766654322
Q ss_pred CCCCCCCHHHHHHHHHHhcc---CchhHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCChhHHHHhhcCCcchhhH
Q psy16767 236 GLPLDTDPEIISSQLQEAYA---SIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVNT 312 (1020)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~ld~~~~~~l~~~~~~i~~~~~~~~~~~~~~~N~~~~M~~SGAKGS~~N~ 312 (1020)
.+.+ ++.+..+.+|..+.+++|++++++++.|+.. +.++|++++|+.||||||.+|+
T Consensus 705 ----------------~g~l~~~~g~~~~e~~e~~v~~~l~~~~~~~~~~~~~~----l~~~N~~~~M~~SGakGs~~ni 764 (1752)
T 3h0g_A 705 ----------------HNRLKPEPGMTLRESFEAKVSRILNQARDNAGRSAEHS----LKDSNNVKQMVAAGSKGSFINI 764 (1752)
T ss_dssp ----------------TTCCCCCSSCCTTHHHHHHHHHHHHHHHHHHHHHHHTT----SCSSCTTTHHHHHCSSCCHHHH
T ss_pred ----------------cCCCccCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHh----cCCCCcHHHHhhhccccCHHHH
Confidence 2222 2334556778888899999999999988753 5689999999999999999999
Q ss_pred HHHHhhccceeecCCCCCCCCCCCcccCCCCCCCCcccccccccccccCCChhhHHHhhcccccchhhhccccCCcchhH
Q psy16767 313 MQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQ 392 (1020)
Q Consensus 313 ~Qi~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~GfI~~sF~~GL~p~EfFfH~m~gReGLiDTAvKTa~sGYLq 392 (1020)
+||+||||||+++|+|||+||+||+||||.++|.+|+++|||.|||++||+|+|||||||||||||||||||||+|||||
T Consensus 765 ~Q~~~~~Gqq~~~GkrIp~g~~~rtLP~f~k~d~~~~a~GfV~~sF~~GL~p~EfFfhtmggReGLiDTAvKTA~SGYLq 844 (1752)
T 3h0g_A 765 SQMSACVGQQIVEGKRIPFGFKYRTLPHFPKDDDSPESRGFIENSYLRGLTPQEFFFHAMAGREGLIDTAVKTAETGYIQ 844 (1752)
T ss_dssp HHHHTCCCCCCSTTSSSCCCSTTSSSTTSCSSCCSTTTSSCCSSCTTTCCCHHHHHHHHHHHTTTTTHHHHTTTHHHHHH
T ss_pred HHHHhccCCCccCCccCCCCCCCccCCCCCCCCCCcccCcchhhcccCCCCHHHHHHHhhhhhhhhhHhhhhcCcCchhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcceEEeeceEEEeCCCcEEEEEecCcccccchhcccccccchhhhhhHHHHhhHHHHHhhhcc----------
Q psy16767 393 RCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLLKK---------- 462 (1020)
Q Consensus 393 RrLvk~lEdl~V~yd~tvr~~~~~iiqf~yg~dg~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~---------- 462 (1020)
|||||+||||+|+||+||||++|.||||.|||||+|+++.+ .+.++++..+...++. +|+-.
T Consensus 845 RRLVk~leDv~V~YDgTVRns~g~ivQF~YGeDGlD~~~~e---~q~~~~~~~s~~~f~~-----~~~~~~~~~~~~~~~ 916 (1752)
T 3h0g_A 845 RRLVKAMEDVMVRYDGTVRNAMGDIIQFAYGEDGLDATLVE---YQVFDSLRLSTKQFEK-----KYRIDLMEDRSLSLY 916 (1752)
T ss_dssp HHHHHHHTTCEEETTTEEECTTSCEEESSSSSSCBCGGGEE---EEECTTTSCCHHHHTT-----TSCCCTTTTCCGGGT
T ss_pred HHHHHHHhheEEeeCCeeEcCCCcEEEEecCCCCcChHHhh---ccccccccCCHHHHHH-----HhcccccccccccHH
Confidence 99999999999999999999999999999999999998754 3445555544333321 11100
Q ss_pred ----------CchhHHHHHHHhhhcCCCCCc-ccCCCcch-----hHHHHHHHHHhhcHHHHHHHHHhccCCCCCCcccC
Q psy16767 463 ----------HPLSLALLLLLTFKSSGKPNF-IFSPHRTK-----FTMDLLEQWYQLDDKARKKYRKKFKACPQPLISTF 526 (1020)
Q Consensus 463 ----------~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 526 (1020)
....+..+|.........++. +...+... ...+++.... +.-.......+.+
T Consensus 917 ~~~~l~~~~~~~~~l~~E~~~l~~dr~~lr~~i~~~~~~~~~lP~N~~R~i~~~~------------~~f~~~~~~~s~l 984 (1752)
T 3h0g_A 917 MENSIENDSSVQDLLDEEYTQLVADRELLCKFIFPKGDARWPLPVNVQRIIQNAL------------QIFHLEAKKPTDL 984 (1752)
