Query 001780
Match_columns 1014
No_of_seqs 434 out of 1908
Neff 6.6
Searched_HMMs 29240
Date Tue Mar 26 17:25:28 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/001780.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1074-1078//hhsearch_pdb/001780hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3iay_A DNA polymerase delta ca 1.0 1 1 1630.8 77.4 831 47-899 3-918 (919)
2 2gv9_A DNA polymerase; polymer 1.0 1 1 1351.1 62.7 791 87-900 99-1148(1193)
3 1qht_A Protein (DNA polymerase 1.0 1 1 1184.3 43.4 700 94-921 1-770 (775)
4 1s5j_A DNA polymerase I; repli 1.0 1 1 1132.6 33.2 718 88-899 11-831 (847)
5 3k59_A POL II, DNA polymerase 1.0 1 1 1112.8 60.2 678 89-899 4-780 (786)
6 3qex_A DNA polymerase, GP43; d 1.0 1 1 950.1 45.5 661 118-892 13-889 (903)
7 1noy_A Protein (DNA polymerase 1.0 1 1 339.1 11.8 276 117-491 12-383 (388)
8 2py5_A DNA polymerase; protein 1.0 1 1 260.6 11.8 345 301-731 5-505 (575)
9 3u3y_B Three prime repair exon 1.0 1 1 47.2 5.7 93 303-400 13-136 (314)
10 2p1j_A POLIII, DNA polymerase 1.0 1 1 46.9 4.6 91 299-400 9-109 (186)
No 1
>3iay_A DNA polymerase delta catalytic subunit; protein-DNA complex, DNA replication, DNA-BI DNA-directed DNA polymerase, exonuclease, hydrolase; HET: DNA DOC DCP; 2.00A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=1630.85 Aligned_cols=831 Identities=52% Similarity=0.902 Sum_probs=774.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEEEE
Q ss_conf 78999417887333155642110014765798899999998771599999578640478656676555893099999872
Q 001780 47 ETLLPEDEESLILRDIEQRQDFASRLAKWARPPLSSGYVSQCQSIMFQQLDIDYVIGDSNRELLPLSSGSAAIIRIFGVT 126 (1014)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~l~Fq~lD~d~~~~~~~~~~~~~~~~~~~vIrLFGvT 126 (1014)
.+.++.|+++|..|+++.+....+.+++|.|||+|++++|.++++.|||||+||+.. .++ ...+++|+|||||+|
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~ld~~~~~~---~~~--~~~~~~~virlfg~t 77 (919)
T 3iay_A 3 TQLESTFEQDVSQMEHDMADQEEHDLSSFERKKLPTDFDPSLYDISFQQIDAEQSVL---NGI--KDENTSTVVRFFGVT 77 (919)
T ss_dssp --------------------------CCCCCCCCCTTCCTTTCCEEEEEEEEEEEEC---SSS--CBTTBCEEEEEEEEE
T ss_pred CCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCC---CCC--CCCCCEEEEEEEEEE
T ss_conf 667104789987404000432101356767999986568887843799984234444---565--465982699999880
Q ss_pred CCCCEEEEEEECCCEEEEEECCCC---CCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCEE
Q ss_conf 599589999817342999945999---99784889999999998530028999951589999862023343579811099
Q 001780 127 REGHSVCCKVHGFEPYFYISCPQG---MGPDDISHFHQILEGRMREANRNSKVPQFVRHIEMVQKRSIMYYQQQKSQPFL 203 (1014)
Q Consensus 127 e~G~SV~v~V~gF~PYFYV~~p~~---~~~~~~~~l~~~L~~~~~~~~~~~~~~~~V~~ieiV~K~slygY~~~~~~~fl 203 (1014)
++|+|||||||||+|||||++|.+ ++.++++++.+.|+..+. ..+.+|++|+|+++|||+++.+.+|+
T Consensus 78 ~~G~sv~v~V~gf~PYFYv~~~~~~~~~~~~~~~~~~~~L~~~~~---------~~v~~ve~v~K~~l~gy~~~~~~~~l 148 (919)
T 3iay_A 78 SEGHSVLCNVTGFKNYLYVPAPNSSDANDQEQINKFVHYLNETFD---------HAIDSIEVVSKQSIWGYSGDTKLPFW 148 (919)
T ss_dssp TTSCEEEEEEESCCCEEEEECCSSGGGGCHHHHHHHHHHHHTTTT---------TCEEEEEEEEEEESSCCSCSCCEEEE
T ss_pred CCCCEEEEEECCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHC---------CCCEEEEEEEEECCCCCCCCCCEEEE
T ss_conf 899989999878388799976786443456679999999987504---------77107999964446457889834799
Q ss_pred EEEECCHHHHHHHHHHHHCC-CCCCCCCCCCCEEEECCCCCCEEEEEECCCCCEEEEEEECCCEECCC--CCCCCCEEEE
Q ss_conf 99982914279999997418-64468887640134215543201244428731049998305121046--4344310245
Q 001780 204 KIVVALPTMVASCRGILDRG-IQLDGLGMKSFMTYESNVLFALRFMIDCNIVGGNWIEVPVGKYRKTA--KTLSYCQLEF 280 (1014)
Q Consensus 204 KI~~~~P~~v~klr~~le~G-~~~~~i~~~~~~~yEsnI~~~lRFmiD~~I~G~~Wi~i~~~~~~~~~--~k~S~C~~E~ 280 (1014)
||++.+|++++++|+.+++| .++++++..++++|| ||+|++|||||++|+||+|++++++++..+. .+.|||++|+
T Consensus 149 KI~~~~p~~v~~~r~~l~~g~~~~~~~~~~~~~~yE-dI~~~~RfliD~~I~g~~W~~i~~~~~~~~~~~~~~S~c~~Ev 227 (919)
T 3iay_A 149 KIYVTYPHMVNKLRTAFERGHLSFNSWFSNGTTTYD-NIAYTLRLMVDCGIVGMSWITLPKGKYSMIEPNNRVSSCQLEV 227 (919)
T ss_dssp EEEESSTTHHHHHHHHHHHSCCCGGGSSTTCCCCBC-CCCHHHHHHHHHTCCTTCEEEECTTSEEECCGGGCCBCCSEEE
T ss_pred EEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCC-CCCHHHHHEEECCCCCCEEEEEECCCCEECCCCCCCCCEEEEE
T ss_conf 999819999999999987066543433556742035-8776766404458865369999557401114667853103899
Q ss_pred EEECCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCCEEEEEECCCCCCCCCCEE
Q ss_conf 52014422479988758899947999999972689999999999635888876215864442458976155677574158
Q 001780 281 DCLYSDIISRHPEGEFSKMAPFRILSFDIECAGRKGHFPEPTHDPVIQVANLVTLQGEKQPFIRNVMTLKSCAPIVGVDV 360 (1014)
Q Consensus 281 ~~~~~~~~~~~~~~~~~~~ppl~ilSfDIE~~~~~g~fP~~~~D~Ii~Is~~v~~~g~~~~~~~~vf~l~~~~~~~~~~V 360 (1014)
+|+++++++++++++|.++||+++|||||||.+++|.||+|++|+|||||++++.+|...++.+.+|++++|+++.+..|
T Consensus 228 ~v~~~~l~~~~~~~~~~~~PplrilSfDIEt~~~~g~fP~~~~D~Ii~IS~~v~~~g~~~~~~r~~f~l~~~~~~~~~~V 307 (919)
T 3iay_A 228 SINYRNLIAHPAEGDWSHTAPLRIMSFDIECAGRIGVFPEPEYDPVIQIANVVSIAGAKKPFIRNVFTLNTCSPITGSMI 307 (919)
T ss_dssp EEETTTCEEECSSGGGSCCCCCEEEEEEEEECCCTTSCCCTTTCCEEEEEEEEEETTCSSCSEEEEEEESCCCCBTTBEE
T ss_pred EEECCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCCEEEEEEECCCCCCCCCEE
T ss_conf 96133334365544456799846999999987789989898878289999998527986432257997258777799869
Q ss_pred EECCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCC----------------------------------------
Q ss_conf 6318799999999999987099889985346788321112----------------------------------------
Q 001780 361 MSFETERDVLLAWRDFIREVDPDVMIGYNICKFDLPYLIE---------------------------------------- 400 (1014)
Q Consensus 361 ~~~~~E~eLL~~f~~~i~~~DPDIIiGyNi~~FDlpyL~~---------------------------------------- 400 (1014)
..|++|++||.+|+++|+++|||||+|||+++||||||++
T Consensus 308 ~~~~sE~eLL~~F~~~i~~~DPDIIvGyNi~~FDlpyL~~Ra~~lgi~~~~~lGR~~~~~~~~~~~~~~~~~~g~~~~~~ 387 (919)
T 3iay_A 308 FSHATEEEMLSNWRNFIIKVDPDVIIGYNTTNFDIPYLLNRAKALKVNDFPYFGRLKTVKQEIKESVFSSKAYGTRETKN 387 (919)
T ss_dssp EEESSHHHHHHHHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHTTCTTCSCCSSBTTCCCCBCCEEEEETTTEEEEECC
T ss_pred EECCCHHHHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCE
T ss_conf 97799999999999998871999999607866789999999998099825652645676655334544533114555523
Q ss_pred -------------------------------------CCCCCCHHHHHHHCCCHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf -------------------------------------3454400378864399122357756310001333878865333
Q 001780 401 -------------------------------------KEDVHHSIISDLQNGNAETRRRLAVYCLKDAYLPQRLLDKLMF 443 (1014)
Q Consensus 401 -------------------------------------kedv~~~~i~~~~~~~~~~~~~l~~Y~lkDa~l~~~L~~kl~~ 443 (1014)
|+|+++++|.++|+++++++.+++.||++||.++++|+.++++
T Consensus 388 ~~i~GR~~lDl~~~~k~~~~l~sysL~~Va~~~Lg~~K~dv~~~~I~~l~~~~~~~~~~L~~Y~~~Da~l~~~L~~kl~~ 467 (919)
T 3iay_A 388 VNIDGRLQLDLLQFIQREYKLRSYTLNAVSAHFLGEQKEDVHYSIISDLQNGDSETRRRLAVYCLKDAYLPLRLMEKLMA 467 (919)
T ss_dssp BCCTTCEEEEHHHHHHHHCCCSCCCHHHHHHHHHCCC------CCHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHTTH
T ss_pred EEECCEEEEEHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 68768499881999975368788999999999656688889989999998509055999999999999999999999733
Q ss_pred HHHHHHHHHHHCCCCCHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEECCCCEEEEEEEEEECCCC
Q ss_conf 57599999981967310204651788999999997655934568776799777687614631367137700476322541
Q 001780 444 IFNYVEMARVTGVPISFLLSRGQSIKVLSQLLRKAKQKNLVIPNVKQAGSEQGTYEGATVLEARAGFYEKPIATLDFASL 523 (1014)
Q Consensus 444 l~~~~e~aritgip~~~~l~rG~q~kv~s~L~r~a~~~~~iiP~~~~~~~~~~~yeGg~VleP~~G~y~~pV~~LDF~SL 523 (1014)
+.++.||||++|+|++++++||||++++|+|+|+|+++||++|++....... +|+||+|+||++|+|++||++|||+||
T Consensus 468 l~~~~elArl~Gi~~~~vl~rG~qi~ves~Llr~a~~~~~ilP~~~~~~~~~-~y~Gg~V~eP~~G~y~~pV~~lDF~SL 546 (919)
T 3iay_A 468 LVNYTEMARVTGVPFSYLLARGQQIKVVSQLFRKCLEIDTVIPNMQSQASDD-QYEGATVIEPIRGYYDVPIATLDFNSL 546 (919)
T ss_dssp HHHHHHHHHHHCCCHHHHHHSCHHHHHHHHHHHHHHHTTEECBCCCCCCCSS-CCCCCCBCCCCCEEECSCEEEEEETTH
T ss_pred HHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHHHHCCEECCCCCCCCCCC-CCCCCEEECCCCCCEECCEEEEEECCC
T ss_conf 6779999887099879964066639999999998740774577864446655-677878854788736565899873320
Q ss_pred CHHHHHHHCCCCCCCCCHHHHHCCCCCCC-CEEECCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf 36789871888445669132200699999-62218998324321776788289999999999999998631699578997
Q 001780 524 YPSIMMAYNLCYSTLVTPEDARKLNLPPE-CVNKTPSGETFVKSNLQKGILPEILEELLAARKRAKADLKEAKDPLEKAV 602 (1014)
Q Consensus 524 YPSIiia~Nlc~tTl~~~~~~~~~~~~~~-~~~~~p~g~~fvk~~~~~Gilp~iL~~Ll~~R~~~K~~mk~~~d~~~~~~ 602 (1014)
|||||++|||||||++++..++++++.++ ++..+|+|.+|+++++++||||++|++|+++|+++|+.||+++||.++++
T Consensus 547 YPSIi~~~Nlc~~Tl~~~~~~~~~~~~~~~~~~~~p~g~~f~~~~~~~gilp~~l~~ll~~R~~~K~~mk~~~d~~~~~~ 626 (919)
T 3iay_A 547 YPSIMMAHNLCYTTLCNKATVERLNLKIDEDYVITPNGDYFVTTKRRRGILPIILDELISARKRAKKDLRDEKDPFKRDV 626 (919)
T ss_dssp HHHHHHHTTCSGGGEECHHHHHHTTCCBTTTEEECTTSCEEECTTTCCCHHHHHHHHHHHHHHHHHHHHHTCCCHHHHHH
T ss_pred CHHHHHHCCCCCCCCCCCCHHHHCCCCCCCCEEECCCCCEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf 34789860748542136410643379987664657998578436777872399999999999999998753678689998
Q ss_pred HHHHHHHCCCCCEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCCEEECCC
Q ss_conf 67875321332000024324555788986778649895599999999999825024688655624787057640288078
Q 001780 603 LDGRQLALKISANSVYGFTGATVGQLPCIEISSSVTSYGRQMIEHTKKLVEDKFTTVGGYEHNAEVIYGDTDSVMVQFGV 682 (1014)
Q Consensus 603 ld~rQ~AlKi~aNS~YG~~G~~~~r~~~~~iA~sIT~~GR~~l~~t~~~ve~~~~~~~g~~~~~~VIYGDTDSvfV~~~~ 682 (1014)
||+||+|+|++|||+|||||+++|||||.++|++||++||++|+.|++++|+.+++.|||.+|++||||||||+||+++.
T Consensus 627 ld~~Q~AlKi~~NS~YG~~G~~~~r~~~~~iA~siT~~GR~~l~~t~~~ie~~~~~~~g~~~~~~ViYGDTDSvfv~~~~ 706 (919)
T 3iay_A 627 LNGRQLALKISANSVYGFTGATVGKLPCLAISSSVTAYGRTMILKTKTAVQEKYCIKNGYKHDAVVVYGDTDSVMVKFGT 706 (919)
T ss_dssp HHHHHHHHHHHHHHHHHHHTCSSSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHSSGGGTCSSCCEEEECBSSEEEEECSC
T ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCEEEEECCC
T ss_conf 89999863410134344135426756798899999999899999999999986310137878849999837706997189
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCEECCCCEEEEEECCCCCCCCCEEEEEEEECCCCHHHHHHHHHHH
Q ss_conf 88999999999999999851788256889565301010243206898425998765136753052047527999999999
Q 001780 683 PTVEAAMKLGREAADYISGTFIKPIKLEFEKVYYPYLLISKKRYAGLYWTNPEKFDKMDTKGIETVRRDNCLLVKNLVTE 762 (1014)
Q Consensus 683 ~~~~ea~~lg~eia~~vs~~~~~pi~Le~Ekvy~~~ll~~KKRYagl~~~~~~~~~k~~~KGie~vRRD~c~l~k~v~~~ 762 (1014)
.+.++++++|++++++||+.|++|++|||||+|.+++|++||||||+.|+++++.+++++||+|+||||||+|+|+++++
T Consensus 707 ~~~~~~~~~g~~~~~~v~~~~~~~i~le~E~vy~~~ll~~KKrYag~~~~~~~~~~~~~~KGie~vRrD~~~~~k~~~~~ 786 (919)
T 3iay_A 707 TDLKEAMDLGTEAAKYVSTLFKHPINLEFEKAYFPYLLINKKRYAGLFWTNPDKFDKLDQKGLASVRRDSCSLVSIVMNK 786 (919)
T ss_dssp SCHHHHHHHHHHHHHHHHTTSCTTCCEEEEEEEEEEEEEETTEEEEEEESSSSSCCEEEEESSGGGCTTSCHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEHHHHHHCCCCEEEEEECCCCCCCEEEEEEEEEEECCCHHHHHHHHHH
T ss_conf 89999999999999999874788879999440165652302626899841688776277776788847706999999999
Q ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEEEEEE
Q ss_conf 99988217993559999999999998199892233576325679332257650899999988835899999999358999
Q 001780 763 CLHKILVDRDIPGAVQYVKSTISDLLMNRMDLSLLVITKGLTKTGDDYEVKAAHVELAERMRKRDAATAPNVGDRVPYVI 842 (1014)
Q Consensus 763 vl~~il~~~d~~~~~~~v~~~i~~l~~~~v~~~~lvi~k~l~k~~~~Y~~~~phv~~A~rl~~rd~g~~p~~GdrI~YVi 842 (1014)
+|+.||.++|++++++|+++.+.+|++|++|+++|+|+|+|+| +|++++|||++|+||++++ |..|+.||||+|||
T Consensus 787 ~l~~ll~~~~~~~~~~~~~~~~~~l~~~~~~~~~lvi~k~l~k---~Y~~~~phv~~A~r~~~~~-~~~~~~G~rI~YVi 862 (919)
T 3iay_A 787 VLKKILIERNVDGALAFVRETINDILHNRVDISKLIISKTLAP---NYTNPQPHAVLAERMKRRE-GVGPNVGDRVDYVI 862 (919)
T ss_dssp HHHHHHTTCCHHHHHHHHHHHHHHHHTTCSCGGGGCEEEECCS---CCSSCCHHHHHHHHHHHHH-SCCCCTTSEEEEEE
T ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHEEEEEECCC---CCCCCCHHHHHHHHHHHHC-CCCCCCCCEEEEEE
T ss_conf 9999974799999999999999999828999899188410155---7798882999999999746-98999999989999
Q ss_pred EECCCCCCCCCCCCCHHHHHCCCCCCCHHHHHHHCCHHHHHHHHCCCCCC-CHHHHHC
Q ss_conf 95599975433447815330169886746877410315688864003665-2453502
Q 001780 843 IKAAKGAKAYERSEDPIYVLENNIPIDTHYYLENQISKPLLRIFEPILKN-ASKELLS 899 (1014)
Q Consensus 843 ~~~~~~~~~~~rae~p~~~~~~~~~iD~~yYi~~qi~~pl~ri~~~i~g~-~~~~l~~ 899 (1014)
+ | +|.++++||++|.|+++++++||++|||+|||+|||.|||+||+|+ ++++|+.
