Query 000883
Match_columns 1238
No_of_seqs 631 out of 4071
Neff 7.5
Searched_HMMs 29240
Date Tue Mar 26 16:59:53 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000883.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_652-656//hhsearch_pdb/000883hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3mwy_W Chromo domain-containin 1.0 1 1 1008.0 38.2 704 99-836 37-788 (800)
2 1z3i_X Similar to RAD54-like; 1.0 1 1 672.9 34.9 476 284-779 54-573 (644)
3 1z63_A Helicase of the SNF2/RA 1.0 1 1 602.7 38.2 455 278-777 31-496 (500)
4 3dmq_A RNA polymerase-associat 1.0 1 1 458.9 25.9 421 284-755 152-634 (968)
5 1wp9_A ATP-dependent RNA helic 1.0 1 1 384.3 31.3 421 284-753 8-492 (494)
6 2fwr_A DNA repair protein RAD2 1.0 1 1 358.6 20.6 377 282-752 90-470 (472)
7 1z5z_A Helicase of the SNF2/RA 1.0 1 1 351.1 22.6 253 515-779 12-269 (271)
8 4a2w_A RIG-I, retinoic acid in 1.0 1 1 346.2 31.3 435 283-773 246-783 (936)
9 4a2q_A RIG-I, retinoic acid in 1.0 1 1 340.3 32.8 437 283-773 246-783 (797)
10 4a2p_A RIG-I, retinoic acid in 1.0 1 1 326.5 33.0 432 284-774 6-543 (556)
No 1
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=1007.96 Aligned_cols=704 Identities=41% Similarity=0.715 Sum_probs=585.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCC---HHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHCC
Q ss_conf 765443333434667569998532430---11346787742038875555555556698874119157877875543102
Q 000883 99 LNDIDKILDCEMRPTVAGDSDVSKLGS---KQIFVKQYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQMS 175 (1238)
Q Consensus 99 ~~~iekIL~~r~~P~~~~~~~~~~~~~---~~~~~~eYlVKWkg~Sy~h~tWvpe~~L~~~~~~~~~~k~kl~~f~k~~~ 175 (1238)
...||+||+.|.++............+ ......||||||+|+||+||||+|+++|.+ .+++ .++.+|.++..
T Consensus 37 ~~~ve~vl~~r~~~~~~~~~~~~~~~~~~~~~~~~~eylvKWkg~s~~hntWe~~e~L~~----~~~~-~~~~~~~k~~~ 111 (800)
T 3mwy_W 37 FHGIDIVINHRLKTSLEEGKVLEKTVPDLNNCKENYEFLIKWTDESHLHNTWETYESIGQ----VRGL-KRLDNYCKQFI 111 (800)
T ss_dssp CCBCSEEEEEECCCC--------CCSCCHHHHHHHCEEEEECSSSCTTSCEEECHHHHCS----CBTT-HHHHHHHHHHT
T ss_pred CCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCEEECCCCCHHHHHH----CCHH-HHHHHHHHHHH
T ss_conf 874021201654654567741013676767886762799996886111054138787743----4157-99999999863
Q ss_pred C--------CCCCCHHH----------HCCCCCCCCHHHHHHHCC-----CCCCEEEEEEEECCCCCCCCCCCCCCCC-C
Q ss_conf 5--------99981011----------017987520223533116-----8886067776401233442111267867-6
Q 000883 176 S--------NNNAEEDF----------VAIRPEWTTVDRILACRG-----EDDEKEYLVKYKELSYDECYWEYESDIS-A 231 (1238)
Q Consensus 176 ~--------~~~~~~~~----------~~~~~~~~~verIi~~r~-----~~~~~eyLVKWk~L~Y~~~tWE~~~~~~-~ 231 (1238)
. ...+.++. ....++|+.|||||+++. ..+..+|||||++|||++||||...++. .
T Consensus 112 ~~~~~~~~~~~~~~e~~e~~~~~~e~~~~~~~~~~~veRii~~~~~~~~~~~~~~~yLvKW~~L~y~~~tWe~~~~~~~~ 191 (800)
T 3mwy_W 112 IEDQQVRLDPYVTAEDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWENATDIVKL 191 (800)
T ss_dssp HHHHHHTCSTTSCHHHHHHHHHHHHHHHHHHTTTTCEEEECCCCCEECTTSCEECBCCEEETTSCSTTCBCCBHHHHTTT
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEECCCCCCCCCCCCHHHHHHH
T ss_conf 27788751899987888887566654200011135346898641134678988659999815787342643363443333
Q ss_pred CHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEC
Q ss_conf 47899999866303465557756899954322368983333334789888899991789999999997202798469983
Q 000883 232 FQPEIERFIKIQSRSHRSSCNKQKSSPQDVTESTKKPKEFQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILAD 311 (1238)
Q Consensus 232 ~~~~i~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaD 311 (1238)
.+..++.|..+........ ...........|..+..+|+++.+++|||||++|++||...|..+.+|||||
T Consensus 192 ~~~~i~~~~~r~~~~~~~~---------~~~~~~~~~~~~~~~~~~p~~~~~~~Lr~yQ~egv~~l~~~~~~~~~~ILad 262 (800)
T 3mwy_W 192 APEQVKHFQNRENSKILPQ---------YSSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILAD 262 (800)
T ss_dssp CHHHHHHHHHTTTCTTCST---------TCCCCCSCCCCCCCCSSCCTTCCSSCCCTHHHHHHHHHHHHHTTTCCEEECC
T ss_pred HHHHHHHHHHHHHCCCCCC---------CHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf 1999999997631344775---------1010345577640025699865799758999999999999851389989982
Q ss_pred CCCCHHHHHHHHHHHHHHH--CCCCCEEEEECCCCHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf 8998299999999999750--99997499957844899999999886999199997684688899975202789911110
Q 000883 312 EMGLGKTIQSIAFLASLFG--ERISPHLVVAPLSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVK 389 (1238)
Q Consensus 312 emGlGKTiqaia~l~~l~~--~~~~p~LIVvP~sll~qW~~E~~~~~p~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~ 389 (1238)
+||+|||+|+|+++.+++. ...+|+|||||++++.||.+||.+|+|++++++|+|....+..++.++++.......
T Consensus 263 emGlGKT~~ai~~i~~l~~~~~~~~~~LIV~P~sll~qW~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~-- 340 (800)
T 3mwy_W 263 EMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKG-- 340 (800)
T ss_dssp CTTSSTTHHHHHHHHHHHHHHSCCSCEEEECCTTTHHHHHHHHHHHSTTCCEEECCCSSHHHHHHHHHHSCSCC------
T ss_pred CCCCCHHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCC--
T ss_conf 787532999999999999860779988999880389999999999779964999827777788988877622630013--
Q ss_pred CCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCHHHHHHHHCCCCCEEEEECCCCCC
Q ss_conf 02467632222222345539991088887200012797302999626533568000999999821135589981689989
Q 000883 390 KKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQN 469 (1238)
Q Consensus 390 ~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~l~~i~w~~iIiDEaHrlKn~~S~~~~~l~~l~~~~rllLTGTPlqN 469 (1238)
....+++|+||||+++..+...+..+.|++|||||||++||..+++++++..+.+.+||+|||||+||
T Consensus 341 ------------~~~~~~dvvitTy~~l~~~~~~l~~~~w~~vIvDEaH~lkn~~s~~~~~l~~l~~~~rl~LTgTPiqN 408 (800)
T 3mwy_W 341 ------------KKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQN 408 (800)
T ss_dssp -------------CCCCCSEEEECTTHHHHTHHHHHTSEEEEEEETTGGGGCCSSSHHHHHHTTSEEEEEEEECSCCCSS
T ss_pred ------------CCCCCCCEEEECHHHHHHHHHHHHCCCCCEEEHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCCCC
T ss_conf ------------44566788990699998649998337732564134444147101999999975224389722785779
Q ss_pred CHHHHHHHHHHHCCCCCCCHHHHHHHHHCHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHH
Q ss_conf 98899999962247999996889999830313999999999611125556676783119995899984159999999999
Q 000883 470 NLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYK 549 (1238)
Q Consensus 470 n~~EL~~ll~fL~p~~~~~~~~F~~~f~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~iv~v~ls~~Q~~~Y~ 549 (1238)
++.|||++++||.|+.|.....|............+..|+.++.|+++||++.++...||++.+.++.|+|++.|+.+|+
T Consensus 409 ~l~el~~ll~fL~p~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~LP~k~~~~v~v~ls~~q~~~Y~ 488 (800)
T 3mwy_W 409 NIKELAALVNFLMPGRFTIDQEIDFENQDEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYK 488 (800)
T ss_dssp CSHHHHHHHHHHCSCCC---------CCTTHHHHHHHHHHHTTGGGEEECCGGGGTTTSCCEEEEEEEECCCHHHHHHHH
T ss_pred CHHHHHHHHHHHCCCCCCCHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHH
T ss_conf 99999999998586636743442322231468999999999975777532087664316882799997079999999999
Q ss_pred HHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHCCCCCCCCCCC--------CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999999923-89610599999999997087442369999--------93240799999884212899999999999
Q 000883 550 AILTRNYQILTRR-GGAQISLINVVMELRKLCCHPYMLEGVEP--------DIEDTNESFKQLLESSGKLQLLDKMMVKL 620 (1238)
Q Consensus 550 ~il~~~~~~l~~~-~~~~~~l~~il~~Lrk~c~hP~L~~~~e~--------~~~~~~~~~~~li~~S~Kl~~L~klL~~l 620 (1238)
.++.++...+... .+....++++++.||++|+||+++...+. ...........++..|+|+.+|.++|..+
T Consensus 489 ~i~~~~~~~l~~~~~~~~~~~l~~l~~Lrk~~~hp~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~s~K~~~L~~lL~~~ 568 (800)
T 3mwy_W 489 NILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRL 568 (800)
T ss_dssp HHHHHCCC----------CTHHHHHHHHHHHHHCGGGSSSHHHHHCCCC----CCSHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCHHHHCCHHHHHHHHCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf 99999999986103545446999999999873586542355789988615665557788887664276999999999997
Q ss_pred HHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEE
Q ss_conf 98087089980222479999999852898289995888979999999997047998448995145433465767788899
Q 000883 621 KEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVI 700 (1238)
Q Consensus 621 ~~~g~kvLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~id~Fn~~~s~~~v~Llstragg~GINL~~Ad~VI 700 (1238)
.+.|+|||||||++.++++|+++|...|+.+.+++|+++..+|+.++++||++++..++||+||++||+||||++|++||
T Consensus 569 ~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~~F~~~~~~~~v~LlSt~agg~GlNL~~a~~VI 648 (800)
T 3mwy_W 569 KKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVV 648 (800)
T ss_dssp TTTTCCEEEEESCHHHHHHHHHHHHHHTCCCEEESTTSCHHHHHHHHHTTSSTTCSCCCEEEEHHHHTTTCCCTTCCEEE
T ss_pred HHCCCEEEEEECHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEE
T ss_conf 52798189996359999999999986799789996999999999999996089998259997454456787760163689
Q ss_pred EECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCHH--------HCCCCHHHHHH
Q ss_conf 9769999213548989776509988269999831898999999999999999999841010--------01689889999
Q 000883 701 IYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRLK--------AQNINQEELDD 772 (1238)
Q Consensus 701 i~D~dwNP~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEe~I~~~~~~K~~l~~~v~g~~~--------~~~~~~~el~~ 772 (1238)
+||++|||+.++||+||+||+||+++|.||+|++++|+||+|++++.+|+.|++++++.+. ...++.+++.+
T Consensus 649 ~~D~~wnp~~~~Qa~gR~~RiGQ~k~V~Vyrlv~~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~el~~ 728 (800)
T 3mwy_W 649 IFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPNAGELSA 728 (800)
T ss_dssp ESSCCSCSHHHHHHHTTTSCSSCCSCEEEEEEEETTSHHHHHHHHHHHHTTSCC----------------CCCCHHHHHH
T ss_pred EECCCCCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf 94687881168999999885589863799998619989999999999988899999703756653211234789999999
Q ss_pred HHHHCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCC--CCHHHHHHHHHHHCCC
Q ss_conf 997131211035566688855677998899997357877763357897--3114466562641101
Q 000883 773 IIRYGSKELFADENDEGGKSRQIHYDDAAIDRLLDRDQVGDEEASLDD--EDEDGFLKAFKVANFE 836 (1238)
Q Consensus 773 ll~~ga~~lf~~~~~~~~~~~~~~~~~~~id~~l~r~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 836 (1238)
||++|+..+|...+.+. .+.+.+||.||+|++...+..++.. ..+++|+++|++++|.
