Query psy16767
Match_columns 1020
No_of_seqs 216 out of 1885
Neff 6.8
Searched_HMMs 29240
Date Fri Aug 16 21:30:12 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16767.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/16767hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3h0g_A DNA-directed RNA polyme 100.0 2E-180 5E-185 1732.6 24.4 866 1-1014 488-1457(1752)
2 1twf_A B220, DNA-directed RNA 100.0 1E-175 4E-180 1689.7 43.9 872 1-1015 482-1452(1733)
3 1hqm_D DNA-directed RNA polyme 100.0 4E-116 1E-120 1101.6 8.1 641 1-1003 480-1219(1265)
4 2a6h_D DNA-directed RNA polyme 100.0 3E-115 1E-119 1088.3 14.8 652 1-1006 740-1481(1524)
5 3lu0_D DNA-directed RNA polyme 100.0 1E-102 4E-107 961.3 12.9 317 1-407 461-812 (1407)
6 4ayb_A DNA-directed RNA polyme 100.0 2.8E-97 1E-101 923.5 24.3 406 1-443 457-871 (880)
7 4ayb_C DNA-directed RNA polyme 100.0 5E-71 1.7E-75 638.1 18.8 342 555-1009 47-391 (395)
8 3qqc_A DNA-directed RNA polyme 94.3 0.011 3.8E-07 68.2 1.4 69 929-997 359-431 (436)
9 2kke_A Uncharacterized protein 11.8 63 0.0022 24.5 0.6 18 384-401 35-52 (53)
10 2dzq_A General transcription f 10.9 95 0.0032 28.0 1.6 19 607-626 58-76 (99)
No 1
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00 E-value=1.5e-180 Score=1732.60 Aligned_cols=866 Identities=30% Similarity=0.440 Sum_probs=642.3
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeecccccccChHHHHHHHHHHhcccCccc
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALCILNTEI 76 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d~fl~~~~~~~l~~~~~~~~~~~i 76 (1020)
|||||||| |+||||||++||++++||++|++|+||+|++||+|+|+|+||++|+||+++++++++++ +..+++
T Consensus 488 FDGDeMnvHvPqs~eAraEa~~Lm~~~~nilsP~~G~Pi~~~~QD~vlg~y~lT~~~~f~~~~e~~~l~~~-~~~~~~-- 564 (1752)
T 3h0g_A 488 FDGDEMNMHVPQSEETRAEIQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLTRNAVMNIMLW-VPDWDG-- 564 (1752)
T ss_dssp SSSCEEEEECCCSTTHHHHHHHTCCTTTTSEETTTTEESCCCCTHHHHHHHHHHSTTCEEETHHHHGGGGC-SSSCCS--
T ss_pred cccceeeeeccCCHHHHHHHHHHhcCccceecCCCCCceeeecchhhhheeeeccccccCCHHHHHHHHHh-hcccCC--
Confidence 99999999 99999999999999999999999999999999999999999999999999999999987 333443
Q ss_pred ccCCCccccCCCCCCCcEEEEEEccccCCCCCccccccccccc-cccccccCccccCccccccCceEEEeccceeeeccC
Q psy16767 77 RTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSG-ILDKKQFGSTQYGLVHAVWDTHVTIRHGELLSGILD 155 (1020)
Q Consensus 77 ~l~~Pailkp~~lwTGKqv~s~~l~~~~P~~~~~in~~~~~~~-k~~~~~~~~~~~~~~~~~~d~~v~I~~Gell~G~Ld 155 (1020)
.+|+|||+||+++||||||||++| |.+ +|+ ..+ +. ... .+..|+.|+|+|||||+|+||
T Consensus 565 ~~~~pai~kp~~~wtGkqifs~il----p~~---~~~---~~~~~~-~~~---------~~~~d~~v~i~~gell~g~l~ 624 (1752)
T 3h0g_A 565 ILPPPVILKPKVLWTGKQILSLII----PKG---INL---IRDDDK-QSL---------SNPTDSGMLIENGEIIYGVVD 624 (1752)
T ss_dssp SCCCCSBCSSSCEEETTHHHHTTS----CSS---BCE---ECCCSS-CCS---------SCTTTCSEEECBSCEEEECCS
T ss_pred ccCccceecCcCCCchhhHHhhhC----cCC---CCc---eecccc-ccC---------cCCCcCeEEEEcCeEEecccc
Confidence 589999999999999999999988 876 455 322 21 111 134689999999999999999
Q ss_pred cccccCcchhHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhcceeeeeCccccChHHHHHHHHHHHHHHHHHHHHHHHHc
Q psy16767 156 KKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNAL 235 (1020)
Q Consensus 156 K~~lG~~~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~L~~~GfSvgi~D~~~~~~~~~~r~~~i~~a~~~~~~~~~~~~ 235 (1020)
|++||++.++|||.||++||+++|+.|||++++|+++||+++||||||+|++++++..+++.++|++|++++.++++++.
T Consensus 625 K~~lg~~~~~li~~i~~~~G~~~~~~~ld~~~~l~~~~l~~~GfSigi~D~~~~~~~~~~~~~~i~~a~~~v~~~~~~~~ 704 (1752)
T 3h0g_A 625 KKTVGASQGGLVHTIWKEKGPEICKGFFNGIQRVVNYWLLHNGFSIGIGDTIADADTMKEVTRTVKEARRQVAECIQDAQ 704 (1752)
T ss_dssp HHHHSSCTTCHHHHSSSSSCTTTHHHHHHHHHHHHHHHHHHHCCCCCGGGGSCCSHHHHHHHHHHHTTTHHHHHHHTTTT
T ss_pred hHHhccCcccHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHhcCceechhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999988766654322
Q ss_pred CCCCCCCHHHHHHHHHHhcc---CchhHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCChhHHHHhhcCCcchhhH
Q psy16767 236 GLPLDTDPEIISSQLQEAYA---SIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVNT 312 (1020)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~ld~~~~~~l~~~~~~i~~~~~~~~~~~~~~~N~~~~M~~SGAKGS~~N~ 312 (1020)
.+.+ ++.+..+.+|..+.+++|++++++++.|+.. +.++|++++|+.||||||.+|+
T Consensus 705 ----------------~g~l~~~~g~~~~e~~e~~v~~~l~~~~~~~~~~~~~~----l~~~N~~~~M~~SGakGs~~ni 764 (1752)
T 3h0g_A 705 ----------------HNRLKPEPGMTLRESFEAKVSRILNQARDNAGRSAEHS----LKDSNNVKQMVAAGSKGSFINI 764 (1752)
T ss_dssp ----------------TTCCCCCSSCCTTHHHHHHHHHHHHHHHHHHHHHHHTT----SCSSCTTTHHHHHCSSCCHHHH
T ss_pred ----------------cCCCccCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHh----cCCCCcHHHHhhhccccCHHHH
Confidence 2222 2334556778888899999999999988753 5689999999999999999999
Q ss_pred HHHHhhccceeecCCCCCCCCCCCcccCCCCCCCCcccccccccccccCCChhhHHHhhcccccchhhhccccCCcchhH
Q psy16767 313 MQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQ 392 (1020)
Q Consensus 313 ~Qi~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~GfI~~sF~~GL~p~EfFfH~m~gReGLiDTAvKTa~sGYLq 392 (1020)
+||+||||||+++|+|||+||+||+||||.++|.+|+++|||.|||++||+|+|||||||||||||||||||||+|||||
T Consensus 765 ~Q~~~~~Gqq~~~GkrIp~g~~~rtLP~f~k~d~~~~a~GfV~~sF~~GL~p~EfFfhtmggReGLiDTAvKTA~SGYLq 844 (1752)
T 3h0g_A 765 SQMSACVGQQIVEGKRIPFGFKYRTLPHFPKDDDSPESRGFIENSYLRGLTPQEFFFHAMAGREGLIDTAVKTAETGYIQ 844 (1752)
T ss_dssp HHHHTCCCCCCSTTSSSCCCSTTSSSTTSCSSCCSTTTSSCCSSCTTTCCCHHHHHHHHHHHTTTTTHHHHTTTHHHHHH
T ss_pred HHHHhccCCCccCCccCCCCCCCccCCCCCCCCCCcccCcchhhcccCCCCHHHHHHHhhhhhhhhhHhhhhcCcCchhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcceEEeeceEEEeCCCcEEEEEecCcccccchhcccccccchhhhhhHHHHhhHHHHHhhhcc----------
Q psy16767 393 RCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLLKK---------- 462 (1020)
Q Consensus 393 RrLvk~lEdl~V~yd~tvr~~~~~iiqf~yg~dg~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~---------- 462 (1020)
|||||+||||+|+||+||||++|.||||.|||||+|+++.+ .+.++++..+...++. +|+-.
T Consensus 845 RRLVk~leDv~V~YDgTVRns~g~ivQF~YGeDGlD~~~~e---~q~~~~~~~s~~~f~~-----~~~~~~~~~~~~~~~ 916 (1752)
T 3h0g_A 845 RRLVKAMEDVMVRYDGTVRNAMGDIIQFAYGEDGLDATLVE---YQVFDSLRLSTKQFEK-----KYRIDLMEDRSLSLY 916 (1752)
T ss_dssp HHHHHHHTTCEEETTTEEECTTSCEEESSSSSSCBCGGGEE---EEECTTTSCCHHHHTT-----TSCCCTTTTCCGGGT
T ss_pred HHHHHHHhheEEeeCCeeEcCCCcEEEEecCCCCcChHHhh---ccccccccCCHHHHHH-----HhcccccccccccHH
Confidence 99999999999999999999999999999999999998754 3445555544333321 11100
Q ss_pred ----------CchhHHHHHHHhhhcCCCCCc-ccCCCcch-----hHHHHHHHHHhhcHHHHHHHHHhccCCCCCCcccC
Q psy16767 463 ----------HPLSLALLLLLTFKSSGKPNF-IFSPHRTK-----FTMDLLEQWYQLDDKARKKYRKKFKACPQPLISTF 526 (1020)
Q Consensus 463 ----------~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 526 (1020)
....+..+|.........++. +...+... ...+++.... +.-.......+.+
T Consensus 917 ~~~~l~~~~~~~~~l~~E~~~l~~dr~~lr~~i~~~~~~~~~lP~N~~R~i~~~~------------~~f~~~~~~~s~l 984 (1752)
T 3h0g_A 917 MENSIENDSSVQDLLDEEYTQLVADRELLCKFIFPKGDARWPLPVNVQRIIQNAL------------QIFHLEAKKPTDL 984 (1752)
T ss_dssp SCSCCTTSCSSTHHHHHHHHHHHHHHTTSSSSSSSCSCCEEEEESCHHHHTTTTT------------TTSCCCTTSCCCC
T ss_pred HHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccCCccHHHHHHHHH------------HhcCCCcCccCCC
Confidence 001111222100000000000 00000000 0000000000 0000000011112
Q ss_pred CCCcccccchHH------------------------HHHHHHHHhhcc----CcchhHH---HHHHHHHHhhhcccCCCC
Q psy16767 527 QPDAHFGSISEN------------------------LADSVVKYTKGR----TDASHVD---KFYDMIFYKNLLSLANPG 575 (1020)
Q Consensus 527 ~~~~~~~~~~e~------------------------~~~~l~~~~~~~----~~~~~~~---~~~~~~~~ky~~slv~pG 575 (1020)
+|...++.+.+. +...+..++..+ ...++++ +|...|+.||.+|+|+||
T Consensus 985 ~p~~~~~~v~~~~~~l~~~~g~d~l~~~~~~na~~l~~~~lr~~l~~k~~~~~~~l~~~~~~~~~~~~~~~y~~a~v~pG 1064 (1752)
T 3h0g_A 985 LPSDIINGLNELIAKLTIFRGSDRITRDVQNNATLLFQILLRSKFAVKRVIMEYRLNKVAFEWIMGEVEARFQQAVVSPG 1064 (1752)
T ss_dssp CHHHHHHHHHHHHTTCCCSCCCSTTTTHHHHTSSHHHHHHHTTSSSHHHHHHSSCCCHHHHHHHHHHHHHHHHTTBCCSS
T ss_pred CHHHHHHHHHHHHHhhhcccCCcchhhhhhhchHHHHHHHHHhhhhhhhhhhhcCcCHHHHHHHHHHHHHHHHHhccCcc
Confidence 222111111111 111111111000 0113444 455667899999999999
Q ss_pred CcchhhhhcccCCccccccccccccCCccccccccChhhHHHHHHHhhcCCCCCeEEEEcCCCCchhHHHHHHHHhhccc
Q psy16767 576 ENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAKSMTR 655 (1020)
Q Consensus 576 e~VG~iAAQSIGEP~TQmTLnTFH~AG~~~~nvTlGvPRLkEIi~~ASk~iKTP~mtv~L~~~~~~~~~~a~~i~~~l~~ 655 (1020)
||||+|||||||||+|||||||||||||++|||||||||||||| +|||+||||+|||+|.++....+++|+.|+++|++
T Consensus 1065 e~VG~iaAQSIgEp~TQMTLnTFHfAGvas~NVTlGVPRLkEII-nask~ikTP~mtv~L~~~~~~d~e~A~~v~~~ie~ 1143 (1752)
T 3h0g_A 1065 EMVGTLAAQSIGEPATQMTLNTFHYAGVSSKNVTLGVPRLKEIL-NVAKNIKTPSLTIYLMPWIAANMDLAKNVQTQIEH 1143 (1752)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHTTSSCCCCCSSCCCSGGGHHHHH-TTCSCCSCCCCEECCCSSSCSSSTTTHHHHTTSSC
T ss_pred cchhhhhhcccCCchhhhhHHhhhhccccccccccCcccHHHHH-hhhcCCCCCeEEEEecCccccCHHHHHHHHHhhcc
Confidence 99999999999999999999999999999999999999999999 68999999999999998764444889999999999
Q ss_pred eehhhhcceeEEEEEee-----cCCC--------------------CCcceEEEEEEecccccccccCCChhhHHHHHHH
Q psy16767 656 ITMADVLEKVKIKEWLE-----ISPE--------------------PHMNYQMKFCFIPAHMYRDKTSVKPSKIIDHFER 710 (1020)
Q Consensus 656 v~L~dvi~~i~v~~~~~-----~~~~--------------------~~~~y~i~~~l~~~~~~~~~~~i~~~~i~~~~~~ 710 (1020)
++|+||++.++|.+... +..+ ....|.+++++...... .+.+++.+|...+.+
T Consensus 1144 t~L~~v~~~~~i~~~p~~~~~~i~~d~~~v~~~~~~~~~~~~~~~~~~~~~~~rl~l~~~~~~--~~~l~~~~I~~~i~~ 1221 (1752)
T 3h0g_A 1144 TTLSTVTSATEIHYDPDPQDTVIEEDKDFVEAFFAIPDEEVEENLYKQSPWLLRLELDRAKML--DKKLSMSDVAGKIAE 1221 (1752)
T ss_dssp CSSCSCCSCEEEECCCSTTCCCCSSSCSHHHHHHHTTCSSTTCSSCSCCCCEEEEECCTTSST--TTTCCHHHHTTSGGG
T ss_pred EEHHHheeEEEEEEecCccceEEeecHHHHHHHhccchhhhhcccccccceeEEEEecHHHHH--HcCCCHHHHHHHHHh
Confidence 99999999998865321 0000 12356666666433222 344554433322110
Q ss_pred HHHHHHHHHHHHHHHccccccccccccccccCCCCcccCCccccccccCCCcCCCCccccchhhhhhhhhhccccccCCC
Q psy16767 711 KFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDF 790 (1020)
Q Consensus 711 ~f~~~~~~~i~k~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~ 790 (1020)
. + ..++... .+|+++ +...++++ .......
