Query 002530
Match_columns 912
No_of_seqs 174 out of 204
Neff 5.5
Searched_HMMs 29240
Date Tue Mar 26 16:40:30 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/002530.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1248-1252//hhsearch_pdb/002530hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4elj_A Retinoblastoma-associat 1.0 1 1 1317.0 48.0 570 1-800 75-655 (656)
2 4ell_A Retinoblastoma-associat 1.0 1 1 934.6 29.1 398 310-800 1-410 (411)
3 2r7g_A PP110, retinoblastoma-a 1.0 1 1 843.4 30.5 336 313-800 1-346 (347)
4 2qdj_A Retinoblastoma-associat 1.0 1 1 399.1 15.5 205 1-252 73-296 (304)
5 4bbr_M Transcription initiatio 1.0 1 1 51.0 8.9 72 639-712 126-197 (345)
6 3k7a_M Transcription initiatio 1.0 1 1 48.5 4.9 73 638-712 125-197 (345)
7 1c9b_A General transcription f 1.0 1 1 46.2 8.4 62 647-710 107-168 (207)
8 1ais_B TFB TFIIB, protein (tra 1.0 1 1 45.4 8.7 64 646-711 112-175 (200)
9 2aze_C Retinoblastoma-associat 1.0 1 1 39.0 2.3 36 832-872 2-38 (46)
10 2qdj_A Retinoblastoma-associat 1.0 1 1 34.0 6.9 45 445-494 63-107 (304)
No 1
>4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor protein, phosphorylation, cell; HET: TPO; 2.70A {Homo sapiens}
Probab=1.00 E-value=1 Score=1317.03 Aligned_cols=570 Identities=25% Similarity=0.465 Sum_probs=496.3
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCC
Q ss_conf 98667888676679997613801035772488699999887548899999999999997304899988774564446898
Q 002530 1 MKLNIVDFFKELPQFLVKSGPILSNIYGADWENRLEAKELQANFVHLSILSKSYKRIYREFFLPSDANGDKQSAAASTSG 80 (912)
Q Consensus 1 ~~lsl~~Ff~~~~~w~~~~~~~l~~~~~~~~~~rl~~~~Le~~F~v~~vl~kky~~iF~~lF~~p~~~~~~~~~~~~~~~ 80 (912)
|+||++|||+||+|| || +++|+.+ +++||++|+|+++|||||+++|++||..|+++++ + .+|
T Consensus 75 ~~lsl~~FF~kikk~-dm---------~~~~~~~--i~rLE~kF~v~~vlfkky~~if~~iF~~p~~~~~---~---~~~ 136 (656)
T 4elj_A 75 IEISVHKFFNLLKEI-DT---------STKVDNA--MSRLLKKYDVLFALFSKLERTCELIYLTQPSSSI---S---TEI 136 (656)
T ss_dssp HTCCHHHHHHHHHHS-CC---------CHHHHHH--HHHHHHHHHHHHHHHHHHHHHHTTTBCCC--------------C
T ss_pred HCCCHHHHHHHHHHC-CC---------CHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC---C---CCC
T ss_conf 367799999885863-37---------0889999--9999876766789999899999998529986667---7---888
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCC
Q ss_conf 82458868899999999642145602799866799999999950686423666688842212367750159986531399
Q 002530 81 YISDYHRFGWLLFLALRIHAFSRFKDLVTCTNGLVSILAILIIHVPVRFRNFNIHDSSRFVKKSNKGVDLIASLCSIYDT 160 (912)
Q Consensus 81 ~~~~~~~f~W~LFl~~k~~~~~~f~DLV~s~~LLlc~ldll~~n~p~~~~n~~~~~~~~~~k~~~~~~~il~~LC~~~~~ 160 (912)
+++++|+|||+|||++|++.+++++|||+||||||||||++|+|||.+++||+|+|.+ +++++|+|++||+.|+|
T Consensus 137 ~~~~~~~f~W~LFl~~K~~~~~~~~DLV~s~hLLlc~ldl~~~~~p~dlln~~~~~~~-----~~~~~~il~~LC~~~~~ 211 (656)
T 4elj_A 137 NSALVLKVSWITFLLAKGEVLQMEDDLVISFQLMLCVLDYFIKLSPPMLLKEPYKTAV-----IENDTRIIEVLCKEHEC 211 (656)
T ss_dssp CHHHHHHHHHHHHHHHHHHHCSSSCCHHHHHHHHHHHHHHHHHHSCGGGBCHHHHTTC-----C--CTHHHHHHHHHTTC
T ss_pred CHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHCCCCCCCC-----CCCCCCHHHHHHHHCCC
T ss_conf 7999998899999998602443212799999999999999998598988088767799-----98875689998653588
Q ss_pred CHHHHHHHHHH-HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 99999999999-68999997301866555433456777788851000368997706789999999999974037998630
Q 002530 161 SEDDLRKIMEK-TNTLIADILKKKPCEASECKSENLENIDTDGLIYFENLMDDSSLSSSLNILEKDYDNATRNKGELDER 239 (912)
Q Consensus 161 ~~~e~k~~~~~-~~~~I~~~f~k~~~~~~~~~~~~l~~~~~~~~~~f~gLl~~~~f~~nl~~Lnk~YE~~vl~~GdlDER 239 (912)
+++|||++++| |.++|.++ |+++|.|++ |.++|||+||+||+++||||||
T Consensus 212 ~~~E~k~i~~~~f~~~i~~l----------------------~l~~~~~~~-------n~k~Lnk~YEe~vl~~Gd~DER 262 (656)