T Consensus 729 ll~~g~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 (800)
T 3mwy_W 729 ILKFGAGNMFTATDNQK------KLEDLNLDDVLNHAEDHVTTPDLGESHLGGEEFLKQFEVTDYK 788 (800)
T ss_dssp HHSSCSSSSCCSHHHHH------HHHTCCHHHHHHHCEECCCSCCCCCCEESCHHHHHTTC-----
T ss_pred HHHCCHHHHHHCCCCCC------CCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHCEEEECC
T ss_conf 99716576511457643------2540579999874343244646556565568898612003023
No 2
>1z3i_X Similar to RAD54-like; recombination ATPase helicase, recombination-DNA binding COM; 3.00A {Danio rerio} SCOP: c.37.1.19 c.37.1.19
Probab=1.00 E-value=1 Score=672.85 Aligned_cols=476 Identities=33% Similarity=0.551 Sum_probs=400.2
Q ss_pred CCCCHHHHHHHHHHHHHH-----CCCCCEEEECCCCCHHHHHHHHHHHHHHHCC------CCCEEEEECCCCHHHHHHHH
Q ss_conf 999178999999999720-----2798469983899829999999999975099------99749995784489999999
Q 000883 284 GSLHPYQLEGLNFLRFSW-----SKQTHVILADEMGLGKTIQSIAFLASLFGER------ISPHLVVAPLSTLRNWEREF 352 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~-----~~~~~~ILaDemGlGKTiqaia~l~~l~~~~------~~p~LIVvP~sll~qW~~E~ 352 (1238)
..|||||++|++||...+ ..+.+|||||+||+|||+|+|+++..+.... .+++|||||.+++.||.+||
T Consensus 54 ~~LrpyQ~~gv~~l~~~~~~~~~~~~~g~ILad~mGlGKT~~~i~~i~~l~~~~~~~~p~~~~~LiV~P~sll~qW~~E~ 133 (644)
T 1z3i_X 54 KVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNWYNEV 133 (644)
T ss_dssp TTCCHHHHHHHHHHHHHHTTSSSTTCCEEEECCCTTSCHHHHHHHHHHHHHHCCTTSSCSCSCEEEEECHHHHHHHHHHH
T ss_pred HCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECHHHHHHHHHHH
T ss_conf 03519999999999984233544588875961078742999999999999974866567778579996589988799999
Q ss_pred HHHCCC-CCEEEEECCH-HHHH-HHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHCCCCCCCE
Q ss_conf 988699-9199997684-6888-999752027899111100246763222222234553999108888720001279730
Q 000883 353 ATWAPQ-MNVVMYVGTS-QARN-IIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKW 429 (1238)
Q Consensus 353 ~~~~p~-~~vv~~~g~~-~~r~-~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~l~~i~w 429 (1238)
.+|+|. +.++.+++.. ..+. .+..+ ... ......++|+|+||+++..+...+....|
T Consensus 134 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~--~~~------------------~~~~~~~~vvi~ty~~l~~~~~~l~~~~~ 193 (644)
T 1z3i_X 134 GKWLGGRVQPVAIDGGSKDEIDSKLVNF--ISQ------------------QGMRIPTPILIISYETFRLHAEVLHKGKV 193 (644)
T ss_dssp HHHHGGGCCEEEECSSCHHHHHHHHHHH--HCC------------------CSSCCSCCEEEEEHHHHHHHTTTTTTSCC
T ss_pred HHHCCCCEEEEEEECCCHHHHHHHHHHH--HHH------------------CCCCCCCCEEEEEHHHHHHHHHHHHCCCC
T ss_conf 9975887259998089889999999999--873------------------37777875799638998765787504886
Q ss_pred EEEEECCCCCCCCCCCHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHCHH---------
Q ss_conf 29996265335680009999998211355899816899899889999996224799999688999983031---------
Q 000883 430 QCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN--------- 500 (1238)
Q Consensus 430 ~~iIiDEaHrlKn~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~~~~~~~F~~~f~~~~--------- 500 (1238)
++||+||||++||..++.++++..+.+.+||+|||||+||++.|||++++|+.|+.+++...|...|....
T Consensus 194 ~~vI~DEaH~ikn~~~~~~~al~~l~~~~rl~LTgTPiqN~l~El~sll~fl~p~~l~~~~~F~~~f~~pi~~~~~~~~~ 273 (644)
T 1z3i_X 194 GLVICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADAS 273 (644)
T ss_dssp CEEEETTGGGCCTTCHHHHHHHHHHCCSEEEEECSSCSGGGGGGCHHHHHHHHHHHHCCHHHHHHHTHHHHHHHHSTTCC
T ss_pred CEEEEECCEECCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCHHHHCCCCCCC
T ss_conf 57998786224780459999998555673799846734588999999998618876899999998632615416776778
Q ss_pred ------HHHHHHHHHHHHCHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHH-CCCCCHHHHHHH
Q ss_conf ------3999999999611125556676783119995899984159999999999999999999992-389610599999
Q 000883 501 ------QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTR-RGGAQISLINVV 573 (1238)
Q Consensus 501 ------~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~iv~v~ls~~Q~~~Y~~il~~~~~~l~~-~~~~~~~l~~il 573 (1238)
....+..|+.++.|+++||++.++...||++.+.++.|+|++.|+.+|+.++......... .+......+..+
T Consensus 274 ~~~~~~~~~~~~~L~~~l~~~~lRR~k~~v~~~LP~k~~~~v~~~ls~~q~~lY~~~~~~~~~~~~~~~g~~~~~~l~~l 353 (644)
T 1z3i_X 274 DKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKISVSSLSSI 353 (644)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHEECCCGGGGGGTSCCEEEEEEEECCCHHHHHHHHHHHHHHCGGGSSCTTCCCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH
T ss_conf 88999999999999999889998710876764279836999983799899999999999899999876276214599999
Q ss_pred HHHHHHHCCCCCCCCC----CCCCCCHH-------HHHHHHHHHHHHHHHHHHHHHHHHH-CCCEEEEEECCHHHHHHHH
Q ss_conf 9999970874423699----99932407-------9999988421289999999999998-0870899802224799999
Q 000883 574 MELRKLCCHPYMLEGV----EPDIEDTN-------ESFKQLLESSGKLQLLDKMMVKLKE-QGHRVLIYSQFQHMLDLLE 641 (1238)
Q Consensus 574 ~~Lrk~c~hP~L~~~~----e~~~~~~~-------~~~~~li~~S~Kl~~L~klL~~l~~-~g~kvLIFsq~~~~ldiL~ 641 (1238)
+.||++|+||+++... +....... .........|+|+.+|..++..+.. .++|+||||+++.++++|+
T Consensus 354 ~~Lrk~c~hp~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~l~~ll~~~~~~~~~k~lIFs~~~~~~~~l~ 433 (644)
T 1z3i_X 354 TSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFE 433 (644)
T ss_dssp HHHHHHHHCTHHHHHHHHHTCTTCTTGGGTSCSSCCSSSCCGGGSHHHHHHHHHHHHHHHHCCCEEEEEESCHHHHHHHH
T ss_pred HHHHHHHCCHHHHHHHHHCCCCHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHH
T ss_conf 99999957999888887415400355776454211100057011748999999999986469987999980599999999
Q ss_pred HHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf 99852898289995888979999999997047998448995145433465767788899976999921354898977650
Q 000883 642 DYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRL 721 (1238)
Q Consensus 642 ~~L~~~g~~~~ridG~~~~~~R~~~id~Fn~~~s~~~v~Llstragg~GINL~~Ad~VIi~D~dwNP~~~~Qa~gR~hRi 721 (1238)
.+|...|+.+.+++|+++..+|+.++++|+++.+..++||+||++||+||||+.|++||+||++|||..+.||+||+||+
T Consensus 434 ~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~L~st~a~g~Glnl~~a~~Vi~~d~~wnp~~~~Qa~gR~~R~ 513 (644)
T 1z3i_X 434 KLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRD 513 (644)
T ss_dssp HHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEGGGSCTTCCCTTEEEEEECSCCSSHHHHHHHHTTSSST
T ss_pred HHHHHCCCCEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHC
T ss_conf 99997799789983999999999999996399999679998445566784652389899979999813799998840322
Q ss_pred CCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCH--HHCCCCHHHHHHHHHHCHH
Q ss_conf 998826999983189899999999999999999984101--0016898899999971312
Q 000883 722 GQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRL--KAQNINQEELDDIIRYGSK 779 (1238)
Q Consensus 722 GQ~k~V~VyrLit~~TvEe~I~~~~~~K~~l~~~v~g~~--~~~~~~~~el~~ll~~ga~ 779 (1238)
||+++|.||+|++.+|+||+|++++..|..+...|++.. ....++.+++.+|+.++..