T Consensus 1222 ~-------------------~---------~~~~~v~-----------------~~d~~~---~~~~i~i~--~~~~~~~ 1251 (1752)
T 3h0g_A 1222 S-------------------F---------ERDLFTI-----------------WSEDNA---DKLIIRCR--IIRDDDR 1251 (1752)
T ss_dssp S-------------------S---------TTSCCEE-----------------CCCTTC---SSCEEEEC--CCCCSCC
T ss_pred h-------------------c---------cCCeeEe-----------------ecCCCc---cceeEEEE--ecccccc
Confidence 0 0 0011100 011110 01011111 1110000
Q ss_pred CCcchHHhhhhcccccCCCcccccchhhcccchhHHHHHHhh---------ccccceeeeccccCCceEEEEecccceec
Q psy16767 791 EEPEDEERMSEREEDDNTSNIGERFKIEFRDSTNVFVKDVVN---------QHNIVHKYSYDKKNHMWCKLLFLPSNLFE 861 (1020)
Q Consensus 791 ~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~---------~~~~i~~~~~d~~~~~~~~~~~lp~~~~~ 861 (1020)
+++++ . + +.+ .+..++.+.. ..+.|.+.....++ .. +...
T Consensus 1252 ~~~~~--~-------~-~~~------------~~~~l~~l~~~~l~~~~i~Gi~~I~rv~i~~~~-----~~----~~~~ 1300 (1752)
T 3h0g_A 1252 KAEDD--D-------N-MIE------------EDVFLKTIEGHMLESISLRGVPNITRVYMMEHK-----IV----RQIE 1300 (1752)
T ss_dssp CCCSS--C-------C-CSC------------SCHHHHHHHHHHTTCCCSSCCTTCCCCCEEEEE-----EE----EECS
T ss_pred ccccc--c-------c-ccc------------HHHHHHHHHHhhccceEEecCCCccEEEEeccc-----ce----eecC
Confidence 00000 0 0 000 0111222210 01112211111000 00 0000
Q ss_pred c----CCceEEEEEeccchhhhhccCCcccccccccccHHHHHHhhhHHHHHHHHHHHHHhhhhccCcccCcchhhhhcc
Q psy16767 862 E----KESKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVAD 937 (1020)
Q Consensus 862 ~----~~~e~~l~teG~nl~~~~~~~~~iD~~r~~sNdi~~i~~~~GIEAar~~i~~ei~~v~~~~g~~v~~rHl~LlAD 937 (1020)
. ..++|+|+|||+||+++|.+ +.||++||+||||++|+++|||||||++|++||+.||+.||++||+|||+||||
T Consensus 1301 ~g~~~~~~~~~l~teG~nL~~v~~~-~gVD~~rt~sNdI~ei~~vlGIEAAR~~Ii~Ei~~v~~~~G~~Vd~RHl~LlaD 1379 (1752)
T 3h0g_A 1301 DGTFERADEWVLETDGINLTEAMTV-EGVDATRTYSNSFVEILQILGIEATRSALLKELRNVIEFDGSYVNYRHLALLCD 1379 (1752)
T ss_dssp SSCEEEEEEEEEECCSCCCSTTTSS-SSCCTTTCCCSCHHHHHHHSCHHHHHHHHHHHHHTTSCSSSCCCCHHHHHHHHH
T ss_pred CCcccccceEEEEecccCHHHHhCc-CCCccccCeeCCHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence 0 13589999999999999999 579999999999999999999999999999999999999999999999999999
Q ss_pred cceeeeeEEeeecccccc-CcchhhhhcchhHHHHHHHHHhcCCCccCCCcccceecCCccccCccceEEeecccccc
Q psy16767 938 YMTHSGTYVAMNRNGIRL-NPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGLFQLRNREKKKK 1014 (1020)
Q Consensus 938 ~MT~~G~~~~~nR~G~~~-~~spl~kaSFE~t~~~L~~AA~~g~~D~l~svSa~Ii~Gk~~~~GTG~fdll~~~~~~~ 1014 (1020)
+||++|++++||||||++ ++|||+|||||+|+++|++||++|+.|+|+|||+||||||++++|||+|||+++.++.+
T Consensus 1380 ~MT~~G~~~~itR~Gi~~~~~s~l~~aSFE~T~~~L~~Aa~~g~~D~l~gvse~Ii~G~~~~~GTG~fdll~~~~~l~ 1457 (1752)
T 3h0g_A 1380 VMTSRGHLMAITRHGINRAETGALMRCSFEETVEILMDAAASGEKDDCKGISENIMLGQLAPMGTGAFDIYLDQDMLM 1457 (1752)
T ss_dssp HHTSSSSCCCCCTTSCSCCCSHHHHHHHHSCCTHHHHHHGGGTCCBCCCCSTTGGGTCSCCCSBTTSCEECCCHHHHH
T ss_pred HhccCCeEEeechhhhccCCCCHHHHhhHHHHHHHHHHHHHhcCcccccChhHHhhcCCCcCCccceEEEEeCHHHhc
Confidence 999999999999999987 69999999999999999999999999999999999999999999999999999977655
No 2
>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* ...
Probab=100.00 E-value=1.2e-175 Score=1689.66 Aligned_cols=872 Identities=29% Similarity=0.419 Sum_probs=636.4
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeecccccccChHHHHHHHHHHhcccCccc
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALCILNTEI 76 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d~fl~~~~~~~l~~~~~~~~~~~i 76 (1020)
|||||||| |+||||||++||++++||++|++|+||+|++||+|+|+|+||++|+||+++++++++++ +..+.+
T Consensus 482 FDGDeMnvHvPqs~eAraEa~~Lm~~~~nilsP~~G~Pi~~~~QD~v~g~y~lT~~~~f~~~~e~~~~~~~-~~~~~~-- 558 (1733)
T 1twf_A 482 FDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLYW-VPDWDG-- 558 (1733)
T ss_dssp SSSCEEEEECCCSHHHHHHHHHHTBGGGGSEETTTTEESCCCCHHHHHHHHHHHSTTCEEEHHHHHHHHHH-STTCCS--
T ss_pred chhhhhhhhcCCCHHHHHHHHHHhcCcccEEecCCCCeeEeeeccccccceeeecCcccCCHHHHHHHHHh-hhhhcC--
Confidence 99999999 99999999999999999999999999999999999999999999999999999999998 333433
Q ss_pred ccCCCccccCCCCCCCcEEEEEEccccCCCCCccccccccccccccccccCccccCccccccCceEEEeccceeeeccCc
Q psy16767 77 RTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSGILDKKQFGSTQYGLVHAVWDTHVTIRHGELLSGILDK 156 (1020)
Q Consensus 77 ~l~~Pailkp~~lwTGKqv~s~~l~~~~P~~~~~in~~~~~~~k~~~~~~~~~~~~~~~~~~d~~v~I~~Gell~G~LdK 156 (1020)
.+|+|||+||+++||||||||++| |.+ +|+ ..+. +...|. ...|++|+|+||||++|+|||
T Consensus 559 ~~~~pai~kp~~~wtGkqifs~il----p~~---~~~---~~~~-~~~~~~--------~~~d~~v~i~~gel~~g~ldK 619 (1733)
T 1twf_A 559 VIPTPAIIKPKPLWSGKQILSVAI----PNG---IHL---QRFD-EGTTLL--------SPKDNGMLIIDGQIIFGVVEK 619 (1733)
T ss_dssp CCCCCSBCSSSCEEEHHHHHHHHS----CTT---CCE---EECC-TTCCTT--------CTTCCSEEEETTEEEESCCCH
T ss_pred ccCCccccCcccCccHHHHHHHhC----CCC---Cce---eecC-CCcccC--------CcccceEEEeCCcEEEeecch
Confidence 579999999999999999999998 876 454 3221 112343 225889999999999999999
Q ss_pred ccccCcchhHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhcceeeeeCccccChHHHHHHHHHHHHHHHHHHHHHHHHcC
Q psy16767 157 KQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALG 236 (1020)
Q Consensus 157 ~~lG~~~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~L~~~GfSvgi~D~~~~~~~~~~r~~~i~~a~~~~~~~~~~~~~ 236 (1020)
++||++.++|||.||++||+++|+.|||++++|+++||+++||||||+|++++++..++++++|++|++++.++++++
T Consensus 620 k~lg~~~~~li~~i~~~~G~~~a~~~ld~l~~l~~~~l~~~GfSigi~D~~~~~~~~~~i~~~i~~a~~~v~~~~~~~-- 697 (1733)
T 1twf_A 620 KTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEA-- 697 (1733)
T ss_dssp HHHSSCTTSHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHTTCBCCCGGGGCCCHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHhccChhHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHcceEEehhhcCcCHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence 999999999999999999999999999999999999999999999999999999999999999999998877665542
Q ss_pred CCCCCCHHHHHHHHHHhcc---CchhHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCChhHHHHhhcCCcchhhHH
Q psy16767 237 LPLDTDPEIISSQLQEAYA---SIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVNTM 313 (1020)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~ld~~~~~~l~~~~~~i~~~~~~~~~~~~~~~N~~~~M~~SGAKGS~~N~~ 313 (1020)
..+.+ ++.+..+.++..+..+++++++++++.++.. +.++|++++|+.||||||++|++
T Consensus 698 --------------~~g~l~~~pg~~~~e~~e~~v~~il~~~~d~~~~~~~~~----l~~~N~i~~Ma~SGAKGs~~Ni~ 759 (1733)
T 1twf_A 698 --------------QANLLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVN----LKDLNNVKQMVMAGSKGSFINIA 759 (1733)
T ss_dssp --------------HHTCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHH----SCTTCHHHHHHHHTSSCCHHHHH
T ss_pred --------------HhCCCccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh----cccCCCeEEEeeccCcccHHhHH
Confidence 23333 3445667788888899999999999888753 56899999999999999999999
Q ss_pred HHHhhccceeecCCCCCCCCCCCcccCCCCCCCCcccccccccccccCCChhhHHHhhcccccchhhhccccCCcchhHH
Q psy16767 314 QISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQR 393 (1020)
Q Consensus 314 Qi~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~GfI~~sF~~GL~p~EfFfH~m~gReGLiDTAvKTa~sGYLqR 393 (1020)
||+||||||+++|+|||+||+|||||||.++|++|+|+|||.|||++||+|+|||||||||||||||||||||+||||||
T Consensus 760 Q~~~~~Gqq~~~Gkrip~g~~~RtLPhf~k~d~~p~s~GfI~ssF~~GLtp~EyFfh~mggReGLiDTAvKTA~SGYLqR 839 (1733)
T 1twf_A 760 QMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQR 839 (1733)
T ss_dssp HHHSCCEECCBTTBSCCCCBTTBSSTTSCTTCCSTTTTTEECSCTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhCcCCcccCCccCCCCCCCCCCCCCCCCCCCccccchhhhhhhcccchHHHhhhhhccccchhhhceecccCCccee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhcceEEeeceEEEeCCCcEEEEEecCcccccchhcccccccchhhhhhHHHHhhHHHHHhhhccCchhHHHHHHH
Q psy16767 394 CLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFLEDNIKWICSYKVILNLLKKHPLSLALLLLL 473 (1020)
Q Consensus 394 rLvk~lEdl~V~yd~tvr~~~~~iiqf~yg~dg~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~ 473 (1020)
||||+||||+|+|||||||++|.||||.||+||+|++..+ .+.++++..|...++. +|+......