T Consensus 863 ~-g-~~~~~~~ra~~p~~~~~~~~~iD~~yYi~~qi~ppl~Ri~~~i~g~~~~~~~~~ 918 (919)
T 3iay_A 863 I-G-GNDKLYNRAEDPLFVLENNIQVDSRYYLTNQLQNPIISIVAPIIGDKQANGMFV 918 (919)
T ss_dssp B-C-SSSCGGGCEECHHHHHHTTCCBCHHHHHHHTTHHHHHHHHHHHHCHHHHHHHTC
T ss_pred E-C-CCCCHHHHCCCHHHHHCCCCCCCHHHHHHHCCHHHHHHHHHHHCCCCCHHHHHC
T ss_conf 8-8-997445313688887435988777999883468799999887549964465404
No 2
>2gv9_A DNA polymerase; polymerase alpha fold, transferase; HET: DNA; 2.68A {Human herpesvirus 1} PDB: 1dml_B*
Probab=1.00 E-value=1 Score=1351.14 Aligned_cols=791 Identities=28% Similarity=0.492 Sum_probs=679.3
Q ss_pred CCCEEEEEEEEEEEEECCCC--------CCCCCCCCCCCEEEEEEEEECCCCEEEEEEECCCEEEEEECCCC---CCCCC
Q ss_conf 87715999995786404786--------56676555893099999872599589999817342999945999---99784
Q 001780 87 QCQSIMFQQLDIDYVIGDSN--------RELLPLSSGSAAIIRIFGVTREGHSVCCKVHGFEPYFYISCPQG---MGPDD 155 (1014)
Q Consensus 87 ~~~~l~Fq~lD~d~~~~~~~--------~~~~~~~~~~~~vIrLFGvTe~G~SV~v~V~gF~PYFYV~~p~~---~~~~~ 155 (1014)
....+.||.+|+-++++.++ ..+.....+.+++|+|||+|++|+||||+|+||+|||||+++.+ +..++
T Consensus 99 ~~~~~~fh~yd~~~~~~~~~~~~~~~~~~~f~~~i~p~g~vi~l~g~t~~G~sv~v~v~~f~pYFYv~~~~~~~~~~~~~ 178 (1193)
T 2gv9_A 99 NPTVTVFHVYDILENVEHAYGMRAAQFHARFMDAITPTGTVITLLGLTPEGHRVAVHVYGTRQYFYMNKEEVDRHLQCRA 178 (1193)
T ss_dssp CCCCSEEEEEEEEEEEECTGGGTTSCCCHHHHHHTSSCEEEEEEEEECSSCCEEEEEEECCCEEEEEEHHHHHHTTCCCS
T ss_pred CCCCCEEEEEEEEEEEEECCCCCCCCCCHHHHHCCCCCCCEEEEEEECCCCCEEEEEECCCCEEEEEECCCCCCCCCCCC
T ss_conf 88752588777789997225444555798885064789878999998389997999987877499997787421013321
Q ss_pred HHHHHHHHHHHHHHHC--CCCCCCCCEEEEEEEEECCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 8899999999985300--28999951589999862023343579811099999829142799999974186446888764
Q 001780 156 ISHFHQILEGRMREAN--RNSKVPQFVRHIEMVQKRSIMYYQQQKSQPFLKIVVALPTMVASCRGILDRGIQLDGLGMKS 233 (1014)
Q Consensus 156 ~~~l~~~L~~~~~~~~--~~~~~~~~V~~ieiV~K~slygY~~~~~~~flKI~~~~P~~v~klr~~le~G~~~~~i~~~~ 233 (1014)
+.++.+.|+..+.... .++.....+.++++|.|+++|+|+ +.+.+|+||++.+|+.++++|+.+.. +
T Consensus 179 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~ve~V~k~~l~~~~-~~~~~~~ki~~~~p~~v~~lr~~~~~----------~ 247 (1193)
T 2gv9_A 179 PRDLCERMAAALRESPGASFRGISADHFEAEVVERTDVYYYE-TRPALFYRVYVRSGRVLSYLCDNFCP----------A 247 (1193)
T ss_dssp HHHHHHHHHHHHHHSSSCCTTCCCGGGCEEEEEEEEESSCSS-CCCEEEEEEEESCHHHHHHHHHHTCS----------S
T ss_pred HHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEEEECCCCC-CCCCEEEEEECCCHHHHHHHHHHCCC----------C
T ss_conf 789999999999752034445656675048999976035567-77642899960189999999860457----------7
Q ss_pred CEEEECCCCCCEEEEEEC-CCCCEEEEEEECC----CEECCC--CCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCEEEE
Q ss_conf 013421554320124442-8731049998305----121046--434431024552014422479988758899947999
Q 001780 234 FMTYESNVLFALRFMIDC-NIVGGNWIEVPVG----KYRKTA--KTLSYCQLEFDCLYSDIISRHPEGEFSKMAPFRILS 306 (1014)
Q Consensus 234 ~~~yEsnI~~~lRFmiD~-~I~G~~Wi~i~~~----~~~~~~--~k~S~C~~E~~~~~~~~~~~~~~~~~~~~ppl~ilS 306 (1014)
+.+||+||+|++|||||+ +|.||+|++++.+ .+.++. .+.|||++|+.|.++++++++.+.+| |||++||
T Consensus 248 ~~~~E~dI~~~~RfliD~~~i~~~~W~~i~~~~~g~~~~~r~~~~~~s~c~~E~~~~~~~~~~~~~~~~~---P~lrvls 324 (1193)
T 2gv9_A 248 IKKYEGGVDATTRFILDNPGFVTFGWYRLKPGRNNTLAQPRAPMAFGTSSDVEFNCTADNLAIEGGMSDL---PAYKLMC 324 (1193)
T ss_dssp SCEESTTCCHHHHHHHHSTTCCSSEEEEECCBTTTBCCEECCGGGCSBSCSEEEEEEGGGEEECCSCCCC---CCCEEEE
T ss_pred CEEEECCCCHHHEEEEECCCCCCCCEEEEECCCCCCEEEECCCCCCCCCCCEEEEEECCCCEECCCCCCC---CCCEEEE
T ss_conf 4377536752515767748988753399722566640122043245777755899974653674665789---9855999
Q ss_pred EEEEECCCC---CCCCCCC--CCCEEEEEEEEECCCCCCCCEEEEEECCCCCCC------------CCCEEEECCCHHHH
Q ss_conf 999972689---9999999--996358888762158644424589761556775------------74158631879999
Q 001780 307 FDIECAGRK---GHFPEPT--HDPVIQVANLVTLQGEKQPFIRNVMTLKSCAPI------------VGVDVMSFETERDV 369 (1014)
Q Consensus 307 fDIE~~~~~---g~fP~~~--~D~Ii~Is~~v~~~g~~~~~~~~vf~l~~~~~~------------~~~~V~~~~~E~eL 369 (1014)
|||||.+.+ +.||+|+ .|+|||||+++...+........+|++++|+.+ .+..|..|++|++|
T Consensus 325 fDIE~~~~g~~~~~FP~a~~~~D~Ii~IS~~~~~~~~~~~~~~~v~~l~~~~~~~~f~~~~k~~~~~~~~V~~~~sE~eL 404 (1193)
T 2gv9_A 325 FDIECKAGGEDELAFPVAGHPEDLVIQISCLLYDLSTTALEHVLLFSLGSCDLPESHLNELAARGLPTPVVLEFDSEFEM 404 (1193)
T ss_dssp EEEEEECCSSCTTSCCCTTSTTSEEEEEEEEEEETTTCCEEEEEEEEESCCCCCHHHHHHHHHTTCCCCEEEEESSHHHH
T ss_pred EEEEECCCCCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCEEEEEECCCCCCCCHHHHHCCCCCCCCCEEEECCCHHHH
T ss_conf 99897356777778998655678558898899742677764699997798678503332011136788559965999999
Q ss_pred HHHHHHHHHHHCCCEEEEECCCCCCCCCCCC-------------------------------------------------
Q ss_conf 9999999987099889985346788321112-------------------------------------------------
Q 001780 370 LLAWRDFIREVDPDVMIGYNICKFDLPYLIE------------------------------------------------- 400 (1014)
Q Consensus 370 L~~f~~~i~~~DPDIIiGyNi~~FDlpyL~~------------------------------------------------- 400 (1014)
|.+|+++|+++|||||+|||+++||||||++
T Consensus 405 L~~F~~~I~~~DPDIIvGyNi~~FDlpyL~~Ra~~~~gl~l~~~GRl~r~~~~k~~~~~~~~f~~~~~~~i~GRv~lDl~ 484 (1193)
T 2gv9_A 405 LLAFMTLVKQYGPEFVTGYNIINFDWPFLLAKLTDIYKVPLDGYGRMNGRGVFRVWDIGQSHFQKRSKIKVNGMVNIDMY 484 (1193)
T ss_dssp HHHHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHTTCCCCTTTSSBSSSCCEEECC----------CEEETTBEEEEHH
T ss_pred HHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHCCCCHHHHCCCCCCCCCEEECCCCCCCCCCCEEEECCEEEEHHH
T ss_conf 99999998852998999748867628999999999739885772633567751044266655466633887175762699
Q ss_pred -------------------------CCCCCCHHHHHHHCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf -------------------------3454400378864399122357756310001333878865333575999999819
Q 001780 401 -------------------------KEDVHHSIISDLQNGNAETRRRLAVYCLKDAYLPQRLLDKLMFIFNYVEMARVTG 455 (1014)
Q Consensus 401 -------------------------kedv~~~~i~~~~~~~~~~~~~l~~Y~lkDa~l~~~L~~kl~~l~~~~e~aritg 455 (1014)
|+|+++++|.++|.++++.+.+++.||++|+.++++|+.+++.+..+++||+++|
T Consensus 485 ~~~~~~~kl~sYsL~~Va~~~Lg~~K~dv~~~eI~~~~~~~~~~r~~L~~Ycl~Da~lt~~L~~kl~~~lel~elarl~g 564 (1193)
T 2gv9_A 485 GIITDKIKLSSYKLNAVAEAVLKDKKKDLSYRDIPAYYATGPAQRGVIGEYCIQDSLLVGQLFFKFLPHLELSAVARLAG 564 (1193)
T ss_dssp HHHTTTCCCSCCCHHHHHHHTSCCCCCCCCTTTHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHT
T ss_pred HHHHHHHCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 99998735688898999999836687889999999999729746899999978999999999999999998999999819
Q ss_pred CCCCHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCC-------------------------------------------
Q ss_conf 6731020465178899999999765593456877679-------------------------------------------
Q 001780 456 VPISFLLSRGQSIKVLSQLLRKAKQKNLVIPNVKQAG------------------------------------------- 492 (1014)
Q Consensus 456 ip~~~~l~rG~q~kv~s~L~r~a~~~~~iiP~~~~~~------------------------------------------- 492 (1014)
+++++++++|||++++++|+++|+++|+++|++....