T 4elj_A 212 NIDEVANVAFKNFIPFMNSL----------------------GLVTSNGLP-------EVENLSKRYEEIYLKNKDLDAR 262 (656)
T ss_dssp CHHHHHHHHHHTHHHHHHTT----------------------GGGEETTEE-------CHHHHHHHHHHHHHHHTCCCGG
T ss_pred CHHHHHHHHHHHHHHHHCCH----------------------HHHHCCCCC-------CHHHHHHHHHHHHCCCCCCCHH
T ss_conf 69999999987406331501----------------------124208852-------1789999999996526775355
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf 12357886446888889864434642213546898666789999999999989998888877777760466786999999
Q 002530 240 VFINEDDSLLGSGSLSGGAVNITGAKRKFDSLASPVKTITSPLSPHRSSASHPNGIAGGATSKMVVTPVSTAMTTAKWLR 319 (912)
Q Consensus 240 iFL~~d~~~ig~~~~s~~~~~~~~~~~~~~~~~sp~k~~~~plt~~~sp~s~~~g~~~~~~~~~~~TPVs~Am~s~~wL~ 319 (912)
|||++|+++.++ . .+..+ ...+|.+. .| .+..+..+++||||+||++++||+
T Consensus 263 iFl~~d~~i~~~-~-----~~~~~------~~~tP~k~---------~~-------~~~~~~~p~~TPVs~A~~si~~L~ 314 (656)
T 4elj_A 263 LFLDHDKTLQTD-S-----IDSFE------TQRTPRKS---------NL-------DEEVNVIPPHTPVRTVMNTIQQLM 314 (656)
T ss_dssp GGGGTCGGGCC-----------------------------------------------------CCCHHHHHHHHHHHHH
T ss_pred HHCCCCCCCCCC-H-----HHHHC------CCCCCCCC---------CC-------CCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf 643775323664-2-----33203------67898766---------87-------655667899985489998999999
Q ss_pred HHHCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 99279999990899999852488938889999999999564778889743335777776444599999999999999999
Q 002530 320 TVICPLPSKPSAELERFLKSCDKDVTTDVMRRAHIILEAIFPSSGLGERCVTGSLQGANLMDNIWAEQRRLEALKLYYRV 399 (912)
Q Consensus 320 ~~ls~l~~~PS~~L~~~f~~C~~d~~~~i~~rv~~l~e~~f~~~~~~~~~~~~~~~~~~~~d~~~a~qR~~~a~~LYYrv 399 (912)
++++|++++||++|.+||++|++||+++|++||++|++.|.+++. +. .+ + ...| +|+||+.+|++|||||
T Consensus 315 ~~l~~~~~~PS~~L~~~f~~C~~dp~~~I~~rv~~l~~~F~~~~~--~~--~g---~-~~~~--~a~~R~~la~~LYYkv 384 (656)
T 4elj_A 315 MILNSASDQPSENLISYFNNCTVNPKESILKRVKDIGYIFKEKFA--KA--VG---Q-GCVE--IGSQRYKLGVRLYYRV 384 (656)
T ss_dssp HHTTTCCSSCCHHHHHHHHTSSSCCHHHHHHHHHHHHHHHHHHHH--HH--HC---G-GGHH--HHHHHHHHHHHHHHHH
T ss_pred HHHCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHC--CC--CC---C-CCCH--HHHHHHHHHHHHHHHH
T ss_conf 985378889998999999974888699999999999999998721--34--68---7-6406--9999999999999999
Q ss_pred HHHHHHHHHHHHCCCCHHHHHCHHHHHHHHHHHHHHHHHHHCCCC---------CCCHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 999999999630533157641004779999999999999540677---------64524786411898512565878997
Q 002530 400 LEAMCTAEAQVLHAKNLTSLLTNERFHRCMLACSAELVLATHKTV---------TMLFPAVLERTGITAFDLSKVIESFI 470 (912)
Q Consensus 400 LE~Il~~E~~rl~~~~ls~LL~~e~FhrsLlACclEiVl~sy~~~---------~~~FPwiLe~~~i~afdf~KVIE~fI 470 (912)
||+||.+|++|++..|+|.||+|++||+||+|||+|||+|+|+.+ ++.|||||++|+|+|||||||||+||
T Consensus 385 LE~Il~~E~~rl~~~~ls~LL~~~~Fh~sLlACclEvVl~~y~~~~~~~~~~~~~~~FPwiL~~~~i~afdf~KVIE~fv 464 (656)
T 4elj_A 385 MESMLKSEEERLSIQNFSKLLNDNIFHMSLLACALEVVMATYSRSTSQNLDSGTDLSFPWILNVLNLKAFDFYKVIESFI 464 (656)
T ss_dssp HHHHHHHHHHHHCCSCCHHHHHCHHHHHHHHHHHHHHHHHHHSCCCC----CCCSSSTTHHHHHTTCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHHHHHHHHE
T ss_conf 99999999874361158888504499999999999999999355422345655566771998861886777876665520
Q ss_pred HCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCCCCCC
Q ss_conf 41799999899999999999984521277991157776315513566420377789999623542114467899998655
Q 002530 471 RHEESLPRELRRHLNSLEERLLESMVWEKGSSMYNSLTVARPVLSAEINRLGLLADPMPSLDAIATHINFSSGGLSPVHS 550 (912)
Q Consensus 471 R~e~~LpRelvkHLn~IEE~ILEslAW~~~S~Lw~~L~~a~~~~~~e~n~~~~~~e~~p~~~~i~~~~~~~~~~~pp~p~ 550 (912)
|||++|||+|+||||+|||||||||||++|||||+.|..++++ .
