Query psy8135
Match_columns 295
No_of_seqs 126 out of 736
Neff 8.1
Searched_HMMs 29240
Date Fri Aug 16 19:28:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8135.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/8135hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1hu3_A EIF4GII; heat repeat, t 100.0 8.1E-55 2.8E-59 388.9 19.7 243 16-269 3-260 (260)
2 2vso_E Eukaryotic initiation f 100.0 7.4E-53 2.5E-57 380.7 25.6 243 2-250 7-284 (284)
3 3rk6_A Polyadenylate-binding p 100.0 1.1E-45 3.8E-50 323.9 17.9 209 15-244 10-234 (234)
4 2i2o_A EIF4G-like protein; pro 100.0 4.3E-41 1.5E-45 292.9 12.2 194 34-253 10-213 (224)
5 1uw4_B UPF2, regulator of nons 99.7 5.6E-16 1.9E-20 135.3 18.1 219 24-270 4-241 (248)
6 1h2v_C 80 kDa nuclear CAP bind 99.2 9.9E-10 3.4E-14 110.6 19.3 200 21-250 5-227 (771)
7 4b89_A General negative regula 96.9 0.03 1E-06 48.3 14.2 197 16-245 26-226 (249)
8 4gmj_A CCR4-NOT transcription 96.3 0.2 6.9E-06 42.7 15.6 195 22-245 5-203 (229)
9 3u0r_A Apoptosis inhibitor 5; 92.0 3.2 0.00011 39.2 13.8 166 18-204 172-361 (507)
10 3pev_B Nucleoporin GLE1; RECA, 90.3 9.2 0.00031 33.8 17.2 170 20-205 40-245 (297)
11 1juq_A ADP-ribosylation factor 47.1 81 0.0028 25.1 7.9 89 146-246 32-128 (171)
12 3g2s_A C-terminal fragment of 35.3 1.5E+02 0.0053 22.9 8.2 89 146-246 30-126 (149)
13 1ug3_A EIF4GI, eukaryotic prot 26.3 3.3E+02 0.011 23.8 11.6 124 19-169 5-131 (339)
14 1sz9_A PCF11 protein; RNA poly 25.1 2.3E+02 0.0079 21.6 7.8 89 20-115 4-95 (144)
No 1
>1hu3_A EIF4GII; heat repeat, translation; 2.37A {Homo sapiens} SCOP: a.118.1.14
Probab=100.00 E-value=8.1e-55 Score=388.87 Aligned_cols=243 Identities=41% Similarity=0.725 Sum_probs=188.5
Q ss_pred CCcchHHHHHHHHHHHhhccChhhHHHHHHHHHhhccCCHHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHh-hCCCCC
Q psy8135 16 TPENVQDATFRKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGVILLIFEKALHETKYTSMYARLCKRLTE-QAPNFE 94 (295)
Q Consensus 16 ~e~~~~~~l~~~v~~iLNkLt~~n~~~i~~~l~~~~i~~~~~l~~vv~~I~ekAv~e~~f~~~yA~Lc~~L~~-~~~~~~ 94 (295)
.|+++++.+.|+|+|+|||||++||+.++.+|+++++.+.+.++.|++.||+||+.+|+|+++||+||+.|+. .+|..+
T Consensus 3 ~e~~~~~~l~r~v~giLNKLT~~nf~~i~~ql~~~~i~~~~~l~~vi~~if~kA~~ep~f~~~YA~Lc~~L~~~~~p~~~ 82 (260)
T 1hu3_A 3 PENIKTQELFRKVRSILNKLTPQMFNQLMKQVSGLTVDTEERLKGVIDLVFEKAIDEPSFSVAYANMCRCLVTLKVPMAD 82 (260)
T ss_dssp HHHHHHHHHHHHHHHHHTCSSCCCHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHTTCCCC---
T ss_pred hHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhhCCccc
