Query 002709
Match_columns 890
No_of_seqs 409 out of 4256
Neff 7.7
Searched_HMMs 29240
Date Tue Mar 26 17:51:11 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/002709.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1426-1430//hhsearch_pdb/002709hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3smz_A Protein raver-1, ribonu 1.0 1 1 318.6 31.2 246 119-517 20-266 (284)
2 2ghp_A U4/U6 snRNA-associated 1.0 1 1 318.5 27.5 253 116-515 36-291 (292)
3 3smz_A Protein raver-1, ribonu 1.0 1 1 315.0 30.4 246 214-682 20-266 (284)
4 2ghp_A U4/U6 snRNA-associated 1.0 1 1 307.0 24.9 250 212-678 37-289 (292)
5 4f02_A Polyadenylate-binding p 1.0 1 1 232.9 20.0 167 429-679 14-180 (213)
6 4f02_A Polyadenylate-binding p 1.0 1 1 230.5 19.4 174 212-518 11-184 (213)
7 1l3k_A Heterogeneous nuclear r 1.0 1 1 221.1 21.0 80 214-294 11-90 (196)
8 2qfj_A FBP-interacting repress 1.0 1 1 220.2 20.5 176 430-678 28-203 (216)
9 2qfj_A FBP-interacting repress 1.0 1 1 217.6 21.8 179 216-516 28-206 (216)
10 2cjk_A Nuclear polyadenylated 1.0 1 1 217.4 13.8 160 431-677 4-163 (167)
No 1
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E
Probab=1.00 E-value=1 Score=318.63 Aligned_cols=246 Identities=21% Similarity=0.268 Sum_probs=197.7
Q ss_pred CCCCEEEECCCCCCCHHHHHHHHHHCCCCEEEEEEECCCHHHHHCCCCCCCCCCCEEEEEECCHHHHHHHHHHHCCCEEC
Q ss_conf 77768998189912129999998603798479996089224321045678997647999958999999999984896556
Q 002709 119 RVARTVIIGGLLNADMAEEVHRLAGSIGTVCSVTYPLPKEELEQHGLAQEGCKMDASAVLYTTVKSACASVALLHQKEIK 198 (890)
Q Consensus 119 ~~~rtI~V~nLp~~~t~~~L~~~F~~~G~v~~i~~~~~k~~~~~~g~~~~g~~~g~afV~F~s~e~A~~Ai~~l~g~~l~ 198 (890)
..+++|||+|||+++++++|+++|+.|| |.++.+ +.++|||||+|.+.++|.+|+..|++..+.
T Consensus 20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~---------------~~~~g~afV~f~~~~~A~~A~~~l~~~~~~ 83 (284)
T 3smz_A 20 RNRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFV---------------DKYKGTAFVTLLNGEQAEAAINAFHQSRLR 83 (284)
T ss_dssp HCCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEE---------------ETTTTEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred CCCCEEEEECCCCCCCHHHHHHHHHHCC-CEEEEE---------------ECCCCEEEEEECCHHHHHHHHHHCCCCEEC
T ss_conf 8997799959998899999999998749-779999---------------667877999967899999999970798558
Q ss_pred CEEEEEECCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHCCCCCEEEEEECCCCCCCCCCEEEEEEECCHHHHHHHHHHH
Q ss_conf 94989941799999899949999269999989999985135998479998204999982029999944999999999994
Q 002709 199 GGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKF 278 (890)
Q Consensus 199 g~~i~v~~~~~~~~~~~~~~i~V~nLp~~~tee~L~~~F~~~G~I~~v~i~~d~~tg~~~G~AfV~F~~~e~A~~Al~~l 278 (890)
|+.+.+... ...++|||+|||+.+++++|+++|+.||.|..+.++.+..+|.++|||||+|.+.++|..|+..|
T Consensus 84 g~~i~v~~~------~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l 157 (284)
T 3smz_A 84 ERELSVQLQ------PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157 (284)
T ss_dssp TEECEEEEC------CCSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred CEEEEEEEC------CCCCEEEECCCCCCCCHHHHHHHHHHCCCEEEEEEEEECCCCCCCEEEEEEECCHHHHHHHHHHH
T ss_conf 827999843------89988999089974789999999986398468999750899954449999989999999999980
Q ss_pred CCCEECCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 89354982179996158987688998988532465788999999999999999865566788998533689999884068
Q 002709 279 NGQKFGKRPIAVDWAVPKNIYSSGGAAAGAYEDGVQNKGDGNSDSGSDDDLGDDDAETASDDSNSSEKEDLPSNADFDEE 358 (890)
Q Consensus 279 ng~~l~g~~i~V~~a~pk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (890)
++..|.|+.|.|.|+.+.....
T Consensus 158 ~~~~~~g~~i~v~~a~~~~~~~---------------------------------------------------------- 179 (284)
T 3smz_A 158 LGKPLGPRTLYVHWTDAGQLTP---------------------------------------------------------- 179 (284)
T ss_dssp TTCEETTEECEEEECCGGGCCT----------------------------------------------------------
T ss_pred CCCEECCCEEEEEECCCCCCCC----------------------------------------------------------
T ss_conf 8977689479999888888985----------------------------------------------------------
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCC
Q ss_conf 99999985110367899999987301004987778720000001224433346688999765545788999885998399
Q 002709 359 VDIARKVLNKLTSTTGSLPSLSDDSALVKGNKEQDSDKTVNESAKVSDVSKLNSSKSKPKSLKQTEGEDELQNTIFICNL 438 (890)
Q Consensus 359 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~v~p~~~~~~~~~~~~~~~~~~~~~~~i~V~NL 438 (890)
.....++|||+||
T Consensus 180 -------------------------------------------------------------------~~~~~~~l~v~nl 192 (284)
T 3smz_A 180 -------------------------------------------------------------------ALLHSRCLCVDRL 192 (284)
T ss_dssp -------------------------------------------------------------------TTTSCSEEEEECC
T ss_pred -------------------------------------------------------------------CCCCCCEEEEECC
T ss_conf -------------------------------------------------------------------4478647998469
Q ss_pred CCCC-CHHHHHHHHHHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEEEEECCCHHH
Q ss_conf 9999-999999998607981799995427899987368999789999999999813379977256181899999237011
Q 002709 439 PFDL-DNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLTVLKALDKKL 517 (890)
Q Consensus 439 p~~~-teeeL~~~F~~fG~I~~v~i~~~~~~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~V~~a~~k~~ 517 (890)
|+.+ ++++|+++|+.||.|..+.++.+. ++.++|+|||+|.+.++|.+|+..|| |..++|++|.|.|+.++..