T Consensus 465 r~e~~L~r~lvkHL~~iEe~iLEslaW~~~S~L~~~l~~~~~~-----------------------------------~- 508 (656)
T 4elj_A 465 KAEGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQSKDR-----------------------------------E- 508 (656)
T ss_dssp HHCTTCCHHHHHHHHHHHHHHHHTGGGSSSCTHHHHHHTTSCC-------------------------------------
T ss_pred ECCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCC-----------------------------------C-
T ss_conf 0367799999999999999999998704688689998833655-----------------------------------5-
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf 77677999998998999987767652000135556852000125677889999997665557999899999998643035
Q 002530 551 LHKHETSPGQNGDIRSPKRPCTDYRSVLVERNNFTSPVKDRLLGLNNLKSKPLPPPLQSAFASPTRPNPGGGGETCAETG 630 (912)
Q Consensus 551 ~~~~~~~~~~~~~~~sp~~~~~~~~s~~~~~~~~~sP~k~~l~~~~~~~~k~~p~~~~s~~~sp~~~~~~~~~e~~~~t~ 630 (912)
| + .++++
T Consensus 509 -----------g-----------------------------------------~---------------------~~s~s 515 (656)
T 4elj_A 509 -----------G-----------------------------------------P---------------------LKSTS 515 (656)
T ss_dssp ----------------------------------------------------------------------------CCSH
T ss_pred -----------C-----------------------------------------C---------------------CCCCH
T ss_conf -----------6-----------------------------------------7---------------------66648
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf 99999999999999999999991999-58899999999999831012234661469999778876762568627999999
Q 002530 631 INIFFCKINKLAAVRINAMVERLQLS-QQIRESVYCLFQQILNQRTSLFFNRHIDQIILCCFYGVAKISQLNLTFREIIY 709 (912)
Q Consensus 631 l~lFfrKvy~LAa~RL~~LC~rL~l~-~~l~~kIWt~fe~~L~~~t~Lm~dRHLDQiiLCaiY~i~Kv~k~~~tFkeIi~ 709 (912)
+++||||||+||++||++||++|.++ ++++++|||+|||+|.|+|+||+|||||||||||||++|||++.+++|++||+
T Consensus 516 l~iffrKvy~LAa~Rl~~LC~~L~~~~~~i~~~IWt~fe~~l~~~t~L~~dRHLDQiilCsiY~icKv~~~~ltFk~Ii~ 595 (656)
T 4elj_A 516 LSLFYKKVYRLAYLRLNTLCERLLSEHPELEHIIWTLFQHTLQNEYELMRDRHLDQIMMCSMYGICKVKNIDLKFKIIVT 595 (656)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHHHCGGGSTTSCHHHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCHHHHHH
T ss_conf 99999999999999999999986667357899999999999986289874430789999999999984157768999999
Q ss_pred HHHCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCHHHHCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 97508899772027898534333368986432123100111300864579999855798767667544468899999999
Q 002530 710 NYRKQPQCKPQVFRSVFVDWASARQSGRSEQDHVDIITFYNKIFVPAVKPLLVELGPAGTAMKTNRVSEVNHNNDGPCPG 789 (912)
Q Consensus 710 ~Yr~QPqa~~~VyRsVli~~~~~~~~g~~~~e~gDII~FYN~VFvp~mK~f~l~~~~~~~~~~~~~~~~~~~~~d~~~~~ 789 (912)
+||+||||+++|||+|+|+. +++||||+|||+||||+||+|+++++++ +
T Consensus 596 ~Yr~qpq~~~~vyr~V~i~~----------g~~~DII~FYN~Vfvp~~K~f~l~~~~~---------------------~ 644 (656)
T 4elj_A 596 AYKDLPHAVQETFKRVLIKE----------EEYDSIIVFYNSVFMQRLKTNILQYAST---------------------R 644 (656)
T ss_dssp HHHTSTTCCTHHHHSEEEET----------TEEECHHHHHHHTHHHHHTTTGGGC-------------------------
T ss_pred HHHHCCCCCCCEEEEEEECC----------CCCCCHHHHHHHHHHHHHHHHHHHHCCC---------------------C
T ss_conf 99847788876567888269----------9876089998887899899999984689---------------------9
Q ss_pred CCCCCCCCCCC
Q ss_conf 99887799899
Q 002530 790 SPKVSVFPALP 800 (912)
Q Consensus 790 sP~lSp~p~l~ 800 (912)
.|+|||||.+|
T Consensus 645 ~~~lsp~p~~~ 655 (656)
T 4elj_A 645 PPTLAPIPHIP 655 (656)
T ss_dssp -----------
T ss_pred CCCCCCCCCCC
T ss_conf 99899999999
No 2
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {Homo sapiens}
Probab=1.00 E-value=1 Score=934.64 Aligned_cols=398 Identities=26% Similarity=0.505 Sum_probs=334.3
Q ss_pred HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 67869999999927999999089999985248893888999999999956477888974333577777644459999999
Q 002530 310 TAMTTAKWLRTVICPLPSKPSAELERFLKSCDKDVTTDVMRRAHIILEAIFPSSGLGERCVTGSLQGANLMDNIWAEQRR 389 (912)
Q Consensus 310 ~Am~s~~wL~~~ls~l~~~PS~~L~~~f~~C~~d~~~~i~~rv~~l~e~~f~~~~~~~~~~~~~~~~~~~~d~~~a~qR~ 389 (912)
.||+|++||+++|+|++++||++|.+||++|++||+++|++||++|++.|.+++.. . .+. ...| ++++|+
T Consensus 1 ~~~~s~~~L~~~l~~~~~~PS~~L~~~f~sC~~dp~~~I~~rv~~l~~~F~~~~~~-~----~~~---~~~~--~a~~R~ 70 (411)
T 4ell_A 1 GEFNTIQQLMMILNSASDQPSENLISYFNNCTVNPKESILKRVKDIGYIFKEKFAK-A----VGQ---GCVE--IGSQRY 70 (411)
T ss_dssp ------CHHHHHHHHSCSSCCHHHHHHHHTSSSCCHHHHHHHHHHHHHHHHHHHHH-H----HCC---C--C--HHHHHH