Confidence 3678999999999999999999999999999999999999999999999999999999999999999999987 466654
Q ss_pred CCCchhhHHHHHHHHHHHHHhhhhhhhhhcCCC--CC----CccH--------HHHHHHHHhhhhhHHHHHHHHhhcCCC
Q psy8135 95 PPDESCTFKKHLLWVCKNEFENRSRATEAFGNL--PL----SPDD--------EDRRQLAKQKMLGNIKFIGELGKHEIV 160 (295)
Q Consensus 95 ~~~~~~~Fr~~Ll~~~q~~F~~~~~~~~~~~~~--~l----~~ee--------~e~~~~~k~r~~g~i~FigeLf~~~~i 160 (295)
.++++..||+.||++||++|++.+......++. ++ ++++ ++.+...|+|++|+++||||||+++++
T Consensus 83 ~~~~~~~Fr~~LL~rcq~eFe~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~e~ee~~~~~k~r~lg~i~FIgeLy~~~~l 162 (260)
T 1hu3_A 83 KPGNTVNFRKLLLNRCQKEFEKDKADDDVFEKKQKELEAASAPEERTRLHDELEEAKDKARRRSIGNIKFIGELFKLKML 162 (260)
T ss_dssp ------CHHHHHHHHHHHHHHHHTC------------------------------CCSSHHHHHHHHHHHHHHHHTTTCS
T ss_pred CCccchHHHHHHHHHHHHHHhcccchhhhHHHHhhhhcccCCHHHHHHhhhHHHHHHHHHHHHHHhHHHHHHHHHhcCCC
Confidence 444678899999999999999887532211110 11 1111 122245678999999999999999999
Q ss_pred chhHHHHHHHHhccCCCCCCCCCCChhhHHHHHHHHHHhhhhhcCchhhhHHHHHHHHHHHHHhCCCCCChHHHHHHHHH
Q psy8135 161 TESILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDSEKGQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDV 240 (295)
Q Consensus 161 ~~~ii~~~l~~Ll~~~~~~~~~~~~e~~iE~l~~LL~~~G~~L~~~~~~~~ld~~f~~L~~l~~~~~~~s~rirfmi~~l 240 (295)
++.+|++|+..|+.. |++++|||+|.||++||+.|+.++++..|+.+|.+|+.+..+. .+|+|+||||+++
T Consensus 163 ~~~i~~~~l~~Ll~~--------~~e~~iE~l~~lL~tvG~~L~~~~~~~~l~~~f~~l~~~~~~~-~ls~Rirfmi~~l 233 (260)
T 1hu3_A 163 TEAIMHDCVVKLLKN--------HDEESLECLCRLLTTIGKDLDFEKAKPRMDQYFNQMEKIVKER-KTSSRIRFMLQDV 233 (260)
T ss_dssp CHHHHHHHHHHHHHS--------CSHHHHHHHHHHHHHHHHHHCCTTTHHHHHHHHHHHHHHHHSC-SSCHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhCC--------CCHHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHH
Confidence 999999999999996 8899999999999999999998666778999999999999877 8999999999999
Q ss_pred HHHHhCCCccCccCCCCCCCChHHHHHHh
Q psy8135 241 EDLRRNNWVPRQANNPEKPVPINQIIEED 269 (295)
Q Consensus 241 ielR~~~W~~~~~~~~~~p~~~~~i~~~~ 269 (295)
+|+|++||+++.+ +.||+|++|||+||
T Consensus 234 ~dLR~~~W~~~~~--~~~pkti~~i~~ea 260 (260)
T 1hu3_A 234 IDLRLCNWVSRRA--DQGPKTIEQIHKEA 260 (260)
T ss_dssp HHHHHTTTCC-------------------
T ss_pred HHHHHcCCCCCcc--ccCCCcHHHHHhhC
Confidence 9999999999875 67999999999986
No 2
>2vso_E Eukaryotic initiation factor 4F subunit P150; acetylation, ATP-binding, phosphoprotein, protein biosynthesis, translation regulation; HET: AMP; 2.6A {Saccharomyces cerevisiae} PDB: 2vsx_E*
