Citrus Sinensis ID: 000525
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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Close Homologs for Annotation Transfer
Close Homologs in SWISS-PROT Database Detected by BLAST 
Original result of BLAST against SWISS-PROT Database
| ID | Alignment graph | Length |
Definition |
RBH(Q2H) |
RBH(H2Q) |
Q cover |
H cover |
Identity |
E-value |
| Query | 1443 | 2.2.26 [Sep-21-2011] | |||||||
| Q9LQ02 | 1453 | DNA-directed RNA polymera | yes | no | 0.977 | 0.970 | 0.524 | 0.0 | |
| Q5D869 | 1976 | DNA-directed RNA polymera | no | no | 0.814 | 0.594 | 0.260 | 1e-93 | |
| P31813 | 905 | DNA-directed RNA polymera | N/A | no | 0.538 | 0.858 | 0.250 | 2e-53 | |
| P04052 | 1887 | DNA-directed RNA polymera | yes | no | 0.545 | 0.417 | 0.248 | 8e-53 | |
| Q980R2 | 880 | DNA-directed RNA polymera | yes | no | 0.534 | 0.877 | 0.257 | 7e-49 | |
| P11512 | 880 | DNA-directed RNA polymera | yes | no | 0.537 | 0.881 | 0.247 | 3e-48 | |
| P35084 | 1727 | DNA-directed RNA polymera | yes | no | 0.352 | 0.294 | 0.260 | 6e-48 | |
| Q86AQ5 | 1450 | DNA-directed RNA polymera | no | no | 0.537 | 0.535 | 0.249 | 2e-47 | |
| P17546 | 1766 | DNA-directed RNA polymera | N/A | no | 0.345 | 0.281 | 0.278 | 4e-47 | |
| P24928 | 1970 | DNA-directed RNA polymera | yes | no | 0.535 | 0.392 | 0.226 | 6e-47 |
| >sp|Q9LQ02|NRPD1_ARATH DNA-directed RNA polymerase D subunit 1 OS=Arabidopsis thaliana GN=NRPD1 PE=1 SV=1 | Back alignment and function desciption |
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Score = 1472 bits (3810), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 769/1466 (52%), Positives = 1018/1466 (69%), Gaps = 56/1466 (3%)
Query: 6 CEEGLEVPSGILTGISLGISTDTEKEKLSVMEIGAVSEVTNPRLGLPNPTNECSSCGAKD 65
CEE L+VP G LT I IS + +++K+SV+E+ A ++VT+ RLGLPNP + C +CG+KD
Sbjct: 5 CEE-LQVPVGTLTSIGFSISNNNDRDKMSVLEVEAPNQVTDSRLGLPNPDSVCRTCGSKD 63
Query: 66 RKACEGHFGFIKFPFTILHPYFLSDIAKLLNSICPKCKTIRKERQKGAGSSRKEQPRVCK 125
RK CEGHFG I F ++I++PYFL ++A LLN ICP CK IRK++ + ++QP C+
Sbjct: 64 RKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYIRKKQFQIT----EDQPERCR 119
Query: 126 YCVRNPAQWYPRMRFKLSSKDLSGKTAIIVEIDEKLSKKNKK-----LPDDYWGFIPFDA 180
YC N YP M+F++++K++ ++ I+VE++E+ K KK LP DYW F+P D+
Sbjct: 120 YCTLNTG--YPLMKFRVTTKEVFRRSGIVVEVNEESLMKLKKRGVLTLPPDYWSFLPQDS 177
Query: 181 QQEENSVKPNRKVLSCKQVSYLLKDVDPSIREEFILSKDAPF-----LKCFPVTPNNHRV 235
+E+ +KP R++++ QV LL +D + ++ KD P L FPVTPN +RV
Sbjct: 178 NIDESCLKPTRRIITHAQVYALLLGID-----QRLIKKDIPMFNSLGLTSFPVTPNGYRV 232
Query: 236 TEVPHAFSHEKKLFFDNWTRHLKKMVDYRGRDIELSHLVQDCLKISKLHLDK-SSRKDSA 294
TE+ H F + +L FD TR KK+V + G +ELS V +C++ S+L + SS KDSA
Sbjct: 233 TEIVHQF-NGARLIFDERTRIYKKLVGFEGNTLELSSRVMECMQYSRLFSETVSSSKDSA 291
Query: 295 EVRQKKNIDISNSSGLRWIKDVVLGKRNDDCFRMVVTGDPNIKLKEIGIPCQVAERLQIS 354
QKK+ D GLR++KDV+LGKR+D FR VV GDP++KL EIGIP +A+RLQ+S
Sbjct: 292 NPYQKKS-DTPKLCGLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVS 350
Query: 355 ERLNSWNWERLSVCISFRLLEKGELYVCRKGGLVRIRRIDALELGDIIYRPLTDGDIVLI 414
E LN N ERL LL+ E++V R LV I+ ++ L+ GD I+R L DGD VL+
Sbjct: 351 EHLNQCNKERLVTSFVPTLLDNKEMHVRRGDRLVAIQ-VNDLQTGDKIFRSLMDGDTVLM 409
Query: 415 NRPPSIHPHSLIALTVKVLPISSVVTINPLCCSPFHGDFDGDCLHGYIPQAIGARVELTE 474
NRPPSIH HSLIA+TV++LP +SVV++NP+CC PF GDFDGDCLHGY+PQ+I A+VEL E
Sbjct: 410 NRPPSIHQHSLIAMTVRILPTTSVVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDE 469
Query: 475 LVALDKQLINQQSGRNLLSLGQDSLTAAHLL-MEDSVLLSHLQMQQLQMFCPHRFLSPDI 533
LVALDKQLIN+Q+GRNLLSLGQDSLTAA+L+ +E + L+ QMQQLQM+CP + P I
Sbjct: 470 LVALDKQLINRQNGRNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAI 529
Query: 534 FKISKDSV---WSGKQLFSMLLPPDFEYTFPSKDVYISGGKLIS-AEGSSWLRDYEGNLF 589
K S S W+G QLF ML PP F+YT+P +V +S G+L+S +EGS+WLRD EGN
Sbjct: 530 IKASPSSTEPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRDGEGNFI 589
Query: 590 QYLIKRYRDKVLDFLYAAQEVLCEWLSVRGMTVSLSDLYLASHSCSRKILMDEIFYGLRE 649
+ L+K + KVLD +Y+AQE+L +WL +RG++VSL+DLYL+S SRK L +EI YGLRE
Sbjct: 590 ERLLKHDKGKVLDIIYSAQEMLSQWLLMRGLSVSLADLYLSSDLQSRKNLTEEISYGLRE 649
Query: 650 AQDTCNFQQLMVDSHMNFL-MSAKDSESTRSLQGEHLSYEKQRSAALSQASVDAFKHVFW 708
A+ CN QQLMV+S +FL ++ +D E YE+Q+SA LS+ +V AFK +
Sbjct: 650 AEQVCNKQQLMVESWRDFLAVNGEDKEEDSVSDLARFCYERQKSATLSELAVSAFKDAYR 709
Query: 709 DIQNLAYKYGSKDNSLLAMFKAGSKGNLLKLVQHSLCLGLQHSLAPLSFRFPHELSCAAW 768
D+Q LAY+YG + NS L M KAGSKGN+ KLVQHS+C+GLQ+S LSF FP EL+CAAW
Sbjct: 710 DVQALAYRYGDQSNSFLIMSKAGSKGNIGKLVQHSMCIGLQNSAVSLSFGFPRELTCAAW 769
Query: 769 N------RLRAGDNTECAKSYIPSAVVENSFLTGLNPLECFIHSVTSRDSSFSDNADLPG 822
N R G ++ +SY+P V+ENSFLTGLNPLE F+HSVTSRDSSFS NADLPG
Sbjct: 770 NDPNSPLRGAKGKDSTTTESYVPYGVIENSFLTGLNPLESFVHSVTSRDSSFSGNADLPG 829
Query: 823 TLTRRLMFFMRDLCTAYDGTVRNAYGNQIVQFSYNIEGTSTPTGEIGDQPVGSLSACAIS 882
TL+RRLMFFMRD+ AYDGTVRN++GNQ+VQF+Y +G P +I + +GSLSACA+S
Sbjct: 830 TLSRRLMFFMRDIYAAYDGTVRNSFGNQLVQFTYETDG---PVEDITGEALGSLSACALS 886
Query: 883 EAAYSALDQPISLLETSPLLNLKNVLECGSKKSNADQTMSLFLSNKLGKRRHGFEYGALE 942
EAAYSALDQPISLLETSPLLNLKNVLECGSKK +QTMSL+LS L K++HGFEYG+LE
Sbjct: 887 EAAYSALDQPISLLETSPLLNLKNVLECGSKKGQREQTMSLYLSEYLSKKKHGFEYGSLE 946
Query: 943 VKNHLECLMLSDIVSTSMIIYSPQTGSMKHFSPWICHFHVRKEIMKRTGLKEHSIIDSLY 1002
+KNHLE L S+IVSTSMII+SP + + SPW+CHFH+ ++++KR L S++ SL
Sbjct: 947 IKNHLEKLSFSEIVSTSMIIFSPSSNTKVPLSPWVCHFHISEKVLKRKQLSAESVVSSLN 1006
Query: 1003 RQCKAARTELKISVPDMLISNKDCSSINMQKECNDAFCVTVMIVENFKRTSIDLETIQMW 1062
Q K+ ELK+ + D+ I N + S + Q +D C+TV +VE K + ++L+ I++
Sbjct: 1007 EQYKSRNRELKLDIVDLDIQNTNHCSSDDQAMKDDNVCITVTVVEASKHSVLELDAIRLV 1066
Query: 1063 VMPFLLKTVVKGFREIKKVDILWKDKQKASKSHDDSF-GELYLRVSMSGQCHITSLWSAL 1121
++PFLL + VKG + IKKV+ILW D+ KA K + + GELYL+V+M G + W+AL
Sbjct: 1067 LIPFLLDSPVKGDQGIKKVNILWTDRPKAPKRNGNHLAGELYLKVTMYGDRGKRNCWTAL 1126
Query: 1122 MNDCHQIMDMIDWTRSHPDNIRSFCLAYGIDAGLQFFLTNLESAISDTGKNILPEHLLIV 1181
+ C IMDMIDW RSHPDNIR C YGIDAG F+ NLESA+SDTGK IL EHLL+V
Sbjct: 1127 LETCLPIMDMIDWGRSHPDNIRQCCSVYGIDAGRSIFVANLESAVSDTGKEILREHLLLV 1186
Query: 1182 ANTLSATGEFVGLNAKGLALQRKHSSVSSPFVQAFFSNPGASFIKAAKAGAVDNLQGSVD 1241
A++LS TGEFV LNAKG + QR+ S +PF QA FS+P F+KAAK G D+LQGS+D
Sbjct: 1187 ADSLSVTGEFVALNAKGWSKQRQVESTPAPFTQACFSSPSQCFLKAAKEGVRDDLQGSID 1246
Query: 1242 ALGWGKVPSVGTGGHFDIIYSGEGRTLSKPVDVYNLL-STPVSSKQNEKLKVCKAQGLIS 1300
AL WGKVP GTG F+II S + + PVDVY+LL ST + N K S
Sbjct: 1247 ALAWGKVPGFGTGDQFEIIISPKVHGFTTPVDVYDLLSSTKTMRRTNSAPK--------S 1298
Query: 1301 DKCGAK-FGDF--AF-KGLGNLDFETISRGVLRKSWTYNDVLRLSNALKKILHKYSIGQR 1356
DK + FG AF K + LD + I +LR +T+ ++ LS +LK+ILH Y I +
Sbjct: 1299 DKATVQPFGLLHSAFLKDIKVLDGKGIPMSLLRTIFTWKNIELLSQSLKRILHSYEINEL 1358
Query: 1357 LSEKDKTTVIRALYFHPRRNEKLGIEPPDIEVTYHPEHQNSRCFSLVREDGSIEDFSYHK 1416
L+E+D+ V L HP EK+G I V +H +S CF +VR DG+ EDFSYHK
Sbjct: 1359 LNERDEGLVKMVLQLHPNSVEKIGPGVKGIRVA-KSKHGDSCCFEVVRIDGTFEDFSYHK 1417
Query: 1417 CVIGALEIIAPEKAEIYRAKWKRLGT 1442
CV+GA +IIAP+K Y++K+ + GT
Sbjct: 1418 CVLGATKIIAPKKMNFYKSKYLKNGT 1443
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DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates (By similarity). Largest and catalytic component of RNA polymerase IVa which mediates 24-nt short-interfering RNAs (siRNA) accumulation. Implicated in siRNA-directed heterochromatin formation through the action of DCL3 and AGO4, and subsequent DNA methylation-dependent silencing of endogenous repeated sequences, including transposable elements. Essential component of a self-reinforcing loop coupling de novo DNA methylation to siRNA production. Required for intercellular but not intracellular RNA interference (RNAi) leading to systemic post-transcriptional gene silencing. Involved in the maintenance of post-transcriptional RNA silencing. Arabidopsis thaliana (taxid: 3702) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6 |
| >sp|Q5D869|NRPE1_ARATH DNA-directed RNA polymerase E subunit 1 OS=Arabidopsis thaliana GN=NRPE1 PE=1 SV=1 | Back alignment and function description |
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| >sp|P31813|RPOA1_THECE DNA-directed RNA polymerase subunit A' OS=Thermococcus celer GN=rpoA1 PE=3 SV=1 | Back alignment and function description |
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| >sp|P04052|RPB1_DROME DNA-directed RNA polymerase II subunit RPB1 OS=Drosophila melanogaster GN=RpII215 PE=3 SV=4 | Back alignment and function description |
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| >sp|Q980R2|RPOA1_SULSO DNA-directed RNA polymerase subunit A' OS=Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) GN=rpoA1 PE=1 SV=1 | Back alignment and function description |
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| >sp|P11512|RPOA1_SULAC DNA-directed RNA polymerase subunit A' OS=Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770) GN=rpoA1 PE=3 SV=2 | Back alignment and function description |
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| >sp|P35084|RPB1_DICDI DNA-directed RNA polymerase II subunit rpb1 OS=Dictyostelium discoideum GN=polr2a PE=2 SV=2 | Back alignment and function description |
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| >sp|Q86AQ5|RPC1_DICDI DNA-directed RNA polymerase III subunit rpc1 OS=Dictyostelium discoideum GN=polr3a PE=3 SV=1 | Back alignment and function description |
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| >sp|P17546|RPB1A_TRYBB DNA-directed RNA polymerase II subunit RPB1-A OS=Trypanosoma brucei brucei GN=TRP4.8 PE=1 SV=1 | Back alignment and function description |
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| >sp|P24928|RPB1_HUMAN DNA-directed RNA polymerase II subunit RPB1 OS=Homo sapiens GN=POLR2A PE=1 SV=2 | Back alignment and function description |
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Close Homologs in the Non-Redundant Database Detected by BLAST
Original result of BLAST against Nonredundant Database
| GI | Alignment Graph | Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 1443 | ||||||
| 359474043 | 1560 | PREDICTED: LOW QUALITY PROTEIN: DNA-dire | 0.984 | 0.910 | 0.609 | 0.0 | |
| 224053985 | 1517 | RNA polymerase IV subunit [Populus trich | 0.989 | 0.941 | 0.602 | 0.0 | |
| 449460519 | 1469 | PREDICTED: DNA-directed RNA polymerase D | 0.984 | 0.966 | 0.585 | 0.0 | |
| 356540468 | 1461 | PREDICTED: DNA-directed RNA polymerase D | 0.985 | 0.973 | 0.566 | 0.0 | |
| 357481757 | 1687 | DNA-directed RNA polymerase subunit beta | 0.979 | 0.837 | 0.572 | 0.0 | |