T ss_pred CCCHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHC-C----CCC---CCHH--HHHHHH
T ss_conf 90248999999864899999899999998669986999999999999999987401-2----476---3306--999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHCHHHHHHHHHHHHHHHHHHHCCC---------CCCCHHHHHHHCCCCCC
Q ss_conf 999999999999999999963053315764100477999999999999954067---------76452478641189851
Q 002530 390 LEALKLYYRVLEAMCTAEAQVLHAKNLTSLLTNERFHRCMLACSAELVLATHKT---------VTMLFPAVLERTGITAF 460 (912)
Q Consensus 390 ~~a~~LYYrvLE~Il~~E~~rl~~~~ls~LL~~e~FhrsLlACclEiVl~sy~~---------~~~~FPwiLe~~~i~af 460 (912)
.+|++|||++||+||.+|++|++..|++.||+||+||+||+|||+|||+|+|++ .++.|||||++|+|+||
T Consensus 71 ~la~~LYY~~LE~Il~~E~~rl~~~~~s~LL~~~~Fh~sLlACclEvVl~~y~~~~~~~~~~~~~~~FPwiL~~~~i~af 150 (411)
T 4ell_A 71 KLGVRLYYRVMESMLKSEEERLSIQNFSKLLNDNIFHMSLLACALEVVMATYSRSTSQNLDSGTDLSFPWILNVLNLKAF 150 (411)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC------------CCTTHHHHHTTCCHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHCCCCHH
T ss_conf 99999999999999999998525004888860689999999999999999944432234566667677299986499765
Q ss_pred HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCCCCCCCCHHHHHHCCCC
Q ss_conf 25658789974179999989999999999998452127799115777631551356642037778999962354211446
Q 002530 461 DLSKVIESFIRHEESLPRELRRHLNSLEERLLESMVWEKGSSMYNSLTVARPVLSAEINRLGLLADPMPSLDAIATHINF 540 (912)
Q Consensus 461 df~KVIE~fIR~e~~LpRelvkHLn~IEE~ILEslAW~~~S~Lw~~L~~a~~~~~~e~n~~~~~~e~~p~~~~i~~~~~~ 540 (912)
|||||||+|||||++|||||+||||+|||||||||||++|||||++|..++ ++.|++++++|+.. .
T Consensus 151 df~KVIE~fvr~e~~L~r~lvkHL~~iEe~iLEslaW~~~S~Lw~~l~~~~-------~~~~~~~~~~~~~~-~------ 216 (411)
T 4ell_A 151 DFYKVIESFIKAEGNLTREMIKHLERCEHRIMESFAWLSDSPLFDLIKQSK-------DREGPTDHLESACP-L------ 216 (411)
T ss_dssp HHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTGGGSTTCHHHHHHHHC------------------------------
T ss_pred HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC-------CCCCCCCCCCCCCC-C------
T ss_conf 665565775323677999999999999999988887167986899998503-------46786334688533-3------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCC
Q ss_conf 78999986557767799999899899998776765200013555685200012567788999999766555799--9899
Q 002530 541 SSGGLSPVHSLHKHETSPGQNGDIRSPKRPCTDYRSVLVERNNFTSPVKDRLLGLNNLKSKPLPPPLQSAFASP--TRPN 618 (912)
Q Consensus 541 ~~~~~pp~p~~~~~~~~~~~~~~~~sp~~~~~~~~s~~~~~~~~~sP~k~~l~~~~~~~~k~~p~~~~s~~~sp--~~~~ 618 (912)
..| .+. ..++ .+.|.||+|+. +++...++ ++++++| +.+.
T Consensus 217 ------~~p-~~~-------------~~t~----------~~~~~SP~~~~-------~~~~~~~~-~~~~~~~~~~~~~ 258 (411)
T 4ell_A 217 ------NLP-LQN-------------NHTA----------ADMYLEPVRAP-------KKKGSTTR-VNSTANAETQATS 258 (411)
T ss_dssp ---------------------------CCH----------HHHHHCCC--------------------------------
T ss_pred ------CCC-CCC-------------CCCC----------HHCCCCCCCCC-------CCCCCCCC-CCCCCCCCCCCCC
T ss_conf ------456-667-------------7650----------11036887741-------00156786-5444676656788
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 999998643035999999999999999999999919995-8899999999999831012234661469999778876762
Q 002530 619 PGGGGETCAETGINIFFCKINKLAAVRINAMVERLQLSQ-QIRESVYCLFQQILNQRTSLFFNRHIDQIILCCFYGVAKI 697 (912)
Q Consensus 619 ~~~~~e~~~~t~l~lFfrKvy~LAa~RL~~LC~rL~l~~-~l~~kIWt~fe~~L~~~t~Lm~dRHLDQiiLCaiY~i~Kv 697 (912)
+..++++++++++++||||||+||++||++||++|++++ +++++|||||||+|+|+|+||+||||||||||||||||||
T Consensus 259 ~~~~~~~~~~~sl~lFfrKvy~LAa~Rl~~LC~~L~~~~~~l~~~IWt~fe~~l~~~teLm~dRHLDQiiLCsiY~i~Kv 338 (411)
T 4ell_A 259 AFQTQKPLKSTSLSLFYKKVYRLAYLRLNTLCERLLSEHPELEHIIWTLFQHTLQNEYELMRDRHLDQIMMCSMYGICKV 338 (411)
T ss_dssp ---------CHHHHHHHHHHHHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHCGGGGTTSCHHHHHHHHHHHHHHT
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf 87777776543799999999999999999999986788378899999999999985357650562999999999999861
Q ss_pred CCCCCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCHHHHCCHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf 56862799999997508899772027898534333368986432123100111300864579999855798767667544
Q 002530 698 SQLNLTFREIIYNYRKQPQCKPQVFRSVFVDWASARQSGRSEQDHVDIITFYNKIFVPAVKPLLVELGPAGTAMKTNRVS 777 (912)
Q Consensus 698 ~k~~~tFkeIi~~Yr~QPqa~~~VyRsVli~~~~~~~~g~~~~e~gDII~FYN~VFvp~mK~f~l~~~~~~~~~~~~~~~ 777 (912)
++.+++|++||++||+||||+++|||+|+|+. +++||||+|||+||||+||+|+++|+++
T Consensus 339 ~~~~~tFk~Ii~~Yr~qPqa~~~vyr~Vli~~----------g~~gDII~FYN~Vfv~~mK~f~l~~~~~---------- 398 (411)