T Consensus 840 RLVk~ledv~V~yDgTVR~s~g~IvQF~YGeDGlD~~~~e---~~~~~~~~~~~~~f~~-----~~~~~~~~~------- 904 (1733)
T 1twf_A 840 RLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDAAHIE---KQSLDTIGGSDAAFEK-----RYRVDLLNT------- 904 (1733)
T ss_dssp HHHHHHTTCEECTTSCEECTTCCEEESSGGGTTBCGGGEE---EEECGGGSSCHHHHHH-----HHCCCTTCT-------
T ss_pred ehhhhhcceEEEecCcEecCCCCEEEEEeccccCCcceee---cccccccccCHHHHHH-----Hhccccccc-------
Confidence 9999999999999999999999999999999999998654 3446666554433311 111000000
Q ss_pred hhhcCCCCCcccC-----CCcchhHHHHHHHHHhhcHHHHHHHHHhcc----CCCCCC-------------------ccc
Q psy16767 474 TFKSSGKPNFIFS-----PHRTKFTMDLLEQWYQLDDKARKKYRKKFK----ACPQPL-------------------IST 525 (1020)
Q Consensus 474 ~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~-------------------~~~ 525 (1020)
..+... .... .........+.+.|..+. +.|..+++... ..+.|+ .+.
T Consensus 905 --~~~l~~-~~~~~~~~~~~~~~~~~~l~~e~~~l~-~~r~~lr~i~~~~~~~~~~P~ni~r~i~~~~~~f~~~~~~~s~ 980 (1733)
T 1twf_A 905 --DHTLDP-SLLESGSEILGDLKLQVLLDEEYKQLV-KDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSD 980 (1733)
T ss_dssp --TTSCCT-TTBTTHHHHTTCHHHHHHHHHHHHHHH-HHHHHHHHHTTTCCCEEEEESCHHHHHHHHHHHTTCCTTSCBC
T ss_pred --cccCCH-HHHHHHHHhhccHHHHHHHHHHHHHHH-HHHHHHHHhhccccccccCChhHHHHHHHHHHHhccccccccc
Confidence 000000 0000 000000011112222111 11111111000 000111 223
Q ss_pred CCCCcccccchHHHH------------------------HHHHHHhhcc----CcchhHH---HHHHHHHHhhhcccCCC
Q psy16767 526 FQPDAHFGSISENLA------------------------DSVVKYTKGR----TDASHVD---KFYDMIFYKNLLSLANP 574 (1020)
Q Consensus 526 ~~~~~~~~~~~e~~~------------------------~~l~~~~~~~----~~~~~~~---~~~~~~~~ky~~slv~p 574 (1020)
++|...++.+.+.+. ..++.++... ...++.+ +|...|+.||++|+|+|
T Consensus 981 l~p~~~~~~v~~~~~~~~~~~g~d~l~~~~~~n~~~l~~~~~rs~L~~k~~~~~~~l~~~~~~~~l~~i~~ky~~a~v~p 1060 (1733)
T 1twf_A 981 LTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFLRSVVHP 1060 (1733)
T ss_dssp CCHHHHHHHHHHHHTTCCSCCCCSHHHHHHHHHTTHHHHHHHHHHSCHHHHHHTSCCCHHHHHHHHHHHHHHHHHHBCCT
T ss_pred CCHHHHHHHHHHHHHhhhcccCCcchhhhhhhchHHHHHHHhhhhhhhhhhhhhcCCCHHHHHHHHHHHHHHHHhccCCC
Confidence 444444444333322 1111111110 0113444 45556799999999999
Q ss_pred CCcchhhhhcccCCccccccccccccCCccccccccChhhHHHHHHHhhcCCCCCeEEEEcCCCCchhHHHHHHHHhhcc
Q psy16767 575 GENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAKSMT 654 (1020)
Q Consensus 575 Ge~VG~iAAQSIGEP~TQmTLnTFH~AG~~~~nvTlGvPRLkEIi~~ASk~iKTP~mtv~L~~~~~~~~~~a~~i~~~l~ 654 (1020)
|||||+|||||||||+|||||||||||||++||||||||||+||| +|||+||||+|+|+|.++....+++|+.++++|+
T Consensus 1061 Ge~VG~iaAQSigEp~TQMTLnTFHfAGva~~NVTLGVPRLkEIi-nask~ikTP~mtv~L~~~~~~~~e~A~~v~~~ie 1139 (1733)
T 1twf_A 1061 GEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEIL-NVAKNMKTPSLTVYLEPGHAADQEQAKLIRSAIE 1139 (1733)
T ss_dssp TCCHHHHHHHHHHHHHTTCCC----------CCSCCHHHHHHHHT-TTCSSCSSCEEEEEBCSSSSSCHHHHHHHHHHHS
T ss_pred CchhhhHhhhhcCCccccccccccccccccccCcccCcHHHHHHH-HhccCCCCCeEEEEeCCcccccHHHHHHHHHhhc
Confidence 999999999999999999999999999999999999999999999 6799999999999999876445589999999999
Q ss_pred ceehhhhcceeEEEEEeec-----C--------------------CCCCcceEEEEEEecccccccccCCChhhHHHHHH
Q psy16767 655 RITMADVLEKVKIKEWLEI-----S--------------------PEPHMNYQMKFCFIPAHMYRDKTSVKPSKIIDHFE 709 (1020)
Q Consensus 655 ~v~L~dvi~~i~v~~~~~~-----~--------------------~~~~~~y~i~~~l~~~~~~~~~~~i~~~~i~~~~~ 709 (1020)
+++|+||+++++|.+.... . ......|.+++++.... .....++..+|...+.
T Consensus 1140 ~ttL~dv~~~i~i~~dp~~~~tvi~ed~~~~~~y~~i~~~d~~~~~~~~~~~~lrl~l~~~~--~~~~~l~~~~I~~~i~ 1217 (1733)
T 1twf_A 1140 HTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELDRAA--MNDKDLTMGQVGERIK 1217 (1733)
T ss_dssp CEEGGGTEEEEEEEECCCSSSCSSGGGHHHHHTSSCC----------CCCSEEEEEEECHHH--HHHTTCCHHHHHHHHH
T ss_pred eeEHHHhhheEEEEEccCccceeeecchhhhhhhhcccHHhhcchhhhcccceeEEEecHHH--HHhcCCCHHHHHHHHH
Confidence 9999999999998763210 0 00112344455542211 1133455544443332
Q ss_pred HHHHHHHHHHHHHHHHccccccccccccccccCCCCcccCCccccccccCCCcCCCCccccchhhhhhhhhhccccccCC
Q psy16767 710 RKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDND 789 (1020)
Q Consensus 710 ~~f~~~~~~~i~k~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~ 789 (1020)
.. ... ++... .+|+++ +....+++.. ...+
T Consensus 1218 ~~------------~~~----------------~~~~~-----------------~~d~~~---~~~~~~i~~~--~~~~ 1247 (1733)
T 1twf_A 1218 QT------------FKN----------------DLFVI-----------------WSEDND---EKLIIRCRVV--RPKS 1247 (1733)
T ss_dssp HH------------HGG----------------GEEEE-----------------ECCTTS---SSCEEEEEEC------
T ss_pred Hh------------hCC----------------Cccee-----------------cCCccc---chhheeeeec--cCcc
Confidence 11 000 00000 000000 0001111111 1000
Q ss_pred CCCcchHHhhhhcccccCCCcccccchhhcccchhHHHHHHh-----hccccceeeeccccCCceEEEEeccc--ceecc
Q psy16767 790 FEEPEDEERMSEREEDDNTSNIGERFKIEFRDSTNVFVKDVV-----NQHNIVHKYSYDKKNHMWCKLLFLPS--NLFEE 862 (1020)
Q Consensus 790 ~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~-----~~~~~i~~~~~d~~~~~~~~~~~lp~--~~~~~ 862 (1020)
. + ++ . + .+++ .. ....+.++. ...+.|.++.....+ .+. +.. -. .
T Consensus 1248 ~-~-~~--~------~-~~~~---~~-------l~~l~~~~l~~~~v~Gi~~I~r~~i~~~~----~~~-~~~~g~~--~ 1299 (1733)
T 1twf_A 1248 L-D-AE--T------E-AEED---HM-------LKKIENTMLENITLRGVENIERVVMMKYD----RKV-PSPTGEY--V 1299 (1733)
T ss_dssp -----------------CCTT---HH-------HHHHHHHHHHHCEEESCTTCCCEEEEEEE----EEE-ECTTSSE--E
T ss_pred c-c-cc--c------c-chhH---HH-------HHHHHHHhhhheEEecCCCccEEEEeccc----cee-ecCCCcc--c
Confidence 0 0 00 0 0 0000 00 000112221 111222222211000 000 000 00 1
Q ss_pred CCceEEEEEeccchhhhhccCCcccccccccccHHHHHHhhhHHHHHHHHHHHHHhhhhccCcccCcchhhhhcccceee
Q psy16767 863 KESKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVADYMTHS 942 (1020)
Q Consensus 863 ~~~e~~l~teG~nl~~~~~~~~~iD~~r~~sNdi~~i~~~~GIEAar~~i~~ei~~v~~~~g~~v~~rHl~LlAD~MT~~ 942 (1020)
.+++|+|+|||+||.++|.+++ ||++||+||||++|+++|||||||++|++||+.||+.||++||+|||.||||+||++
T Consensus 1300 ~~~~~~L~teG~nL~~vl~~~~-VD~~rt~SNdI~eI~~vlGIEAAR~~Ii~Ei~~V~~~~Gi~Vd~RHl~LlaD~MT~~ 1378 (1733)
T 1twf_A 1300 KEPEWVLETDGVNLSEVMTVPG-IDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQ 1378 (1733)
T ss_dssp EEEEEEEEEESCCHHHHTTSTT-BCTTTCBCSCHHHHHHHHCHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTTTB
T ss_pred cCcceEEEeecccHHHHhccCC-cccccceeccHHHHHHHhhHHHHHHHHHHHHHHHHhhcCccccchhhhhhhhhhccC
Confidence 2468999999999999999965 999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEeeecccccc-CcchhhhhcchhHHHHHHHHHhcCCCccCCCcccceecCCccccCccceEEeeccccccc
Q psy16767 943 GTYVAMNRNGIRL-NPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGLFQLRNREKKKKK 1015 (1020)
Q Consensus 943 G~~~~~nR~G~~~-~~spl~kaSFE~t~~~L~~AA~~g~~D~l~svSa~Ii~Gk~~~~GTG~fdll~~~~~~~~ 1015 (1020)
|.+++||||||++ ++|||++||||+|+++|++||++|+.|.|+|||+|||+||++++|||+|||++++++.+.