| 356495649 | 1622 | PREDICTED: DNA-directed RNA polymerase D | 0.966 | 0.859 | 0.573 | 0.0 | |
| 255537259 | 1475 | DNA-directed RNA polymerase, putative [R | 0.882 | 0.863 | 0.627 | 0.0 | |
| 297742608 | 1359 | unnamed protein product [Vitis vinifera] | 0.911 | 0.968 | 0.570 | 0.0 | |
| 297837119 | 1456 | NRPD1a [Arabidopsis lyrata subsp. lyrata | 0.982 | 0.973 | 0.528 | 0.0 | |
| 30696792 | 1453 | nuclear RNA polymerase D1A [Arabidopsis | 0.977 | 0.970 | 0.524 | 0.0 |
| >gi|359474043|ref|XP_002275898.2| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase D subunit 1-like [Vitis vinifera] | Back alignment and taxonomy information |
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Score = 1780 bits (4610), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 915/1501 (60%), Positives = 1122/1501 (74%), Gaps = 80/1501 (5%)
Query: 1 MDNEFCEEGLEVPSGILTGISLGISTDTEKEKLSVMEIGAVSEVTNPRLGLPNPTNECSS 60
MDN+F EE +VPSG+L GI +ST+ + EK+SVM+I AV+E+T+P+LG+PNP+ +CS+
Sbjct: 1 MDNDFLEEQ-QVPSGLLIGIKFDVSTEEDMEKISVMKIDAVNEITDPKLGVPNPSCQCST 59
Query: 61 CGAKDRKACEG---------------------------------HFGFIKFPFTILHPYF 87
CGAKD K CEG HFG IKFPFTILHPYF
Sbjct: 60 CGAKDTKKCEGAVRQVIQKLYLLMISCYLYFLEYAKLXLFIFLGHFGVIKFPFTILHPYF 119
Query: 88 LSDIAKLLNSICPKCKTIRK-ERQKGAGS-SRKEQPRVCKYCVRNPAQWYPRMRFKLSSK 145
L+++ ++LN ICP CK+ R+ + KGA S SR+ + + CKYC N WYP M+FK+SSK
Sbjct: 120 LTEVVQILNKICPGCKSTRQGQWVKGADSGSRRLRSKGCKYCAANSNDWYPTMKFKVSSK 179
Query: 146 DLSGKTAIIVEIDEKLSKKNKK------LPDDYWGFIPFDAQQEENSVKPNRKVLSCKQV 199
DL KTAIIVE++EKL KK +K LP DYW FIP D QQEEN + PNR+VLS QV
Sbjct: 180 DLFRKTAIIVEMNEKLPKKLQKKSFRPVLPLDYWDFIPKDPQQEENCLNPNRRVLSHAQV 239
Query: 200 SYLLKDVDPSIREEFILSKDAPFLKCFPVTPNNHRVTEVPHAFSHEKKLFFDNWTRHLKK 259
YLLKD+DP +EF+ D+ FL C PVTPNNHRVTE+ HA S+ + L FD +R KK
Sbjct: 240 HYLLKDIDPGFIKEFVSRMDSFFLNCLPVTPNNHRVTEITHALSNGQTLIFDQHSRAYKK 299
Query: 260 MVDYRGRDIELSHLVQDCLKISKLHLDKSSRKDSAEVRQKKNIDISNSSGLRWIKDVVLG 319
+VD+RG ELS V DCLK SKL +KS+ KDSA S SGL+WIK+V+LG
Sbjct: 300 LVDFRGTANELSCRVLDCLKTSKLRSEKSTSKDSA----------SKMSGLKWIKEVLLG 349
Query: 320 KRNDDCFRMVVTGDPNIKLKEIGIPCQVAERLQISERLNSWNWERLSVCISFRLLEKGEL 379
KR + FRM+V GDP ++L EIGIPC +AE L ISE LNSWNWE+++ + RLLEKG+
Sbjct: 350 KRTNHSFRMIVVGDPKLRLSEIGIPCHIAEELLISEHLNSWNWEKVTNGCNLRLLEKGQT 409
Query: 380 YVCRKGGLVRIRRIDALELGDIIYRPLTDGDIVLINRPPSIHPHSLIALTVKVLPISSVV 439
YV RKG L +RR++ + GDIIYRPLTDGDIVLINRPPSIH HS+IAL+VKVLP++SVV
Sbjct: 410 YVRRKGTLAPVRRMNDFQAGDIIYRPLTDGDIVLINRPPSIHQHSVIALSVKVLPLNSVV 469
Query: 440 TINPLCCSPFHGDFDGDCLHGYIPQAIGARVELTELVALDKQLINQQSGRNLLSLGQDSL 499
+INPLCCSPF GDFDGDCLHGYIPQ++ +RVEL+ELVAL++QLIN+QSGRNLLSL QDSL
Sbjct: 470 SINPLCCSPFRGDFDGDCLHGYIPQSVDSRVELSELVALNRQLINRQSGRNLLSLSQDSL 529
Query: 500 TAAHLLMEDSVLLSHLQMQQLQMFCPHRFLSPDIFK--ISKDSVWSGKQLFSMLLPPDFE 557
+AAHL+MED VLL+ QMQQL+MFCP++ SP I K + VW+GKQLFSMLLPP F
Sbjct: 530 SAAHLVMEDGVLLNLFQMQQLEMFCPYQLQSPAIIKAPLLDTQVWTGKQLFSMLLPPGFN 589
Query: 558 YTFPSKDVYISGGKLI-SAEGSSWLRDYEGNLFQYLIKRYRDKVLDFLYAAQEVLCEWLS 616
Y FP V IS G+LI S++GS+WLRD +GNLF L+K + K LDFLYAAQEVLCEWLS
Sbjct: 590 YVFPLNGVRISDGELISSSDGSAWLRDIDGNLFSSLVKDCQGKALDFLYAAQEVLCEWLS 649
Query: 617 VRGMTVSLSDLYLASHSCSRKILMDEIFYGLREAQDTCNFQQLMVDSHMNFLM-SAKDSE 675
+RG++VSLSD+YL+S S SRK ++DE+F GL A+ TC+F+QL+VDS NFL+ S ++++
Sbjct: 650 MRGLSVSLSDIYLSSDSISRKNMIDEVFCGLLVAEQTCHFKQLLVDSSQNFLIGSGENNQ 709
Query: 676 STRSLQGEHLSYEKQRSAALSQASVDAFKHVFWDIQNLAYKYGSKDNSLLAMFKAGSKGN 735
+ + L YE+Q SAAL Q+SV AFK F DIQNL Y+Y +KDNSLLAM KAGSKGN
Sbjct: 710 NGVVPDVQSLWYERQGSAALCQSSVCAFKQKFRDIQNLVYQYANKDNSLLAMLKAGSKGN 769
Query: 736 LLKLVQHSLCLGLQHSLAPLSFRFPHELSCAAWNR-----LRAGDNTECAKSYIPSAVVE 790
LLKLVQ LCLGLQHSL PLSF+ PH+LSCAAWN+ L D +E A+SYIP AVVE
Sbjct: 770 LLKLVQQGLCLGLQHSLVPLSFKIPHQLSCAAWNKQKVPGLIQNDTSEYAESYIPYAVVE 829
Query: 791 NSFLTGLNPLECFIHSVTSRDSSFSDNADLPGTLTRRLMFFMRDLCTAYDGTVRNAYGNQ 850
NSFL GLNPLECF+HSVTSRDSSFSDNADLPGTLTRRLMFFMRDL AYDGTVRNAYGNQ
Sbjct: 830 NSFLMGLNPLECFVHSVTSRDSSFSDNADLPGTLTRRLMFFMRDLYIAYDGTVRNAYGNQ 889
Query: 851 IVQFSYNIEGTSTPTG---------EIGDQPVGSLSACAISEAAYSALDQPISLLETSPL 901
+VQFSYNIE TSTP+ ++G QPVGS+SACAISEAAYSALDQPISLLE SPL
Sbjct: 890 LVQFSYNIEHTSTPSDGINEDTCAYDMGGQPVGSISACAISEAAYSALDQPISLLEPSPL 949
Query: 902 LNLKNVLECGSKKSNADQTMSLFLSNKLGKRRHGFEYGALEVKNHLECLMLSDIVSTSMI 961
LNLK VLECG +KS AD+T+SLFLS KL KR+HGFEYGALEVKNHLE L+ SDIVST MI
Sbjct: 950 LNLKRVLECGLRKSTADRTVSLFLSKKLEKRKHGFEYGALEVKNHLEKLLFSDIVSTVMI 1009
Query: 962 IYSPQTGSMKHFSPWICHFHVRKEIMKRTGLKEHSIIDSLYRQCKAARTELKISVPDMLI 1021
++SPQ GS HFSPW+CHFHV +EI K+ LK HSIID+LY +C +AR E KI++PD+ I
Sbjct: 1010 VFSPQNGSKTHFSPWVCHFHVCEEIAKKRSLKPHSIIDALYMKCNSARAESKINLPDLQI 1069
Query: 1022 SNKDCSSINMQKECNDAFCVTVMIVENFKRTSIDLETIQMWVMPFLLKTVVKGFREIKKV 1081
++KDC ++M+KE +D FC+TV IV N K++ I L+T++ V+PFLL VVKG ++KKV
Sbjct: 1070 TSKDC-FVDMEKEDSDCFCITVSIV-NSKKSCIQLDTVRDLVIPFLLGAVVKGLLDVKKV 1127
Query: 1082 DILWKDKQKASKSHDDSFGELYLRVSMSGQCHITSLWSALMNDCHQIMDMIDWTRSHPDN 1141
DILW D S S G LYLRV +SG C + W LM+ C QIMDMIDW RSHPDN
Sbjct: 1128 DILWNDNPD-SDVLKSSSGRLYLRVYVSGDCGKKNFWGVLMDACLQIMDMIDWERSHPDN 1186
Query: 1142 IRSFCLAYGIDAGLQFFLTNLESAISDTGKNILPEHLLIVANTLSATGEFVGLNAKGLAL 1201
I + YGIDAG ++FL +L+SAISD GK +LPEHLL+VA+ LSATGEFVGLNAKG+A
Sbjct: 1187 IHDIFVVYGIDAGWKYFLNSLKSAISDIGKTVLPEHLLLVASCLSATGEFVGLNAKGMAR 1246
Query: 1202 QRKHSSVSSPFVQAFFSNPGASFIKAAKAGAVDNLQGSVDALGWGKVPSVGTGGHFDIIY 1261
Q++ +S+SSPF+Q FS+PG+ FIKA K DNL GS+DAL WGK+PSVG+GGHFDI+Y
Sbjct: 1247 QKELTSISSPFMQGCFSSPGSCFIKAGKRAVADNLHGSLDALAWGKIPSVGSGGHFDILY 1306
Query: 1262 SGEGRTLSKPVDVYNLLSTPVSS-KQNEKLKVCKAQGLISDKCGAKF----GDFAFKGLG 1316
S +G L++P D+Y LL + S +QN K+KV + KCGA+ GD A KG
Sbjct: 1307 SAKGHELARPEDIYKLLGSQTSCHEQNLKVKVPITCYQTTTKCGAQLVYANGDSASKGCK 1366
Query: 1317 NLDFETISRGVLRKSWTYNDVLRLSNALKKILHKYSIGQRLSEKDKTTVIRALYFHPRRN 1376
+L E IS+ VLR + ND+ +LS LK IL KY I +LSE DKTT++ ALYFHPRR+
Sbjct: 1367 SL--EKISKSVLRSFLSLNDIQKLSRRLKFILQKYPINHQLSEIDKTTLMMALYFHPRRD 1424
Query: 1377 EKLGIEPPDIEVTYHPEHQNSRCFSLVREDGSIEDFSYHKCVIGALEIIAPEKAEIYRAK 1436
EK+G +I+V YH ++ N+RCFSLVR DG+ EDFSYHKCV GALEII P +A Y+++
Sbjct: 1425 EKIGPGAQNIKVRYHSKYHNTRCFSLVRTDGTEEDFSYHKCVHGALEIIDPRRARSYQSR 1484
Query: 1437 W 1437
W
Sbjct: 1485 W 1485
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Source: Vitis vinifera Species: Vitis vinifera Genus: Vitis Family: Vitaceae Order: Vitales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|224053985|ref|XP_002298071.1| RNA polymerase IV subunit [Populus trichocarpa] gi|222845329|gb|EEE82876.1| RNA polymerase IV subunit [Populus trichocarpa] | Back alignment and taxonomy information |
|---|
| >gi|449460519|ref|XP_004147993.1| PREDICTED: DNA-directed RNA polymerase D subunit 1-like [Cucumis sativus] gi|449494342|ref|XP_004159519.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase D subunit 1-like [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|356540468|ref|XP_003538711.1| PREDICTED: DNA-directed RNA polymerase D subunit 1-like [Glycine max] | Back alignment and taxonomy information |
|---|
| >gi|357481757|ref|XP_003611164.1| DNA-directed RNA polymerase subunit beta [Medicago truncatula] gi|355512499|gb|AES94122.1| DNA-directed RNA polymerase subunit beta [Medicago truncatula] | Back alignment and taxonomy information |
|---|
| >gi|356495649|ref|XP_003516687.1| PREDICTED: DNA-directed RNA polymerase D subunit 1-like [Glycine max] | Back alignment and taxonomy information |
|---|
| >gi|255537259|ref|XP_002509696.1| DNA-directed RNA polymerase, putative [Ricinus communis] gi|223549595|gb|EEF51083.1| DNA-directed RNA polymerase, putative [Ricinus communis] | Back alignment and taxonomy information |
|---|
| >gi|297742608|emb|CBI34757.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
|---|
| >gi|297837119|ref|XP_002886441.1| NRPD1a [Arabidopsis lyrata subsp. lyrata] gi|297332282|gb|EFH62700.1| NRPD1a [Arabidopsis lyrata subsp. lyrata] | Back alignment and taxonomy information |
|---|
| >gi|30696792|ref|NP_176490.2| nuclear RNA polymerase D1A [Arabidopsis thaliana] gi|334183598|ref|NP_001185298.1| nuclear RNA polymerase D1A [Arabidopsis thaliana] gi|75335311|sp|Q9LQ02.1|NRPD1_ARATH RecName: Full=DNA-directed RNA polymerase D subunit 1; Short=AtNRPD1a; Short=Nuclear RNA polymerase D 1a; AltName: Full=Protein RNA-DIRECTED DNA METHYLATION DEFECTIVE 3; AltName: Full=Protein SILENCING DEFECTIVE 4; AltName: Full=Protein SILENCING MOVEMENT DEFICIENT 2; AltName: Full=RNA polymerase IV subunit 1a; Short=POL IV 1a gi|8493592|gb|AAF75815.1|AC011000_18 Contains similarity to DNA-directed RNA Polymerase alpha-subunit from Methanococcus jannaschii gi|3915860 and contains Ribosomal protein L36 PF|00444 and RNA-Polymerase alpha-subunit PF|00623 domains. EST gb|AA597311 comes from this gene [Arabidopsis thaliana] gi|12323252|gb|AAG51604.1|AC010795_8 RNA polymerase IIA largest subunit, putative; 12353-6556 [Arabidopsis thaliana] gi|59939208|gb|AAX12372.1| DNA-directed RNA polymerase beta subunit [Arabidopsis thaliana] gi|68300852|gb|AAY89363.1| RNA polymerase IV largest subunit [Arabidopsis thaliana] gi|332195920|gb|AEE34041.1| nuclear RNA polymerase D1A [Arabidopsis thaliana] gi|332195921|gb|AEE34042.1| nuclear RNA polymerase D1A [Arabidopsis thaliana] | 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 | 1443 | ||||||
| TAIR|locus:2015163 | 1453 | NRPD1A "nuclear RNA polymerase | 0.985 | 0.978 | 0.518 | 0.0 | |
| TAIR|locus:2061151 | 1976 | NRPD1B "nuclear RNA polymerase | 0.412 | 0.301 | 0.261 | 1.3e-98 | |
| DICTYBASE|DDB_G0279193 | 1727 | rpb1 "RNA polymerase II core s | 0.164 | 0.137 | 0.302 | 1.5e-49 | |
| POMBASE|SPBC651.08c | 1405 | rpc1 "DNA-directed RNA polymer | 0.162 | 0.167 | 0.328 | 1.7e-46 | |
| DICTYBASE|DDB_G0277199 | 1450 | rpc1 "RNA polymerase III, larg | 0.395 | 0.393 | 0.278 | 1.6e-44 | |
| FB|FBgn0030687 | 1383 | CG17209 [Drosophila melanogast | 0.162 | 0.169 | 0.308 | 1.5e-43 | |
| CGD|CAL0002215 | 1448 | orf19.3103 [Candida albicans ( | 0.162 | 0.161 | 0.306 | 1.9e-43 | |
| ASPGD|ASPL0000047704 | 1445 | AN10316 [Emericella nidulans ( | 0.162 | 0.161 | 0.330 | 2.7e-43 | |
| CGD|CAL0000919 | 1728 | RPO21 [Candida albicans (taxid | 0.362 | 0.302 | 0.250 | 5e-43 | |
| UNIPROTKB|Q5ACI7 | 1728 | RPO21 "DNA-directed RNA polyme | 0.362 | 0.302 | 0.250 | 5e-43 |
| TAIR|locus:2015163 NRPD1A "nuclear RNA polymerase D1A" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
|---|
Score = 3703 (1308.6 bits), Expect = 0., P = 0.