T 4ell_A 339 KNIDLKFKIIVTAYKDLPHAVQETFKRVLIKE----------EEYDSIIVFYNSVFMQRLKTNILQYAST---------- 398 (411)
T ss_dssp TTCCCCHHHHHHHHTTSTTCCTHHHHSEECSS----------SCEECHHHHHHHTHHHHHHHHHHGGGSS----------
T ss_pred CCCCCCHHHHHHHHHHCCCCCCCEEEEEEECC----------CCCCCHHHHHHHHHHHHHHHHHHHHCCC----------
T ss_conf 46777899999999857687775468888579----------9756099999999999999999985579----------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 46889999999999887799899
Q 002530 778 EVNHNNDGPCPGSPKVSVFPALP 800 (912)
Q Consensus 778 ~~~~~~d~~~~~sP~lSp~p~l~ 800 (912)
++|+|||+|.+|
T Consensus 399 -----------~~~~lsp~p~~~ 410 (411)
T 4ell_A 399 -----------RPPTLAPIPHIP 410 (411)
T ss_dssp -----------SCCCCCCCC---
T ss_pred -----------CCCCCCCCCCCC
T ss_conf -----------999999999999
No 3
>2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB; retinoblastoma protein, E2F displacement, transcription repressor; 1.67A {Homo sapiens} SCOP: a.74.1.3 a.74.1.3 PDB: 1n4m_A 3pom_A 1gh6_B 1gux_A 1o9k_A 1ad6_A 1gux_B 1o9k_B
Probab=1.00 E-value=1 Score=843.43 Aligned_cols=336 Identities=29% Similarity=0.584 Sum_probs=302.7
Q ss_pred HHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf 69999999927999999089999985248893888999999999956477888974333577777644459999999999
Q 002530 313 TTAKWLRTVICPLPSKPSAELERFLKSCDKDVTTDVMRRAHIILEAIFPSSGLGERCVTGSLQGANLMDNIWAEQRRLEA 392 (912)
Q Consensus 313 ~s~~wL~~~ls~l~~~PS~~L~~~f~~C~~d~~~~i~~rv~~l~e~~f~~~~~~~~~~~~~~~~~~~~d~~~a~qR~~~a 392 (912)
+|++|||++++|++++||++|.+||++|++||+++|++|+++|++.|...+. .. .+. ...+ ++++|+.+|
T Consensus 1 ~~~~~L~~~~~~~~~~Ps~~L~~~~~~C~~~p~~~i~~rv~~l~~~f~~~~~--~~---~~~---~~~~--~~~~R~~~a 70 (347)
T 2r7g_A 1 NTIQQLMMILNSASDQPSENLISYFNNCTVNPKESILKRVKDIGYIFKEKFA--KA---VGQ---GCVE--IGSQRYKLG 70 (347)
T ss_dssp CCHHHHHHHHHHSCSSCCHHHHHHHHTSSSCCHHHHHHHHHHHHHHHHHHHH--HH---HCG---GGHH--HHHHHHHHH
T ss_pred CHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH--HC---CCC---CCCH--HHHHHHHHH
T ss_conf 9689999986489999998999999976998699999999999999999876--31---376---5425--999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCHHHHHCHHHHHHHHHHHHHHHHHHHCCC---------CCCCHHHHHHHCCCCCCHHH
Q ss_conf 999999999999999963053315764100477999999999999954067---------76452478641189851256
Q 002530 393 LKLYYRVLEAMCTAEAQVLHAKNLTSLLTNERFHRCMLACSAELVLATHKT---------VTMLFPAVLERTGITAFDLS 463 (912)
Q Consensus 393 ~~LYYrvLE~Il~~E~~rl~~~~ls~LL~~e~FhrsLlACclEiVl~sy~~---------~~~~FPwiLe~~~i~afdf~ 463 (912)
++|||++||+||.+|.+|+++.|++.||++|+||+||+|||+|+|++||++ .++.|||||++|+|+|||||
T Consensus 71 ~~LYY~vLe~Il~~E~~r~~~~~~s~LL~~~~Fh~sLlACc~EiVl~ay~~~~~~~~~~~~~~~FP~il~~~~i~afdf~ 150 (347)
T 2r7g_A 71 VRLYYRVMESMLKSEEERLSIQNFSKLLNDNIFHMSLLACALEVVMATYSRSTSQNLDSGTDLSFPWILNVLNLKAFDFY 150 (347)
T ss_dssp HHHHHHHHHHHHHHHHHHHTSCCCHHHHTCHHHHHHHHHHHHHHHHHHHHHHC------CCCCCTTHHHHHHTCCHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHCCCCHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHH
T ss_conf 99999999999999998547331888842078999999999999999962421245665445777399986399767899
Q ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHCCCCCCCCCCHHHHHHCCCCCCC
Q ss_conf 58789974179999989999999999998452127799115777631551356642037778999962354211446789
Q 002530 464 KVIESFIRHEESLPRELRRHLNSLEERLLESMVWEKGSSMYNSLTVARPVLSAEINRLGLLADPMPSLDAIATHINFSSG 543 (912)
Q Consensus 464 KVIE~fIR~e~~LpRelvkHLn~IEE~ILEslAW~~~S~Lw~~L~~a~~~~~~e~n~~~~~~e~~p~~~~i~~~~~~~~~ 543 (912)
||||+|||||++|||+|+||||+|||+|||+|||++|||||+.|..+++
T Consensus 151 KVIE~fVr~e~~LprelvkHL~~iEe~iLeslaW~~~S~L~~~l~~~~~------------------------------- 199 (347)
T 2r7g_A 151 KVIESFIKAEGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQSKD------------------------------- 199 (347)
T ss_dssp HHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTGGGSTTCTHHHHHHHHHC-------------------------------
T ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCC-------------------------------
T ss_conf 9989998656669899999999999999999973358779999986335-------------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 99986557767799999899899998776765200013555685200012567788999999766555799989999999
Q 002530 544 GLSPVHSLHKHETSPGQNGDIRSPKRPCTDYRSVLVERNNFTSPVKDRLLGLNNLKSKPLPPPLQSAFASPTRPNPGGGG 623 (912)
Q Consensus 544 ~~pp~p~~~~~~~~~~~~~~~~sp~~~~~~~~s~~~~~~~~~sP~k~~l~~~~~~~~k~~p~~~~s~~~sp~~~~~~~~~ 623 (912)
.+ |