T ss_dssp SCSCCTTSCSSTHHHHHHHHHHHHHHTTSSSSSSSCSCCEEEEESCHHHHTTTTT------------TTSCCCTTSCCCC
T ss_pred HHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccCCccHHHHHHHHH------------HhcCCCcCccCCC
Confidence 001111222100000000000 00000000 0000000000 0000000011112
Q ss_pred CCCcccccchHH------------------------HHHHHHHHhhcc----CcchhHH---HHHHHHHHhhhcccCCCC
Q psy16767 527 QPDAHFGSISEN------------------------LADSVVKYTKGR----TDASHVD---KFYDMIFYKNLLSLANPG 575 (1020)
Q Consensus 527 ~~~~~~~~~~e~------------------------~~~~l~~~~~~~----~~~~~~~---~~~~~~~~ky~~slv~pG 575 (1020)
+|...++.+.+. +...+..++..+ ...++++ +|...|+.||.+|+|+||
T Consensus 985 ~p~~~~~~v~~~~~~l~~~~g~d~l~~~~~~na~~l~~~~lr~~l~~k~~~~~~~l~~~~~~~~~~~~~~~y~~a~v~pG 1064 (1752)
T 3h0g_A 985 LPSDIINGLNELIAKLTIFRGSDRITRDVQNNATLLFQILLRSKFAVKRVIMEYRLNKVAFEWIMGEVEARFQQAVVSPG 1064 (1752)
T ss_dssp CHHHHHHHHHHHHTTCCCSCCCSTTTTHHHHTSSHHHHHHHTTSSSHHHHHHSSCCCHHHHHHHHHHHHHHHHTTBCCSS
T ss_pred CHHHHHHHHHHHHHhhhcccCCcchhhhhhhchHHHHHHHHHhhhhhhhhhhhcCcCHHHHHHHHHHHHHHHHHhccCcc
Confidence 222111111111 111111111000 0113444 455667899999999999
Q ss_pred CcchhhhhcccCCccccccccccccCCccccccccChhhHHHHHHHhhcCCCCCeEEEEcCCCCchhHHHHHHHHhhccc
Q psy16767 576 ENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAKSMTR 655 (1020)
Q Consensus 576 e~VG~iAAQSIGEP~TQmTLnTFH~AG~~~~nvTlGvPRLkEIi~~ASk~iKTP~mtv~L~~~~~~~~~~a~~i~~~l~~ 655 (1020)
||||+|||||||||+|||||||||||||++|||||||||||||| +|||+||||+|||+|.++....+++|+.|+++|++
T Consensus 1065 e~VG~iaAQSIgEp~TQMTLnTFHfAGvas~NVTlGVPRLkEII-nask~ikTP~mtv~L~~~~~~d~e~A~~v~~~ie~ 1143 (1752)
T 3h0g_A 1065 EMVGTLAAQSIGEPATQMTLNTFHYAGVSSKNVTLGVPRLKEIL-NVAKNIKTPSLTIYLMPWIAANMDLAKNVQTQIEH 1143 (1752)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHTTSSCCCCCSSCCCSGGGHHHHH-TTCSCCSCCCCEECCCSSSCSSSTTTHHHHTTSSC
T ss_pred cchhhhhhcccCCchhhhhHHhhhhccccccccccCcccHHHHH-hhhcCCCCCeEEEEecCccccCHHHHHHHHHhhcc
Confidence 99999999999999999999999999999999999999999999 68999999999999998764444889999999999
Q ss_pred eehhhhcceeEEEEEee-----cCCC--------------------CCcceEEEEEEecccccccccCCChhhHHHHHHH
Q psy16767 656 ITMADVLEKVKIKEWLE-----ISPE--------------------PHMNYQMKFCFIPAHMYRDKTSVKPSKIIDHFER 710 (1020)
Q Consensus 656 v~L~dvi~~i~v~~~~~-----~~~~--------------------~~~~y~i~~~l~~~~~~~~~~~i~~~~i~~~~~~ 710 (1020)
++|+||++.++|.+... +..+ ....|.+++++...... .+.+++.+|...+.+
T Consensus 1144 t~L~~v~~~~~i~~~p~~~~~~i~~d~~~v~~~~~~~~~~~~~~~~~~~~~~~rl~l~~~~~~--~~~l~~~~I~~~i~~ 1221 (1752)
T 3h0g_A 1144 TTLSTVTSATEIHYDPDPQDTVIEEDKDFVEAFFAIPDEEVEENLYKQSPWLLRLELDRAKML--DKKLSMSDVAGKIAE 1221 (1752)
T ss_dssp CSSCSCCSCEEEECCCSTTCCCCSSSCSHHHHHHHTTCSSTTCSSCSCCCCEEEEECCTTSST--TTTCCHHHHTTSGGG
T ss_pred EEHHHheeEEEEEEecCccceEEeecHHHHHHHhccchhhhhcccccccceeEEEEecHHHHH--HcCCCHHHHHHHHHh
Confidence 99999999998865321 0000 12356666666433222 344554433322110
Q ss_pred HHHHHHHHHHHHHHHccccccccccccccccCCCCcccCCccccccccCCCcCCCCccccchhhhhhhhhhccccccCCC
Q psy16767 711 KFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDF 790 (1020)
Q Consensus 711 ~f~~~~~~~i~k~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~ 790 (1020)
. + ..++... .+|+++ +...++++ .......