Probab=100.00 E-value=7.4e-53 Score=380.70 Aligned_cols=243 Identities=27% Similarity=0.492 Sum_probs=197.1
Q ss_pred CccCCCCccccCC-------CCCcchHHHHHHHHHHHhhccChhhHHHHHHHHHhhcc-----CCHHHHHHHHHHHHHHh
Q psy8135 2 TRWIPPSALRRDA-------LTPENVQDATFRKVRELLNKLTPEKFDKLSDDLLQLDL-----NSSKILKGVILLIFEKA 69 (295)
Q Consensus 2 ~~~~p~~~~~~~~-------~~e~~~~~~l~~~v~~iLNkLt~~n~~~i~~~l~~~~i-----~~~~~l~~vv~~I~ekA 69 (295)
|+||||++|+++. .++..+++.+.|+|+|+|||||++||+.++.+|+++++ .+.+.++.||+.||+||
T Consensus 7 ~~w~P~~~~~~~~~~~~~~~~~~~~~~e~l~r~vkgiLNKLT~~nf~~i~~ql~~~~~~~~~~~~~~~l~~vi~~If~kA 86 (284)
T 2vso_E 7 NRWVPKFKSKKTEKKLAPDGKTELLDKDEVERKMKSLLNKLTLEMFDAISSEILAIANISVWETNGETLKAVIEQIFLKA 86 (284)
T ss_dssp CCCCCC---------------CCCCCHHHHHHHHHHHHHSCCSTTHHHHHHHHHHHHHGGGGCSBCHHHHHHHHHHHHHH
T ss_pred CCCCChhhhcccccccCCCcccccccHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHhhccccCcHHHHHHHHHHHHHHH
Confidence 7999999988642 12346799999999999999999999999999999876 57789999999999999
Q ss_pred hhcccchHHHHHHHHHHHhhCC-CCCC-----CCchhhHHHHHHHHHHHHHhhhhhhh-h----h--cCCCCCCccHHHH
Q psy8135 70 LHETKYTSMYARLCKRLTEQAP-NFEP-----PDESCTFKKHLLWVCKNEFENRSRAT-E----A--FGNLPLSPDDEDR 136 (295)
Q Consensus 70 v~e~~f~~~yA~Lc~~L~~~~~-~~~~-----~~~~~~Fr~~Ll~~~q~~F~~~~~~~-~----~--~~~~~l~~ee~e~ 136 (295)
+.+|+|+++||+||..|+..+| .+.+ ..++..||+.||++||++|++.+... . + .+. .+..||+++
T Consensus 87 ~~ep~fs~~YA~Lc~~l~~~l~~~i~~e~~~~k~g~~~Fr~~LL~rcq~eFe~~~~~~~~~~~~~~~~e~-e~~~~e~~~ 165 (284)
T 2vso_E 87 CDEPHWSSMYAQLCGKVVKELNPDITDETNEGKTGPKLVLHYLVARCHAEFDKGWTDKLPTNEDGTPLEP-EMMSEEYYA 165 (284)
T ss_dssp HHCGGGHHHHHHHHHHHHHHSCTTCCBCC---CCTHHHHHHHHHHHHHHHHHHCCCSSCC-------------CCTTHHH
T ss_pred HcCcchHHHHHHHHHHHHHhcCcccccccccccchhhHHHHHHHHHHHHHHhhhhhhhhhhccccchhhh-hhhhhHHHH
Confidence 9999999999999999998875 3421 12456899999999999999875321 0 0 000 112344455
Q ss_pred HHHHHhhhhhHHHHHHHHhhcCCCchhHHHHHHHHhccCCCCCCCCCCChhhHHHHHHHHHHhhhhhcCch---------
Q psy8135 137 RQLAKQKMLGNIKFIGELGKHEIVTESILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDSEK--------- 207 (295)
Q Consensus 137 ~~~~k~r~~g~i~FigeLf~~~~i~~~ii~~~l~~Ll~~~~~~~~~~~~e~~iE~l~~LL~~~G~~L~~~~--------- 207 (295)
+...|+|++|+++||||||+++++++.+|++||..||.+... .|+|++|||+|.||++||+.|+.++
T Consensus 166 ~~~~k~r~lg~i~FIgeLyk~~~l~~~i~~~ci~~LL~~~~~----~p~e~~iE~l~~lL~tvG~~Ld~~~~~~~~~~~~ 241 (284)
T 2vso_E 166 AASAKRRGLGLVRFIGFLYRLNLLTGKMMFECFRRLMKDLTD----SPSEETLESVVELLNTVGEQFETDSFRTGQATLE 241 (284)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHS----CCCHHHHHHHHHHHHHHHHHHTSCC--------C