T Consensus 200 ----~~------------------------------------------------------------------------g- 202 (347)
T 2r7g_A 200 ----RE------------------------------------------------------------------------G- 202 (347)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ----CC------------------------------------------------------------------------C-
T ss_conf ----67------------------------------------------------------------------------8-
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCC
Q ss_conf 8643035999999999999999999999919995-889999999999983101223466146999977887676256862
Q 002530 624 ETCAETGINIFFCKINKLAAVRINAMVERLQLSQ-QIRESVYCLFQQILNQRTSLFFNRHIDQIILCCFYGVAKISQLNL 702 (912)
Q Consensus 624 e~~~~t~l~lFfrKvy~LAa~RL~~LC~rL~l~~-~l~~kIWt~fe~~L~~~t~Lm~dRHLDQiiLCaiY~i~Kv~k~~~ 702 (912)
+++++++||||||+||++||++||++|+++. +++++|||+|||+|.|+|+||+|||||||||||||++|||++.++
T Consensus 203 ---~~~sl~~f~rKvy~La~~Rl~~LC~~L~~~~~~~~~~iWt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~ 279 (347)
T 2r7g_A 203 ---KSTSLSLFYKKVYRLAYLRLNTLCERLLSEHPELEHIIWTLFQHTLQNEYELMRDRHLDQIMMCSMYGICKVKNIDL 279 (347)
T ss_dssp ---CCHHHHHHHHHHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCGGGGTTSCHHHHHHHHHHHHHHHTTCCC
T ss_pred ---CCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCHHHHCCCCHHHHHHHHHHHHHHHCCCCC
T ss_conf ---65379999999999999999999998678755889999999999998575864587098999999999999627888
Q ss_pred CHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCHHHHCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf 79999999750889977202789853433336898643212310011130086457999985579876766754446889
Q 002530 703 TFREIIYNYRKQPQCKPQVFRSVFVDWASARQSGRSEQDHVDIITFYNKIFVPAVKPLLVELGPAGTAMKTNRVSEVNHN 782 (912)
Q Consensus 703 tFkeIi~~Yr~QPqa~~~VyRsVli~~~~~~~~g~~~~e~gDII~FYN~VFvp~mK~f~l~~~~~~~~~~~~~~~~~~~~ 782 (912)
+|++||++||+||||+++|||+|+|+. +++||||+|||+||||+||+|++++++.
T Consensus 280 tF~~Ii~~Yr~qpq~~~~vyr~V~i~~----------~~~gDII~FYN~vfvp~mK~f~~~~~~~--------------- 334 (347)
T 2r7g_A 280 KFKIIVTAYKDLPHAVQETFKRVLIKE----------EEYDSIIVFYNSVFMQRLKTNILQYAST--------------- 334 (347)
T ss_dssp CHHHHHHHHTTSTTCCTHHHHSEECSS----------SCEECHHHHHHHTHHHHHHHHHHHTTSS---------------
T ss_pred CHHHHHHHHHHCCCCCCHHEEEEECCC----------CCCCCHHHHHHHHHHHHHHHHHHHHCCC---------------
T ss_conf 999999999866465614214443168----------8858627862198899899999984789---------------
Q ss_pred CCCCCCCCCCCCCCCCCC
Q ss_conf 999999999887799899
Q 002530 783 NDGPCPGSPKVSVFPALP 800 (912)
Q Consensus 783 ~d~~~~~sP~lSp~p~l~ 800 (912)
++|+|||||++|
T Consensus 335 ------~~~~lSp~P~~p 346 (347)
T 2r7g_A 335 ------RPPTLSPIPHIP 346 (347)
T ss_dssp ------SCCCCCCCCCC-
T ss_pred ------CCCCCCCCCCCC
T ss_conf ------999999999999
No 4
>2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge, antitumor protein; 2.00A {Homo sapiens}
Probab=1.00 E-value=1 Score=399.14 Aligned_cols=205 Identities=19% Similarity=0.300 Sum_probs=177.1
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCC
Q ss_conf 98667888676679997613801035772488699999887548899999999999997304899988774564446898
Q 002530 1 MKLNIVDFFKELPQFLVKSGPILSNIYGADWENRLEAKELQANFVHLSILSKSYKRIYREFFLPSDANGDKQSAAASTSG 80 (912)
Q Consensus 1 ~~lsl~~Ff~~~~~w~~~~~~~l~~~~~~~~~~rl~~~~Le~~F~v~~vl~kky~~iF~~lF~~p~~~~~~~~~~~~~~~ 80 (912)
|+||++|||+||+|| + +|++|+.+ +++||++|+|+++|||||+++|.+||..|++++. +++|
T Consensus 73 ~~lsi~~Ff~k~~~~-d---------~~~~~~~~--i~~Le~~f~v~~~l~kky~~if~~iF~~~~~~~~------~~~~ 134 (304)
T 2qdj_A 73 IEISVHKFFNLLKEI-D---------TSTKVDNA--MSRLLKKYDVLFALFSKLERTCELIYLTQPSSSI------STEI 134 (304)
T ss_dssp HTCCHHHHHHHHTTS-C---------CCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHBCCBCCCSS------SCCB
T ss_pred CCCCHHHHHHHHHHC-C---------CCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC------CCCC
T ss_conf 697899999987874-7---------97999999--9999999999999999999999998069985557------8998
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-------CCCCC-------CCC----
Q ss_conf 824588688999999996421456027998667999999999506864236666-------88842-------212----
Q 002530 81 YISDYHRFGWLLFLALRIHAFSRFKDLVTCTNGLVSILAILIIHVPVRFRNFNI-------HDSSR-------FVK---- 142 (912)
Q Consensus 81 ~~~~~~~f~W~LFl~~k~~~~~~f~DLV~s~~LLlc~ldll~~n~p~~~~n~~~-------~~~~~-------~~k---- 142 (912)
+.+++|+|||+|||++|++++++++|||+||||||||||++|+|+|++++++.+ +|+++ |.+
T Consensus 135 ~~~~l~~f~W~LFL~~K~~~~~~~~DLV~s~~LLlc~Ldliy~~~p~~ll~~~~~~~~~~~~g~~~~~~~~q~~~~~~~~ 214 (304)
