Query 001125
Match_columns 1149
No_of_seqs 237 out of 1611
Neff 6.8
Searched_HMMs 29240
Date Mon Mar 25 12:18:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001125.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/001125hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3h0g_B DNA-directed RNA polyme 100.0 9E-295 3E-299 2753.4 42.1 1109 24-1149 10-1209(1210)
2 1twf_B DNA-directed RNA polyme 100.0 3E-290 1E-294 2745.4 73.6 1105 26-1148 25-1220(1224)
3 4ayb_B DNA-directed RNA polyme 100.0 4E-269 1E-273 2570.3 74.6 1098 24-1148 6-1120(1131)
4 2a6h_C DNA-directed RNA polyme 100.0 6E-231 2E-235 2151.8 39.9 942 28-1148 2-1105(1119)
5 3lu0_C DNA-directed RNA polyme 100.0 2E-215 6E-220 1983.5 43.0 945 24-1145 7-1340(1342)
6 3mlq_A DNA-directed RNA polyme 100.0 1.8E-30 6.1E-35 269.0 9.6 119 43-197 2-132 (188)
7 3tbi_B DNA-directed RNA polyme 99.3 7.5E-13 2.6E-17 138.6 6.4 99 778-881 2-107 (228)
8 3qqc_A DNA-directed RNA polyme 99.1 3E-11 1E-15 141.1 6.1 63 1086-1148 2-64 (436)
9 3lti_A DNA-directed RNA polyme 98.8 4.2E-08 1.4E-12 107.8 15.4 68 192-264 4-78 (296)
10 3mlq_A DNA-directed RNA polyme 96.3 0.002 6.7E-08 66.9 3.9 65 364-433 121-185 (188)
11 1gh9_A 8.3 kDa protein (gene M 61.5 3.8 0.00013 35.5 2.2 48 1087-1136 2-55 (71)
12 1yuz_A Nigerythrin; rubrythrin 37.0 17 0.00058 37.9 2.9 29 1085-1117 167-196 (202)
13 2apo_B Ribosome biogenesis pro 23.7 36 0.0012 28.4 2.0 24 1088-1117 5-28 (60)
14 1lko_A Rubrerythrin all-iron(I 22.0 35 0.0012 35.2 2.0 30 1085-1116 151-180 (191)
15 3pwf_A Rubrerythrin; non heme 21.9 54 0.0019 33.1 3.4 26 1088-1116 137-162 (170)
16 1dl6_A Transcription factor II 21.6 51 0.0018 27.2 2.6 34 1082-1115 4-38 (58)
No 1
>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00 E-value=9.2e-295 Score=2753.36 Aligned_cols=1109 Identities=38% Similarity=0.634 Sum_probs=1009.2
Q ss_pred CCcccccccccccccccccchHHHHHHHHHHHHHhCHHHHHHhcccceecCC-----------CcEEEEEeEEEEcCCcc
Q 001125 24 PVKSVVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGID-----------PSIFLRFKDVRIGQPSM 92 (1149)
Q Consensus 24 ~~~~~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~~I~~~~~-----------~~~~l~~~~i~i~~P~~ 92 (1149)
..++.+|+|.++++||+.++|++|||||||+|+++||++|++++++|+++.+ .++.|+|++++|++|++
T Consensus 10 ~~~~~ed~w~li~aff~~~gLV~qHIdSFN~FI~~~Lq~IV~~~~~I~~~~~~~~~~~~~~~~~~~~l~f~~i~v~kP~~ 89 (1210)
T 3h0g_B 10 ETLTQEDCWTVISSFFEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQHTGAQGDVTRRYEINFGQIYLSRPTM 89 (1210)
T ss_dssp CCCCHHHHHHHHHHHHHHTCTTCSSSSSSSSSTTTTHHHHSSTTCCCC-------------------CEEEEEECCCCCC
T ss_pred ccCCHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhHHHHHhccCcEEecCccCcccccccCCceEEEEEEEEEEcCCce
Confidence 3488999999999999999999999999999999999999999999976542 36899999999999999
Q ss_pred ccCC-cCCCCChhhHhhcCCccCccEEEEEEEEECCcc----------c---ceeeEEeeEEeeccceeeccccccCCCC
Q 001125 93 TVDG-VSEKLNPHMCRLSDMTYAAPILVNIEYVQGSHT----------E---KTTMEKNDVVIGRIPIMLRSCRCVLYGK 158 (1149)
Q Consensus 93 ~e~~-~~~~l~P~EcR~r~lTYsa~l~v~i~~~~~~~~----------~---~~~~~~~~v~lG~IPIMvkS~~C~L~~~ 158 (1149)
.+++ ...++||+|||+|++||+|||+|+|+++.++.. . .......++.||+|||||||++|||+++
T Consensus 90 ~e~d~~~~~l~P~EcRlR~lTYsapl~Vdi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~IG~iPIMlrS~~C~L~g~ 169 (1210)
T 3h0g_B 90 TEADGSTTTMFPQEARLRNLTYSSPLYVDMRKKVMVAADSNVPIGEEEWLVEEEDEEPSKVFIGKIPIMLRSTFCILNGV 169 (1210)
T ss_dssp BCTTSCBCCCCTTTTTTTCCCCEEEEEEEEEC---------------------CCSSCCCEEEEEEECCSSSTTSSSSSC
T ss_pred ecCCCcccccCHHHHHhcCCccceeEEEEEEEEEcCccccccccccccccccccccccceEEEecCCEEeCCCcccCCCC
Confidence 8877 788999999999999999999999999875421 0 0112235799999999999999999999
Q ss_pred CHHHHHhcCCCCCCCCcEEEEcCchhhhHHhhhccCCeEEEEeCCC---CcEEEEEEecCCCcc----eEEEEEee----
Q 001125 159 DEAELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKNRVIIDTDKK---GNINASVTSSTETVK----SKTVIQME---- 227 (1149)
Q Consensus 159 s~~elv~~~E~~~d~GGYFIING~ERVI~~q~~~s~N~i~~~~~~~---g~~~a~v~s~~~~~~----s~~~~~~k---- 227 (1149)
+++||+++||||+|+||||||||+||||++|+++++|+|++++++. ..+.|.++|++.+.+ +.++.++.
T Consensus 170 s~~eL~~~gEcp~D~GGYFIING~EKVII~qerla~N~~iv~~~~~~~~~~~~a~irS~~~~~~~~~s~~~v~~~~~~~~ 249 (1210)
T 3h0g_B 170 SDSELYDLNECPYDQGGYFIINGSEKVIIAQERSAANIVQVFKKAAPSPIAYVAEIRSALERGSRLISSMQIKLMARNTE 249 (1210)
T ss_dssp CHHHHHHTTCCTTCCCCCBCGGGSCBCCCBCBCCCCSCCCCCCCCCSSSCCCCCCCCCCCCSSSCCCCCCCCCCCCCCTT
T ss_pred CHHHHHhcCCCCCCCCCEEEEeCEEEEEEechhhccceEEEEeecCCCCceEEEEEEEEecCCccceeEEEEEEEecccc
Confidence 9999999999999999999999999999999999999999986542 246788888877542 22223332
Q ss_pred --CCEEEEEEceeeccccHHHHHHHhCCCCHHHHHHHhC---CchhHHhhhHHhHHHHHhcCCcCHHHHHHHHhhhcccC
Q 001125 228 --KGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQMVG---RDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRS 302 (1149)
Q Consensus 228 --~g~i~~r~~~~~~~IPi~ilLrALG~~sD~eI~~~i~---~~~~~~~~l~~~l~~~~~~~i~t~~~al~yIg~~~r~~ 302 (1149)
++.++++++.++.+||++++|||||.+||+||++.|. .++++.+.|.++++++. .++|+++||+|||+|++..
T Consensus 250 ~~~~~i~~~~~~~~~~IPi~ivlkALg~~sD~EI~~~I~~~~~d~~~~~~l~~slee~~--~i~tq~~aL~yIG~r~~~~ 327 (1210)
T 3h0g_B 250 NSGQTIRATLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMMKPCIEEAF--VIQDKDIALDYIGKRGSTT 327 (1210)
T ss_dssp SCSCCCCCCCTTSCSCCCSHHHHTTTTCCSTTHHHHHHCCSSCCHHHHHTHHHHHHTTS--SCCSSHHHHHTTCCCSSSC
T ss_pred CCCceEEEEEeccccCCcHHHHHHHcCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHhh--hcCCHHHHHHHHHHhcccc
Confidence 5688999999888999999999999999999999994 57889999999998874 4899999999999999853
Q ss_pred CCCCCCCChHHHHHHHHHhhhccCCCCCCCCCCCccchHHHHHHHHHHhhcCCCCCCCcccccccEEccccHhHHHHHHH
Q 001125 303 TFGSPPNDREGRAFSILRDVFLANVPVHNNNFRPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFED 382 (1149)
Q Consensus 303 ~~~~~~~~~~e~~~~~L~~~ll~Hl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NkRv~l~G~Ll~~lfr~ 382 (1149)
..++.+ +++.|+++|++++|||++..+.++.+|+.||++|+|||++++.|.+.+||+|||+||||+++|+||+.+||+
T Consensus 328 -~~~~~~-~~~~a~~iL~~~lLpHl~~~~~~~~~Ka~fL~~MvrkLl~~~~G~~~~Dd~D~~~nkrl~l~G~Ll~~lfr~ 405 (1210)
T 3h0g_B 328 -GVTREK-RLRYAHDILQKELLPHITTMEGFETRKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRM 405 (1210)
T ss_dssp -CCCHHH-HHHHHHHHHTTTSSCSSCCSSSCCSSHHHHHHHHHHHHHHHHTTSSCCCCTTCSSSCCBCCHHHHHHHHHHH
T ss_pred -CCCchh-HHHHHHHHHHhhEEeCcCCCccchhHHHHHHHHHHHHHHHHhCCCCCCCCCccccCeEEecHHHHHHHHHHH
Confidence 223445 789999999999999999888888899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHHHHhccCCCc-ccccccccccceEEcccccccccccccc
Q 001125 383 LFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLERTLSTGNFD-VKRFKMHRKGMTQVLARLSFIGTLGHMT 461 (1149)
Q Consensus 383 ~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~-~~~~~~q~sGvsq~l~rln~ls~LshlR 461 (1149)
.|+++++.+++.+++.+.+.+ .+++..+++++.||++|++|||||||+ .++++++++||||+|+|+||+|+|||||
T Consensus 406 ~~~~~~~~i~~~l~k~~~~~~---~~~~~~~i~~~~It~~l~~~laTGNW~~~kk~~~~~sGvsqvl~R~n~~s~lShlR 482 (1210)
T 3h0g_B 406 LFRKMTRDVYKYMQKCVETNR---EFNLTLAVKSNIITNGLRYSLATGNWGDQKRSMVNRVGVSQVLNRYTFASTLSHLR 482 (1210)
T ss_dssp HHHHHHHHHHHHHHHHHTTCC---SCCCTTSSCSTTTSHHHHHHHSSSCSSTTSSCCSCCCCSCCBCCCSSHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHhhcCC---ccCHHHhcchhhhHHHHHHHhhcCCcccccccccCcCCEEEEcccCCHHHHHHHHH
Confidence 999999999999999877642 467777888999999999999999998 5567889999999999999999999999
Q ss_pred ccccccccccccCCCCccCCCCCcccccCCCCCCCcchhhhhccceeeeccCCCchhHHHHHhhcCceeccccCccccCC
Q 001125 462 RVSPQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHN 541 (1149)
Q Consensus 462 rv~~~f~~~~k~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~ 541 (1149)
|++++|++++|+++||+||||||||+||+|||||++|||+||||++|.||++.+.+||.++|.++||++++.+++...
T Consensus 483 rv~~p~~~~~K~~~~R~Lhpt~WG~iCP~eTPEG~~cGLvknLal~~~Isvg~~~~pI~~~l~~~gme~le~~~~~~~-- 560 (1210)
T 3h0g_B 483 RTNTPIGRDGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPSAPIIEFLEEWGLETLEDYNPSAS-- 560 (1210)
T ss_dssp BBCCSCCSSCCSSSSSSCCGGGTTTCCCSCCCSSSSTTTSCBCCSSCCBCCCCCSSHHHHHHHSSSCCCCSCCCSSSS--
T ss_pred hccCchhhccccccccccChhhheeeccccCCCCCcccccccccceeeeECCCCcHHHHHHHHHhCCcchhhcCcccC--
Confidence 999999999999999999999999999999999999999999999999999999999999999999999987765543
Q ss_pred CCceEEEECCeEEEeecChhhHHHHHHHHhhcCCcCceeEEEecccCceEEEecCCCeeeeeEEEeecC-------cccc
Q 001125 542 PNSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKG-------ISRI 614 (1149)
Q Consensus 542 ~~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~g~i~~~v~i~~~~~~~~i~I~td~GRl~RPl~~v~~~-------~~~~ 614 (1149)
++.++|||||+|||++++|..|++.||.+||+|.|+.+|||+++...++++||||+||+||||++|+|+ ++.+
T Consensus 561 ~~~tkVfvNG~wVGvh~dp~~Lv~~lR~lRR~g~Is~eVSIvrdir~rE~~IfTDaGRv~RPLfvVen~~~~~~~g~L~l 640 (1210)
T 3h0g_B 561 PNATKVFVNGVWLGVHRDPAHLTETLRSLRRRLDISAEVSIVRDIREKELRLFTDAGRICRPLFIVDNNPNSERRGELCI 640 (1210)
T ss_dssp SSSCCCCSTTCCCCCCSCHHHHHHHHHHHHTTTSSCTTCCCCCCTTTCCCCCCCSSCCBCCEEEECCCSSCSSSSCCCSS
T ss_pred CCceEEEECCEEEEEeCCHHHHHHHHHHHhhcCCCCCceEEEecCCCCeEEEecCCCcccceEEEEccCCcccccccccc
Confidence 467899999999999999999999999999999999999999999999999999999999999999986 8999
Q ss_pred hhhhHHhhhcC----------CcchhhhhccCceeEeccccccceEEEeecCCCC-------------------------
Q 001125 615 KEHHMKELLDG----------VRSFDDFLREGLIEYLDVNEENNALIALYEGDAT------------------------- 659 (1149)
Q Consensus 615 ~~~~~~~~~~~----------~~~~~~l~~~g~iE~id~~Eq~~~~Ia~~~~~~~------------------------- 659 (1149)
+++|+++|..+ ..+|++|++.|.|||||++||++++|||+++|+.
T Consensus 641 ~k~hi~~L~~~~~~~~~~~~~~~~w~~Lv~~GvIEylDaeEEet~mIamtpeDL~~~r~~~~g~~~~~~~d~~~r~k~~~ 720 (1210)
T 3h0g_B 641 RKEHIQQLIEDKDRYDIDPEQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVKPAP 720 (1210)
T ss_dssp CHHHHHHHHHHHTCCCSCTTCCCSSTTTTTTTSEEECCTTTGGGCCEESCHHHHHHHHHHTTCCCCCCSSCCSSCCCCCS
T ss_pred cHHHHHHHhcccccccccccccCCHHHHHhCCCEEEecHhhhhceeEEecHHHhhhhhhhhccccccccccchhhccccC
Confidence 99999988642 4789999999999999999999999999998862
Q ss_pred ----CCceeeeecCceeccccccccCCCCCCCCCccccccccccCCcccceeeeccccccceeeecCCCcceeechhhhh
Q 001125 660 ----PDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSLLYLLVYPQRPLLTTRTIEL 735 (1149)
Q Consensus 660 ----~~~th~Ei~P~~ilsv~AslIPF~~hNqSpRn~yq~~M~KQa~G~~~~n~~~R~D~~~y~L~ypQ~PlV~t~~~~~ 735 (1149)
..||||||||++|||||||+||||||||||||||||||+|||||++++|+..|+||++|+|+|||+|||+|+.++.