T Consensus 193 p~~~~~~~~l~~~f~~~G~i~~v~i~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~v~~a~~~~~ 266 (284)
T 3smz_A 193 PPGFNDVDALCRALSAVHSPTFCQLACGQ-DGQLKGFAVLEYETAEMAEEAQQQAD-----GLSLGGSHLRVSFCAPGPP 266 (284)
T ss_dssp CTTCCCHHHHHHHTCSSSCCSEEEEEECS-SCCEEEEEEEECSSHHHHHHHHHHHT-----TCEETTEECEEEECCSSSC
T ss_pred CCCCCCHHHHHHHHHCCCCEEEEEEEECC-CCCCCCEEEEEECCHHHHHHHHHHHC-----CCCCCCEEEEEEEECCCCC
T ss_conf 96537999999985178876999987789-99856379998589899999999967-----9860984899998157986
No 2
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Probab=1.00 E-value=1 Score=318.52 Aligned_cols=253 Identities=19% Similarity=0.273 Sum_probs=223.3
Q ss_pred CCCCCCCEEEECCCCCCCHHHHHHHHHHCCCCEEEEEEECCCHHHHHCCCCCCCCCCCEEEEEECCHHHHHHHHHHHCCC
Q ss_conf 00377768998189912129999998603798479996089224321045678997647999958999999999984896
Q 002709 116 QKQRVARTVIIGGLLNADMAEEVHRLAGSIGTVCSVTYPLPKEELEQHGLAQEGCKMDASAVLYTTVKSACASVALLHQK 195 (890)
Q Consensus 116 ~~~~~~rtI~V~nLp~~~t~~~L~~~F~~~G~v~~i~~~~~k~~~~~~g~~~~g~~~g~afV~F~s~e~A~~Ai~~l~g~ 195 (890)
...+..++|||+|||+++++++|+++|+.||.|..|.++.+.. + ++|||||+|.+.++|.+|+. +++.
T Consensus 36 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~----------~-~~g~afV~f~~~~~A~~A~~-~~~~ 103 (292)
T 2ghp_A 36 TRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLK----------K-NFRFARIEFARYDGALAAIT-KTHK 103 (292)
T ss_dssp ------CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTT----------S-SSEEEEEEESSHHHHHHHHT-TTTC
T ss_pred CCCCCCCEEEEECCCCCCCHHHHHHHHHHCCCEEEEEEEECCC----------C-CCEEEEEEECCHHHHHHHHH-HCCC
T ss_conf 5688877899908998899999999998649848999998799----------9-95799999777999999997-1895
Q ss_pred EECCEEEEEECCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHCCCC-CEEEEEECCCCCCCCCCEEEEEEECCHHHHHHH
Q ss_conf 5569498994179999989994999926999998999998513599-847999820499998202999994499999999
Q 002709 196 EIKGGTVWARQLGGEGSKTQKWKLIIRNIPFKAKVNEIKDMFSPVG-LVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESA 274 (890)
Q Consensus 196 ~l~g~~i~v~~~~~~~~~~~~~~i~V~nLp~~~tee~L~~~F~~~G-~I~~v~i~~d~~tg~~~G~AfV~F~~~e~A~~A 274 (890)
.+.|+.|.+... ..++|||+|||+.+++++|+++|+.|| .|..|.++.+.. +.++|||||+|.+.++|..|
T Consensus 104 ~~~g~~i~v~~~-------~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~-~~~~g~afV~f~~~~~a~~A 175 (292)
T 2ghp_A 104 VVGQNEIIVSHL-------TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRF-NTSRRFAYIDVTSKEDARYC 175 (292)
T ss_dssp EETTEECEEEEC-------CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC--------CCEEEEECSSHHHHHHH
T ss_pred EECCCEEEEEEC-------CCCEEEEECCCCCCCHHHHHHHHHHHCCCEEEEEEEECCC-CCCCEEEEEEECCHHHHHHH
T ss_conf 869947999988-------9988999799998999999999998499728999876799-98352999997889999999
Q ss_pred HHHHCCCEECCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 99948935498217999615898768899898853246578899999999999999986556678899853368999988
Q 002709 275 IQKFNGQKFGKRPIAVDWAVPKNIYSSGGAAAGAYEDGVQNKGDGNSDSGSDDDLGDDDAETASDDSNSSEKEDLPSNAD 354 (890)
Q Consensus 275 l~~lng~~l~g~~i~V~~a~pk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (890)
+..|++..|.|+.|.|.|+.+....... .