T Consensus 565 i~~~~vl~~G~~irves~Ll~~a~~~~~ilP~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 644 (1193)
T 2gv9_A 565 INITRTIYDGQQIRVFTCLLRLADQKGFILPDTQGRFRGAGGEAPKRPAAAREDEERPEEEGEDEDEREEGGGEREPEGA 644 (1193)
T ss_dssp SCGGGTTSSCSTHHHHHHHHHHHHHHTEECBCCC----------------------------------------------
T ss_pred CCHHHHHCCCCHHHHHHHHHHHHHHCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
T ss_conf 88899740763899999999999979980787664322233333344322344443322246431011344444562012
Q ss_pred ----CCCCCCCCCEEEECCCCEEEEEEEEEECCCCCHHHHHHHCCCCCCCCCHHH-HHCCCCCCCCEEE-CCCC--CEEE
Q ss_conf ----977768761463136713770047632254136789871888445669132-2006999996221-8998--3243
Q 001780 493 ----SEQGTYEGATVLEARAGFYEKPIATLDFASLYPSIMMAYNLCYSTLVTPED-ARKLNLPPECVNK-TPSG--ETFV 564 (1014)
Q Consensus 493 ----~~~~~yeGg~VleP~~G~y~~pV~~LDF~SLYPSIiia~Nlc~tTl~~~~~-~~~~~~~~~~~~~-~p~g--~~fv 564 (1014)
....+|+||+|+||++|+|++||++|||+||||||||+|||||||++.... +..+. ++++|.. .++| .+|+
T Consensus 645 ~~~~~~~~~Y~Gg~VleP~~Gly~~pV~vLDF~SLYPSII~a~Nlc~sTl~~~~~~~~~l~-~~~dy~~~~~~~~~~~fv 723 (1193)
T 2gv9_A 645 RETAGRHVGYQGAKVLDPTSGFHVNPVVVFDFASLYPSIIQAHNLCFSTLSLRADAVAHLE-AGKDYLEIEVGGRRLFFV 723 (1193)
T ss_dssp --------------CCCCCCEEECSCEEEEEEETHHHHHHHHTTCCTTTEESCSTTSTTCC-TTTTEEEEECSSSEEEEE
T ss_pred HHCCCCCCCCCCCEEEECCCCEEECCEEEEECCCCCHHHHHHHCCCCCEECCCCHHHCCCC-CCCCEEEECCCCCCEEEC
T ss_conf 1001323455787786057880667589886123141899973578521335710100478-755536755799821311
Q ss_pred ECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 21776788289999999999999998631699578997678753213320000243245557889867786498955999
Q 001780 565 KSNLQKGILPEILEELLAARKRAKADLKEAKDPLEKAVLDGRQLALKISANSVYGFTGATVGQLPCIEISSSVTSYGRQM 644 (1014)
Q Consensus 565 k~~~~~Gilp~iL~~Ll~~R~~~K~~mk~~~d~~~~~~ld~rQ~AlKi~aNS~YG~~G~~~~r~~~~~iA~sIT~~GR~~ 644 (1014)
++++++|+||++|++|+++|+++|+.||++ ++.++.+||++|+|+|++|||+|||+|+++|||||.++|++||++||+|
T Consensus 724 k~~~~~gilp~lL~~ll~~Rk~~K~~mk~~-~~~~~~llD~~QlAlKi~aNS~YG~~G~~~grlpc~~iA~sVT~~GR~~ 802 (1193)
T 2gv9_A 724 KAHVRESLLSILLRDWLAMRKQIRSRIPQS-SPEEAVLLDKQQAAIKVVCNSVYGFTGVQHGLLPCLHVAATVTTIGREM 802 (1193)
T ss_dssp CTTTSCCHHHHHHHHHHHHHHHHHHHGGGS-CHHHHHHHHHHHHHHHHHHHHHHHHHHCTTSSSCCHHHHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHHHHHCCEECCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf 576656468999999999999999766238-9889999999999988754221133644054356878899999998999
Q ss_pred HHHHHHHHHHHCCC--------------CCCCCCCCEEEEECCCCCEEECCCCCHHHHHHHHHHHHHHHHHC-CCCCEEE
Q ss_conf 99999999825024--------------68865562478705764028807888999999999999999851-7882568
Q 001780 645 IEHTKKLVEDKFTT--------------VGGYEHNAEVIYGDTDSVMVQFGVPTVEAAMKLGREAADYISGT-FIKPIKL 709 (1014)
Q Consensus 645 l~~t~~~ve~~~~~--------------~~g~~~~~~VIYGDTDSvfV~~~~~~~~ea~~lg~eia~~vs~~-~~~pi~L 709 (1014)
|+.|+++||+.|.. .++..+|++|||||||||||++++.+.++++++|++++++||+. |+.|++|
T Consensus 803 L~~tk~~IE~~~~~~~~l~~~f~~~~~~~~~~~~g~~VIYGDTDSvfV~~~~~~~~~~~~~g~~i~~~i~~~~~~~~i~L 882 (1193)
T 2gv9_A 803 LLATREYVHARWAAFEQLLADFPEAADMRAPGPYSMRIIYGDTDSIFVLCRGLTAAGLTAMGDKMASHISRALFLPPIKL 882 (1193)
T ss_dssp HHHHHHHHHHHHSSHHHHHHHCGGGGGGBCSSCCEEEEEEECSSEEEEEEETBCSTTHHHHHHHHHHHHHHHHCCTTCEE
T ss_pred HHHHHHHHHHHHCCHHHHHHHCCCCCCCCCCCCCCCCEEECCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCEEE
T ss_conf 99999999865100234444212211234552311110340677327864899989999999999999997516777899
Q ss_pred EEEEEECCCEECCCCEEEEEECCCCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCHHHHHH-----------
Q ss_conf 895653010102432068984259987651367530520475279999999999998821799355999-----------
Q 001780 710 EFEKVYYPYLLISKKRYAGLYWTNPEKFDKMDTKGIETVRRDNCLLVKNLVTECLHKILVDRDIPGAVQ----------- 778 (1014)
Q Consensus 710 e~Ekvy~~~ll~~KKRYagl~~~~~~~~~k~~~KGie~vRRD~c~l~k~v~~~vl~~il~~~d~~~~~~----------- 778 (1014)
||||+|.+++|++||||||+.++ +++++||+|+||||||+|+|++++++|+.||.++|++++.+
T Consensus 883 E~Ekvy~~~ll~~KKRYag~~~~-----g~l~~KG~e~vRRD~~~lvk~~~~~vl~~ll~~~d~~~a~~~v~~~~~~e~~ 957 (1193)
T 2gv9_A 883 ECEKTFTKLLLIAKKKYIGVIYG-----GKMLIKGVDLVRKNNCAFINRTSRALVDLLFYDDTVSGAAAALAERPAEEWL 957 (1193)
T ss_dssp EEEEEEEEEEEEETTEEEEEETT-----SCEEEESCCSCCTTSCHHHHHHHHHHHHHHHHCHHHHHHHHHGGGSCHHHHH
T ss_pred EECEEEHHHHHHCCCEEEEEECC-----CEEEEECCEEECCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCHHHHH
T ss_conf 96614187753304649999659-----8768888731058567999999999999997699989999987630113332
Q ss_pred -------------HHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCC-CHHHHHHHHHHHHCCCCCCCCCCEEEEEEEE
Q ss_conf -------------99999999981998922335763256793322576-5089999998883589999999935899995
Q 001780 779 -------------YVKSTISDLLMNRMDLSLLVITKGLTKTGDDYEVK-AAHVELAERMRKRDAATAPNVGDRVPYVIIK 844 (1014)
Q Consensus 779 -------------~v~~~i~~l~~~~v~~~~lvi~k~l~k~~~~Y~~~-~phv~~A~rl~~rd~g~~p~~GdrI~YVi~~ 844 (1014)
++.+.+.+|++|++++++|+|+|+|+|.+++|+++ +|||++|+||++++ |..|+.||||+|||++
T Consensus 958 ~~~~~~~~~~i~~~l~~~~~~l~~~~v~i~~lvitk~LsK~~~~Y~~~~~phv~vA~rl~~~~-~~~p~~GdrI~YVI~~ 1036 (1193)
T 2gv9_A 958 ARPLPEGLQAFGAVLVDAHRRITDPERDIQDFVLTAELSRHPRAYTNKRLAHLTVYYKLMARR-AQVPSIKDRIPYVIVA 1036 (1193)
T ss_dssp HSCCCGGGHHHHHHHHHHHHHHHSSCSCCGGGCBCC--------------------------------CCTTTSCBEEBC
T ss_pred HCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCHHHHCCCCCCHHHHHHHHHHHC-CCCCCCCCEEEEEEEE
T ss_conf 013146788999999999999874998899987776528885674225772899999999855-8889999989999997
Q ss_pred CCC--------------------CC----------------------------------CCCCCCCCHHHHHCCCCCCCH
Q ss_conf 599--------------------97----------------------------------543344781533016988674
Q 001780 845 AAK--------------------GA----------------------------------KAYERSEDPIYVLENNIPIDT 870 (1014)
Q Consensus 845 ~~~--------------------~~----------------------------------~~~~rae~p~~~~~~~~~iD~ 870 (1014)
+++ |+ ..+++||||.|+++|+++||+
T Consensus 1037 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aedp~yv~~~~~~i~~ 1116 (1193)
T 2gv9_A 1037 QTREVEETVARLAALRELDAAAPGDEPAPPAALPSPAKRPRETPSHADPPGGASKPRKLLVSELAEDPAYAIAHGVALNT 1116 (1193)
T ss_dssp C--------------------------------------------------------CCCSSCCEECHHHHHHTTCCBCH
T ss_pred CCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHHCCCCCCH
T ss_conf 99776410010123210112356875444334555445655443334553222334410323222581888646986557
Q ss_pred HHHHHHCCHHHHHHHHCCCCCCC---HHHHHCC
Q ss_conf 68774103156888640036652---4535029
Q 001780 871 HYYLENQISKPLLRIFEPILKNA---SKELLSG 900 (1014)
Q Consensus 871 ~yYi~~qi~~pl~ri~~~i~g~~---~~~l~~g 900 (1014)
+||++| +++|+.|+|+|++|++ .+.++..
T Consensus 1117 ~yY~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~ 1148 (1193)
T 2gv9_A 1117 DYYFSH-LLGAACVTFKALFGNNAKITESLLKR 1148 (1193)
T ss_dssp HHHHHH-HHHHHHHHSGGGGTTCHHHHHHHHHT
T ss_pred HHHHHH-HHHHHHHHHHHHCCCCHHHHHHHHHC
T ss_conf 999987-63078889998617641678998630
No 3
>1qht_A Protein (DNA polymerase); archaea, hyperthermostable, family B polymer alpha family polymerase, transferase; 2.10A {Thermococcus SP} SCOP: c.55.3.5 e.8.1.1 PDB: 1tgo_A 2xhb_A* 2vwj_A* 2vwk_A* 1wns_A* 1wn7_A 1qqc_A* 4ahc_A* 4ail_C* 3a2f_A* 2jgu_A* 1d5a_A
Probab=1.00 E-value=1 Score=1184.26 Aligned_cols=700 Identities=28% Similarity=0.407 Sum_probs=599.5
Q ss_pred EEEEEEEEECCCCCCCCCCCCCCCEEEEEEEEECCCCEEEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 99957864047865667655589309999987259958999981734299994599999784889999999998530028
Q 001780 94 QQLDIDYVIGDSNRELLPLSSGSAAIIRIFGVTREGHSVCCKVHGFEPYFYISCPQGMGPDDISHFHQILEGRMREANRN 173 (1014)
Q Consensus 94 q~lD~d~~~~~~~~~~~~~~~~~~~vIrLFGvTe~G~SV~v~V~gF~PYFYV~~p~~~~~~~~~~l~~~L~~~~~~~~~~ 173 (1014)
++||+||+ ...+ .|+|++||++ +|++++++|+||+||||+.+|+++..+ .+....... .
T Consensus 1 ~ll~~~y~----------~~~~-~~~i~~~~~~-~g~~~~~~~~~f~PYfyv~~~~~~~~~-------~~~~~~~~~--~ 59 (775)
T 1qht_A 1 MILDTDYI----------TENG-KPVIRVFKKE-NGEFKIEYDRTFEPYFYALLKDDSAIE-------DVKKVTAKR--H 59 (775)
T ss_dssp CEEEEEEE----------EETT-EEEEEEEEEE-TTEEEEEEECCCCCEEEEEESCGGGHH-------HHTTCEEEE--T
T ss_pred CEEEEEEE----------CCCC-CEEEEEEEEE-CCEEEEEEECCCCEEEEEECCCCCCHH-------HHHHHHHHH--C
T ss_conf 95999996----------3699-8799999820-998999997798359999789975689-------999999872--5
Q ss_pred CCCCCCEEEEEEEEECCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCEEEEEECCC
Q ss_conf 99995158999986202334357981109999982914279999997418644688876401342155432012444287
Q 001780 174 SKVPQFVRHIEMVQKRSIMYYQQQKSQPFLKIVVALPTMVASCRGILDRGIQLDGLGMKSFMTYESNVLFALRFMIDCNI 253 (1014)
Q Consensus 174 ~~~~~~V~~ieiV~K~slygY~~~~~~~flKI~~~~P~~v~klr~~le~G~~~~~i~~~~~~~yEsnI~~~lRFmiD~~I 253 (1014)
+.....+..++ |+|+ ++| .+.+|+||++.+|..++++|+.+++. ++ ...+||+||+|+.|||+|++|
T Consensus 60 ~~~~~~~~~~~-v~k~-~~g----~~~~~~ki~~~~~~~~~~~r~~l~~~---~~----~~~~~E~dI~~~~r~lid~~i 126 (775)
T 1qht_A 60 GTVVKVKRAEK-VQKK-FLG----RPIEVWKLYFNHPQDVPAIRDRIRAH---PA----VVDIYEYDIPFAKRYLIDKGL 126 (775)
T ss_dssp TEEEECCEEEE-EEEE-ETT----EEEEEEEEECSCTTHHHHHHHHHHTS---TT----EEEEESCSSCHHHHHHHHTTC
T ss_pred CCCCCEEEEEE-EEEE-ECC----CCCEEEEEEECCHHHHHHHHHHHHHC---CC----CEEEEECCCCHHHEEEEECCC
T ss_conf 78754178999-9755-648----88359999986999999999999748---98----401574367747514577584
Q ss_pred CCEEEEEEECCCEECCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEEE
Q ss_conf 31049998305121046434431024552014422479988758899947999999972689999999999635888876
Q 001780 254 VGGNWIEVPVGKYRKTAKTLSYCQLEFDCLYSDIISRHPEGEFSKMAPFRILSFDIECAGRKGHFPEPTHDPVIQVANLV 333 (1014)
Q Consensus 254 ~G~~Wi~i~~~~~~~~~~k~S~C~~E~~~~~~~~~~~~~~~~~~~~ppl~ilSfDIE~~~~~g~fP~~~~D~Ii~Is~~v 333 (1014)
.++.| .|+++++||||||.+. .||+|..|+|+|||+..
T Consensus 127 ~~~~~----------------------------------------~~~l~ilsfDIEt~~~--~~p~~~~d~Ii~Is~~~ 164 (775)
T 1qht_A 127 IPMEG----------------------------------------DEELTMLAFAIATLYH--EGEEFGTGPILMISYAD 164 (775)
T ss_dssp CTTCS----------------------------------------CCCCCEEEEEEEECCC--TTCCTTCSCEEEEEEEC
T ss_pred CCCCC----------------------------------------CCCCEEEEEEEEECCC--CCCCCCCCCEEEEEEEE
T ss_conf 55688----------------------------------------8886799999998679--99987778189999984
Q ss_pred ECCCCCCCCEEEEEECCCCCCCCCCEEEECCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCC-------------
Q ss_conf 2158644424589761556775741586318799999999999987099889985346788321112-------------
Q 001780 334 TLQGEKQPFIRNVMTLKSCAPIVGVDVMSFETERDVLLAWRDFIREVDPDVMIGYNICKFDLPYLIE------------- 400 (1014)
Q Consensus 334 ~~~g~~~~~~~~vf~l~~~~~~~~~~V~~~~~E~eLL~~f~~~i~~~DPDIIiGyNi~~FDlpyL~~------------- 400 (1014)
.. + ..+++ |.++.+..|..+++|++||.+|+++++++|||||+|||+++||||||.+
T Consensus 165 ~~-~------~~~~t---~~~i~~~~v~~~~~E~~LL~~f~~~i~~~dPDiivGyN~~~FDlpyL~~Ra~~~gi~~~lgR 234 (775)
T 1qht_A 165 GS-E------ARVIT---WKKIDLPYVDVVSTEKEMIKRFLRVVREKDPDVLITYNGDNFDFAYLKKRCEELGIKFTLGR 234 (775)
T ss_dssp SS-C------EEEEE---SSCCCCSSEEECSCHHHHHHHHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHTTCCCCCST
T ss_pred CC-C------CEEEE---ECCCCCCCEEECCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHCCCCCCCCC
T ss_conf 69-9------74675---12556665387599999999999999863999999967887638999999998099930156
Q ss_pred ----------------------------------------------------CCCCCCHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf ----------------------------------------------------3454400378864399122357756310
Q 001780 401 ----------------------------------------------------KEDVHHSIISDLQNGNAETRRRLAVYCL 428 (1014)
Q Consensus 401 ----------------------------------------------------kedv~~~~i~~~~~~~~~~~~~l~~Y~l 428 (1014)
|+++++++|.++|.+++ .+.+++.||+
T Consensus 235 ~~~~~~~~~~g~~~~~~i~Gr~~lDl~~~~k~~~~l~sysL~~Va~~~Lg~~K~dv~~~~i~~~~~~~~-~l~~l~~Y~~ 313 (775)
T 1qht_A 235 DGSEPKIQRMGDRFAVEVKGRIHFDLYPVIRRTINLPTYTLEAVYEAVFGKPKEKVYAEEIAQAWESGE-GLERVARYSM 313 (775)
T ss_dssp TSCCCEEEEETTEEEEECTTSEEEEHHHHHHHHSCCSCCCHHHHHHHHHCCCCCCCCHHHHHHHHTTTC-SHHHHHHHHH
T ss_pred CCCCCCEEECCCEEEEEECCEEEEEHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHCCC-CHHHHHHHHH
T ss_conf 777673410584356776674998789999875576768899999998399977659999999986593-1889999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCC---CCCCCCCCEEEE
Q ss_conf 00133387886533357599999981967310204651788999999997655934568776799---777687614631
Q 001780 429 KDAYLPQRLLDKLMFIFNYVEMARVTGVPISFLLSRGQSIKVLSQLLRKAKQKNLVIPNVKQAGS---EQGTYEGATVLE 505 (1014)
Q Consensus 429 kDa~l~~~L~~kl~~l~~~~e~aritgip~~~~l~rG~q~kv~s~L~r~a~~~~~iiP~~~~~~~---~~~~yeGg~Vle 505 (1014)