T Consensus 1379 G~~~~itR~Gi~~~~~S~L~~aSFE~T~~~L~~Aa~~g~~D~l~gvsenII~G~~~~~GTG~FdLl~~~~~~~~ 1452 (1733)
T 1twf_A 1379 GGLTSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTGAFDVMIDEESLVK 1452 (1733)
T ss_dssp SSCCCSSSCSSSCSSCCTTSSCCSSCSHHHHHHHHHHTCEECCCSHHHHHHTTCCCSSGGGSSEEEECSCCC--
T ss_pred ceecccchhhhcccCCCchhhcchhhhHHHHHHHHhccCcCcccccccccccCCCCCCCCccEEEEEchhhccc
Confidence 9999999999987 699999999999999999999999999999999999999999999999999999877554
No 3
>1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D- structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB: 1i6v_D* 2gho_D
Probab=100.00 E-value=3.5e-116 Score=1101.58 Aligned_cols=641 Identities=21% Similarity=0.275 Sum_probs=440.1
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeecccc--------cccChHHHHHHHHHH
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRD--------TFLTRAEYMNLVYQA 68 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d--------~fl~~~~~~~l~~~~ 68 (1020)
|||||||| |++|||||++||++++||+||++|+||+|++||+|+|+|+||+++ +|+++++++++++.+
T Consensus 480 FDGDeMnvHvPqs~eA~aEa~~Lm~~~~nilsP~~G~Pi~~~~QD~vlg~y~LT~~~~~~~~~~~~F~~~~e~~~~~~~~ 559 (1265)
T 1hqm_D 480 FDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGMAFATPEEALAAYERG 559 (1265)
T ss_dssp SSSCBCCCCCCCSTHHHHTTSSSSBSSSSSSSCSSSSCSSCCCTTHHHHHHHTTCCCCCCCCCCCCSSCCTHHHHHTTSS
T ss_pred cccceEEEecCCCHHHHHHHHHHhCccccEecCCCCCeeEeeeccccceeEEeccccCCccCCCcccCCHHHHHHHHHCC
Confidence 99999999 999999999999999999999999999999999999999999998 799999999876654
Q ss_pred hcccCcccccCCCc----cc-----------------------------cC--CCCCCCcEEEEEEccccCCCCCccccc
Q psy16767 69 LCILNTEIRTLPPT----IW-----------------------------KP--MPLWTGKQVLSTVIINLTPKDKVIIRH 113 (1020)
Q Consensus 69 ~~~~~~~i~l~~Pa----il-----------------------------kp--~~lwTGKqv~s~~l~~~~P~~~~~in~ 113 (1020)
..+.+..+.+.+|+ ++ || ..+|||||+|+.++ |.+.. +.
T Consensus 560 ~i~l~a~i~~~~~~~~~g~~k~~~t~P~k~I~~~~~g~~~~q~~~~~~~k~~~~~t~~Gr~if~~~l----p~~~~--~~ 633 (1265)
T 1hqm_D 560 EVALNAPIVVAGRETSVGRLKFVFANPDEALLAVAHGLLDLQDTVTTRYLGRRLETNPGRILFARIV----GEAVG--DE 633 (1265)
T ss_dssp CCSSCCCSSSCCSTTSSCCCCCTTTCSHHHHHHHHTTSSCSSSCCCCEESSSEECCCHHHHHHHHHH----HHHTT--CT
T ss_pred CCCCCCceEEecccccccccccccccccccccccccCccccccccceeccccceeccCCceEEeeec----ccccc--cc
Confidence 44444444444333 11 11 23444444444433 32110 00
Q ss_pred cccccccccccccCccccCccccccCceEEEeccceeeeccCcccccCcchhHHHHHHHHhCHHHHHHHHHHHHHHHHHH
Q psy16767 114 GELLSGILDKKQFGSTQYGLVHAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVY 193 (1020)
Q Consensus 114 ~~~~~~k~~~~~~~~~~~~~~~~~~d~~v~I~~Gell~G~LdK~~lG~~~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~ 193 (1020)
+ .| ..+.+ ++|+|||+++| +|||.||++||+++|+.|||++++|+++|
T Consensus 634 ------~------------~p-----~~~~~-----~ngvldKk~lG----~LI~~i~~~~G~~~a~~~ld~l~~l~~~~ 681 (1265)
T 1hqm_D 634 ------K------------VA-----QELIQ-----MDVPQEKNSLK----DLVYQAFLRLGMEKTARLLDALKYYGFTL 681 (1265)
T ss_dssp ------T------------TT-----TTSSC-----CSSCCCSSHHH----HHHHHHHHHSCHHHHHHHHHHHHHHHHHH
T ss_pred ------C------------CC-----CCCce-----EeeeecHHHHH----HHHHHHHHHHCHHHHHHHHHHHHHHHHHH
Confidence 0 01 11111 46899999998 79999999999999999999999999999
Q ss_pred hhhcc-eeeeeCccccChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhccC-chhHHHHHHHHHHHH
Q psy16767 194 LQRVG-FTLGVRDILVRQERDRKRTKIINKARRLGTEAACNALGLPLDTDPEIISSQLQEAYAS-IPQFRAQIDRQYKSL 271 (1020)
Q Consensus 194 L~~~G-fSvgi~D~~~~~~~~~~r~~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ld~~~~~~ 271 (1020)
++++| ||||++|+++|++ +.++|++|++++.++.+++. .+.+. ++++.+ +..+
T Consensus 682 lt~~G~fSigi~D~~~~~~----k~~~i~~a~~~v~~i~~~y~----------------~g~lt~~e~~~~-----v~~~ 736 (1265)
T 1hqm_D 682 STTSGIITIGIDDAVIPEE----KQRYLEEADRKLRQIEQAYE----------------MGFLTDRERYDQ-----VIQL 736 (1265)
T ss_dssp HHHTTCCCCSSSSCCCCST----TTTHHHHHHHHHHHHHTTTT----------------SSSSCHHHHHHH-----HHHH
T ss_pred HHhCCCceEeeccccCCHH----HHHHHHHHHHHHHHHHHHHH----------------cCCCcHHHHHHH-----HHHH
Confidence 99999 9999999999987 57899999988776655321 12121 122222 3344
Q ss_pred HHHHHHHHhhccccCCCCCCCCCChhHHHHhhcCCcchhhHHHHHhhccceeecCCCCCCCCCCCcccCCCCCCCCcccc
Q psy16767 272 LDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAG 351 (1020)
Q Consensus 272 l~~~~~~i~~~~~~~~~~~~~~~N~~~~M~~SGAKGS~~N~~Qi~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~ 351 (1020)
++++++.+++.++.. +.+.+|+||+++|+.||||||++|++||+||+|||. ..+|+++|
T Consensus 737 ~~~~~d~~~~~~~~~-l~~~~~~N~i~~Ma~SGAKGS~~ni~Ql~g~~G~ma--------~~~G~~i~------------ 795 (1265)
T 1hqm_D 737 WTETTEKVTQAVFNN-FEENYPFNPLYVMAQSGARGNPQQIRQLCGMRGLMQ--------KPSGETFE------------ 795 (1265)
T ss_dssp HHHHHHHHHHHHHHH-HHHSCSSSCTTTTTTTSSSCCHHHHHHHSSCCCCCC--------CTTSCCCS------------
T ss_pred HHHHHHHHHHHHHHH-hcccCCCCcHHHHHHhcCCcCHHHHHHHHhhccccc--------cCCCCccC------------
Confidence 566677776666542 333468999999999999999999999999999984 23445543
Q ss_pred cccccccccCCChhhHHHhhcccccchhhhccccCCcchhHHHHHhhhcceEEeeceEEEeCCCcEEEEEecCcccccch
Q psy16767 352 GFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTK 431 (1020)
Q Consensus 352 GfI~~sF~~GL~p~EfFfH~m~gReGLiDTAvKTa~sGYLqRrLvk~lEdl~V~yd~tvr~~~~~iiqf~yg~dg~~~~~ 431 (1020)
++|.|||++||+|+|||||||||||||||||||||+||||||||||+|||++|.||++ ||+||+|++.
T Consensus 796 ~pI~ssF~eGLtp~EyFfhtmggReGLiDTAvKTA~SGYLqRRLVkv~qDv~V~~ddc------------~t~dGi~v~~ 863 (1265)
T 1hqm_D 796 VPVRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVDVAHEIVVREADC------------GTTKYISVPL 863 (1265)
T ss_dssp CCCCCCBTTBCTTCTHHHHHHHHTTHHHHHTHHHHTSSSTHHHHHHHSCSCCCCSCCC------------CCCCCEECCS
T ss_pred cccccccccCCChHHhheecccccccchhhhhhcccCCcceeeeeeecceEEEEECCC------------CCCCCEEEEE
Confidence 2399999999999999999999999999999999999999999999999999998874 5899999987
Q ss_pred hcccccccchhhhhhHHHHhhHHHHHhhhccCchhHHHHHHHhhhcCCCC--C-cccCCCcchh-HHHHHHHHHhhcHHH
Q psy16767 432 RQYLTDKQFSFLEDNIKWICSYKVILNLLKKHPLSLALLLLLTFKSSGKP--N-FIFSPHRTKF-TMDLLEQWYQLDDKA 507 (1020)
Q Consensus 432 ~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~-~~~~~~~~~~~~~~~ 507 (1020)
... ...-.+|...|...+. .++. .++.. .++ . ..+..++... ....+ +
T Consensus 864 ~~~-~~~i~~~~~~~~~~L~--~ri~---------------gr~~~-~~i~~~~~~p~~~~~i~~~~~~i--~------- 915 (1265)
T 1hqm_D 864 FQM-DEVTRTLRLRKRSDIE--SGLY---------------GRVLA-REVEALGRRLEEGRYLSLEDVHF--L------- 915 (1265)
T ss_dssp EEC-CSTTCCCEECCTTTTH--HHHT---------------TCEES-SCEEETTEEECSSCBCCTTHHHH--H-------
T ss_pred eec-CceeechhhhhhhHHH--HHHH---------------hhhhh-hcccccccCCCCccEEecCcchh--h-------
Confidence 654 2111233333322110 0000 00000 000 0 0000111100 00011 0
Q ss_pred HHHHHHhccCCCCCCcccCCCCcccccchHHHHHHHHHHhhccCcchhHH---HHHHHHHHhh--hcccCCCCCcchhhh
Q psy16767 508 RKKYRKKFKACPQPLISTFQPDAHFGSISENLADSVVKYTKGRTDASHVD---KFYDMIFYKN--LLSLANPGENVGVLA 582 (1020)
Q Consensus 508 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~l~~~~~~~~~~~~~~---~~~~~~~~ky--~~slv~pGe~VG~iA 582 (1020)
..++.+ .......+. ..++++ .++..|+.++ .+++|+||||||+||
T Consensus 916 ~~~i~~-~gi~~v~iR----------------------------s~ltc~s~~gvc~~CYgr~La~~~lV~~GEaVGiIA 966 (1265)
T 1hqm_D 916 IKAAEA-GEVREVPVR----------------------------SPLTCQTRYGVCQKCYGYDLSMARPVSIGEAVGVVA 966 (1265)
T ss_dssp HHHHHT-TSCSSCEEE----------------------------CGGGCSCTTSCCSSSSCSCSSSSSCCCTTCCHHHHH
T ss_pred HHHHHH-cCCCEEEee----------------------------cCcCHHHHHHHHHHHhhhhhccCCEeccCceeeeee
Confidence 001111 000000000 002222 2334444443 358999999999999
Q ss_pred hcccCCccccccccccccCCcc-ccccccChhhHHHHHHHhhcCCCCCeEEEEcCCCCchhHHHHHHHHhhccceehhhh
Q psy16767 583 AQSIGEPSTQMTLNTFHFAGRG-DMNVTLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAKSMTRITMADV 661 (1020)
Q Consensus 583 AQSIGEP~TQmTLnTFH~AG~~-~~nvTlGvPRLkEIi~~ASk~iKTP~mtv~L~~~~~~~~~~a~~i~~~l~~v~L~dv 661 (1020)
|||||||+|||||||||+||++ ++|||+|+||++||+ .| ++||||.|+.++...... .+
T Consensus 967 AQSIGEPGTQlTLrTFH~gGvas~~dIT~GLPRv~El~-eA-rkpk~p~i~a~~~g~v~~-----------------~~- 1026 (1265)
T 1hqm_D 967 AESIGEPGTQLTMRTFHTGGVAVGTDITQGLPRVIELF-EA-RRPKAKAVISEIDGVVRI-----------------EE- 1026 (1265)
T ss_dssp HHHHHGGGTTSCCCC--------CCTTSSHHHHHHHHH-HC-CCCSSCBCCCSSSCBCCC-----------------CC-
T ss_pred ccccCCCCceeeeEEEEEcceecccccccCchhHHHHH-hh-cCCCCceEEEeccceEEE-----------------ee-
Confidence 9999999999999999999999 599999999999999 56 569999998777532110 00
Q ss_pred cceeEEEEEeecCCCCCcceEEEEEEecccccccccCCChhhHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccc
Q psy16767 662 LEKVKIKEWLEISPEPHMNYQMKFCFIPAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQME 741 (1020)
Q Consensus 662 i~~i~v~~~~~~~~~~~~~y~i~~~l~~~~~~~~~~~i~~~~i~~~~~~~f~~~~~~~i~k~~~k~~~~~~~~~~~~~~~ 741 (1020)
+.+ ...+ .+. .