T Consensus 176 ~~~l~g~~~~g~~l~v~~a~~~~~~~~~--------------------~------------------------------- 204 (292)
T 2ghp_A 176 VEKLNGLKIEGYTLVTKVSNPLEKSKRT--------------------D------------------------------- 204 (292)
T ss_dssp HHHHTTCEETTEECEEEECCCC----------------------------------------------------------
T ss_pred HHHHCCCEECCCEEEEEECCCCCCCCCC--------------------C-------------------------------
T ss_conf 9982897749907999988877543324--------------------3-------------------------------
Q ss_pred CHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf 40689999998511036789999998730100498777872000000122443334668899976554578899988599
Q 002709 355 FDEEVDIARKVLNKLTSTTGSLPSLSDDSALVKGNKEQDSDKTVNESAKVSDVSKLNSSKSKPKSLKQTEGEDELQNTIF 434 (890)
Q Consensus 355 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~v~p~~~~~~~~~~~~~~~~~~~~~~~i~ 434 (890)
......++||
T Consensus 205 ----------------------------------------------------------------------~~~~~~~~l~ 214 (292)
T 2ghp_A 205 ----------------------------------------------------------------------SATLEGREIM 214 (292)
T ss_dssp ------------------------------------------------------------------------CCTTTEEE
T ss_pred ----------------------------------------------------------------------CCCCCCCEEE
T ss_conf ----------------------------------------------------------------------5677775699
Q ss_pred ECCCCCC-CCHHHHHHHHHHCCCEEEEEEEECCC-CCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEEEEEC
Q ss_conf 8399999-99999999986079817999954278-999873689997899999999998133799772561818999992
Q 002709 435 ICNLPFD-LDNEEVKQRFSAFGEVVSFVPVLHQV-TKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLTVLKA 512 (890)
Q Consensus 435 V~NLp~~-~teeeL~~~F~~fG~I~~v~i~~~~~-~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~V~~a 512 (890)
|+|||+. +++++|+++|+.||.|..+.++.+.. ++.++|||||+|.+.++|.+|+ .|| |..|+|++|.|.||
T Consensus 215 v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~-----g~~~~g~~i~V~~a 288 (292)
T 2ghp_A 215 IRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMN-----RSLLGNREISVSLA 288 (292)
T ss_dssp EEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGT-----TEEETTEEEEEEEC
T ss_pred EECCCCCCCCHHHHHHHHHCCCCEEEEEEEECCCCCCCCCEEEEEEECCHHHHHHHH-HHC-----CCEECCCEEEEEEE
T ss_conf 977992208999999998545874699997457767887559999968999999999-746-----97889968999983
Q ss_pred CCH
Q ss_conf 370
Q 002709 513 LDK 515 (890)
Q Consensus 513 ~~k 515 (890)
.++
T Consensus 289 ~~k 291 (292)
T 2ghp_A 289 DKK 291 (292)
T ss_dssp CCC
T ss_pred CCC
T ss_conf 579
No 3
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E
Probab=1.00 E-value=1 Score=314.95 Aligned_cols=246 Identities=21% Similarity=0.276 Sum_probs=216.8
Q ss_pred CCCCEEEECCCCCCCCHHHHHHHHCCCCCEEEEEECCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEE
Q ss_conf 99949999269999989999985135998479998204999982029999944999999999994893549821799961
Q 002709 214 TQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 293 (890)
Q Consensus 214 ~~~~~i~V~nLp~~~tee~L~~~F~~~G~I~~v~i~~d~~tg~~~G~AfV~F~~~e~A~~Al~~lng~~l~g~~i~V~~a 293 (890)
...++|||+|||+++++++|+++|+.|| |..+.+ +.++|||||+|.+.++|..|+..|++..|.|+.|.|.|+
T Consensus 20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~------~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~ 92 (284)
T 3smz_A 20 RNRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFV------DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQ 92 (284)
T ss_dssp HCCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEE------ETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred CCCCEEEEECCCCCCCHHHHHHHHHHCC-CEEEEE------ECCCCEEEEEECCHHHHHHHHHHCCCCEECCEEEEEEEC
T ss_conf 8997799959998899999999998749-779999------667877999967899999999970798558827999843
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf 58987688998988532465788999999999999999865566788998533689999884068999999851103678
Q 002709 294 VPKNIYSSGGAAAGAYEDGVQNKGDGNSDSGSDDDLGDDDAETASDDSNSSEKEDLPSNADFDEEVDIARKVLNKLTSTT 373 (890)
Q Consensus 294 ~pk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 373 (890)
.+
T Consensus 93 ~~------------------------------------------------------------------------------ 94 (284)
T 3smz_A 93 PT------------------------------------------------------------------------------ 94 (284)
T ss_dssp CC------------------------------------------------------------------------------
T ss_pred CC------------------------------------------------------------------------------
T ss_conf 89------------------------------------------------------------------------------
Q ss_pred CCCCCCCCCHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHH
Q ss_conf 99999987301004987778720000001224433346688999765545788999885998399999999999999860
Q 002709 374 GSLPSLSDDSALVKGNKEQDSDKTVNESAKVSDVSKLNSSKSKPKSLKQTEGEDELQNTIFICNLPFDLDNEEVKQRFSA 453 (890)
Q Consensus 374 g~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~v~p~~~~~~~~~~~~~~~~~~~~~~~i~V~NLp~~~teeeL~~~F~~ 453 (890)
.++|||+|||+.+++++|+++|+.
T Consensus 95 --------------------------------------------------------~~~l~v~nlp~~~t~~~l~~~f~~ 118 (284)
T 3smz_A 95 --------------------------------------------------------DALLCVANLPPSLTQQQFEELVRP 118 (284)
T ss_dssp --------------------------------------------------------SCEEEEESCCTTCCHHHHHHHHGG
T ss_pred --------------------------------------------------------CCEEEECCCCCCCCHHHHHHHHHH
T ss_conf --------------------------------------------------------988999089974789999999986
Q ss_pred CCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEEEEECCCHHHHCHHHHHHHCCCCCCC
Q ss_conf 79817999954278999873689997899999999998133799772561818999992370111125653100233554
Q 002709 454 FGEVVSFVPVLHQVTKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLTVLKALDKKLAHDKEIDKSKNETNDH 533 (890)
Q Consensus 454 fG~I~~v~i~~~~~~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~V~~a~~k~~~~~~~~~~~~~~~~~~ 533 (890)
||.|..+.++.+..++.++|||||+|.+.++|.+|+..++ +..++|++|.|.|+.++....
T Consensus 119 ~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~-----~~~~~g~~i~v~~a~~~~~~~-------------- 179 (284)
T 3smz_A 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLL-----GKPLGPRTLYVHWTDAGQLTP-------------- 179 (284)
T ss_dssp GSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEECCGGGCCT--------------
T ss_pred CCCEEEEEEEEECCCCCCCEEEEEEECCHHHHHHHHHHHC-----CCEECCCEEEEEECCCCCCCC--------------
T ss_conf 3984689997508999544499999899999999999808-----977689479999888888985--------------
Q ss_pred CCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCCCC-CHHHHHHHHHHHHHHHHC
Q ss_conf 4201100265668998788999046999999899742103899987766769995899888-999999999998763202
Q 002709 534 RNLYLAKEGLILEGTPAAEGVSDDDMSKRQMLHEKKMTKLQSPNFHVSRTRLVIYNLPKSM-TEKGLKKLCIDAVVSRAS 612 (890)
Q Consensus 534 ~~l~l~~eg~~~~~~p~a~~~s~~~~~~r~~~~~~~~~~~~~p~~~~~~~~L~V~NLP~~~-teeeL~~lF~~~~~~~~~ 612 (890)
.....++|||+|||..+ ++++|+++|+
T Consensus 180 --------------------------------------------~~~~~~~l~v~nlp~~~~~~~~l~~~f~-------- 207 (284)
T 3smz_A 180 --------------------------------------------ALLHSRCLCVDRLPPGFNDVDALCRALS-------- 207 (284)
T ss_dssp --------------------------------------------TTTSCSEEEEECCCTTCCCHHHHHHHTC--------
T ss_pred --------------------------------------------CCCCCCEEEEECCCCCCCCHHHHHHHHH--------
T ss_conf --------------------------------------------4478647998469965379999999851--------
Q ss_pred CCCCCEEEEEEEECCCCCCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCCCCCCCCCCCEEEEECCCHH
Q ss_conf 5799738999821255786678899620899993899999999999609999889999619998610299
Q 002709 613 KQKPVIKQIKFLQSLKKGKVDTKHYSRGVAFVEFTEHQHALVALRVLNNNPKTFGPEHRPIVEFAVDNVQ 682 (890)
Q Consensus 613 ~~~G~I~~v~i~rd~~~g~~~~~~~srG~aFV~F~s~e~A~~Al~~Lng~p~~~g~~~rliV~~A~e~~~ 682 (890)
.||.|..++|+++. .+.++|+|||+|.++++|.+|+..|||. .++ ++.+.|.||.....