+|+.++++|+.+++ +...|+|+++|+|+..++.+|++.+++++|+++|+++|+++|++..... ...+|+||+|+|
T Consensus 314 ~Da~lt~~L~~~~~--~~~~~la~i~g~~~~~v~r~~~~~~ve~~Ll~~~~~~~~i~P~~~~~~~~~~~~~~y~Gg~V~e 391 (775)
T 1qht_A 314 EDAKVTYELGREFF--PMEAQLSRLIGQSLWDVSRSSTGNLVEWFLLRKAYKRNELAPNKPDERELARRRGGYAGGYVKE 391 (775)
T ss_dssp HHHHHHHHHHHHHH--HHHHHHHHHHTSCHHHHTTCCHHHHHHHHHHHHHHHTTBCCCCCCCHHHHHHTTTCCCCCCBCC
T ss_pred HHHHHHHHHHHHHH--HHHHHHHHHHCCCCHHCEECCCHHHHHHHHHHHHHHCCEECCCCCCHHHHHCCCCCCCCCEEEC
T ss_conf 99999999987431--8999999986898044043242899999976889759883777874344304444567855751
Q ss_pred CCCCEEEEEEEEEECCCCCHHHHHHHCCCCCCCCCHHHHHCCCCCCCCEEECC-CCCEEEECCCCCCCCHHHHHHHHHHH
Q ss_conf 36713770047632254136789871888445669132200699999622189-98324321776788289999999999
Q 001780 506 ARAGFYEKPIATLDFASLYPSIMMAYNLCYSTLVTPEDARKLNLPPECVNKTP-SGETFVKSNLQKGILPEILEELLAAR 584 (1014)
Q Consensus 506 P~~G~y~~pV~~LDF~SLYPSIiia~Nlc~tTl~~~~~~~~~~~~~~~~~~~p-~g~~fvk~~~~~Gilp~iL~~Ll~~R 584 (1014)
|++|+|++ |++|||+|||||||++|||||||+++... +++...| .|..|++ .++|++|++|++|+++|
T Consensus 392 P~~G~y~~-v~~lDF~SLYPSIi~~~nl~~~t~~~~~~--------~~~~~~~~~~~~f~~--~~~g~lp~~l~~l~~~R 460 (775)
T 1qht_A 392 PERGLWDN-IVYLDFRSLYPSIIITHNVSPDTLNREGC--------KEYDVAPEVGHKFCK--DFPGFIPSLLGDLLEER 460 (775)
T ss_dssp CCCSCEEE-EEEEECSSHHHHHHHHTTCSTTTBTCTTC--------SCEEECTTTCCEEEC--SSCCHHHHHHHHHHHHH
T ss_pred CCCCCCCC-EEECCHHCCCHHHHHHCCCCCCCCCCCCC--------CCCCCCCCCCCCCCC--CCCCCCHHHHHHHHHHH
T ss_conf 66784334-25412201317899860899510345652--------125568866741225--56887649999999999
Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 99999863169957899767875321332000024324555788986778649895599999999999825024688655
Q 001780 585 KRAKADLKEAKDPLEKAVLDGRQLALKISANSVYGFTGATVGQLPCIEISSSVTSYGRQMIEHTKKLVEDKFTTVGGYEH 664 (1014)
Q Consensus 585 ~~~K~~mk~~~d~~~~~~ld~rQ~AlKi~aNS~YG~~G~~~~r~~~~~iA~sIT~~GR~~l~~t~~~ve~~~~~~~g~~~ 664 (1014)
+++|+.||+++|+.++.+||++|+|+|++|||+|||+|+++|||||.++|++||++||++|+.|++.+++.+
T Consensus 461 ~~~K~~~k~~~~~~~~~~~d~~Q~A~Ki~~NS~YG~~g~~~~r~~~~~~A~~vT~~Gr~~i~~~~~~i~~~~-------- 532 (775)
T 1qht_A 461 QKIKRKMKATVDPLEKKLLDYRQRAIKILANSFYGYYGYAKARWYCKECAESVTAWGREYIEMVIRELEEKF-------- 532 (775)
T ss_dssp HHHHHHHHTCCCHHHHHHHHHHHHHHHHHHTTHHHHHHCTTCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHH--------
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--------
T ss_conf 999998632899799999999987542521023031444466767888999989999999999999999863--------
Q ss_pred CCEEEEECCCCCEEECCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCEECCCCEEEEEECCCCCCCCCEEEEE
Q ss_conf 62478705764028807888999999999999999851788256889565301010243206898425998765136753
Q 001780 665 NAEVIYGDTDSVMVQFGVPTVEAAMKLGREAADYISGTFIKPIKLEFEKVYYPYLLISKKRYAGLYWTNPEKFDKMDTKG 744 (1014)
Q Consensus 665 ~~~VIYGDTDSvfV~~~~~~~~ea~~lg~eia~~vs~~~~~pi~Le~Ekvy~~~ll~~KKRYagl~~~~~~~~~k~~~KG 744 (1014)
|++||||||||+||++++.+.++++++|++++++||+.++.|++||||++|.+++|++||||||+. ..+++++||
T Consensus 533 g~~ViygDTDSi~v~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~le~e~~y~~~~l~~KKrYa~~~-----~~g~l~~KG 607 (775)
T 1qht_A 533 GFKVLYADTDGLHATIPGADAETVKKKAKEFLKYINPKLPGLLELEYEGFYVRGFFVTKKKYAVID-----EEGKITTRG 607 (775)
T ss_dssp CCEEEEEETTEEEEECTTCCHHHHHHHHHHHHHHHC------CCCEEEEEEEEEEEEETTEEEEEC-----TTCCCEEES
T ss_pred CCEEEEEECCCEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEEEHEECCCCEEEEEC-----CCCEEEEEE
T ss_conf 976899605532787589999999999999999987608988699984875001000557699982-----698698885
Q ss_pred EEECCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 05204752799999999999988217993559999999999998199892233576325679332257650899999988
Q 001780 745 IETVRRDNCLLVKNLVTECLHKILVDRDIPGAVQYVKSTISDLLMNRMDLSLLVITKGLTKTGDDYEVKAAHVELAERMR 824 (1014)
Q Consensus 745 ie~vRRD~c~l~k~v~~~vl~~il~~~d~~~~~~~v~~~i~~l~~~~v~~~~lvi~k~l~k~~~~Y~~~~phv~~A~rl~ 824 (1014)
+|+||||||+|+|++++++|+.||.++|++++++++++.+.+|++|++|+++|+|+|+|+|.+++|++.+|||++|+||+
T Consensus 608 ~e~vRrd~~~l~k~~~~~vl~~ll~~~d~~~~~~~v~~~~~~l~~~~~~~~~lvi~k~lsk~~~~Y~~~~phv~~A~rl~ 687 (775)
T 1qht_A 608 LEIVRRDWSEIAKETQARVLEAILKHGDVEEAVRIVKEVTEKLSKYEVPPEKLVIHEQITRDLRDYKATGPHVAVAKRLA 687 (775)
T ss_dssp CSCCCSCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHTC------------CCBCCBC--------CCHHHHHHHHHHH
T ss_pred EEEEECCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCHHHCCCCCHHHHHHHHHH
T ss_conf 38880774899999999999999627999999999999999998389998995344784389878288885999999999
Q ss_pred HHCCCCCCCCCCEEEEEEEECCCCCCCCCCCCCHHHHHCCCCCCCHHHHHHHCCHHHHHHHHCCCCCCCHHHHH-CCCCC
Q ss_conf 83589999999935899995599975433447815330169886746877410315688864003665245350-29863
Q 001780 825 KRDAATAPNVGDRVPYVIIKAAKGAKAYERSEDPIYVLENNIPIDTHYYLENQISKPLLRIFEPILKNASKELL-SGDHT 903 (1014)
Q Consensus 825 ~rd~g~~p~~GdrI~YVi~~~~~~~~~~~rae~p~~~~~~~~~iD~~yYi~~qi~~pl~ri~~~i~g~~~~~l~-~g~~~ 903 (1014)
++ |..+.+||||+|||++|++ ++++||++|.++.+++++||++||+++||+||+.|||+++ |.+.++|. .|
T Consensus 688 ~~--g~~~~~GdrI~YVi~~g~~--~~~~ra~~~~~~~~~~~~iD~~yYi~~qi~ppl~ri~~~~-g~~~~~l~~~~--- 759 (775)
T 1qht_A 688 AR--GVKIRPGTVISYIVLKGSG--RIGDRAIPADEFDPTKHRYDAEYYIENQVLPAVERILKAF-GYRKEDLRYQK--- 759 (775)
T ss_dssp TT--TCCCCTTCBCCEEECCC-------CSEEETTCC---------CHHHHTTHHHHSHHHHHTT-TC------------
T ss_pred HC--CCCCCCCCEEEEEEEECCC--CHHHCCCCHHHHCCCCCCCCHHHHHHHCCHHHHHHHHHHH-CCCHHHHHHCC---
T ss_conf 64--9999999989999996898--7352136888963378987879999963788999999883-99999960057---
Q ss_pred CEEEECCCCCCCCCCCCC
Q ss_conf 225314898844321100
Q 001780 904 RSISISTPSNSGIMKFAK 921 (1014)
Q Consensus 904 r~~~~~~~~~~~~~~f~~ 921 (1014)
..+.+|..|.+
T Consensus 760 -------~~q~~L~~ff~ 770 (775)
T 1qht_A 760 -------TKQVGLGAWLK 770 (775)
T ss_dssp ------------------
T ss_pred -------CCCCCHHHHHH
T ss_conf -------76332999951
No 4
>1s5j_A DNA polymerase I; replication, disulfide bonds, transferase; HET: DNA; 2.40A {Sulfolobus solfataricus} SCOP: c.55.3.5 e.8.1.1
Probab=1.00 E-value=1 Score=1132.60 Aligned_cols=718 Identities=24% Similarity=0.326 Sum_probs=580.9
Q ss_pred CCEEEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEEEECCCCEEEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHH
Q ss_conf 77159999957864047865667655589309999987259958999981734299994599999784889999999998
Q 001780 88 CQSIMFQQLDIDYVIGDSNRELLPLSSGSAAIIRIFGVTREGHSVCCKVHGFEPYFYISCPQGMGPDDISHFHQILEGRM 167 (1014)
Q Consensus 88 ~~~l~Fq~lD~d~~~~~~~~~~~~~~~~~~~vIrLFGvTe~G~SV~v~V~gF~PYFYV~~p~~~~~~~~~~l~~~L~~~~ 167 (1014)
.+...+++||++|. ... +.|+|||||+|++|++|+++|+||+||||+.+|.+ ++..+.+.+
T Consensus 11 ~~~~~~~ll~~~y~----------~~~-~~~vi~l~~~~~~~~~~~~~v~gf~pYfyv~~~~~----~~~~~~~~~---- 71 (847)
T 1s5j_A 11 QENKIYFLLQVDYD----------GKK-GKAVCKLFDKETQKIYALYDNTGHKPYFLVDLEPD----KVGKIPKIV---- 71 (847)
T ss_dssp CTTCEEEEEEEEEE----------TTT-TEEEEEEEETTTTEEEEEECCSCCCCEEEESSCHH----HHTTCHHHH----
T ss_pred CCCCEEEEEEEEEE----------CCC-CCEEEEEEEEECCCCEEEEECCCCCEEEEEECCCH----HHHHHHHHH----
T ss_conf 45871799854520----------579-97699999861894389999389860799977807----889999986----
Q ss_pred HHHCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCEEE
Q ss_conf 53002899995158999986202334357981109999982914279999997418644688876401342155432012
Q 001780 168 REANRNSKVPQFVRHIEMVQKRSIMYYQQQKSQPFLKIVVALPTMVASCRGILDRGIQLDGLGMKSFMTYESNVLFALRF 247 (1014)
Q Consensus 168 ~~~~~~~~~~~~V~~ieiV~K~slygY~~~~~~~flKI~~~~P~~v~klr~~le~G~~~~~i~~~~~~~yEsnI~~~lRF 247 (1014)
.. ..+.+++.|+|.++|+ +.+.+|+||++.+|.+++++|+.++ .+||+||+|+.||
T Consensus 72 ~~--------~~~~~ve~v~k~~~~~---~~~~~~~ki~~~~p~~v~~~r~~l~-------------~~~EadI~~~~Rf 127 (847)
T 1s5j_A 72 RD--------PSFDHIETVSKIDPYT---WNKFKLTKIVVRDPLAVRRLRNDVP-------------KAYEAHIKYFNNY 127 (847)
T ss_dssp TC--------TTEEEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHTTSSS-------------CEESCSSCHHHHH
T ss_pred CC--------CCCEEEEEEEEEECCC---CCCEEEEEEEEECHHHHHHHHHHHH-------------HHEECCCCHHHHH
T ss_conf 43--------7840899998674257---8743699999957899999999856-------------6600377668651
Q ss_pred EEECCCCCEEEEEEECCCEECCCCCCCCCEEEEEEECCCCCCCCCC------CCCCC-----CCCCEEEEEEEEEC-CCC
Q ss_conf 4442873104999830512104643443102455201442247998------87588-----99947999999972-689
Q 001780 248 MIDCNIVGGNWIEVPVGKYRKTAKTLSYCQLEFDCLYSDIISRHPE------GEFSK-----MAPFRILSFDIECA-GRK 315 (1014)
Q Consensus 248 miD~~I~G~~Wi~i~~~~~~~~~~k~S~C~~E~~~~~~~~~~~~~~------~~~~~-----~ppl~ilSfDIE~~-~~~ 315 (1014)
|||++|.||+|++++.+.+.....++| .|+++.+++++.++++ .+|.+ +||++++||||||. ++.
T Consensus 128 liD~~i~~~~w~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l~ilsfDIEt~s~~~ 204 (847)
T 1s5j_A 128 MYDIGLIPGMPYVVKNGKLESVYLSLD---EKDVEEIKKAFADSDEMTRQMAVDWLPIFETEIPKIKRVAIDIEVYTPVK 204 (847)
T ss_dssp HHHHTCCTTSEEEEETTEEEECCCCCC---HHHHHHHHHHTTTSCHHHHHHHHHHTHHHHSCCCCCCEEEEEEEECCSSS
T ss_pred HEECCCCCEEEEEEECCCCCCCCCCCC---HHHCCCHHHHHCCCHHHHCCCCCCCCHHCCCCCCCCEEEEEEEEECCCCC
T ss_conf 112486640799985465533565455---21101023333065033101101101000157998549999778676888
Q ss_pred CCCCCCCC--CCEEEEEEEEECCCCCCCCEEEEEECCCCC------CCCCCEEEECCCHHHHHHHHHHHHHHHCCCEEEE
Q ss_conf 99999999--963588887621586444245897615567------7574158631879999999999998709988998
Q 001780 316 GHFPEPTH--DPVIQVANLVTLQGEKQPFIRNVMTLKSCA------PIVGVDVMSFETERDVLLAWRDFIREVDPDVMIG 387 (1014)
Q Consensus 316 g~fP~~~~--D~Ii~Is~~v~~~g~~~~~~~~vf~l~~~~------~~~~~~V~~~~~E~eLL~~f~~~i~~~DPDIIiG 387 (1014)
|.||+|+. |+||+||+. ..+|. +.+|+++.+. ++.+..|..|++|++||.+|+++++ ++|+|+|
T Consensus 205 g~fP~~~~~~d~Ii~Is~~-~~~g~-----~~~~~~~~~~~~~~~~~i~~~~v~~~~~E~~LL~~f~~~i~--~~diivg 276 (847)
T 1s5j_A 205 GRIPDSQKAEFPIISIALA-GSDGL-----KKVLVLNRNDVNEGSVKLDGISVERFNTEYELLGRFFDILL--EYPIVLT 276 (847)
T ss_dssp SCCCCTTTCCSCEEEEEEE-ETTSC-----EEEEEECSSCCCCCCEEETTEEEEEESSHHHHHHHHHHHHT--TCSEEEE
T ss_pred CCCCCCCCCCCCEEEEEEE-CCCCC-----CEEEEEECCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHC--CCCEEEE
T ss_conf 9999954467718999998-06897-----38999927745556667799769980999999999999844--4997999
Q ss_pred ECCCCCCCCCCCCCC------------CC--------CC---HHHHHH--------------------------HCC---
Q ss_conf 534678832111234------------54--------40---037886--------------------------439---
Q 001780 388 YNICKFDLPYLIEKE------------DV--------HH---SIISDL--------------------------QNG--- 415 (1014)
Q Consensus 388 yNi~~FDlpyL~~ke------------dv--------~~---~~i~~~--------------------------~~~--- 415 (1014)
||+++||||||.++- ++ .+ -++..+ ..|
T Consensus 277 yN~~~FDlPyL~~Ra~~lgi~~~~~p~~~~gr~~~~i~gr~~~Dl~~~~~~~~~~~y~f~~kl~sysL~~Va~~~Lg~~K 356 (847)
T 1s5j_A 277 FNGDDFDLPYIYFRALKLGYFPEEIPIDVAGKDEAKYLAGLHIDLYKFFFNKAVRNYAFEGKYNEYNLDAVAKALLGTSK 356 (847)
T ss_dssp SSTTTTHHHHHHHHHHTTTCCGGGCSEECCSTTCCEETTSEEEEHHHHHTSHHHHHHTSTTCCSSCSHHHHHHHHHCCCC
T ss_pred ECCCCCHHHHHHHHHHHCCCCCCCCCEEECCCCCEEECCEEEEEHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCC
T ss_conf 57877569999999987299733378000599836864578703178875533443002455465668999999809998
Q ss_pred -------CHHHHHHHHHHHHCCCCCHHHHHH--HHHHHHHHHHHHHHHCCCCCHHCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf -------912235775631000133387886--53335759999998196731020465178899999999765593456
Q 001780 416 -------NAETRRRLAVYCLKDAYLPQRLLD--KLMFIFNYVEMARVTGVPISFLLSRGQSIKVLSQLLRKAKQKNLVIP 486 (1014)
Q Consensus 416 -------~~~~~~~l~~Y~lkDa~l~~~L~~--kl~~l~~~~e~aritgip~~~~l~rG~q~kv~s~L~r~a~~~~~iiP 486 (1014)
....+.+++.||++||.++++|+. +..++....+||+++|+|++.+...|++.+++++|+++|+++|+++|
T Consensus 357 ~dv~~~i~~~~~~~l~~Ycl~Da~lt~~L~~~~~~~~~~~~~~la~i~~lp~~~l~r~~~~~~v~slll~~~~~~~~i~P 436 (847)
T 1s5j_A 357 VKVDTLISFLDVEKLIEYNFRDAEITLQLTTFNNDLTMKLIVLFSRISRLGIEELTRTEISTWVKNLYYWEHRKRNWLIP 436 (847)
T ss_dssp C--SSCTTTCCHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHCCCHHHHTTSCHHHHHHHHHHHHHHHHTBCCC
T ss_pred CCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf 65457552214999999988879999999998767677999999988388905516642436668788999986695167
Q ss_pred CCCCC----C--C-----CCCCCCCCEEEECCCCEEEEEEEEEECCCCCHHHHHHHCCCCCCCCCHHHHHCCCCCCCCEE
Q ss_conf 87767----9--9-----77768761463136713770047632254136789871888445669132200699999622
Q 001780 487 NVKQA----G--S-----EQGTYEGATVLEARAGFYEKPIATLDFASLYPSIMMAYNLCYSTLVTPEDARKLNLPPECVN 555 (1014)
Q Consensus 487 ~~~~~----~--~-----~~~~yeGg~VleP~~G~y~~pV~~LDF~SLYPSIiia~Nlc~tTl~~~~~~~~~~~~~~~~~ 555 (1014)
++... + . ...+|+||+|+||++|+|++ |++|||+|||||||++|||||||++....... .+...