T Consensus 1027 ------------~~~-------------------~~~i------------------------------~i~---~----- 1037 (1265)
T 1hqm_D 1027 ------------GED-------------------RLSV------------------------------FVE---S----- 1037 (1265)
T ss_dssp ------------CSS-------------------CCCC------------------------------CCB---C-----
T ss_pred ------------cCC-------------------ccEE------------------------------EEE---E-----
Confidence 000 0000 000 0
Q ss_pred CCCCcccCCccccccccCCCcCCCCccccchhhhhhhhhhccccccCCCCCcchHHhhhhcccccCCCcccccchhhccc
Q psy16767 742 DDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTSNIGERFKIEFRD 821 (1020)
Q Consensus 742 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~ 821 (1020)
++ +. .+|.-
T Consensus 1038 --------~g----------------------~~------------~~~~i----------------------------- 1046 (1265)
T 1hqm_D 1038 --------EG----------------------FS------------KEYKL----------------------------- 1046 (1265)
T ss_dssp --------SS----------------------CC------------CCCCC-----------------------------
T ss_pred --------CC----------------------cE------------EEEEc-----------------------------
Confidence 00 00 00000
Q ss_pred chhHHHHHHhhccccceeeeccccCCceEEEEecccceeccCCceEEEEEeccchhhhhccCCcccccccccccHHHHHH
Q psy16767 822 STNVFVKDVVNQHNIVHKYSYDKKNHMWCKLLFLPSNLFEEKESKHLLKTDGINVNFISQYRHLLDLNKLYVNDIHYMAS 901 (1020)
Q Consensus 822 ~~~~~i~~v~~~~~~i~~~~~d~~~~~~~~~~~lp~~~~~~~~~e~~l~teG~nl~~~~~~~~~iD~~r~~sNdi~~i~~ 901 (1020)
+......... + . .+ . .++ +.||| +||+++|++
T Consensus 1047 -------------p~~~~l~v~~-g-~---------~v-~--~g~--~lteG-------------------~~~~~eil~ 1078 (1265)
T 1hqm_D 1047 -------------PKDARLLVKD-G-D---------YV-E--AGQ--PLTRG-------------------AIDPHQLLE 1078 (1265)
T ss_dssp -------------SSCCCCCCCS-C-C---------SS-T--TCS--CCCCS-------------------BSHHHHHHH
T ss_pred -------------CCceEEEEec-C-C---------EE-e--cCc--eeecc-------------------CccHHHHHH
Confidence 0000000000 0 0 00 0 011 12344 389999999
Q ss_pred hhhHHHHHHHHHHHHHhhhhccCcccCcchhhhhccccee----------------------------------------
Q psy16767 902 TYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVADYMTH---------------------------------------- 941 (1020)
Q Consensus 902 ~~GIEAar~~i~~ei~~v~~~~g~~v~~rHl~LlAD~MT~---------------------------------------- 941 (1020)
++||||+|..|++||++|++.+|++||.|||.||||.||.
T Consensus 1079 v~Giea~~~~lv~EIq~vyr~QGv~I~dkHievivrqM~~kv~i~~~g~t~~l~Ge~v~~~~~~~~n~~~~~~g~~~~~~ 1158 (1265)
T 1hqm_D 1079 AKGPEAVERYLVDEIQKVYRAQGVKLHDKHIEIVVRQMLKYVEVTDPGDSPLLEGQVLEKWDVEALNERLIAEGKVPVAW 1158 (1265)
T ss_dssp TTHHHHHHHHHHHHHHHHHHTTSCCCCSSTHHHHHHHHTTEECBSSCCSSCCSCCCEEGGGTTTTTTTTTTC---CCCCB
T ss_pred HhhHHHHHHHHHHHHHHHHHHcCccccHHHHHHHHHHHhcceEEecCCCcCCCCCceecHHHHHHHHHHHHhcCCCccee
Confidence 9999999999999999999999999999999999999954
Q ss_pred eeeEEeeeccccccCcchhhhhcchhHHHHHHHHHhcCCCccCCCcccceecCCccccCccc
Q psy16767 942 SGTYVAMNRNGIRLNPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGL 1003 (1020)
Q Consensus 942 ~G~~~~~nR~G~~~~~spl~kaSFE~t~~~L~~AA~~g~~D~l~svSa~Ii~Gk~~~~GTG~ 1003 (1020)
++.+.||||++++ ..|+|+.||||+|+++|.+||+.|+.|.|+|+++|||+|+++|+|||+
T Consensus 1159 ~~~llGITkasl~-t~SflsaASFqeTt~vL~~AAi~gk~D~L~GlkEnVIiG~lipaGTG~ 1219 (1265)
T 1hqm_D 1159 KPLLMGVTKSALS-TKSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGS 1219 (1265)
T ss_dssp CCCCCCTHHHHTS-CSCHHHHTTSTTHHHHHHHHHHSCCCCTTCSSHHHHHHTCCCSSGGGC
T ss_pred eeeeecceecccc-cCChhhccchHHHHHHHHHHHHcCCCCcCCCcHHheeeCCcccCCcCc
Confidence 5567789999998 589999999999999999999999999999999999999999999996
No 4
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Probab=100.00 E-value=3.2e-115 Score=1088.28 Aligned_cols=652 Identities=22% Similarity=0.285 Sum_probs=439.5
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeecccc--------cccChHHHHHHHHHH
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRD--------TFLTRAEYMNLVYQA 68 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d--------~fl~~~~~~~l~~~~ 68 (1020)
|||||||| |++|||||++||++++||+||++|+||++++||+|+|+|+||+++ .|+++++++++.+.+
T Consensus 740 FDGDEMnvHvPqS~eAraEA~~LM~~~~nilsP~~G~Pi~~~~QD~vlG~y~LT~~~~~~~~~g~~F~~~~e~~~ay~~~ 819 (1524)
T 2a6h_D 740 FDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGLEFATPEEALAAHERG 819 (1524)
T ss_dssp TTTCEEEEECCCSHHHHHHHHHHSBTTTCCBCSSSSSBSSCCCHHHHHHHHHHHCCCCCCCCSCCCTTSCHHHHHHHHHH
T ss_pred cccceeeEecCCCHHHHHHHHHHhCCccceecCCCCCeeeeecccchhhheecccccccccCCCceeCCHHHHHHHHhcC
Confidence 99999999 999999999999999999999999999999999999999999984 788888888765444
Q ss_pred hcccCccccc--------------CCCc--cccCCCCCCCcEEEEEE----c-ccc--CCCCCccccccccccccccccc
Q psy16767 69 LCILNTEIRT--------------LPPT--IWKPMPLWTGKQVLSTV----I-INL--TPKDKVIIRHGELLSGILDKKQ 125 (1020)
Q Consensus 69 ~~~~~~~i~l--------------~~Pa--ilkp~~lwTGKqv~s~~----l-~~~--~P~~~~~in~~~~~~~k~~~~~ 125 (1020)
..+.+.++.+ |+|+ |+|| |||||+++.+ + .++ ++.+...+|. . ++..
T Consensus 820 ~~~l~~~i~v~~~~~~~~~~~~~~p~P~~aIlKp---wtGKQi~~~~~~~~I~~~~~~tt~Gr~ifn~---~---lp~~- 889 (1524)
T 2a6h_D 820 EVALNAPIKVAGRETSVGRLKYVFANPDEALLAV---AHGIVDLQDVVTVRYMGKRLETSPGRILFAR---I---VAEA- 889 (1524)
T ss_dssp HHTTSSCSSCCCSSCCHHHHHCEESSHHHHHHHH---HTTSSCTTSCCEEECSSCEECCCHHHHHHHH---H---HHHH-
T ss_pred CcCcCCceEEecccccccccccccCCchhhhcCC---CCCccccccccccceecceeecccchhhHHH---H---hhhh-
Confidence 4444444433 3444 7887 9999998742 1 000 0111101111 0 0000
Q ss_pred cCccccCccccccCceEEEeccceeeeccCcccccCcchhHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhcceeeeeCc
Q psy16767 126 FGSTQYGLVHAVWDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRD 205 (1020)
Q Consensus 126 ~~~~~~~~~~~~~d~~v~I~~Gell~G~LdK~~lG~~~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~L~~~GfSvgi~D 205 (1020)
.. ....| ..+ ..++|+|||+++| +|||.||++||+++|+.|||++++|+++|++++||||||+|
T Consensus 890 l~--~~~~P-----~d~-----~~inGvLdKk~LG----~LI~~i~~~yG~~~t~~fLD~lk~Lg~~~lt~~GfSIGI~D 953 (1524)
T 2a6h_D 890 VE--DEKVA-----WEL-----IQLDVPQEKNSLK----DLVYQAFLRLGMEKTARLLDALKYYGFTFSTTSGITIGIDD 953 (1524)
T ss_dssp SS--CHHHH-----HHT-----CCTTSCCCHHHHH----HHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHTCCCCSTT
T ss_pred cc--cccCC-----Ccc-----cceeceecHHHHH----HHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHhcCceeehhh
Confidence 00 00000 000 1245899999998 79999999999999999999999999999999999999999
Q ss_pred cccChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhccC-chhHHHHHHHHHHHHHHHHHHHHhhccc
Q psy16767 206 ILVRQERDRKRTKIINKARRLGTEAACNALGLPLDTDPEIISSQLQEAYAS-IPQFRAQIDRQYKSLLDKVTNNINQVCL 284 (1020)
Q Consensus 206 ~~~~~~~~~~r~~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ld~~~~~~l~~~~~~i~~~~~ 284 (1020)
+++|++ |.++|++|++++.++..+ ++.+.+. ++++.+ +..+++++++.+++.|+
T Consensus 954 lii~~~----K~eiI~eA~~~v~~i~~~----------------y~~G~lt~~Er~~~-----Vi~iw~~a~d~v~~~~~ 1008 (1524)
T 2a6h_D 954 AVIPEE----KKQYLEEADRKLLQIEQA----------------YEMGFLTDRERYDQ-----ILQLWTETTEKVTQAVF 1008 (1524)
T ss_dssp SCCCTT----HHHHHHHHHHHHHHHHHH----------------HHTTCSCHHHHHHH-----HHHHHHHHHHHHHHHHH
T ss_pred ccCCHH----HHHHHHHHHHHHHHHHHH----------------HHcCCCCHHHHHHH-----HHHHHHHHHHHHHHHHH
Confidence 999987 688999999887665543 3333332 222222 34566788888888877
Q ss_pred cCCCCCCCCCChhHHHHhhcCCcchhhHHHHHhhccceeecCCCCCCCCCCCcccCCCCCCCCcccccccccccccCCCh
Q psy16767 285 PEGLIEPFPANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQP 364 (1020)
Q Consensus 285 ~~~~~~~~~~N~~~~M~~SGAKGS~~N~~Qi~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~GfI~~sF~~GL~p 364 (1020)
. ++.+.+|+||+++|+.||||||++|++||+||+|||. ..+|+++|. | |.|||++||+|
T Consensus 1009 ~-~L~~~~~~N~i~~Ma~SGAKGS~~NI~Ql~gmrGqma--------~p~GkiIp~-------P-----I~ssF~eGLtp 1067 (1524)
T 2a6h_D 1009 K-NFEENYPFNPLYVMAQSGARGNPQQIRQLCGLRGLMQ--------KPSGETFEV-------P-----VRSSFREGLTV 1067 (1524)
T ss_dssp H-HHHHTCTTCHHHHHHHSSSSCCHHHHHHHTSCCCCCB--------CSSSCBCSS-------C-----CCCCSSSCCCS
T ss_pred H-hhcccCCCCCHHHHHHhcCCcCHHHHHHHHhhccccc--------cCCCCCccc-------c-----cccccccCCCh
Confidence 4 4544568999999999999999999999999999973 234445553 3 99999999999
Q ss_pred hhHHHhhcccccchhhhccccCCcchhHHHHHhhhcceEEeeceEEEeCCCcEEEEEecCcccccchhcccc-cccch--
Q psy16767 365 QEFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLT-DKQFS-- 441 (1020)
Q Consensus 365 ~EfFfH~m~gReGLiDTAvKTa~sGYLqRrLvk~lEdl~V~yd~tvr~~~~~iiqf~yg~dg~~~~~~~~~~-~~~~~-- 441 (1020)
+|||||||||||||+|||||||+||||||||||+|||++|.||.+ +|+||+|++...... ..+|+
T Consensus 1068 ~EyFfhtmGgReGLvDTAvKTAdSGYLqRRLVkv~qDviVr~dDc------------gt~dGi~v~~~~~g~~~~~~~~~ 1135 (1524)
T 2a6h_D 1068 LEYFISSHGARKGGADTALRTADSGYLTRKLVDVTHEIVVREADC------------GTTNYISVPLFQPDEVTRSLRLR 1135 (1524)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCBCCSCC------------CCCCCEEEESBCSCSSSSCCCBC
T ss_pred HHhheecccccCCccccceeeccCCcceeeeeeecceeEEEeCCC------------CCCCCeEEEEeecCCccccchhH
Confidence 999999999999999999999999999999999999998888764 378999997643332 11122
Q ss_pred hhhhhHHHHhhHHHHHhhhccCchhHHHHHHHhhhcCCCC--C-cccCCCcchh-HHHHHHHHHhhcHHHHHHHHHhccC
Q psy16767 442 FLEDNIKWICSYKVILNLLKKHPLSLALLLLLTFKSSGKP--N-FIFSPHRTKF-TMDLLEQWYQLDDKARKKYRKKFKA 517 (1020)
Q Consensus 442 ~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 517 (1020)
++..+.+.+ . .++.. .++ + ..+..+.... ....+ ...++.+.. .