Identities = 759/1463 (51%), Positives = 1012/1463 (69%)
Query: 1 MDNEFCEEGLEVPSGILTGISLGISTDTEKEKLSVMEIGAVSEVTNPRLGLPNPTNECSS 60
M+++ CEE L+VP G LT I IS + +++K+SV+E+ A ++VT+ RLGLPNP + C +
Sbjct: 1 MEDD-CEE-LQVPVGTLTSIGFSISNNNDRDKMSVLEVEAPNQVTDSRLGLPNPDSVCRT 58
Query: 61 CGAKDRKACEGHFGFIKFPFTILHPYFLSDIAKLLNSICPKCKTIRKERQKGAGSSRKEQ 120
CG+KDRK CEGHFG I F ++I++PYFL ++A LLN ICP CK IRK++ + ++Q
Sbjct: 59 CGSKDRKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYIRKKQFQ----ITEDQ 114
Query: 121 PRVCKYCVRNPAQWYPRMRFKLSSKDLSGKTAIIVEIDEKLSKKNKK-----LPDDYWGF 175
P C+YC N YP M+F++++K++ ++ I+VE++E+ K KK LP DYW F
Sbjct: 115 PERCRYCTLNTG--YPLMKFRVTTKEVFRRSGIVVEVNEESLMKLKKRGVLTLPPDYWSF 172
Query: 176 IPFDAQQEENSVKPNRKVLSCKQVSYLLKDVDPSIREEFILSKDAPFLKCFPVTPNNHRV 235
+P D+ +E+ +KP R++++ QV LL +D + ++ I ++ L FPVTPN +RV
Sbjct: 173 LPQDSNIDESCLKPTRRIITHAQVYALLLGIDQRLIKKDIPMFNSLGLTSFPVTPNGYRV 232
Query: 236 TEVPHAFSHEKKLFFDNWTRHLKKMVDYRGRDIELSHLVQDCLKISKLHLDK-SSRKDSA 294
TE+ H F+ + L FD TR KK+V + G +ELS V +C++ S+L + SS KDSA
Sbjct: 233 TEIVHQFNGAR-LIFDERTRIYKKLVGFEGNTLELSSRVMECMQYSRLFSETVSSSKDSA 291
Query: 295 EVRQKKNIDISNSSGLRWIKDVVLGKRNDDCFRMVVTGDPNIKLKEIGIPCQVAERLQIS 354
QKK+ D GLR++KDV+LGKR+D FR VV GDP++KL EIGIP +A+RLQ+S
Sbjct: 292 NPYQKKS-DTPKLCGLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVS 350
Query: 355 ERLNSWNWERLSVCISFRLLEKGELYVCRKGGLVRIRRIDALELGDIIYRPLTDGDIVLI 414
E LN N ERL LL+ E++V R LV I+ ++ L+ GD I+R L DGD VL+
Sbjct: 351 EHLNQCNKERLVTSFVPTLLDNKEMHVRRGDRLVAIQ-VNDLQTGDKIFRSLMDGDTVLM 409
Query: 415 NRPPSIHPHSLIALTVKVLPISSVVTINPLCCSPFHGDFDGDCLHGYIPQAIGARVELTE 474
NRPPSIH HSLIA+TV++LP +SVV++NP+CC PF GDFDGDCLHGY+PQ+I A+VEL E
Sbjct: 410 NRPPSIHQHSLIAMTVRILPTTSVVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDE 469
Query: 475 LVALDKQLINQQSGRNLLSLGQDSLTAAHLL-MEDSVXXXXXXXXXXXXFCPHRFLSPDI 533
LVALDKQLIN+Q+GRNLLSLGQDSLTAA+L+ +E + +CP + P I
Sbjct: 470 LVALDKQLINRQNGRNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAI 529
Query: 534 FKISKDSV---WSGKQLFSMLLPPDFEYTFPSKDVYISGGKLIS-AEGSSWLRDYEGNLF 589
K S S W+G QLF ML PP F+YT+P +V +S G+L+S +EGS+WLRD EGN
Sbjct: 530 IKASPSSTEPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRDGEGNFI 589
Query: 590 QYLIKRYRDKVLDFLYAAQEVLCEWLSVRGMTVSLSDLYLASHSCSRKILMDEIFYGLRE 649
+ L+K + KVLD +Y+AQE+L +WL +RG++VSL+DLYL+S SRK L +EI YGLRE
Sbjct: 590 ERLLKHDKGKVLDIIYSAQEMLSQWLLMRGLSVSLADLYLSSDLQSRKNLTEEISYGLRE 649
Query: 650 AQDTCNFQQLMVDSHMNFL-MSAKDSESTRSLQGEHLSYEKQRSAALSQASVDAFKHVFW 708
A+ CN QQLMV+S +FL ++ +D E YE+Q+SA LS+ +V AFK +
Sbjct: 650 AEQVCNKQQLMVESWRDFLAVNGEDKEEDSVSDLARFCYERQKSATLSELAVSAFKDAYR 709
Query: 709 DIQNLAYKYGSKDNSLLAMFKAGSKGNLLKLVQHSLCLGLQHSLAPLSFRFPHELSCAAW 768
D+Q LAY+YG + NS L M KAGSKGN+ KLVQHS+C+GLQ+S LSF FP EL+CAAW
Sbjct: 710 DVQALAYRYGDQSNSFLIMSKAGSKGNIGKLVQHSMCIGLQNSAVSLSFGFPRELTCAAW 769
Query: 769 NR----LRA--GDNTECAKSYIPSAVVENSFLTGLNPLECFIHSVTSRDSSFSDNADLPG 822
N LR G ++ +SY+P V+ENSFLTGLNPLE F+HSVTSRDSSFS NADLPG
Sbjct: 770 NDPNSPLRGAKGKDSTTTESYVPYGVIENSFLTGLNPLESFVHSVTSRDSSFSGNADLPG 829
Query: 823 TLTRRLMFFMRDLCTAYDGTVRNAYGNQIVQFSYNIEGTSTPTGEIGDQPVGSLSACAIS 882
TL+RRLMFFMRD+ AYDGTVRN++GNQ+VQF+Y +G P +I + +GSLSACA+S
Sbjct: 830 TLSRRLMFFMRDIYAAYDGTVRNSFGNQLVQFTYETDG---PVEDITGEALGSLSACALS 886
Query: 883 EAAYSALDQPISLLETSPLLNLKNVLECGSKKSNADQTMSLFLSNKLGKRRHGFEYGALE 942
EAAYSALDQPISLLETSPLLNLKNVLECGSKK +QTMSL+LS L K++HGFEYG+LE
Sbjct: 887 EAAYSALDQPISLLETSPLLNLKNVLECGSKKGQREQTMSLYLSEYLSKKKHGFEYGSLE 946
Query: 943 VKNHLECLMLSDIVSTSMIIYSPQTGSMKHFSPWICHFHVRKEIMKRTGLKEHSIIDSLY 1002
+KNHLE L S+IVSTSMII+SP + + SPW+CHFH+ ++++KR L S++ SL
Sbjct: 947 IKNHLEKLSFSEIVSTSMIIFSPSSNTKVPLSPWVCHFHISEKVLKRKQLSAESVVSSLN 1006
Query: 1003 RQCKAARTELKISVPDMLISNKD-CSSINMQKECNDAFCVTVMIVENFKRTSIDLETIQM 1061
Q K+ ELK+ + D+ I N + CSS + + +D C+TV +VE K + ++L+ I++
Sbjct: 1007 EQYKSRNRELKLDIVDLDIQNTNHCSSDDQAMK-DDNVCITVTVVEASKHSVLELDAIRL 1065
Query: 1062 WVMPFLLKTVVKGFREIKKVDILWKDKQKASKSHDDSF-GELYLRVSMSGQCHITSLWSA 1120
++PFLL + VKG + IKKV+ILW D+ KA K + + GELYL+V+M G + W+A
Sbjct: 1066 VLIPFLLDSPVKGDQGIKKVNILWTDRPKAPKRNGNHLAGELYLKVTMYGDRGKRNCWTA 1125
Query: 1121 LMNDCHQIMDMIDWTRSHPDNIRSFCLAYGIDAGLQFFLTNLESAISDTGKNILPEHLLI 1180
L+ C IMDMIDW RSHPDNIR C YGIDAG F+ NLESA+SDTGK IL EHLL+
Sbjct: 1126 LLETCLPIMDMIDWGRSHPDNIRQCCSVYGIDAGRSIFVANLESAVSDTGKEILREHLLL 1185
Query: 1181 VANTLSATGEFVGLNAKGLALQRKHSSVSSPFVQAFFSNPGASFIKAAKAGAVDNLQGSV 1240
VA++LS TGEFV LNAKG + QR+ S +PF QA FS+P F+KAAK G D+LQGS+
Sbjct: 1186 VADSLSVTGEFVALNAKGWSKQRQVESTPAPFTQACFSSPSQCFLKAAKEGVRDDLQGSI 1245
Query: 1241 DALGWGKVPSVGTGGHFDIIYSGEGRTLSKPVDVYNLLS-TPVSSKQNEKLKVCKAQGLI 1299
DAL WGKVP GTG F+II S + + PVDVY+LLS T + N K KA
Sbjct: 1246 DALAWGKVPGFGTGDQFEIIISPKVHGFTTPVDVYDLLSSTKTMRRTNSAPKSDKAT--- 1302
Query: 1300 SDKCGAKFGDFAFKGLGNLDFETISRGVLRKSWTYNDVLRLSNALKKILHKYSIGQRLSE 1359
G F K + LD + I +LR +T+ ++ LS +LK+ILH Y I + L+E
Sbjct: 1303 VQPFGLLHSAF-LKDIKVLDGKGIPMSLLRTIFTWKNIELLSQSLKRILHSYEINELLNE 1361
Query: 1360 KDKTTVIRALYFHPRRNEKLGIEPPDIEVTYHPEHQNSRCFSLVREDGSIEDFSYHKCVI 1419
+D+ V L HP EK+G I V +H +S CF +VR DG+ EDFSYHKCV+
Sbjct: 1362 RDEGLVKMVLQLHPNSVEKIGPGVKGIRVA-KSKHGDSCCFEVVRIDGTFEDFSYHKCVL 1420
Query: 1420 GALEIIAPEKAEIYRAKWKRLGT 1442
GA +IIAP+K Y++K+ + GT
Sbjct: 1421 GATKIIAPKKMNFYKSKYLKNGT 1443
|
|
| TAIR|locus:2061151 NRPD1B "nuclear RNA polymerase D1B" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
|---|
| DICTYBASE|DDB_G0279193 rpb1 "RNA polymerase II core subunit" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
|---|
| POMBASE|SPBC651.08c rpc1 "DNA-directed RNA polymerase III complex large subunit Rpc1 (predicted)" [Schizosaccharomyces pombe (taxid:4896)] | Back alignment and assigned GO terms |
|---|
| DICTYBASE|DDB_G0277199 rpc1 "RNA polymerase III, largest subunit" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
|---|
| FB|FBgn0030687 CG17209 [Drosophila melanogaster (taxid:7227)] | Back alignment and assigned GO terms |
|---|
| CGD|CAL0002215 orf19.3103 [Candida albicans (taxid:5476)] | Back alignment and assigned GO terms |
|---|
| ASPGD|ASPL0000047704 AN10316 [Emericella nidulans (taxid:162425)] | Back alignment and assigned GO terms |
|---|
| CGD|CAL0000919 RPO21 [Candida albicans (taxid:5476)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|Q5ACI7 RPO21 "DNA-directed RNA polymerase" [Candida albicans SC5314 (taxid:237561)] | Back alignment and assigned GO terms |
|---|
Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
| ID | Name | Annotated EC number | Identity | Query coverage | Hit coverage | RBH(Q2H) | RBH(H2Q) |
| Q9LQ02 | NRPD1_ARATH | 2, ., 7, ., 7, ., 6 | 0.5245 | 0.9771 | 0.9704 | yes | no |
EC Number Prediction by Ezypred Server
Original result from Ezypred Server
Fail to connect to Ezypred Server
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | LOW CONFIDENCE prediction! |
| 4th Layer | 2.7.7.6 | 0.737 |
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
 |
 |
 |
 |
 |
 |
 |
 |
 |
|||
 | NRPD901 | RNA polymerase IV subunit (1517 aa) | |||||||||
(Populus trichocarpa) | |||||||||||
 | estExt_Genewise1_v1.C_LG_IX3069 | • | • | 0.419 |
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 1443 | |||
| cd02737 | 381 | cd02737, RNAP_IV_NRPD1_C, Largest subunit (NRPD1) | 1e-131 | |
| PRK14977 | 1321 | PRK14977, PRK14977, bifunctional DNA-directed RNA | 5e-66 | |
| TIGR02390 | 867 | TIGR02390, RNA_pol_rpoA1, DNA-directed RNA polymer | 8e-61 | |
| PRK08566 | 882 | PRK08566, PRK08566, DNA-directed RNA polymerase su | 2e-58 | |
| smart00663 | 295 | smart00663, RPOLA_N, RNA polymerase I subunit A N- | 7e-42 | |
| pfam00623 | 165 | pfam00623, RNA_pol_Rpb1_2, RNA polymerase Rpb1, do | 1e-33 | |
| pfam11523 | 76 | pfam11523, DUF3223, Protein of unknown function (D | 2e-24 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 1e-20 | |
| pfam04983 | 158 | pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, do | 2e-18 | |
| PRK14906 | 1460 | PRK14906, PRK14906, DNA-directed RNA polymerase su | 4e-10 | |
| TIGR02387 | 619 | TIGR02387, rpoC1_cyan, DNA-directed RNA polymerase | 3e-09 | |
| PRK08566 | 882 | PRK08566, PRK08566, DNA-directed RNA polymerase su | 5e-09 | |
| cd00630 | 158 | cd00630, RNAP_largest_subunit_C, Largest subunit o | 6e-09 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 1e-07 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 2e-07 | |
| pfam04998 | 447 | pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, do | 3e-07 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 6e-07 | |
| pfam05000 | 108 | pfam05000, RNA_pol_Rpb1_4, RNA polymerase Rpb1, do | 7e-07 | |
| PRK14977 | 1321 | PRK14977, PRK14977, bifunctional DNA-directed RNA | 2e-06 | |
| cd06528 | 363 | cd06528, RNAP_A'', A'' subunit of Archaeal RNA Pol | 3e-06 | |
| TIGR02386 | 1140 | TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, | 4e-06 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 6e-06 | |
| TIGR02389 | 367 | TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymer | 9e-06 | |
| PRK02625 | 627 | PRK02625, rpoC1, DNA-directed RNA polymerase subun | 9e-06 | |
| cd02735 | 309 | cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of | 4e-05 | |
| PRK14897 | 509 | PRK14897, PRK14897, unknown domain/DNA-directed RN | 3e-04 | |
| PRK04309 | 383 | PRK04309, PRK04309, DNA-directed RNA polymerase su | 7e-04 |
| >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 |
|---|
Score = 409 bits (1053), Expect = e-131
Identities = 163/399 (40%), Positives = 221/399 (55%), Gaps = 27/399 (6%)
Query: 871 QPVGSLSACAISEAAYSALDQPISLLETSPLLNLKNVLECGSKKSNADQTMSLFLSNKLG 930
+PVGSL+A AISE AY AL P LE+SPL LK VLEC SK + + + LS L
Sbjct: 2 EPVGSLAATAISEPAYKALLDPPQSLESSPLELLKEVLECRSKSKSKENDRRVILSLHLC 61
Query: 931 KRRHGFEY--GALEVKNHLECLMLSDIVSTSMIIYSPQTGSMKHFSPWICHFHVRKEIMK 988
K HGFEY ALEVKNHLE + L D+ +TSMI YSPQ +K K
Sbjct: 62 KCDHGFEYERAALEVKNHLERVTLEDLATTSMIKYSPQATEAIVGEIGDQLNTKKKGKKK 121
Query: 989 RTGLKEHSIIDSLYRQCKAARTELKISVPDMLISNKDCSSINMQKECNDAFCVTVMIV-E 1047
I T+ V + + + +D C+T + E
Sbjct: 122 AIFSTSLKI------------TKFSPWVCHFHLDKECQ-------KLSDGPCLTFSVSKE 162
Query: 1048 NFKRTSIDLETIQMWVMPFLLKTVVKGFREIKKVDILWKDKQKASK---SHDDSFGELYL 1104
K + L+ ++ ++PFLL+TV+KG IK V+ILW+D S S GEL L
Sbjct: 163 VSKSSEELLDVLRDRIIPFLLETVIKGDERIKSVNILWEDSPSTSWVKSVGKSSRGELVL 222
Query: 1105 RVSMSGQCHITS--LWSALMNDCHQIMDMIDWTRSHPDNIRSFCLAYGIDAGLQFFLTNL 1162
V++ C T W+ +M+ C +MD+IDW RS P +I+ GIDA + F+ L
Sbjct: 223 EVTVEESCKKTRGNAWNVVMDACIPVMDLIDWERSMPYSIQQIKSVLGIDAAFEQFVQRL 282
Query: 1163 ESAISDTGKNILPEHLLIVANTLSATGEFVGLNAKGLALQRKHSSVSSPFVQAFFSNPGA 1222
ESA+S TGK++L EHLL+VA++++ +GEFVGLNAKG QR+ +S+PF +A FS+P
Sbjct: 283 ESAVSMTGKSVLREHLLLVADSMTYSGEFVGLNAKGYKAQRRSLKISAPFTEACFSSPIK 342
Query: 1223 SFIKAAKAGAVDNLQGSVDALGWGKVPSVGTGGHFDIIY 1261
F+KAAK GA D+L G +DA WGK VGTG F+I++
Sbjct: 343 CFLKAAKKGASDSLSGVLDACAWGKEAPVGTGSKFEILW 381
|
Higher plants have five multi-subunit nuclear RNA polymerases: RNAP I, RNAP II and RNAP III, which are essential for viability; plus the two isoforms of the non-essential polymerase RNAP IV (IVa and IVb), which specialize in small RNA-mediated gene silencing pathways. RNAP IVa and/or RNAP IVb might be involved in RNA-directed DNA methylation of endogenous repetitive elements, silencing of transgenes, regulation of flowering-time genes, inducible regulation of adjacent gene pairs, and spreading of mobile silencing signals. NRPD1a is the largest subunit of RNAP IVa, whereas NRPD1b is the largest subunit of RNAP IVb. The full subunit compositions of RNAP IVa and RNAP IVb are not known, nor are their templates or enzymatic products. However, it has been shown that RNAP IVa and, to a lesser extent, RNAP IVb are crucial for several RNA-mediated gene silencing phenomena. Length = 381 |