T Consensus 1222 ~-------------------~---------~~~~~v~-----------------~~d~~~---~~~~i~i~--~~~~~~~ 1251 (1752)
T 3h0g_A 1222 S-------------------F---------ERDLFTI-----------------WSEDNA---DKLIIRCR--IIRDDDR 1251 (1752)
T ss_dssp S-------------------S---------TTSCCEE-----------------CCCTTC---SSCEEEEC--CCCCSCC
T ss_pred h-------------------c---------cCCeeEe-----------------ecCCCc---cceeEEEE--ecccccc
Confidence 0 0 0011100 011110 01011111 1110000
Q ss_pred CCcchHHhhhhcccccCCCcccccchhhcccchhHHHHHHhh---------ccccceeeeccccCCceEEEEecccceec
Q psy16767 791 EEPEDEERMSEREEDDNTSNIGERFKIEFRDSTNVFVKDVVN---------QHNIVHKYSYDKKNHMWCKLLFLPSNLFE 861 (1020)
Q Consensus 791 ~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~---------~~~~i~~~~~d~~~~~~~~~~~lp~~~~~ 861 (1020)
+++++ . + +.+ .+..++.+.. ..+.|.+.....++ .. +...
T Consensus 1252 ~~~~~--~-------~-~~~------------~~~~l~~l~~~~l~~~~i~Gi~~I~rv~i~~~~-----~~----~~~~ 1300 (1752)
T 3h0g_A 1252 KAEDD--D-------N-MIE------------EDVFLKTIEGHMLESISLRGVPNITRVYMMEHK-----IV----RQIE 1300 (1752)
T ss_dssp CCCSS--C-------C-CSC------------SCHHHHHHHHHHTTCCCSSCCTTCCCCCEEEEE-----EE----EECS
T ss_pred ccccc--c-------c-ccc------------HHHHHHHHHHhhccceEEecCCCccEEEEeccc-----ce----eecC
Confidence 00000 0 0 000 0111222210 01112211111000 00 0000
Q ss_pred c----CCceEEEEEeccchhhhhccCCcccccccccccHHHHHHhhhHHHHHHHHHHHHHhhhhccCcccCcchhhhhcc
Q psy16767 862 E----KESKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVAD 937 (1020)
Q Consensus 862 ~----~~~e~~l~teG~nl~~~~~~~~~iD~~r~~sNdi~~i~~~~GIEAar~~i~~ei~~v~~~~g~~v~~rHl~LlAD 937 (1020)
. ..++|+|+|||+||+++|.+ +.||++||+||||++|+++|||||||++|++||+.||+.||++||+|||+||||
T Consensus 1301 ~g~~~~~~~~~l~teG~nL~~v~~~-~gVD~~rt~sNdI~ei~~vlGIEAAR~~Ii~Ei~~v~~~~G~~Vd~RHl~LlaD 1379 (1752)
T 3h0g_A 1301 DGTFERADEWVLETDGINLTEAMTV-EGVDATRTYSNSFVEILQILGIEATRSALLKELRNVIEFDGSYVNYRHLALLCD 1379 (1752)
T ss_dssp SSCEEEEEEEEEECCSCCCSTTTSS-SSCCTTTCCCSCHHHHHHHSCHHHHHHHHHHHHHTTSCSSSCCCCHHHHHHHHH
T ss_pred CCcccccceEEEEecccCHHHHhCc-CCCccccCeeCCHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence 0 13589999999999999999 579999999999999999999999999999999999999999999999999999
Q ss_pred cceeeeeEEeeecccccc-CcchhhhhcchhHHHHHHHHHhcCCCccCCCcccceecCCccccCccceEEeecccccc
Q psy16767 938 YMTHSGTYVAMNRNGIRL-NPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGLFQLRNREKKKK 1014 (1020)
Q Consensus 938 ~MT~~G~~~~~nR~G~~~-~~spl~kaSFE~t~~~L~~AA~~g~~D~l~svSa~Ii~Gk~~~~GTG~fdll~~~~~~~ 1014 (1020)
+||++|++++||||||++ ++|||+|||||+|+++|++||++|+.|+|+|||+||||||++++|||+|||+++.++.+
T Consensus 1380 ~MT~~G~~~~itR~Gi~~~~~s~l~~aSFE~T~~~L~~Aa~~g~~D~l~gvse~Ii~G~~~~~GTG~fdll~~~~~l~ 1457 (1752)
T 3h0g_A 1380 VMTSRGHLMAITRHGINRAETGALMRCSFEETVEILMDAAASGEKDDCKGISENIMLGQLAPMGTGAFDIYLDQDMLM 1457 (1752)
T ss_dssp HHTSSSSCCCCCTTSCSCCCSHHHHHHHHSCCTHHHHHHGGGTCCBCCCCSTTGGGTCSCCCSBTTSCEECCCHHHHH
T ss_pred HhccCCeEEeechhhhccCCCCHHHHhhHHHHHHHHHHHHHhcCcccccChhHHhhcCCCcCCccceEEEEeCHHHhc
Confidence 999999999999999987 69999999999999999999999999999999999999999999999999999977655
|
| >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* ... | 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 | 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 | 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* | 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 | 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 | 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} | Back alignment and structure |