T 2qdj_A 135 NSALVLKVSWITFLLAKGEVLQMEDDLVISFQLMLCVLDYFIKLSPPMLLKEPYKTAVIPINGSPRTPRRGQNRSARIAK 214 (304)
T ss_dssp CSHHHHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHHHTSCGGGBCTTTTGGGC---------------------
T ss_pred CHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 79999999999999996307775662999989999999999996899884754101355456886432222343444555
Q ss_pred CCCCCCHHHHHHHHHCCCCHHHHHHHHHHH-HHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf 367750159986531399999999999996-8999997301866555433456777788851000368997706789999
Q 002530 143 KSNKGVDLIASLCSIYDTSEDDLRKIMEKT-NTLIADILKKKPCEASECKSENLENIDTDGLIYFENLMDDSSLSSSLNI 221 (912)
Q Consensus 143 ~~~~~~~il~~LC~~~~~~~~e~k~~~~~~-~~~I~~~f~k~~~~~~~~~~~~l~~~~~~~~~~f~gLl~~~~f~~nl~~ 221 (912)
.+++++|||++||+.|+++++|||+|++|+ +++|..+ |+.+| ++|+ |+++
T Consensus 215 ~~~~~~~il~~LC~~~~~~~~evk~~~~~~f~~~l~~l----------------------gL~~~------~~l~-n~~~ 265 (304)
T 2qdj_A 215 QLENDTRIIEVLCKEHECNIDEVKNVYFKNFIPFMNSL----------------------GLVTS------NGLP-EVEN 265 (304)
T ss_dssp ----CTHHHHHHHHHHTCCHHHHHHHHHHTHHHHTTCC-----------------------------------CC-CHHH
T ss_pred CCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH----------------------CCCCC------CCCH-HHHH
T ss_conf 67776449999861479989999999999889999881----------------------78533------8735-4899
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 9999999740379986301235788644688
Q 002530 222 LEKDYDNATRNKGELDERVFINEDDSLLGSG 252 (912)
Q Consensus 222 Lnk~YE~~vl~~GdlDERiFL~~d~~~ig~~ 252 (912)
|||.||+||++.|||||||||++|++++|+.
T Consensus 266 Lnk~Ye~~vl~~GdlDERiFl~~d~~l~~~~ 296 (304)
T 2qdj_A 266 LSKRYEEIYLKNKDLDARLFLDHDKTLQTDS 296 (304)
T ss_dssp HHHHHHHHHHHHTSCCGGGGGGTCGGGCCCH
T ss_pred HHHHHHHHHCCCCCCCCCEECCCCCCCCCCC
T ss_conf 9999999946257887301058864337886
No 5
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M
Probab=1.00 E-value=1 Score=50.95 Aligned_cols=72 Identities=11% Similarity=0.202 Sum_probs=64.4
Q ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf 99999999999999199958899999999999831012234661469999778876762568627999999975
Q 002530 639 NKLAAVRINAMVERLQLSQQIRESVYCLFQQILNQRTSLFFNRHIDQIILCCFYGVAKISQLNLTFREIIYNYR 712 (912)
Q Consensus 639 y~LAa~RL~~LC~rL~l~~~l~~kIWt~fe~~L~~~t~Lm~dRHLDQiiLCaiY~i~Kv~k~~~tFkeIi~~Yr 712 (912)
+.-|...|+.+|.+|+|+..+.+....+|.....+ .++++|..+.++.+|+|+.||..+..++|+||....+
T Consensus 126 L~~a~~~I~~~~~~L~Lp~~v~d~A~~lyk~a~~~--~~~rGrs~e~vaAAclYiACR~~~~prtl~eI~~~~~ 197 (345)
T 4bbr_M 126 VQAAFAKITMLCDAAELPKIVKDCAKEAYKLCHDE--KTLKGKSMESIMAASILIGCRRAEVARTFKEIQSLIH 197 (345)
T ss_dssp TTHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTC--TTTTTCCHHHHHHHHHHHHHHHTCCBCCHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHC--CCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHC
T ss_conf 99999999999998499878999999999999866--8756887999999999999984389863999998819
No 6
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=48.50 Aligned_cols=73 Identities=11% Similarity=0.187 Sum_probs=64.1
Q ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf 999999999999999199958899999999999831012234661469999778876762568627999999975
Q 002530 638 INKLAAVRINAMVERLQLSQQIRESVYCLFQQILNQRTSLFFNRHIDQIILCCFYGVAKISQLNLTFREIIYNYR 712 (912)
Q Consensus 638 vy~LAa~RL~~LC~rL~l~~~l~~kIWt~fe~~L~~~t~Lm~dRHLDQiiLCaiY~i~Kv~k~~~tFkeIi~~Yr 712 (912)
.+.-|...|+.+|.+|+|+..+.+....+|...+.+ .++++|-++.++.+|+|+.||..+...+|+||....+
T Consensus 125 ~l~~a~~~I~~~~~~L~Lp~~v~d~A~~lyk~~~~~--~~~kgr~~~~vaaAclyiAcR~e~~prtl~ei~~~~~ 197 (345)
T 3k7a_M 125 EVQAAFAKITMLCDAAELPKIVKDCAKEAYKLCHDE--KTLKGKSMESIMAASILIGCRRAEVARTFKEIQSLIH 197 (345)
T ss_dssp THHHHHHHHHHHHHHTTCCHHHHTHHHHHHHHHSSS--CSSCCCCSHHHHTTTTTTTSBTTBSSCCHHHHHHSSS
T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHC--CCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHC
T ss_conf 999999999999998199899999999999999855--7656886889999999999997479855999999978
No 7
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A*
Probab=1.00 E-value=1 Score=46.16 Aligned_cols=62 Identities=16% Similarity=0.131 Sum_probs=53.8
Q ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHH
Q ss_conf 9999991999588999999999998310122346614699997788767625686279999999
Q 002530 647 NAMVERLQLSQQIRESVYCLFQQILNQRTSLFFNRHIDQIILCCFYGVAKISQLNLTFREIIYN 710 (912)
Q Consensus 647 ~~LC~rL~l~~~l~~kIWt~fe~~L~~~t~Lm~dRHLDQiiLCaiY~i~Kv~k~~~tFkeIi~~ 710 (912)
...|..|+++.++++..|.+++.++. ++++.+|.--+|-..|+|..|++.+...+-++|-..