| >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|236292 PRK08566, PRK08566, DNA-directed RNA polymerase subunit A'; Validated | 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|216030 pfam00623, RNA_pol_Rpb1_2, RNA polymerase Rpb1, domain 2 | Back alignment and domain information |
|---|
| >gnl|CDD|221127 pfam11523, DUF3223, Protein of unknown function (DUF3223) | Back alignment and domain information |
|---|
| >gnl|CDD|223164 COG0086, RpoC, DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >gnl|CDD|218361 pfam04983, RNA_pol_Rpb1_3, RNA polymerase Rpb1, domain 3 | Back alignment and domain information |
|---|
| >gnl|CDD|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|131440 TIGR02387, rpoC1_cyan, DNA-directed RNA polymerase, gamma subunit | Back alignment and domain information |
|---|
| >gnl|CDD|236292 PRK08566, PRK08566, 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|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|147266 pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, domain 5 | 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|218372 pfam05000, RNA_pol_Rpb1_4, RNA polymerase Rpb1, domain 4 | 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|132725 cd06528, RNAP_A'', A'' subunit of Archaeal RNA Polymerase (RNAP) | 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|223164 COG0086, RpoC, DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | 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|235055 PRK02625, rpoC1, DNA-directed RNA polymerase subunit gamma; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132722 cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|237853 PRK14897, PRK14897, unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|235277 PRK04309, PRK04309, DNA-directed RNA polymerase subunit A''; Validated | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1443 | |||
| KOG0261 | 1386 | consensus RNA polymerase III, large subunit [Trans | 100.0 | |
| PRK14977 | 1321 | bifunctional DNA-directed RNA polymerase A'/A'' su | 100.0 | |
| KOG0260 | 1605 | consensus RNA polymerase II, large subunit [Transc | 100.0 | |
| KOG0262 | 1640 | consensus RNA polymerase I, large subunit [Transcr | 100.0 | |
| TIGR02390 | 868 | RNA_pol_rpoA1 DNA-directed RNA polymerase subunit | 100.0 | |
| PRK08566 | 882 | DNA-directed RNA polymerase subunit A'; Validated | 100.0 | |
| TIGR02386 | 1140 | rpoC_TIGR DNA-directed RNA polymerase, beta' subun | 100.0 | |
| PRK00566 | 1156 | DNA-directed RNA polymerase subunit beta'; Provisi | 100.0 | |
| PRK14906 | 1460 | DNA-directed RNA polymerase subunit beta'/alpha do | 100.0 | |
| PRK14844 | 2836 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| PRK09603 | 2890 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 100.0 | |
| PRK02625 | 627 | rpoC1 DNA-directed RNA polymerase subunit gamma; P | 100.0 | |
| smart00663 | 295 | RPOLA_N RNA polymerase I subunit A N-terminus. | 100.0 | |
| TIGR02387 | 619 | rpoC1_cyan DNA-directed RNA polymerase, gamma subu | 100.0 | |
| CHL00018 | 663 | rpoC1 RNA polymerase beta' subunit | 100.0 | |
| cd02737 | 381 | RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher | 100.0 | |
| cd02584 | 410 | RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryoti | 100.0 | |
| TIGR02389 | 367 | RNA_pol_rpoA2 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 | |
| PRK14897 | 509 | unknown domain/DNA-directed RNA polymerase subunit | 100.0 | |
| cd02736 | 300 | RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryot | 100.0 | |
| cd02735 | 309 | RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic | 100.0 | |
| PF00623 | 166 | RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; Int | 100.0 | |
| TIGR02388 | 1227 | rpoC2_cyan DNA-directed RNA polymerase, beta'' sub | 100.0 | |
| PRK02597 | 1331 | rpoC2 DNA-directed RNA polymerase subunit beta'; P | 100.0 | |
| PF04998 | 277 | RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; Int | 100.0 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 100.0 | |
| CHL00117 | 1364 | rpoC2 RNA polymerase beta'' subunit; Reviewed | 100.0 | |
| PF04997 | 337 | RNA_pol_Rpb1_1: RNA polymerase Rpb1, domain 1; Int | 100.0 | |
| cd00630 | 158 | RNAP_largest_subunit_C Largest subunit of RNA poly | 99.97 | |
| PF04983 | 158 | RNA_pol_Rpb1_3: RNA polymerase Rpb1, domain 3; Int | 99.95 | |
| PF11523 | 76 | DUF3223: Protein of unknown function (DUF3223); In | 99.95 | |
| cd02655 | 204 | RNAP_beta'_C Largest subunit (beta') of Bacterial | 99.9 | |
| KOG0260 | 1605 | consensus RNA polymerase II, large subunit [Transc | 99.64 | |
| PF05000 | 108 | RNA_pol_Rpb1_4: RNA polymerase Rpb1, domain 4; Int | 99.57 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 99.25 | |
| PF04990 | 135 | RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; Int | 97.61 | |
| cd02655 | 204 | RNAP_beta'_C Largest subunit (beta') of Bacterial | 97.35 | |
| cd00630 | 158 | RNAP_largest_subunit_C Largest subunit of RNA poly | 96.31 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 91.48 |
| >KOG0261 consensus RNA polymerase III, large subunit [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.9e-265 Score=2312.82 Aligned_cols=1143 Identities=24% Similarity=0.361 Sum_probs=953.7
Q ss_pred CceeeeeEEEEcCChHHHHhccceEEec-------------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccceeecC
Q 000525 13 PSGILTGISLGISTDTEKEKLSVMEIGA-------------VSEVTNPRLGLPNPTNECSSCGAKDRKACEGHFGFIKFP 79 (1443)
Q Consensus 13 ~~~~I~~I~F~~~S~eEI~~~Sv~~I~~-------------~~Gl~D~rLG~~~~~~~C~TCg~~~~~~CpGHFGhIeL~ 79 (1443)
-..+|++|+||++|++||++.++++|.+ ++|++|||||++++...|+|||+ ++.+|+|||||++|+
T Consensus 9 ~~kki~~i~F~~~s~~ei~~~a~v~v~~~~LY~~~~~~~P~~~G~LD~rMGvs~K~~~C~TCg~-~la~C~GHfGy~~L~ 87 (1386)
T KOG0261|consen 9 IPKKIKHIQFSILSPEEIRQQAEVEVSSKDLYDISTQRAPLPNGPLDPRMGVSNKKDKCATCGE-GLADCIGHFGYLKLA 87 (1386)
T ss_pred ccceeeeEeeccCCHHHHHhcceEEeeccchhhhhcccCCCcCCCcCcccCCCCCCCccchhcc-chhhcccccceEeec
Confidence 4678999999999999999999999975 37999999999999999999995 899999999999999
Q ss_pred ccccccccHHHHHHHHhccccccccccCcchhh----------------------hccccccccccccccccC-CCCCCc
Q 000525 80 FTILHPYFLSDIAKLLNSICPKCKTIRKERQKG----------------------AGSSRKEQPRVCKYCVRN-PAQWYP 136 (1443)
Q Consensus 80 ~PVfHpgf~~~i~kIL~~iC~~C~rlll~~~~k----------------------~l~~~~~~~~~C~~C~~~-~~~~~p 136 (1443)
+||||+|||+.++.||||||++|++++++...+ ++...|++...|.+|++. |.
T Consensus 88 LPVFhiGyfk~ti~iLq~ICK~Cs~ilL~~~~k~~fl~~lr~p~~~~l~k~~l~kri~~~CkK~~~C~hCg~~NG~---- 163 (1386)
T KOG0261|consen 88 LPVFHIGYFKATIQILQCICKNCSSILLSEEDKRQFLKKLRNPGLDNLRKKALLKRIVAKCKKVNTCSHCGALNGT---- 163 (1386)
T ss_pred ceeeeehhHHHHHHHHHHHHHhhhhhhcCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHhhccccccccCCcCce----
Confidence 999999999999999999999999999985321 112357788999999873 21
Q ss_pred ccccccccccccCccceeehhhhhhhccCCCCccc---cccccCccccccccccCCCccccCHHHHHHHhccCChhhHhh
Q 000525 137 RMRFKLSSKDLSGKTAIIVEIDEKLSKKNKKLPDD---YWGFIPFDAQQEENSVKPNRKVLSCKQVSYLLKDVDPSIREE 213 (1443)
Q Consensus 137 ~i~~~~~~~~~~~k~~ii~e~~~~~~~k~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~LsP~eV~~iLkkI~~ed~~~ 213 (1443)
++ + ...-.+|+|+.....++ ...+... .|......+.+.+.......+.|+|..|+++|++|++.|+++
T Consensus 164 -VK-K-----~~~~lkIiHd~~~~~~k-~~~~~~~~~~~~~~~~~~n~e~~~~~~~~~~~LnPl~vLnLFk~i~~~D~eL 235 (1386)
T KOG0261|consen 164 -VK-K-----AAALLKIIHDRFKLVKK-SDPLVTNERGEFKTAISHNKELEGHLSSCCEELNPLVVLNLFKQIKEDDCEL 235 (1386)
T ss_pred -ee-c-----cccceeEeeehhhcccc-ccchhhhhHHHHHHHhhcCcchHhHHHHHHhhcChHHHHHHHhhCCccccce
Confidence 11 0 00113566664322211 1111001 111112233344444555667899999999999999999998
Q ss_pred cc-----CCCCcceeeccccCCCCCCccccccccccccccccchhHHHHHHHHHhh---------CCcHHHHHHHHHHHH
Q 000525 214 FI-----LSKDAPFLKCFPVTPNNHRVTEVPHAFSHEKKLFFDNWTRHLKKMVDYR---------GRDIELSHLVQDCLK 279 (1443)
Q Consensus 214 ~~-----~rPE~ffLt~LPVPP~~iRPS~~~~~~~ng~~~~eDDLT~~l~~iv~~~---------~~~~~~~~~~~~~~~ 279 (1443)
+. .+|+.+|++++||||.|+|||+++++.. | ..|||+|.++..|+-.| ++..+++...++.+|
T Consensus 236 Lg~~~~~~~P~~Li~t~~~vPP~cIRPSV~~~~k~-g--tnEDDlT~KltEIi~tn~vik~~~~~g~~~~~imE~Wd~lQ 312 (1386)
T KOG0261|consen 236 LGMDSEEGRPENLIITRVPVPPVCIRPSVMSEDKA-G--TNEDDLTMKLTEIILTNDVIKKHLSKGTPINLIMEDWDFLQ 312 (1386)
T ss_pred eeeccCcCCchheEEEeccCCccccccceeecCCC-C--CCccchhhhhhhhhhHHHHHHHHhhcCCCchhhhhhhHHHH
Confidence 52 4899999999999999999999886521 1 35699999999998654 233333334444444
Q ss_pred Hh---hhhcccccCCc-------hhHhhhc-cCCcccCcCCcchhhccccCCCCCCCCceeEeCCCCCccccccccHHHH
Q 000525 280 IS---KLHLDKSSRKD-------SAEVRQK-KNIDISNSSGLRWIKDVVLGKRNDDCFRMVVTGDPNIKLKEIGIPCQVA 348 (1443)
Q Consensus 280 ~~---~~~~d~~~~~~-------~~~~~q~-~~~~~~~~~G~r~~R~nl~GKRv~~s~RsVI~pdp~l~~~evgvP~~~a 348 (1443)
.. .+|++.++.+. .++..|| |||.+ |||+||+||||||||||||||||||+|||||||..+|
T Consensus 313 l~~AlyINSEl~g~~~~~~p~kp~RGf~QRLKGKqG-------RFRgNLSGKRVDFSGRTVISPDPNL~IdeVgVP~rvA 385 (1386)
T KOG0261|consen 313 LQVALYINSELPGIPINMAPKKPTRGFVQRLKGKQG-------RFRGNLSGKRVDFSGRTVISPDPNLRIDEVGVPIRVA 385 (1386)
T ss_pred HHHHHhhcccCCCCCCCCCCCCchHHHHHHhcccCC-------ceeccccCceeeccCceeeCCCCCcceeeccchHHHH
Confidence 42 25666554332 2677888 77765 7999999999999999999999999999999999999
Q ss_pred hhcCcceeechhhHHHhhhhh-cccccccCcceEeeC--CeEE------EecccccccCCCEEeceeccCceEEEeCCCC
Q 000525 349 ERLQISERLNSWNWERLSVCI-SFRLLEKGELYVCRK--GGLV------RIRRIDALELGDIIYRPLTDGDIVLINRPPS 419 (1443)
Q Consensus 349 ~~Lt~pe~Vt~~Ni~~l~~~~-~~~~~~~g~~~i~~~--g~~~------~~~~~~~l~~g~iV~Rhl~dgD~vl~NRqPs 419 (1443)
+.|||||+||.+|+++||+++ |++-+++||+|+.+. |... +-+.|.+|++||+|||||.|||+||||||||
T Consensus 386 kiLTfpE~Vt~~Ni~klr~lV~NGP~vhPGANyv~~r~~~~kr~L~yg~R~kiA~eLk~GdvVERHL~DgDvVLFNRQPS 465 (1386)
T KOG0261|consen 386 KILTFPERVTRANIRKLRQLVRNGPNVHPGANYVVQRGEGFKRFLKYGNRDKIADELKIGDVVERHLMDGDVVLFNRQPS 465 (1386)
T ss_pred HHhcchhhccHHHHHHHHHHHhcCCCCCCCcchhhhcccchhhHhhcCcHHHHHHhhccchHHHhhcccCCEEEEcCCch
Confidence 999999999999999999985 677889999998632 2111 1234678999999999999999999999999
Q ss_pred CCccccccccEEEecCCceEEecccCCCCCCCCCCCCceeeecCCChhHHHHHHHHcCccCCcccCCCCCcccccchhHH
Q 000525 420 IHPHSLIALTVKVLPISSVVTINPLCCSPFHGDFDGDCLHGYIPQAIGARVELTELVALDKQLINQQSGRNLLSLGQDSL 499 (1443)
Q Consensus 420 LHk~Simah~v~v~p~~~t~r~n~~~c~pyNADFDGDeMN~h~PQs~~AraEa~~Lm~~~~~~~sp~~g~pl~gl~QD~l 499 (1443)
|||||||+|+|||+||. |||||.|+|+||||||||||||+||||++||||||.+||++++|+++|+||+|+++++||||
T Consensus 466 LHkmSIM~H~akV~p~R-TfRFNEcvCtPYNADFDGDEMNlHvPQTEEAraEA~~LMgvknNlvTPr~GEpiiAAtQDFi 544 (1386)
T KOG0261|consen 466 LHKMSIMSHRAKVMPWR-TFRFNECVCTPYNADFDGDEMNLHVPQTEEARAEALVLMGVKNNLVTPRNGEPIIAATQDFI 544 (1386)
T ss_pred HHHHHHHHHHhhcccCc-eeeccccccCCcCCCCCcccccccCCchHHHHHHHHHHhccccccccCCCCCceeehhhhhh
Confidence 99999999999999986 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhccCccccCHHHHHHHHhhC-C----CccCCCceecccCCccchHHHHHhhcCCCCCc-------------c---
Q 000525 500 TAAHLLMEDSVLLSHLQMQQLQMFC-P----HRFLSPDIFKISKDSVWSGKQLFSMLLPPDFE-------------Y--- 558 (1443)
Q Consensus 500 ~g~~llt~~d~fl~~~~~~~l~~~~-~----~~l~~pai~Kp~~~~lwTGKql~s~~lp~~~~-------------~--- 558 (1443)
+|+||||.||+||+|+++.||+.+. + ..+|||||+|| ..||||||+||.++.++.+ |
T Consensus 545 Tg~YLlt~KDtF~dRa~~~ql~s~~~d~~~~i~lppPaI~KP--~~LwTGKQ~fsvlirpn~~s~v~~Nl~~k~k~~~~~ 622 (1386)
T KOG0261|consen 545 TGGYLLTHKDTFLDRAEFSQLCSYMSDAMTHIDLPPPAILKP--VELWTGKQLFSVLIRPNDDSPVRVNLDAKNKNFSLV 622 (1386)
T ss_pred hcceeeecccccccHHHHHHHHHHHhccccccCCCChhhcCc--eeeeccCEEEEEEeccCCCCceEEeeccccceeecc
Confidence 9999999999999999999998652 2 27999999999 7999999999999976531 2
Q ss_pred -------ccCCCcEEEeCCeeccc-cCcccccC-CCccHHHHHHHHhcHH-HHHHHHHHHHHHHHHHhcccceeecCccc
Q 000525 559 -------TFPSKDVYISGGKLISA-EGSSWLRD-YEGNLFQYLIKRYRDK-VLDFLYAAQEVLCEWLSVRGMTVSLSDLY 628 (1443)
Q Consensus 559 -------~~~~~~v~i~~gell~~-~~k~~lg~-~~~~l~~~l~~~~g~~-a~~~l~~~q~l~~~~L~~~GfSigi~D~~ 628 (1443)
+.+|+.|.|+|+||++| +||++||+ ++.+||+.|.++||.. |++.|+++.+++.+||..+||||||+|+.