|---|
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 |
| 1020 | ||||
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 1e-125 | |
| d1smyd_ | 1504 | e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus t | 3e-64 | |
| d1smyd_ | 1504 | e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus t | 1e-09 |
| >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 = 413 bits (1061), Expect = e-125
Identities = 268/1043 (25%), Positives = 434/1043 (41%), Gaps = 138/1043 (13%)
Query: 9 SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQA 68
S +AE S L V Q + P+ P G++QD + KL+LRDTF+ + +N++Y
Sbjct: 493 SEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLY-- 550
Query: 69 LCILNTEIRTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSGILDKKQFGS 128
+ + + P I KP PLW+GKQ+LS I + + ++ + + +L K
Sbjct: 551 -WVPDWDGVIPTPAIIKPKPLWSGKQILSVAI-----PNGIHLQRFDEGTTLLSPK---- 600
Query: 129 TQYGLVHAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAK 188
D + I G+++ G+++KK GS+ GL+H V G + L + K
Sbjct: 601 ----------DNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQK 650
Query: 189 LFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALGLPLDTDPEIISS 248
+ +L GF+ G+ D + R+ T+ I +A++ + A
Sbjct: 651 VVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEA-------------- 696
Query: 249 QLQEAYASIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGS 308
+A + + ++ + + N + NN++ MV +G+KGS
Sbjct: 697 ---QANLLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGS 753
Query: 309 TVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFF 368
+N Q+S +GQ +EGKR A RTLP F + SP + GFV+ ++ G+ PQEFF
Sbjct: 754 FINIAQMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFF 813
Query: 369 FHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLD 428
FH M GREGLIDTAVKT+ +GY+QR LVK LE + VHYD T R+S ++IQ +YGEDG+D
Sbjct: 814 FHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMD 873
Query: 429 VTK-----------------RQYLTDKQFSFLEDNIKWICSYKVILNLLKKHP------- 464
++Y D + + + S IL LK
Sbjct: 874 AAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYK 933
Query: 465 -LSLALLLLLTFKSSGKPNFIFSPHRTKFTMDLLEQWYQLDDKARKKYRKKFKACPQPLI 523
L L G+ N+ + + + + ++ K K + L
Sbjct: 934 QLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQ 993
Query: 524 STFQPDAHFGSISENLADSVVKY---------------TKGRTDASHVDKFYDMIFYKNL 568
I +N V + R D I + L
Sbjct: 994 ENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFL 1053
Query: 569 LSLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKT 628
S+ +PGE VGVLAAQSIGEP+TQMTLNTFHFAG VT G+PRL+EI + K +KT
Sbjct: 1054 RSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEI-LNVAKNMKT 1112
Query: 629 PSMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKVKI----KEWLEISPEPHMNYQMK 684
PS+ + P +++A + ++ T+ V +I + PE Q+
Sbjct: 1113 PSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLH 1172
Query: 685 FCFIPAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDV 744
F + + P + +R + + ++ + + I+Q+ +
Sbjct: 1173 FSLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGE------RIKQTFKNDLFVI 1226
Query: 745 EDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREE 804
++ + + R E EED + + E+ E+ ER+ +