T Consensus 721 ~~~~~~~THcEIhPsmILGIcASiIPFpdHNQSPRNtYQ~aMgKQamG~~~~n~~~R~Dt~~~~L~yPQkPlv~T~~~e~ 800 (1210)
T 3h0g_B 721 NPHVHAWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDTMANILYYPQKPLATTRSMEY 800 (1210)
T ss_dssp CCSCCSCSEECSCGGGSSCSSSTTSSSSTTSCSHHHHHHHHHHTTCCSCCCTTTTTSCCSSEEEESSCBCCSSBCTTSTT
T ss_pred CCcccccccccccchhhhhheeecccCccccccchhhhhhhhhcccccccccccccccCccccEeecCcCccccchhHHH
Confidence 3589999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCcceEEEEEecCCCCCCCcEEeecccccccceeEEEEEEEEEEeecccCCccceecCCCCCCC---chhhhc
Q 001125 736 VGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILRPDRTGP---GAERMQ 812 (1149)
Q Consensus 736 ~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~p~~~~~---~~~~~~ 812 (1149)
++++|+|+|+||+||||||+||||||||||||+|+|||||||+||++|+++++++..+..+.|..|+.+.. +...|+
T Consensus 801 ~~~~elp~G~NaiVAvmsy~GYn~EDAiIink~sv~rg~~~s~~~~~y~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~ 880 (1210)
T 3h0g_B 801 LKFRELPAGQNAIVAILCYSGYNQEDSIIMNQASIDRGLFRSIFYRTYTDQEKKIGMTVMEEFERPVRSTTLRMKHGTYD 880 (1210)
T ss_dssp TTCTTSCSCCEECBEECCCSSSSCSSCEEEEHHHHTTTTTCEEEEEEEEECCCCCSSSCCCCCCCCCTTSCCSCCSCCGG
T ss_pred hCCCcccCccceEEEEeccCCCChhhheeeehhheecCceEEEEEEEEEEEeeecCCCceeEEcCCCcchhcccchhhHh
Confidence 99999999999999999999999999999999999999999999999999998876666788888875321 223789
Q ss_pred cCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCcccccceeeecCCCCCceEEEEEEEeeCCCCcEEEEEEE
Q 001125 813 ILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDKNGDLCIKFLI 892 (1149)
Q Consensus 813 ~Ld~dGi~~~G~~v~~gd~l~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~~~~~~vkv~~ 892 (1149)
+||+||||++|++|++|||||||++|......... ++.+...++|+|++++++| .|+||+|.++.+++|.+.|||++
T Consensus 881 ~LD~dGi~~~G~~v~~gDiligK~~p~~~~~~~~~-~~~~~~~~rd~s~~~~~~e--~g~Vd~V~~~~~~~g~~~vkv~~ 957 (1210)
T 3h0g_B 881 KLEDDGLIAPGTRVSGEDIIIGKTAPIPLDHEELG-QRTQLHAKRDVSTPLRSTE--SGIVDQVMVTTNQEGLKFVKVRM 957 (1210)
T ss_dssp GCCTTSSCCTTCCCCTTCCCCCCCCCC------------CCCCCCCCCCCCCTTC--CCCCCEEEEEECSSSSEEEEEEE
T ss_pred hcCCCCCcCCCCEecCCCEEEEEecCCCCCchhhc-ccccccccceeeEEecCCC--CeEEEEEEEEEecCCCeEEEEEE
Confidence 99999999999999999999999999875432221 2334556899999999999 99999999999999999999999
Q ss_pred eeecCCCccccccccCCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCchHHHHHHHhccccccccCceeeeeecc
Q 001125 893 RHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGRFHYGSAFG 972 (1149)
Q Consensus 893 ~~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~d~tpF~ 972 (1149)
|+.|+|+||||||||||||||||+|||+||||||+||++|||||||||||||||||||+|+++||||++.|.+.|+|||+
T Consensus 958 ~~~R~~~~GDK~a~RhGqKGvi~~i~~~edmPf~~~G~~pDii~NP~~~PSRMtigq~~E~~~g~~~~~~g~~~~~tpF~ 1037 (1210)
T 3h0g_B 958 RSTRIPQIGDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDIIINPHAIPSRMTVAHLVECQLSKVSALSGFEGDATPFT 1037 (1210)
T ss_dssp CCCBCCCTTCEEECTTCCCEEEEEEECTTTSCCBTTTBCCSEECCGGGSTTSCCHHHHHHHHHHHHSSSSCCCCBCCSSC
T ss_pred EEecCCCchhhhhcccCCCceeeEEeccccCCcCCCCCCCeEEECCCcCCCCccchhhhHhHHHHHHHhcCCceeeccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCHHHHHHHHHHcCCCCCCceEEEeCCCCcEEeeeEeEeeeeecccccccCcccEEecccCcccccccCccccc
Q 001125 973 EPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRA 1052 (1149)
Q Consensus 973 ~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~ 1052 (1149)
+..++++++.|+++||+++|+|+||||+||++|+++||+|++|||||+|||+||+||||+|||+.|||||++||+
T Consensus 1038 -----~~~~~~~~~~l~~~g~~~~G~~~l~~g~tg~~~~~~i~~G~~yy~kL~Hmv~dK~h~r~~gp~~~~t~QP~~gr~ 1112 (1210)
T 3h0g_B 1038 -----DVTVEAVSKLLRSHGFQSRGFEVMYHGHTGRKLVAQVFLGPTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRS 1112 (1210)
T ss_dssp -----SCCHHHHHHHHHTTTSCTTSCBCCBCSSSCCBCSSCBEECCEECEECSCCSTTTCEECSSCCBCSSSCSBCCSST
T ss_pred -----CCcHHHHHHHHHHcCcCCCCCEEEEcCCCCCCccccEEEEehHhhcchhhcccCcEEeccCCCchhccCCccccc
Confidence 789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceeeechhhhHHHHcccHHHHHHhhccCCCceeeeecccCCcceeecccccceecccccCCCccccccccHhHHHHH
Q 001125 1053 RNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLI 1132 (1149)
Q Consensus 1053 ~~GG~R~GEMErd~l~a~Gas~~l~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~l~ 1132 (1149)
|+|||||||||||||+|||||++|||||+++||.+.++||..||++++.+...+..+|+.|.++.++.++.||||||||+
T Consensus 1113 ~~GG~r~GEME~~~l~a~Gaa~~l~e~l~~~SD~~~~~vC~~cg~~~~~~~~~~~~~c~~c~~~~~i~~~~~p~~~k~l~ 1192 (1210)
T 3h0g_B 1113 RDGGLRFGEMERDCQISHGCSSVLRERLFDCSDAYRVIVCDICGLIAIASYKKDSYECRSCQNRTRFSQVYLPYAAKLLF 1192 (1210)
T ss_dssp TCCCCCCCHHHHHHHHHHTBHHHHHHHHHTTTTCCEEEEESSSCCBCCCCSSSCCCCCTTTCCSSCEEEEECCHHHHHHH
T ss_pred ccCCeeeehhhhhhhhhccHHHHHHHHhhcCCCcceeEeecCCCCeeeecccCCceEcCccCCCCccceecCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999998765555667899999999999999999999999
Q ss_pred HHHHhCCcccEEEeccC
Q 001125 1133 QELQSMNIVPRLKLAEA 1149 (1149)
Q Consensus 1133 ~EL~sm~i~~~l~~~~~ 1149 (1149)
|||+||||.+||.++++
T Consensus 1193 ~El~~~~i~~rl~~~~~ 1209 (1210)
T 3h0g_B 1193 QELMSMNIAPRLFTKNH 1209 (1210)
T ss_dssp HHHHTTTCCEECCCSTT
T ss_pred HHHHhCCCceEEEecCC
Confidence 99999999999999875
No 2
>1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B 1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B* 1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B* 1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ...
Probab=100.00 E-value=3.5e-290 Score=2745.44 Aligned_cols=1105 Identities=38% Similarity=0.644 Sum_probs=969.4
Q ss_pred cccccccccccccccccchHHHHHHHHHHHHHhCHHHHHHhcccceecCC-----------CcEEEEEeEEEEcCCcccc
Q 001125 26 KSVVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGID-----------PSIFLRFKDVRIGQPSMTV 94 (1149)
Q Consensus 26 ~~~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~~I~~~~~-----------~~~~l~~~~i~i~~P~~~e 94 (1149)
++.+|+|.++++||+.++|++|||+|||||+++||+++++++++|+++.+ .++.|+|++++|++|++.+
T Consensus 25 ~~~~d~w~li~~~~~~~~Lv~~qidSFn~Fi~~gL~~iv~~~~~I~~~~~~~~~~~~~~~~~~~~l~f~~i~l~~P~~~e 104 (1224)
T 1twf_B 25 ITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNE 104 (1224)
T ss_dssp CCTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHTHHHHHHHTTCBCC------------------CCEECCCEEEEEEECC
T ss_pred cCHHHHHHhHHHHHcCccHHHHHHHHHHHHHHHhHHHHHHhcCceeecCcccccccccccceEEEEEEEEEEEeCCceec
Confidence 48899999999999999999999999999999999999999999975322 1388999999999999987
Q ss_pred CC-cCCCCChhhHhhcCCccCccEEEEEE--EEECCccc--ce-------e--eE--EeeEEeeccceeeccccccCCCC
Q 001125 95 DG-VSEKLNPHMCRLSDMTYAAPILVNIE--YVQGSHTE--KT-------T--ME--KNDVVIGRIPIMLRSCRCVLYGK 158 (1149)
Q Consensus 95 ~~-~~~~l~P~EcR~r~lTYsa~l~v~i~--~~~~~~~~--~~-------~--~~--~~~v~lG~IPIMvkS~~C~L~~~ 158 (1149)
.+ ...+++|+|||+|++||+|||+|+++ ++.++... .. + ++ +++|++|+|||||||++|||+++
T Consensus 105 ~~~~~~~l~P~EcRlR~lTYsapl~v~v~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~v~iG~iPIMlrS~~C~L~~~ 184 (1224)
T 1twf_B 105 SDGVTHALYPQEARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCYLSEA 184 (1224)
T ss_dssp SSSCCEECCHHHHHHTTCCCEEEEECCEECCCCC-------------------------CCEEEEEECCTTSTTSGGGTC
T ss_pred cCCccccCCHHHHhhcCCccceeEEEEEEEEEEeCCcccccccccccccccccccccceeeEeCCCCeEeccCcccCCCC
Confidence 76 77899999999999999999999994 43222100 00 1 22 45799999999999999999999
Q ss_pred CHHHHHhcCCCCCCCCcEEEEcCchhhhHHhhhccCCeEEEEeCCCCc---EEEEEEecCCCc----ceEEEEEee----
Q 001125 159 DEAELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKNRVIIDTDKKGN---INASVTSSTETV----KSKTVIQME---- 227 (1149)
Q Consensus 159 s~~elv~~~E~~~d~GGYFIING~ERVI~~q~~~s~N~i~~~~~~~g~---~~a~v~s~~~~~----~s~~~~~~k---- 227 (1149)
+++||+++||||+|+||||||||+|||||+||++++|+|++++++++. |.+.++|...+. .+..+.+.+
T Consensus 185 s~~el~~~gEcp~D~GGYFIING~ERVIv~Qe~~s~N~i~~~~~~~~~~~~~~~~irsv~~~~~~~~~~~~l~~~~~~~~ 264 (1224)
T 1twf_B 185 TESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFISTLQVKLYGREGS 264 (1224)
T ss_dssp CHHHHHHTTCCTTCCCCSEEETTEEEEECEEEEECSSCCEEEECCTTSSEEEEEEEECCCSSSCCCCCEEEEEEESCSSC
T ss_pred CHHHHHhhccCccCCCCEEEEeCcEEEEEEeeeccCCeEEEEeccCCCcceEEEEEEEEeccCCcceeEEEEEEeccccC
Confidence 999999999999999999999999999999999999999998765433 677887754332 344455556
Q ss_pred -CCEEEEEEceeeccccHHHHHHHhCCCCHHHHHHHhC---CchhHHhhhHHhHHHHHhcCCcCHHHHHHHHhhh-cccC
Q 001125 228 -KGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQMVG---RDPRYSALLLPSIEECANLDIYTQEKALEYLEGK-VKRS 302 (1149)
Q Consensus 228 -~g~i~~r~~~~~~~IPi~ilLrALG~~sD~eI~~~i~---~~~~~~~~l~~~l~~~~~~~i~t~~~al~yIg~~-~r~~ 302 (1149)
+|.+|+++++++++||+++||||||++||+||++.|+ +++.+.+.+.++|+++. .++|+++||+|||++ ++++
T Consensus 265 ~~~~i~vr~~~~k~~IPi~illkALG~~sD~eI~~~i~~~~~d~~~~~~l~~~l~e~~--~~~t~~~AL~yIg~r~~~~g 342 (1224)
T 1twf_B 265 SARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGF--VIQDRETALDFIGRRGTALG 342 (1224)
T ss_dssp SSCCEEEECTTCSSCEEHHHHHHHTTCCSHHHHHHHHCCCTTCHHHHHHHHHHHHHTT--TCCSHHHHHHHHHHTTSCTT
T ss_pred CCCEEEEEEecccccccHHHHHHHhcCCCHHHHHHHhcccCCcHHHHHHHHHHHHHhh--hcCCHHHHHHHHHHhhccCC
Confidence 7899999999878899999999999999999999996 77889999999998764 478999999999999 7664
Q ss_pred CCCCCCCChHHHHHHHHHhhhccCCCCCCCCCCCccchHHHHHHHHHHhhcCCCCCCCcccccccEEccccHhHHHHHHH
Q 001125 303 TFGSPPNDREGRAFSILRDVFLANVPVHNNNFRPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFED 382 (1149)
Q Consensus 303 ~~~~~~~~~~e~~~~~L~~~ll~Hl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NkRv~l~G~Ll~~lfr~ 382 (1149)
.++.+ +.+.|+++|+++||||++..+.+...|++||++|++||+.+..|.+.+||+|||+||||+++|+||++|||+
T Consensus 343 --~~~~~-~~~~a~~iL~~~~l~Hvg~~~~~~~~K~~~L~~mi~kLl~~~~g~~~~DD~DhlgnkRv~l~G~Ll~~lfr~ 419 (1224)
T 1twf_B 343 --IKKEK-RIQYAKDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKT 419 (1224)
T ss_dssp --SCHHH-HHHHHHHHHHHTSSTTTCCSSSCHHHHHHHHHHHHHHHHHHHTTSSCCCCTTCGGGEEEECHHHHHHHHHHH
T ss_pred --CCCcc-HHHHHHHHHHhhcccccCCCccccccHHHHHHHHHHHHHHHhcCCCCCCCCccccccEEehhhHHHHHHHHH
Confidence 23445 789999999999999999765445689999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHHHHhccCCCccc-ccccccccceEEcccccccccccccc
Q 001125 383 LFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLERTLSTGNFDVK-RFKMHRKGMTQVLARLSFIGTLGHMT 461 (1149)
Q Consensus 383 ~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~-~~~~q~sGvsq~l~rln~ls~LshlR 461 (1149)
+|+++++.+++.+++.+.+. ..+++..+++++.||++|++|||||||+.+ .++++++||||+|+|+||+|+|||||
T Consensus 420 ~~~r~~~~i~~~l~~~~~~~---~~~~~~~~i~~~~It~~lk~~~aTGNw~~~k~~~~~~sGvSQvldr~n~ls~LSH~R 496 (1224)
T 1twf_B 420 LFKKLTKDIFRYMQRTVEEA---HDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYSSTLSHLR 496 (1224)
T ss_dssp HHHHHHHHHHHHHHSCCC-----------CCCCTHHHHHHHHHHHHHCCCC---------CCCEEECCCSSHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHhhcc---cccchhhhhcccchhhcchhheeeccccccccccccccceeEeecccchhhhhhhhh
Confidence 99999999999998865432 357788888999999999999999999854 45678899999999999999999999
Q ss_pred ccccccccccccCCCCccCCCCCcccccCCCCCCCcchhhhhccceeeeccCCCchhHHHHHhhcCceeccccCccccCC
Q 001125 462 RVSPQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHN 541 (1149)
Q Consensus 462 rv~~~f~~~~k~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~ 541 (1149)
|+|+++++++|+++||+||||||||+||+|||||+|||||||||++|+|+++.+++||.++|.++||.+++..++..+
T Consensus 497 Ri~~~~~r~~k~~~~R~LHpshwG~iCPiETPEG~~cGLVknLAl~a~Is~g~~~~pi~~~l~~~G~~~l~e~~~~~~-- 574 (1224)
T 1twf_B 497 RTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQS-- 574 (1224)
T ss_dssp EEECCC------CCTTSCCGGGTTTBCSSCCCSGGGBTTEEEBCTTCEECCCCCCHHHHHHHHHTTCEEGGGCCGGGC--
T ss_pred cccccccccccccccccccCccceeecCCCCCCCcccchhhhHHhhCcccCCCCHHHHHHHHHHcCCcceeecccccC--
Confidence 999999999999999999999999999999999999999999999999999988999999999999999887665444
Q ss_pred CCceEEEECCeEEEeecChhhHHHHHHHHhhcCCcCceeEEEecccCceEEEecCCCeeeeeEEEeecC------cccch
Q 001125 542 PNSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKG------ISRIK 615 (1149)
Q Consensus 542 ~~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~g~i~~~v~i~~~~~~~~i~I~td~GRl~RPl~~v~~~------~~~~~ 615 (1149)
+..++|||||+|||++.+|..++..||.+||.|.++.+||++++...++++||||+||++|||++|+|+ ++.++
T Consensus 575 ~~~~kVfvnG~~vG~~~~p~~lv~~lr~lRR~g~i~~evsiv~d~r~~ei~I~TD~GRv~RPl~vV~~~~~~~~~~l~l~ 654 (1224)
T 1twf_B 575 PDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVR 654 (1224)
T ss_dssp TTCEEEEETTEEEEEESCHHHHHHHHHHHHHHTSSCTTCEEEEETTTTEEEEECCSCCEEEEEEEEECCCTTSSCEESCC
T ss_pred CCceEEEECCEEEEEeCCHHHHHHHHHHHHhccCCCCeEEEEEecccCeEEEeccCceeeeeEEEecCCCccccccceec
Confidence 257999999999999999999999999999999999999999999999999999999999999999998 89999
Q ss_pred hhhHHhhhcC-------------CcchhhhhccCceeEeccccccceEEEeecCCCCC----------------------
Q 001125 616 EHHMKELLDG-------------VRSFDDFLREGLIEYLDVNEENNALIALYEGDATP---------------------- 660 (1149)
Q Consensus 616 ~~~~~~~~~~-------------~~~~~~l~~~g~iE~id~~Eq~~~~Ia~~~~~~~~---------------------- 660 (1149)
++|++++..+ ..+|++|++.|.|||||++||++++||++++++..