T Consensus 208 -~~G~i~~v~i~~~~-------~g~~~g~afV~f~~~~~A~~A~~~l~g~--~~~-g~~l~v~~a~~~~~ 266 (284)
T 3smz_A 208 -AVHSPTFCQLACGQ-------DGQLKGFAVLEYETAEMAEEAQQQADGL--SLG-GSHLRVSFCAPGPP 266 (284)
T ss_dssp -SSSCCSEEEEEECS-------SCCEEEEEEEECSSHHHHHHHHHHHTTC--EET-TEECEEEECCSSSC
T ss_pred -CCCCEEEEEEEECC-------CCCCCCEEEEEECCHHHHHHHHHHHCCC--CCC-CEEEEEEEECCCCC
T ss_conf -78876999987789-------9985637999858989999999996798--609-84899998157986
No 4
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Probab=1.00 E-value=1 Score=307.01 Aligned_cols=250 Identities=17% Similarity=0.246 Sum_probs=217.9
Q ss_pred CCCCCCEEEECCCCCCCCHHHHHHHHCCCCCEEEEEECCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
Q ss_conf 98999499992699999899999851359984799982049999820299999449999999999948935498217999
Q 002709 212 SKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVD 291 (890)
Q Consensus 212 ~~~~~~~i~V~nLp~~~tee~L~~~F~~~G~I~~v~i~~d~~tg~~~G~AfV~F~~~e~A~~Al~~lng~~l~g~~i~V~ 291 (890)
.....++|||+|||+++++++|+++|+.||.|..|.|+++... ++|||||+|.+.++|..|+. +++..|.|+.|.|.
T Consensus 37 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~--~~g~afV~f~~~~~A~~A~~-~~~~~~~g~~i~v~ 113 (292)
T 2ghp_A 37 RNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKK--NFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVS 113 (292)
T ss_dssp -----CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTS--SSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEE
T ss_pred CCCCCCEEEEECCCCCCCHHHHHHHHHHCCCEEEEEEEECCCC--CCEEEEEEECCHHHHHHHHH-HCCCEECCCEEEEE
T ss_conf 6888778999089988999999999986498489999987999--95799999777999999997-18958699479999
Q ss_pred EECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf 61589876889989885324657889999999999999998655667889985336899998840689999998511036
Q 002709 292 WAVPKNIYSSGGAAAGAYEDGVQNKGDGNSDSGSDDDLGDDDAETASDDSNSSEKEDLPSNADFDEEVDIARKVLNKLTS 371 (890)
Q Consensus 292 ~a~pk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 371 (890)
++.
T Consensus 114 ~~~----------------------------------------------------------------------------- 116 (292)
T 2ghp_A 114 HLT----------------------------------------------------------------------------- 116 (292)
T ss_dssp ECC-----------------------------------------------------------------------------
T ss_pred ECC-----------------------------------------------------------------------------
T ss_conf 889-----------------------------------------------------------------------------
Q ss_pred CCCCCCCCCCCHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHH
Q ss_conf 78999999873010049877787200000012244333466889997655457889998859983999999999999998
Q 002709 372 TTGSLPSLSDDSALVKGNKEQDSDKTVNESAKVSDVSKLNSSKSKPKSLKQTEGEDELQNTIFICNLPFDLDNEEVKQRF 451 (890)
Q Consensus 372 ~~g~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~v~p~~~~~~~~~~~~~~~~~~~~~~~i~V~NLp~~~teeeL~~~F 451 (890)
.++|||+|||+.+++++|+++|
T Consensus 117 ----------------------------------------------------------~~~l~v~nlp~~~t~~~l~~~f 138 (292)
T 2ghp_A 117 ----------------------------------------------------------ECTLWMTNFPPSYTQRNIRDLL 138 (292)
T ss_dssp ----------------------------------------------------------SCEEEEECCCTTCCHHHHHHHH
T ss_pred ----------------------------------------------------------CCEEEEECCCCCCCHHHHHHHH
T ss_conf ----------------------------------------------------------9889997999989999999999
Q ss_pred HHCC-CEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEEEEECCCHHHHCHHHHHHHCCCC
Q ss_conf 6079-817999954278999873689997899999999998133799772561818999992370111125653100233
Q 002709 452 SAFG-EVVSFVPVLHQVTKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLTVLKALDKKLAHDKEIDKSKNET 530 (890)
Q Consensus 452 ~~fG-~I~~v~i~~~~~~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~V~~a~~k~~~~~~~~~~~~~~~ 530 (890)
+.|| .|..+.++.+.. +.++|||||+|.+.++|.+|+..|+ +..+.|+.|.|.|+.+.......