T Consensus 623 ~~k~~~mc~nDg~v~irns~l~sG~ldKs~lG~g~k~~lfy~llrDyg~~aAa~am~rlaklc~r~lgnrGFSIGi~DVq 702 (1386)
T KOG0261|consen 623 KGKSFEMCPNDGYVIIRNSELISGVLDKSTLGSGKKDSLFYILLRDYGSMAAADAMNRLAKLCARFLGNRGFSIGIDDVQ 702 (1386)
T ss_pred cCCCcccCCCCCeEEEecchhhhcccccccccCCCccceEeeehhhcchHHHHHHHHHHHHhhhhhccccccccccCCCC
Confidence 11257899999999986 89999998 6889999999999985 88999999999999999999999999999
Q ss_pred cccccchHHHHHHHHHhhHHHHHhhhhhhhhHHHhHHhhhhccCCcccccccccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 000525 629 LASHSCSRKILMDEIFYGLREAQDTCNFQQLMVDSHMNFLMSAKDSESTRSLQGEHLSYEKQRSAALSQASVDAFKHVFW 708 (1443)
Q Consensus 629 ~~~~~~~~~~~~~~i~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~~~~~L~~~~~~~~~~~~~ 708 (1443)
+.+...+.|+. -++.+++.|+ +.+..|..|+++-+++++ +..++|..+...|+. +++
T Consensus 703 Pg~~L~~~k~~------lv~~gY~kc~------~~I~e~~kG~L~~qpg~~---~eetLEa~I~~~Ls~--------IRe 759 (1386)
T KOG0261|consen 703 PGEILSQEKEE------LVNRGYAKCD------EKIEEYNKGKLQLQPGCN---EEETLEAEILSELST--------IRE 759 (1386)
T ss_pred ccHHHHHHHHH------HHHhHHHHHH------HHHHHHhccccccCCCCC---HHHHHHHHHHHHHHH--------HHH
Confidence 98765433332 3566777675 234557788888787764 456788877776654 578
Q ss_pred HHHHHHHhhCCCCCcceeeeccCCccchhhHhHhhhcccccccCCCCccccCccccccccccCCCCCCccccCCcccccc
Q 000525 709 DIQNLAYKYGSKDNSLLAMFKAGSKGNLLKLVQHSLCLGLQHSLAPLSFRFPHELSCAAWNRLRAGDNTECAKSYIPSAV 788 (1443)
Q Consensus 709 ~~~~~~~~~~~~~N~~~~M~~sGSKGS~~Nl~Qi~~~lGqQ~~~g~~~~r~p~~~~~~~l~~~~~~~~~~~~~~~i~~Gf 788 (1443)
++|++|...+.+.|++++|+.||||||.+|++||+||||||.+.|. |+|.+|..|+||||+..+..|.| +||
T Consensus 760 ~~G~~C~~eL~~~NsPliMa~CGSKGS~INiSQMvACVGQQ~ISG~---RvPdGf~dRsLPHF~r~Sk~P~a-----KGF 831 (1386)
T KOG0261|consen 760 EAGKICIRELHPRNSPLIMALCGSKGSKINISQMVACVGQQIISGH---RVPDGFEDRSLPHFERHSKTPAA-----KGF 831 (1386)
T ss_pred HHHHHHHHhcCcccChHHHHHhcCCCCcccHHHHHHHhhhhhhcCC---cCCCccccccCccccccCCCccc-----cch
Confidence 8999999999999999999999999999999999999999999995 99999999999999998888876 499
Q ss_pred ccccccCCCChhhHHHhcccCCCccccccc--CCCCcchHHHHHHHhheEeeecceEEccCCceEEEEEeccCCCCC---
Q 000525 789 VENSFLTGLNPLECFIHSVTSRDSSFSDNA--DLPGTLTRRLMFFMRDLCTAYDGTVRNAYGNQIVQFSYNIEGTST--- 863 (1443)
Q Consensus 789 V~~sf~~GL~P~EfFfH~m~gReGliDtav--a~sGYLqRrLvk~lEdl~v~YD~tVR~s~G~~iiq~~yg~~g~~~--- 863 (1443)
|.||||+||+|.|||||+|+|||||||||| |+||||||||||+||||.++||||||||.| +||||+||+||.+.
T Consensus 832 V~NSFySGLTptEFfFHtm~GREGLVDTAVKTAETGYMqRRLmK~LEDL~~~YDgTVR~s~~-~vvqF~YG~DglDPa~m 910 (1386)
T KOG0261|consen 832 VANSFYSGLTPTEFFFHTMSGREGLVDTAVKTAETGYMQRRLMKSLEDLSVQYDGTVRNSNG-DVVQFTYGGDGLDPAMM 910 (1386)
T ss_pred hhhhcccCCCchhhheeecccccchhhhhhhhhhhhhHHHHHHHHHHHHHHhhcCceecCCC-cEEEEeecCCCCChhhh
Confidence 999999999999999999999999999998 999999999999999999999999999999 59999999999540
Q ss_pred --------------------------------------------------------------------------------
Q 000525 864 -------------------------------------------------------------------------------- 863 (1443)
Q Consensus 864 -------------------------------------------------------------------------------- 863 (1443)
T Consensus 911 Eg~~~pv~f~r~~~~~~~~~~~~~~~~l~~~el~e~~~~~l~~~f~~~~~~F~~~~~~~i~~~~~~~~~~~~~~~d~~~~ 990 (1386)
T KOG0261|consen 911 EGKDQPVNFNRVFDHAKAIFPHRHDPPLSSEELDETLEEELLRKFTEKGDPFVHELREFIASLSKKIKKLQDKYGDECGP 990 (1386)
T ss_pred cCCCCchhHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhcccccCC
Confidence
Q ss_pred ------------------------------CCcccCCceeccccccchhHHHHhcc---ccccc---cccccccccchhh
Q 000525 864 ------------------------------PTGEIGDQPVGSLSACAISEAAYSAL---DQPIS---LLETSPLLNLKNV 907 (1443)
Q Consensus 864 ------------------------------~~~~~~ge~VG~~aAqSi~Ep~tq~l---~~~~~---~l~t~gl~rLkEI 907 (1443)
.+.++||.+||++||||||||+|||+ +|+++ .+.|.|+||++||
T Consensus 991 ~~~~~~~~~~~~~t~kql~~f~~~~~~ky~~a~~EpGTavGAi~aQSIGEPGTQMTLKTFHFAGVASMNiTlGVPRIkEI 1070 (1386)
T KOG0261|consen 991 KFCPDLLYQISRLTEKQLEKFVERCLDKYMRAKVEPGTAVGAIAAQSIGEPGTQMTLKTFHFAGVASMNITLGVPRIKEI 1070 (1386)
T ss_pred ccCccceeeeeeccHHHHHHHHHHHHHHHHhhhcCCcchhhhhhcccCCCCCceeeeeeeeecceeeeeeccCcchHHHH
Confidence 02368999999999999999999996 67665 3578999999999
Q ss_pred hccCCCCCCCccEeeeehhhhccccccCchhhHHHHHhhhcccchhhhhceEEEEEcCCCCcccccCceEEEEEeeHHHH
Q 000525 908 LECGSKKSNADQTMSLFLSNKLGKRRHGFEYGALEVKNHLECLMLSDIVSTSMIIYSPQTGSMKHFSPWICHFHVRKEIM 987 (1443)
Q Consensus 908 l~~~k~~~~~~~~~~l~Ls~~~~k~~~~~e~~a~~Vk~~LE~~tL~di~~~i~i~y~P~~~~~~~~sp~v~~~~Ldke~l 987 (1443)
+||++.++||..+..+- ++ .++..|+.||.+||+++|+|++++++.+|.|++++. .+.+|.+.|
T Consensus 1071 INAsk~ISTPIItA~L~--n~------~d~~~Ar~VKgRiEKt~L~dv~~yieeV~~p~~~fl--------~i~vd~~~I 1134 (1386)
T KOG0261|consen 1071 INASKTISTPIITAELE--NP------HDERSARVVKGRIEKTTLGDVCSYIEEVYGPDSCFL--------LIRVDLKRI 1134 (1386)
T ss_pred HhhhcccCccceeeeec--Cc------hhHHHHHHHhhhhhhhhHHHHHHHHHHHhCCcceEE--------EEEecHhHH
Confidence 99999998887777663 22 145789999999999999999999999999999864 889999999
Q ss_pred HHcCCC--HHHHHHHHHHhhhhhhhhhcccCCceeeecCccccccccccCCCceEEEEEeecccccc-hhhHHHHHHHhc
Q 000525 988 KRTGLK--EHSIIDSLYRQCKAARTELKISVPDMLISNKDCSSINMQKECNDAFCVTVMIVENFKRT-SIDLETIQMWVM 1064 (1443)
Q Consensus 988 ~~~~L~--i~~I~~~i~~~~~~~~~~l~~~~~~i~i~~~~c~~~~~~~~~~~~~~i~v~~~~~~~~~-~~~l~~l~~~ii 1064 (1443)
...+|. +++|..+|.+.. ..+....++.+..+ .. +.+++....+.+ ++.|+.|+.
T Consensus 1135 ~~l~L~i~~~~I~~sI~~s~-----~~k~~~~~v~v~~~------------~~--~~v~~~~~~~~S~~~~lq~lk~--- 1192 (1386)
T KOG0261|consen 1135 SLLQLEITIESIAYSILKSP-----KRKVKPNDVRVVGE------------TT--LRVTPVSDTKSSVYYNLQRLKR--- 1192 (1386)
T ss_pred hhhhccccHHHHHHHHhcCC-----ccccCCcceEEecc------------ee--EEEeecccccchhhhhHHHHHh---
Confidence 988776 588888877653 23333344555322 22 333333333333 678999887
Q ss_pred cccccceeeccccceEEEEeecccccccCCCCCCCceEEEEEeeccccccchhHHHHhhhhccccccccccccCCCcHHH
Q 000525 1065 PFLLKTVVKGFREIKKVDILWKDKQKASKSHDDSFGELYLRVSMSGQCHITSLWSALMNDCHQIMDMIDWTRSHPDNIRS 1144 (1443)
Q Consensus 1065 p~ll~~vVkG~~~I~rv~I~~~d~~~~~~~~~~~~~el~l~~~gs~~~~~~~~~~vll~~~l~~~~~id~~rt~sn~I~e 1144 (1443)
.|.+++|+|+|.|.|++|+..++ ...++|++| |. + |.+||. ++||+.+||++||+.|
T Consensus 1193 -~L~~Vvv~gip~vnr~vi~~de~--------~~~y~L~vE--G~------g-----Lr~Vm~-t~GV~g~~TtsNnv~E 1249 (1386)
T KOG0261|consen 1193 -SLPNVVVKGIPEVNRAVINIDEK--------RGLYKLLVE--GT------G-----LRAVMN-TDGVKGRRTTSNNVLE 1249 (1386)
T ss_pred -hCCceEEecCcchhhhheeeccc--------CCceEEEEe--cc------c-----hHHHhc-cCCccccccccCceEE
Confidence 66699999999999999996442 233566655 33 3 566677 9999999999999999
Q ss_pred HHHHHcHHHHHHHHHHHHHHHhcccCCccCHHHHHHHHhhccceeeEeecchhhhhhhhccCCCcchhhhccccccHHHH
Q 000525 1145 FCLAYGIDAGLQFFLTNLESAISDTGKNILPEHLLIVANTLSATGEFVGLNAKGLALQRKHSSVSSPFVQAFFSNPGASF 1224 (1443)
Q Consensus 1145 i~~~lGIEAar~~ii~el~~~~~~~G~~V~~rHl~LlAd~MT~~G~~~gi~r~G~~~~~~~l~~~Spl~~asFe~t~~~l 1224 (1443)
|++||||||||.+||+||.+||+.||++||+||+|||||.||++|||+||||+|+++|++ |+|++||||+|+|||
T Consensus 1250 v~~vLGIEAAR~~II~EI~ytM~~HGmsiD~RHiMLLaDvMTyrGEVlGITRfGl~KM~~-----SVL~lASFEkT~DhL 1324 (1386)
T KOG0261|consen 1250 VEKVLGIEAARTTIISEIGYTMSNHGMSIDPRHIMLLADVMTYRGEVLGITRFGLAKMKD-----SVLMLASFEKTADHL 1324 (1386)
T ss_pred eehhhchHHHHHHHHHHHHHHHHhcCcccCHHHHHHHHHHhhhcceeeeeeehhhHHHHH-----HHHHHHhhhhhhHHH
Confidence 999999999999999999999999999999999999999999999999999999999999 899999999999999
Q ss_pred HHHHhhCCCcCCCCccceeccCCCCCccCccceEEEEccCCC-CCCcccccccCccc
Q 000525 1225 IKAAKAGAVDNLQGSVDALGWGKVPSVGTGGHFDIIYSGEGR-TLSKPVDVYNLLST 1280 (1443)
Q Consensus 1225 ~~AA~~g~~D~l~gvs~~ii~Gk~~~~GTgg~f~ll~~~~~~-~~~~~~~~y~~l~~ 1280 (1443)
|+||.+|.+|.+.|||||||+|.|+++|| |.|+|+++.+.. .+.++.-+++-|+.