T Consensus 655 k~hi~~L~~~~~~~~~~~~~~~~~~~w~~Lv~~G~iEyldaeEEe~~~Ia~~~~dl~~~~~~~~~~~~~~~~~R~~~~~~ 734 (1224)
T 1twf_B 655 KGHIAKLMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVSHH 734 (1224)
T ss_dssp HHHHHHHHHHHHCC---------CCCHHHHHHTTSEEEEEHHHHTTCCEESSGGGGCC---------CCCTTSCCCCCCC
T ss_pred HHHHHHhhhccccccccccccccccchhHhccCCcEEEcChhhhcCcEEeccccccCcccccccccccccccccccCCcC
Confidence 9999988643 27999999999999999999999999999988755
Q ss_pred --CceeeeecCceeccccccccCCCCCCCCCccccccccccCCcccceeeeccccccceeeecCCCcceeechhhhhccC
Q 001125 661 --DTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSLLYLLVYPQRPLLTTRTIELVGY 738 (1149)
Q Consensus 661 --~~th~Ei~P~~ilsv~AslIPF~~hNqSpRn~yq~~M~KQa~G~~~~n~~~R~D~~~y~L~ypQ~PlV~t~~~~~~~~ 738 (1149)
.||||||||++||||+||+|||+||||||||||||||||||||++.+|+..|+|++.|+|+|||+|||+|+.++.+++
T Consensus 735 ~~~~Th~EI~Ps~ILgV~ASlIPF~dHNqSpRn~yqs~M~kQA~g~~~~n~~~r~dt~~~~l~ypQkPlV~t~~~~~~~~ 814 (1224)
T 1twf_B 735 ATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEYLKF 814 (1224)
T ss_dssp CSCCCEECSCGGGGSCTTGGGSSSGGGSCHHHHHHHHHHGGGBCBCSCTTTTTCCCSEEEEESSCBCCSEECTTHHHHTT
T ss_pred chhhcccccCCccccceeecccCCccccccchhhhcccccccccccccceeeeecccccceeecCcCCeEEccccccccc
Confidence 689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcceEEEEEecCCCCCCCcEEeecccccccceeEEEEEEEEEEeecccCCccceecCCCCCC---CchhhhccCC
Q 001125 739 DKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILRPDRTG---PGAERMQILD 815 (1149)
Q Consensus 739 ~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~p~~~~---~~~~~~~~Ld 815 (1149)
+|+|+|+||+||||||+||||||||||||+|++||+|||+||++|+++++++..|..|.|..|+.+. .+...|++||
T Consensus 815 ~elp~G~N~iVAvm~y~GYN~EDAiIin~~sv~rg~~~s~~~~~y~~~~~~~~~~~~e~~~~P~~~~~~~~~~~~~~~LD 894 (1224)
T 1twf_B 815 RELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLD 894 (1224)
T ss_dssp TTSCCCEEEEEEECBSSSTTTTTEEEEEHHHHHTTTTCEEEEEEEEECCCCSCTTCCCEESCCCCSSSCBCCSSCGGGCC
T ss_pred ccCCCCeeEEEEEecccCcccchhhhhhhhHHhcCCeeEEEEEEEEEEeeeCCCCceeEecCCChhhccCccHHHHhhcc
Confidence 9999999999999999999999999999999999999999999999999886657778888886521 1224799999
Q ss_pred CCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCcccccceeeecCCCCCceEEEEEEEeeCCCCcEEEEEEEeee
Q 001125 816 DDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDKNGDLCIKFLIRHT 895 (1149)
Q Consensus 816 ~dGi~~~G~~v~~gd~l~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~~~~~~vkv~~~~~ 895 (1149)
+||||++|++|++|||||||++|+.+.+... ..+.+...++|+|++++++| .|+||+|+++.+++|.+.|||++|++
T Consensus 895 ~dGiv~~G~~V~~gDilvgK~~p~~~~~~~~-~~~~~~~~~rd~s~~~~~~e--~g~Vd~V~~~~~~~g~~~vkV~ir~~ 971 (1224)
T 1twf_B 895 DDGLIAPGVRVSGEDVIIGKTTPISPDEEEL-GQRTAYHSKRDASTPLRSTE--NGIVDQVLVTTNQDGLKFVKVRVRTT 971 (1224)
T ss_dssp TTSBCCTTCEECTTCEEECEECCCC--------------CCBBCCEECCTTC--CEEEEEEEEEECSSSCEEEEEEEEEE
T ss_pred cCCccCCccEecCCCEEEEEecCCCcccccc-ccccccCccceeEEEeeCCC--CeEEEEEEEEecCCCCEEEEEEEEec
Confidence 9999999999999999999999987543222 12344466899999999999 99999999999999999999999999
Q ss_pred cCCCccccccccCCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCchHHHHHHHhccccccccCceeeeeeccCCC
Q 001125 896 RRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGRFHYGSAFGEPS 975 (1149)
Q Consensus 896 R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~d~tpF~~~~ 975 (1149)
|+|+||||||||||||||||+|||+||||||+||++|||||||||||||||||||+||++||||++.|.+.|+|||+
T Consensus 972 R~p~iGDKfasRHGqKGvis~i~p~eDMPf~~dG~~pDiIiNPhg~PSRMtiGqllE~~lgka~~~~G~~~datpF~--- 1048 (1224)
T 1twf_B 972 KIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFT--- 1048 (1224)
T ss_dssp ECCCTTCEEECTTSCEEEEEEEECTTTSCEETTSCCCSEEECGGGSTTTTCHHHHHHHHHHHHHHHHCSCEECCSSS---
T ss_pred CCCCchhhhhhhccCcceeeeecccccCCcCCCCCCccEEeCCCcCccccccchhHHHHhhHHHHhcCceeecCCCC---
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHcCCCCCCceEEEeCCCCcEEeeeEeEeeeeecccccccCcccEEecccCcccccccCcccccCCC
Q 001125 976 GHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNG 1055 (1149)
Q Consensus 976 ~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~G 1055 (1149)
+.+++++++.|+++||+++|+|+||||+||++|+++||+|++|||||+|||+|||||||+|||++|||||++||||+|
T Consensus 1049 --~~~~~~i~~~L~~~g~~~~G~e~ly~G~TG~~~~~~i~vG~~YyqkL~HmV~DKihaRs~GP~~~lT~QP~~Gr~r~G 1126 (1224)
T 1twf_B 1049 --DITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDG 1126 (1224)
T ss_dssp --SCCHHHHHHHHHTTTSCTTSEECEECTTTCCBCSSCEEEEEEEEEEBSSCGGGTCEEECCCC----------------
T ss_pred --CccHHHHHHHHHHcCCCCCCCEEeecCCCCCCccceEEEehhHhhcchhhcccCceEEeeCCCcccccCCCcccccCC
Confidence 789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeechhhhHHHHcccHHHHHHhhccCCCceeeeecccCCcc-eeecccccceecccccCCCccccccccHhHHHHHHH
Q 001125 1056 GLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLL-GYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQE 1134 (1149)
Q Consensus 1056 G~R~GEMErd~l~a~Gas~~l~erl~~~SD~~~~~vC~~cg~~-~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~l~~E 1134 (1149)
||||||||||||+|||||++|||||+++||++.++||..||++ ++.+...+.++|+.|+++.++.++.||||||||+||
T Consensus 1127 G~RfGEMErd~L~a~Gaa~~L~ErL~~~SD~~~~~vC~~cG~~~~~~~~~~~~~~c~~c~~~~~i~~~~iPysfklL~~E 1206 (1224)
T 1twf_B 1127 GLRFGEMERDCMIAHGAASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQE 1206 (1224)
T ss_dssp CCCCCHHHHHHHHHHTCHHHHHHHHCCSSCCCEEEEESSSCSSCCEEETTTTEEEBTTTTBSSSEEEEECCHHHHHHHHH
T ss_pred ceecchhhhhhHHhccHHHHHHHHHhcCCccceeEeeccCCCeeeecccccCceECCcCCCCCccccccCCHhHHHHHHH
Confidence 9999999999999999999999999999999999999999999 776544556679999988999999999999999999
Q ss_pred HHhCCcccEEEecc
Q 001125 1135 LQSMNIVPRLKLAE 1148 (1149)
Q Consensus 1135 L~sm~i~~~l~~~~ 1148 (1149)
|+||||++||.+++
T Consensus 1207 L~sm~i~~~l~~~~ 1220 (1224)
T 1twf_B 1207 LMAMNITPRLYTDR 1220 (1224)
T ss_dssp HHHTTBCCEEESCS
T ss_pred HHHCCCeeEEEecc
Confidence 99999999999875
No 3
>4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B 2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B
Probab=100.00 E-value=4.3e-269 Score=2570.30 Aligned_cols=1098 Identities=37% Similarity=0.642 Sum_probs=1006.5
Q ss_pred CCcccccccccccccccccchHHHHHHHHHHHHHhCHHHHHHhcccceecCCCcEEEEEeEEEEcCCccccCC-cCCCCC
Q 001125 24 PVKSVVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDG-VSEKLN 102 (1149)
Q Consensus 24 ~~~~~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~~I~~~~~~~~~l~~~~i~i~~P~~~e~~-~~~~l~ 102 (1149)
..++.+|+|.+|++||+.++||+|||||||||+++||++++++++||+.. .+++.|+|.+++|++|++.+.+ ..+++|
T Consensus 6 ~~~~~~d~w~~i~~~f~~~gLV~~qidSfn~Fl~~gL~~i~~~~~pI~~~-~~~~~l~f~~~~l~~P~~~e~d~~~~~l~ 84 (1131)
T 4ayb_B 6 SNLSIDERWKVIEAYFKSKGLVRQHLDSYNDFVRNKLQEIIDEQGEIPTE-IPGLKVRLGKIRIGKPRVRESDRGEREIS 84 (1131)
T ss_dssp -CCCHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHTTTHHHHHHHCSCCCS-STTCEEEEEEEEECCSEEEETTTEEEECC
T ss_pred ccCChhHHHHHHHHHhCCCCCcHHHHHHHHHHHHhCHHHHHHhcCCeeec-CCCEEEEEEEEEEeCCeeecCCCCcCccC
Confidence 67789999999999999999999999999999999999999999999754 4679999999999999998877 678899
Q ss_pred hhhHhhcCCccCccEEEEEEEEECCcccceeeEEeeEEeeccceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCc
Q 001125 103 PHMCRLSDMTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGT 182 (1149)
Q Consensus 103 P~EcR~r~lTYsa~l~v~i~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~elv~~~E~~~d~GGYFIING~ 182 (1149)
|+|||+|++||+|||+|++.+..++ .++++++|++|+|||||+|++|||++++++||++.||||+|+||||||||+
T Consensus 85 P~EcR~r~~TYsapl~v~v~~~~~~----~~~~~~~v~lG~iPiM~~S~~C~L~~~s~~el~~~gEc~~D~GGyFIING~ 160 (1131)
T 4ayb_B 85 PMEARLRNLTYAAPLWLTMIPVENN----IEAEPEEVYIGDLPIMLKSAIDPISQYTLDKLIEIGEDPKDPGGYFIVNGS 160 (1131)
T ss_dssp HHHHHHHTCCCEEEEEEEEEEEETT----EECCCEEEEEEEEECCTTSTTSGGGGCCHHHHHHHTCCTTCCCCCEEETTE
T ss_pred HHHHHhcCCCccceEEEEEEEEECC----cEEEEEEEEEEECCEEeCCCcccCCCCCHHHHHhcCCCcCCCCcEEEeCCE
Confidence 9999999999999999999998876 566778999999999999999999999999999999999999999999999
Q ss_pred hhhhHHhhhccCCeEEEEeCCCC-c--EEEEEEecCCCcc-eEEEEEeeCCEEEEEEceeeccccHHHHHHHhCCCCHHH
Q 001125 183 EKVLLIQEQLSKNRVIIDTDKKG-N--INASVTSSTETVK-SKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQE 258 (1149)
Q Consensus 183 ERVI~~q~~~s~N~i~~~~~~~g-~--~~a~v~s~~~~~~-s~~~~~~k~g~i~~r~~~~~~~IPi~ilLrALG~~sD~e 258 (1149)
|||||+|++++||.+++++.+++ . +.|.++|+++.++ +.++...++|.+++++++.+++||+++||||||+.||+|
T Consensus 161 ERVIv~Q~~~spn~~~~~~~~~~~~~~~~a~ii~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~iPi~illrALG~~sD~e 240 (1131)
T 4ayb_B 161 ERVIVTQEDLAPNRVLVDTGKTGSNITHTAKIISSTAGYRVPVTIERLKDGTFHVSFPAVPGKIPFVILMRALGILTDRD 240 (1131)
T ss_dssp EEEECEEEEECCSSCEEEECCTTCSEEEEEECEEECSSCEEECCEEEETTTCCEECCSSSCCCEEHHHHHHHHTCCSHHH
T ss_pred EEEEEEeeccCCCeEEEEeccCCCcEEEEEEEEECCCCceeeEEEEEeCCCEEEEEEcCcCceeeHHHHHHHhCCcchhh
Confidence 99999999999999888765443 3 5788888876442 344555688999999999877899999999999999999
Q ss_pred HHHHhCCchhHHhhhHHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhhccCCCCCCCCCCCcc
Q 001125 259 VVQMVGRDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVFLANVPVHNNNFRPKC 338 (1149)
Q Consensus 259 I~~~i~~~~~~~~~l~~~l~~~~~~~i~t~~~al~yIg~~~r~~~~~~~~~~~~e~~~~~L~~~ll~Hl~~~~~~~~~K~ 338 (1149)
|++.++.++++.+.+..+++++ ..+.++++||.|||++++.. .+..+ ..+.|+++|++++|||++....++..|+
T Consensus 241 I~~~i~~~~~~~~~l~~~~~~~--~~i~~~~~al~~i~~r~~~~--~~~~~-~~~~a~~il~~~~l~hl~~~~~~~~~K~ 315 (1131)
T 4ayb_B 241 IVYAVSLDPEIQNELFPSLEQA--SSIANVDDALDFIGSRVAIG--QKREN-RIEKAQQIIDKYFLPHLGTSADDRRKKA 315 (1131)
T ss_dssp HHHHHCSCHHHHTTTHHHHHHH--TTTCCSSHHHHHHHHHHHCS--SCHHH-HHHHHHHHHHTTSSTTSCSSTTSHHHHH
T ss_pred HHHHhcccHHHHHHHHHHHHHh--cccccHHHHHHHHhhhhhcC--CCCch-hHHHHHHHHHHhhcccccccccchhHHH
Confidence 9999987777777777777765 46889999999999999876 22334 6788999999999999998877778899
Q ss_pred chHHHHHHHHHHhhcCCCCCCCcccccccEEccccHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccc
Q 001125 339 FYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDS 418 (1149)
Q Consensus 339 ~~L~~Mi~kLl~~~~g~~~~DD~D~l~NkRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~ 418 (1149)
.+|++|++||+.+..|.+.+||+|||+||||+++|+||++|||.+|.++++.+++++.+...+. ..+++..+++++.