T Consensus 437 ~~~~~~~~~~~~~~~~~~~~~~y~Gg~V~eP~~G~y~~-v~~lDf~SLYPSIi~~~Nl~~~T~~~~~~~~~----~~~~~ 511 (847)
T 1s5j_A 437 LKEEILAKSSNIRTSALIKGKGYKGAVVIDPPAGIFFN-ITVLDFASLYPSIIRTWNLSYETVDIQQCKKP----YEVKD 511 (847)
T ss_dssp CHHHHHHTTCC--------------CCCCCCCSEEEEE-EEEEEETTHHHHHHHHTTCCTTTBSCSCCSSC----CEECC
T ss_pred CCHHHHHHCCCCCCHHCCCCCCCCCCCCCCCCCCCCCC-EEEEEHHHHCHHHHHHCCCCCCEECCCCCCCC----CCCCC
T ss_conf 81465432034441000356545677111777786042-46764121363889870798310114555654----44421
Q ss_pred ECCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCHHH
Q ss_conf 189983243217767882899999999999999986316--995789976787532133200002432455578898677
Q 001780 556 KTPSGETFVKSNLQKGILPEILEELLAARKRAKADLKEA--KDPLEKAVLDGRQLALKISANSVYGFTGATVGQLPCIEI 633 (1014)
Q Consensus 556 ~~p~g~~fvk~~~~~Gilp~iL~~Ll~~R~~~K~~mk~~--~d~~~~~~ld~rQ~AlKi~aNS~YG~~G~~~~r~~~~~i 633 (1014)
.+|++.+|++. .++|++|.+|++|++.|+++|+.|++. .|+.++.+||++|+|+|++|||+|||||+++|||||.++
T Consensus 512 ~~~~~~~~~~~-~~~g~~p~~l~~l~~~R~~~kk~~~k~~~~~~~~~~~~d~~Q~AlKi~~NS~YG~~g~~~~~~~~~~~ 590 (847)
T 1s5j_A 512 ETGEVLHIVCM-DRPGITAVITGLLRDFRVKIYKKKAKNPNNSEEQKLLYDVVQRAMKVFINATYGVFGAETFPLYAPRV 590 (847)
T ss_dssp SSSCCCEEBCC-SSCCHHHHHHHHHHHHHHHTHHHHHTCTTSCHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSTTCCHHH
T ss_pred CCCCCCEEEEC-CCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHH
T ss_conf 27987605750-57766679999999999999999875657998999998999999999862232101454566668889
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCCEEECCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEE
Q ss_conf 86498955999999999998250246886556247870576402880788899999999999999985178825688956
Q 001780 634 SSSVTSYGRQMIEHTKKLVEDKFTTVGGYEHNAEVIYGDTDSVMVQFGVPTVEAAMKLGREAADYISGTFIKPIKLEFEK 713 (1014)
Q Consensus 634 A~sIT~~GR~~l~~t~~~ve~~~~~~~g~~~~~~VIYGDTDSvfV~~~~~~~~ea~~lg~eia~~vs~~~~~pi~Le~Ek 713 (1014)
|++||++||+||+.|++++|+. |++||||||||+||+++.. ++ .++++++|++.+ |++|||||
T Consensus 591 A~~iT~~GR~~l~~t~~~ve~~---------g~~ViYGDTDSi~v~~~~~--~~----~~~~~~~v~~~~--~i~le~e~ 653 (847)
T 1s5j_A 591 AESVTALGRYVITSTVKKAREE---------GLTVLYGDTDSLFLLNPPK--NS----LENIIKWVKTTF--NLDLEVDK 653 (847)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT---------TCCEEEEETTEEEEESCCH--HH----HHHHHHHHHHHS--SCCEEEEE
T ss_pred HHHHHHHHHHHHHHHHHHHHHC---------CCEEECCCCCCEEEECCCH--HH----HHHHHHHHHHHC--CCCEEECC
T ss_conf 9999999999999999999858---------9689617875348954867--89----999999987446--95578620
Q ss_pred EECCCEEC-CCCEEEEEECCCCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHCCC---CHHHHHHHH----HHHHH
Q ss_conf 53010102-43206898425998765136753052047527999999999999882179---935599999----99999
Q 001780 714 VYYPYLLI-SKKRYAGLYWTNPEKFDKMDTKGIETVRRDNCLLVKNLVTECLHKILVDR---DIPGAVQYV----KSTIS 785 (1014)
Q Consensus 714 vy~~~ll~-~KKRYagl~~~~~~~~~k~~~KGie~vRRD~c~l~k~v~~~vl~~il~~~---d~~~~~~~v----~~~i~ 785 (1014)
+|.++++. +||||||+. ..+++++||+|+||||||+|+|++++++++.||.++ |++++++++ ++.+.
T Consensus 654 vy~~~ll~~~KKrYag~~-----~~g~~~~KG~e~vRrd~~~l~k~~~~~~l~~ll~~~~~~~~~~~~~~i~~~~~~~~~ 728 (847)
T 1s5j_A 654 TYKFVAFSGLKKNYFGVY-----QDGKVDIKGMLVKKRNTPEFVKKVFNEVKELMISINSPNDVKEIKRKIVDVVKGSYE 728 (847)
T ss_dssp EEEEEEEC----CEEEEC-----SSSCCCEESCCC--------CCSHHHHHHHHHHTTCCSCCTTHHHHHHHHHHHHHHC
T ss_pred HHHHHCCCHHHCCEEEEE-----CCCEEEEEEEEEEECCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 217572250008289883-----698040266688507727999999999999997348855699999999999999999
Q ss_pred HHHCCCCCCCCEEEEECCCCCCCCCCC-CCHHHHHHHHHHHHCCCCCCCCCCEEEEEEEECCCCCCCCCCCCCHHHHHCC
Q ss_conf 998199892233576325679332257-6508999999888358999999993589999559997543344781533016
Q 001780 786 DLLMNRMDLSLLVITKGLTKTGDDYEV-KAAHVELAERMRKRDAATAPNVGDRVPYVIIKAAKGAKAYERSEDPIYVLEN 864 (1014)
Q Consensus 786 ~l~~~~v~~~~lvi~k~l~k~~~~Y~~-~~phv~~A~rl~~rd~g~~p~~GdrI~YVi~~~~~~~~~~~rae~p~~~~~~ 864 (1014)
+|++|++|+++|+|+|+|+|.+++|+. ++|||.+|++|+++ |..|+.||||+|||+++++|+..+++++
T Consensus 729 ~l~~~~~~~~~l~~~k~l~k~~~~Y~~~~~~hv~~A~~~~~~--g~~~~~GdrI~Yvi~~~~~g~~~~~~~~-------- 798 (847)
T 1s5j_A 729 KLKNKGYNLDELAFKVMLSKPLDAYKKNTPQHVKAALQLRPF--GVNVLPRDIIYYVKVRSKDGVKPVQLAK-------- 798 (847)
T ss_dssp TTC-----------------------------------------------------------------------------
T ss_pred HHHCCCCCHHHEEEEEEECCCHHHHCCCCCHHHHHHHHHHHC--CCCCCCCCEEEEEEEECCCCCCHHHHCC--------
T ss_conf 997599988998999885459667344887899999999846--9999998988999996899988556234--------
Q ss_pred CCCCCHHHHHHHCCHHHHHHHHCCCCCCCHHHHHC
Q ss_conf 98867468774103156888640036652453502
Q 001780 865 NIPIDTHYYLENQISKPLLRIFEPILKNASKELLS 899 (1014)
Q Consensus 865 ~~~iD~~yYi~~qi~~pl~ri~~~i~g~~~~~l~~ 899 (1014)
..+||++||+++ |.+|+.+|++++ |.+.+.++.
T Consensus 799 ~~~iD~~~Yl~~-l~~~~~~il~~~-g~~~~~i~~ 831 (847)
T 1s5j_A 799 VTEIDAEKYLEA-LRSTFEQILRAF-GVSWDEIAA 831 (847)
T ss_dssp ---CCSSTTHHH-HHTTSTTHHHHH-SCCCCCC--
T ss_pred CCCCCHHHHHHH-HHHHHHHHHHHH-CCCHHHHCC
T ss_conf 468899999985-466999999886-888899558
No 5
>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 3maq_A* 1q8i_A*
Probab=1.00 E-value=1 Score=1112.77 Aligned_cols=678 Identities=25% Similarity=0.361 Sum_probs=564.3
Q ss_pred CEEEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEEEECCCCEEEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHH
Q ss_conf 71599999578640478656676555893099999872599589999817342999945999997848899999999985
Q 001780 89 QSIMFQQLDIDYVIGDSNRELLPLSSGSAAIIRIFGVTREGHSVCCKVHGFEPYFYISCPQGMGPDDISHFHQILEGRMR 168 (1014)
Q Consensus 89 ~~l~Fq~lD~d~~~~~~~~~~~~~~~~~~~vIrLFGvTe~G~SV~v~V~gF~PYFYV~~p~~~~~~~~~~l~~~L~~~~~ 168 (1014)
....-++||..+. .. +.+++|++||+|++|. +||+|+||+||||++.+. ...+ ...+.
T Consensus 4 ~~~~g~~l~~~~~----------~~-~~g~~i~~~g~t~~G~-~~v~v~~~~~yfy~~~~~------~~~~----~~~~~ 61 (786)
T 3k59_A 4 MAQAGFILTRHWR----------DT-PQGTEVSFWLATDNGP-LQVTLAPQESVAFIPADQ------VPRA----QHILQ 61 (786)
T ss_dssp EEEEEEEEEEEEE----------EE-TTEEEEEEEEEETTEE-EEEECSCCCEEEEEEGGG------HHHH----HHHTT
T ss_pred CCCCCEEEEEEEE----------EE-CCCEEEEEEEECCCCC-EEEEECCCCEEEEEECCC------HHHH----HHHHH
T ss_conf 6545479831799----------96-8955999999859998-899984883699997786------7889----99973
Q ss_pred HHCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCEEEE
Q ss_conf 30028999951589999862023343579811099999829142799999974186446888764013421554320124
Q 001780 169 EANRNSKVPQFVRHIEMVQKRSIMYYQQQKSQPFLKIVVALPTMVASCRGILDRGIQLDGLGMKSFMTYESNVLFALRFM 248 (1014)
Q Consensus 169 ~~~~~~~~~~~V~~ieiV~K~slygY~~~~~~~flKI~~~~P~~v~klr~~le~G~~~~~i~~~~~~~yEsnI~~~lRFm 248 (1014)
. .....++. ..+++|++ .+++||++.+|++++++|+.+++. ++.+||+||+|..|||
T Consensus 62 ~--------~~~~~~~~---~~l~~~~~---~~~~~i~~~~~~~~~~~r~~l~~~---------g~~v~EadI~~~~Rfl 118 (786)
T 3k59_A 62 G--------EQGFRLTP---LALKDFHR---QPVYGLYCRAHRQLMNYEKRLREG---------GVTVYEADVRPPERYL 118 (786)
T ss_dssp T--------CCSEEEEE---EEEECTTC---CEEEEEEESSHHHHHHHHHHHHHT---------TCCCBSTTCCHHHHHH
T ss_pred C--------CCCEEEEE---EEEEEECC---CEEEEEEECCHHHHHHHHHHHHHC---------CCCEEECCCCHHHEEE
T ss_conf 3--------88369998---55341269---569999987999999999999975---------9836324688355155
Q ss_pred EECCCCCEEEEEEECCCEECCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCCEEE
Q ss_conf 44287310499983051210464344310245520144224799887588999479999999726899999999996358
Q 001780 249 IDCNIVGGNWIEVPVGKYRKTAKTLSYCQLEFDCLYSDIISRHPEGEFSKMAPFRILSFDIECAGRKGHFPEPTHDPVIQ 328 (1014)
Q Consensus 249 iD~~I~G~~Wi~i~~~~~~~~~~k~S~C~~E~~~~~~~~~~~~~~~~~~~~ppl~ilSfDIE~~~~~g~fP~~~~D~Ii~ 328 (1014)
||++|.||+|++.+... ...+.|++ .+ .++| .||||++||||||.. .| +|++
T Consensus 119 iD~~i~~~~w~~~~~~~-----~~~~~~~~---------~~---~~~~--~p~lrilsfDIE~~~-~g--------~i~~ 170 (786)
T 3k59_A 119 MERFITSPVWVEGDMHN-----GTIVNARL---------KP---HPDY--RPPLKWVSIDIETTR-HG--------ELYC 170 (786)
T ss_dssp HHTTCSSEEEEEEEEET-----TEEEEEEE---------EE---CSSC--CCCCCEEEEEEEECT-TS--------CEEE
T ss_pred EECCCCCCEEEEEECCC-----CCEECCEE---------EE---CCCC--CCCCEEEEEEEEECC-CC--------CEEE
T ss_conf 76586650699973347-----81521157---------45---7888--888708999999768-99--------8899
Q ss_pred EEEEEECCCCCCCCEEEEEECCCCC---CCCCCEEEECCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCC-----
Q ss_conf 8887621586444245897615567---75741586318799999999999987099889985346788321112-----
Q 001780 329 VANLVTLQGEKQPFIRNVMTLKSCA---PIVGVDVMSFETERDVLLAWRDFIREVDPDVMIGYNICKFDLPYLIE----- 400 (1014)
Q Consensus 329 Is~~v~~~g~~~~~~~~vf~l~~~~---~~~~~~V~~~~~E~eLL~~f~~~i~~~DPDIIiGyNi~~FDlpyL~~----- 400 (1014)
|+. . |.. .+.+|+++.|. ++.+..|..|++|++||.+|+++++++|||||+|||+.+||||||.+
T Consensus 171 I~~--~--~~~---~~~v~~l~~~~~~~~~~~~~V~~f~~E~~lL~~f~~~i~~~dPDii~g~N~~~FD~pyL~~Ra~~~ 243 (786)
T 3k59_A 171 IGL--E--GCG---QRIVYMLGPENGDASSLDFELEYVASRPQLLEKLNAWFANYDPDVIIGWNVVQFDLRMLQKHAERY 243 (786)
T ss_dssp EEE--E--ETT---EEEEEEESSCCSCCTTCSSEEEEESSHHHHHHHHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHH
T ss_pred EEE--C--CCC---CCEEEEEECCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHH
T ss_conf 982--3--899---886999966887777888449996999999999999998709999996177667689999999984
Q ss_pred ----------------------------------------------------------------CCCC-C---CHHHHHH
Q ss_conf ----------------------------------------------------------------3454-4---0037886
Q 001780 401 ----------------------------------------------------------------KEDV-H---HSIISDL 412 (1014)
Q Consensus 401 ----------------------------------------------------------------kedv-~---~~~i~~~ 412 (1014)
|++. . +++|.++
T Consensus 244 ~i~~~lGR~~~~~~~~~~~~~~~~~~~~i~GRv~lDl~~~lk~~~~~l~SysL~~Va~~~Lg~~K~~~~~~~~~~eI~~~ 323 (786)
T 3k59_A 244 RLPLRLGRDNSELEWREHGFKNGVFFAQAKGRLIIDGIEALKSAFWNFSSFSLETVAQELLGEGKSIDNPWDRMDEIDRR 323 (786)
T ss_dssp TCCCCCBTTTBCCEEEECSSSTTCEEEECTTCEEEEHHHHHHHTTCCCSCCSHHHHHHHHHCCCCC-CCHHHHHHHHHHH
T ss_pred CCCCEECCCCCCCCCCCCCCCCCCEEEEECCEEEEEHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHH
T ss_conf 99940144788653235666777316887587999819989760378788888999999808987565742359999999
Q ss_pred HCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 43991223577563100013338788653335759999998196731020465178899999999765593456877679
Q 001780 413 QNGNAETRRRLAVYCLKDAYLPQRLLDKLMFIFNYVEMARVTGVPISFLLSRGQSIKVLSQLLRKAKQKNLVIPNVKQAG 492 (1014)
Q Consensus 413 ~~~~~~~~~~l~~Y~lkDa~l~~~L~~kl~~l~~~~e~aritgip~~~~l~rG~q~kv~s~L~r~a~~~~~iiP~~~~~~ 492 (1014)
|. +++.+++.||++||.|+++|+.+++++.++.|||+++|+|++++ +||+..++++++++++++|+++|++...