T Consensus 139 ~~~G~~i~~v~i~~~~~-~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~~a~~~~~~~~~--------- 203 (292)
T 2ghp_A 139 QDINVVALSIRLPSLRF-NTSRRFAYIDVTSKEDARYCVEKLN-----GLKIEGYTLVTKVSNPLEKSKRT--------- 203 (292)
T ss_dssp HHTTCCCCEEECC--------CCEEEEECSSHHHHHHHHHHHT-----TCEETTEECEEEECCCC---------------
T ss_pred HHHCCCEEEEEEEECCC-CCCCEEEEEEECCHHHHHHHHHHHC-----CCEECCCEEEEEECCCCCCCCCC---------
T ss_conf 98499728999876799-9835299999788999999999828-----97749907999988877543324---------
Q ss_pred CCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCCC-CCHHHHHHHHHHHHHH
Q ss_conf 554420110026566899878899904699999989974210389998776676999589988-8999999999998763
Q 002709 531 NDHRNLYLAKEGLILEGTPAAEGVSDDDMSKRQMLHEKKMTKLQSPNFHVSRTRLVIYNLPKS-MTEKGLKKLCIDAVVS 609 (890)
Q Consensus 531 ~~~~~l~l~~eg~~~~~~p~a~~~s~~~~~~r~~~~~~~~~~~~~p~~~~~~~~L~V~NLP~~-~teeeL~~lF~~~~~~ 609 (890)
.......++|||+|||.. +++++|+++|+
T Consensus 204 ---------------------------------------------~~~~~~~~~l~v~nlp~~~~t~~~l~~~F~----- 233 (292)
T 2ghp_A 204 ---------------------------------------------DSATLEGREIMIRNLSTELLDENLLRESFE----- 233 (292)
T ss_dssp ------------------------------------------------CCTTTEEEEEEECTTTCCHHHHHHHHG-----
T ss_pred ---------------------------------------------CCCCCCCCEEEEECCCCCCCCHHHHHHHHH-----
T ss_conf ---------------------------------------------356777756999779922089999999985-----
Q ss_pred HHCCCCCCEEEEEEEECCC-CCCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCCCCCCCCCCCEEEEEC
Q ss_conf 2025799738999821255-78667889962089999389999999999960999988999961999861
Q 002709 610 RASKQKPVIKQIKFLQSLK-KGKVDTKHYSRGVAFVEFTEHQHALVALRVLNNNPKTFGPEHRPIVEFAV 678 (890)
Q Consensus 610 ~~~~~~G~I~~v~i~rd~~-~g~~~~~~~srG~aFV~F~s~e~A~~Al~~Lng~p~~~g~~~rliV~~A~ 678 (890)
.||.|..|+++++.. + +.++|||||+|.++++|.+|+ .|||. .++ ++.+.|.||.
T Consensus 234 ----~~G~v~~v~i~~~~~~t------g~~~g~afV~F~~~~~A~~A~-~l~g~--~~~-g~~i~V~~a~ 289 (292)
T 2ghp_A 234 ----GFGSIEKINIPAGQKEH------SFNNCCAFMVFENKDSAERAL-QMNRS--LLG-NREISVSLAD 289 (292)
T ss_dssp ----GGSCEEEEECCSCCC---------CCCEEEEEEESSHHHHHHHG-GGTTE--EET-TEEEEEEECC
T ss_pred ----CCCCEEEEEEEECCCCC------CCCCEEEEEEECCHHHHHHHH-HHCCC--EEC-CCEEEEEEEC
T ss_conf ----45874699997457767------887559999968999999999-74697--889-9689999835
No 5
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*
Probab=1.00 E-value=1 Score=232.88 Aligned_cols=167 Identities=19% Similarity=0.254 Sum_probs=125.0
Q ss_pred CCCEEEECCCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEE
Q ss_conf 98859983999999999999998607981799995427899987368999789999999999813379977256181899
Q 002709 429 LQNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLT 508 (890)
Q Consensus 429 ~~~~i~V~NLp~~~teeeL~~~F~~fG~I~~v~i~~~~~~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~ 508 (890)
+.++|||+|||+++|+++|+++|+.||.|.+|.|+++..+++++|||||+|.+.++|.+|+..++ +..+.|+.|.
T Consensus 14 p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~-----~~~~~g~~i~ 88 (213)
T 4f02_A 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMN-----FDVIKGKPVR 88 (213)
T ss_dssp -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECE
T ss_pred CCCEEEEECCCCCCCHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCCCEECCHHHHHHHHHHHH-----HHHCCCCCCC
T ss_conf 97589993999878799999999861987999873146888756646100089999999999840-----2102783320
Q ss_pred EEECCCHHHHCHHHHHHHCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEE
Q ss_conf 99923701111256531002335544201100265668998788999046999999899742103899987766769995
Q 002709 509 VLKALDKKLAHDKEIDKSKNETNDHRNLYLAKEGLILEGTPAAEGVSDDDMSKRQMLHEKKMTKLQSPNFHVSRTRLVIY 588 (890)
Q Consensus 509 V~~a~~k~~~~~~~~~~~~~~~~~~~~l~l~~eg~~~~~~p~a~~~s~~~~~~r~~~~~~~~~~~~~p~~~~~~~~L~V~ 588 (890)
+.++........ ....+|||+
T Consensus 89 ~~~~~~~~~~~~-----------------------------------------------------------~~~~~l~v~ 109 (213)
T 4f02_A 89 IMWSQRDPSLRK-----------------------------------------------------------SGVGNIFIK 109 (213)
T ss_dssp EEECCCCTHHHH-----------------------------------------------------------HCTTEEEEE
T ss_pred CCCCCCCCCCCC-----------------------------------------------------------CCCCCCEEC
T ss_conf 023332110101-----------------------------------------------------------345553477
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCCCCCCC
Q ss_conf 89988899999999999876320257997389998212557866788996208999938999999999996099998899
Q 002709 589 NLPKSMTEKGLKKLCIDAVVSRASKQKPVIKQIKFLQSLKKGKVDTKHYSRGVAFVEFTEHQHALVALRVLNNNPKTFGP 668 (890)
Q Consensus 589 NLP~~~teeeL~~lF~~~~~~~~~~~~G~I~~v~i~rd~~~g~~~~~~~srG~aFV~F~s~e~A~~Al~~Lng~p~~~g~ 668 (890)
|||+.+|+++|+++|+ .||.|..++|+++. +.++|||||+|.++++|.+|+..|||. .++
T Consensus 110 nl~~~~t~~~l~~~F~---------~~G~i~~~~i~~d~--------~~~~g~~fV~f~~~~~a~~Ai~~lng~--~~~- 169 (213)
T 4f02_A 110 NLDKSIDNKALYDTFS---------AFGNILSCKVVCDE--------NGSKGYGFVHFETQEAAERAIEKMNGM--LLN- 169 (213)
T ss_dssp SCCTTCCHHHHHHHHG---------GGSCEEEEEEEEET--------TEEEEEEEEEESSHHHHHHHHHHHTTC--EET-
T ss_pred CCCCCCHHHHHHHHHH---------HCCCEEEEEEECCC--------CCCCEEEEEEECCHHHHHHHHHHHCCC--EEC-
T ss_conf 7644427999999985---------66996799763258--------988428999868899999999981999--889-
Q ss_pred CCCCEEEEECC
Q ss_conf 99619998610
Q 002709 669 EHRPIVEFAVD 679 (890)
Q Consensus 669 ~~rliV~~A~e 679 (890)
+++|.|.||..