T Consensus 316 ~~L~~mi~~Ll~l~~g~~~~DD~Dhl~NkRvr~vGeLl~~~fr~~l~r~~r~ir~~~~~~~~~~---~~~~~~~li~~~~ 392 (1131)
T 4ayb_B 316 YYLAYAISKVIELYLGRREPDDKDHYANKRLRLAGDLFASLFRVAFKAFVKDLTYQLEKSKVRG---RKLALKALVRPDI 392 (1131)
T ss_dssp HHHHHHHHHHHHHHHTSSCCCCTTSGGGEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTC---SCCCHHHHCCTHH
T ss_pred HHHHHHHHHHHHHHcCCCCCCCCcchhcceecchhHHHHHHHHHHHHHHHHHhhhhcccchhcc---cccchhhhcCCch
Confidence 9999999999999999999999999999999999999999999999999999999998864432 3467777889999
Q ss_pred hHHHHHHHhccCCCcccccccccccceEEccccccccccccccccccccccccccCCCCccCCCCCcccccCCCCCCCcc
Q 001125 419 ITVGLERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSPQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEAC 498 (1149)
Q Consensus 419 It~~i~~~~sTGnw~~~~~~~q~sGvsq~l~rln~ls~LshlRrv~~~f~~~~k~t~~R~Lhps~wG~iCPveTPEG~~c 498 (1149)
||++|++|||||||. .+++|+||+|+|+||+|+|||+||+++++++++|.++||+|||||||||||||||||+||
T Consensus 393 it~~i~~~~aTGn~~-----~~~sglSQ~mdq~NpLs~lsH~RRlsagl~rera~~evRdlHpShyGriCPIETPEG~ni 467 (1131)
T 4ayb_B 393 VTERIRHALATGNWV-----GGRTGVSQLLDRTNWLSMLSHLRRVISSLARGQPNFEARDLHGTQWGRMCPFETPEGPNS 467 (1131)
T ss_dssp HHHHHHHHHHTTBCS-----SSCBCCEEECCCSSHHHHHHHHTEEEECSCSSSCCHHHHSCCGGGTTTBCSSCCCSSTTB
T ss_pred hhhhhHHHHhhcccc-----cCCCceEEEeccCCHHHHHHhhhhhcCCcccccccccccccCHhhccccccccCCCCccc
Confidence 999999999999996 367999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhccceeeeccCCCchhHHHHHhhcCceeccc----cCcccc---CCCCceEEEECCeEEEeecChhhHHHHHHHHh
Q 001125 499 GLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLEL----LSGEEL---HNPNSFLVIFNGLILGKHRRPKCFADVMRKLR 571 (1149)
Q Consensus 499 GLi~~LA~~a~Vt~~~~~~~i~~~l~~~g~~~~~~----~~~~~~---~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~r 571 (1149)
|||||||++|+|+.+.++.++.+++.++|+.+++. ++.... .......|++||+|+|++.++..++..+|.+|
T Consensus 468 GLI~sLA~~a~I~~g~~e~~i~~~l~~~g~~~~e~~~~~~~~~~~~~~~~~~~~~v~lng~~vg~~~~~~~~~~~~~~~~ 547 (1131)
T 4ayb_B 468 GLVKNLALMAQIAVGINEKIVEKTLYEMGVVPVEEVIRRVTEGGEDQNEYLKWSKVILNGRLVGYYRDGEELAKKIRERR 547 (1131)
T ss_dssp TTEEEBBSSCEECCCCCHHHHHHHHHHTTCEEHHHHHHTTTTC-----CCCCCCEEEETTEEEEECSCHHHHHHHHHHHH
T ss_pred cccccceeeEEEecCCCCcceeeehhhcCceeeeeeehhhcccccccchhhhhcceeecCceEEEeccchhhhhhhhhhh
Confidence 99999999999999999999999999999987652 221110 11134579999999999999999999999999
Q ss_pred hcCCcCceeEEEec--ccCceEEEecCCCeeeeeEEEeecCcccchhhhHHhhhcCCcchhhhhccCceeEeccccccce
Q 001125 572 RAGKIGEFVSVFVN--EKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEENNA 649 (1149)
Q Consensus 572 r~g~i~~~v~i~~~--~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~Eq~~~ 649 (1149)
+.+.++.+++|.+. +..+.++|++|+||++|||++++++++.++.++++.+..+...|.++++.|.|||+|++|++++
T Consensus 548 ~~~~i~~~vsi~~~~~~~~~~~~i~~d~~r~~rpv~~~~~~~p~v~~~~~~~~~~g~~~~~~~~~~g~veyvd~~e~~~~ 627 (1131)
T 4ayb_B 548 RKGEISDEVNVGHIVTDFINEVHVNCDSGRVRRPLIIVSNGNPLVTREDIEKLDSGSITFDDLVRQGKIEYLDAEEEENA 627 (1131)
T ss_dssp HHTSSCTTCEEEEECTTTCCEEEEECCTTCEEEEEEEBSSSSBSCCHHHHHHHHTTTCCHHHHHHTTSEEEEEHHHHTTC
T ss_pred ccCccCceEEEeeccccccceeeeecCCcccccceEEeecccccccHHHHHHHhcCChhHHHHhhCCceeeeecccccee
Confidence 99999999998654 3457999999999999999999999999999999999889999999999999999999999999
Q ss_pred EEEeecCCCCCCceeeeecCceeccccccccCCCCCCCCCccccccccccCCcccceeeeccccccceeeecCCCcceee
Q 001125 650 LIALYEGDATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSLLYLLVYPQRPLLT 729 (1149)
Q Consensus 650 ~Ia~~~~~~~~~~th~Ei~P~~ilsv~AslIPF~~hNqSpRn~yq~~M~KQa~G~~~~n~~~R~D~~~y~L~ypQ~PlV~ 729 (1149)
+||+.++++...+||+||+|+.++|++|++|||++|||||||+|||||+|||||++.+|+..|+|++.|+|+|||+|||+
T Consensus 628 ~ia~~~~~~~~~~th~ei~p~~il~v~a~lipf~~~NqspRn~yq~~m~KQa~G~~~~~~~~r~D~~~~~l~ypQ~PlV~ 707 (1131)
T 4ayb_B 628 YVALEPSDLTPEHTHLEIWSPAILGITASIIPYPEHNQSPRNTYQSAMAKQALGLYAANYQLRTDTRAHLLHYPQRPLVQ 707 (1131)
T ss_dssp CEESSGGGCCTTCSEECSCGGGGSBTTGGGCSSGGGSCHHHHHHHHHHGGGBCSCCCGGGGTCCCSEEEEESSCCCCSSB
T ss_pred EEEeecccccccccceeeccccccccccceecccccCccchheeccccccccCCceeecceeeeccccceeecCCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhccCCCCCCCcceEEEEEecCCCCCCCcEEeecccccccceeEEEEEEEEEEeecccCCccceecC--CCCCC-C
Q 001125 730 TRTIELVGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILR--PDRTG-P 806 (1149)
Q Consensus 730 t~~~~~~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~--p~~~~-~ 806 (1149)
|+.++.++++++|+|+||+||||||+||||||||||||++++||+|||+||++|++++++++.|..|.++. |+... .
T Consensus 708 t~~~~~~~~~e~p~G~N~lVA~m~w~GYN~EDAIIine~~v~rg~ftSihi~~y~~e~r~~~~g~~e~it~~~p~v~~~~ 787 (1131)
T 4ayb_B 708 TRALDIIGYTNRPAGNNAILAVISFTGYNMEDSIIMNRSSVERGMYRSTFFRLYSTEEVKYPGGQEDKIVMPEPGVRGYK 787 (1131)
T ss_dssp CHHHHHHTCTTSCCSEEEEEEECCCSSCCCTTCEEEEHHHHTTTTTCEEEEEEEEEECCCCTTSCCCCCCCCCSSCSSCC
T ss_pred cchhhhhccCCCCCceeEEEEEEccCCccHHHhhhhhcchhhcccceeeEEEEEEEEEEecCCCCceEEecCCccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999888777766 44322 2
Q ss_pred chhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCcccccceeeecCCCCCceEEEEEEEeeCCCCcE
Q 001125 807 GAERMQILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDKNGDL 886 (1149)
Q Consensus 807 ~~~~~~~Ld~dGi~~~G~~v~~gd~l~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~~~~~ 886 (1149)
+...+++||+||||++|++|++|||||||++|+...+.....++ ....+|+|+++++++ .|+||.|.++.+.++++
T Consensus 788 ~~~~~~~LDe~Gii~iGa~V~~gDilvGKvtP~~~~~~~~~~~~--~~~~~d~sl~~~~g~--~g~Vd~v~~~~~~~~~~ 863 (1131)
T 4ayb_B 788 GKEYYRLLEDNGVVSPEVEVKGGDVLIGKVSPPRFLQEFKELSP--EQAKRDTSIVTRHGE--MGIVDLVLITETAEGNK 863 (1131)
T ss_dssp CGGGGTTCCTTSBCCTTCEECTTCEEECCCCCCC-------------CCCCCCCEECCTTC--CEEEEEEEEEECSSSCE
T ss_pred hHHHhhcCCccccccCCcEecCCCEEEEEecCCcchhhhhhcCc--ceeeeeeeEEccCCC--ceEEEEEEEeeccCCce
Confidence 44589999999999999999999999999999865432111111 223589999999998 99999999999999999
Q ss_pred EEEEEEeeecCCCccccccccCCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCchHHHHHHHhccccccccCcee
Q 001125 887 CIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGRFH 966 (1149)
Q Consensus 887 ~vkv~~~~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~ 966 (1149)
.|||++|++|+|+||||||||||||||||+|||+|||||++||++|||||||||||||||||||+|+++||+|++.|.+.
T Consensus 864 ~vkV~i~~~R~~~vGDK~agRHGnKGvvs~i~p~eDMPf~~dG~~~DiilNP~gvPSRMniGqilE~~~gk~~~~~g~~~ 943 (1131)
T 4ayb_B 864 LVKVRVRDLRIPSIGDKFASRHGQKGVIGMLIPQVDMPYTVKGVVPDVILNPHALPSRMTLGQIMEGIAGKYAALSGNIV 943 (1131)
T ss_dssp EEEEEEEEEECCCTTCEEEETTSCEEEEEEEECTTTSEEETTSCCCSEECCTTSSTTTTCHHHHHHHHHHHHHHHHCCCC
T ss_pred EEEEEEeccccCcccccccccccccceeeeecccccCCcCCCCCCccEEECCCCCcccCcHHHHHHHHHHHHHHhCCCce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeccCCCCCCCCHHHHHHHHHHcCCCCCCceEEEeCCCCcEEeeeEeEeeeeecccccccCcccEEecccCccccccc
Q 001125 967 YGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQ 1046 (1149)
Q Consensus 967 d~tpF~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~Q 1046 (1149)
|+|||. ..+++++.+.|.++||+++|+|+||||+||++|+++||+|++|||||+|||+|||||||||||++||||
T Consensus 944 ~atpf~-----~~~~e~~~~~l~~~g~~~~g~~~lydG~TGe~~~~~i~vG~~Yy~kL~HmV~DKihaRs~GP~s~~TqQ 1018 (1131)
T 4ayb_B 944 DATPFY-----KTPIEQLQNEILKYGYLPDATEVTYDGRTGQKIKSRIYFGVVYYQKLHHMVADKIHARARGPVQILTRQ 1018 (1131)
T ss_dssp BCCTTS-----SCCTHHHHHHHHHTTSCTTSEECEEETTTCCBCSSCEEEEEEEEEEBSCCHHHHCEEESSCCBCTTTCC
T ss_pred ecCccC-----CCcHHHHHHHHHHcCCCCCCCEEEeCCCCCCEecCcEEEEhhhhhccchhhccCCEeeccCCCCCcccC
Confidence 999998 567899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccCCCceeeechhhhHHHHcccHHHHHHhhccCCCceeeeecccCCcceeecccccceecccccCCCccccccccH
Q 001125 1047 PTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPY 1126 (1149)
Q Consensus 1047 P~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy 1126 (1149)
|++||||+|||||||||||||+|||||++||||||.|||++.++||..||++++.+...+..+|+.|+++.++.++.|||
T Consensus 1019 Pl~Gra~~GG~RfGEME~~aL~a~Gaa~~LqE~L~~~SD~~~~~vc~~cG~~~~~~~~~~~~~c~~~~~~~~i~~~~iP~ 1098 (1131)
T 4ayb_B 1019 PTEGRAREGGLRFGEMERDCLIGFGTAMLLKDRLLDNSDRTTIYVCDQCGYIGWYDKNKNKYVCPIHGDKSNLFPVTVSY 1098 (1131)
T ss_dssp BCSSGGGTCCCEECHHHHHHHHHHTCHHHHHHHTTTTTCEEEEEECSSSCCBCEEETTTTEEECSSCSSSSCCEEEEEEH
T ss_pred CCCCcccCCCcceeHHHHHHHHHHhHHHHHHHHhhccCCccceeeccCCCceEEEeccCCceeCCccCCCCCccccCCCH
Confidence 99999999999999999999999999999999999999999999999999998876666677899999999999999999
Q ss_pred hHHHHHHHHHhCCcccEEEecc
Q 001125 1127 ACKLLIQELQSMNIVPRLKLAE 1148 (1149)
Q Consensus 1127 ~~k~l~~EL~sm~i~~~l~~~~ 1148 (1149)
|||||+|||+||||++||.++|
T Consensus 1099 sfk~L~~EL~sm~i~~~l~~~d 1120 (1131)
T 4ayb_B 1099 AFKLLIQELMSMIISPRLILED 1120 (1131)
T ss_dssp HHHHHHHHHHTTTCEEEEEEEE
T ss_pred HHHHHHHHHHHCCcceEEEecc
Confidence 9999999999999999999876
No 4
>2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1 PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C* 2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C* 3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ...