T Consensus 324 ~~---~~~~~L~~Y~l~Da~L~~~L~~kl~ll~~~~elarl~Gi~~~~~--ggs~~~~~~lll~~~~~~~~i~P~~~~~- 397 (786)
T 3k59_A 324 FA---EDKPALATYNLKNCELVTQIFHKTEIMPFLLERATVNGLPVDRH--GGSVAAFGHLYFPRMHRAGYVAPNLGEV- 397 (786)
T ss_dssp HH---HCHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHCSCTTCC--CCHHHHHHHHHHHHHHHTTBCCCCTTSS-
T ss_pred HH---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHC--CCHHHHHHHHHHHHHHHCCEECCCCCCC-
T ss_conf 96---29799999999999999999987508999999999969897880--5579999999999987759007776655-
Q ss_pred CCCCCCCCCEEEECCCCEEEEEEEEEECCCCCHHHHHHHCCCCCCCCCHHHHHCCCCCCCCEEECCCCCEEEECCCCCCC
Q ss_conf 97776876146313671377004763225413678987188844566913220069999962218998324321776788
Q 001780 493 SEQGTYEGATVLEARAGFYEKPIATLDFASLYPSIMMAYNLCYSTLVTPEDARKLNLPPECVNKTPSGETFVKSNLQKGI 572 (1014)
Q Consensus 493 ~~~~~yeGg~VleP~~G~y~~pV~~LDF~SLYPSIiia~Nlc~tTl~~~~~~~~~~~~~~~~~~~p~g~~fvk~~~~~Gi 572 (1014)
..+ +|+||+|+||++|+|++ |++|||+|||||||++|||||+|++...... .+++....|+|.+|++ ++|+
T Consensus 398 ~~~-~y~Gg~V~eP~~G~y~~-V~~lDF~SLYPSIi~~~ni~~~t~~~~~~~~----~~~~~~~~~~g~~f~~---~~g~ 468 (786)
T 3k59_A 398 PPH-ASPGGYVMDSRPGLYDS-VLVLDYKSLYPSIIRTFLIDPVGLVEGMAQP----DPEHSTEGFLDAWFSR---EKHC 468 (786)
T ss_dssp CCC-CCCCCCBCCCCCEEESC-EEEEEETTHHHHHHHHHCCCHHHHHHHHHSC----STTTEEECSTTCEEES---SCCS
T ss_pred CCC-CCCCCEEEECCCCCEEE-EEEEEHHHCCHHHHHHHCCCCCCCCCCCCCC----CCCCCCCCCCCCEEEE---CCCC
T ss_conf 666-68885796045774326-9999801104789998578964333456775----4455236899845752---6874
Q ss_pred CHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 28999999999999999863169957899767875321332000024324555788986778649895599999999999
Q 001780 573 LPEILEELLAARKRAKADLKEAKDPLEKAVLDGRQLALKISANSVYGFTGATVGQLPCIEISSSVTSYGRQMIEHTKKLV 652 (1014)
Q Consensus 573 lp~iL~~Ll~~R~~~K~~mk~~~d~~~~~~ld~rQ~AlKi~aNS~YG~~G~~~~r~~~~~iA~sIT~~GR~~l~~t~~~v 652 (1014)
||++|++|+++|+++|+.|++ .+|+|+|++|||+|||+|+++|||||.++|++||++||++|+.|++++
T Consensus 469 lp~~l~~l~~~R~~~K~~~~~-----------~~q~AlKi~~Ns~YG~~G~~~~~~~~~~~A~~iT~~GR~~l~~~~~~i 537 (786)
T 3k59_A 469 LPEIVTNIWHGRDEAKRQGNK-----------PLSQALKIIMNAFYGVLGTTACRFFDPRLASSITMRGHQIMRQTKALI 537 (786)
T ss_dssp HHHHHHHHHHHHHHHHHTTCH-----------HHHHHHHHHHHHHHHGGGSTTSTTCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHCCH-----------HHHHHHHEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 399999999999999984415-----------788745300021324023557777777899999999999999999999
Q ss_pred HHHCCCCCCCCCCCEEEEECCCCCEEECCC-CCHHHHHHHHHHHHHHHHHCC---------CCCEEEEEEEEECCCEEC-
Q ss_conf 825024688655624787057640288078-889999999999999998517---------882568895653010102-
Q 001780 653 EDKFTTVGGYEHNAEVIYGDTDSVMVQFGV-PTVEAAMKLGREAADYISGTF---------IKPIKLEFEKVYYPYLLI- 721 (1014)
Q Consensus 653 e~~~~~~~g~~~~~~VIYGDTDSvfV~~~~-~~~~ea~~lg~eia~~vs~~~---------~~pi~Le~Ekvy~~~ll~- 721 (1014)
|+. |++||||||||+||+++. .+.++++++|++++++||+.| +.|++|||||+|.+++|+
T Consensus 538 e~~---------g~~ViYGDTDSvfv~~~~~~~~~~~~~~g~~l~~~vn~~~~~~~~~~~l~~~i~Le~Ekvy~~~ll~t 608 (786)
T 3k59_A 538 EAQ---------GYDVIYGDTDSTFVWLKGAHSEEEAAKIGRALVQHVNAWWAETLQKQRLTSALELEYETHFCRFLMPT 608 (786)
T ss_dssp HHT---------TCEEEECBSSEEEEECCSCCCHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCEEEEEEESEEEECB
T ss_pred HHC---------CCEEEEEECCCEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEHHHEEHH
T ss_conf 986---------98899995560499718989999999999999999989887542430588756999977575252032
Q ss_pred -------CCCEEEEEECCCCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf -------4320689842599876513675305204752799999999999988217993559999999999998199892
Q 001780 722 -------SKKRYAGLYWTNPEKFDKMDTKGIETVRRDNCLLVKNLVTECLHKILVDRDIPGAVQYVKSTISDLLMNRMDL 794 (1014)
Q Consensus 722 -------~KKRYagl~~~~~~~~~k~~~KGie~vRRD~c~l~k~v~~~vl~~il~~~d~~~~~~~v~~~i~~l~~~~v~~ 794 (1014)
+||||||+.|+.+ + +++++||+|+||||||+++|++++++|+.||.++|+ .+|+++.+.+|++|++|
T Consensus 609 ~rg~~~~~KKRYag~~~~~~-~-~~~~~KGle~vRrD~~~l~k~~~~~~l~~il~~~~v---~~~~~~~~~~l~~g~~~- 682 (786)
T 3k59_A 609 IRGADTGSKKRYAGLIQEGD-K-QRMVFKGLETVRTDWTPLAQQFQQELYLRIFRNEPY---QEYVRETIDKLMAGELD- 682 (786)
T ss_dssp CTTSSSBCSSCEEEEEEETT-E-EEEEEESSGGGCTTSCHHHHHHHHHHHHHHHTTCCC---HHHHHHHHHHHHTTCCG-
T ss_pred CCCCCCCCCCEEEEEEECCC-C-CEEEEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCH---HHHHHHHHHHHHCCCCC-
T ss_conf 05876666642899985289-9-779998547876874099999999999999769999---99999999999759997-
Q ss_pred CCEEEEECCCCCCCCCCCC-CHHHHHHHHHHHH--CCCC--CCCCCCEEEEEEEECCCCCCCCCCCCCHHHHHCCCCCCC
Q ss_conf 2335763256793322576-5089999998883--5899--999999358999955999754334478153301698867
Q 001780 795 SLLVITKGLTKTGDDYEVK-AAHVELAERMRKR--DAAT--APNVGDRVPYVIIKAAKGAKAYERSEDPIYVLENNIPID 869 (1014)
Q Consensus 795 ~~lvi~k~l~k~~~~Y~~~-~phv~~A~rl~~r--d~g~--~p~~GdrI~YVi~~~~~~~~~~~rae~p~~~~~~~~~iD 869 (1014)
++|+|+|+|+|.+++|+++ +|||++|+|+.++ +.|. .|+.||||+|||+++++ .|.+. .+.+||
T Consensus 683 ~~lv~~k~l~k~~~~Y~~~~~phv~aa~~~~~~~~~~g~~~~~~~G~rI~YVi~~~g~---------~p~~~--~~~~iD 751 (786)
T 3k59_A 683 ARLVYRKRLRRPLSEYQRNVPPHVRAARLADEENQKRGRPLQYQNRGTIKYVWTTNGP---------EPLDY--QRSPLD 751 (786)
T ss_dssp GGCCEEEEECSCGGGCCSCCCHHHHHHHHHHHHHHHTTCCCCSTTSEEEEEEEETTEE---------EEGGG--CCSCBC
T ss_pred HHEEEEEEECCCHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCC---------CCHHH--CCCCCC
T ss_conf 3628973226796772657857999999998752314987689889998999967999---------97555--269985
Q ss_pred HHHHHHHCCHHHHHHHHCCCCCCCHHHHHC
Q ss_conf 468774103156888640036652453502
Q 001780 870 THYYLENQISKPLLRIFEPILKNASKELLS 899 (1014)
Q Consensus 870 ~~yYi~~qi~~pl~ri~~~i~g~~~~~l~~ 899 (1014)
++||+++||.|++.||+.++ |.+.++++.
T Consensus 752 ~~yYi~~ql~p~~~~il~~~-g~~~~~l~~ 780 (786)
T 3k59_A 752 YEHYLTRQLQPVAEGILPFI-EDNFATLMT 780 (786)
T ss_dssp HHHHHHHTHHHHHHTTGGGG-TCCHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH-CCCHHHHCC
T ss_conf 89999976199999998762-999999703
No 6
>3qex_A DNA polymerase, GP43; difluorotoluene nucleoside; HET: DNA DOC DGT; 1.73A {Enterobacteria phage RB69} PDB: 3qei_A* 3qer_A* 3qes_A* 3qet_A* 3qep_A* 3qew_A* 3qev_A* 3s9h_A* 3sq0_A* 4dtn_A* 4dto_A* 4dtp_A* 4dtr_A* 4dts_A* 4dtu_A* 4dtx_A* 4e3s_A* 4fjm_A* 4fjl_A* 3spz_A* ...
Probab=1.00 E-value=1 Score=950.11 Aligned_cols=661 Identities=21% Similarity=0.324 Sum_probs=518.8
Q ss_pred EEEEEEEEECCCCEEEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCCCCCC
Q ss_conf 09999987259958999981734299994599999784889999999998530028999951589999862023343579
Q 001780 118 AIIRIFGVTREGHSVCCKVHGFEPYFYISCPQGMGPDDISHFHQILEGRMREANRNSKVPQFVRHIEMVQKRSIMYYQQQ 197 (1014)
Q Consensus 118 ~vIrLFGvTe~G~SV~v~V~gF~PYFYV~~p~~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~V~~ieiV~K~slygY~~~ 197 (1014)
..|.-=|+.++|....-.|+ |.|.+|+.++.+... +-+.|||
T Consensus 13 ~~~~~r~~~~~g~~~~~~~~-~~p~~~~~~~~~~~~---------------------------------~~~~~~g---- 54 (903)
T 3qex_A 13 DSIFERYIDSNGRERTREVE-YKPSLFAHCPESQAT---------------------------------KYFDIYG---- 54 (903)
T ss_dssp TEEEEEEECTTSCEEEEEEC-CCCEEEEECCTTSCC---------------------------------SEEETTS----
T ss_pred CEEEEEEECCCCCEEEEEEC-CCCEEEEECCCCCCC---------------------------------CCEECCC----
T ss_conf 87899875278847888633-673498765876532---------------------------------1111158----
Q ss_pred CCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCEEEEEECCCCCEEEEEEECCCEECCCCCCCCCE
Q ss_conf 81109999982914279999997418644688876401342155432012444287310499983051210464344310
Q 001780 198 KSQPFLKIVVALPTMVASCRGILDRGIQLDGLGMKSFMTYESNVLFALRFMIDCNIVGGNWIEVPVGKYRKTAKTLSYCQ 277 (1014)
Q Consensus 198 ~~~~flKI~~~~P~~v~klr~~le~G~~~~~i~~~~~~~yEsnI~~~lRFmiD~~I~G~~Wi~i~~~~~~~~~~k~S~C~ 277 (1014)
.+..++.+.+.+ .++..+++- +++ ++.+|+ .-+|.++|+.|.- .|+
T Consensus 55 --~~~~~~~f~~~~---~~~~~~k~~---~~~---~~~~~g-~~~~~~qy~~~~~-~~~--------------------- 100 (903)
T 3qex_A 55 --KPCTRKLFANMR---DASQWIKRM---EDI---GLEALG-MDDFKLAYLSDTY-NYE--------------------- 100 (903)
T ss_dssp --CEEEEEECSSHH---HHHHHHHHH---HHH---TCCCBS-CCSHHHHHHHHHC-CSC---------------------
T ss_pred --CCCCCCCCCCHH---HHHHHHHHH---HCC---CCCCCC-CCHHHHHHHHHHC-CCC---------------------
T ss_conf --852235788889---999999973---226---853103-7489999999875-445---------------------
Q ss_pred EEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCC--CCCEEEEEEEEECCCCCCCCEEEEE-ECC----
Q ss_conf 245520144224799887588999479999999726899999999--9963588887621586444245897-615----
Q 001780 278 LEFDCLYSDIISRHPEGEFSKMAPFRILSFDIECAGRKGHFPEPT--HDPVIQVANLVTLQGEKQPFIRNVM-TLK---- 350 (1014)
Q Consensus 278 ~E~~~~~~~~~~~~~~~~~~~~ppl~ilSfDIE~~~~~g~fP~~~--~D~Ii~Is~~v~~~g~~~~~~~~vf-~l~---- 350 (1014)
+ ++ +.+.+|+++|||||.+++ .||+|+ .+||++|++.-+ .+.. + .+| .+.
T Consensus 101 --i--------------~~-~~~~ir~~~~DIEv~~~~-~fPd~~~~~~~Ii~It~~d~-~~~~--~--~~~~l~~~~~~ 157 (903)
T 3qex_A 101 --I--------------KY-DHTKIRVANFDIEVTSPD-GFPEPSQAKHPIDAITHYDS-IDDR--F--YVFDLLNSPYG 157 (903)
T ss_dssp --C--------------CC-CGGGSCEEEEEEECCCTT-SSCCTTTCCSCCCEEEEEET-TTTE--E--EEEEECEETTE
T ss_pred --C--------------CC-CCCCCCEEEEEEEECCCC-CCCCCCCCCCCEEEEEEEEC-CCCE--E--EEEEEECCCCC
T ss_conf --3--------------35-766462899967867899-99884347777799999967-9997--9--99986225445
Q ss_pred C----------------CCC-----CCCCEEEECCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCC---------
Q ss_conf 5----------------677-----5741586318799999999999987099889985346788321112---------
Q 001780 351 S----------------CAP-----IVGVDVMSFETERDVLLAWRDFIREVDPDVMIGYNICKFDLPYLIE--------- 400 (1014)
Q Consensus 351 ~----------------~~~-----~~~~~V~~~~~E~eLL~~f~~~i~~~DPDIIiGyNi~~FDlpyL~~--------- 400 (1014)
. +.+ +.+..|..|++|++||.+|+++|+++|||||+|||+++||||||++
T Consensus 158 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~f~sE~eLL~~F~~~I~~~DPDIItGyN~~~FDlPYL~~RA~~l~gi~ 237 (903)
T 3qex_A 158 NVEEWSIEIAAKLQEQGGDEVPSEIIDKIIYMPFDNEKELLMEYLNFWQQKTPVILTGWNVESFAIPYVYNRIKNIFGES 237 (903)
T ss_dssp ECCCCCHHHHHSCGGGTCCCCCHHHHTTEEEEEESSHHHHHHHHHHHHHHTCCSEEECSSTTTTHHHHHHHHHHHHHCHH
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHCCCC
T ss_conf 65554421001224566666654467971899749999999999999998399989962775577999999999973985
Q ss_pred ----------------------------------------------------------------CCCCCCHHHHHHHCCC
Q ss_conf ----------------------------------------------------------------3454400378864399
Q 001780 401 ----------------------------------------------------------------KEDVHHSIISDLQNGN 416 (1014)
Q Consensus 401 ----------------------------------------------------------------kedv~~~~i~~~~~~~ 416 (1014)
|++++ +.|.++|+
T Consensus 238 ~~~~ls~~gR~~~~~~~~~~G~~~~~~i~GRv~lDl~~~~k~~~~~~l~SYsLd~VA~~lLg~~K~d~~-~~I~~~~~-- 314 (903)
T 3qex_A 238 TAKRLSPHRKTRVKVIENMYGSREIITLFGISVLDYIDLYKKFSFTNQPSYSLDYISEFELNVGKLKYD-GPISKLRE-- 314 (903)
T ss_dssp HHGGGSTTSCEEEEEEEETTEEEEEEEETTCEECCHHHHHHHHSCCCCSCCCHHHHHHHHHCCCCCCCS-SCGGGHHH--
T ss_pred CCCCCCCCCCCCCCCHHHHCCCCEEEEEECEEEEEHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCCCH-HHHHHHHH--
T ss_conf 000001026544432033228731698717687539999987371676778999999997399966527-79999995--
Q ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHCCCCCHHHH-HHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 122357756310001333878865333575999999819673102046517889-9999999765593456877679977
Q 001780 417 AETRRRLAVYCLKDAYLPQRLLDKLMFIFNYVEMARVTGVPISFLLSRGQSIKV-LSQLLRKAKQKNLVIPNVKQAGSEQ 495 (1014)
Q Consensus 417 ~~~~~~l~~Y~lkDa~l~~~L~~kl~~l~~~~e~aritgip~~~~l~rG~q~kv-~s~L~r~a~~~~~iiP~~~~~~~~~ 495 (1014)
+++.+++.||++||.++++|+.++.++..+.||||++|+|++.+++ |+++ +++|+|+++++|+++|++.. ...+
T Consensus 315 -~d~~~L~~Ycl~Da~Lt~~L~~Kl~li~~~~elArl~Gi~~~~vls---q~~v~e~LLlr~a~~~~~iiP~~~~-~~~~ 389 (903)
T 3qex_A 315 -SNHQRYISYNIIAVYRVLQIDAKRQFINLSLDMGYYAKIQIQSVFS---PIKTWDAIIFNSLKEQNKVIPQGRS-HPVQ 389 (903)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSCGGGGGC---HHHHHHHHHHHHHHTTTEECCCCCC-CCCC
T ss_pred -CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCC---HHHHHHHHHHHHHHHCCEECCCCCC-CCCC