Sbjct: 1227 WSEDNDEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENITLRGVENIERVVMMKY 1286
Query: 805 DDNTSNIGERFKIEFRDSTNVFVKDVVNQHNIVHKYSYDKKNHMWCKLLFLPSNLFEEKE 864
D + + KE
Sbjct: 1287 DRKVPSPTGEYV----------------------------------------------KE 1300
Query: 865 SKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYG 924
+ +L+TDG+N++ + + D ++Y N + GIEA + +EV NV A G
Sbjct: 1301 PEWVLETDGVNLSEVMTVPGI-DPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDG 1359
Query: 925 IEVDPRHLSLVADYMTHSGTYVAMNRNGI-RLNPSFIQKMTFEMPLEKIRQASMQGREDS 983
V+ RH++L+ D MT G ++ R+G R N + + +FE +E + +A D
Sbjct: 1360 SYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDD 1419
Query: 984 LRAPSARVMLGQECRQGTGLFQL 1006
R S V+LGQ GTG F +
Sbjct: 1420 CRGVSENVILGQMAPIGTGAFDV 1442
|
| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} Length = 1504 | 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 | 1020 | |||
| 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=1.5e-154 Score=1513.95 Aligned_cols=866 Identities=29% Similarity=0.405 Sum_probs=611.5
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeecccccccChHHHHHHHHHHhcccCccc
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALCILNTEI 76 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d~fl~~~~~~~l~~~~~~~~~~~i 76 (1020)
|||||||+ |++|||||++||++++||++|++|+|++||+||+|+|+|+||.+|+|++++++++++|+ +... ..
T Consensus 481 FDGDeMnvhvPqs~~A~aEa~~Lm~~~~nilsp~~G~pi~~~~QD~~lg~y~LT~~~~f~~~~~~~~~~~~-~~~~--~~ 557 (1449)
T d1twfa_ 481 FDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLYW-VPDW--DG 557 (1449)
T ss_dssp SSSCEEEEECCCSHHHHHHHHHHTBGGGGSEETTTTEESCCCCHHHHHHHHHHHSTTCEEEHHHHHHHHHH-STTC--CS
T ss_pred cccceEEEEccCCHHHHHHHHHHhhhhcccccccCCceeeeeccchhhhhhhhhcccccCCHHHHHHHHHh-cccc--cc
Confidence 99999999 99999999999999999999999999999999999999999999999999999999997 2333 34
Q ss_pred ccCCCccccCCCCCCCcEEEEEEccccCCCCCccccccccccccccccccCccccCccccccCceEEEeccceeeeccCc
Q psy16767 77 RTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSGILDKKQFGSTQYGLVHAVWDTHVTIRHGELLSGILDK 156 (1020)
Q Consensus 77 ~l~~Pailkp~~lwTGKqv~s~~l~~~~P~~~~~in~~~~~~~k~~~~~~~~~~~~~~~~~~d~~v~I~~Gell~G~LdK 156 (1020)
.+|+|+|+||+++||||||||++| |.+..+... .. ...| ....++.|+|+||+++.|++||
T Consensus 558 ~~~~p~~~~~~~~~tgkqi~s~~l----~~~~~~~~~---~~----~~~~--------~~~~~~~~~i~~g~l~~g~l~k 618 (1449)
T d1twfa_ 558 VIPTPAIIKPKPLWSGKQILSVAI----PNGIHLQRF---DE----GTTL--------LSPKDNGMLIIDGQIIFGVVEK 618 (1449)
T ss_dssp CCCCCSBCSSSCEEEHHHHHHHHS----CTTCCEEEC---CT----TCCT--------TCTTCCSEEEETTEEEESCCCH
T ss_pred cccCCeEEeeeeccccceEEEEEc----cCCceeeec---cC----Cccc--------cccCCceEEEECCeeeeccchh
Confidence 689999999999999999999988 776433221 10 0111 2335789999999999999999
Q ss_pred ccccCcchhHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhcceeeeeCccccChHHHHHHHHHHHHHHHHHHHHHHHHcC
Q psy16767 157 KQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALG 236 (1020)
Q Consensus 157 ~~lG~~~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~L~~~GfSvgi~D~~~~~~~~~~r~~~i~~a~~~~~~~~~~~~~ 236 (1020)
+++|++.++|+|.+|+.||+++|+.|||++++++++|++++|||||++|+++++...+++.++++++.+++.++.+++
T Consensus 619 ~~~g~~~~~li~~i~~~~G~~~~~~~l~~~~~l~~~~l~~~Gfs~gi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 696 (1449)
T d1twfa_ 619 KTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEA-- 696 (1449)