T ss_pred HHHHHHHHhhHHHHHHHHHhccCCcHHHHHHHHHHHhccCCC----CCCHHHHHHHHHHHHHHHHHHhcccccccccchh
Confidence 667889999999999999999999999999999999973100 2889999999999999999999854
Q ss_pred hhhHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHHhC-CCcc
Q psy8135 208 GQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDVEDLRRN-NWVP 250 (295)
Q Consensus 208 ~~~~ld~~f~~L~~l~~~~~~~s~rirfmi~~lielR~~-~W~~ 250 (295)
++..|+.||.+|+.+..+. .+|+|+||||++|+|+|++ ||++
T Consensus 242 ~~~~md~~f~~l~~l~~~~-~ls~RirFml~dlidLR~n~~W~~ 284 (284)
T 2vso_E 242 GSQLLDSLFGILDNIIQTA-KISSRIKFKLIDIKELRHDKNWNS 284 (284)
T ss_dssp HHHHHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHHHTSTTC-
T ss_pred hHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhcccCCCC
Confidence 3578999999999998776 8999999999999999996 9974
No 3
>3rk6_A Polyadenylate-binding protein-interacting protein; heat fold, PABP, EIF4A, EIF3, translation regulator; 2.00A {Homo sapiens}
Probab=100.00 E-value=1.1e-45 Score=323.86 Aligned_cols=209 Identities=24% Similarity=0.430 Sum_probs=178.5
Q ss_pred CCCcchHHHHHHHHHHHhhccC--hhhHHHHHHHHHhh---ccCCHHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHhh
Q psy8135 15 LTPENVQDATFRKVRELLNKLT--PEKFDKLSDDLLQL---DLNSSKILKGVILLIFEKALHETKYTSMYARLCKRLTEQ 89 (295)
Q Consensus 15 ~~e~~~~~~l~~~v~~iLNkLt--~~n~~~i~~~l~~~---~i~~~~~l~~vv~~I~ekAv~e~~f~~~yA~Lc~~L~~~ 89 (295)
....+..+.+.++|+++||||| |+||+.++++|+++ .+.+.+.++.||+.||+||+.||+|+++||+||..|...
T Consensus 10 ~~~~~~~~~l~r~v~~iLNkLT~~p~~f~~l~~~i~~~~~~~~~~~~~L~~vi~lIfekAi~ep~fs~~YA~LC~~l~~~ 89 (234)
T 3rk6_A 10 GQQMGRGSTLSEYVQDFLNHLTEQPGSFETEIEQFAETLNGCVTTDDALQELVELIYQQATSIPNFSYMGARLCNYLSHH 89 (234)
T ss_dssp --------CHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSSTTCHHHHHHHHHHHHHH
T ss_pred cCcccchHHHHHHHHHHHHHccCChhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHh
Confidence 3445789999999999999999 99999999999987 678999999999999999999999999999999999987
Q ss_pred CCCCCCCCchhhHHHHHHHHHHHHHhhhhhhhhhcCCCCCCccHHHHHHHHHhhhhhHHHHHHHHhhc--------CCCc
Q psy8135 90 APNFEPPDESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKH--------EIVT 161 (295)
Q Consensus 90 ~~~~~~~~~~~~Fr~~Ll~~~q~~F~~~~~~~~~~~~~~l~~ee~e~~~~~k~r~~g~i~FigeLf~~--------~~i~ 161 (295)
++..+ ++..||+.||++||++|++.++... .|+ ..|+|++|+++||||||++ ++++
T Consensus 90 l~~~~---~~~~Fr~lLL~rcQ~eFe~~~~~~~--------~d~-----~~k~r~lg~i~FIgELf~~l~~~~~~~~~l~ 153 (234)
T 3rk6_A 90 LTISP---QSGNFRQLLLQRCRTEYEVKDQAAK--------GDE-----VTRKRFHAFVLFLGELYLNLEIKGTNGQVTR 153 (234)