T ss_conf -3989999999988899999999975179999999984988799334---1788999999999878982667755-5567
Q ss_pred CCCCCCEEEECCCCEEEEEEEEEECCCCCHHHHHHHCCCCCCCCCHHHHH-------C-CCCCCCCEEECCCCCEEEECC
Q ss_conf 76876146313671377004763225413678987188844566913220-------0-699999622189983243217
Q 001780 496 GTYEGATVLEARAGFYEKPIATLDFASLYPSIMMAYNLCYSTLVTPEDAR-------K-LNLPPECVNKTPSGETFVKSN 567 (1014)
Q Consensus 496 ~~yeGg~VleP~~G~y~~pV~~LDF~SLYPSIiia~Nlc~tTl~~~~~~~-------~-~~~~~~~~~~~p~g~~fvk~~ 567 (1014)
+|+||+|++|++|+|++ |++|||+|||||||++|||||||+++..... . ...+.+++..+|+|.+|++
T Consensus 390 -~y~Gg~V~~p~~G~y~~-v~~lDf~SLYPsIi~~~ni~~~T~~~~~~~~~~~~~i~~~~~~p~~~~~~~p~g~~F~k-- 465 (903)
T 3qex_A 390 -PYPGAFVKEPIPNRYKY-VMSFDLTSLYPSIIRQVNISPETIAGTFKVAPLHDYINAVAERPSDVYSCSPNGMMYYK-- 465 (903)
T ss_dssp -CCCCCCBCCCCCEECSS-EEEEEETTHHHHHHHHHTCCGGGEEEECCCCCHHHHHTTCSCCSCSSSEECTTSEEECC--
T ss_pred -CCCCCEEECCCCCCEEE-EEEEEHHHHCHHHHHHHCCCHHHCCCCCCCCCHHCCCCCCCCCCCCCEEECCCCCEEEC--
T ss_conf -88887785566786689-99976234354899985859433046544321000011245798775466799856735--
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHC------------------CCH--------------------------------
Q ss_conf 767882899999999999999986316------------------995--------------------------------
Q 001780 568 LQKGILPEILEELLAARKRAKADLKEA------------------KDP-------------------------------- 597 (1014)
Q Consensus 568 ~~~Gilp~iL~~Ll~~R~~~K~~mk~~------------------~d~-------------------------------- 597 (1014)
.++||||++|++|+++|+++|+.||.+ +||
T Consensus 466 ~~~GiLP~iL~~Ll~~R~~~K~~mk~~~~~~~~~k~~L~~~~~~~~dp~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~~ 545 (903)
T 3qex_A 466 DRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRFDFSDEIKEKIKKLSAKSLNEMLFRA 545 (903)
T ss_dssp SSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSSCCCCCCCCTTSCCCHHHHHHHTTCCHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHH
T ss_conf 78825599999999999999999764535530122100233445567310000123323454443101156665554334
Q ss_pred -HHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCC
Q ss_conf -7899767875321332000024324555788986778649895599999999999825024688655624787057640
Q 001780 598 -LEKAVLDGRQLALKISANSVYGFTGATVGQLPCIEISSSVTSYGRQMIEHTKKLVEDKFTTVGGYEHNAEVIYGDTDSV 676 (1014)
Q Consensus 598 -~~~~~ld~rQ~AlKi~aNS~YG~~G~~~~r~~~~~iA~sIT~~GR~~l~~t~~~ve~~~~~~~g~~~~~~VIYGDTDSv 676 (1014)
+++++||+||+|+|++|||+|||||+++|||||+++|++||++||++|++|++.+++.++..+|+.++++|||||||||
T Consensus 546 ~~~~~~~d~rQ~AlKi~~NS~YG~~G~~~~r~~~~~~A~sIT~~GR~~i~~~~~~v~~~~~~~~~~~~~~~VIYGDTDSv 625 (903)
T 3qex_A 546 QRTEVAGMTAQINRKALINGLAGALGNVWFRYYDLRNATAITTFGQMALQWIERKVNEYLNEVCGTEGEAFVLYGDTDSI 625 (903)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTSTTSTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCEEEEETTEE
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCE
T ss_conf 67888878999878888887777656856666899999999997159999999999999875317779718999968806
Q ss_pred EEECCCCCHH---HHHHHHHHHHHHHH----------------------HCCCCCEEEEEEEEECC--------CEECCC
Q ss_conf 2880788899---99999999999998----------------------51788256889565301--------010243
Q 001780 677 MVQFGVPTVE---AAMKLGREAADYIS----------------------GTFIKPIKLEFEKVYYP--------YLLISK 723 (1014)
Q Consensus 677 fV~~~~~~~~---ea~~lg~eia~~vs----------------------~~~~~pi~Le~Ekvy~~--------~ll~~K 723 (1014)
||+++...-. ++|++|+++++.++ +.|++|++|+||++|.+ ++|++|
T Consensus 626 fV~~~~~~~~~~~~~f~~g~~l~~~i~~~~~~~~~~~i~~~~~el~e~~~~~~~p~~l~~E~i~~~~~gs~~~~~~l~~K 705 (903)
T 3qex_A 626 YVSADKIIDKVGESKFRDTNHWVDFLDKFARERMEPAIDRGFREMCEYMNNKQHLMFMDREAIAGPPLGSKGIGGFWTGK 705 (903)
T ss_dssp EEECHHHHHHHCGGGCSSHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHTTCSSCCCCEEEEEEECCCTTSCCCCEEEEET
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCCCCCCCHHEEEC
T ss_conf 99847964312445556789999998899999888865567889998750377643402105644766654311100021
Q ss_pred CEEEEEECCCCCC---CCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEE
Q ss_conf 2068984259987---6513675305204752799999999999988217993559999999999998199892233576
Q 001780 724 KRYAGLYWTNPEK---FDKMDTKGIETVRRDNCLLVKNLVTECLHKILVDRDIPGAVQYVKSTISDLLMNRMDLSLLVIT 800 (1014)
Q Consensus 724 KRYagl~~~~~~~---~~k~~~KGie~vRRD~c~l~k~v~~~vl~~il~~~d~~~~~~~v~~~i~~l~~~~v~~~~lvi~ 800 (1014)
|||||+.|+.+++ .+++++||+|+||||||+++|+++++++++||.+++ +.+++|+++++.++++ +++++|+|+
T Consensus 706 KRYag~~~~~~g~~~~~~kl~~kGlE~vRrd~~~~~k~~~~~~l~~ll~~~~-~~~~~yv~~~~~~~~~--~~~~di~~~ 782 (903)
T 3qex_A 706 KRYALNVWDMEGTRYAEPKLKIMGLETQKSSTPKAVQKALKECIRRMLQEGE-ESLQEYFKEFEKEFRQ--LNYISIASV 782 (903)
T ss_dssp TEEEEEEEEETTEEEEEEEEEEESSGGGCTTSCHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHGGG--SCGGGGCEE
T ss_pred CCEEEEEEECCCCCCCCCEEEEECEEEEECCCHHHHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHHHC--CCHHHEEEE
T ss_conf 5467898605885467872678660788546369999999999999986574-7799999999999976--998887741
Q ss_pred ECCCCCCCCCCCC-------CHHHHHH---HHHHHHCCCC-CCCCCCEEEEEEEECCCCCCCCCCC-------CCHHHHH
Q ss_conf 3256793322576-------5089999---9988835899-9999993589999559997543344-------7815330
Q 001780 801 KGLTKTGDDYEVK-------AAHVELA---ERMRKRDAAT-APNVGDRVPYVIIKAAKGAKAYERS-------EDPIYVL 862 (1014)
Q Consensus 801 k~l~k~~~~Y~~~-------~phv~~A---~rl~~rd~g~-~p~~GdrI~YVi~~~~~~~~~~~ra-------e~p~~~~ 862 (1014)
+++ +++++|++. ++||..| .|+.++|++. .++.||||+||+++++. +..+++ +-|.++.
T Consensus 783 ~~~-~~l~~Y~~~~~~~~~~p~hv~ga~~~n~~~~~~~~~~~~~~Gekv~~v~lk~~~--~~~~~~i~~~~~~~~p~e~~ 859 (903)
T 3qex_A 783 SSA-NNIAKYDVGGFPGPKCPFHIRGILTYNRAIKGNIDAPQVVEGEKVYVLPLREGN--PFGDKCIAWPSGTEITDLIK 859 (903)
T ss_dssp EEC-CCTGGGEETTEECTTCCHHHHHHHHHHHHTTTCSSSCCCCTTSEEEEEEBCTTC--TTSSSEEEEETTSCCCHHHH
T ss_pred CCC-CCHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEECCC--CCCCCEEECCCCCCCCHHHH
T ss_conf 014-997881778888999860279999999975214677777889834299971798--88885675234566957775
Q ss_pred -CCCCCCCHHHHHHHCCHHHHHHHHCCCCCC
Q ss_conf -169886746877410315688864003665
Q 001780 863 -ENNIPIDTHYYLENQISKPLLRIFEPILKN 892 (1014)
Q Consensus 863 -~~~~~iD~~yYi~~qi~~pl~ri~~~i~g~ 892 (1014)
.....||++||++||++|||.|||+++ |.
T Consensus 860 ~~~~~~iD~~~~~~k~~~~pl~ri~~~~-g~ 889 (903)
T 3qex_A 860 DDVLHWMDYTVLLEKTFIKPLEGFTSAA-KL 889 (903)
T ss_dssp HHHHHHBCHHHHHHHHTHHHHHHHHHHH-TC
T ss_pred HCCCCCCCHHHHHHHHCHHHHHHHHHHC-CC
T ss_conf 0730233789999870453999999872-99
No 7
>1noy_A Protein (DNA polymerase (E.C.2.7.7.7)); exonuclease, DNA-binding, complex (nucleotidyltransferase/DNA); HET: DNA; 2.20A {Enterobacteria phage T4} SCOP: c.55.3.5 PDB: 1noz_A*
Probab=1.00 E-value=1 Score=339.12 Aligned_cols=276 Identities=18% Similarity=0.273 Sum_probs=214.0
Q ss_pred CEEEEEEEEECCCCEEEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCCCCC
Q ss_conf 30999998725995899998173429999459999978488999999999853002899995158999986202334357
Q 001780 117 AAIIRIFGVTREGHSVCCKVHGFEPYFYISCPQGMGPDDISHFHQILEGRMREANRNSKVPQFVRHIEMVQKRSIMYYQQ 196 (1014)
Q Consensus 117 ~~vIrLFGvTe~G~SV~v~V~gF~PYFYV~~p~~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~V~~ieiV~K~slygY~~ 196 (1014)
++++++||+|++|. +|++|.||+||||++.+.. . ..++++|
T Consensus 12 g~~~~~~g~~~~G~-~~v~~~~f~pyfy~~~~~~------------------~-----------------~~~~~~g--- 52 (388)
T 1noy_A 12 GNNIVERYIDENGK-ERTREVEYLPTMFRHCKEE------------------S-----------------KYKDIYG--- 52 (388)
T ss_dssp TTEEEEEEECTTSC-EEEEEEECCCSEECGGGGT------------------C-----------------SSCTTTT---
T ss_pred CCEEEEEEECCCCC-EEEEEECCCEEEEEECCCC------------------C-----------------CEEEECC---
T ss_conf 99999999828997-8999988837999986887------------------5-----------------1388379---
Q ss_pred CCCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCEEEEEECCCCCEEEEEEECCCEECCCCCCCCC
Q ss_conf 98110999998291427999999741864468887640134215543201244428731049998305121046434431
Q 001780 197 QKSQPFLKIVVALPTMVASCRGILDRGIQLDGLGMKSFMTYESNVLFALRFMIDCNIVGGNWIEVPVGKYRKTAKTLSYC 276 (1014)
Q Consensus 197 ~~~~~flKI~~~~P~~v~klr~~le~G~~~~~i~~~~~~~yEsnI~~~lRFmiD~~I~G~~Wi~i~~~~~~~~~~k~S~C 276 (1014)
.+..+|++.+|+.+.++++.++.. ++.+||++ +|..|+++|. +. +|+
T Consensus 53 ---~~~~~i~~~~~~~~~~~~~~l~~~---------~~~v~e~~-rf~~~~~~d~-~~--g~~----------------- 99 (388)
T 1noy_A 53 ---KNCAPQKFPSMKDARDWMKRMEDI---------GLEALGMN-DFKLAYISDT-YG--SEI----------------- 99 (388)
T ss_dssp ---CCCCCEECSSHHHHHHHHHHHHHH---------CTTCTHHH-HHHHHHHHHH-TC--SCC-----------------
T ss_pred ---CEEEEEECCCHHHHHHHHHHHHHC---------CCEECCCC-HHHHHHHHHC-CC--CCE-----------------
T ss_conf ---778999589989999999998744---------85102686-7898775443-88--541-----------------
Q ss_pred EEEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCC--CCEEEEEEEEECCCC-------------CCC
Q ss_conf 02455201442247998875889994799999997268999999999--963588887621586-------------444
Q 001780 277 QLEFDCLYSDIISRHPEGEFSKMAPFRILSFDIECAGRKGHFPEPTH--DPVIQVANLVTLQGE-------------KQP 341 (1014)
Q Consensus 277 ~~E~~~~~~~~~~~~~~~~~~~~ppl~ilSfDIE~~~~~g~fP~~~~--D~Ii~Is~~v~~~g~-------------~~~ 341 (1014)
++ ..||+++|||||||.+ +.||+|+. |+|++||++....+. ..|
T Consensus 100 --~~-----------------~~p~l~vlsfDIEt~~--~~fP~~~~~~d~Ii~Is~~~~~~~~~~~~~l~~~~~~~~~~ 158 (388)
T 1noy_A 100 --VY-----------------DRKFVRVANCDIEVTG--DKFPDPMKAEYEIDAITHYDSIDDRFYVFDLLNSMYGSVSK 158 (388)
T ss_dssp --CC-----------------CGGGCCEEEEEEEECC--SSCCCTTTCCSCEEEEEEEETTTTEEEEEEECCCSSCCCCC
T ss_pred --EC-----------------CCCCEEEEEEEEEECC--CCCCCCCCCCCEEEEEEEEEECCCEEEEEEEEECCCCCCCC
T ss_conf --15-----------------8887479999888688--99999778998499999999648707999875046788775
Q ss_pred CEE------EEEECCCCCCCC--CCEEEECCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCCC----------
Q ss_conf 245------897615567757--41586318799999999999987099889985346788321112345----------
Q 001780 342 FIR------NVMTLKSCAPIV--GVDVMSFETERDVLLAWRDFIREVDPDVMIGYNICKFDLPYLIEKED---------- 403 (1014)
Q Consensus 342 ~~~------~vf~l~~~~~~~--~~~V~~~~~E~eLL~~f~~~i~~~DPDIIiGyNi~~FDlpyL~~ked---------- 403 (1014)
+.. .+|++++|+++. +..|..|++|++||.+|++++++.|||||+|||+.+||||||.++-.
T Consensus 159 ~~~~~~~~~~~f~~~~~~~~~~~~v~v~~~~~E~~LL~~f~~~i~~~dPDii~GyN~~~FDlpyL~~Ra~~~lg~~l~~~ 238 (388)
T 1noy_A 159 WDAKLAAKLDCEGGDEVPQEILDRVIYMPFDNERDMLMEYINLWEQKRPAIFTGWNIEGFDVPYIMNRVKMILGERSMKR 238 (388)
T ss_dssp CCHHHHHSCGGGTCCCCCHHHHTTEEEEEESCHHHHHHHHHHHHHHSCCSEEECSSTTTTHHHHHHHHHHHHHHHHHHGG
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCC
T ss_conf 20122222221234666655689758997599999999999999871996999537777619999999998749731001
Q ss_pred -----------------------CC---------------------------------------CHHHHHHHCCCHHHHH
Q ss_conf -----------------------44---------------------------------------0037886439912235
Q 001780 404 -----------------------VH---------------------------------------HSIISDLQNGNAETRR 421 (1014)
Q Consensus 404 -----------------------v~---------------------------------------~~~i~~~~~~~~~~~~ 421 (1014)
++ +++|.++|+ +++.
T Consensus 239 ~s~~~r~~~~~~~~~~g~~~~~~i~GR~~lD~~~~~k~~~~~~l~sysL~~Va~~~Lg~~K~d~~~~i~~~~~---~~~~ 315 (388)
T 1noy_A 239 FSPIGRVKSKLLQNMYGSKEIYSIDGVSILDYLDLYKKFAFTNLPSFSLESVAQHETKKGKLPYDGPINKLRE---TNHQ 315 (388)
T ss_dssp GSTTSCEEEEECCGGGCSCEEEEETTSEECCHHHHHHHHTCCCCSCCSHHHHHHHHHSCCCCCCSSCGGGHHH---HHHH
T ss_pred CCCCCCCCCCCCHHHHCCCCEEEECCEEEEEHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHH---HCHH
T ss_conf 4755500455674562875418973769857799986537475667999999999969997782799999998---6899
Q ss_pred HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHCCCCCHHHHHH-HHHHHHHHCCCCCCCCCCC
Q ss_conf 775631000133387886533357599999981967310204651788999-9999976559345687767
Q 001780 422 RLAVYCLKDAYLPQRLLDKLMFIFNYVEMARVTGVPISFLLSRGQSIKVLS-QLLRKAKQKNLVIPNVKQA 491 (1014)
Q Consensus 422 ~l~~Y~lkDa~l~~~L~~kl~~l~~~~e~aritgip~~~~l~rG~q~kv~s-~L~r~a~~~~~iiP~~~~~ 491 (1014)
+++.||++||.++++|+.+++++.++.|||+++|+|++.++ | |+++++ +|+|+|+++||++|+++..