T Consensus 1325 F~AA~~~k~D~I~GVSEcIIlG~pm~iGT-G~fkl~~~~~~~~~~~~~~~if~~~~~ 1380 (1386)
T KOG0261|consen 1325 FDAAAYGKKDAIEGVSECIILGIPMCIGT-GIFKLLQRTDDKKVLKPKPPIFSSLNL 1380 (1386)
T ss_pred HHHHHhcCcccccchhhheecccceeccc-cHHHHHHhcCCcccCCCCCCccccccc
Confidence 99999999999999999999999999999 999999985542 22333455554443
|
|
| >PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | Back alignment and domain information |
|---|
| >KOG0260 consensus RNA polymerase II, large subunit [Transcription] | Back alignment and domain information |
|---|
| >KOG0262 consensus RNA polymerase I, large subunit [Transcription] | Back alignment and domain information |
|---|
| >TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A' | Back alignment and domain information |
|---|
| >PRK08566 DNA-directed RNA polymerase subunit A'; Validated | Back alignment and domain information |
|---|
| >TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form | Back alignment and domain information |
|---|
| >PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional | Back alignment and domain information |
|---|
| >PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >COG0086 RpoC DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >PRK02625 rpoC1 DNA-directed RNA polymerase subunit gamma; Provisional | Back alignment and domain information |
|---|
| >smart00663 RPOLA_N RNA polymerase I subunit A N-terminus | Back alignment and domain information |
|---|
| >TIGR02387 rpoC1_cyan DNA-directed RNA polymerase, gamma subunit | Back alignment and domain information |
|---|
| >CHL00018 rpoC1 RNA polymerase beta' subunit | Back alignment and domain information |
|---|
| >cd02737 RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher plant RNA polymerase IV, 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 |
|---|
| >TIGR02389 RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit A'' | 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 |
|---|
| >PRK14897 unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | Back alignment and domain information |
|---|
| >cd02736 RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain | Back alignment and domain information |
|---|
| >cd02735 RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain | Back alignment and domain information |
|---|
| >PF00623 RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; InterPro: IPR000722 RNA polymerases catalyse the DNA dependent polymerisation of RNA from DNA, using the four ribonucleoside triphosphates as substrates | Back alignment and domain information |
|---|
| >TIGR02388 rpoC2_cyan DNA-directed RNA polymerase, beta'' subunit | Back alignment and domain information |
|---|
| >PRK02597 rpoC2 DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >PF04998 RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; InterPro: IPR007081 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PRK14898 DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed | Back alignment and domain information |
|---|
| >PF04997 RNA_pol_Rpb1_1: RNA polymerase Rpb1, domain 1; InterPro: IPR007080 RNA polymerases catalyse the DNA-dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >cd00630 RNAP_largest_subunit_C Largest subunit of RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >PF04983 RNA_pol_Rpb1_3: RNA polymerase Rpb1, domain 3; InterPro: IPR007066 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PF11523 DUF3223: Protein of unknown function (DUF3223); InterPro: IPR021602 This family of proteins has no known function | 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 |
|---|
| >KOG0260 consensus RNA polymerase II, large subunit [Transcription] | 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 |
|---|
| >PF04990 RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; InterPro: IPR007073 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >cd02655 RNAP_beta'_C Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >cd00630 RNAP_largest_subunit_C Largest subunit of RNA polymerase (RNAP), C-terminal domain | 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 | 1443 | ||||
| 2pmz_A | 880 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 2e-48 | ||
| 2waq_A | 880 | The Complete Structure Of The Archaeal 13-Subunit D | 6e-48 | ||
| 3h0g_A | 1752 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 3e-44 | ||
| 3j0k_A | 1455 | Orientation Of Rna Polymerase Ii Within The Human V | 8e-42 | ||
| 4a3c_A | 1732 | Rna Polymerase Ii Initial Transcribing Complex With | 8e-42 | ||
| 1i3q_A | 1733 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 9e-42 | ||
| 3iyd_D | 1413 | Three-Dimensional Em Structure Of An Intact Activat | 4e-09 | ||
| 3lu0_D | 1407 | Molecular Model Of Escherichia Coli Core Rna Polyme | 4e-09 | ||
| 1hqm_D | 1265 | Crystal Structure Of Thermus Aquaticus Core Rna Pol | 8e-08 | ||
| 2gho_D | 1233 | Recombinant Thermus Aquaticus Rna Polymerase For St | 9e-08 | ||
| 1i6v_D | 1264 | Thermus Aquaticus Core Rna Polymerase-Rifampicin Co | 9e-08 | ||
| 1l9u_D | 1524 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 1e-07 | ||
| 4gzy_D | 1534 | Crystal Structures Of Bacterial Rna Polymerase Paus | 1e-07 | ||
| 1iw7_D | 1524 | Crystal Structure Of The Rna Polymerase Holoenzyme | 1e-07 | ||
| 3qqc_A | 436 | Crystal Structure Of Archaeal Spt45 BOUND TO THE RN | 5e-06 | ||
| 2k0m_A | 104 | Solution Nmr Structure Of The Uncharacterized Prote | 4e-05 | ||
| 3hkz_C | 395 | The X-Ray Crystal Structure Of Rna Polymerase From | 3e-04 | ||
| 2pmz_C | 392 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 3e-04 | ||
| 2waq_C | 395 | The Complete Structure Of The Archaeal 13-Subunit D | 5e-04 | ||
| 2y0s_C | 395 | Crystal Structure Of Sulfolobus Shibatae Rna Polyme | 5e-04 |
| >pdb|2PMZ|A Chain A, Archaeal Rna Polymerase From Sulfolobus Solfataricus Length = 880 | 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|3H0G|A Chain A, Rna Polymerase Ii From Schizosaccharomyces Pombe Length = 1752 | Back alignment and structure |
| >pdb|3J0K|A Chain A, Orientation Of Rna Polymerase Ii Within The Human Vp16-Mediator-Pol Ii-Tfiif Assembly Length = 1455 | Back alignment and structure |
| >pdb|4A3C|A Chain A, Rna Polymerase Ii Initial Transcribing Complex With A 5nt Dna-Rna Hybrid Length = 1732 | Back alignment and structure |
| >pdb|1I3Q|A Chain A, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution Length = 1733 | Back alignment and structure |
| >pdb|3IYD|D Chain D, Three-Dimensional Em Structure Of An Intact Activator-Dependent Transcription Initiation Complex Length = 1413 | Back alignment and structure |
| >pdb|3LU0|D Chain D, Molecular Model Of Escherichia Coli Core Rna Polymerase Length = 1407 | Back alignment and structure |
| >pdb|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|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|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1524 | 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|3QQC|A Chain A, Crystal Structure Of Archaeal Spt45 BOUND TO THE RNAP CLAMP DOMAIN Length = 436 | Back alignment and structure |
| >pdb|2K0M|A Chain A, Solution Nmr Structure Of The Uncharacterized Protein From Rhodospirillum Rubrum Gene Locus Rru_a0810. Northeast Structural Genomics Target Rrr43 Length = 104 | 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|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 |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >4ayb_A DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_A 2y0s_A 2waq_A 4b1o_A 4b1p_W 2pmz_A 3hkz_A Length = 880 | Back alignment and structure |
|---|
Score = 324 bits (833), Expect = 2e-94
Identities = 217/933 (23%), Positives = 356/933 (38%), Gaps = 150/933 (16%)
Query: 18 TGISLGISTDTEKEKLSVMEI---------GAVSE--VTNPRLGLPNPTNECSSCGAKDR 66
GI GI + E K+SV I G E V +PRLG+ P +C +CG
Sbjct: 7 KGIKFGILSPDEIRKMSVTAIITPDVYDEDGTPIEGSVMDPRLGVIEPGQKCPTCG-NTL 65
Query: 67 KACEGHFGFIKFPFTILHPYFLSDIAKLLNSICPKCKTIRKERQKGAGSSRKEQPRVCKY 126
C GHFG I+ ++H F+ + + L + C +C ++ + SR ++
Sbjct: 66 GNCPGHFGHIELVRPVIHVGFVKHVYEFLKATCRRCGRVKISEDEIEKYSRIYNAIKKRW 125
Query: 127 CVRNPAQWYPRMRFKLSSKDLSGKTAIIVEIDEKLSKKNKKLPDDYWGFIPFDAQQEENS 186
+ + ++ +I K K
Sbjct: 126 PSAARRLTEYVKKTAMKAQVCPHCGEKQFKI-----KLEKPYNFYEER------------ 168
Query: 187 VKPNRKVLSCKQVSYLLKDVDPSIREEFILSKDAP-------FLKCFPVTPNNHRVTEVP 239
K L+ + L+ V + IL D L PV P R P
Sbjct: 169 -KEGVAKLTPSDIRERLEKV--PESDVEILGYDPTTSRPEWMILTVLPVPPITIR----P 221
Query: 240 HAFSHEKKLFFDNWTRHLKKMVDYRGRDIEL------SHLVQDCLKISKLHLDKSSRKDS 293
D+ T L +V R E +++D + + H+ +
Sbjct: 222 SIMIESGIRAEDDLTHKLVDIVRINERLKESIDAGAPQLIIEDLWDLLQYHVATYFDNEI 281
Query: 294 AEVRQKKNIDISNSSGL--RW------IKDVVLGKRNDDCFRMVVTGDPNIKLKEIGIPC 345
+ K+ L R + + GKR D R V++ DPNI + E+G+P
Sbjct: 282 PGLPPSKHRSGRPLRTLAQRLKGKEGRFRGNLSGKRVDFSSRTVISPDPNISIDEVGVPE 341
Query: 346 QVAERLQISERLNSWNWERLSVCIS-FRLLEKGELYVCRKGGLV--------RIRRIDAL 396
+A L + ER+ WN E+L + G YV R G R L
Sbjct: 342 IIARTLTVPERITPWNIEKLRQFVINGPDKWPGANYVIRPDGRRIDLRYVKDRKELASTL 401
Query: 397 ELGDIIYRPLTDGDIVLINRPPSIHPHSLIALTVKVLPISSVVTINPLCCSPFHGDFDGD 456
G ++ R LTDGD+VL NR PS+H S++A V+VL +N L C P++ DFDGD
Sbjct: 402 APGYVVERHLTDGDVVLFNRQPSLHRISMMAHRVRVLK-GLTFRLNLLVCPPYNADFDGD 460
Query: 457 CLHGYIPQAIGARVELTELVALDKQLINQQSGRNLLSLGQDSLTAAHLLMEDSVLLSHLQ 516
++ ++PQ+ A E E++ + K +I + G ++ QD ++ A+LL + LL+ +
Sbjct: 461 EMNLHVPQSEEAIAEAKEIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKTTLLTKEE 520
Query: 517 MQQLQMFCPHRFLSPDIFKISKDSVWSGKQLFSMLLPPDFEYTFPSKD------------ 564
QQ+ + + ++ ++GKQ+ S LP DF + +
Sbjct: 521 AQQILGVADVKIDLGEPAILAPREYYTGKQVVSAFLPKDFNFHGQANVSSGPRLCKNEDC 580
Query: 565 -----VYISGGKLIS------AEGSSWLRDYEGNLFQYLIKRY-RDKVLDFLYAAQEVLC 612
V I G L+ A G+ ++ +LIK Y + + V
Sbjct: 581 PHDSYVVIKNGILLEGVFDKKAIGNQ----QPESILHWLIKEYSDEYGKWLMDNLFRVFI 636
Query: 613 EWLSVRGMTVSLSDLYLASHSCSRKILMDEIFYGLREAQDTCNFQQLMVDSHMNFLMSAK 672
++ ++G T+ L D+ L + EI+ + A+ + N + K
Sbjct: 637 RFVELQGFTMRLEDVSL------GDDVKKEIYNEIDRAKVEVD----------NLIQKYK 680
Query: 673 DSESTRSLQGEHL--SYEKQRSAALSQASVDAFKHVFWDIQNLAYKYGSKDNSLLAMFKA 730
+ E + G L S E L + A ++A KY N M +
Sbjct: 681 NGELEP-IPGRTLEESLENYILDTLDKLRSTA--------GDIASKYLDPFNFAYVMART 731
Query: 731 GSKGNLLKLVQHSLCLGLQHSL----APLSFR---FPHELSCAAWNRLRAGDNTECAKSY 783
G++G++L + Q + LG Q S+ + PH + D + A+ +
Sbjct: 732 GARGSVLNITQMAAMLGQQ-SVRGERIKRGYMTRTLPH---------FKPYDISPEARGF 781
Query: 784 IPSAVVENSFLTGLNPLECFIHSVTSRDSSFSDNA---DLPGTLTRRLMFFMRDLCTAYD 840
+ +SF TGL P E F H+ R+ D A G + RRL+ + DL YD
Sbjct: 782 -----IYSSFRTGLKPTELFFHAAGGRE-GLVDTAVRTSQSGYMQRRLINALSDLRAEYD 835
Query: 841 GTVRNAYGNQIVQFSYNIEGTSTPTGEIGDQPV 873
GTVR+ YG ++Q +Y +G P + V
Sbjct: 836 GTVRSLYGE-VIQVAYGDDGVF-PMYSAHGKTV 866
|
| >3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752 | Back alignment and structure |
|---|
| >3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752 | Back alignment and structure |
|---|
| >1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733 | Back alignment and structure |
|---|
| >1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733 | Back alignment and structure |
|---|
| >2k0m_A Uncharacterized protein; structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Rhodospirillum rubrum atcc 11170} Length = 104 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >4ayb_C DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_C 4b1o_C 4b1p_Y 2waq_C 2wb1_C 3hkz_C 2pmz_C Length = 395 | Back alignment and structure |
|---|
| >3qqc_A DNA-directed RNA polymerase subunit B, DNA-direct polymerase subunit A', DNA-directed...; transcription, fusion protein, chimera protein, multiprotein; 3.30A {Pyrococcus furiosus} Length = 436 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
No hit with probability above 80.00
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
E-value |
| 1443 | ||||
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 1e-78 | |
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 2e-11 | |
| d1smyd_ | 1504 | e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus t | 2e-44 |
| >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 = 284 bits (727), Expect = 1e-78
Identities = 214/1089 (19%), Positives = 400/1089 (36%), Gaps = 148/1089 (13%)
Query: 13 PSGILTGISLGISTDTEKEKLSVMEI---GAVSEVTN---------PRLGLPNPTNECSS 60
P + + G+ + E +SV +I + E PRLG + +C +
Sbjct: 9 PLRTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSIDRNLKCQT 68
Query: 61 CGAKDRKACEGHFGFIKFPFTILHPYFLSDIAKLLNSICPKCKTIRKERQKGAGSSRKEQ 120
C + C GHFG I + H F++ I K+ +C C + + + +