T ss_dssp CCCCC---TTCCHHHHHHHHHHHHHTTHHHHTS--------SCH-----HHHHHHHHHHHHHHHHHHHCCEECTTSSEEC
T ss_pred cCCCC---chhHHHHHHHHHHHHHHHhhHHhhh--------ccH-----HHHHHHHHHHHHHHHHHhhhcccccccchhH
Confidence 75432 4678999999999999999875421 122 3568899999999999998 7999
Q ss_pred hhHHHHHHHHhccCCCCCCCCCCChhhHHHHHHHHHHhhhhhcC---chhhhHHHHHHHHHHHHHhCCCCCChHHHHHHH
Q psy8135 162 ESILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDS---EKGQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQ 238 (295)
Q Consensus 162 ~~ii~~~l~~Ll~~~~~~~~~~~~e~~iE~l~~LL~~~G~~L~~---~~~~~~ld~~f~~L~~l~~~~~~~s~rirfmi~ 238 (295)
+.+++.|+..|+..... .|+|++|||+|.+|++||+.|+. ++++..||.||++|+.+..+. .+|+|+||||+
T Consensus 154 e~I~~~ci~~Ll~~l~~----~p~ee~vE~l~~lL~tvG~~Ld~~~~~~~~~~md~~f~rl~~i~~~~-~ls~Rirfml~ 228 (234)
T 3rk6_A 154 ADILQVGLRELLNALFS----NPMDDNLICAVKLLKLTGSVLEDAWKEKGKMDMEEIIQRIENVVLDA-NCSRDVKQMLL 228 (234)
T ss_dssp CHHHHHHHHHHHHHHHH----SCCHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred HHHHHHHHHHHHHhccC----CCChHHHHHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHHHHHhCC-CCCHHHHHHHH
Confidence 99999999998875211 27899999999999999999997 457789999999999999887 89999999999
Q ss_pred HHHHHH
Q psy8135 239 DVEDLR 244 (295)
Q Consensus 239 ~lielR 244 (295)
+|+|+|
T Consensus 229 dlieLR 234 (234)
T 3rk6_A 229 KLVELR 234 (234)
T ss_dssp HHHHHC
T ss_pred HHHHhC
Confidence 999997
No 4
>2i2o_A EIF4G-like protein; protein structure initiative, PSI, cente eukaryotic structural genomics, CESG, structural genomics, function; HET: MSE; 1.92A {Danio rerio}
Probab=100.00 E-value=4.3e-41 Score=292.90 Aligned_cols=194 Identities=20% Similarity=0.365 Sum_probs=160.7
Q ss_pred ccChhhHHHHHHHHHhhccC--CHHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHhhCCCCCCCCchhhHHHHHHHHHH
Q psy8135 34 KLTPEKFDKLSDDLLQLDLN--SSKILKGVILLIFEKALHETKYTSMYARLCKRLTEQAPNFEPPDESCTFKKHLLWVCK 111 (295)
Q Consensus 34 kLt~~n~~~i~~~l~~~~i~--~~~~l~~vv~~I~ekAv~e~~f~~~yA~Lc~~L~~~~~~~~~~~~~~~Fr~~Ll~~~q 111 (295)
..+.++|+..+.+++...+. +...++.||++||+||+.||+|+++||+||..|....+. ..+++.||+.||++||
T Consensus 10 ~~~i~~f~~~~q~ll~~~~~~~~~~~l~~vi~lIfeKAi~ep~fs~~YA~LC~~L~~~~~~---~~g~~~Fr~~LLn~cQ 86 (224)
T 2i2o_A 10 DYKIQSFDLETQKLLKTALKDPGSVDLEKVSSVIVDQSLKDQVFSREAGRICYTIVQAEAK---QTNGSVFRRNLLNRLQ 86 (224)
T ss_dssp CCCCTTSCHHHHHHHHHHHHCGGGSCHHHHHHHHHHHHTTCHHHHHHTHHHHHHHHHHHHH---HHSCCHHHHHHHHHHH
T ss_pred ccchhccCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHHccc---cccchHHHHHHHHHHH