T Consensus 514 Gq~~~v~v~~lv~~~tiEe~i~~~~~~K~~l~~~v~~~~~~~~~~~~~~~l~~Lf~~~~~ 573 (644)
T 1z3i_X 514 GQKKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVVDEEQDVERHFSLGELRELFSLNEK 573 (644)
T ss_dssp TCCSCEEEEEEEETTSHHHHHHHHHHHHHHTSCCCCSCSSSCCCSSCHHHHHHHTCCCSS
T ss_pred CCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHHHHHHHCCCCC
T ss_conf 898726999988798899999999999999999985686054337899999998678987
No 3
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Probab=1.00 E-value=1 Score=602.68 Aligned_cols=455 Identities=31% Similarity=0.584 Sum_probs=397.5
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHHHCC-CCCEEEEECCCCHHHHHHHHHHHC
Q ss_conf 9888899991789999999997202798469983899829999999999975099-997499957844899999999886
Q 000883 278 PEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFATWA 356 (1238)
Q Consensus 278 P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E~~~~~ 356 (1238)
|..+. .+|+|||.+|++|+...+..+.++||||+||+|||+++++++..+...+ .+++|||||.+++.||.+||.+|+
T Consensus 31 p~~~~-~~L~~~Q~~~v~~l~~~~~~~~~~ilad~~GlGKT~~ai~~i~~~~~~~~~~~~LIv~P~~l~~qw~~e~~~~~ 109 (500)
T 1z63_A 31 PYNIK-ANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLSVLKNWEEELSKFA 109 (500)
T ss_dssp CCSCS-SCCCHHHHHHHHHHHHHHHTTCCEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECSTTHHHHHHHHHHHC
T ss_pred CHHHH-CCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHHC
T ss_conf 83320-03369999999999997417998899808997389999999998875589997899903899999999999977
Q ss_pred CCCCEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHCCCCCCCEEEEEECC
Q ss_conf 99919999768468889997520278991111002467632222222345539991088887200012797302999626
Q 000883 357 PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDE 436 (1238)
Q Consensus 357 p~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~l~~i~w~~iIiDE 436 (1238)
|.+++.+++|.... .....++|+|+||+++..+.. +....|++||+||
T Consensus 110 ~~~~v~~~~g~~~~-------------------------------~~~~~~~ivi~t~~~l~~~~~-l~~~~~~~vIvDE 157 (500)
T 1z63_A 110 PHLRFAVFHEDRSK-------------------------------IKLEDYDIILTTYAVLLRDTR-LKEVEWKYIVIDE 157 (500)
T ss_dssp TTSCEEECSSSTTS-------------------------------CCGGGSSEEEEEHHHHTTCHH-HHTCCEEEEEEET
T ss_pred CCCEEEEEECCCHH-------------------------------CCCCCCCEEEEEHHHHHCCCH-HCCCCCCEEEEEC
T ss_conf 99559997267021-------------------------------003577689963799726302-1178728799808
Q ss_pred CCCCCCCCCHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHCH---HHHHHHHHHHHHHC
Q ss_conf 533568000999999821135589981689989988999999622479999968899998303---13999999999611
Q 000883 437 GHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDI---NQEEQISRLHRMLA 513 (1238)
Q Consensus 437 aHrlKn~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~~~~~~~F~~~f~~~---~~~~~~~~L~~~L~ 513 (1238)
||+++|..++.++++..+.+.++|+|||||++|++.|||++++|+.|+.+++...|...|... ........|+.++.
T Consensus 158 aH~~kn~~~~~~~~l~~l~~~~~l~LTaTP~~n~~~el~~ll~~l~p~~~~~~~~f~~~~~~~~~~~~~~~~~~l~~~l~ 237 (500)
T 1z63_A 158 AQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGDNMAKEELKAIIS 237 (500)
T ss_dssp GGGGSCTTSHHHHHHHTSCEEEEEEECSSCSTTCHHHHHHHHHHHSTTTTCCHHHHHTTTHHHHHTTCHHHHHHHHHHHT
T ss_pred CCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHH
T ss_conf 41017876899999996004718997467777999999999998587757998999998525111466889999999976
Q ss_pred HHHHHHHHHH--HHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 1255566767--83119995899984159999999999999999999992389--6105999999999970874423699
Q 000883 514 PHLLRRVKKD--VMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGG--AQISLINVVMELRKLCCHPYMLEGV 589 (1238)
Q Consensus 514 p~~lRR~k~d--v~~~LP~k~e~iv~v~ls~~Q~~~Y~~il~~~~~~l~~~~~--~~~~l~~il~~Lrk~c~hP~L~~~~ 589 (1238)
|+++||++.+ +...+|++.+..+.++|++.|+..|+.+.......+....+ ....++..++.|+++|+||.++...
T Consensus 238 ~~~lrr~k~~~~~~~~lp~~~~~~v~~~l~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lr~~~~~p~l~~~~ 317 (500)
T 1z63_A 238 PFILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLKGG 317 (500)
T ss_dssp TTEECCCTTCHHHHTTSCSEEEEEEEECCCHHHHHHHHHHHHHHTTTTTTCCTHHHHHHHHHHHHHHHHHTTCTHHHHCS
T ss_pred HHEEEECCCCCCHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCHHHHCCC
T ss_conf 67455025542411229997589998189999999999999999999986423210679999999999881799884385
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHC-CCCEEEEECCCCHHHHHHHHH
Q ss_conf 9993240799999884212899999999999980870899802224799999998528-982899958889799999999
Q 000883 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRID 668 (1238)
Q Consensus 590 e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~kvLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~R~~~id 668 (1238)
+. ....++|+..+.+++..+...|+|+||||++..+++.|..+|... |+.+.+++|+++..+|+.+++
T Consensus 318 ~~-----------~~~~s~K~~~l~~~l~~~~~~~~k~lvF~~~~~~~~~l~~~l~~~~~~~~~~~~g~~~~~~R~~~~~ 386 (500)
T 1z63_A 318 EQ-----------SVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIIS 386 (500)
T ss_dssp CC-----------CSTTCHHHHHHHHHHHHHHTTTCCEEEECSCHHHHHHHHHHHHHHHTCCCCEEETTSCHHHHHHHHH
T ss_pred CC-----------HHHCCHHHHHHHHHHHHHHCCCCCEEEEEEHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHH
T ss_conf 20-----------1111552999999999987268868999721889999999998853887699979999999999999
Q ss_pred HHHCCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf 97047998448995145433465767788899976999921354898977650998826999983189899999999999
Q 000883 669 RFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKK 748 (1238)
Q Consensus 669 ~Fn~~~s~~~v~Llstragg~GINL~~Ad~VIi~D~dwNP~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEe~I~~~~~~ 748 (1238)
+|++++... ++|+||+++|+||||+.|++||+||++|||..+.||+||+||+||+++|.||+|++++|+||+|++++..
T Consensus 387 ~F~~~~~~~-vil~st~~~~~Glnl~~~~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~lv~~~tiee~i~~~~~~ 465 (500)
T 1z63_A 387 KFQNNPSVK-FIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAF 465 (500)
T ss_dssp HHHHCTTCC-CCEEECCCC-CCCCCTTCSEEEESSCCSCC---CHHHHTTTTTTTTSCEEEEEEEETTSHHHHTHHHHTT
T ss_pred HHCCCCCCC-EEEEECCCCCCCCCHHHCCEEEEECCCCCCCHHHHHHHHHHHCCCCCEEEEEEEEECCCHHHHHHHHHHH
T ss_conf 960899987-7999533355777445588899958998954589999988873898706999977489899999999999
Q ss_pred HHHHHHHHHCCH--HHCCCCHHHHHHHHHHC
Q ss_conf 999999984101--00168988999999713
Q 000883 749 KMVLEHLVVGRL--KAQNINQEELDDIIRYG 777 (1238)
Q Consensus 749 K~~l~~~v~g~~--~~~~~~~~el~~ll~~g 777 (1238)
|..+...+++.. ....++.+|+.+++.+.
T Consensus 466 K~~l~~~~~~~~~~~~~~~~~~~l~~l~~~~ 496 (500)
T 1z63_A 466 KRSLFKDIISSGDSWITELSTEELRKVIELS 496 (500)
T ss_dssp CSSSSSSGGGSTTGGGGSSCHHHHHHHHSCC
T ss_pred HHHHHHHHHHCCCCHHCCCCHHHHHHHHCCC
T ss_conf 9999999860685021159999999996468
No 4
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Probab=1.00 E-value=1 Score=458.86 Aligned_cols=421 Identities=19% Similarity=0.260 Sum_probs=324.4
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHHHCC-CCCEEEEECCCCHHHHHHHHHHHCCCCCEE
Q ss_conf 9991789999999997202798469983899829999999999975099-997499957844899999999886999199
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E~~~~~p~~~vv 362 (1238)
.+|+|||++++.|+... .+.++||||+||+|||+++++++..+...+ .+++|||||.+++.||..||.+|+ ++++.
T Consensus 152 ~~LrpyQ~eav~~~l~~--~~~~~LLad~tGlGKTi~Ai~~i~~l~~~g~~~rvLIVvP~sLl~Qw~~E~~~~f-~l~v~ 228 (968)
T 3dmq_A 152 TSLIPHQLNIAHDVGRR--HAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQHQWLVEMLRRF-NLRFA 228 (968)
T ss_dssp SCCCHHHHHHHHHHHHS--SSCEEEECCCTTSCHHHHHHHHHHHHHHTSSCCCEEEECCTTTHHHHHHHHHHHS-CCCCE
T ss_pred CCCCHHHHHHHHHHHHH--CCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHH-CCCEE
T ss_conf 99709999999999970--5898898789997599999999999998189982999957888999999999986-99879
Q ss_pred EEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHH---CCCCCCCEEEEEECCCCC
Q ss_conf 99768468889997520278991111002467632222222345539991088887200---012797302999626533
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS---ASLKPIKWQCMIVDEGHR 439 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~---~~l~~i~w~~iIiDEaHr 439 (1238)
+++|.......... ......++|+|+||+++..+. ..+....|++||+||||+
T Consensus 229 v~~~~~~~~~~~~~------------------------~~~~~~~dIvI~T~~~L~~~~~~~~~l~~~~~dlVIvDEAH~ 284 (968)
T 3dmq_A 229 LFDDERYAEAQHDA------------------------YNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDLLVVDEAHH 284 (968)
T ss_dssp ECCHHHHHHHHHTT------------------------CSSSTTCSEEEECHHHHHTSTTTTHHHHTSCCCEEEECCSSC
T ss_pred EECCCHHHHHHHHC------------------------CCCCCCCCEEEECHHHHHHCHHHHHHHHHCCCCEEEEHHHHH
T ss_conf 98062055543200------------------------364456898997689986487888876415877897444676
Q ss_pred CCCCCCH---HHHHHHHC--CCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHCHHHHH-----------
Q ss_conf 5680009---99999821--1355899816899899889999996224799999688999983031399-----------
Q 000883 440 LKNKDSK---LFSSLKQY--STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEE----------- 503 (1238)
Q Consensus 440 lKn~~S~---~~~~l~~l--~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~~~~~~~F~~~f~~~~~~~----------- 503 (1238)
++|..+. .++.+..+ .+.++|+|||||++|++.|+|++++|+.|+.|.+...|...+.......