Probab=100.00 E-value=6.4e-231 Score=2151.76 Aligned_cols=942 Identities=24% Similarity=0.399 Sum_probs=797.3
Q ss_pred cccccccccccccccchHHHHHHHHHHHH----------HhCHHHHHHhcccceec--CCCcEEEEEeEEEEcCCccccC
Q 001125 28 VVDKFQLLPEFLKVRGLVKQHLDSFNYFV----------NTGIRKIVRANDRIVSG--IDPSIFLRFKDVRIGQPSMTVD 95 (1149)
Q Consensus 28 ~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fi----------~~gL~~ii~~~~~I~~~--~~~~~~l~~~~i~i~~P~~~e~ 95 (1149)
.+.+|+.++++|+.++|+++|++|||||+ ++||++++++++||+.+ .++++.|+|.++++++|++
T Consensus 2 ~r~~~~~~~~~~~~p~Lv~~QidSFn~Fl~~~~~~~~~~~~GL~~i~~~~~pI~~~~~~~~~~~l~f~~~~l~~P~~--- 78 (1119)
T 2a6h_C 2 EIKRFGRIREVIPLPPLTEIQVESYRRALQADVPPEKRENVGIQAAFRETFPIEEEDKGKGGLVLDFLEYRLGEPPF--- 78 (1119)
T ss_dssp EEEECCCCCCCSCCCCTTHHHHHHHHHHSCTTSCTTSSCCCHHHHHHHHHCSEEECCSSSCCEEEEECCCCBCCCSS---
T ss_pred cceecccccccccCcCHHHHHHHHHHHHHccCCccccchhhhHHHHHHhcCCEeccCCCCCeEEEEEEEEEEcCCCC---
Confidence 36789999999999999999999999999 99999999999999864 4578999999999999976
Q ss_pred CcCCCCChhhHhhcCCccCccEEEEEEEEECCcccceeeEEeeEEeeccceeeccccccCCCCCHHHHHhcCCCCCCCCc
Q 001125 96 GVSEKLNPHMCRLSDMTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGG 175 (1149)
Q Consensus 96 ~~~~~l~P~EcR~r~lTYsa~l~v~i~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~elv~~~E~~~d~GG 175 (1149)
+|+|||+|++||+|||+|+++++.++. +++++++|++|+||||+ +||
T Consensus 79 ------~p~Ecr~r~lTYsapL~V~v~l~~~~~---~~ik~~~V~iG~iPiMt------------------------~gG 125 (1119)
T 2a6h_C 79 ------PQDECREKDLTYQAPLYARLQLIHKDT---GLIKEDEVFLGHIPLMT------------------------EDG 125 (1119)
T ss_dssp ------CHHHHHHTTCCCEEEBCCCEEECCSSS---CCEECCCCCCCEEECCC------------------------TTS
T ss_pred ------CHHHHHhcCCcccceEEEEEEEEECCC---ceeeeeEEEecCCCeEC------------------------CCc
Confidence 799999999999999999999986542 44566789999999999 799
Q ss_pred EEEEcCchhhhHHhhhccCCeEEEEe-CCCCc--EEEEEEecCCCcceEEEEEeeCCEEEEEEceeeccccHHHHHHHhC
Q 001125 176 YFIIKGTEKVLLIQEQLSKNRVIIDT-DKKGN--INASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMG 252 (1149)
Q Consensus 176 YFIING~ERVI~~q~~~s~N~i~~~~-~~~g~--~~a~v~s~~~~~~s~~~~~~k~g~i~~r~~~~~~~IPi~ilLrALG 252 (1149)
||||||+||||++|++++||.++... +++|. |++.+++.+. .|..+...+++.+|+++++ ++||+++||||||
T Consensus 126 yFIING~ERVIVsQ~~rspgv~~~~~~~~~g~~~ysa~ii~~rg--s~l~~~~d~~~~i~vri~r--~kIPi~ilLrALG 201 (1119)
T 2a6h_C 126 SFIINGADRVIVSQIHRSPGVYFTPDPARPGRYIASIIPLPKRG--PWIDLEVEPNGVVSMKVNK--RKFPLVLLLRVLG 201 (1119)
T ss_dssp CCCSSSSCEEECEEEEECSCEEEECCSSCSSCCEEEECCCSSSS--CCEEEEEETTTEEEEESSS--SEECHHHHHHHHT
T ss_pred EEEEeCeEEEEEEEEecCCcEEEEeeccCCCceEEEEEEEeccC--ceEEEEEcCCCEEEEEEeC--cceeHHHHHHHHC
Confidence 99999999999999999999555433 23453 6677776543 4565655689999999998 6899999999999
Q ss_pred CCCHHHHHHHhCCchhHHhhhHHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhh-------cc
Q 001125 253 MESDQEVVQMVGRDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVF-------LA 325 (1149)
Q Consensus 253 ~~sD~eI~~~i~~~~~~~~~l~~~l~~~~~~~i~t~~~al~yIg~~~r~~~~~~~~~~~~e~~~~~L~~~l-------l~ 325 (1149)
+ ||+||++.|+.++.+.+.+.... ..+.++++||.||+++++++ +.. ..+.|+.+|.+.| |+
T Consensus 202 ~-sD~eIl~~~~~~~~~~~tl~~d~-----~~~~~~~eAl~~i~~~lr~g----~~~-~~e~a~~~l~~~ff~~~rydl~ 270 (1119)
T 2a6h_C 202 Y-DQETLARELGAYGELVQGLMDES-----VFAMRPEEALIRLFTLLRPG----DPP-KRDKAVAYVYGLIADPRRYDLG 270 (1119)
T ss_dssp C-CHHHHHHHHHSSCTTHHHHSSCH-----HHHTCHHHHHHHHHHHSSSC----CCS-CCSSHHHHHTSSSSSSCCSCTT
T ss_pred C-CHHHHHHHHccCHHHHHHHHhhh-----cccCCHHHHHHHHHHHhcCC----CCC-cHHHHHHHHHHhhCCcccccch
Confidence 9 99999999975555444442210 02468999999999999986 233 5677999999988 57
Q ss_pred CCCCCCCCC-----------------CCccchHHHHHHHHHHhhcCCC--CCCCcccccccEEccccHhHHHHHHHHHHH
Q 001125 326 NVPVHNNNF-----------------RPKCFYVAVMLRRMVEAMLNKD--AMDDKDYVGNKRLELSGQLVSLLFEDLFKT 386 (1149)
Q Consensus 326 Hl~~~~~~~-----------------~~K~~~L~~Mi~kLl~~~~g~~--~~DD~D~l~NkRv~l~G~Ll~~lfr~~l~~ 386 (1149)
|+|....+. .-+...+++|+++|+.+..|.+ .+||+|||+||||+++|+||+++||..|.+
T Consensus 271 ~vGr~~ln~kl~l~~~~~~~~~~~~~~l~~~di~~mi~~Ll~l~~G~~~~~~DD~DhlgNkRv~~~GeLl~~~fr~~l~r 350 (1119)
T 2a6h_C 271 EAGRYKAEEKLGIRLSGRTLARFEDGEFKDEVFLPTLRYLFALTAGVPGHEVDDIDHLGNRRIRTVGELMTDQFRVGLAR 350 (1119)
T ss_dssp TSSHHHHHTTSCSCCSTTTTCCCSSSCCCCTTHHHHHHHHHHHHTSCSSCCCCCTTSTTTEEEECHHHHHHHHHHHHHHH
T ss_pred hcchhhhhhhhccCCccccccccccccccHHHHHHHHHHHHHhhcCCCCCCCcCcchhhceEehhhhHHHHHHHHHHHHH
Confidence 776321100 0011336789999999999999 999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHHHHhccCCCcccccccccccceEEcccccccccccccccccc-
Q 001125 387 MISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSP- 465 (1149)
Q Consensus 387 ~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~~~~q~sGvsq~l~rln~ls~LshlRrv~~- 465 (1149)
+.+.+++.+.+. ....+++..++++++||++|++||+|||| ||+|+|+||+|+|||+||+++
T Consensus 351 ~~~~i~~~~~~~-----~~~~~~~~~~i~~~~It~~lk~ff~tg~l------------SQ~Ldq~N~ls~LsH~RRissl 413 (1119)
T 2a6h_C 351 LARGVRERMLMG-----SEDSLTPAKLVNSRPLEAAIREFFSRSQL------------SQFKDETNPLSSLRHKRRISAL 413 (1119)
T ss_dssp HHHHHHHHHHHS-----CSSCCSSTTTCCSHHHHHHHHHHHHTCSS------------EEECCCSSTHHHHHHHHEEESS
T ss_pred HHHHHHHHhhhh-----cccccchHHhhccchhHHHHHHHhhccCc------------cccccccchHhhhhhhheeccc
Confidence 999999999764 12346677778899999999999999864 799999999999999999985
Q ss_pred ---ccccccccCCCCccCCCCCcccccCCCCCCCcchhhhhccceeeeccCCCchhHHHHHhhcCceeccccCccccCCC
Q 001125 466 ---QFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNP 542 (1149)
Q Consensus 466 ---~f~~~~k~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~ 542 (1149)
++++++|+++||+||||||||+||+|||||+|||||||||++|+|+. +|+.+
T Consensus 414 gpggl~re~k~~~vRdlHpShwGriCPiETPEG~ncGLVknLAl~a~I~~-------------~G~~e------------ 468 (1119)
T 2a6h_C 414 GPGGLTRERAGFDVRDVHRTHYGRICPVETPEGANIGLITSLAAYARVDE-------------LGFIR------------ 468 (1119)
T ss_dssp SSSSSCCSSCCHHHHSCCGGGTTTBCSSCSCSSSSCSSEEEBCSSCEECS-------------SSCEE------------
T ss_pred CCCccccccccCcccccCHhhCcccCCCcCCCCCcccchhhhhhheeecc-------------cCccc------------
Confidence 58999999999999999999999999999999999999999999983 45532
Q ss_pred CceEEEECCeEEEeecChhhHHHHHHHHhhcCCcCceeEEEecccCceEEEecCCCeeeeeEEEeecCcccchhhhHHhh
Q 001125 543 NSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKEL 622 (1149)
Q Consensus 543 ~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~g~i~~~v~i~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~ 622 (1149)
.++.+.+||+|.+.+..-....+ ... -| ....+.+ |.||++||++.++++
T Consensus 469 ~p~~~V~nG~v~~~i~yl~a~ee-------~~~-----~i----~~~~~~l--~~gr~~r~~i~~r~~------------ 518 (1119)
T 2a6h_C 469 TPYRRVVGGVVTDEVVYMTATEE-------DRY-----TI----AQANTPL--EGNRIAAERVVARRK------------ 518 (1119)
T ss_dssp EEEEEEETTEEEEEEEEECHHHH-------HHS-----CE----ECTTSCB--SSSBBCCSSEEEESS------------
T ss_pred CCcEEEECCEEeeeeEEeChhcc-------cce-----EE----ecCceee--cCCccccCceeEEec------------
Confidence 12444469998653321100000 000 01 1112222 459999999887632
Q ss_pred hcCCcchhhhhccCceeEeccccccceEEEeecCCCCCCceeeeecCceeccccccccCCCCCCCCCccccccccccCCc
Q 001125 623 LDGVRSFDDFLREGLIEYLDVNEENNALIALYEGDATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAM 702 (1149)
Q Consensus 623 ~~~~~~~~~l~~~g~iE~id~~Eq~~~~Ia~~~~~~~~~~th~Ei~P~~ilsv~AslIPF~~hNqSpRn~yq~~M~KQa~ 702 (1149)
-||+. +.+ ..+|||||||++||||+||+|||+|||||||||||||||||||
T Consensus 519 ---------------~e~~~----------~~~----~~~~~~ei~P~~ilsv~aslIPF~ehn~s~R~lmgsnM~kQAv 569 (1119)
T 2a6h_C 519 ---------------GEPVI----------VSP----EEVEFMDVSPKQVFSVNTNLIPFLEHDDANRALMGSNMQTQAV 569 (1119)
T ss_dssp ---------------SSEEE----------ECT----TTCCEEECCTTTTSCHHHHTCTTGGGBCHHHHHHHHHHHTTBC
T ss_pred ---------------cceee----------ech----hHeEEEEeccccccccccccCCCcccCCCcccccccccccccc
Confidence 13321 122 2369999999999999999999999999999999999999999
Q ss_pred ccceee-----------------------------------eccccc---cceeee----------cCCCcceeechhh-
Q 001125 703 GNIAFN-----------------------------------QLCRMD---SLLYLL----------VYPQRPLLTTRTI- 733 (1149)
Q Consensus 703 G~~~~n-----------------------------------~~~R~D---~~~y~L----------~ypQ~PlV~t~~~- 733 (1149)
|++..+ +..|.| ++.|.| +|||||||+++.+
T Consensus 570 ~l~~~~~p~vgTg~e~~~a~ds~~~~~a~~~G~v~~vd~~~i~ir~~~~~~~~y~L~~~~rsnq~t~~~QkPiV~~g~~v 649 (1119)
T 2a6h_C 570 PLIRAQAPVVMTGLEERVVRDSLAALYAEEDGEVAKVDGNRIVVRYEDGRLVEYPLRRFYRSNQGTALDQRPRVVVGQRV 649 (1119)
T ss_dssp CBSSCCCCSEECSCHHHHHHHTTCSEECSSSEEEEEECSSBEEEEETTTEEECCBCCCSEECTTSCEECCEECCCSSCCB
T ss_pred cccccCCCeeeccccceeeeccCceeEeccCCEEEEecCceEEEEccCCcceeEEeeccccccccccccccceEeeCcee
Confidence 986542 345653 467876 8999999999964
Q ss_pred ---h------hccCCCCCCCcceEEEEEecCCCCCCCcEEeecccccccceeEEEEEEEEEEeecccCCccceecC-CCC
Q 001125 734 ---E------LVGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILR-PDR 803 (1149)
Q Consensus 734 ---~------~~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~-p~~ 803 (1149)
+ .++++|+|+|+|++||||||+||||||||||||++++||+|||+|+++|++++++++.|.++++.. |+.
T Consensus 650 ~~g~~ladg~~~~~gel~lG~N~lVA~m~~~GYN~EDAiiine~~v~rg~~tSihi~~~e~~~r~~~~g~eeit~~ip~~ 729 (1119)
T 2a6h_C 650 RKGDLLADGPASENGFLALGQNVLVAIMPFDGYNFEDAIVISEELLKRDFYTSIHIERYEIEARDTKLGPERITRDIPHL 729 (1119)
T ss_dssp CTTCEEEECTTBSSSSBCCSEEEEEECSCCSSTTSSSEEEEETHHHHTTCSEEEEEEEEEEEEECCTTCCCBCCSCCSSS
T ss_pred eccceeccccccCCCcccCceeEEEEEecccCCcchhhhhhhhhHHhcCCceEEEEEEEEeeeeecCCCceeeeccCCCc
Confidence 2 367899999999999999999999999999999999999999999999999999988787665543 655
Q ss_pred CCCchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCC------CCCCCCcccccceeeecCCCCCceEEEEEE
Q 001125 804 TGPGAERMQILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMS------PTGQTDSRYRSARQTYKGPDGETCVVDRVA 877 (1149)
Q Consensus 804 ~~~~~~~~~~Ld~dGi~~~G~~v~~gd~l~~k~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~ 877 (1149)
+. ..+++||+||||++|++|++|||||||++|+.+.+.... .++++....+|+|+++++++ .|+|++|.