T Consensus 1136 ~i~~l~~ri------~---------------gR~~~-~di~~~~~~p~~~e~i~~~~~~I---------~~~~i~~~g-i 1183 (1524)
T 2a6h_D 1136 KRADIEAGL------Y---------------GRVLA-REVEVLGVRLEEGRYLSMDDVHL---------LIKAAEAGE-I 1183 (1524)
T ss_dssp CHHHHHHHH------T---------------TCBBS-SCEECSSCEECTTCBCCTTTTTH---------HHHHHHHTS-C
T ss_pred HHHHHHHHH------h---------------cccch-hhhhhhccCCCcCcEEeCCCCee---------hHHHHHHcC-C
Confidence 211111100 0 00000 000 0 0000000000 00000 001111100 0
Q ss_pred CCCCCcccCCCCcccccchHHHHHHHHHHhhccCcchhHHHHHHHHHHhh--hcccCCCCCcchhhhhcccCCccccccc
Q psy16767 518 CPQPLISTFQPDAHFGSISENLADSVVKYTKGRTDASHVDKFYDMIFYKN--LLSLANPGENVGVLAAQSIGEPSTQMTL 595 (1020)
Q Consensus 518 ~~~~~~~~~~~~~~~~~~~e~~~~~l~~~~~~~~~~~~~~~~~~~~~~ky--~~slv~pGe~VG~iAAQSIGEP~TQmTL 595 (1020)
..+. ..+|. .|. +...++..|+.++ ..++|+|||+||+|||||||||+|||||
T Consensus 1184 --~~v~-iRS~l---------------------tC~-s~~gvc~~CYgr~La~~~~v~~GeaVGiiaAQSIGEPgTQlTl 1238 (1524)
T 2a6h_D 1184 --QEVP-VRSPL---------------------TCQ-TRYGVCQKCYGYDLSMARPVSIGEAVGIVAAQSIGEPGTQLTM 1238 (1524)
T ss_dssp --SEEE-ECCGG---------------------GCC-CSSCBCHHHHCSCSSSSSSCCTTCCHHHHHHHHHHSGGGTCCC
T ss_pred --Cccc-ccccc---------------------cHH-HHHHHHHHHhccccccCCccccccceeehhhhccCCCcccccc
Confidence 0000 00000 010 2233556666655 3579999999999999999999999999
Q ss_pred cccccCCcc-ccccccChhhHHHHHHHhhcCCCCCeEEEEcCCCCchhHHHHHHHHhhccceehhhhcceeEEEEEeecC
Q psy16767 596 NTFHFAGRG-DMNVTLGIPRLREILMMATKAIKTPSMEIPFLPDMPKLEKKANRLAKSMTRITMADVLEKVKIKEWLEIS 674 (1020)
Q Consensus 596 nTFH~AG~~-~~nvTlGvPRLkEIi~~ASk~iKTP~mtv~L~~~~~~~~~~a~~i~~~l~~v~L~dvi~~i~v~~~~~~~ 674 (1020)
||||+||++ +++||+|+||++||+ .|.+...+|+++ . +--.+.+.
T Consensus 1239 rTFH~gGv~~~~dIt~GlPRv~El~-eARkpk~~aiI~-e--------------------------i~G~V~i~------ 1284 (1524)
T 2a6h_D 1239 RTFHTGGVAGAADITQGLPRVIELF-EARRPKAKAVIS-E--------------------------IDGVVRIE------ 1284 (1524)
T ss_dssp C-----------CCCCSHHHHHHHH-TTCCCSSBCCBC-S--------------------------SCEEEEEC------
T ss_pred eeeeeccccccccccccCcchhhhe-ecccCCCcceEE-E--------------------------eceEEEEe------
Confidence 999999998 789999999999999 686655554432 0 00001110
Q ss_pred CCCCcceEEEEEEecccccccccCCChhhHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccCCCCcccCCcccc
Q psy16767 675 PEPHMNYQMKFCFIPAHMYRDKTSVKPSKIIDHFERKFLKELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEG 754 (1020)
Q Consensus 675 ~~~~~~y~i~~~l~~~~~~~~~~~i~~~~i~~~~~~~f~~~~~~~i~k~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 754 (1020)
.+.. ...+ .+.+... ...|.
T Consensus 1285 ~~~~-~r~i--~i~~~~~-~~~~~-------------------------------------------------------- 1304 (1524)
T 2a6h_D 1285 ETEE-KLSV--FVESEGF-SKEYK-------------------------------------------------------- 1304 (1524)
T ss_dssp CCSS-CEEE--EEECSSC-EEEEE--------------------------------------------------------
T ss_pred ecCC-ceEE--EEEcCCc-eeEEe--------------------------------------------------------
Confidence 0000 0000 0000000 00000
Q ss_pred ccccCCCcCCCCccccchhhhhhhhhhccccccCCCCCcchHHhhhhcccccCCCcccccchhhcccchhHHHHHHhhcc
Q psy16767 755 AGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPEDEERMSEREEDDNTSNIGERFKIEFRDSTNVFVKDVVNQH 834 (1020)
Q Consensus 755 ~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~ 834 (1020)
.
T Consensus 1305 ---------------------------i---------------------------------------------------- 1305 (1524)
T 2a6h_D 1305 ---------------------------L---------------------------------------------------- 1305 (1524)
T ss_dssp ---------------------------E----------------------------------------------------
T ss_pred ---------------------------c----------------------------------------------------
Confidence 0
Q ss_pred ccceeeeccccCCceEEEEecccceeccCCceE----EEEEeccchhhhhccCCcccccccccccHHHHHHhhhHHHHHH
Q psy16767 835 NIVHKYSYDKKNHMWCKLLFLPSNLFEEKESKH----LLKTDGINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANR 910 (1020)
Q Consensus 835 ~~i~~~~~d~~~~~~~~~~~lp~~~~~~~~~e~----~l~teG~nl~~~~~~~~~iD~~r~~sNdi~~i~~~~GIEAar~ 910 (1020)
+..... .+ + ++++ .+.||| +||+++|++++||||||.
T Consensus 1306 p~~~~l-----------------~V-~--~gd~v~~g~~lteG-------------------~~~~~dil~v~Giea~~~ 1346 (1524)
T 2a6h_D 1306 PKEARL-----------------LV-K--DGDYVEAGQPLTRG-------------------AIDPHQLLEAKGPEAVER 1346 (1524)
T ss_dssp CTTCCC-----------------CC-C--TTSEECTTCBSSSS-------------------BCCHHHHHHHHCHHHHHH
T ss_pred CCceEE-----------------EE-e--cCCeeecCeEEecC-------------------CCCchhheeecCHHHHHH
Confidence 000000 00 0 0000 012333 389999999999999999
Q ss_pred HHHHHHHhhhhccCcccCcchhhhhccccee----------------------------------------eeeEEeeec
Q psy16767 911 VIIREVKNVFAVYGIEVDPRHLSLVADYMTH----------------------------------------SGTYVAMNR 950 (1020)
Q Consensus 911 ~i~~ei~~v~~~~g~~v~~rHl~LlAD~MT~----------------------------------------~G~~~~~nR 950 (1020)
+|++||++|+..||++||.|||.||||.||. ++.+.||||
T Consensus 1347 ~iv~Eiq~Vyr~QGv~I~dKHIevIvrqM~~kv~i~~~Gdt~~l~Ge~v~~~~~~~~n~~~~~~g~~~a~~~~~llGITk 1426 (1524)
T 2a6h_D 1347 YLVEEIQKVYRAQGVKLHDKHIEIVVRQMMKYVEVTDPGDSRLLEGQVLEKWDVEALNERLIAEGKTPVAWKPLLMGVTK 1426 (1524)
T ss_dssp HHHHHHHHHHHTTTCCCCHHHHHHHHHHTTSEEEEEECSSSCSSCEEEHHHHHHHHHHHHTTSCSCCCCEEEECCCCHHH
T ss_pred HHHHHHHHHHHhcCcccchhHHHHHHHHHhceeEEecCCCccCCCCceeeHHHHHHHHHHHHHcCCCcceeeeeeeeeee
Confidence 9999999999999999999999999999954 555678999
Q ss_pred cccccCcchhhhhcchhHHHHHHHHHhcCCCccCCCcccceecCCccccCccceEE
Q psy16767 951 NGIRLNPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGLFQL 1006 (1020)
Q Consensus 951 ~G~~~~~spl~kaSFE~t~~~L~~AA~~g~~D~l~svSa~Ii~Gk~~~~GTG~fdl 1006 (1020)
++++ ..|+|+.||||+|+++|.+||+.|+.|+|.|+++|||+|+++|+|||+|++
T Consensus 1427 asL~-t~SfLsaASFqeTtrvLt~AAi~Gk~D~L~GlkENVIiG~lIPaGTG~~~~ 1481 (1524)
T 2a6h_D 1427 SALS-TKSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFV 1481 (1524)
T ss_dssp HHHS-CSCHHHHHHSSCHHHHHHHHHHTTEEEECCSHHHHHHTTCCCSSSTTCTTT
T ss_pred cccc-cCChhhhcChHHHHHHHHHHHhcCCCCCCCCcHHHeeecCCccCCcCchhh
Confidence 9998 589999999999999999999999999999999999999999999999765
No 5
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_D*
Probab=100.00 E-value=1.1e-102 Score=961.28 Aligned_cols=317 Identities=22% Similarity=0.315 Sum_probs=254.9
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeeccccc--------ccChHHHHHHHHHH
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDT--------FLTRAEYMNLVYQA 68 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d~--------fl~~~~~~~l~~~~ 68 (1020)
|||||||+ |++|||||++||++++||+||++|+|+++++||+|+|+|+||+++. |.+.+++++++..+
T Consensus 461 FDGDeMnvHvPqs~eAraEa~~Lm~~~~nilsP~~G~Pi~~~~QD~llG~y~lT~~~~~~~~~~~~F~~~~ev~~al~~g 540 (1407)
T 3lu0_D 461 FDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRDCVNAKGEGMVLTGPKEAERLYRSG 540 (1407)
T ss_dssp SSSCEEEEECCCSSHHHHTTTTSSBTTTCCSCSSSSSCSSCCCSHHHHHHHHHSCCCCCSCCSCCCCSSCSHHHHHHHHS
T ss_pred cccceeeeecCCCHHHHHHHHHHHhCccccccCCCCCceeeecccchheeEEeecccccccCCcceeCCHHHHHHHHHcC
Confidence 99999999 9999999999999999999999999999999999999999999986 67788887766554
Q ss_pred hcccCcccccCCCc-----------cccCCCCCCCcEEEEEEccccCCCCCccccccccccccccccccCccccCccccc
Q psy16767 69 LCILNTEIRTLPPT-----------IWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSGILDKKQFGSTQYGLVHAV 137 (1020)
Q Consensus 69 ~~~~~~~i~l~~Pa-----------ilkp~~lwTGKqv~s~~l~~~~P~~~~~in~~~~~~~k~~~~~~~~~~~~~~~~~ 137 (1020)
..+.+.++.+..|. ..++.++|||||+|+.+| |++++ +
T Consensus 541 ~v~l~a~i~vr~~~~~~~~~g~~~~~~~~~~tt~Gr~ifs~il----P~~~~---~------------------------ 589 (1407)
T 3lu0_D 541 LASLHARVKVRITEYEKDANGELVAKTSLKDTTVGRAILWMIV----PKGLP---Y------------------------ 589 (1407)
T ss_dssp SSSSSSCSSSSCCCCSCSHHHHHHHTTTSCCSSSHHHHHHHHG----GGSSC---C------------------------
T ss_pred CCCCCCeeEEecCccccCcCCcccccceeeecCCccccHHhhC----CCCCC---c------------------------
Confidence 45555555544332 234568899999999888 88632 2
Q ss_pred cCceEEEeccceeeeccCcccccCcchhHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhcceeeeeCccccChHHHHHHH
Q psy16767 138 WDTHVTIRHGELLSGILDKKQFGSTQYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRT 217 (1020)
Q Consensus 138 ~d~~v~I~~Gell~G~LdK~~lG~~~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~L~~~GfSvgi~D~~~~~~~~~~r~ 217 (1020)
++++|++||+.+| +|||.||++||++.|+.|||++++|+++|++.+|||||++|+++|++ +.