T Consensus 285 ~kn~~~~~s~~~~~l~~L~~~~~~~L~LTATPi~n~~~el~sll~~L~p~~~~~~~~f~~~~~~~~~i~~~~~~l~~~~~ 364 (968)
T 3dmq_A 285 LVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGMESHFARLRLLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNK 364 (968)
T ss_dssp CCCBTTBCCHHHHHHHHHHTTCSSEEESCSSCSSSCSSCTHHHHHHHCTTTCSSTHHHHHHHHHHHHHHHHHHTTTTSCC
T ss_pred HCCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 25888754299999999862578589997687669879999999825930118989999999857889999998742678
Q ss_pred -----------------------------------HHHHHHHHH-----CHHHHHHHHHHHHHCCCCCEEEEEECCCCHH
Q ss_conf -----------------------------------999999961-----1125556676783119995899984159999
Q 000883 504 -----------------------------------QISRLHRML-----APHLLRRVKKDVMKELPPKKELILRVELSSK 543 (1238)
Q Consensus 504 -----------------------------------~~~~L~~~L-----~p~~lRR~k~dv~~~LP~k~e~iv~v~ls~~ 543 (1238)
....+..++ ...++|+++..+ ..+|++....+.+.+++.
T Consensus 365 ~~~~~~~~L~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~i~~lld~~g~~~~l~r~~r~~i-~~~p~r~~~~~~l~~~~~ 443 (968)
T 3dmq_A 365 LSNDELNMLGEMIGEQDIEPLLQAANSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGV-KGFPKRELHTIKLPLPTQ 443 (968)
T ss_dssp CCGGGTTSSTTTTCTTCSSTTGGGTCCCSSCSTTTHHHHHHHHGGGCTTTTTEECCCTTTC-CCCCCCCCCEEEECCCHH
T ss_pred CCHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH-CCCCHHHEEEEECCCCHH
T ss_conf 9988999999884203367887503622233379999999999986173326563226554-556711157523689999
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCC-CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 999999999999999992389610599999999997087442-3699999324079999988421289999999999998
Q 000883 544 QKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYM-LEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKE 622 (1238)
Q Consensus 544 Q~~~Y~~il~~~~~~l~~~~~~~~~l~~il~~Lrk~c~hP~L-~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~ 622 (1238)
....|...... ........ ....+ .+|.. +....... ...+..+.|+..|.+++.. .
T Consensus 444 ~~~~~~~~~~~-----~~~~~~~~-------~~~~~-l~pe~~~~~l~~~~-------~~~~~~~~K~~~L~~ll~~--~ 501 (968)
T 3dmq_A 444 YQTAIKVSGIM-----GARKSAED-------RARDM-LYPERIYQEFEGDN-------ATWWNFDPRVEWLMGYLTS--H 501 (968)
T ss_dssp HHHHHHHHHHT-----TCCSSGGG-------GTHHH-HCSGGGTTTTTSSS-------CCTTTTSHHHHHHHHHHHH--T
T ss_pred HHHHHHHHHHH-----HHHHHHHH-------HHHHH-CCHHHHHHHHHHHH-------HCCCCCCHHHHHHHHHHHH--C
T ss_conf 99999987543-----02126677-------77641-08598998764333-------1356856799999999983--7
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHH-CCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEEE
Q ss_conf 087089980222479999999852-8982899958889799999999970479984489951454334657677888999
Q 000883 623 QGHRVLIYSQFQHMLDLLEDYLTF-KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVII 701 (1238)
Q Consensus 623 ~g~kvLIFsq~~~~ldiL~~~L~~-~g~~~~ridG~~~~~~R~~~id~Fn~~~s~~~v~Llstragg~GINL~~Ad~VIi 701 (1238)
.+.++||||++..+++.|...|.. .|+++..++|+++..+|+.+++.|+++.+. +.+|++|+++++|||++.+++||+
T Consensus 502 ~~~k~iVF~~~~~~~~~l~~~L~~~~g~~~~~lhG~~~~~~R~~~l~~F~~g~~~-~~vLvaT~v~~~GlDl~~~~~VI~ 580 (968)
T 3dmq_A 502 RSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTG-AQVLLCSEIGSEGRNFQFASHMVM 580 (968)
T ss_dssp SSSCCCEECSSTHHHHHHHHHHHTTTCCCEEEECTTSCTTHHHHHHHHHHSTTSS-CEEEECSCCTTCSSCCTTCCEEEC
T ss_pred CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCC-CCEEEECCHHHCCCCCCCCCEEEE
T ss_conf 9997899969599999999999987498389984999999999999997479976-308985334316888556767999
Q ss_pred ECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 769999213548989776509988269999831898999999999999999999
Q 000883 702 YDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHL 755 (1238)
Q Consensus 702 ~D~dwNP~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEe~I~~~~~~K~~l~~~ 755 (1238)
||++|||..+.|++||++|+||++.|.||++++.+|+|++|++...+|..+...
T Consensus 581 ~d~p~~~~~~~Q~~GR~~R~Gq~~~v~v~~~~~~~t~ee~i~~~~~~k~~~~~~ 634 (968)
T 3dmq_A 581 FDLPFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWYHEGLDAFEH 634 (968)
T ss_dssp SSCCSSHHHHHHHHHTTSCSSSCSCCEEEEEEETTSHHHHHHHHHHHTTCCSSS
T ss_pred ECCCCCHHHHHHHHHCCCCCCCCCEEEEEEECCCCHHHHHHHHHHHHCCCCEEC
T ss_conf 569998789998701143079985089998057771999999999867876353
No 5
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19
Probab=1.00 E-value=1 Score=384.28 Aligned_cols=421 Identities=14% Similarity=0.176 Sum_probs=295.5
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCEEEEECC-CCHHHHHHHHHHHC--CCCC
Q ss_conf 99917899999999972027984699838998299999999999750999974999578-44899999999886--9991
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWA--PQMN 360 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~--p~~~ 360 (1238)
.+|+|||.+++.|+ ..+ ++||+++||+|||++++.++..+.....+++|||||. +++.||.+++.+|+ |...
T Consensus 8 ~~l~~~Q~~~i~~~----~~~-~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~ 82 (494)
T 1wp9_A 8 IQPRIYQEVIYAKC----KET-NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEK 82 (494)
T ss_dssp HCCCHHHHHHHHHG----GGS-CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSHHHHHHHHHHHHHHBCSCGGG
T ss_pred CCCCHHHHHHHHHH----HHC-CEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHHHCCCHHH
T ss_conf 78639999999999----619-9899918998789999999999986479859999788899999999999874756111
Q ss_pred EEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHC--CCCCCCEEEEEECCCC
Q ss_conf 99997684688899975202789911110024676322222223455399910888872000--1279730299962653
Q 000883 361 VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 361 vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~--~l~~i~w~~iIiDEaH 438 (1238)
+..++|.......... ...++|+|+||+.+..... .+....|++||+||||
T Consensus 83 v~~~~g~~~~~~~~~~---------------------------~~~~~ivv~T~~~l~~~~~~~~~~~~~~~~vIiDEaH 135 (494)
T 1wp9_A 83 IVALTGEKSPEERSKA---------------------------WARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAH 135 (494)
T ss_dssp EEEECSCSCHHHHHHH---------------------------HHHCSEEEECHHHHHHHHHTTSCCTTSCSEEEEETGG
T ss_pred EEEEECCCCHHHHHHH---------------------------CCCCCEEEECHHHHHHHHHCCCCCHHHCEEEEEECCC
T ss_conf 6876077533556653---------------------------3579899963999999986087156541089997875
Q ss_pred CCCCCCCH--HHHHHHH-CCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCC---CHHHHHHHH-H-------CHHHHHH
Q ss_conf 35680009--9999982-1135589981689989988999999622479999---968899998-3-------0313999
Q 000883 439 RLKNKDSK--LFSSLKQ-YSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFG---SLEEFQEEF-K-------DINQEEQ 504 (1238)
Q Consensus 439 rlKn~~S~--~~~~l~~-l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~~~---~~~~F~~~f-~-------~~~~~~~ 504 (1238)
++++..+. +...+.. ....++++|||||. ++..+++.++.++.+.... ....+...+ . .......
T Consensus 136 ~~~~~~~~~~~~~~~~~~~~~~~~l~lTaTp~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 214 (494)
T 1wp9_A 136 RAVGNYAYVFIAREYKRQAKNPLVIGLTASPG-STPEKIMEVINNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEI 214 (494)
T ss_dssp GCSTTCHHHHHHHHHHHHCSSCCEEEEESCSC-SSHHHHHHHHHHTTCCEEEECCTTSTTTGGGCCCCCEEEEEECCCHH
T ss_pred CCCCCCCHHHHHHHHHHCCCCCEEEEEECCCC-CCCHHHHHHHHHCCHHEEECCCCCCHHHHHHCCCCCEEEEECCCCHH
T ss_conf 66888819999999973288776999956998-88578999998507000502678758788752787426895688588
Q ss_pred HHHHHHHHCHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHC----------------------
Q ss_conf 9999996111255566767831199958999841599999999999999999999923----------------------
Q 000883 505 ISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRR---------------------- 562 (1238)
Q Consensus 505 ~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~iv~v~ls~~Q~~~Y~~il~~~~~~l~~~---------------------- 562 (1238)
...+...+.+.+.++.+......+..... ..++........ ......+...