T Consensus 730 ~~---~~~~~LD~dGiv~iG~~V~~gDiLvgK~tP~~~~~~~~ee~ll~aifg~k~~~~rd~Sl~~~~~e--~G~V~~V~ 804 (1119)
T 2a6h_C 730 SE---AALRDLDEEGVVRIGAEVKPGDILVGRTSFKGESEPTPEERLLRSIFGEKARDVKDTSLRVPPGE--GGIVVRTV 804 (1119)
T ss_dssp CS---GGGSSCCSSSBCCTTCBCCTTSEEECCEEESSSSSCCHHHHHHHHHHHSCCCCEEECCEECCSSC--CCEEEEEE
T ss_pred ch---hhhhccCCCcccCCCCEECCCCEEEEEecCCccccCChhhhhhhhhhcccccccceeeEEccCCc--cEEEEEEE
Confidence 32 478999999999999999999999999999986543211 02234556899999999999 99999999
Q ss_pred EeeCCC-Cc-------EEEEEEEeeecCCCccccccccCCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCchHHH
Q 001125 878 LCSDKN-GD-------LCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGK 949 (1149)
Q Consensus 878 ~~~~~~-~~-------~~vkv~~~~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGq 949 (1149)
++.+++ |. +.|||++|++|+|+||||||||||||||||+|||+|||||++||++||||||||||||||||||
T Consensus 805 ~~~~~~~g~~l~~~~~~~vkV~i~~~R~~~vGDKfasRHGqKGVis~i~p~eDMPf~~dG~~pDiIlNPhgvPSRMtiGq 884 (1119)
T 2a6h_C 805 RLRRGDPGVELKPGVREVVRVYVAQKRKLQVGDKLANRHGNKGVVAKILPVEDMPHLPDGTPVDVILNPLGVPSRMNLGQ 884 (1119)
T ss_dssp EECSSCSSCCCCTTEEEEEEEEEEEEEECCTTCEEECTTSCEEEEEEEECTTTSCBCSSSCBCSEECCSTTTTTTTBTHH
T ss_pred EEccCCCCcccCCCcceEEEEEEcccCCcccCchhhhccCCCceEEeeeccCCCccccCCCCccEEeCCCcCccccchhh
Confidence 988766 53 7899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccccccccCceeeeee-ccCCCCCCCCHHHHHHHHHHc-----------------------------CC------
Q 001125 950 MIELLGGKAGVSCGRFHYGSA-FGEPSGHADTVESISETLVKH-----------------------------GF------ 993 (1149)
Q Consensus 950 l~E~~~gk~~~~~g~~~d~tp-F~~~~~~~~~~~~~~~~l~~~-----------------------------g~------ 993 (1149)
|+|+++||||++.|.. .+|| |+ +.+++++.+.|+++ ||
T Consensus 885 llE~~lG~a~~~~g~~-~atp~F~-----~~~~~~i~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 958 (1119)
T 2a6h_C 885 ILETHLGLAGYFLGQR-YISPIFD-----GAKEPEIKELLAQAFEVYFGKRKGEGFGVDKREVEVLRRAEKLGLVTPGKT 958 (1119)
T ss_dssp HHHHHHHHHHHHTTEE-EECCTTT-----SCCHHHHHHHHHHHHHHHHHHHHHHTCCCBHHHHHHHHHHHTTTSSCTTSC
T ss_pred hhHHHhhhHHhhcCCc-eEecccC-----CCCHHHHHHHHHHhhhhccccccccccccchhhhhhhhhhhcCCccccccc
Confidence 9999999999999985 4999 99 78999999999999 99
Q ss_pred --------CCCCceEEEeCCCCcEEeeeEeEeeeeecccccccCcccEEecccCcccccccCcccccCCCceeeechhhh
Q 001125 994 --------SYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERD 1065 (1149)
Q Consensus 994 --------~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd 1065 (1149)
+++|+++||||+||++|+++||+|++|||||+|||+|||||||+|||++|||||++||+|+|||||||||||
T Consensus 959 ~~~~~~~~~~~Gk~~lydG~TGe~~~~~I~vG~~Yy~kL~HmVdDKihaRs~GP~s~lTqQP~~Gra~~GGqRfGEME~~ 1038 (1119)
T 2a6h_C 959 PEEQLKELFLQGKVVLYDGRTGEPIEGPIVVGQMFIMKLYHMVEDKMHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVW 1038 (1119)
T ss_dssp HHHHHHHHHHTTEECCBCSSSCCBCSSCEEEEEEEEEEBCCCTTTSCEEESSCCBCSSSCSBCCCSSSCCCEEECHHHHH
T ss_pred chhhhcccCCCCceEeecCCCCCCccceEEEEhHHhhcchhhcccCcEEeeccccceeecCCCcccccCCCeeeehhehh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcccHHHHHHhhccCCCceeeeecccCCcceeecccccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEE
Q 001125 1066 CLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLK 1145 (1149)
Q Consensus 1066 ~l~a~Gas~~l~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~l~~EL~sm~i~~~l~ 1145 (1149)
||+|||||++|||||+.+||++.+++ ..+|..|+ +.++.++.+|||||||+|||+||||++++.
T Consensus 1039 aL~a~GAa~~L~E~L~~kSD~~~gr~---------------~~~~~~~~-~~~i~~~~iP~sfk~L~~EL~sl~i~~~l~ 1102 (1119)
T 2a6h_C 1039 ALEAYGAAHTLQEMLTLKSDDIEGRN---------------AAYEAIIK-GEDVPEPSVPESFRVLVKELQALALDVQTL 1102 (1119)
T ss_dssp HHHHTTCSHHHHHHHTTTTTCHHHHH---------------HHHHHHHT-TCCCCCCCCCHHHHHHHHHHHHSSCEECCB
T ss_pred hhhhccHHHHHHHHhccCCccccccc---------------ceEEEeec-CCccCccCCCHHHHHHHHHHHhCCCceEEE
Confidence 99999999999999999999975432 14577774 578999999999999999999999999998
Q ss_pred ecc
Q 001125 1146 LAE 1148 (1149)
Q Consensus 1146 ~~~ 1148 (1149)
+++
T Consensus 1103 ~~~ 1105 (1119)
T 2a6h_C 1103 DEK 1105 (1119)
T ss_dssp CSS
T ss_pred ecC
Confidence 753
No 5
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_C*
Probab=100.00 E-value=1.8e-215 Score=1983.53 Aligned_cols=945 Identities=23% Similarity=0.381 Sum_probs=795.9
Q ss_pred CCcccccccccccccccccchHHHHHHHHHHHHH------hCHHHHHHhcccceecCCCcEEEEEeEEEEcCCccccCCc
Q 001125 24 PVKSVVDKFQLLPEFLKVRGLVKQHLDSFNYFVN------TGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDGV 97 (1149)
Q Consensus 24 ~~~~~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fi~------~gL~~ii~~~~~I~~~~~~~~~l~~~~i~i~~P~~~e~~~ 97 (1149)
...+.+.+|+.++..++.|+|+++|++||+||++ .||++++++++||+ +.++++.|+|.++++++|.+.
T Consensus 7 ~~~~~R~~f~k~~~~~~~P~Ll~iQ~~Sf~~Fl~~~~r~~~GL~evf~~~fPI~-d~~~~~~Lef~~y~l~~Pk~~---- 81 (1342)
T 3lu0_C 7 EKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQDPEGQYGLEAAFRSVFPIQ-SYSGNSELQYVSYRLGEPVFD---- 81 (1342)
T ss_dssp -CCCCCCCSSCCCCSSCCCCGGGTTHHHHHHHSCSSSCSCSTTHHHHTTTSSCE-ETTTTEECCEEEECCCCCSCC----
T ss_pred CCceeEeccccCCcCCCCCCHHHHHHHHHHHHHcCCccccchHHHHHHhcCCEE-CCCCCEEEEEeeEEeCCCCCC----
Confidence 3346788999999999999999999999999997 89999999999997 457789999999999999874
Q ss_pred CCCCChhhHhhcCCccCccEEEEEEEEECCcc----cceeeEEeeEEeeccceeeccccccCCCCCHHHHHhcCCCCCCC
Q 001125 98 SEKLNPHMCRLSDMTYAAPILVNIEYVQGSHT----EKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDP 173 (1149)
Q Consensus 98 ~~~l~P~EcR~r~lTYsa~l~v~i~~~~~~~~----~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~elv~~~E~~~d~ 173 (1149)
+.|||+|++||+|||+|+++++..+.. .++++++++|++|+||+|+ .
T Consensus 82 -----~~Ec~~r~lTYsapL~v~~rL~~~~~d~~~~~~~eikeq~Vy~GdiPLMT------------------------~ 132 (1342)
T 3lu0_C 82 -----VQECQIRGVTYSAPLRVKLRLVIYEREAPEGTVKDIKEQEVYMGEIPLMT------------------------D 132 (1342)
T ss_dssp -----SSTTTSSCCCCCCCCBEEECCEECCCSSCCCCCCCCCBCCCBCCCCCCCC------------------------S
T ss_pred -----HHHHHhcCCCcccceEEEEEEEEeccccccccccceEEEEEEEecCceEC------------------------C
Confidence 599999999999999999999865411 1246678899999999999 7
Q ss_pred CcEEEEcCchhhhHHhhhccCCeEEEEeC--C---CCc--EEEEEEecCCCcceEEEEEeeCCEEEEEEceeeccccHHH
Q 001125 174 GGYFIIKGTEKVLLIQEQLSKNRVIIDTD--K---KGN--INASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMV 246 (1149)
Q Consensus 174 GGYFIING~ERVI~~q~~~s~N~i~~~~~--~---~g~--~~a~v~s~~~~~~s~~~~~~k~g~i~~r~~~~~~~IPi~i 246 (1149)
+|||||||+|||||+|++|||+ ||+..+ + .|. |.|.++|.++ .|..+..++++.+|+|+++ +++||+++
T Consensus 133 ~GtFIING~ERVIVsQl~RSPG-Vyf~~~~~k~~~~gk~lysa~IIP~RG--sWlefe~D~kd~l~vrIdr-~rKipvt~ 208 (1342)
T 3lu0_C 133 NGTFVINGTERVIVSQLHRSPG-VFFDSDKGKTHSSGKVLYNARIIPYRG--SWLDFEFDPKDNLFVRIDR-RRKLPATI 208 (1342)
T ss_dssp SSCEESSSSEEECCEEEECCSS-CCCCSCCSCSSSCCCSCCEEEECCSSS--CCEEEEEETTTEEEEEESS-CSCEETTH
T ss_pred CcEEEEcCceEEEEEeecccCc-eeEeccccccCCCCceEEEEEEecCCC--ccEEEEEcCCCeEEEEecC-CCceeeeh
Confidence 9999999999999999999998 877643 1 243 7899998775 6788888899999999998 57999999
Q ss_pred HHHHhCCCCHHHHHHHhCCchhH------------H--------------------------------------------
Q 001125 247 VMKAMGMESDQEVVQMVGRDPRY------------S-------------------------------------------- 270 (1149)
Q Consensus 247 lLrALG~~sD~eI~~~i~~~~~~------------~-------------------------------------------- 270 (1149)
||||||++ ++||++.|+....+ .
T Consensus 209 lLrALG~~-~~~Il~~f~~~~~~~~~~~~~~~~~~~e~~~g~~~~~di~~~g~vi~~~g~~it~~~~~~l~~~g~~~i~v 287 (1342)
T 3lu0_C 209 ILRALNYT-TEQILDLFFEKVIFEIRDNKLQMELVPERLRGETASFDIEANGKVYVEKGRRITARHIRQLEKDDVKLIEV 287 (1342)
T ss_dssp HHHTTTCC-HHHHHTTTSCEEEECEETTEEEECCCGGGGTTEECCSCEEETTEEEECSSSEECSHHHHHHHHTTCCCEEC
T ss_pred hHhHhCCC-HHHHHHHhcccceEEeccCceeeecchhhhcccccccchhccccceecccccccHHHHHHHHhccCccccc
Confidence 99999995 68999888421000 0
Q ss_pred -------------------------------hhhHHhHHHH-----------------------HhcCCcCHHHHHHHHh
Q 001125 271 -------------------------------ALLLPSIEEC-----------------------ANLDIYTQEKALEYLE 296 (1149)
Q Consensus 271 -------------------------------~~l~~~l~~~-----------------------~~~~i~t~~~al~yIg 296 (1149)
+.+...+.++ ..+...++++||.+|+
T Consensus 288 ~~~~l~g~~la~divd~~tge~~~~~~~~i~~~~l~~l~~~~i~~~~~l~~~~~~~~~~i~~tl~~d~~~~~~eAl~~iy 367 (1342)
T 3lu0_C 288 PVEYIAGKVVAKDYIDESTGELICAANMELSLDLLAKLSQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSALVEIY 367 (1342)
T ss_dssp CSHHHHTSEECSCEECTTTCCEEECSSCBCCTTHHHHHHHHTCSCEEEECCCSSSSCCSGGGTTTTCCCCSSHHHHHHHH
T ss_pred CHHHhhcchhhheeeecCCCeEEecCCcccCHHHHHHHHHcCCcEEEEEecccccccHHHHHHHhhccCCCHHHHHHHHH
Confidence 0001111111 1123568999999999
Q ss_pred hhcccCCCCCCCCChHHHHHHHHHhhhc-------cCCCC---------C--CCCCCCccchHHHHHHHHHHhhcCCCCC
Q 001125 297 GKVKRSTFGSPPNDREGRAFSILRDVFL-------ANVPV---------H--NNNFRPKCFYVAVMLRRMVEAMLNKDAM 358 (1149)
Q Consensus 297 ~~~r~~~~~~~~~~~~e~~~~~L~~~ll-------~Hl~~---------~--~~~~~~K~~~L~~Mi~kLl~~~~g~~~~ 358 (1149)
+++|++ ++. ..+.|+.+|++.|| +|+|. . ..+..-+...+..++++|+.+..|.+..