T ss_dssp HHHSSCTTSHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHTTCBCCCGGGGCCCHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred hhcccccccccccccccccHHHHHHHHHHHHHHHHHHHHhcchheeeccccccchhhHHHHHHHHHHhhhHHHHHHHH--
Confidence 999999999999999999999999999999999999999999999999999999999999999999988776554432
Q ss_pred CCCCCCHHHHHHHHHHhcc---CchhHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCChhHHHHhhcCCcchhhHH
Q psy16767 237 LPLDTDPEIISSQLQEAYA---SIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVNTM 313 (1020)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~ld~~~~~~l~~~~~~i~~~~~~~~~~~~~~~N~~~~M~~SGAKGS~~N~~ 313 (1020)
+.+.+ ......+.++..+...++++++.+.+.+.. ..+++|++++|+.||||||.+|++
T Consensus 697 --------------~~~~~~~~~~~~~~~~~e~~v~~~~~~~~~~~~~~~~~----~~~~~N~~~~M~~SGakGs~~n~~ 758 (1449)
T d1twfa_ 697 --------------QANLLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEV----NLKDLNNVKQMVMAGSKGSFINIA 758 (1449)
T ss_dssp --------------HHTCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHH----HSCTTCHHHHHHHHTSSCCHHHHH
T ss_pred --------------HHhhhccccCCcHHHHHHHHHHHHHHHHHHHHHHHHhh----hhhcccchHhheeccccCCccchH
Confidence 22222 122344556667777888888888776654 367899999999999999999999
Q ss_pred HHHhhccceeecCCCCCCCCCCCcccCCCCCCCCcccccccccccccCCChhhHHHhhcccccchhhhccccCCcchhHH
Q psy16767 314 QISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQR 393 (1020)
Q Consensus 314 Qi~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~GfI~~sF~~GL~p~EfFfH~m~gReGLiDTAvKTa~sGYLqR 393 (1020)
||+||+|||.++|+|||.+++||+||||.+++.+|+++|||.+||++||+|+|||||||||||||||||||||+||||||
T Consensus 759 Qi~g~~Gqq~~~g~ri~~~~~~r~lp~f~~~~~~~~~~GfI~~sf~~GL~p~Eyf~h~~~gReGLiDTAvkTa~sGYl~R 838 (1449)
T d1twfa_ 759 QMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQR 838 (1449)
T ss_dssp HHHSCCEECCBTTBSCCCCBTTBSSTTSCTTCCSTTTTTEECSCTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhhhhhcccCccccccccccccccCCCCCCCccccCcccchhhhhhcchheeeeeccchhhhhhhcccccccHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhcceEEeeceEEEeCCCcEEEEEecCcccccchhcccccccchhhhhhHHHHhhHHHHHhhhccC------chhH
Q psy16767 394 CLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLLKKH------PLSL 467 (1020)
Q Consensus 394 rLvk~lEdl~V~yd~tvr~~~~~iiqf~yg~dg~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~------~~~~ 467 (1020)
||||+||||+|+||+||||++|+||||.||+||+||++.+. ..++++..|...+.. ...+.... ...+
T Consensus 839 rLvk~ledv~v~yD~tvr~~~g~IiQf~YGeDg~d~~~~e~---~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~ 912 (1449)
T d1twfa_ 839 RLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDAAHIEK---QSLDTIGGSDAAFEK---RYRVDLLNTDHTLDPSLL 912 (1449)
T ss_dssp HHHHHHTTCEECTTSCEECTTCCEEESSGGGTTBCGGGEEE---EECGGGSSCHHHHHH---HHCCCTTCTTTSCCTTTB
T ss_pred HHHHHhcCeEEEecCccCcCCceEEEEEEcCccccceEEEE---eecceeccchHHhhh---hhhhcccccccccChhHh
Confidence 99999999999999999999999999999999999987543 346666555433211 00000000 0000
Q ss_pred --HHHHHHhhhcCCCCCcccCCCcchhHHHHHHHHHhhcHHHHHHHHHhccC-----------------------CCCCC
Q psy16767 468 --ALLLLLTFKSSGKPNFIFSPHRTKFTMDLLEQWYQLDDKARKKYRKKFKA-----------------------CPQPL 522 (1020)
Q Consensus 468 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~ 522 (1020)
..+. .++. ....+.+.......+.+..++..... .....