T Consensus 215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (494)
T 1wp9_A 215 YKEVRKLLREMLRDALKPLAETGLLESSS----PDIPKKEVLRAG---QIINEEMAKGNHDLRGLLLYHAMALKLHHAIE 287 (494)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTSSSCCC----TTSCHHHHHHHH---HHHHHHHTTTCCSTTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCC----CCCCHHHHHHHH---HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 99999989899999999999735565457----773355789999---99998753356311347999988888999999
Q ss_pred ---CCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHH----------HHHHHHHHHHHHHHHHHHH--HCCCEE
Q ss_conf ---8961059999999999708744236999993240799999----------8842128999999999999--808708
Q 000883 563 ---GGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESFKQ----------LLESSGKLQLLDKMMVKLK--EQGHRV 627 (1238)
Q Consensus 563 ---~~~~~~l~~il~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~----------li~~S~Kl~~L~klL~~l~--~~g~kv 627 (1238)
......+...+..+...+.|+..... .. ......+.. ....++|+..|.++|.... ..++|+
T Consensus 288 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~k~~~l~~~l~~~~~~~~~~k~ 364 (494)
T 1wp9_A 288 LLETQGLSALRAYIKKLYEEAKAGSTKAS--KE-IFSDKRMKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKI 364 (494)
T ss_dssp HHHHTCHHHHHHHHHHHHHHHHTTCCHHH--HH-HHTSHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHHCTTCCE
T ss_pred HHHHHCHHHHHHHHHHHHHHHCCCCCHHH--HH-HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCEE
T ss_conf 99852579999999999875223211455--66-6650788989999998874589986999999999998436899759
Q ss_pred EEEECCHHHHHHHHHHHHHCCCCEEEEEC--------CCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEE
Q ss_conf 99802224799999998528982899958--------8897999999999704799844899514543346576778889
Q 000883 628 LIYSQFQHMLDLLEDYLTFKKWQYERIDG--------KVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1238)
Q Consensus 628 LIFsq~~~~ldiL~~~L~~~g~~~~ridG--------~~~~~~R~~~id~Fn~~~s~~~v~Llstragg~GINL~~Ad~V 699 (1238)
|||+++..+++.|.++|...|+.+.+++| +++..+|+.+++.|+++... +|++|+++++||||+.+++|
T Consensus 365 lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~~~~~---vLv~T~~~~~Gldl~~~~~V 441 (494)
T 1wp9_A 365 IVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFN---VLVATSVGEEGLDVPEVDLV 441 (494)
T ss_dssp EEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHHTSCS---EEEECGGGGGGGGSTTCCEE
T ss_pred EEEECCHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCE---EEEECCCCCCCCCCHHCCEE
T ss_conf 999766899999999999759980799656654444458999999999998669946---99988841258871437989
Q ss_pred EEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHH
Q ss_conf 997699992135489897765099882699998318989999999999999999
Q 000883 700 IIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLE 753 (1238)
Q Consensus 700 Ii~D~dwNP~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEe~I~~~~~~K~~l~ 753 (1238)
|+||++|||..++|++||++|.|| +.+|+|++.+|+||+++.++.+|..+.
T Consensus 442 i~~d~~~~~~~~~Qr~GR~~R~g~---g~~~~l~~~~t~ee~~~~~~~~k~~~~ 492 (494)
T 1wp9_A 442 VFYEPVPSAIRSIQRRGRTGRHMP---GRVIILMAKGTRDEAYYWSSRQKEKIM 492 (494)
T ss_dssp EESSCCHHHHHHHHHHTTSCSCCC---SEEEEEEETTSHHHHHHHHCC------
T ss_pred EEECCCCCHHHHHHHHHHCCCCCC---CEEEEEEECCCHHHHHHHHHHHHHHHH
T ss_conf 992898878999998752257788---469999956987899999888789873
No 6
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*
Probab=1.00 E-value=1 Score=358.58 Aligned_cols=377 Identities=16% Similarity=0.217 Sum_probs=280.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCEEEEECC-CCHHHHHHHHHHHCCCCC
Q ss_conf 8999917899999999972027984699838998299999999999750999974999578-448999999998869991
Q 000883 282 SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMN 360 (1238)
Q Consensus 282 ~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~~~ 360 (1238)
.+.+|+|||.++++++ ..+.++||+++||+|||++++.++..+ ..++|||||. +++.||.++|.+| +..
T Consensus 90 ~~~~l~~~Q~~ai~~i----~~~~~~ll~~~TGsGKT~~~l~~i~~~----~~~~Lvl~P~~~L~~Q~~~~~~~~--~~~ 159 (472)
T 2fwr_A 90 AEISLRDYQEKALERW----LVDKRGCIVLPTGSGKTHVAMAAINEL----STPTLIVVPTLALAEQWKERLGIF--GEE 159 (472)
T ss_dssp CCCCBCHHHHHHHHHH----TTTTEEEEECCTTSCHHHHHHHHHHHH----CSCEEEEESSHHHHHHHHHHGGGG--CGG
T ss_pred CCCCCCHHHHHHHHHH----HHCCCEEEEECCCCCHHHHHHHHHHHC----CCCEEEEECCHHHHHHHHHHHHHC--CCC
T ss_conf 8998688999999999----965987999699998899999999980----999999987999999999999967--996
Q ss_pred -EEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHCCCCCCCEEEEEECCCCC
Q ss_conf -9999768468889997520278991111002467632222222345539991088887200012797302999626533
Q 000883 361 -VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHR 439 (1238)
Q Consensus 361 -vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~l~~i~w~~iIiDEaHr 439 (1238)
+.+++|... ...+|+|+||+.+......+. -.|++||+||||+
T Consensus 160 ~v~~~~g~~~-----------------------------------~~~~Ivv~T~~~l~~~~~~~~-~~~~liIvDEaH~ 203 (472)
T 2fwr_A 160 YVGEFSGRIK-----------------------------------ELKPLTVSTYDSAYVNAEKLG-NRFMLLIFDEVHH 203 (472)
T ss_dssp GEEEBSSSCB-----------------------------------CCCSEEEEEHHHHHHTHHHHT-TTCSEEEEETGGG
T ss_pred CEEEECCCCC-----------------------------------CCCCEEEEECHHHHHHHHHHC-CCCCEEEEECCCC
T ss_conf 3699878767-----------------------------------767789997689997799736-8777899989757
Q ss_pred CCCCCCHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHCHHHHHHHHHHHHHHCHHHHHH
Q ss_conf 56800099999982113558998168998998899999962247999996889999830313999999999611125556
Q 000883 440 LKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRR 519 (1238)
Q Consensus 440 lKn~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~~~~~~~F~~~f~~~~~~~~~~~L~~~L~p~~lRR 519 (1238)
+.+.... ..+..+...++++|||||.+++..+ ..+...+.+.+.++
T Consensus 204 ~~~~~~~--~~~~~~~~~~~l~lSATp~~~~~~~--------------------------------~~l~~~~~~~~~~~ 249 (472)
T 2fwr_A 204 LPAESYV--QIAQMSIAPFRLGLTATFEREDGRH--------------------------------EILKEVVGGKVFEL 249 (472)
T ss_dssp TTSTTTH--HHHHTCCCSEEEEEESCCCCTTSGG--------------------------------GSHHHHTCCEEEEC
T ss_pred CCCHHHH--HHHHHCCCCEEEEEECCCCCCCCHH--------------------------------HHHHHHHCCEEEEC
T ss_conf 8976899--9997357781899932766889778--------------------------------99999729857654
Q ss_pred HHHHHHH-CCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHH
Q ss_conf 6767831-199958999841599999999999999999999923896105999999999970874423699999324079
Q 000883 520 VKKDVMK-ELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNE 598 (1238)
Q Consensus 520 ~k~dv~~-~LP~k~e~iv~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~il~~Lrk~c~hP~L~~~~e~~~~~~~~ 598 (1238)
...++.. .+++.....+.+++++.+...|..+.......+............ +..+-.++. ..............
T Consensus 250 ~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~~ 325 (472)
T 2fwr_A 250 FPDSLAGKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAED-FNKIVMASG---YDERAYEALRAWEE 325 (472)
T ss_dssp CHHHHTSCCCCSEEECCEEECCCHHHHHHTTTTTHHHHSCSSSCCCTTTCCSS-STTTTTTTC---CSSSSSTTTHHHHH
T ss_pred CHHHHHCCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHH-HHHHHHHHC---CCHHHHHHHHHHHH
T ss_conf 78987067678818999985899899999999999999999864754224466-899998723---69889999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCE
Q ss_conf 99998842128999999999999808708998022247999999985289828999588897999999999704799844
Q 000883 599 SFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRF 678 (1238)
Q Consensus 599 ~~~~li~~S~Kl~~L~klL~~l~~~g~kvLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~id~Fn~~~s~~~ 678 (1238)
........+.|+..|.+++.. ..++++|||+++..+++.|...|. +..++|.++..+|+.+++.|+++...
T Consensus 326 ~~~~~~~~~~k~~~l~~~l~~--~~~~k~lvF~~~~~~~~~l~~~l~-----~~~~~g~~~~~~R~~~~~~F~~g~~~-- 396 (472)
T 2fwr_A 326 ARRIAFNSKNKIRKLREILER--HRKDKIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRFR-- 396 (472)
T ss_dssp HHHHHHSCSHHHHHHHHHHHH--TSSSCBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCSHHHHTHHHHHHHSSCS--
T ss_pred HHHHHHCCHHHHHHHHHHHHH--CCCCCEEEEECCHHHHHHHHHHHC-----CCEEECCCCHHHHHHHHHHHHCCCCC--
T ss_conf 999763373899999999985--789838999797999999999748-----65562899999999999998679988--
Q ss_pred EEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCC-CCEEEEEEECCCCHHHHHHHHHHHHHHH
Q ss_conf 8995145433465767788899976999921354898977650998-8269999831898999999999999999
Q 000883 679 CFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQT-NKVMIFRLITRGSIEERMMQMTKKKMVL 752 (1238)
Q Consensus 679 v~Llstragg~GINL~~Ad~VIi~D~dwNP~~~~Qa~gR~hRiGQ~-k~V~VyrLit~~TvEe~I~~~~~~K~~l 752 (1238)
+|++|+++++|+|++.+++||++|++|||..++|+.||++|.||. +.|.||+|++++|+|+++.++.++|..+
T Consensus 397 -vLv~T~~~~~Gldlp~~~~Vi~~~~~~s~~~~~Q~~GR~~R~g~~k~~~~i~~lv~~~t~ee~~~~~r~~~~~~ 470 (472)
T 2fwr_A 397 -AIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEAVLYELISRGTGEVNTARRRKNAAKG 470 (472)
T ss_dssp -BCBCSSCCCSSSCSCCBSEEEEECCSSCCHHHHHHHHHSBCCCTTTCCEEEEEEEECSCC--------------
T ss_pred -EEEECCCHHCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCHHHHHHHHHHHHCC
T ss_conf -89985705148462028689998999988899998763157779985399999981998537999999876505
No 7
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination, hydrolase-recombination complex; 2.00A {Sulfolobus solfataricus} SCOP: c.37.1.19
Probab=1.00 E-value=1 Score=351.14 Aligned_cols=253 Identities=27% Similarity=0.440 Sum_probs=225.0
Q ss_pred HHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 25556676783119995899984159999999999999999999992389--6105999999999970874423699999
Q 000883 515 HLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGG--AQISLINVVMELRKLCCHPYMLEGVEPD 592 (1238)
Q Consensus 515 ~~lRR~k~dv~~~LP~k~e~iv~v~ls~~Q~~~Y~~il~~~~~~l~~~~~--~~~~l~~il~~Lrk~c~hP~L~~~~e~~ 592 (1238)
.-+||+|++|..+|||+.+.+++|+||+.|+++|+.++.+....+....+ ....+++.++.||++|+||+++....