T Consensus 590 ----------~~ing~l~KK~lg----~LI~~i~~~~G~~~t~~flD~lk~Lgf~~at~~GfSIgI~D~~ip~~----K~ 651 (1407)
T 3lu0_D 590 ----------SIVNQALGKKAIS----KMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEK----KH 651 (1407)
T ss_dssp ----------TTTTTCCSSSTTT----THHHHHHHHSCSHHHHHHHHHHHHHHHHHHHHHTCCCCSTTSCCCTT----HH
T ss_pred ----------eeeecccchhhHH----HHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHhcCeEEeeccCccChH----HH
Confidence 1367899999998 79999999999999999999999999999999999999999999987 47
Q ss_pred HHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhcc-CchhHHHHHHHHHHHHHHHHHHHHhhccccC----------
Q psy16767 218 KIINKARRLGTEAACNALGLPLDTDPEIISSQLQEAYA-SIPQFRAQIDRQYKSLLDKVTNNINQVCLPE---------- 286 (1020)
Q Consensus 218 ~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ld~~~~~~l~~~~~~i~~~~~~~---------- 286 (1020)
++|++|++++.++.+ +++.+.+ .++++++.++.| +++++.+.+.++..
T Consensus 652 ~iI~~A~~eV~ei~~----------------~y~~G~lt~~er~~kVi~iw-----~~a~e~v~~~m~~~l~~~~~~d~~ 710 (1407)
T 3lu0_D 652 EIISEAEAEVAEIQE----------------QFQSGLVTAGERYNKVIDIW-----AAANDRVSKAMMDNLQTETVINRD 710 (1407)
T ss_dssp HHHHHHHTHHHHHHH----------------HHHHTSCCSSTTTTTHHHHH-----HTHHHHHHHHHHTTHHHH------
T ss_pred HHHHHHHHHHHHHHH----------------HHHcCCCccchHHHHHHHHH-----HHHHHHHHHHHHHhcccccccccc
Confidence 899999988765544 3445545 344444444433 34444444444321
Q ss_pred C-CCCCCCCChhHHHHhhcCCcchhhHHHHHhhccceeecCCCCCCCCCCCcccCCCCCCCCcccccccccccccCCChh
Q psy16767 287 G-LIEPFPANNLQFMVESGAKGSTVNTMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQ 365 (1020)
Q Consensus 287 ~-~~~~~~~N~~~~M~~SGAKGS~~N~~Qi~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~GfI~~sF~~GL~p~ 365 (1020)
| ...+.|.||+++|+.||||||+.|++||+||+|||.. .+|+..+ ++|.|||++||+|.
T Consensus 711 G~~~~l~~~N~i~mMa~SGARGS~~qI~QLaGmrGlmak--------pdG~iie------------~PI~ssFreGLtp~ 770 (1407)
T 3lu0_D 711 GQEEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAK--------PDGSIIE------------TPITANFREGLNVL 770 (1407)
T ss_dssp ------CSCCHHHHHHHSSSSCCTTHHHHHSSCCCCCBC--------SSSCBCS------------SCCCCCSSSCCCHH
T ss_pred ccccccCCCCChheeeeccccCCHHHHHHHHHhcCCccC--------CCCCCcc------------hhhhcccccCCCHH
Confidence 1 0124678999999999999999999999999999842 2233221 23889999999999
Q ss_pred hHHHhhcccccchhhhccccCCcchhHHHHHhhhcceEEeec
Q psy16767 366 EFFFHCMAGREGLIDTAVKTSRSGYLQRCLVKHLEGLTVHYD 407 (1020)
Q Consensus 366 EfFfH~m~gReGLiDTAvKTa~sGYLqRrLvk~lEdl~V~yd 407 (1020)
|||||||||||||+|||||||+||||||||||+||||+|.++
T Consensus 771 EyFfst~GaRKGL~DTALKTAdSGYLTRRLVdv~QDviV~e~ 812 (1407)
T 3lu0_D 771 QYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTED 812 (1407)
T ss_dssp HHHHHHHHHHHHHHHTTTTTTCTTTTTHHHHTTSTTCCBCCC
T ss_pred HhhhhcccchhhhhhhhhhcccchhHHHHHHHhhcceEEEec
Confidence 999999999999999999999999999999999999886543
No 6
>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
Probab=100.00 E-value=2.8e-97 Score=923.53 Aligned_cols=406 Identities=30% Similarity=0.433 Sum_probs=356.6
Q ss_pred CCcccccc----CHHHHHHHHHHhcccCccccCCCCCCccccccceeeeeeeecccccccChHHHHHHHHHHhcccCccc
Q psy16767 1 MDGWTQNA----SHFLKAEASFLMNVSSQYLVPKDGSPLSGLIQDHVISGAKLSLRDTFLTRAEYMNLVYQALCILNTEI 76 (1020)
Q Consensus 1 FDGDEMnv----s~~AraEa~~Lm~~~~~ilsP~~G~Pi~gl~QD~vlg~~lLT~~d~fl~~~~~~~l~~~~~~~~~~~i 76 (1020)
|||||||| |+||||||++||++++||+||++|+||++|+||+|+|+|+||.+++||++++++++++. .+ ..+
T Consensus 457 FDGDeMnvHvPqS~eA~aEa~~Lm~~~~nilsP~~G~Pii~~~QD~vlg~y~lT~~~~~~~~~~~~~~~~~--~~--~~~ 532 (880)
T 4ayb_A 457 FDGDEMNLHVPQSEEAIAEAKEIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKTTLLTKEEAQQILGV--AD--VKI 532 (880)
T ss_dssp SSSCEEEEECCCSHHHHHHHHHHSBSGGGCBCSSSSSBCSCCCSHHHHHHHHHTSSSCEECHHHHHHHHTT--SC--CCC
T ss_pred cccceeEEeccCCHHHHHHHHHHHhChhccccCCCCCccccccccHHHHhHHhhcCcccCCHHHHhhhhcc--cc--eec
Confidence 99999999 99999999999999999999999999999999999999999999999999999998765 22 346
Q ss_pred ccCCCccccCCCCCCCcEEEEEEccccCCCCCccccccccccc-cccccccCccccCccccccCceEEEeccceeeeccC
Q psy16767 77 RTLPPTIWKPMPLWTGKQVLSTVIINLTPKDKVIIRHGELLSG-ILDKKQFGSTQYGLVHAVWDTHVTIRHGELLSGILD 155 (1020)
Q Consensus 77 ~l~~Pailkp~~lwTGKqv~s~~l~~~~P~~~~~in~~~~~~~-k~~~~~~~~~~~~~~~~~~d~~v~I~~Gell~G~Ld 155 (1020)
.+|+|||+||+++||||||||+++ |.++ |+ .++ ++....+. ........|+.|+|+||++++|++|
T Consensus 533 ~~~~p~i~~~~~~~tgkqi~s~~l----p~~~---~~---~~~~~~~~~~~~---~~~~~~~~~~~v~i~~g~l~~g~ld 599 (880)
T 4ayb_A 533 DLGEPAILAPREYYTGKQVVSAFL----PKDF---NF---HGQANVSSGPRL---CKNEDCPHDSYVVIKNGILLEGVFD 599 (880)
T ss_dssp CCCSCSEESSSEEEEHHHHHHTTS----CTTC---CE---EEECTTCSGGGC---CSSSCCTTSCEEEEETTEEEECCCS
T ss_pred ccCccceecceeEeccceEEEEEe----cccc---cc---cceeEeecCCcc---ccCccCCCcceEEEeCceeeeeeec
Confidence 789999999999999999999988 8763 33 322 22111111 0011223578999999999999999
Q ss_pred cccccCc-chhHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhcceeeeeCccccChHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16767 156 KKQFGST-QYGLVHAVWDTHGAEHAISLLSCLAKLFTVYLQRVGFTLGVRDILVRQERDRKRTKIINKARRLGTEAACNA 234 (1020)
Q Consensus 156 K~~lG~~-~~~Lih~i~~~yG~~~a~~~Ld~l~rl~~~~L~~~GfSvgi~D~~~~~~~~~~r~~~i~~a~~~~~~~~~~~ 234 (1020)
|+++|++ .++|+|.+|++||++.|+.|||++++++++|++.+|||||++|+.++++..+.+.++++++..++.++.+++
T Consensus 600 k~~lg~~~~~~li~~i~~~~G~~~t~~~ld~l~~lg~~~lt~~GfSigi~Di~i~~~~~~~i~~~i~~a~~~v~~i~~~~ 679 (880)
T 4ayb_A 600 KKAIGNQQPESILHWLIKEYSDEYGKWLMDNLFRVFIRFVELQGFTMRLEDVSLGDDVKKEIYNEIDRAKVEVDNLIQKY 679 (880)
T ss_dssp TTTSSTTCTTSHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHCCCCCGGGGCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhhcccccceeeehhhhhcccHHHHHHHHHHHHHHHHHHHhcCCcccccccccchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999975 468999999999999999999999999999999999999999999999988888889999888876655543
Q ss_pred cCCCCCCCHHHHHHHHHHhcc---CchhHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCChhHHHHhhcCCcchhh
Q psy16767 235 LGLPLDTDPEIISSQLQEAYA---SIPQFRAQIDRQYKSLLDKVTNNINQVCLPEGLIEPFPANNLQFMVESGAKGSTVN 311 (1020)
Q Consensus 235 ~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~ld~~~~~~l~~~~~~i~~~~~~~~~~~~~~~N~~~~M~~SGAKGS~~N 311 (1020)
+.+.+ .+...++.++.++..+++++++.+++.+.. .++|+|++++|+.||||||.+|
T Consensus 680 ----------------~~g~l~~~~g~~~~e~~e~~v~~~l~~~~~~~~~~~~~----~l~~~N~i~mMa~SGARGS~~n 739 (880)
T 4ayb_A 680 ----------------KNGELEPIPGRTLEESLENYILDTLDKLRSTAGDIASK----YLDPFNFAYVMARTGARGSVLN 739 (880)
T ss_dssp ----------------HTTCCCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHH----TSCTTSHHHHHHHHTSSCCSTT
T ss_pred ----------------HcCCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHh----hCCCCCCHHHHhhcCccCCHHH
Confidence 23322 244556677788888899999988887764 3678999999999999999999
Q ss_pred HHHHHhhccceeecCCCCCCCCCCCcccCCCCCCCCcccccccccccccCCChhhHHHhhcccccchhhhccccCCcchh
Q psy16767 312 TMQISCLLGQIELEGKRPAMMVSGRTLPSFLPYEVSPRAGGFVDGRFMTGIQPQEFFFHCMAGREGLIDTAVKTSRSGYL 391 (1020)
Q Consensus 312 ~~Qi~~~lGQQ~l~G~Rip~~~~grtLp~f~~~d~~p~a~GfI~~sF~~GL~p~EfFfH~m~gReGLiDTAvKTa~sGYL 391 (1020)
++||+||+|||+++|+|||+|+.+||||||.++|.+|+|+|||.|||++||+|+|||||||||||||+|||||||+||||
T Consensus 740 i~Qlagm~Gqq~~~G~RIprg~~~rtLP~f~~~d~~p~a~GfI~ssF~eGLtp~EyF~ht~ggRkGL~DTAlKTA~SGYL 819 (880)
T 4ayb_A 740 ITQMAAMLGQQSVRGERIKRGYMTRTLPHFKPYDISPEARGFIYSSFRTGLKPTELFFHAAGGREGLVDTAVRTSQSGYM 819 (880)
T ss_dssp HHHHHTCCEECBSSSSBSCCSBTTBSSTTSCTTCCSTTTTSEECSCTTTCCCHHHHHHHHHHHHHHHHHHHHTHHHHHHH
T ss_pred HHHHHhcccccccCCccCcCCCccCCCCCCCCCCCCcccCCeEhhcccCCCCHHHHHHhhhhhhhhHHhcchhhchhhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhcceEEeeceEEEeCCCcEEEEEecCcccccchhcccccccchhh
Q psy16767 392 QRCLVKHLEGLTVHYDMTVRDSDLSLIQVLYGEDGLDVTKRQYLTDKQFSFL 443 (1020)
Q Consensus 392 qRrLvk~lEdl~V~yd~tvr~~~~~iiqf~yg~dg~~~~~~~~~~~~~~~~~ 443 (1020)
||||||+||||+|+||||||+++|+||||.||+||+||.+..+....+++.+
T Consensus 820 tRRLVdv~qDv~V~yDgTVR~~~g~ivqf~YGeDgldp~~~~~~~~~~~~~i 871 (880)
T 4ayb_A 820 QRRLINALSDLRAEYDGTVRSLYGEVIQVAYGDDGVFPMYSAHGKTVDVNRI 871 (880)
T ss_dssp HHHHHHHHTTEEECTTSCEEETTTEEEESSTTTTCBCTTTSBTTBSCCHHHH
T ss_pred HHHHHHHHcCEEEecCCCccCCCCcEEEEecCCcccceeecccCCccCHHHH
Confidence 9999999999999999999999999999999999999998776665444433
No 7
>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
Probab=100.00 E-value=5e-71 Score=638.05 Aligned_cols=342 Identities=29% Similarity=0.489 Sum_probs=249.6
Q ss_pred hHHHHHHHHHHhhhcccCCCCCcchhhhhcccCCccccccccccccCCccccccccChhhHHHHHHHhhcCCCCCeEEEE
Q psy16767 555 HVDKFYDMIFYKNLLSLANPGENVGVLAAQSIGEPSTQMTLNTFHFAGRGDMNVTLGIPRLREILMMATKAIKTPSMEIP 634 (1020)
Q Consensus 555 ~~~~~~~~~~~ky~~slv~pGe~VG~iAAQSIGEP~TQmTLnTFH~AG~~~~nvTlGvPRLkEIi~~ASk~iKTP~mtv~ 634 (1020)
.++++...|..+|.|++|+||||||+|||||||||+|||||||||+||++++|||+|+|||+||+ +|+|+++||+|+++
T Consensus 47 ~~~~~~~~~~~~y~r~lv~pGEAVGiIAAQSIGEPgTQlTLrTFH~gGva~~nvT~GlPRl~Ei~-~a~k~~~tp~~~i~ 125 (395)
T 4ayb_C 47 EIDKIFDLAIKEYSEGLIAPGEAIGIVAAQSVGEPGTQMTLRTFHFAGIRELNVTLGLPRLIEIV-DAKKVPSTPMMTIY 125 (395)
T ss_dssp HHHHHHHHHHHHHHHTBCCTTCCHHHHHHHHHHHHHHTCC-------------CCCSHHHHHHHH-TCCSSCSSCEEEEC
T ss_pred HHHHHHHHHHHHHHHhcCCCCchHhHHHHhhcCCchhhhccccceeeeecceeeecCccceEEec-ccccCCCCCceEEE
Confidence 56778888999999999999999999999999999999999999999999999999999999999 79999999999999
Q ss_pred cCCCCchhHHHHHHHHhhccceehhhhcceeEEEEEeecCCCCCcceEEEEEEecccccccccCCChhhHHHHHHHHHHH
Q psy16767 635 FLPDMPKLEKKANRLAKSMTRITMADVLEKVKIKEWLEISPEPHMNYQMKFCFIPAHMYRDKTSVKPSKIIDHFERKFLK 714 (1020)
Q Consensus 635 L~~~~~~~~~~a~~i~~~l~~v~L~dvi~~i~v~~~~~~~~~~~~~y~i~~~l~~~~~~~~~~~i~~~~i~~~~~~~f~~ 714 (1020)
|.+......++|..++.+++++++.+++....+.. . .+.+.+++ +........++++++...+.