T Consensus 170 g~~i~V~~a~~ 180 (213)
T 4f02_A 170 DRKVFVGRFKS 180 (213)
T ss_dssp TEECEEEECCC
T ss_pred CEEEEEEECCC
T ss_conf 98889997578
No 6
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*
Probab=1.00 E-value=1 Score=230.53 Aligned_cols=174 Identities=27% Similarity=0.408 Sum_probs=153.9
Q ss_pred CCCCCCEEEECCCCCCCCHHHHHHHHCCCCCEEEEEECCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
Q ss_conf 98999499992699999899999851359984799982049999820299999449999999999948935498217999
Q 002709 212 SKTQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVD 291 (890)
Q Consensus 212 ~~~~~~~i~V~nLp~~~tee~L~~~F~~~G~I~~v~i~~d~~tg~~~G~AfV~F~~~e~A~~Al~~lng~~l~g~~i~V~ 291 (890)
...+.++|||+|||+++++++|+++|++||.|.+|.|+++..+++++|||||+|.+.++|.+|+..+++..+.|+.|.+.
T Consensus 11 p~~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~ 90 (213)
T 4f02_A 11 PSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIM 90 (213)
T ss_dssp ----CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred CCCCCCEEEEECCCCCCCHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCCCEECCHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf 99997589993999878799999999861987999873146888756646100089999999999840210278332002
Q ss_pred EECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf 61589876889989885324657889999999999999998655667889985336899998840689999998511036
Q 002709 292 WAVPKNIYSSGGAAAGAYEDGVQNKGDGNSDSGSDDDLGDDDAETASDDSNSSEKEDLPSNADFDEEVDIARKVLNKLTS 371 (890)
Q Consensus 292 ~a~pk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 371 (890)
++......
T Consensus 91 ~~~~~~~~------------------------------------------------------------------------ 98 (213)
T 4f02_A 91 WSQRDPSL------------------------------------------------------------------------ 98 (213)
T ss_dssp ECCCCTHH------------------------------------------------------------------------
T ss_pred CCCCCCCC------------------------------------------------------------------------
T ss_conf 33321101------------------------------------------------------------------------
Q ss_pred CCCCCCCCCCCHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHH
Q ss_conf 78999999873010049877787200000012244333466889997655457889998859983999999999999998
Q 002709 372 TTGSLPSLSDDSALVKGNKEQDSDKTVNESAKVSDVSKLNSSKSKPKSLKQTEGEDELQNTIFICNLPFDLDNEEVKQRF 451 (890)
Q Consensus 372 ~~g~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~v~p~~~~~~~~~~~~~~~~~~~~~~~i~V~NLp~~~teeeL~~~F 451 (890)
......+|||+|||+.+++++|+++|
T Consensus 99 ------------------------------------------------------~~~~~~~l~v~nl~~~~t~~~l~~~F 124 (213)
T 4f02_A 99 ------------------------------------------------------RKSGVGNIFIKNLDKSIDNKALYDTF 124 (213)
T ss_dssp ------------------------------------------------------HHHCTTEEEEESCCTTCCHHHHHHHH
T ss_pred ------------------------------------------------------CCCCCCCCEECCCCCCCHHHHHHHHH
T ss_conf ------------------------------------------------------01345553477764442799999998
Q ss_pred HHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEEEEECCCHHHH
Q ss_conf 6079817999954278999873689997899999999998133799772561818999992370111
Q 002709 452 SAFGEVVSFVPVLHQVTKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLTVLKALDKKLA 518 (890)
Q Consensus 452 ~~fG~I~~v~i~~~~~~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~V~~a~~k~~~ 518 (890)
+.||.|..+.|+.+. +.++|||||+|.+.++|.+|+..|| |..|+|++|.|.||.++...
T Consensus 125 ~~~G~i~~~~i~~d~--~~~~g~~fV~f~~~~~a~~Ai~~ln-----g~~~~g~~i~V~~a~~~~~~ 184 (213)
T 4f02_A 125 SAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKMN-----GMLLNDRKVFVGRFKSRKER 184 (213)
T ss_dssp GGGSCEEEEEEEEET--TEEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEECCCHHHH
T ss_pred HHCCCEEEEEEECCC--CCCCEEEEEEECCHHHHHHHHHHHC-----CCEECCEEEEEEECCCCCCC
T ss_conf 566996799763258--9884289998688999999999819-----99889988899975787665
No 7
>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A
Probab=1.00 E-value=1 Score=221.05 Aligned_cols=80 Identities=23% Similarity=0.401 Sum_probs=42.2
Q ss_pred CCCCEEEECCCCCCCCHHHHHHHHCCCCCEEEEEECCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEE
Q ss_conf 99949999269999989999985135998479998204999982029999944999999999994893549821799961
Q 002709 214 TQKWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWA 293 (890)
Q Consensus 214 ~~~~~i~V~nLp~~~tee~L~~~F~~~G~I~~v~i~~d~~tg~~~G~AfV~F~~~e~A~~Al~~lng~~l~g~~i~V~~a 293 (890)
...++|||+|||+.+++++|+++|+.||.|..|.|+.+..++.++|||||+|.+.++|..|+.. ++..|.|+.|.|.++
T Consensus 11 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~~ 89 (196)
T 1l3k_A 11 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRA 89 (196)
T ss_dssp GGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEEC
T ss_pred CCCCEEEEECCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHC-CCCEECCEEEEEECC
T ss_conf 7787899908899899999999997379879999997299998363599996889999999823-997799888500005
Q ss_pred C
Q ss_conf 5
Q 002709 294 V 294 (890)
Q Consensus 294 ~ 294 (890)
.