T Consensus 316 ~l~~Y~~~D~~l~~~L~~kl~~l~~~~ela~i~g~~~~~vl--~-q~~~~~~lll~~~~~~~~i~P~~~~~ 383 (388)
T 1noy_A 316 RYISYNIIDVESVQAIDKIRGFIDLVLSMSYYAKMPFSGVM--S-PIKTWDAIIFNSLKGEHKVIPQQGSH 383 (388)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHTCCGGGGG--C-HHHHHHHHHHHHTTCC----------
T ss_pred HHHHHHHHHHHHHHHHHHHHCHHHHHHHHHCCCCCCHHHHC--C-CHHHHHHHHHHHHHHCCEECCCCCCC
T ss_conf 99999999999999999987768889999675598979957--1-69999999999997689984368766
No 8
>2py5_A DNA polymerase; protein-DNA complex, replication, transferase/DNA complex; HET: DNA; 1.60A {Bacillus phage PHI29} SCOP: c.55.3.5 e.8.1.1 PDB: 1xhz_A* 1xhx_A* 2ex3_A* 1xi1_A* 2pyj_A* 2pyl_A* 2pzs_A*
Probab=1.00 E-value=1 Score=260.64 Aligned_cols=345 Identities=15% Similarity=0.190 Sum_probs=203.8
Q ss_pred CCEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCCEEEEEECCCCCCCCCCEEEECCCHHHHHHHHHHHHHHH
Q ss_conf 94799999997268999999999963588887621586444245897615567757415863187999999999999870
Q 001780 301 PFRILSFDIECAGRKGHFPEPTHDPVIQVANLVTLQGEKQPFIRNVMTLKSCAPIVGVDVMSFETERDVLLAWRDFIREV 380 (1014)
Q Consensus 301 pl~ilSfDIE~~~~~g~fP~~~~D~Ii~Is~~v~~~g~~~~~~~~vf~l~~~~~~~~~~V~~~~~E~eLL~~f~~~i~~~ 380 (1014)
+=++++|||||. +++..+++++|+... .+..+. |... .+ |.+|++++...
T Consensus 5 ~~~i~~~D~Et~------~d~~~~~~~~i~~~~--~~~~~~-----~~~~-------------~~----l~~fi~~~~~~ 54 (575)
T 2py5_A 5 PRKMYSCAFETT------TKVEDCRVWAYGYMN--IEDHSE-----YKIG-------------NS----LDEFMAWVLKV 54 (575)
T ss_dssp CCCEEEEEEEEC------CBTTBCCEEEEEEEE--SSCTTC-----EEEE-------------SC----HHHHHHHHHHH
T ss_pred CCEEEEEEEEEE------CCCCCCCEEEEEEEE--CCCEEE-----EEEC-------------HH----HHHHHHHHHHC
T ss_conf 424799998741------477788508999991--880289-----9802-------------00----99999999871
Q ss_pred CCCEEEEECCCCCCCCCCCC----C------CC-------------------CCC-----------------------HH
Q ss_conf 99889985346788321112----3------45-------------------440-----------------------03
Q 001780 381 DPDVMIGYNICKFDLPYLIE----K------ED-------------------VHH-----------------------SI 408 (1014)
Q Consensus 381 DPDIIiGyNi~~FDlpyL~~----k------ed-------------------v~~-----------------------~~ 408 (1014)
||||+ +||+ +||+.+|++ . +. ++. ..
T Consensus 55 ~~~i~-~hNl-~FD~~~l~~~~~~~~~~~~~~~~p~~~~~~i~r~~~~~~~~i~~~~~~k~~~~i~~~Ds~~~~~~SL~~ 132 (575)
T 2py5_A 55 QADLY-FHNL-KFAGAFIINWLERNGFKWSADGLPNTYNTIISRMGQWYMIDICLGYKGKRKIHTVIYDSLKKLPFPVKK 132 (575)
T ss_dssp CCEEE-ETTH-HHHHHHHHHHHHHTTCEECTTCCTTEEEEEEBTTCCEEEEEEEEEEETTEEEEEEEEEHHHHSCSCHHH
T ss_pred CCEEE-EECH-HHHHHHHHHHHHHHCCCCCCCCCCCCCCCEECCCCEEEEEEEEEECCCCCEEEEEEEEHHHHHHHHHHH
T ss_conf 99799-9874-434999999999737654322364110103426984899999980288746999999848652550999
Q ss_pred HHHHHCCC---------------HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHCCCCCHHHHHHH
Q ss_conf 78864399---------------122357756310001333878865333575999999819673102046517889999
Q 001780 409 ISDLQNGN---------------AETRRRLAVYCLKDAYLPQRLLDKLMFIFNYVEMARVTGVPISFLLSRGQSIKVLSQ 473 (1014)
Q Consensus 409 i~~~~~~~---------------~~~~~~l~~Y~lkDa~l~~~L~~kl~~l~~~~e~aritgip~~~~l~rG~q~kv~s~ 473 (1014)
+.+.+... .+.+..++.||++|+.++.+++.+. +.. .+.+....|.+...+-.
T Consensus 133 ~a~~f~~~~~K~~~py~~~~~~~~~~~~~~~~Y~~~Dv~ll~~i~~~~--f~~----------~~~~~Tissla~~~f~~ 200 (575)
T 2py5_A 133 IAKDFKLTVLKGDIDYHKERPVGYKITPEEYAYIKNDIQIIAEALLIQ--FKQ----------GLDRMTAGSDSLKGFKD 200 (575)
T ss_dssp HHHHTTCCCCSSCCCTTSCCCTTCCCCHHHHHHHHHHHHHHHHHHHHH--HHT----------TCCSSSHHHHHHHHHHH
T ss_pred HHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH--HHH----------HHHHCCCCCHHHHHHHH
T ss_conf 999828965477657300476551115999999999999999999999--876----------44432013089999986
Q ss_pred HHHHHHHCCCCCCCCCCC---CCCCCCCCCCEEEE-CC--CCEEEEEEEEEECCCCCHHHHHH--HCCCCCCCCCHHHHH
Q ss_conf 999976559345687767---99777687614631-36--71377004763225413678987--188844566913220
Q 001780 474 LLRKAKQKNLVIPNVKQA---GSEQGTYEGATVLE-AR--AGFYEKPIATLDFASLYPSIMMA--YNLCYSTLVTPEDAR 545 (1014)
Q Consensus 474 L~r~a~~~~~iiP~~~~~---~~~~~~yeGg~Vle-P~--~G~y~~pV~~LDF~SLYPSIiia--~Nlc~tTl~~~~~~~ 545 (1014)
.+ .....+.++|..... .-.+ +|.||.|+. |. .|++++ |+++||+|||||+|.. +++...+.+... ..
T Consensus 201 ~~-~~~~~~~~~p~~~~~~~~~ir~-~y~GGr~~~~p~y~~~~~~~-i~~~D~~SLYPs~m~~~~~P~g~p~~~~~~-~~ 276 (575)
T 2py5_A 201 II-TTKKFKKVFPTLSLGLDKEVRY-AYRGGFTWLNDRFKEKEIGE-GMVFDVNSLYPAQMYSRLLPYGEPIVFEGK-YV 276 (575)
T ss_dssp HH-CHHHHHHHSCCCCHHHHHHHHT-TCCCCCEEECGGGBTCEECS-EEEEEETTHHHHHHHHSCEEEEEEEEEESS-CC
T ss_pred HH-HHCCCHHHCCCCCCHHHHHHHH-CCCCCCCCCCCCCCCCCCCC-EEEEECCCCHHHHHCCCCCCCCCCEECCCC-CC
T ss_conf 74-1000102146678217788997-17885300011435667773-499866786488971799899984332441-01
Q ss_pred CC--------------CCCCCCEEE---------------CCCCC----EEEEC-----------------------CCC
Q ss_conf 06--------------999996221---------------89983----24321-----------------------776
Q 001780 546 KL--------------NLPPECVNK---------------TPSGE----TFVKS-----------------------NLQ 569 (1014)
Q Consensus 546 ~~--------------~~~~~~~~~---------------~p~g~----~fvk~-----------------------~~~ 569 (1014)
.. ..+++.++. .|.|. .++.. ...
T Consensus 277 ~~~~~~~~~g~v~~~v~~p~~~~P~lpp~~~~~~~~~~li~~~~~~~~g~~~t~vd~eL~~a~~g~ki~~i~~~~~f~~~ 356 (575)
T 2py5_A 277 WDEDYPLHIQHIRCEFELKEGYIPTIQIKRSRFYKGNEYLKSSGGEIADLWLSNVDLELMKEHYDLYNVEYISGLKFKAT 356 (575)
T ss_dssp CCTTSCEEEEEEEEEEEECTTCCCCCCC-------CCSCCSBCTTSCEEEEEEHHHHHHHHHHEEEEEEEEEEEEEEEEE
T ss_pred CCCCCCCCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHCCCCCEEEEEEEEEEECCC
T ss_conf 34578652289999996770028745653466667885326777654208995662888860578578887788999068
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCEECCCCCCCCCC--------------CCC------
Q ss_conf 788289999999999999998631699578997678753213320000243245557--------------889------
Q 001780 570 KGILPEILEELLAARKRAKADLKEAKDPLEKAVLDGRQLALKISANSVYGFTGATVG--------------QLP------ 629 (1014)
Q Consensus 570 ~Gilp~iL~~Ll~~R~~~K~~mk~~~d~~~~~~ld~rQ~AlKi~aNS~YG~~G~~~~--------------r~~------ 629 (1014)
.|+++..+..+++.|.+.++ ..|| +.|+++||+||.+|...- +|.
T Consensus 357 ~~~f~~~i~~l~~~k~~~~~--------------~~~~-~~Kl~lNS~YGk~g~~~~~~~~~~~~~~~~~~~f~~~e~~~ 421 (575)
T 2py5_A 357 TGLFKDFIDKWTYIKTTSEG--------------AIKQ-LAKLMLNSLYGKFASNPDVTGKVPYLKENGALGFRLGEEET 421 (575)
T ss_dssp SCTTHHHHHHHHHHHHHCCH--------------HHHH-HHHHHHHSSHHHHTCCSBCCBEEEEECTTSSEEEEECCCCB
T ss_pred CCCHHHHHHHHHHHHHHCCH--------------HHHH-HHHHHHHHHHHHHCCCCCCCCEEEEECCCCEEEEECCCCCC
T ss_conf 88449999999997652758--------------8999-99998776766623475555328986453102320376222
Q ss_pred ----CHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCCEEECCCCCHHHHHHHHHHHHHHHHHCCCC
Q ss_conf ----8677864989559999999999982502468865562478705764028807888999999999999999851788
Q 001780 630 ----CIEISSSVTSYGRQMIEHTKKLVEDKFTTVGGYEHNAEVIYGDTDSVMVQFGVPTVEAAMKLGREAADYISGTFIK 705 (1014)
Q Consensus 630 ----~~~iA~sIT~~GR~~l~~t~~~ve~~~~~~~g~~~~~~VIYGDTDSvfV~~~~~~~~ea~~lg~eia~~vs~~~~~ 705 (1014)
+.++|++||++||.+|..+.+.+ +.+|+||||||+|+..... ++. +.+.+. +.
T Consensus 422 ~~p~~v~ia~~iTa~aR~~m~~~~~~~------------~~~v~Y~DTDSi~~~~~~~--~~~------l~~~~~---~~ 478 (575)
T 2py5_A 422 KDPVYTPMGVFITAWARYTTITAAQAC------------YDRIIYCDTDSIHLTGTEI--PDV------IKDIVD---PK 478 (575)
T ss_dssp CCCCCHHHHHHHHHHHHHHHHHHHHHT------------TTTEEEEETTEEEEESSSC--CGG------GGGGBC---SS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHC------------CCCEEEECCCCCEECCCCC--HHH------HHHCCC---CC
T ss_conf 686204689999999999999999974------------7938996087604346555--366------643126---33
Q ss_pred CE-EEEEEEEECCCEECCCCEEEEEEC
Q ss_conf 25-688956530101024320689842
Q 001780 706 PI-KLEFEKVYYPYLLISKKRYAGLYW 731 (1014)
Q Consensus 706 pi-~Le~Ekvy~~~ll~~KKRYagl~~ 731 (1014)
.+ +++.|.++..++++++|+||+..+
T Consensus 479 ~lG~~~~E~~~~~~~f~~~K~Y~~~~~ 505 (575)
T 2py5_A 479 KLGYWAHESTFKRAKYLRQKTYIQDIY 505 (575)
T ss_dssp STTSEEEEEEEEEEEEEETTEEEEEEE
T ss_pred CHHCHHHHHHEEEEEEEECCEEEEEEC
T ss_conf 100100342042678821714767640
No 9
>3u3y_B Three prime repair exonuclease 1; RNAse H fold, 3' exonuclease, homodimer, hydrolase-DNA compl; HET: BU1; 2.28A {Mus musculus} PDB: 3u6f_B*
Probab=1.00 E-value=1 Score=47.18 Aligned_cols=93 Identities=13% Similarity=0.230 Sum_probs=58.3
Q ss_pred EEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCC-----------------CCCEEEEEECCCCCCC----------
Q ss_conf 7999999972689999999999635888876215864-----------------4424589761556775----------
Q 001780 303 RILSFDIECAGRKGHFPEPTHDPVIQVANLVTLQGEK-----------------QPFIRNVMTLKSCAPI---------- 355 (1014)
Q Consensus 303 ~ilSfDIE~~~~~g~fP~~~~D~Ii~Is~~v~~~g~~-----------------~~~~~~vf~l~~~~~~---------- 355 (1014)
+.+.||+||++- ++..|.||+|+++....+.. +...+....+++..++
T Consensus 13 tfVv~DlETTGL-----~~~~d~IIEIgaV~v~~~~l~~~~~~~g~~~~~~~~~~v~~~~~~lI~P~~~I~~~a~~IhGI 87 (314)
T 3u3y_B 13 TLIFLDLEATGL-----PSSRPEVTELCLLAVHRRALENTSISQGHPPPVPRPPRVVDKLSLCIAPGKACSPGASEITGL 87 (314)
T ss_dssp EEEEEEEEESSC-----GGGCCCEEEEEEEEEEHHHHHC--CCCSSSCCCCCCCSSCEEEEEECBCSSCCCHHHHHHHSC
T ss_pred CEEEEEEECCCC-----CCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCHHHHHHCCC
T ss_conf 789999988999-----988873799999998799533343334554334555512335899978999899788876099
Q ss_pred CCCEEEEC--CCH-HHHHHHHHHHHHHHC-CCEEEEECCCCCCCCCCCC
Q ss_conf 74158631--879-999999999998709-9889985346788321112
Q 001780 356 VGVDVMSF--ETE-RDVLLAWRDFIREVD-PDVMIGYNICKFDLPYLIE 400 (1014)
Q Consensus 356 ~~~~V~~~--~~E-~eLL~~f~~~i~~~D-PDIIiGyNi~~FDlpyL~~ 400 (1014)
....+... .+- .+.+..|.+|+...+ |.+++|||+..||+++|..
T Consensus 88 T~e~l~~aG~P~f~~ev~~~l~~fL~~~~~~~vLVAHNga~FD~~FL~~ 136 (314)
T 3u3y_B 88 SKAELEVQGRQRFDDNLAILLRAFLQRQPQPCCLVAHNGDRYDFPLLQT 136 (314)
T ss_dssp CHHHHHHTTCCBSCHHHHHHHHHHHHTSCSSEEEEETTTTTTHHHHHHH
T ss_pred CHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHH
T ss_conf 9999971779981899999999997267878679995768899999999
No 10
>2p1j_A POLIII, DNA polymerase III POLC-type; structural genomics, exonuclease, PSI-2, protein structure initiative; HET: DNA; 2.50A {Thermotoga maritima MSB8}
Probab=1.00 E-value=1 Score=46.93 Aligned_cols=91 Identities=18% Similarity=0.292 Sum_probs=57.7
Q ss_pred CCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCCEEEEEECCCCCCC----------CCCEEEECCCHHH
Q ss_conf 999479999999726899999999996358888762158644424589761556775----------7415863187999
Q 001780 299 MAPFRILSFDIECAGRKGHFPEPTHDPVIQVANLVTLQGEKQPFIRNVMTLKSCAPI----------VGVDVMSFETERD 368 (1014)
Q Consensus 299 ~ppl~ilSfDIE~~~~~g~fP~~~~D~Ii~Is~~v~~~g~~~~~~~~vf~l~~~~~~----------~~~~V~~~~~E~e 368 (1014)
..+.+.+.||+||++. +|..|+|++|+.+....|... ...-.-+++..++ ....+..-.+..+
T Consensus 9 l~~~~~v~iD~ETTGl-----~~~~~~IieIg~v~~~~g~i~--~~f~~lv~P~~~i~~~~~~i~GIt~~~l~~~~~~~~ 81 (186)
T 2p1j_A 9 FGDATFVVLDFETTGL-----DPQVDEIIEIGAVKIQGGQIV--DEYHTLIKPSREISRKSSEITGITQEMLENKRSIEE 81 (186)
T ss_dssp ----CEEEEEEEESCS-----CTTTCCEEEEEEEEEETTEEE--EEEEEECBCSSCCCHHHHHHHCCCHHHHTTCCBHHH
T ss_pred CCCCCEEEEEEECCCC-----CCCCCEEEEEEEEEEECCEEE--EEEEEEECCCCCCCHHHHHHCCCCHHHHHCCCCHHH
T ss_conf 7679899999788998-----998880799999999899997--998978895998997786543979999966998999
Q ss_pred HHHHHHHHHHHHCCCEEEEECCCCCCCCCCCC
Q ss_conf 99999999987099889985346788321112
Q 001780 369 VLLAWRDFIREVDPDVMIGYNICKFDLPYLIE 400 (1014)
Q Consensus 369 LL~~f~~~i~~~DPDIIiGyNi~~FDlpyL~~ 400 (1014)
.+..|.+++. ..+++|||+ .||+++|..
T Consensus 82 v~~~~~~~l~---~~~lv~hn~-~fD~~~L~~ 109 (186)
T 2p1j_A 82 VLPEFLGFLE---DSIIVAHNA-NFDYRFLRL 109 (186)
T ss_dssp HHHHHHHHSS---SCEEEETTH-HHHHHHHHH
T ss_pred HHHHHHHHHC---CCEEEEECC-HHHHHHHHH
T ss_conf 9999999978---998999794-999999999
Done!