T Consensus 107 ~r~~~~l~l~~~~~~~A~~i~~~~~~--~~l~~g~~P~~IAaAaiylA~~~~~~~~~~~~i~~~ 168 (207)
T 1c9b_A 107 SRFCSNLCLPKQVQMAATHIARKAVE--LDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDI 168 (207)
T ss_dssp HHHHHHTTCCHHHHHHHHHHHHHHHH--TTCSTTCCHHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHH--CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHH
T ss_conf 99998879988999999999999987--586479986999999999999998889899999999
No 8
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B*
Probab=1.00 E-value=1 Score=45.43 Aligned_cols=64 Identities=16% Similarity=0.236 Sum_probs=52.1
Q ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf 999999919995889999999999983101223466146999977887676256862799999997
Q 002530 646 INAMVERLQLSQQIRESVYCLFQQILNQRTSLFFNRHIDQIILCCFYGVAKISQLNLTFREIIYNY 711 (912)
Q Consensus 646 L~~LC~rL~l~~~l~~kIWt~fe~~L~~~t~Lm~dRHLDQiiLCaiY~i~Kv~k~~~tFkeIi~~Y 711 (912)
|..+|.+|+++.++.+..|.+++.+.. ++++.+|.-..|.-.|+|..|+..+...+.++|-..-
T Consensus 112 i~r~~~~L~l~~~v~~~A~~i~~~~~~--~~~~~gr~P~~iAaAaly~A~~~~~~~~t~~ei~~~~ 175 (200)
T 1ais_B 112 VNKFADELGLSEKVRRRAIEILDEAYK--RGLTSGKSPAGLVAAALYIASLLEGEKRTQREVAEVA 175 (200)
T ss_dssp HHHHHHHHTCCHHHHHHHHHHHHHHHH--TTCCTTSCHHHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHH--CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf 999999869988999999999999887--5864699899999999999999968997999999892
No 9
>2aze_C Retinoblastoma-associated protein; coiled coil, beta sandwich, cell cycle, transcription; 2.55A {Homo sapiens} SCOP: j.119.1.1
Probab=1.00 E-value=1 Score=39.05 Aligned_cols=36 Identities=19% Similarity=0.303 Sum_probs=28.4
Q ss_pred CEEEEEECCCCCCCCCCCCCHHHHHHHHHC-CCCCCCCEECC
Q ss_conf 558999555446679987137999998603-98754310037
Q 002530 832 KSYYACVGESTHAYQSPSKDLTDINHRLNS-NRRVRGTLNFD 872 (912)
Q Consensus 832 ~~~y~~~Ges~~~~~SPskdL~~IN~~i~~-~~~~~~~l~~~ 872 (912)
++| ..+|||++ -+..+|.||+|+|+ .+..||.++-.
T Consensus 2 r~L-vSiGEsFg----~~~rFQKINqMvnss~r~~KR~~d~~ 38 (46)
T 2aze_C 2 RIL-VSIGESFG----TSEKFQKINQMVCNSDRVLKRSAEGS 38 (46)
T ss_dssp EEE-EESSCTTT----HHHHHHHHHHHHHCCTTCCCCCSTTC
T ss_pred CEE-EEHHHHHC----CHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 477-64333307----55889999999841047666412578
No 10
>2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge, antitumor protein; 2.00A {Homo sapiens}
Probab=1.00 E-value=1 Score=34.00 Aligned_cols=45 Identities=7% Similarity=0.175 Sum_probs=37.7
Q ss_pred CCCHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 64524786411898512565878997417999998999999999999845
Q 002530 445 TMLFPAVLERTGITAFDLSKVIESFIRHEESLPRELRRHLNSLEERLLES 494 (912)
Q Consensus 445 ~~~FPwiLe~~~i~afdf~KVIE~fIR~e~~LpRelvkHLn~IEE~ILEs 494 (912)
..++--+|..++|.-.+|++-|.- .+ +|.++.+++..+|...-=+
T Consensus 63 ~vsLt~LLr~~~lsi~~Ff~k~~~---~d--~~~~~~~~i~~Le~~f~v~ 107 (304)
T 2qdj_A 63 SFTFTELQKNIEISVHKFFNLLKE---ID--TSTKVDNAMSRLLKKYDVL 107 (304)
T ss_dssp CSCHHHHHHHHTCCHHHHHHHHTT---SC--CCHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHCCCCHHHHHHHHHH---CC--CCHHHHHHHHHHHHHHHHH
T ss_conf 373999998869789999998787---47--9799999999999999999
Done!