T Consensus 368 r~lrpg----ep~-t~e~a~~l~~~lFf~~~rYdL~~VGR~k~N~kL~l~~~~~~~~Lt~~DIi~~i~~Li~l~~g~~~~ 442 (1342)
T 3lu0_C 368 RMMRPG----EPP-TREAAESLFENLFFSEDRYDLSAVGRMKFNRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEV 442 (1342)
T ss_dssp HHHSCS----SCC-CTTHHHHHHHHHHSCTTTCCCTTTHHHHHHTTTTCSCCCCCSSCCTTHHHHHHHHHHHHHHTSSCC
T ss_pred HhcCCC----CCC-CHHHHHHHHHHhhcCcccccchhhhhHHHhhhcCCCcCccccEecHHHHHHHHHHHHHHhhCCCCC
Confidence 999988 444 67889999998886 66661 1 1122234556777999999999999999
Q ss_pred CCcccccccEEccccHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHHHHhccCCCcccccc
Q 001125 359 DDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLERTLSTGNFDVKRFK 438 (1149)
Q Consensus 359 DD~D~l~NkRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~~~ 438 (1149)
||+|||+||||+++|+||+++||.+|.++.+.++++|.+. ....+.+..+++++++++++++||+|
T Consensus 443 DDiDHLgNrRvr~vGeLl~~qfr~~l~r~~r~i~~~~~~~-----~~~~~~~~~lin~~~i~~~~k~ffg~--------- 508 (1342)
T 3lu0_C 443 DDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLG-----DLDTLMPQDMINAKPISAAVKEFFGS--------- 508 (1342)
T ss_dssp CCSSSTTTSEEECHHHHHHHTHHHHHHHHHHHHTTHHHHC-----CSSCCSSTTTCCSSTTHHHHTTTTTT---------
T ss_pred cchhhhhcchhchHHHHHHHHHHHHHHHHHHHHHHHHhhc-----ccccCCHHHHhccchHHHHHHHHhCc---------
Confidence 9999999999999999999999999999999999999763 22356677888999999999999843
Q ss_pred cccccceEEccccccccccccccccc----cccccccccCCCCccCCCCCcccccCCCCCCCcchhhhhccceeeeccCC
Q 001125 439 MHRKGMTQVLARLSFIGTLGHMTRVS----PQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDE 514 (1149)
Q Consensus 439 ~q~sGvsq~l~rln~ls~LshlRrv~----~~f~~~~k~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~ 514 (1149)
+|+||+|+|+|++|.|+|+||++ +++.++++.+.+|+|||||||||||+|||||+|||||+|||++|+|+
T Consensus 509 ---s~lSQ~lDqtNpLseltHkRRlsalGPGGLsr~~a~fevRdvH~thyGRiCPiETPEG~niGLI~sLA~~a~in--- 582 (1342)
T 3lu0_C 509 ---SQLSQFMVQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLSVYAQTN--- 582 (1342)
T ss_dssp ---CSSCEECCCSSHHHHHHHHSBEESCCSTTSCCSSCCTTTSSCCTTCSSSSCTTCCCSSSCSSSCCBCCSSCCBC---
T ss_pred ---cccceeecCCCHHHHHhhhhcccccCCCCccccccCceecccCcccccccccccCCCCCceeeecchhheEEec---
Confidence 58999999999999999999998 34678899999999999999999999999999999999999999998
Q ss_pred CchhHHHHHhhcCceeccccCccccCCCCceEEEECCeEEEeecChhhHHHHHHHHhhcCCcCceeEEEecc-cCceEEE
Q 001125 515 EEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNE-KQRCVYI 593 (1149)
Q Consensus 515 ~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~g~i~~~v~i~~~~-~~~~i~I 593 (1149)
.+|+.. .+|.+..||++-..+. |+.. .+....|
T Consensus 583 ----------~~Gfie------------tPyr~V~~g~v~~~i~------------------------yLsA~eE~~~~I 616 (1342)
T 3lu0_C 583 ----------EYGFLE------------TPYRKVTDGVVTDEIH------------------------YLSAIEEGNYVI 616 (1342)
T ss_dssp ----------SSSCBC------------EEEEEEETTEEEEEEE------------------------EECTTTGGGSCB
T ss_pred ----------cCCccc------------CCcEEEECCEEcCcee------------------------eCChHHhcCceE
Confidence 456532 2577778998743211 1111 1111122
Q ss_pred e------cCCCeeeeeEEEeecCcccchhhhHHhhhcCCcchhhhhccCceeEeccccccceEEEeecCCCCCCceeeee
Q 001125 594 A------SDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEENNALIALYEGDATPDTTHIEI 667 (1149)
Q Consensus 594 ~------td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~Eq~~~~Ia~~~~~~~~~~th~Ei 667 (1149)
+ ++.|++.++++.++. .| ||+- +.+ .++|||||
T Consensus 617 Aqan~~l~~~g~~~~~~v~~R~-------------------------~~--e~~~----------~~~----~~v~~~dv 655 (1342)
T 3lu0_C 617 AQANSNLDEEGHFVEDLVTCRS-------------------------KG--ESSL----------FSR----DQVDYMDV 655 (1342)
T ss_dssp CCSSSCCSSSSCCSCSSEEEEC-------------------------SS--CEEE----------ECT----TTCCEEES
T ss_pred EecCcccCCCCcccCCeEEEEe-------------------------cC--ceEE----------eCh----HHCeeEec
Confidence 1 467888888876552 11 2221 111 23699999
Q ss_pred cCceeccccccccCCCCCCCCCccccccccccCCcccc-----------------------------------eeeeccc
Q 001125 668 EPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNI-----------------------------------AFNQLCR 712 (1149)
Q Consensus 668 ~P~~ilsv~AslIPF~~hNqSpRn~yq~~M~KQa~G~~-----------------------------------~~n~~~R 712 (1149)
+|.||+||+||||||+|||||||++|||||||||||+. +.++..|
T Consensus 656 sP~qivSvaaslIPFLEhdDAnRaLMGsNMQRQAVPLl~~e~p~VgTG~E~~~a~dsg~~i~a~~~G~v~~vda~~I~Ir 735 (1342)
T 3lu0_C 656 STQQVVSVGASLIPFLEHDDANRALMGANMQRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKRGGVVQYVDASRIVIK 735 (1342)
T ss_dssp CTTTTSCHHHHSCTTSTTBCHHHHHHHHHTTTTBCCCSSCCCCSSBCSCHHHHHHHTTTSCBCSSCBEECCCCSSBCCEE
T ss_pred CHHHhcchhhccCCCcccCCccccchhhhccccccccccCCCCeEecccchheeecCCceEEecCCCEEEEecCCeEEEE
Confidence 99999999999999999999999999999999999976 3445556
Q ss_pred ccc----------ceee----------ecCCCcceeechhh----hh------ccCCCCCCCcceEEEEEecCCCCCCCc
Q 001125 713 MDS----------LLYL----------LVYPQRPLLTTRTI----EL------VGYDKLGAGQNATVAVMSYSGYDIEDA 762 (1149)
Q Consensus 713 ~D~----------~~y~----------L~ypQ~PlV~t~~~----~~------~~~~~~p~G~N~iVAv~~~~Gyn~EDa 762 (1149)
.|. ..|. +||||||+|+++.. +. +..+|+|+|+|++||||||.|||||||
T Consensus 736 ~~~~~~~~~~~~~~~y~L~kf~RSNq~Tc~~QrPiV~~G~~V~~GdilADG~st~~GElaLG~N~lVAfMpW~GYNfEDA 815 (1342)
T 3lu0_C 736 VNEDEMYPGEAGIDIYNLTKYTRSNQNTCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMRVAFMPWNGYNFEDS 815 (1342)
T ss_dssp ECSSSSSSSCCEEECCBCCCSCBCSSSCBCCCCBCCCSSCCBCTTCBCBCCSSCSSSSCCCSEECCEECCCCSSTTSSSE
T ss_pred eCCCccccccCcceEEEecccccccccccccccceeecCCEEecCcEecccccccCCeeecccccEEEEecccCcccccc
Confidence 553 2343 48999999999965 33 478999999999999999999999999
Q ss_pred EEeecccccccceeEEEEEEEEEEeecccCCccceecC-CCCCCCchhhhccCCCCcccCCCceeCCCCEEEEEecCCCC
Q 001125 763 IVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILR-PDRTGPGAERMQILDDDGLAAPGEIIKPNDVYINKESPLET 841 (1149)
Q Consensus 763 iiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~-p~~~~~~~~~~~~Ld~dGi~~~G~~v~~gd~l~~k~~~~~~ 841 (1149)
||||+++|++|+|||+|+++|++++++++.|.+|++.. |+.+ ...+++||++|||++|++|++|||||||++|+++
T Consensus 816 IlISErlV~eD~fTSIHIee~e~~aRdtklG~EeiTrdIPnv~---e~al~~LDe~GIv~iGa~V~~GDILVGKvtPkge 892 (1342)
T 3lu0_C 816 ILVSERVVQEDRFTTIHIQELACVSRDTKLGPEEITADIPNVG---EAALSKLDESGIVYIGAEVTGGDILVGKVTPKGE 892 (1342)
T ss_dssp EEECTHHHHTTTSCEEEEEEEEEECCEETTEECCCCSCCSSCC---HHHHHSBCSSSCBCTTCCCCTTCEEECCCCBCCT
T ss_pred hhhhhhhhhcCCceeEEEEEEeeeeeecCCCCceecccCCCCC---hHHHhcCCCCCCeecCcEECCCCEEEeccCCCCC
Confidence 99999999999999999999999999999998776655 8764 3589999999999999999999999999999987
Q ss_pred CCCCC------CCCCCCCcccccceeeecCCCCCceEEEEEEEeeCC---------------------------------
Q 001125 842 RGSIM------SPTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDK--------------------------------- 882 (1149)
Q Consensus 842 ~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~--------------------------------- 882 (1149)
.+..+ .-++++.+..+|+|+++++++ .|+|..|.+++..
T Consensus 893 ~~~tpEekLLraIFGeka~~vkDtSL~vp~g~--~G~Vidv~~f~r~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 970 (1342)
T 3lu0_C 893 TQLTPEEKLLRAIFGEKASDVKDSSLRVPNGV--SGTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSEELQILEAG 970 (1342)
T ss_dssp TTCCHHHHHGGGTSCSSSSSBCCCCEECCTTC--CCEEEECCCCCCGGGCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCChHHHHHHHHhcCcccccccCcEecCCCC--cEEEEEEEEEecccccchhhhhHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 64322 236778888999999999988 9999888655321
Q ss_pred --------------------------------------------------------------------------CCcEEE
Q 001125 883 --------------------------------------------------------------------------NGDLCI 888 (1149)
Q Consensus 883 --------------------------------------------------------------------------~~~~~v 888 (1149)
...+.|
T Consensus 971 ~~~~l~~~l~~~g~t~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~gd~l~~gv~k~V 1050 (1342)
T 3lu0_C 971 LFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIV 1050 (1342)
T ss_dssp HHHHHHHHHHTTSCCHHHHTTSCGGGTTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCCSSSSCEE
T ss_pred HHHHHHHHHhhcCCCHHHHhhCCHHHhhccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccCcCCceEE
Confidence 135789
Q ss_pred EEEEeeecCCCccccccccCCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCchHHHHHHHhccccccccCcee--
Q 001125 889 KFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGRFH-- 966 (1149)
Q Consensus 889 kv~~~~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~-- 966 (1149)
||++|++|+|++|||||||||||||||+|||+|||||++||++|||||||||||||||||||+|+++||||+..|...
T Consensus 1051 kV~ia~kRk~qvGDK~AgRHGnKGVis~I~p~EDMPf~~dG~~pDIIlNP~gvPSRMnIGqilE~~lG~aa~~~G~~i~~ 1130 (1342)
T 3lu0_C 1051 KVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSRMNIGQILETHLGMAAKGIGDKINA 1130 (1342)
T ss_dssp EEEEEEEECCCTTCEEECSSSCCEEECCCCCTTTSCEETTEEECSEECCGGGTTSSCBTHHHHHHHHHHGGGTSSTHHHH
T ss_pred EEEEEEeccCCCCCCcccccCCCceEEEEecccCCCCCCCCCCCcEEeCCCCCCCccchhhhhHHhhhHHHHhcCchHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999887521
Q ss_pred ---------------------------------------------------eeee-ccCCCCCCCCHHHHHHHHHHcCCC
Q 001125 967 ---------------------------------------------------YGSA-FGEPSGHADTVESISETLVKHGFS 994 (1149)
Q Consensus 967 ---------------------------------------------------d~tp-F~~~~~~~~~~~~~~~~l~~~g~~ 994 (1149)
.+|| |+ +++.+++.+.|.++||+
T Consensus 1131 ~~~~~~~~~~~r~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~aTPvFd-----ga~~~~i~~~L~~aG~~ 1205 (1342)
T 3lu0_C 1131 MLKQQQEVAKLREFIQRAYDLGADVRQKVDLSTFSDEEVMRLAENLRKGMPIATPVFD-----GAKEAEIKELLKLGDLP 1205 (1342)
T ss_dssp TTTHHHHCTTTHHHHHHHTTTTCCCSSSCCTTTSCHHHHHHTTTTTSSCTTCBCCSSS-----SCCHHHHHHHTSSSSSC
T ss_pred HHHhhhhhHHHHHHHHHHhhcccccchhhhhcccchHHHHHHhhhhccCCcccCCCCC-----CCCHHHHHHHHHHcCCC
Confidence 1555 44 89999999999999999
Q ss_pred CCCceEEEeCCCCcEEeeeEeEeeeeecccccccCcccEEecccCcccccccCcccccCCCceeeechhhhHHHHcccHH
Q 001125 995 YNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASM 1074 (1149)
Q Consensus 995 ~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~ 1074 (1149)
++|+++||||+||++|+++||+|++|||||+|||+||+||||+|||++|||||++||+|+|||||||||||||+|||||+
T Consensus 1206 ~~Gk~~LydGrTGe~f~~~V~vG~~YylKL~HmVdDKiHaRs~GPysllTqQPl~Gkaq~GGqRfGEMEvwaL~a~GAa~ 1285 (1342)
T 3lu0_C 1206 TSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAY 1285 (1342)
T ss_dssp SSSCBCCBCSSSCSBCSSCBCEECCEEEEBCCCGGGSCCCBSSCCBCSSSCCBCCCSSSCCCCCCCHHHHHHHHHSSCSH
T ss_pred CCCCEEEEcCCCCCCcccceeeeehhHhhhhhccccceEEeccCCCcccccCCCCccccCCCeeeehHHHHHHHhccHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhccCCCceeeeecccCCcceeecccccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEE
Q 001125 1075 LIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLK 1145 (1149)
Q Consensus 1075 ~l~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~l~~EL~sm~i~~~l~ 1145 (1149)
+|||||+.+||++ |.+|+ .+|..| ++.++..+.||||||+|++||+||||+++|.