T Consensus 12 ~~~rr~k~~v~~~LP~k~e~~v~v~ls~~Q~~~Y~~~~~~~~~~~~~~~~~~~~~~~l~~l~~Lrq~~~hP~l~~~~~-- 89 (271)
T 1z5z_A 12 SGLVPRGSHMASDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLKGGE-- 89 (271)
T ss_dssp ----------------CEEEEEEECCCHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHTTCTHHHHCSC--
T ss_pred CCCCCCHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHCCCC--
T ss_conf 564164877875199977999981899999999999999999999740352128899999999999848998846873--
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHC-CCCEEEEECCCCHHHHHHHHHHHH
Q ss_conf 3240799999884212899999999999980870899802224799999998528-982899958889799999999970
Q 000883 593 IEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRIDRFN 671 (1238)
Q Consensus 593 ~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~kvLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~R~~~id~Fn 671 (1238)
.++..|+|+..|.++|..+.+.|+|+||||+++.++++|+.+|... |+++.+++|+++..+|+.+++.|+
T Consensus 90 ---------~~~~~s~K~~~L~~ll~~~~~~~~kvlIFs~~~~~~~~l~~~L~~~~g~~~~~l~G~~~~~~R~~~i~~F~ 160 (271)
T 1z5z_A 90 ---------QSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQ 160 (271)
T ss_dssp ---------CCSTTCHHHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSCHHHHHHHHHHHH
T ss_pred ---------CCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHC
T ss_conf ---------22346899999999999998679969999551999999999998733984799979999999999999832
Q ss_pred CCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHHHHHHHH
Q ss_conf 47998448995145433465767788899976999921354898977650998826999983189899999999999999
Q 000883 672 AKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMV 751 (1238)
Q Consensus 672 ~~~s~~~v~Llstragg~GINL~~Ad~VIi~D~dwNP~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEe~I~~~~~~K~~ 751 (1238)
+++... +||+||++||+||||+.|++||+||++|||..++||+||+||+||+++|.||+|++.+|+||+|++++..|..
T Consensus 161 ~~~~~~-v~L~st~~~g~Glnl~~a~~VI~~d~~wnp~~~~Q~~gR~~R~Gq~~~v~v~~li~~~TiEe~i~~~~~~K~~ 239 (271)
T 1z5z_A 161 NNPSVK-FIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRS 239 (271)
T ss_dssp HCTTCC-EEEEECCTTCCCCCCTTCSEEEECSCCSCTTTC--------------CCEEEEEEETTSHHHHHHHHHHHCHH
T ss_pred CCCCCC-EEEEEHHHHCCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHH
T ss_conf 899997-8997223515886764489999979999851899999852323899856999985498899999999999999
Q ss_pred HHHHHHCCHH--HCCCCHHHHHHHHHHCHH
Q ss_conf 9999841010--016898899999971312
Q 000883 752 LEHLVVGRLK--AQNINQEELDDIIRYGSK 779 (1238)
Q Consensus 752 l~~~v~g~~~--~~~~~~~el~~ll~~ga~ 779 (1238)
+...+++... ...++.+++.+++.++..
T Consensus 240 l~~~~~~~~~~~~~~~~~~~l~~l~~~~~~ 269 (271)
T 1z5z_A 240 LFKDIISSGDSWITELSTEELRKVIELSVG 269 (271)
T ss_dssp HHTTGGGGTTHHHHTSCHHHHHHHHSCCCT
T ss_pred HHHHHHCCCCHHHHCCCHHHHHHHHCCCCC
T ss_conf 999997167054323899999999655889
No 8
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos}
Probab=1.00 E-value=1 Score=346.18 Aligned_cols=435 Identities=14% Similarity=0.171 Sum_probs=264.1
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHCC
Q ss_conf 99991789999999997202798469983899829999999999975099----9974999578-448999999998869
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWAP 357 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIVvP~-sll~qW~~E~~~~~p 357 (1238)
..+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||+ +++.||.++|.++++
T Consensus 246 ~~~~r~~Q~~ai~~i----l~g~~~ll~a~TGsGKTl~~~~~i~~~l~~~~~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~ 321 (936)
T 4a2w_A 246 TKKARSYQIELAQPA----INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFE 321 (936)
T ss_dssp --CCCHHHHHHHHHH----HTTCCEEEECCTTSCHHHHHHHHHHTTTTTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHH----HCCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHHC
T ss_conf 898779999999999----8099899996998459999999999999736556898599996989999999999999712
Q ss_pred --CCCEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHC--CC-CCCCEEEE
Q ss_conf --99199997684688899975202789911110024676322222223455399910888872000--12-79730299
Q 000883 358 --QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SL-KPIKWQCM 432 (1238)
Q Consensus 358 --~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~--~l-~~i~w~~i 432 (1238)
++.+..++|+...+..... .....+|+|+||+.+..... .+ ....|++|
T Consensus 322 ~~~~~v~~~~G~~~~~~~~~~--------------------------~~~~~~IvI~Tp~~L~~~l~~~~~~~l~~~~li 375 (936)
T 4a2w_A 322 RQGYSVQGISGENFSNVSVEK--------------------------VIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 375 (936)
T ss_dssp TTTCCEEEECCC-----CCHH--------------------------HHHHCSEEEECHHHHHHHHHSSSCCCGGGCSEE
T ss_pred CCCCEEEEEECCCCHHHHHHH--------------------------HCCCCCEEEECHHHHHHHHHCCCCCCCCCCCEE
T ss_conf 169559999799631257897--------------------------416999999449999999871764533678799
Q ss_pred EECCCCCCCCCCCHHHHHHHHC-C--------CCCEEEEECCCCCCCHHHHHHH-------HHHHCCCC----CCCHHHH
Q ss_conf 9626533568000999999821-1--------3558998168998998899999-------96224799----9996889
Q 000883 433 IVDEGHRLKNKDSKLFSSLKQY-S--------TRHRVLLTGTPLQNNLDELFML-------MHFLDAGK----FGSLEEF 492 (1238)
Q Consensus 433 IiDEaHrlKn~~S~~~~~l~~l-~--------~~~rllLTGTPlqNn~~EL~~l-------l~fL~p~~----~~~~~~F 492 (1238)
|+||||++.+..+ ....+..+ . ...+++|||||.+++..++... ...+.... ......+
T Consensus 376 ViDEaH~~~~~~~-~~~i~~~~~~~~~~~~~~~~~~l~LSATp~~~~~~~l~~~~~~i~~L~~~L~~~~i~~~~~~~~~l 454 (936)
T 4a2w_A 376 IFDECHNTTGNHP-YNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQEL 454 (936)
T ss_dssp EEETGGGCSTTCH-HHHHHHHHHHHHHTTCSCCCEEEEEESCCCCTTCCSHHHHHHHHHHHHHHHTCSEEECCCSSHHHH
T ss_pred EEECCCCCCCCCC-HHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEECCCCCHHHH
T ss_conf 9987313599866-999999999986313788673998638855454020899999999999854971553465448999
Q ss_pred HHHHHCHH-------------HH----HHHHHHHHHHCHH----------------------HHHHHHHHHHHCCCCCEE
Q ss_conf 99983031-------------39----9999999961112----------------------555667678311999589
Q 000883 493 QEEFKDIN-------------QE----EQISRLHRMLAPH----------------------LLRRVKKDVMKELPPKKE 533 (1238)
Q Consensus 493 ~~~f~~~~-------------~~----~~~~~L~~~L~p~----------------------~lRR~k~dv~~~LP~k~e 533 (1238)
...+.... .. .....++..+..+ +....+......+|.
T Consensus 455 ~~~~~~p~~~~~~~~~~~~~~~~~~l~~l~~~i~~~~~~~l~~~~l~~~~~~~~g~~~y~~~l~~l~k~~~~~~l~~--- 531 (936)
T 4a2w_A 455 QRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLED--- 531 (936)
T ss_dssp HHHSCCCCEEEEECCCCSCCHHHHHHHHHHHHHHHHHHHC------------CCSSHHHHHHHHHHHHHHHHCCCSC---
T ss_pred HHHCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCC---
T ss_conf 87536776237733655675799999999999999999887665553202233225779999999999887740553---
Q ss_pred EEEECCCCHHHHHHHHHHHHHHH------HHH--HHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHH----H
Q ss_conf 99841599999999999999999------999--92389610599999999997087442369999932407999----9
Q 000883 534 LILRVELSSKQKEYYKAILTRNY------QIL--TRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESF----K 601 (1238)
Q Consensus 534 ~iv~v~ls~~Q~~~Y~~il~~~~------~~l--~~~~~~~~~l~~il~~Lrk~c~hP~L~~~~e~~~~~~~~~~----~ 601 (1238)
...+...+..+..... ..+ ....+ .......+...+....- .+..+........+ .