T Consensus 913 ~~~~ei---------------~~~~-~~~~i~~~~~~~l~~~r~~l~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~ 976 (1449)
T d1twfa_ 913 ESGSEI---------------LGDL-KLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTK 976 (1449)
T ss_dssp TTHHHH---------------TTCH-HHHHHHHHHHHHHHHHHHHHHHHTTTCCCEEEEESCHHHHHHHHHHHTTCCTTS
T ss_pred hhhHHH---------------hhhH-HHHHHHHHHHHHHHHHHHHHHHHhcCccccccCcchHHHHHHhhhhhcccccCc
Confidence 0000 0000 00000000000000000000000000 00000
Q ss_pred cccCCC----------------CcccccchHHHH--------HHHHHHhhc----cCcchhH---HHHHHHHHHhhhccc
Q psy16767 523 ISTFQP----------------DAHFGSISENLA--------DSVVKYTKG----RTDASHV---DKFYDMIFYKNLLSL 571 (1020)
Q Consensus 523 ~~~~~~----------------~~~~~~~~e~~~--------~~l~~~~~~----~~~~~~~---~~~~~~~~~ky~~sl 571 (1020)
.....| ......+.+... ..+..++.. ....+++ +++...|..+|.+++
T Consensus 977 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~ky~~sl 1056 (1449)
T d1twfa_ 977 PSDLTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFLRSV 1056 (1449)
T ss_dssp CBCCCHHHHHHHHHHHHTTCCSCCCCSHHHHHHHHHTTHHHHHHHHHHSCHHHHHHTSCCCHHHHHHHHHHHHHHHHHHB
T ss_pred cccccHHHHHHHHHHHHhhhheecccchhhhhhcccccceeeeeeccccchhhhhhhcccCHHHHHHHHHHHHHHHhhhh
Confidence 000000 000000111110 001111000 0001233 345666788999999
Q ss_pred CCCCCcchhhhhcccCCccccccccccccCCccccccccChhhHHHHHHHhhcCCCCCeEEEEcCCCCchhHHHHHHHHh
Q psy16767 572 ANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAK 651 (1020)
Q Consensus 572 v~pGe~VG~iAAQSIGEP~TQmTLnTFH~AG~~~~nvTlGvPRLkEIi~~ASk~iKTP~mtv~L~~~~~~~~~~a~~i~~ 651 (1020)
|+||||||+|||||||||+|||||||||+||++++|||+|||||+||+ +|++++|||+|+++|.++....++.|+.++.
T Consensus 1057 v~pGEaVGiiAAQSIGEP~TQmTLnTFH~AG~~~~nvT~GiPRl~EIl-~ask~iktp~~~v~l~~~~~~~~~~~k~~~~ 1135 (1449)
T d1twfa_ 1057 VHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEIL-NVAKNMKTPSLTVYLEPGHAADQEQAKLIRS 1135 (1449)
T ss_dssp CCTTCCHHHHHHHHHHHHHTTCCC----------CCSCCHHHHHHHHT-TTCSSCSSCEEEEEBCSSSSSCHHHHHHHHH
T ss_pred hhccCcchhhhhhhhccchhhhhhhhhhhcceeeecccccchhhhhhe-eeecccCCcceeEEeccccchhHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999998 8999999999999999877666688999999
Q ss_pred hccceehhhhcceeEEEEEeecCC-------------------------CCCcceEEEEEEecccccccccCCChhhHHH
Q psy16767 652 SMTRITMADVLEKVKIKEWLEISP-------------------------EPHMNYQMKFCFIPAHMYRDKTSVKPSKIID 706 (1020)
Q Consensus 652 ~l~~v~L~dvi~~i~v~~~~~~~~-------------------------~~~~~y~i~~~l~~~~~~~~~~~i~~~~i~~ 706 (1020)
.+++++|++++...+|.+...... +....|.+++++.. .......++..++..
T Consensus 1136 ~i~~~~l~~vv~~~~v~~~~~~~~~~i~~~~~~i~~~~~~~~~~~~~~~~~~~~~ilrl~l~~--~~~~~k~i~~~~i~~ 1213 (1449)
T d1twfa_ 1136 AIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELDR--AAMNDKDLTMGQVGE 1213 (1449)
T ss_dssp HHSCEEGGGTEEEEEEEECCCSSSCSSGGGHHHHHTSSCC----------CCCSEEEEEEECH--HHHHHTTCCHHHHHH
T ss_pred eeeeeeccceeeeeEEEEcCCCceEEEEEecceeeEEEEeccchheeeecccCCceEEEEEch--hhcccCCCCHHHHHH
Confidence 999999999999888754321100 00112223333211 111112222222211
Q ss_pred HHHHHHHHHHHHHHHHHHHccccccccccccccccCCCCcccCCccccccccCCCcCCCCccccchhhhhhhhhhccccc
Q psy16767 707 HFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEE 786 (1020)
Q Consensus 707 ~~~~~f~~~~~~~i~k~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~ 786 (1020)
.+ .+.... ....+ .++++++ ....+.+.....