T Consensus 90 ~ 90 (196)
T 1l3k_A 90 V 90 (196)
T ss_dssp C
T ss_pred C
T ss_conf 5
No 8
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Probab=1.00 E-value=1 Score=220.19 Aligned_cols=176 Identities=21% Similarity=0.333 Sum_probs=130.3
Q ss_pred CCEEEECCCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEEE
Q ss_conf 88599839999999999999986079817999954278999873689997899999999998133799772561818999
Q 002709 430 QNTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLTV 509 (890)
Q Consensus 430 ~~~i~V~NLp~~~teeeL~~~F~~fG~I~~v~i~~~~~~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~V 509 (890)
.++|||+|||.++++++|+++|+.||.|..+.++.+..++.++|||||+|.+.++|.+|+..++ +..+.|+.|.|
T Consensus 28 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~-----~~~~~g~~l~v 102 (216)
T 2qfj_A 28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMN-----SVMLGGRNIKV 102 (216)
T ss_dssp HTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHS-----SCCCC-CCCEE
T ss_pred CCEEEEECCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHCC-----CCEECCEEEEE
T ss_conf 8779997899989999999999857997899986658888637669999689999999998746-----77269916898
Q ss_pred EECCCHHHHCHHHHHHHCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEC
Q ss_conf 99237011112565310023355442011002656689987889990469999998997421038999877667699958
Q 002709 510 LKALDKKLAHDKEIDKSKNETNDHRNLYLAKEGLILEGTPAAEGVSDDDMSKRQMLHEKKMTKLQSPNFHVSRTRLVIYN 589 (890)
Q Consensus 510 ~~a~~k~~~~~~~~~~~~~~~~~~~~l~l~~eg~~~~~~p~a~~~s~~~~~~r~~~~~~~~~~~~~p~~~~~~~~L~V~N 589 (890)
.++.......... . .... . ....++|||+|
T Consensus 103 ~~~~~~~~~~~~~--------------------------------------~--~~~~-----~-----~~~~~~l~v~n 132 (216)
T 2qfj_A 103 GRPSNIGQAQPII--------------------------------------D--QLAE-----E-----ARAFNRIYVAS 132 (216)
T ss_dssp ECCSCCGGGHHHH--------------------------------------H--HHHH-----H-----HTTSCEEEEEC
T ss_pred ECCCCCCCCCHHH--------------------------------------H--HHHC-----C-----CCCCCEEEEEC
T ss_conf 5688843101023--------------------------------------4--3300-----2-----67875799937
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 99888999999999998763202579973899982125578667889962089999389999999999960999988999
Q 002709 590 LPKSMTEKGLKKLCIDAVVSRASKQKPVIKQIKFLQSLKKGKVDTKHYSRGVAFVEFTEHQHALVALRVLNNNPKTFGPE 669 (890)
Q Consensus 590 LP~~~teeeL~~lF~~~~~~~~~~~~G~I~~v~i~rd~~~g~~~~~~~srG~aFV~F~s~e~A~~Al~~Lng~p~~~g~~ 669 (890)
||..+++++|+++|+ .||.|..++++++..++ .++|||||+|.+.++|.+|+..|||. .++ +
T Consensus 133 lp~~~t~~~l~~~f~---------~~G~v~~v~i~~~~~~g------~~~g~afV~F~~~~~A~~A~~~l~g~--~~~-g 194 (216)
T 2qfj_A 133 VHQDLSDDDIKSVFE---------AFGKIKSATLARDPTTG------KHKGYGFIEYEKAQSSQDAVSSMNLF--DLG-G 194 (216)
T ss_dssp CCTTCCHHHHHHHHT---------TSSCEEEEEEEECTTTC------CEEEEEEEEESSHHHHHHHHHHHTTC--BCS-S
T ss_pred CCCCCCHHHHHHHHH---------CCCCEEEEEEEECCCCC------CCCCEEEEEECCHHHHHHHHHHCCCC--EEC-C
T ss_conf 897588999999974---------36986689987358899------75756999966899999999973687--728-9
Q ss_pred CCCEEEEEC
Q ss_conf 961999861
Q 002709 670 HRPIVEFAV 678 (890)
Q Consensus 670 ~rliV~~A~ 678 (890)
+.+.|.||.
T Consensus 195 ~~i~V~~a~ 203 (216)
T 2qfj_A 195 QYLRVGKAV 203 (216)
T ss_dssp SBCEEEECS
T ss_pred CEEEEEEEC
T ss_conf 589999812
No 9
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Probab=1.00 E-value=1 Score=217.58 Aligned_cols=179 Identities=25% Similarity=0.390 Sum_probs=144.3
Q ss_pred CCEEEECCCCCCCCHHHHHHHHCCCCCEEEEEECCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEECC
Q ss_conf 94999926999998999998513599847999820499998202999994499999999999489354982179996158
Q 002709 216 KWKLIIRNIPFKAKVNEIKDMFSPVGLVWNVYIPHNTDTGLSKGFAFVKFTCKRDAESAIQKFNGQKFGKRPIAVDWAVP 295 (890)
Q Consensus 216 ~~~i~V~nLp~~~tee~L~~~F~~~G~I~~v~i~~d~~tg~~~G~AfV~F~~~e~A~~Al~~lng~~l~g~~i~V~~a~p 295 (890)
.++|||+|||+++++++|+++|+.||.|..|.++++..++.++|||||+|.+.++|..|+..|++..|.|+.|.|.++..
T Consensus 28 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~ 107 (216)
T 2qfj_A 28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSN 107 (216)
T ss_dssp HTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSC
T ss_pred CCEEEEECCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHCCCCEECCEEEEEECCCC
T ss_conf 87799978999899999999998579978999866588886376699996899999999987467726991689856888
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf 98768899898853246578899999999999999986556678899853368999988406899999985110367899
Q 002709 296 KNIYSSGGAAAGAYEDGVQNKGDGNSDSGSDDDLGDDDAETASDDSNSSEKEDLPSNADFDEEVDIARKVLNKLTSTTGS 375 (890)
Q Consensus 296 k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 375 (890)
.... ... . .....