Sbjct: 69 CQ-EGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDE-----HNELMR 122
Query: 121 PRVCKYCVRNPAQWYPRMRFKLSSKDLSGKTAIIVEIDEKLSKK------NKKLPDDYWG 174
+++ + + + +K + + +L + + D
Sbjct: 123 Q---ALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRKDGLK 179
Query: 175 FIPF--DAQQEENSVKPNRKVLSCKQVSYLLKDVDPSIREEFILSKDAP-------FLKC 225
+ + ++ +P +VLS +++ + K + S+++ L + L C
Sbjct: 180 LVGSWKKDRATGDADEPELRVLSTEEILNIFKHI--SVKDFTSLGFNEVFSRPEWMILTC 237
Query: 226 FPVTPNNHRVTEVPHAFSHEKKLFFDNWTRHLKKMVDYRGRDIEL------SHLVQDCLK 279
PV P R P +E + D+ T L ++ L H +++
Sbjct: 238 LPVPPPPVR----PSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAES 293
Query: 280 ISKLH----LDKSSRKDSAEVRQKKNIDISNSSGLR----WIKDVVLGKRNDDCFRMVVT 331
+ + H +D +++ S + L+ I+ ++GKR D R V++
Sbjct: 294 LLQFHVATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVIS 353
Query: 332 GDPNIKLKEIGIPCQVAERLQISERLNSWNWERLSVCISFRLLE-KGELYVCRKGGLVRI 390
GDPN++L ++G+P +A+ L E + +N +RL+ + E G YV R G
Sbjct: 354 GDPNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRID 413
Query: 391 RRIDA------LELGDIIYRPLTDGDIVLINRPPSIHPHSLIALTVKVLPISSVVTINPL 444
R L+ G + R + D D VL NR PS+H S++A VKV+P S +N
Sbjct: 414 LRYSKRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIP-YSTFRLNLS 472
Query: 445 CCSPFHGDFDGDCLHGYIPQAIGARVELTELVALDKQLINQQSGRNLLSLGQDSLTAAHL 504
SP++ DFDGD ++ ++PQ+ R EL++L A+ Q+++ QS + + + QD+L
Sbjct: 473 VTSPYNADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRK 532
Query: 505 LMEDSVLLSHLQMQQLQMFCPH-RFLSPDIFKISKDSVWSGKQLFSMLLPPDFEYTFPSK 563
L + Q+ + + P + P I +WSGKQ+ S+ +P +
Sbjct: 533 LTLRDTFIELDQVLNMLYWVPDWDGVIPTPAIIKPKPLWSGKQILSVAIPNGIHLQRFDE 592
Query: 564 D----------VYISGGKLISAE-GSSWLRDYEGNLF-QYLIKRYRDKVLDFLYAAQEVL 611
+ I G++I + G L ++ Q+V+
Sbjct: 593 GTTLLSPKDNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVV 652
Query: 612 CEWLSVRGMTVSLSDLYLASHSCSRKILMDEIFYGLREAQDTCNFQQLMVDSHMNFLMSA 671
WL G + + + + M EI + EA+ +++
Sbjct: 653 NFWLLHNGFSTGI------GDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHG 706
Query: 672 KDSESTRSLQGEHLSYEKQRSAALSQASVDAFKHVFWDIQNLAYKYGSKDNSLLAMFKAG 731
+ +E L++A A + ++++ N++ M AG
Sbjct: 707 MTLRES---------FEDNVVRFLNEARDKAGRLAEVNLKD--------LNNVKQMVMAG 749
Query: 732 SKGNLLKLVQHSLCLGLQHSLAPLSFRFPHELSCAAWNRLRAGDNTECAKSYIPSAVVEN 791
SKG+ + + Q S C+G Q R D + +K ++ N
Sbjct: 750 SKGSFINIAQMSACVGQQS---VEGKRIAFGFVDRTLPHFSKDDYSPESKGFVE-----N 801
Query: 792 SFLTGLNPLECFIHSVTSRDSSFSDNADL--PGTLTRRLMFFMRDLCTAYDGTVRNAYGN 849
S+L GL P E F H++ R+ G + RRL+ + D+ YD T RN+ GN
Sbjct: 802 SYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGN 861
Query: 850 QIVQFSYN--------IEGTSTPT---------------------------GEIGDQPVG 874
++QF Y IE S T E G + +G
Sbjct: 862 -VIQFIYGEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILG 920
Query: 875 SLSACAISEAAYSALDQPISLLETSPLLNLKNVLECGSKKSNADQTMSLFLSNKLGKRRH 934
L + + Y L + L + N + + F +
Sbjct: 921 DLKLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDL 980
Query: 935 GFEYGALEVKNHLECLMLSDIVSTSMIIYSPQTGSMKHFSPWICHFHVRKEIMKRTGLKE 994
+ L VK+ E L+ + + II + Q ++ F + + +++ L +
Sbjct: 981 TIKDIVLGVKDLQENLL--VLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTK 1038
Query: 995 HSIIDSLYR 1003
+ L
Sbjct: 1039 QAFDWVLSN 1047
|
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 1449 | Back information, alignment and structure |
|---|
| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} Length = 1504 | Back information, alignment and structure |
|---|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1443 | |||
| d1twfa_ | 1449 | RBP1 {Baker's yeast (Saccharomyces cerevisiae) [Ta | 100.0 | |
| d1smyd_ | 1504 | RNA-polymerase beta-prime {Thermus thermophilus [T | 100.0 |
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: beta and beta-prime subunits of DNA dependent RNA-polymerase superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase family: RNA-polymerase beta-prime domain: RBP1 species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Probab=100.00 E-value=0 Score=2035.91 Aligned_cols=1137 Identities=22% Similarity=0.340 Sum_probs=903.4
Q ss_pred CCCCCEEEEEEEEECCCHHHHHHCCCEEEECC------------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf 87783001058998389699974464087048------------987889999999999878899999987889661144
Q 000525 10 LEVPSGILTGISLGISTDTEKEKLSVMEIGAV------------SEVTNPRLGLPNPTNECSSCGAKDRKACEGHFGFIK 77 (1443)
Q Consensus 10 ~~~~~~~I~~I~F~i~S~eEI~klSv~eIt~~------------~GL~DpRLG~~~~~~~C~TCg~~~~~~CpGHFGhIe 77 (1443)
.++|.++|++|+|+++||+||+++|++||++| |||+|||||+++++..|.|||. +..+|||||||||
T Consensus 6 ~~~p~~~i~~i~f~~~s~eeIr~~S~~ei~~~~~~~~~~~~p~~~Gl~d~rlG~~~~~~~C~tC~~-~~~~CpGHfGhIe 84 (1449)
T d1twfa_ 6 SSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSIDRNLKCQTCQE-GMNECPGHFGHID 84 (1449)
T ss_dssp CCSCBCCCCEEECCBCCHHHHHHTCCCCCCCSCCSCTTSCCSCCSSSSCSSSCCCTTCCCSSSCCC-CTTSCCCCCCCEE
T ss_pred CCCCCCEECEEEEEECCHHHHHHHCCEEECCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCC-CCCCCCCCCEEEE
T ss_conf 867656406679992589999985356980778562899999999976663389998699989998-7749999987567
Q ss_pred CCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCHHHHCC----------------CCCCCC----------------CCCC
Q ss_conf 47322340228899999720143321146730343011----------------346446----------------3364
Q 000525 78 FPFTILHPYFLSDIAKLLNSICPKCKTIRKERQKGAGS----------------SRKEQP----------------RVCK 125 (1443)
Q Consensus 78 L~~PVfHp~f~~~i~~IL~~iC~~C~~lll~~~~k~l~----------------~~~~~~----------------~~C~ 125 (1443)
|+.|||||+|++.+.++|+|+|++|++++++...+.+. ..++.. ..|+
T Consensus 85 L~~PV~h~~f~~~~~~~L~~~C~~C~~l~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (1449)
T d1twfa_ 85 LAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNELMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRG 164 (1449)
T ss_dssp EEEEEECGGGHHHHHHHHHHBCTTTCCBSCCTTSHHHHHHHTCCSHHHHHHHHHHHHTTCCBCCSEECCSSCTTSCEECC
T ss_pred ECCCCHHHHHHHHHHHHHHHHHHCCCCEEECCCHHHHHHHHHHCCHHHHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCC
T ss_conf 26625438999999999998521057785166389999887530566556789987423143000010013256665237
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCEEEHHHHHHHCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 3546888888543112466444584320100322200137888654334457--64311123468974112999999983
Q 000525 126 YCVRNPAQWYPRMRFKLSSKDLSGKTAIIVEIDEKLSKKNKKLPDDYWGFIP--FDAQQEENSVKPNRKVLSCKQVSYLL 203 (1443)
Q Consensus 126 ~C~~~~~~~~p~i~~~~s~~~~~~k~~ii~e~~~~~~~k~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~LsP~~V~~iL 203 (1443)
+|+.. .|.+ ..+.+.... +.........++..+.++|.+++++|
T Consensus 165 ~c~~~----~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~ 210 (1449)
T d1twfa_ 165 GCGNT----QPTI------------------------------RKDGLKLVGSWKKDRATGDADEPELRVLSTEEILNIF 210 (1449)
T ss_dssp SCCCB----CCCC------------------------------EECSSCEEEEECSSSSCTTSCSCEEEEECHHHHHHHH
T ss_pred CCCCC----CHHH------------------------------HHHHHHHHHHHHHHHHCCCCCCHHHEECCHHHHHHHH
T ss_conf 87767----7434------------------------------3334777778877532034453543148999999999
Q ss_pred CCCCHHHHHHC-----CCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCH---------H
Q ss_conf 13893457310-----479884144215568998986444565556642333344799999998509807---------8
Q 000525 204 KDVDPSIREEF-----ILSKDAPFLKCFPVTPNNHRVTEVPHAFSHEKKLFFDNWTRHLKKMVDYRGRDI---------E 269 (1443)
Q Consensus 204 k~I~~e~~~~~-----~~rpE~liLt~LPVPPn~iRPs~~~~~~~ng~~~~eDdlT~~l~~Iv~~~~~~~---------~ 269 (1443)
++|+++++..+ .++||||||++|||||+++||++..+ +.++.+||+|.+|++|++.|.... .
T Consensus 211 ~~i~~~~~~~l~~~~~~~~p~~~~l~~lpV~P~~~RP~~~~~----~~~~~~~dlt~~~~~Ii~~n~~l~~~~~~~~~~~ 286 (1449)
T d1twfa_ 211 KHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPPVRPSISFN----ESQRGEDDLTFKLADILKANISLETLEHNGAPHH 286 (1449)
T ss_dssp TTSCHHHHHHTTCBTTTBCGGGGEEEEECCCCTTTSCCCCCS----SSCCCCCHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred HHCCHHHHHHHCCCCCCCCHHHEEEEEEECCCCCCCCCEEEC----CCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHH
T ss_conf 738886898747886789867887662336998768716948----9862678689999999999999999987399577
Q ss_pred HHHHHHHHHHHHH-HHCCCCCCCCHHHHHHCCCCCC----CCCCCC-CHHHCCCCCCCCCCCCCEEEECCCCCCCCCCCC
Q ss_conf 8999999999865-3015666884157650158766----676784-112100147788988760683898775331005
Q 000525 270 LSHLVQDCLKISK-LHLDKSSRKDSAEVRQKKNIDI----SNSSGL-RWIKDVVLGKRNDDCFRMVVTGDPNIKLKEIGI 343 (1443)
Q Consensus 270 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~q~~~~~~----~~~~G~-r~~R~~l~GKRv~~s~RsVI~pdp~l~~~evgi 343 (1443)
........++... ..+|+.....+. ..++.++.. ....|+ .+||+|||||||||||||||||||+|+++||||
T Consensus 287 ~~~~~~~~LQ~~v~~~~dn~~~~~~~-~~~~~~~~~k~i~~~L~gK~GrfR~nl~GKRVd~s~RsVI~pdp~l~~~evGv 365 (1449)
T d1twfa_ 287 AIEEAESLLQFHVATYMDNDIAGQPQ-ALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVGV 365 (1449)
T ss_dssp HHHHHHHHHHHHHHHHHCCCSSCCCC-CSSCTTCCCCCSTTSCTTTTTTSSGGGTTCSCCSEEEEEEEECTTSCTTEEEE
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCH-HCCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCCCCCEEECCCCCCCEEECCC
T ss_conf 89999999999999843556568840-00466777620666751610443211265533666530452587531001211
Q ss_pred CHHHHHHCCCCEEECHHHHHHHHHHH-CCCCCCCCCCEEE-ECCEEEEECCC-----CCCCCCCEEECEECCCCEEEEEC
Q ss_conf 68878642730310302389866531-0242336861475-08917781022-----33457777852000473699808
Q 000525 344 PCQVAERLQISERLNSWNWERLSVCI-SFRLLEKGELYVC-RKGGLVRIRRI-----DALELGDIIYRPLTDGDIVLINR 416 (1443)
Q Consensus 344 P~~~a~~lt~pe~V~~~Ni~~L~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~-----~~l~~g~~v~R~l~dgd~vl~NR 416 (1443)
|..||++|||||+||+||+++|++++ +....++|+.++. ++|..+.++.+ ..+++||+|+|||+|||+|||||
T Consensus 366 P~~~A~~Lt~pe~v~~~n~~~l~~~v~ng~~~~pga~~~~~~~g~~~~l~~~~~~~~~~l~~g~~V~r~l~~gd~Vl~NR 445 (1449)
T d1twfa_ 366 PKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKRAGDIQLQYGWKVERHIMDNDPVLFNR 445 (1449)
T ss_dssp EHHHHTTCEEEEECCTTTHHHHHHHHHHTTTSSSCEEEEECTTCCEEETTSCTTTTCCCCCTTCEEEEECCTTCEEEEEC
T ss_pred HHHHHHHCCCCEEECHHHHHHHHHHHHCCCCCCCCCCCEECCCCCEEEEECCHHHHHHHCCCCCEEEEEEECCEEEEECC
T ss_conf 89999618978254089999999999708744776200000467269885111222110366638999972470689547
Q ss_pred CCCCCCCCCCCCCEEEECCCCEEEECCCCCCCCCCCCCCCCEEEECCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCH
Q ss_conf 99888455421007990599658845667899989888881453027984389999997174688545899996211331
Q 000525 417 PPSIHPHSLIALTVKVLPISSVVTINPLCCSPFHGDFDGDCLHGYIPQAIGARVELTELVALDKQLINQQSGRNLLSLGQ 496 (1443)
Q Consensus 417 qPsLHk~sima~~v~v~~~~~t~r~n~~~c~pynADFDGDemn~h~Pqs~~a~aE~~~L~~~~~~~isp~~g~p~~~l~Q 496 (1443)
||||||+|||||+|||+|+ +||||||+||+||||||||||||+|+|||++|||||.+||++.+|+++|++|+|+++++|
T Consensus 446 qPtLHr~si~a~~~~v~~~-ktirl~~~vc~~yNADFDGDeMnvhvPqs~~A~aEa~~Lm~~~~nilsp~~G~pi~~~~Q 524 (1449)
T d1twfa_ 446 QPSLHKMSMMAHRVKVIPY-STFRLNLSVTSPYNADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQ 524 (1449)
T ss_dssp SSCCSGGGEEEEEEEEESS-SSEEECGGGHHHHTCCSSSCEEEEECCCSHHHHHHHHHHTBGGGGSEETTTTEESCCCCH
T ss_pred CCCHHHHCCCCCEEEEECC-CEEEECCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEECC
T ss_conf 6413331101224686148-547852110111145545654789716888899999998641325346667862431021
Q ss_pred HHHHHHHHHCCCCCCCCHHHHHHHHHHCC---CCCCCCCEECCCCCCCCHHHHHHHHCCCCCCCCCC----------CCC
Q ss_conf 48777876416864359999999996199---96578813113688543078888513999983113----------897
Q 000525 497 DSLTAAHLLMEDSVLLSHLQMQQLQMFCP---HRFLSPDIFKISKDSVWSGKQLFSMLLPPDFEYTF----------PSK 563 (1443)
Q Consensus 497 D~l~g~~lLT~~d~fl~~~~~~~l~~~~~---~~lp~PaI~Kp~~~~lwTGKQifs~~lp~~~~~~~----------~~~ 563 (1443)
|+|+|+|+||.+|+|+++++++|++++.. ..+|+|||+|| +++|||||+||++||.++++.. .++
T Consensus 525 D~~lg~y~LT~~~~f~~~~~~~~~~~~~~~~~~~~~~p~~~~~--~~~~tgkqi~s~~l~~~~~~~~~~~~~~~~~~~~~ 602 (1449)
T d1twfa_ 525 DTLCGIRKLTLRDTFIELDQVLNMLYWVPDWDGVIPTPAIIKP--KPLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDN 602 (1449)
T ss_dssp HHHHHHHHHHSTTCEEEHHHHHHHHHHSTTCCSCCCCCSBCSS--SCEEEHHHHHHHHSCTTCCEEECCTTCCTTCTTCC
T ss_pred CHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEEE--EECCCCCEEEEEECCCCCEEEECCCCCCCCCCCCC
T ss_conf 3042312011364457899999999735454654468707763--20125646899972687302321578621156776
Q ss_pred CEEEECCEECCC-CCCCCCCCCCCCHHHHHHHHHCHH-HHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCHHHHHHH
Q ss_conf 289927900035-576532478765999999982199-999999999999999732564000286544654202899999
Q 000525 564 DVYISGGKLISA-EGSSWLRDYEGNLFQYLIKRYRDK-VLDFLYAAQEVLCEWLSVRGMTVSLSDLYLASHSCSRKILMD 641 (1443)
Q Consensus 564 ~v~i~nGell~~-~~k~~lg~~~~~li~~l~~~~G~~-a~~fl~~~q~l~~~~L~~~GFSigi~D~~~~~~~~~~k~~~~ 641 (1443)
.++|+||+|+++ ++|+++|++.++|+|.++++||++ ++.||+.+|+++++|++++|||+|++|++++++...