T Consensus 1286 ~LqE~Lt~kSDdv----~gr~~-----------~y~~i~-~g~~~~~~~iPesfkvL~~EL~sl~l~v~l~ 1340 (1342)
T 3lu0_C 1286 TLQEMLTVKSDDV----NGRTK-----------MYKNIV-DGNHQMEPGMPESFNVLLKEIRSLGINIELE 1340 (1342)
T ss_dssp HHHHHTTTSSSCH----HHHHH-----------HHHHHT-TTSCCCCCCCCHHHHHHHHHHHTSSCCEECC
T ss_pred HHHHHhhcCCCcc----ccchh-----------hhhhhc-CCCCCCcCCCCHHHHHHHHHHHhCCCCeEec
Confidence 9999999999985 43332 345555 4578899999999999999999999999875
No 6
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus}
Probab=99.96 E-value=1.8e-30 Score=269.03 Aligned_cols=119 Identities=26% Similarity=0.553 Sum_probs=108.1
Q ss_pred chHHHHHHHHHHHH----------HhCHHHHHHhcccceecC--CCcEEEEEeEEEEcCCccccCCcCCCCChhhHhhcC
Q 001125 43 GLVKQHLDSFNYFV----------NTGIRKIVRANDRIVSGI--DPSIFLRFKDVRIGQPSMTVDGVSEKLNPHMCRLSD 110 (1149)
Q Consensus 43 ~Lv~~qi~SFn~Fi----------~~gL~~ii~~~~~I~~~~--~~~~~l~~~~i~i~~P~~~e~~~~~~l~P~EcR~r~ 110 (1149)
+|+++|++|||||+ ++||++++++++||+... ++++.|+|.++++++|.+ +|+|||+|+
T Consensus 2 ~Lv~~Q~~SF~~Flq~~~~~~~r~~~GL~ei~~~~~pI~~~~~~~~~~~L~f~~~~l~~P~~---------~p~Ecr~r~ 72 (188)
T 3mlq_A 2 PLTEIQVESYKKALQADVPPEKRENVGIQAAFKETFPIEEGDKGKGGLVLDFLEYRIGDPPF---------SQDECREKD 72 (188)
T ss_dssp CCHHHHHHHHHHHHCTTSCGGGCCSCHHHHHHHHHCCEEECCSSSCCEEEEEEEEEECCCSS---------CHHHHHHTT
T ss_pred CHHHHHHHHHHHHHhCCcccccchhhcHHHHHHhcCCeeeccCCCCeEEEEEEEEEecCCCC---------CHHHHHhcC
Confidence 68999999999999 899999999999998543 378999999999999965 899999999
Q ss_pred CccCccEEEEEEEEECCcccceeeEEeeEEeeccceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchhhhHHhh
Q 001125 111 MTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEKVLLIQE 190 (1149)
Q Consensus 111 lTYsa~l~v~i~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~elv~~~E~~~d~GGYFIING~ERVI~~q~ 190 (1149)
+||+|||+|+++++..+. +++++++|++|+||||+ +||||||||+||||++||
T Consensus 73 lTYsapl~v~v~l~~~~~---~~i~~~~v~iG~iPlMt------------------------~gGyFIING~ERVIVsQe 125 (188)
T 3mlq_A 73 LTYQAPLYARLQLIHKDT---GLIKEDEVFLGHLPLMT------------------------EDGSFIINGADRVIVSQG 125 (188)
T ss_dssp CCCEEEEEEEEEEEETTT---CCEEEEEEEEEEEECCC------------------------TTSCEEETTEEEECCCCS
T ss_pred CCcceeEEEEEEEEECCC---ceEEEEEEEEcccCEEC------------------------CCCEEEECCEEEEEEEee
Confidence 999999999999987542 46777899999999999 899999999999999999
Q ss_pred hccCCeE
Q 001125 191 QLSKNRV 197 (1149)
Q Consensus 191 ~~s~N~i 197 (1149)
++++|.+
T Consensus 126 ~r~~gel 132 (188)
T 3mlq_A 126 GRTVGEL 132 (188)
T ss_dssp SSCHHHH
T ss_pred cccCCee
Confidence 9999743
No 7
>3tbi_B DNA-directed RNA polymerase subunit beta; transcription accessory protein, transcription; 3.00A {Escherichia coli}
Probab=99.33 E-value=7.5e-13 Score=138.62 Aligned_cols=99 Identities=13% Similarity=0.188 Sum_probs=81.1
Q ss_pred EEEEEEEEEeecccCCccceecC-CCCCCCchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCC------CCC
Q 001125 778 IVVKKYTAINQKYANSTSDRILR-PDRTGPGAERMQILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMS------PTG 850 (1149)
Q Consensus 778 ~~~~~~~~~~~~~~~~~~~~~~~-p~~~~~~~~~~~~Ld~dGi~~~G~~v~~gd~l~~k~~~~~~~~~~~~------~~~ 850 (1149)
+|+.+|+++++.++.|..+++.. |+.+ ...+++||++|||++|++|++|||||||++|+++.+..+. -++
T Consensus 2 iHIeeyei~~r~tk~G~EeIT~dIPnv~---e~~l~~LDe~GIV~iGs~V~~GDILVGKvTPk~~~~~tpEekLL~aIfg 78 (228)
T 3tbi_B 2 IHIQELACVSRDTKLGPEEITADIPNVG---EAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKLLRAIFG 78 (228)
T ss_dssp CEEEEEEEEEEEETTEECEESSCCSSCC---HHHHHTBCTTSBBCTTCCCBTTCEEECEEEECCGGGCCHHHHHHHHHHC
T ss_pred ccEEEEEEEEEEcCCCCeEEecCCCCcc---HHHHhcCCCCCCeecCCEECCCCEEEeccCCCCCCCCChHHHHHHHHhC
Confidence 69999999999999887444433 7764 3689999999999999999999999999999986543221 145
Q ss_pred CCCcccccceeeecCCCCCceEEEEEEEeeC
Q 001125 851 QTDSRYRSARQTYKGPDGETCVVDRVALCSD 881 (1149)
Q Consensus 851 ~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~ 881 (1149)
.+....+|+|+++++++ .|+|..|.+++.
T Consensus 79 ~k~~~vkDtSL~vp~G~--~G~VidV~if~r 107 (228)
T 3tbi_B 79 EKASDVKDSSLRVPNGV--SGTVIDVQVFTR 107 (228)
T ss_dssp TTSSCEEECCEECCSSC--BEEEEEEEEEEB
T ss_pred CccccceeCcEecCCCC--cEEEEEEEEEec
Confidence 66777899999999988 999999988764
No 8
>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}
Probab=99.12 E-value=3e-11 Score=141.15 Aligned_cols=63 Identities=37% Similarity=0.703 Sum_probs=57.7
Q ss_pred ceeeeecccCCcceeecccccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEEecc
Q 001125 1086 PFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKLAE 1148 (1149)
Q Consensus 1086 ~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~l~~EL~sm~i~~~l~~~~ 1148 (1149)
++.++||..||++++.+.+.+..+|+.|+++.++.+|.||||||||+|||+||||.+||.+++
T Consensus 2 k~~~~VC~~CG~~~~~~~~~~~~~C~~C~~~~~i~~v~iPYa~KlL~qEL~smnI~~rl~~~d 64 (436)
T 3qqc_A 2 KTEVWVCENCGHIALEDKRRRRVYCPVCGEEERISKVEMSYAFKLLLDELKAMVIRPKLNLSE 64 (436)
T ss_dssp CEEEEEETTTCCBCEEETTTTEEECTTTCCSSSEEEEEECHHHHHHHHHHHHTTBCCEEEEEC
T ss_pred ceEEEEeCCCCceeeeccccCccCCCCCCCCCeEEEEEcChHHHHHHHHHHhCCeeceeeccc
Confidence 468899999999998766666788999999999999999999999999999999999999874
No 9
>3lti_A DNA-directed RNA polymerase subunit beta; BBM2, nucleotidyltransferase, transcription, transferase; HET: MLY MSE; 1.60A {Escherichia coli} PDB: 3e7h_A
Probab=98.81 E-value=4.2e-08 Score=107.82 Aligned_cols=68 Identities=18% Similarity=0.359 Sum_probs=53.7
Q ss_pred ccCCeEEEEeCC-----CC--cEEEEEEecCCCcceEEEEEeeCCEEEEEEceeeccccHHHHHHHhCCCCHHHHHHHhC
Q 001125 192 LSKNRVIIDTDK-----KG--NINASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQMVG 264 (1149)
Q Consensus 192 ~s~N~i~~~~~~-----~g--~~~a~v~s~~~~~~s~~~~~~k~g~i~~r~~~~~~~IPi~ilLrALG~~sD~eI~~~i~ 264 (1149)
+||+ ||+..+. .| .|.|+++|.++ .|..+....++.+|+|+++. +++|+++||||||++ ++||++.|+
T Consensus 4 ~SPG-v~f~~~~~~ths~g~~~y~~~iIP~RG--sWlefe~d~~d~~~vrIdr~-rK~p~t~lLrAlG~~-~edIL~~Fy 78 (296)
T 3lti_A 4 MSPG-VFFDSDKGKTHSSGKVLYNARIIPYRG--SWLDFEFDPKDNLFVRIDRR-RKLPATIILRALNYT-TEQILDLFF 78 (296)
T ss_dssp CCCE-EEEEEC---------CCEEEEEECSBS--CCEEEEECTTSCEEEEETTC-CCEETHHHHHHTTCC-HHHHHHHHC
T ss_pred CCCE-EEEecccCCcCCCCcEEEEEEEecCCC--ceEEEEEcCCCeEEEEEcCc-ccchHHHHHHHcCCC-hHHHHHhcc
Confidence 5675 7775432 34 37899998775 67877778889999999984 699999999999995 789999984
No 10
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus}
Probab=96.34 E-value=0.002 Score=66.93 Aligned_cols=65 Identities=9% Similarity=0.148 Sum_probs=56.8
Q ss_pred ccccEEccccHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHHHHhccCCCc
Q 001125 364 VGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLERTLSTGNFD 433 (1149)
Q Consensus 364 l~NkRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~ 433 (1149)
+-+|+.+++|+||+..++.+|.++.+.+|+++... +...+.+.+++|.++++.+|+.||.|++++
T Consensus 121 IVsQe~r~~gell~~q~r~gl~r~ek~~~e~~~~~-----~~~~~~~~~l~n~kp~~~~ik~ff~ss~Ls 185 (188)
T 3mlq_A 121 IVSQGGRTVGELMADQFRVGLARLARGVRERMVMG-----SPDTLTPAKLVNSRPLEAALREFFSRSQLS 185 (188)
T ss_dssp CCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHS-----CGGGCCHHHHCCCHHHHHHHHHHHHTCEEC
T ss_pred EEEeecccCCeeeEEehhhHHHHHHHHHHhhhccc-----cccccCcccchhhHHHHHHHHHhhcccccc
Confidence 56789999999999999999999999999999763 234577888999999999999999887653
No 11
>1gh9_A 8.3 kDa protein (gene MTH1184); beta+alpha complex structure, structural genomics, PSI, protein structure initiative; NMR {Methanothermobacterthermautotrophicus} SCOP: g.41.6.1
Probab=61.53 E-value=3.8 Score=35.54 Aligned_cols=48 Identities=23% Similarity=0.388 Sum_probs=30.8
Q ss_pred eeeeecccCCcceeecccccceecccccCCCcccc------ccccHhHHHHHHHHH
Q 001125 1087 FEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISS------MKLPYACKLLIQELQ 1136 (1149)
Q Consensus 1087 ~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~------v~iPy~~k~l~~EL~ 1136 (1149)
|.+..|+ ||...+.....+..-|+ |+..-++.+ +.-.....-+...|+
T Consensus 2 Y~vv~C~-C~~~~~~~~~~kT~~C~-CG~~~~~~k~rif~~~~d~~eA~e~~~~lq 55 (71)
T 1gh9_A 2 YIIFRCD-CGRALYSREGAKTRKCV-CGRTVNVKDRRIFGRADDFEEASELVRKLQ 55 (71)
T ss_dssp EEEEEET-TSCCEEEETTCSEEEET-TTEEEECCSSSCBSCCSSHHHHHHHHHHHS
T ss_pred eEEEECC-CCCEEEEcCCCcEEECC-CCCeeeeceEEEEEecCCHHHHHHHHHHHH
Confidence 4567899 99998886666667798 987544443 333344444444444
No 12
>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIR center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A
Probab=36.97 E-value=17 Score=37.88 Aligned_cols=29 Identities=21% Similarity=0.539 Sum_probs=20.7
Q ss_pred CceeeeecccCCcceeecccccce-ecccccCCC
Q 001125 1085 DPFEVQVCRVCGLLGYYNHKLKAG-ICSTCKNGD 1117 (1149)
Q Consensus 1085 D~~~~~vC~~cg~~~~~~~~~~~~-~C~~c~~~~ 1117 (1149)
|....|+|..||-+ |.. ..+ .|+.|+.+.
T Consensus 167 ~~~~~~~C~~CG~i-~~g---~~p~~CP~C~~~k 196 (202)
T 1yuz_A 167 DDDKFHLCPICGYI-HKG---EDFEKCPICFRPK 196 (202)
T ss_dssp CSCCEEECSSSCCE-EES---SCCSBCTTTCCBG
T ss_pred CCCcEEEECCCCCE-EcC---cCCCCCCCCCCCh
Confidence 66788999999976 432 233 499998643
No 13
>2apo_B Ribosome biogenesis protein NOP10; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: g.41.16.1 PDB: 2aqc_A
Probab=23.73 E-value=36 Score=28.42 Aligned_cols=24 Identities=29% Similarity=0.764 Sum_probs=17.6
Q ss_pred eeeecccCCcceeecccccceecccccCCC
Q 001125 1088 EVQVCRVCGLLGYYNHKLKAGICSTCKNGD 1117 (1149)
Q Consensus 1088 ~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~ 1117 (1149)
.+++|.+||..... ..|+.|+...
T Consensus 5 ~mr~C~~CgvYTLk------~~CP~CG~~T 28 (60)
T 2apo_B 5 RMKKCPKCGLYTLK------EICPKCGEKT 28 (60)
T ss_dssp CCEECTTTCCEESS------SBCSSSCSBC
T ss_pred hceeCCCCCCEecc------ccCcCCCCcC
Confidence 57789999975443 5699998643
No 14
>1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubre like, electron transport; 1.63A {Desulfovibrio vulgaris} SCOP: a.25.1.1 g.41.5.1 PDB: 1dvb_A 1jyb_A 1b71_A 1lkm_A 1lkp_A 1qyb_A 1s2z_A 1s30_A 1ryt_A
Probab=21.99 E-value=35 Score=35.15 Aligned_cols=30 Identities=20% Similarity=0.458 Sum_probs=19.3
Q ss_pred CceeeeecccCCcceeecccccceecccccCC
Q 001125 1085 DPFEVQVCRVCGLLGYYNHKLKAGICSTCKNG 1116 (1149)
Q Consensus 1085 D~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~ 1116 (1149)
|....++|..||-+....... ..|+.|+.+
T Consensus 151 ~~~~~~~C~~CG~~~~g~~~p--~~CP~C~~~ 180 (191)
T 1lko_A 151 EQATKWRCRNCGYVHEGTGAP--ELCPACAHP 180 (191)
T ss_dssp EEEEEEEETTTCCEEEEEECC--SBCTTTCCB
T ss_pred CCCceEEECCCCCEeeCCCCC--CCCCCCcCC
Confidence 344589999999763321111 279999864
No 15
>3pwf_A Rubrerythrin; non heme iron peroxidases, oxidative stress, oxidoreductase; 1.64A {Pyrococcus furiosus} PDB: 3mps_A 3pza_A 3qvd_A 1nnq_A 2hr5_A
Probab=21.86 E-value=54 Score=33.10 Aligned_cols=26 Identities=23% Similarity=0.671 Sum_probs=17.9
Q ss_pred eeeecccCCcceeecccccceecccccCC
Q 001125 1088 EVQVCRVCGLLGYYNHKLKAGICSTCKNG 1116 (1149)
Q Consensus 1088 ~~~vC~~cg~~~~~~~~~~~~~C~~c~~~ 1116 (1149)
..|+|..||-+... .. ...|+.|+.+
T Consensus 137 ~~~~C~~CG~i~~~-~~--p~~CP~Cg~~ 162 (170)
T 3pwf_A 137 KVYICPICGYTAVD-EA--PEYCPVCGAP 162 (170)
T ss_dssp CEEECTTTCCEEES-CC--CSBCTTTCCB
T ss_pred CeeEeCCCCCeeCC-CC--CCCCCCCCCC
Confidence 57999999976442 11 1269999854
No 16
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A
Probab=21.65 E-value=51 Score=27.17 Aligned_cols=34 Identities=15% Similarity=0.155 Sum_probs=22.2
Q ss_pred cCCCceeeeecccCCc-ceeecccccceecccccC
Q 001125 1082 VSSDPFEVQVCRVCGL-LGYYNHKLKAGICSTCKN 1115 (1149)
Q Consensus 1082 ~~SD~~~~~vC~~cg~-~~~~~~~~~~~~C~~c~~ 1115 (1149)
-.|+...+..|+.||. -+..+...+..+|..|+-
T Consensus 4 ~~~~ll~~~~Cp~C~~~~lv~D~~~ge~vC~~CGl 38 (58)
T 1dl6_A 4 SRLDALPRVTCPNHPDAILVEDYRAGDMICPECGL 38 (58)
T ss_dssp CSCCCCSCCSBTTBSSSCCEECSSSCCEECTTTCC
T ss_pred chhhccccccCcCCCCCceeEeCCCCeEEeCCCCC
Confidence 3566666778999987 233334455677999963
Done!