T Consensus 532 -------~~~~~~~~~~l~~~~~~l~~~~~al~i~~~~~----~~~~~~~l~~~~~~~~~-~~~~~~e~~l~~~~~~~~~ 599 (936)
T 4a2w_A 532 -------KEEESRICRALFICTEHLRKYNDALIISEDAR----IIDALSYLTEFFTNVKN-GPYTELEQHLTAKFQEKEP 599 (936)
T ss_dssp -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC----HHHHHHHHHHHHHHHHH-TTCCHHHHHHHHHHHHHHH
T ss_pred -------CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH----HHHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHH
T ss_conf -------21035799999999999999888875002042----88899999999998763-2588789999998999999
Q ss_pred HH-------HHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHHC------------CCCEEEEECCCCH
Q ss_conf 98-------842128999999999999--80870899802224799999998528------------9828999588897
Q 000883 602 QL-------LESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTFK------------KWQYERIDGKVGG 660 (1238)
Q Consensus 602 ~l-------i~~S~Kl~~L~klL~~l~--~~g~kvLIFsq~~~~ldiL~~~L~~~------------g~~~~ridG~~~~ 660 (1238)
.+ ...++|+..|.++|.... ..++|+|||++++.+++.|.++|... |..+..++|+++.
T Consensus 600 ~l~~~~~~~~~~~~K~~~L~~lL~~~~~~~~~~rvLIF~~t~~~ae~L~~~L~~~~~l~~ik~~~l~G~~~~~~hg~m~~ 679 (936)
T 4a2w_A 600 ELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTL 679 (936)
T ss_dssp HHHHHHTSTTCCCHHHHHHHHHHHHTTTSCTTCCEEEEESSHHHHHHHHHHHHHCSTTSSCCCEEC--------------
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCH
T ss_conf 99976405677897999999999998535899749999697999999999986373536666169965787656788899
Q ss_pred HHHHHHHHHHHC-CCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHH
Q ss_conf 999999999704-7998448995145433465767788899976999921354898977650998826999983189899
Q 000883 661 AERQIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIE 739 (1238)
Q Consensus 661 ~~R~~~id~Fn~-~~s~~~v~Llstragg~GINL~~Ad~VIi~D~dwNP~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvE 739 (1238)
.+|+.++++|++ +... +|++|+++++|||++.+++||+||++|||..++|++|| |+.+++.+|.|++.+|+|
T Consensus 680 ~eR~~il~~Fr~~g~~~---VLVaT~~~~eGIDlp~v~~VI~yD~p~s~~~~iQr~GR----GR~~~g~vi~Li~~~t~e 752 (936)
T 4a2w_A 680 PSQKGVLDAFKTSKDNR---LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTEVV 752 (936)
T ss_dssp --------------CCS---EEEEECC------CCCCSEEEEESCCSCSHHHHCC-----------CCCEEEEESCHHHH
T ss_pred HHHHHHHHHHHCCCCEE---EEEEECCHHCCCCCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCCHH
T ss_conf 99999999863159815---99980726427760558989993899988999996487----788887799998698899
Q ss_pred HHHHHHHHHHHHHHHHHHCCHHHCCCCHHHHHHH
Q ss_conf 9999999999999999841010016898899999
Q 000883 740 ERMMQMTKKKMVLEHLVVGRLKAQNINQEELDDI 773 (1238)
Q Consensus 740 e~I~~~~~~K~~l~~~v~g~~~~~~~~~~el~~l 773 (1238)
++.. ....|..+...++..+ +.++.+++...
T Consensus 753 e~~~-~~~~ke~~~~~~i~~l--~~~~~~~~~~~ 783 (936)
T 4a2w_A 753 ENEK-CNRYKEEMMNKAVEKI--QKWDEETFAKK 783 (936)
T ss_dssp HHHH-HHHHHHHHHHHHHHHH--HTSCHHHHHHH
T ss_pred HHHH-HHHHHHHHHHHHHHHH--HCCCHHHHHHH
T ss_conf 9999-9889999999999986--44799999999
No 9
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos}
Probab=1.00 E-value=1 Score=340.34 Aligned_cols=437 Identities=14% Similarity=0.148 Sum_probs=265.7
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHCC
Q ss_conf 99991789999999997202798469983899829999999999975099----9974999578-448999999998869
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWAP 357 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIVvP~-sll~qW~~E~~~~~p 357 (1238)
..+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||+ +++.||.++|.++++
T Consensus 246 ~~~l~~~Q~~~i~~~----l~~~~~ll~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~Lvl~Pt~~L~~Q~~~~~~~~~~ 321 (797)
T 4a2q_A 246 TKKARSYQIELAQPA----INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFE 321 (797)
T ss_dssp --CCCHHHHHHHHHH----HTTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHG
T ss_pred CCCCCHHHHHHHHHH----HHCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHCC
T ss_conf 899999999999999----8099989996999729999999999999846656799699996989999999999998614
Q ss_pred --CCCEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHC--CC-CCCCEEEE
Q ss_conf --99199997684688899975202789911110024676322222223455399910888872000--12-79730299
Q 000883 358 --QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SL-KPIKWQCM 432 (1238)
Q Consensus 358 --~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~--~l-~~i~w~~i 432 (1238)
++.+..++|........... ....+|+|+||+.+..... .+ ....|++|
T Consensus 322 ~~~~~v~~~~g~~~~~~~~~~~--------------------------~~~~~Ivv~Tp~~l~~~l~~~~~~~~~~~~~i 375 (797)
T 4a2q_A 322 RQGYSVQGISGENFSNVSVEKV--------------------------IEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 375 (797)
T ss_dssp GGTCCEEEECCC-----CHHHH--------------------------HHTCSEEEECHHHHHHHHHSSSCCCGGGCSEE
T ss_pred CCCCEEEEEECCCCHHHHHHHH--------------------------HCCCCEEEECHHHHHHHHHHCCCCCCCCCCEE
T ss_conf 3794699996996232469974--------------------------07999999766999999982654651337789
Q ss_pred EECCCCCCCCCCCHHHHHHHHC-C--------CCCEEEEECCCCCCCHHH----------HHHHHHHHCCC-CCCCHHHH
Q ss_conf 9626533568000999999821-1--------355899816899899889----------99999622479-99996889
Q 000883 433 IVDEGHRLKNKDSKLFSSLKQY-S--------TRHRVLLTGTPLQNNLDE----------LFMLMHFLDAG-KFGSLEEF 492 (1238)
Q Consensus 433 IiDEaHrlKn~~S~~~~~l~~l-~--------~~~rllLTGTPlqNn~~E----------L~~ll~fL~p~-~~~~~~~F 492 (1238)
|+||||++.+..+. ...+..+ . ..++++|||||.+++..+ ++..++.-... .......+
T Consensus 376 ViDEaH~~~~~~~~-~~i~~~~~~~~~~~~~~~~~~l~lSATp~~~~~~~~~~~~~~i~~l~~~L~~~~i~~~~~~~~~l 454 (797)
T 4a2q_A 376 IFDECHNTTGNHPY-NVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQEL 454 (797)
T ss_dssp EETTGGGCSTTSHH-HHHHHHHHHHHHTTCCCCCEEEEEESCCCCTTCCSHHHHHHHHHHHHHHHTCSEEECCCTTHHHH
T ss_pred EEECCCCCCCCCCH-HHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEECCCCCHHHH
T ss_conf 99886355887649-99999999976314788785999727755455224899999999999854984885454317889
Q ss_pred HHHHHCHH-----------------HHHHHHHHHHHHCHHHH----------------------HHHHHHHHHCCCCCEE
Q ss_conf 99983031-----------------39999999996111255----------------------5667678311999589
Q 000883 493 QEEFKDIN-----------------QEEQISRLHRMLAPHLL----------------------RRVKKDVMKELPPKKE 533 (1238)
Q Consensus 493 ~~~f~~~~-----------------~~~~~~~L~~~L~p~~l----------------------RR~k~dv~~~LP~k~e 533 (1238)
...+.... .......++..+..++- ...+......++
T Consensus 455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~l~~l~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~---- 530 (797)
T 4a2q_A 455 QRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLE---- 530 (797)
T ss_dssp HHHSCCCCCEEEECCCCSCCHHHHHHHHHHHHHHHHHHHC------------CCSSHHHHHHHHHHHHHHHHCCCS----
T ss_pred HHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCC----
T ss_conf 9735888548884577778678999999999999999998756776530000114056778999999987774034----
Q ss_pred EEEECCCCHHHHHHHHHHHHHHHH------HHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCH-------HHHH
Q ss_conf 998415999999999999999999------999238961059999999999708744236999993240-------7999
Q 000883 534 LILRVELSSKQKEYYKAILTRNYQ------ILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDT-------NESF 600 (1238)
Q Consensus 534 ~iv~v~ls~~Q~~~Y~~il~~~~~------~l~~~~~~~~~l~~il~~Lrk~c~hP~L~~~~e~~~~~~-------~~~~ 600 (1238)
....+...+..+...... .+... ...........++..+.+..-. +..+..... ...+
T Consensus 531 ------~~~~~~~~~~~l~~~~~~l~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~l 601 (797)
T 4a2q_A 531 ------DKEEESRICRALFICTEHLRKYNDALIIS--EDARIIDALSYLTEFFTNVKNG-PYTELEQHLTAKFQEKEPEL 601 (797)
T ss_dssp ------SHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHSCHHHHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHTTHHHH
T ss_pred ------CCCHHHHHHHHHHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHH
T ss_conf ------32025679999999999999999887654--1325888999999999987504-76689999999999999999
Q ss_pred ----HHHHHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHH------------CCCCEEEEECCCCHHH
Q ss_conf ----998842128999999999999--8087089980222479999999852------------8982899958889799
Q 000883 601 ----KQLLESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTF------------KKWQYERIDGKVGGAE 662 (1238)
Q Consensus 601 ----~~li~~S~Kl~~L~klL~~l~--~~g~kvLIFsq~~~~ldiL~~~L~~------------~g~~~~ridG~~~~~~ 662 (1238)
......++|+..|.++|.... ..++|+||||+++.+++.|.++|.. .|..+..++|+++..+
T Consensus 602 ~~~~~~~~~~~~K~~~L~~lL~~~~~~~~~~kvLIF~~~~~~~~~L~~~L~~~~~~~~~~~~~l~G~~~~~~hg~~~~~e 681 (797)
T 4a2q_A 602 IALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPS 681 (797)
T ss_dssp HHHHHCTTCCCHHHHHHHHHHHHHHHHCSSCCEEEEESSHHHHHHHHHHHHTCSTTCSCCCEEC----------------
T ss_pred HHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCCCCCCCHHH
T ss_conf 87630788899599999999999850589970899979589999999999747564665521898447754578989999
Q ss_pred HHHHHHHHHC-CCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHH
Q ss_conf 9999999704-799844899514543346576778889997699992135489897765099882699998318989999
Q 000883 663 RQIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEER 741 (1238)
Q Consensus 663 R~~~id~Fn~-~~s~~~v~Llstragg~GINL~~Ad~VIi~D~dwNP~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEe~ 741 (1238)
|+.+++.|++ +... +|++|+++++|||++.+++||+||++|||..++|++|| |+.+++.+|.|++.++++++
T Consensus 682 R~~~l~~F~~~g~~~---vLVaT~~~~~GIDlp~v~~VI~yd~p~s~~~~iQr~GR----GR~~~g~~i~l~~~~~~ee~ 754 (797)
T 4a2q_A 682 QKGVLDAFKTSKDNR---LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTEVVEN 754 (797)
T ss_dssp ------------CCS---EEEEECC-------CCCSEEEEESCCSCHHHHHTC-----------CCCEEEEECCHHHHHH
T ss_pred HHHHHHHHHCCCCCE---EEEECCCHHCCCCCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCCHHHH
T ss_conf 999999851369704---99974805447975108989994899988999985388----87878659999728768899
Q ss_pred HHHHHHHHHHHHHHHHCCHHHCCCCHHHHHHH
Q ss_conf 99999999999999841010016898899999
Q 000883 742 MMQMTKKKMVLEHLVVGRLKAQNINQEELDDI 773 (1238)
Q Consensus 742 I~~~~~~K~~l~~~v~g~~~~~~~~~~el~~l 773 (1238)
......|..+...++..+ +.++.+++...