T Consensus 126 l~~~~~~~~e~~~~~~~~ie~~~~~~~~~~~~i~~----~-----~~~~~~~~--d~~~~~~~~~~~~~i~~~~~----- 189 (395)
T 4ayb_C 126 LTDEYKHDKEKALEVARKLEYTKIENVVSSTSIDI----A-----SMSIILQL--DNEMLKDKGVTVDDVKKAIN----- 189 (395)
T ss_dssp CTTTGGGCHHHHHHHHHHHHCCCHHHHEEEEEEET----T-----TTEEEEEE--CGGGGBTTBCHHHHHHHHHH-----
T ss_pred ecccccccHHHHHhhccceeEEEccceeeeeEEee----c-----ccceeeeh--hhhhhhhcCccHHHHHHHHh-----
Confidence 99877666689999999999999999998776531 1 22333444 23333455555554433221
Q ss_pred HHHHHHHHHHHccccccccccccccccCCCCcccCCccccccccCCCcCCCCccccchhhhhhhhhhccccccCCCCCcc
Q psy16767 715 ELEVAIAKRAAQGLKNMNIEQSRDQMEDDVEDDEGEGAEGAGAALGRVDVSSDEERDEEDAVQSHKKVNQEEDNDFEEPE 794 (1020)
Q Consensus 715 ~~~~~i~k~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~d 794 (1020)
+ ........ . . ++. +. .. .. +...+
T Consensus 190 -----------~--~~~~~~~~--------~--~-----------------~~~-----~~--~~--~~------~~~~~ 214 (395)
T 4ayb_C 190 -----------R--LKLGEFVI--------D--E-----------------SEG-----NT--LN--IS------FANID 214 (395)
T ss_dssp -----------H--SCCSSEEE--------E--E-----------------CSS-----EE--EE--EE------CCSSC
T ss_pred -----------h--hccCcEEE--------e--c-----------------ccC-----cE--EE--ee------cCCCc
Confidence 1 00000000 0 0 000 00 00 00 00000
Q ss_pred hHHhhhhcccccCCCcccccchhhcccchhHHHH-HHhh-ccccceeeeccccCCceEEEEecccceeccCCceEEEEEe
Q psy16767 795 DEERMSEREEDDNTSNIGERFKIEFRDSTNVFVK-DVVN-QHNIVHKYSYDKKNHMWCKLLFLPSNLFEEKESKHLLKTD 872 (1020)
Q Consensus 795 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~-~v~~-~~~~i~~~~~d~~~~~~~~~~~lp~~~~~~~~~e~~l~te 872 (1020)
. . .. -..++ .+.. ....+..+ .. +.....+++|++.|+
T Consensus 215 ~---------------v---------~~-l~~~~~~~~~~~i~gi~gi---------~r------~~~~~~~~~~~~~t~ 254 (395)
T 4ayb_C 215 S---------------I---------AA-LFKLRDKILNTKIKGIKGI---------KR------AIVQKKGDEYIILTD 254 (395)
T ss_dssp C---------------C---------CC-THHHHHHHHHHCCCSSSSC---------CE------EEEEEETTEEEEEEE
T ss_pred h---------------H---------HH-HHHHHhhccccEEecccce---------eE------EEEeccCCEEEEEec
Confidence 0 0 00 00011 1110 00011110 00 111234578999999
Q ss_pred ccchhhhhccCCcccccccccccHHHHHHhhhHHHHHHHHHHHHHhhhhccCcccCcchhhhhcccceeeeeEEeeeccc
Q psy16767 873 GINVNFISQYRHLLDLNKLYVNDIHYMASTYGIEAANRVIIREVKNVFAVYGIEVDPRHLSLVADYMTHSGTYVAMNRNG 952 (1020)
Q Consensus 873 G~nl~~~~~~~~~iD~~r~~sNdi~~i~~~~GIEAar~~i~~ei~~v~~~~g~~v~~rHl~LlAD~MT~~G~~~~~nR~G 952 (1020)
|.|+.++|.++ .+|+++++||||++|+++|||||||++|++|++.||..||++||+|||.||||+||++|.+.+++|+|
T Consensus 255 g~~l~~~~~~~-~vd~~~~~sn~i~eI~~vlGiEAar~~iv~Ei~~V~~~~Gv~In~rHi~li~d~Mt~~G~~~~igr~g 333 (395)
T 4ayb_C 255 GSNLSGVLSVK-GVDIAKVETNNIREIEEVFGIEAAREIIIREISKVLAEQGLDVDMRHILLVADVMTRTGVVRQIGRHG 333 (395)
T ss_dssp SCCHHHHTTST-TCCTTTCEESCTTHHHHHHCHHHHHHHHHHHHHHHHHTTSCCCCHHHHHHHHHHHHGGGSCCCSSSSS
T ss_pred CCCceeeeEee-cccccccccCcchhhhhhhhHHHHHHHHHHhHHHHHhccCceechHHhhhhhhhhhccceEeccCccc
Confidence 99999999995 69999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccc-CcchhhhhcchhHHHHHHHHHhcCCCccCCCcccceecCCccccCccceEEeec
Q psy16767 953 IRL-NPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQECRQGTGLFQLRNR 1009 (1020)
Q Consensus 953 ~~~-~~spl~kaSFE~t~~~L~~AA~~g~~D~l~svSa~Ii~Gk~~~~GTG~fdll~~ 1009 (1020)
+.. ..|||++||||+|+++|.+||++|+.|+|+|+|+|||+||++|+|||+|||+++
T Consensus 334 ~s~~t~S~LsaASFqeTt~vLteAAi~Gk~D~L~GlkENVIvGklipaGTG~f~l~~~ 391 (395)
T 4ayb_C 334 VTGEKNSVLARAAFEVTVKHLLDAAARGDVEEFKGVVENIIIGHPIKLGTGMVELTMR 391 (395)
T ss_dssp HHHHCSCHHHHHHHSCTHHHHHHHHHTTCBCCCCSHHHHHHHTCCCSSGGGTCEEEEC
T ss_pred ccCCCCCHHHHhcChhHHHHHHHHHhcCCCCCCCChHHHeecCCCCCCCcCceEEEec
Confidence 987 589999999999999999999999999999999999999999999999999875
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=94.31 E-value=0.011 Score=68.16 Aligned_cols=69 Identities=20% Similarity=0.337 Sum_probs=35.6
Q ss_pred cchhhhhcccce-eeeeEEee---eccccccCcchhhhhcchhHHHHHHHHHhcCCCccCCCcccceecCCcc
Q psy16767 929 PRHLSLVADYMT-HSGTYVAM---NRNGIRLNPSFIQKMTFEMPLEKIRQASMQGREDSLRAPSARVMLGQEC 997 (1020)
Q Consensus 929 ~rHl~LlAD~MT-~~G~~~~~---nR~G~~~~~spl~kaSFE~t~~~L~~AA~~g~~D~l~svSa~Ii~Gk~~ 997 (1020)
.|.+.=|+|... ..|++++= =|-.+....|+|.+|+||.+..||.+|+.+|+.|+++||.++|++||.-
T Consensus 359 ~rp~ksi~~rLkGKeGRfR~NL~GKRVdy~~~~s~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 431 (436)
T 3qqc_A 359 GRPLKTLAQRLKGKEGRFRGNLSGGAGSGAGSGSVLARAAFEITVQHLFEAAEKGEVDNLNGVIENVLIGQKH 431 (436)
T ss_dssp SCBCCCHHHHHCC---------------------------CCCCHHHHHHHHHHTCEEECCSSCCTTSCC---
T ss_pred CCCccchHhhhccccceecCcCCCCCCCcccchhHHHHHHHHHHHHHHHHHHHhcccchhhhHHHHhhhcccc
Confidence 344544455444 23444320 1222333479999999999999999999999999999999999999864
No 9
>2kke_A Uncharacterized protein; protein northeast structural genomics consortium (NESG), target TR5, PSI-2; NMR {Methanothermobacter thermautotrophicusstr}
Probab=11.84 E-value=63 Score=24.47 Aligned_cols=18 Identities=44% Similarity=0.765 Sum_probs=16.5
Q ss_pred ccCCcchhHHHHHhhhcc
Q psy16767 384 KTSRSGYLQRCLVKHLEG 401 (1020)
Q Consensus 384 KTa~sGYLqRrLvk~lEd 401 (1020)
.|+-|.|+.|-+..||||
T Consensus 35 ntsmsayirriilnhled 52 (53)
T 2kke_A 35 NTSMSAYIRRIILNHLED 52 (53)
T ss_dssp SSCHHHHHHHHHHHHHHT
T ss_pred cccHHHHHHHHHHhhhcc
Confidence 588899999999999997
No 10
>2dzq_A General transcription factor II-I repeat domain- containing protein 1; RSGI RUH-066, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=10.90 E-value=95 Score=28.05 Aligned_cols=19 Identities=42% Similarity=0.662 Sum_probs=14.3
Q ss_pred ccccChhhHHHHHHHhhcCC
Q psy16767 607 NVTLGIPRLREILMMATKAI 626 (1020)
Q Consensus 607 nvTlGvPRLkEIi~~ASk~i 626 (1020)
.-+-|+|||++|| .++..|
T Consensus 58 P~~ygi~~Le~IL-~~~~~I 76 (99)
T 2dzq_A 58 PNCFGIAKLRKIL-EASNSI 76 (99)
T ss_dssp TTTSCHHHHHHHH-HTTTTC
T ss_pred cCcccHHHHHHHH-hccCCc
Confidence 3468999999999 455544
Done!