T Consensus 108 ~~~~--------------------------------------------------------~~~---~-~~~~~------- 120 (216)
T 2qfj_A 108 IGQA--------------------------------------------------------QPI---I-DQLAE------- 120 (216)
T ss_dssp CGGG--------------------------------------------------------HHH---H-HHHHH-------
T ss_pred CCCC--------------------------------------------------------CHH---H-HHHHC-------
T ss_conf 4310--------------------------------------------------------102---3-43300-------
Q ss_pred CCCCCCCHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHCC
Q ss_conf 99998730100498777872000000122443334668899976554578899988599839999999999999986079
Q 002709 376 LPSLSDDSALVKGNKEQDSDKTVNESAKVSDVSKLNSSKSKPKSLKQTEGEDELQNTIFICNLPFDLDNEEVKQRFSAFG 455 (890)
Q Consensus 376 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~v~p~~~~~~~~~~~~~~~~~~~~~~~i~V~NLp~~~teeeL~~~F~~fG 455 (890)
.....++|||+|||..+++++|+++|+.||
T Consensus 121 --------------------------------------------------~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G 150 (216)
T 2qfj_A 121 --------------------------------------------------EARAFNRIYVASVHQDLSDDDIKSVFEAFG 150 (216)
T ss_dssp --------------------------------------------------HHTTSCEEEEECCCTTCCHHHHHHHHTTSS
T ss_pred --------------------------------------------------CCCCCCEEEEECCCCCCCHHHHHHHHHCCC
T ss_conf --------------------------------------------------267875799937897588999999974369
Q ss_pred CEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEEEEECCCHH
Q ss_conf 8179999542789998736899978999999999981337997725618189999923701
Q 002709 456 EVVSFVPVLHQVTKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLTVLKALDKK 516 (890)
Q Consensus 456 ~I~~v~i~~~~~~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~V~~a~~k~ 516 (890)
.|..+.++.+..++.++|||||+|.+.++|.+|+..|| +..|+|+.|.|.|+.++.
T Consensus 151 ~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~-----g~~~~g~~i~V~~a~~~~ 206 (216)
T 2qfj_A 151 KIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMN-----LFDLGGQYLRVGKAVTPP 206 (216)
T ss_dssp CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCBCSSSBCEEEECSSCS
T ss_pred CEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHCC-----CCEECCCEEEEEEECCCC
T ss_conf 86689987358899757569999668999999999736-----877289589999812799
No 10
>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C
Probab=1.00 E-value=1 Score=217.37 Aligned_cols=160 Identities=18% Similarity=0.324 Sum_probs=80.3
Q ss_pred CEEEECCCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHHHCCCCCCCEEECCEEEEEE
Q ss_conf 85998399999999999999860798179999542789998736899978999999999981337997725618189999
Q 002709 431 NTIFICNLPFDLDNEEVKQRFSAFGEVVSFVPVLHQVTKRPKGTGFLKFKTVEAATAAVSASKTTSGLGIFLKGRQLTVL 510 (890)
Q Consensus 431 ~~i~V~NLp~~~teeeL~~~F~~fG~I~~v~i~~~~~~g~~kg~aFV~F~~~e~A~~Ai~~ln~~~~~g~~l~Gr~l~V~ 510 (890)
++|||+|||+++|+++|+++|+.||.|..+.++.+..++.++|||||+|.+.++|..|+.. +..+.|+.|.|.
T Consensus 4 ~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~-------~~~~~g~~i~v~ 76 (167)
T 2cjk_A 4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT-------QHILDGKVIDPK 76 (167)
T ss_dssp GEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS-------CCEETTEECCCE
T ss_pred CEEEEECCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCCEEEEEECCHHHHHHHHHC-------CCCCCCEECCCC
T ss_conf 5899968998789999999997279888999987788897461599997619999999853-------654598171222
Q ss_pred ECCCHHHHCHHHHHHHCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEECC
Q ss_conf 92370111125653100233554420110026566899878899904699999989974210389998776676999589
Q 002709 511 KALDKKLAHDKEIDKSKNETNDHRNLYLAKEGLILEGTPAAEGVSDDDMSKRQMLHEKKMTKLQSPNFHVSRTRLVIYNL 590 (890)
Q Consensus 511 ~a~~k~~~~~~~~~~~~~~~~~~~~l~l~~eg~~~~~~p~a~~~s~~~~~~r~~~~~~~~~~~~~p~~~~~~~~L~V~NL 590 (890)
++.++.... ..++|||+||
T Consensus 77 ~~~~~~~~~-------------------------------------------------------------~~~~l~V~nl 95 (167)
T 2cjk_A 77 RAIPRDEQD-------------------------------------------------------------KTGKIFVGGI 95 (167)
T ss_dssp ECCCHHHHH-------------------------------------------------------------HCEEEEEEEE
T ss_pred CCCCHHHCC-------------------------------------------------------------CCCEEEECCC
T ss_conf 246600136-------------------------------------------------------------7872998999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 98889999999999987632025799738999821255786678899620899993899999999999609999889999
Q 002709 591 PKSMTEKGLKKLCIDAVVSRASKQKPVIKQIKFLQSLKKGKVDTKHYSRGVAFVEFTEHQHALVALRVLNNNPKTFGPEH 670 (890)
Q Consensus 591 P~~~teeeL~~lF~~~~~~~~~~~~G~I~~v~i~rd~~~g~~~~~~~srG~aFV~F~s~e~A~~Al~~Lng~p~~~g~~~ 670 (890)
|..+++++|+++|+ .||.|..++++++..++ .++|||||+|.++++|.+|+. +++. .++ ++
T Consensus 96 p~~~t~~~l~~~F~---------~~G~i~~~~i~~~~~~g------~~~g~afV~f~~~~~a~~A~~-~~~~--~~~-g~ 156 (167)
T 2cjk_A 96 GPDVRPKEFEEFFS---------QWGTIIDAQLMLDKDTG------QSRGFGFVTYDSADAVDRVCQ-NKFI--DFK-DR 156 (167)
T ss_dssp CTTCCHHHHHHHHH---------TTSCCSEEECCCSSSSS------TTSEEEEEEESSHHHHHHHHH-CSEE--CSS-SS
T ss_pred CCCCCHHHHHHHHH---------HCCCEEEEEEEECCCCC------CCCEEEEEEECCHHHHHHHHH-CCCE--EEC-CE
T ss_conf 99899999999998---------37037999998858999------611279999898899999985-7997--947-80
Q ss_pred CCEEEEE
Q ss_conf 6199986
Q 002709 671 RPIVEFA 677 (890)
Q Consensus 671 rliV~~A 677 (890)
.+.|.||
T Consensus 157 ~i~V~~a 163 (167)
T 2cjk_A 157 KIEIKRA 163 (167)
T ss_dssp CEEEEEC
T ss_pred EEEEEEC
T ss_conf 7999526
Done!