T Consensus 603 ~~~i~~g~l~~g~l~k~~~g~~~~~li~~i~~~~G~~~~~~~l~~~~~l~~~~l~~~Gfs~gi~D~~~~~~~~~------ 676 (1449)
T d1twfa_ 603 GMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMR------ 676 (1449)
T ss_dssp SEEEETTEEEESCCCHHHHSSCTTSHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHTTCBCCCGGGGCCCHHHHH------
T ss_pred EEEEECCEEEECCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHEEECCCCCCCHHHH------
T ss_conf 59987786664310264416543452000000003799999998887789999986521005212124420468------
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 99952999986310235677767755200477655334110011179888799889999989898899999998608999
Q 000525 642 EIFYGLREAQDTCNFQQLMVDSHMNFLMSAKDSESTRSLQGEHLSYEKQRSAALSQASVDAFKHVFWDIQNLAYKYGSKD 721 (1443)
Q Consensus 642 ~i~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~~~~~L~~~~~~~~~~~~~~i~~~~~~~~~~~ 721 (1443)
++...+.++.+.+. +....+..+.....+... ....+|.++.. .|.++.+++++.+.+.+.++
T Consensus 677 ~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~---~~~~~e~~v~~--------~~~~~~~~~~~~~~~~~~~~ 739 (1449)
T d1twfa_ 677 EITETIAEAKKKVL------DVTKEAQANLLTAKHGMT---LRESFEDNVVR--------FLNEARDKAGRLAEVNLKDL 739 (1449)
T ss_dssp HHHHHHHHHHHHHH------HHHHHHHHTCCCCCTTCC---HHHHHHHHHHH--------HHHHHHHHHHHHHHHHSCTT
T ss_pred HHHHHHHHHHHHHH------HHHHHHHHHHHCCCCCCC---HHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHCC
T ss_conf 88888888766578------899999876641356872---78999999999--------99999999999876644025
Q ss_pred CCCEEEECCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 95200000378655022767451222101379986566865420000248899984235895444410233337998356
Q 000525 722 NSLLAMFKAGSKGNLLKLVQHSLCLGLQHSLAPLSFRFPHELSCAAWNRLRAGDNTECAKSYIPSAVVENSFLTGLNPLE 801 (1443)
Q Consensus 722 N~l~~Mv~sGSKGS~~Nl~Q~~~~lGqQ~~~g~~~~r~p~~~~~~~~~~~~~~~~~~~~~~~~~~GfV~~sf~~GL~p~E 801 (1443)
|++++|+.||||||+.|+.||+||+|||.++|+ |+|.++++|++|+|.+++..|.+ +|||.+||++||+|.|
T Consensus 740 N~~~~M~~SGakGs~~n~~Qi~g~~Gqq~~~g~---ri~~~~~~r~lp~f~~~~~~~~~-----~GfI~~sf~~GL~p~E 811 (1449)
T d1twfa_ 740 NNVKQMVMAGSKGSFINIAQMSACVGQQSVEGK---RIAFGFVDRTLPHFSKDDYSPES-----KGFVENSYLRGLTPQE 811 (1449)
T ss_dssp CHHHHHHHHTSSCCHHHHHHHHSCCEECCBTTB---SCCCCBTTBSSTTSCTTCCSTTT-----TTEECSCTTTCCCHHH
T ss_pred CCHHHHEECCCCCCCCCHHHHHHHHHHHCCCCC---CCCCCCCCCCCCCCCCCCCCCCC-----CCCCCCHHHHHHCCHH
T ss_conf 526764121145783146888766533201575---35546666666667889998132-----6760323554112021
Q ss_pred HHHHCCCCCCCCCCCCC--CCCCCCHHHHHHHHHHEEEEECCEEECCCCCEEEEEEECCCCCCC----------------
Q ss_conf 78740358875212334--798850189999874037633564870477617888731579999----------------
Q 000525 802 CFIHSVTSRDSSFSDNA--DLPGTLTRRLMFFMRDLCTAYDGTVRNAYGNQIVQFSYNIEGTST---------------- 863 (1443)
Q Consensus 802 fffH~magReGlidta~--a~sGYLqRrLik~LeDl~v~YDgTVRns~G~~Iiq~~yg~~g~~~---------------- 863 (1443)
||||||||||||+|||+ |+||||||||||+|||++|+||+||||+.|+ ||||.||+||.+.
T Consensus 812 yf~h~~~gReGLiDTAvkTa~sGYl~RrLvk~ledv~v~yD~tvr~~~g~-IiQf~YGeDg~d~~~~e~~~~~~~~~~~~ 890 (1449)
T d1twfa_ 812 FFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGN-VIQFIYGEDGMDAAHIEKQSLDTIGGSDA 890 (1449)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCEECTTSCEECTTCC-EEESSGGGTTBCGGGEEEEECGGGSSCHH
T ss_pred EEEEECCCHHHHHHHCCCCCCCHHHHHHHHHHHCCEEEEECCCCCCCCCE-EEEEEECCCCCCCEEEEEEECCEECCCHH
T ss_conf 25431230211333202546408899999997557599746866768955-99999757554311788753142425248
Q ss_pred --------------------------------------------------------------------------------
Q ss_conf --------------------------------------------------------------------------------
Q 000525 864 -------------------------------------------------------------------------------- 863 (1443)
Q Consensus 864 -------------------------------------------------------------------------------- 863 (1443)
T Consensus 891 ~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~~~i~~~~~~~l~~~r~~l~~~~~~~~~~~~~p~~~~~~~~~~~~~~ 970 (1449)
T d1twfa_ 891 AFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTF 970 (1449)
T ss_dssp HHHHHHCCCTTCTTTSCCTTTBTTHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCEEEEESCHHHHHHHHHHHT
T ss_pred HHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHC
T ss_conf 76655000004654445756765457774118888887899999988788899871575434357600999998645541
Q ss_pred --------------------------------------------------------------------------------
Q ss_conf --------------------------------------------------------------------------------
Q 000525 864 -------------------------------------------------------------------------------- 863 (1443)
Q Consensus 864 -------------------------------------------------------------------------------- 863 (1443)
T Consensus 971 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~ 1050 (1449)
T d1twfa_ 971 HIDHTKPSDLTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEA 1050 (1449)
T ss_dssp TCCTTSCBCCCHHHHHHHHHHHHTTCCSCCCCSHHHHHHHHHTTHHHHHHHHHHSCHHHHHHTSCCCHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHEECCCCHHHHHHCCCCCCEEEEEECCCCCHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf 02557644454899999888887643010143112233301542002220014320234344436689999889988888
Q ss_pred ---CCCCCCCCEECCCCCCCHHHHHHHCC---CCCCC---CCCCCCCCCCHHHHCCCCCCCCCCCEEEEEHHHHCCCCCC
Q ss_conf ---99655880001455234148988200---46542---0034543331122104998777764762101110001234
Q 000525 864 ---PTGEIGDQPVGSLSACAISEAAYSAL---DQPIS---LLETSPLLNLKNVLECGSKKSNADQTMSLFLSNKLGKRRH 934 (1443)
Q Consensus 864 ---~~~~~~Ge~VG~~aAqSigEp~tq~l---~~~~~---~l~~~gl~rLkEil~~~~~~k~~~~~~~l~Ls~~~~k~~~ 934 (1443)
.+.+.||||||++||||||||+|||+ +|.++ .+.+.|+||++|+++++++.+ +|.+.+++.+...
T Consensus 1051 ky~~slv~pGEaVGiiAAQSIGEP~TQmTLnTFH~AG~~~~nvT~GiPRl~EIl~ask~ik--tp~~~v~l~~~~~---- 1124 (1449)
T d1twfa_ 1051 QFLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVAKNMK--TPSLTVYLEPGHA---- 1124 (1449)
T ss_dssp HHHHHBCCTTCCHHHHHHHHHHHHHTTCCC----------CCSCCHHHHHHHHTTTCSSCS--SCEEEEEBCSSSS----
T ss_pred HHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCEEEECCCCCCHHHHHHEEEECCCC--CCCEEEEECCCCC----
T ss_conf 8766455136751212122216613355554322112443001355043332222002567--8621577402210----
Q ss_pred CCHHHHHHHHHHHCCCCHHHHHCEEEEEECCCCCC------------------------CCCCCCEEEEEEEEHHHHHHC
Q ss_conf 71143889985011002620011279998189986------------------------556686079998209889980
Q 000525 935 GFEYGALEVKNHLECLMLSDIVSTSMIIYSPQTGS------------------------MKHFSPWICHFHVRKEIMKRT 990 (1443)
Q Consensus 935 ~~e~~a~~Vk~~Le~itL~di~~~i~i~y~p~~~~------------------------~~~~sp~v~~i~Ldke~l~~~ 990 (1443)
.....+..++..++++++++++....+.|+|+... ....+||+.+++++++.+...
T Consensus 1125 ~~~~~~k~~~~~i~~~~l~~vv~~~~v~~~~~~~~~~i~~~~~~i~~~~~~~~~~~~~~~~~~~~~ilrl~l~~~~~~~k 1204 (1449)
T d1twfa_ 1125 ADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELDRAAMNDK 1204 (1449)
T ss_dssp SCHHHHHHHHHHHSCEEGGGTEEEEEEEECCCSSSCSSGGGHHHHHTSSCC----------CCCSEEEEEEECHHHHHHT
T ss_pred HHHHHHHHHHHEEEEEECCCEEEEEEEEECCCCCEEEEEEECCEEEEEEEECCCHHEEEECCCCCCEEEEEECHHHCCCC
T ss_conf 35999886653146630010466459997377733899875134367778425122023013577238999715551467
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCEEEEEEEECC-------CCCCHHHHHHHHHHH
Q ss_conf 9998999999998446666421036895045237656522113579934999995135-------544324299999986
Q 000525 991 GLKEHSIIDSLYRQCKAARTELKISVPDMLISNKDCSSINMQKECNDAFCVTVMIVEN-------FKRTSIDLETIQMWV 1063 (1443)
Q Consensus 991 ~L~i~~i~~~i~~~~~~~~~~lk~~~~~i~i~~~~c~~~~~~~~~~~~~~i~v~~~~~-------~~~~~~~l~~l~~~i 1063 (1443)
.+++..+.+.+...... ++.+..+ ++ ..+.+.++...... .......+..+...+
T Consensus 1205 ~i~~~~i~~~i~~~~~~----------~~~~~~~-----~~---~~~~~~i~~~~~~~~~~~~~~~~~~~~~l~~i~~~~ 1266 (1449)
T d1twfa_ 1205 DLTMGQVGERIKQTFKN----------DLFVIWS-----ED---NDEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTM 1266 (1449)
T ss_dssp TCCHHHHHHHHHHHHGG----------GEEEEEC-----CT---TSSSCEEEEEEC----------CCTTHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHCCC----------CEEEEEC-----CC---CCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHC
T ss_conf 88778878999986089----------8589946-----88---864478853667753210003656689999877413
Q ss_pred CCCCCCCEEECCCCCEEEEEEECCCCCCCCCC-CCCCCEEEEEEEECCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCH
Q ss_conf 02233625521256118998513422346788-99975199999321554440147788541003444101334577839
Q 000525 1064 MPFLLKTVVKGFREIKKVDILWKDKQKASKSH-DDSFGELYLRVSMSGQCHITSLWSALMNDCHQIMDMIDWTRSHPDNI 1142 (1443)
Q Consensus 1064 ip~ll~~vvkG~~~I~rv~I~~~~~~~~~~~~-~~~~~el~l~~~~s~~~~~~~~~~~ll~~~~~~~~~id~~rt~~n~I 1142 (1443)
++ +++|+|+++|+|+.+.+.+.......+ .....+|+++|+|++ +.+++. .+.|||+|++||||
T Consensus 1267 l~---~~~v~Gi~~I~rv~i~~~~~~~~~~~~~~~~~~~~vl~teG~n-----------l~~~l~-~~~iD~~~~~sNdI 1331 (1449)
T d1twfa_ 1267 LE---NITLRGVENIERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVN-----------LSEVMT-VPGIDPTRIYTNSF 1331 (1449)
T ss_dssp HH---HCEEESCTTCCCEEEEEEEEEEECTTSSEEEEEEEEEEEESCC-----------HHHHTT-STTBCTTTCBCSCH
T ss_pred CC---CCEEECCCCEEEEEEECCCCEEECCCCCCCCCCCEEEECCCCC-----------HHHHHC-CCCCCCCCCCCCCH
T ss_conf 38---8087078884799996246534178873725870999868387-----------888860-69916420740869
Q ss_pred HHHHHHHCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCEEEEEECCHHHHHHHHCCCCCCCHHHHCCCCCCHH
Q ss_conf 99999880999999999999997311697448889999883103212385126554553301478765001122336279
Q 000525 1143 RSFCLAYGIDAGLQFFLTNLESAISDTGKNILPEHLLIVANTLSATGEFVGLNAKGLALQRKHSSVSSPFVQAFFSNPGA 1222 (1443)
Q Consensus 1143 ~ei~~~lGIEAAr~~ii~ei~~~~~~~G~~V~~rHl~LlAd~MT~~G~~~gi~r~G~~~~~~~~~~~Spl~~asFe~t~~ 1222 (1443)
++|+++|||||||++|++||+.||+.||++||+|||.||||+||++|.+.||||+|+.++.. |||++||||+|++
T Consensus 1332 ~dil~~lGIEAar~~ii~EI~~V~~~~Gi~Id~rHi~LIad~MT~~G~~~~i~R~gi~~~~~-----S~l~~aSFEeT~~ 1406 (1449)
T d1twfa_ 1332 IDIMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNT-----GALMRCSFEETVE 1406 (1449)
T ss_dssp HHHHHHHCHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTTTBSSCCCSSSCSSSCSSC-----CTTSSCCSSCSHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCEECHHHHHHHHHHHCCCCEEEECCHHHHCCCCC-----CHHHHHHCHHHHH
T ss_conf 99999772999999999999999986595887999999999977588571011898146985-----8988700643999
Q ss_pred HHHHHHHHCCCCCCCCCCCEECCCCCCCCCCCCCEEEEECCCCC
Q ss_conf 99999960897578892000004899876575200889706888
Q 000525 1223 SFIKAAKAGAVDNLQGSVDALGWGKVPSVGTGGHFDIIYSGEGR 1266 (1443)
Q Consensus 1223 ~l~~AA~~g~~D~l~gvs~~ii~G~~~~~GTgg~f~ll~~~~~~ 1266 (1443)
+|.+||.+|+.|+|.|+|||||+|+++|+|| |+|||+++.+.+
T Consensus 1407 vL~~AAi~g~~D~L~G~senIi~G~~ip~GT-G~fdll~d~~~l 1449 (1449)
T d1twfa_ 1407 ILFEAGASAELDDCRGVSENVILGQMAPIGT-GAFDVMIDEESL 1449 (1449)
T ss_dssp HHHHHHHHTCEECCCSHHHHHHTTCCCSSGG-GSSEEEECSCCC
T ss_pred HHHHHHHCCCCCCCCCCHHHEECCCCCCCCC-CCCEEEECHHHC
T ss_conf 9999996399142788078702689889865-162888665319
|
| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
|---|