T Consensus 1214 ~i------------~~~~~~---~~~~~------------------------------~~~~~~~---~~~i~~~~~~~~ 1245 (1449)
T d1twfa_ 1214 RI------------KQTFKN---DLFVI------------------------------WSEDNDE---KLIIRCRVVRPK 1245 (1449)
T ss_dssp HH------------HHHHGG---GEEEE------------------------------ECCTTSS---SCEEEEEEC---
T ss_pred HH------------HHhcCC---CeEEE------------------------------ecCCCcc---eEEEecccCCcc
Confidence 11 100000 00000 0000000 000000000000
Q ss_pred cCCCCCcchHHhhhhcccccCCCcccccchhhcccchhHHHHH-Hhh-----ccccceeeeccccCCceEEEEecccce-
Q psy16767 787 DNDFEEPEDEERMSEREEDDNTSNIGERFKIEFRDSTNVFVKD-VVN-----QHNIVHKYSYDKKNHMWCKLLFLPSNL- 859 (1020)
Q Consensus 787 ~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~-v~~-----~~~~i~~~~~d~~~~~~~~~~~lp~~~- 859 (1020)
+.+++.. ..... .-..+.. +.. ..+.|.+..-. +.... ++...
T Consensus 1246 -----~~~~~~~----------~~~~~---------~l~~i~~~~l~~~~v~Gi~~I~rv~i~-----~~~~~-~~~~~~ 1295 (1449)
T d1twfa_ 1246 -----SLDAETE----------AEEDH---------MLKKIENTMLENITLRGVENIERVVMM-----KYDRK-VPSPTG 1295 (1449)
T ss_dssp ----------------------CCTTH---------HHHHHHHHHHHHCEEESCTTCCCEEEE-----EEEEE-EECTTS
T ss_pred -----ccccccc----------cchHH---------HHHHHHhhccCCcEEeCCCCeEEEEEe-----cccce-eeCCCC
Confidence 0000000 00000 0001111 110 01111111000 00000 00000
Q ss_pred eccCCceEEEEEeccchhhhhccCCcccccccccccHHHHHHhhhHHHHHHHHHHHHHhhhhccCcccCcchhhhhcccc
Q psy16767 860 FEEKESKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVADYM 939 (1020)
Q Consensus 860 ~~~~~~e~~l~teG~nl~~~~~~~~~iD~~r~~sNdi~~i~~~~GIEAar~~i~~ei~~v~~~~g~~v~~rHl~LlAD~M 939 (1020)
.....++|+|+|||+||.++|.++ .||+++++||||++|+++|||||||++|++||+.||+.||++||+|||.||||+|
T Consensus 1296 ~~~~~~~~vl~teG~nl~~~l~~~-~iD~~~~~sNdI~dil~~lGIEAar~~ii~EI~~V~~~~Gi~Id~rHi~LIad~M 1374 (1449)
T d1twfa_ 1296 EYVKEPEWVLETDGVNLSEVMTVP-GIDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVM 1374 (1449)
T ss_dssp SEEEEEEEEEEEESCCHHHHTTST-TBCTTTCBCSCHHHHHHHHCHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHT
T ss_pred cCccCCcEEEEcCcCCHHHHhccC-CcccccCccCcHHHHHHHHhHHHHHHHHHHHHHHHHHhcCcEECHHHHHHHHHHH
Confidence 001246799999999999999995 5999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeeEEeeecccccc-CcchhhhhcchhHHHHHHHHHhcCCCccCCCcccceecCCccccCccceEEeecccc
Q psy16767 940 THSGTYVAMNRNGIRL-NPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGLFQLRNREKK 1012 (1020)
Q Consensus 940 T~~G~~~~~nR~G~~~-~~spl~kaSFE~t~~~L~~AA~~g~~D~l~svSa~Ii~Gk~~~~GTG~fdll~~~~~ 1012 (1020)
|++|.++||||+||++ +.|||++||||+|+++|.+||++|+.|+|+|||||||+|+++|+|||+|||++|.++
T Consensus 1375 T~~G~~~~i~R~gi~~~~~S~l~~aSFEeT~~vL~~AAi~g~~D~L~G~senIi~G~~ip~GTG~fdll~d~~~ 1448 (1449)
T d1twfa_ 1375 TTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTGAFDVMIDEES 1448 (1449)
T ss_dssp TTBSSCCCSSSCSSSCSSCCTTSSCCSSCSHHHHHHHHHHTCEECCCSHHHHHHTTCCCSSGGGSSEEEECSCC
T ss_pred CcCCeEeeccHHHhccCCcCHHHHhhchhHHHHHHHHHhcCCcccCCCcHHHeecCCCCCCcccccEEEechhh
Confidence 9999999999999986 689999999999999999999999999999999999999999999999999999864
|
| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
|---|