T Consensus 755 -~~~~~~ke~~~~~~i~~l--~~~~~~~~~~~ 783 (797)
T 4a2q_A 755 -EKCNRYKEEMMNKAVEKI--QKWDEETFAKK 783 (797)
T ss_dssp -HHHHHHHHHHHHHHHHHH--HTSCHHHHHHH
T ss_pred -HHHHHHHHHHHHHHHHHH--HCCCHHHHHHH
T ss_conf -998889999999999987--45798999999
No 10
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Probab=1.00 E-value=1 Score=326.50 Aligned_cols=432 Identities=14% Similarity=0.176 Sum_probs=264.6
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHCC-
Q ss_conf 9991789999999997202798469983899829999999999975099----9974999578-448999999998869-
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWAP- 357 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIVvP~-sll~qW~~E~~~~~p- 357 (1238)
.+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||+ +++.||.+++.++++
T Consensus 6 ~~~~~~Q~~~i~~~----~~~~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~ 81 (556)
T 4a2p_A 6 KKARSYQIELAQPA----INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFER 81 (556)
T ss_dssp --CCHHHHHHHHHH----HTTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHGG
T ss_pred CCCCHHHHHHHHHH----HCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHHCC
T ss_conf 78779999999999----74998999819997189999999999998374567986999928899999999999987240
Q ss_pred -CCCEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHCC--C-CCCCEEEEE
Q ss_conf -991999976846888999752027899111100246763222222234553999108888720001--2-797302999
Q 000883 358 -QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS--L-KPIKWQCMI 433 (1238)
Q Consensus 358 -~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~--l-~~i~w~~iI 433 (1238)
++++..++|........... ....+|+|+|++.+...... + ..-.|++||
T Consensus 82 ~~~~~~~~~g~~~~~~~~~~~--------------------------~~~~~i~v~T~~~l~~~~~~~~~~~~~~~~~vV 135 (556)
T 4a2p_A 82 QGYSVQGISGENFSNVSVEKV--------------------------IEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMI 135 (556)
T ss_dssp GTCCEEECCCC-----CHHHH--------------------------HHHCSEEEECHHHHHHHHHSSSCCCSTTCSEEE
T ss_pred CCCEEEEEECCCCCCHHHHHH--------------------------HCCCCEEEECHHHHHHHHHHCCCCCCCCCCEEE
T ss_conf 694599982898742228986--------------------------179999998899999999837502503077999
Q ss_pred ECCCCCCCCCCCHHHHHHHHC--------CCCCEEEEECCCCCCCHH-------HHHHHHHHHCCCCC----CCHHHHHH
Q ss_conf 626533568000999999821--------135589981689989988-------99999962247999----99688999
Q 000883 434 VDEGHRLKNKDSKLFSSLKQY--------STRHRVLLTGTPLQNNLD-------ELFMLMHFLDAGKF----GSLEEFQE 494 (1238)
Q Consensus 434 iDEaHrlKn~~S~~~~~l~~l--------~~~~rllLTGTPlqNn~~-------EL~~ll~fL~p~~~----~~~~~F~~ 494 (1238)
+||||++.+..+........+ ....+++|||||.+++.. .+..+...+.+..+ .....+..
T Consensus 136 iDEah~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~lSAT~~~~~~~~~~~~~~~i~~l~~~l~~~~~~~~~~~~~~~~~ 215 (556)
T 4a2p_A 136 FDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQR 215 (556)
T ss_dssp EETGGGCSTTSHHHHHHHHHHHHHHCC---CCEEEEEESCCCCTTCSSHHHHHHHHHHHHHHHTCSEEECCCTTHHHHHH
T ss_pred EECCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEECCHHCCHHHHHH
T ss_conf 98875358864599999999985301368887699994785667516699999999999985398484333202677874
Q ss_pred HHHCHH-------------HHHHH----HHHHHHHCH----------------------HHHHHHHHHHHHCCCCCEEEE
Q ss_conf 983031-------------39999----999996111----------------------255566767831199958999
Q 000883 495 EFKDIN-------------QEEQI----SRLHRMLAP----------------------HLLRRVKKDVMKELPPKKELI 535 (1238)
Q Consensus 495 ~f~~~~-------------~~~~~----~~L~~~L~p----------------------~~lRR~k~dv~~~LP~k~e~i 535 (1238)
.+.... ..... ..++..+.. ++....+......+|
T Consensus 216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~------ 289 (556)
T 4a2p_A 216 FMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLE------ 289 (556)
T ss_dssp HTCCCCEEEEECCCCSCCHHHHHHHHHHHHHHHHHHHHCC---------CCCSSHHHHHHHHHHHHHHHHC---------
T ss_pred CCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCC------
T ss_conf 27998537998278767759999999999999999888632012103333443356789999999987764054------
Q ss_pred EECCCCHHHHHHHHHHHHHHHHH------H--HHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHH-------
Q ss_conf 84159999999999999999999------9--92389610599999999997087442369999932407999-------
Q 000883 536 LRVELSSKQKEYYKAILTRNYQI------L--TRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESF------- 600 (1238)
Q Consensus 536 v~v~ls~~Q~~~Y~~il~~~~~~------l--~~~~~~~~~l~~il~~Lrk~c~hP~L~~~~e~~~~~~~~~~------- 600 (1238)
....+...|..+....... + ....+ .......+...+....- . ........+
T Consensus 290 ----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~-~----~~~~~~~~~~~~~~~~ 356 (556)
T 4a2p_A 290 ----DKEEESRICRALFICTEHLRKYNDALIISEDAR----IIDALSYLTEFFTNVKN-G----PYTELEQHLTAKFQEK 356 (556)
T ss_dssp ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC----HHHHHHHHHHHHHHHHH-S----CCCHHHHHHHHHHHTT
T ss_pred ----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH-C----CCCHHHHHHHHHHHHH
T ss_conf ----320167899999999999999999998861120----78999999999999873-3----7987899999987667
Q ss_pred ----HH----HHHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHHC------------CCCEEEEECCC
Q ss_conf ----99----8842128999999999999--80870899802224799999998528------------98289995888
Q 000883 601 ----KQ----LLESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTFK------------KWQYERIDGKV 658 (1238)
Q Consensus 601 ----~~----li~~S~Kl~~L~klL~~l~--~~g~kvLIFsq~~~~ldiL~~~L~~~------------g~~~~ridG~~ 658 (1238)
.. ....++|+..|.++|.... ..++|+|||++++.+++.|.++|... |..+..++|++
T Consensus 357 ~~~l~~~~~~~~~~~~K~~~L~~~l~~~~~~~~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~ 436 (556)
T 4a2p_A 357 EPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGM 436 (556)
T ss_dssp HHHHHHHHHCSSSCCHHHHHHHHHHHHHHHHCTTCCEEEEESSHHHHHHHHHHHTTCSGGGSCCEEC-------------
T ss_pred HHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCC
T ss_conf 88764210378999969999999999983479985499997658999999999985877550001478736776556566
Q ss_pred CHHHHHHHHHHHHC-CCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCC
Q ss_conf 97999999999704-79984489951454334657677888999769999213548989776509988269999831898
Q 000883 659 GGAERQIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGS 737 (1238)
Q Consensus 659 ~~~~R~~~id~Fn~-~~s~~~v~Llstragg~GINL~~Ad~VIi~D~dwNP~~~~Qa~gR~hRiGQ~k~V~VyrLit~~T 737 (1238)
+..+|+.+++.|++ +... +|++|+++++|||++.+++||+||++|||..++|++|| |+.+++.+|.|++.++
T Consensus 437 ~~~~R~~~~~~F~~~g~~~---vLvaT~~~~~GiDip~v~~VI~~d~p~s~~~~~Qr~GR----gR~~~g~~~~l~~~~~ 509 (556)
T 4a2p_A 437 TLPSQKGVLDAFKTSKDNR---LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTE 509 (556)
T ss_dssp -----------------CC---EEEEEC-----------CEEEEETCCSCHHHHHHC------------CCEEEEESCHH
T ss_pred CHHHHHHHHHHHCCCCCEE---EEEECCCHHCCCCCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCC
T ss_conf 9899999999840469658---99976704337775217889991899978899886387----8788841899982763
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCHHHCCCCHHHHHHHH
Q ss_conf 9999999999999999998410100168988999999
Q 000883 738 IEERMMQMTKKKMVLEHLVVGRLKAQNINQEELDDII 774 (1238)
Q Consensus 738 vEe~I~~~~~~K~~l~~~v~g~~~~~~~~~~el~~ll 774 (1238)
++++ ......|..+...++..+ +.++.+++...+
T Consensus 510 ~~~~-~~~~~~k~~~~~~~i~~i--~~~~~~~~~~~i 543 (556)
T 4a2p_A 510 VVEN-EKCNRYKEEMMNKAVEKI--QKWDEETFAKKI 543 (556)
T ss_dssp HHHH-HHHHHHHHHHHHHHHHHH--HTSCHHHHHHHH
T ss_pred HHHH-HHHHHHHHHHHHHHHHHH--HCCCHHHHHHHH
T ss_conf 6777-775579999999999972--068967899999
Done!