Confidence 34456777777777765443 334689999999999999999999999999999876421 1235669999999999
Q ss_pred HHHhhhhhhhhhcCCCCCCccHHHHHHHHHhhhhhHHHHHHHHhhc----CC--Cc-hhHHHHHHHHhccCCCCCCCCCC
Q psy8135 112 NEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKH----EI--VT-ESILHTCIQELLPKNRKVQTNKD 184 (295)
Q Consensus 112 ~~F~~~~~~~~~~~~~~l~~ee~e~~~~~k~r~~g~i~FigeLf~~----~~--i~-~~ii~~~l~~Ll~~~~~~~~~~~ 184 (295)
++|++..+ .+...|+|++|+++||||||+. ++ +. .++|+.|+..|+.... .|
T Consensus 87 ~eFe~~ee----------------~~~~~k~r~lG~i~FIgELf~~l~~~~~~~~~l~~i~~~cl~~Ll~~~~-----~p 145 (224)
T 2i2o_A 87 QEFKAREE----------------TRKRSTQEWVCLVSFICNIFDYLKVNNMPMVALVHPVYDCLFRLAQSDA-----LK 145 (224)
T ss_dssp HHHHTHHH----------------HHHHCHHHHHHHHHHHHHHHHHSCBTTBCCGGGHHHHHHHHHHHTSHHH-----HT
T ss_pred HHHHChHH----------------HHHHHHHHHhHHHHHHHHHHhHhcccCcchHHHHHHHHHHHHHHhccCC-----CC
Confidence 99998531 2245678999999999999999 84 45 6799999999998521 26
Q ss_pred ChhhHHHHHHHHHHhhhhhcCchhhhHHHHHHHHHHH-HHhCCCCCChHHHHHHHHHHHHHhCCCccCcc
Q psy8135 185 VSENLECLCQIMKTCGRILDSEKGQGLMNQYFSRMKT-VQTSTPHLPLRIRFMLQDVEDLRRNNWVPRQA 253 (295)
Q Consensus 185 ~e~~iE~l~~LL~~~G~~L~~~~~~~~ld~~f~~L~~-l~~~~~~~s~rirfmi~~lielR~~~W~~~~~ 253 (295)
+|++|||+|.||+++|+.|+.+ .++.||.+|++|+. +..+. .+|+|+||||++|+|+|++||+++.+
T Consensus 146 ~Ee~lEcl~~LL~tvG~~Ld~~-~~~~md~~f~~l~~~l~~~~-~ls~RiRfml~dlieLR~~~W~~~~~ 213 (224)
T 2i2o_A 146 NEEEVDCLVLQLHRIGDQLEKM-NVQLMDELFNLLRDGFLLQE-DLSSMGRLLLLEILEFRAGGWKLSDT 213 (224)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHH-CHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHTTSCCCHH
T ss_pred CHHHHHHHHHHHHHHHHHHHcc-cHHHHHHHHHHHHHHHhcCc-CCCHHHHHHHHHHHHHHHCCCCCCch
Confidence 8999999999999999999985 44789999999999 67766 89999999999999999999998764
No 5
>1uw4_B UPF2, regulator of nonsense transcripts 2; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: a.118.1.14
Probab=99.71 E-value=5.6e-16 Score=135.28 Aligned_cols=219 Identities=16% Similarity=0.199 Sum_probs=149.3
Q ss_pred HHHHHHHHh-hccChhhHHHHHHHHHhhccCCHHHHHHHHHHHHHHhhh-cccchHHHHHHHHHHHhhCCCCCCCCchhh
Q psy8135 24 TFRKVRELL-NKLTPEKFDKLSDDLLQLDLNSSKILKGVILLIFEKALH-ETKYTSMYARLCKRLTEQAPNFEPPDESCT 101 (295)
Q Consensus 24 l~~~v~~iL-NkLt~~n~~~i~~~l~~~~i~~~~~l~~vv~~I~ekAv~-e~~f~~~yA~Lc~~L~~~~~~~~~~~~~~~ 101 (295)
+...|+.++ -.|+..|.+.++.+|-.++-.+++..+.+++. |.++-. .-.-.+..|.|.+.|...- ..
T Consensus 4 ~~~fir~Li~~~L~~~~~~~vlk~lrKl~W~D~e~~~~l~k~-l~~~~~~ky~nI~~lA~ll~~L~~~~---------~~ 73 (248)
T 1uw4_B 4 LQEYVRKLLYKDLSKVTTEKVLRQMRKLPWQDQEVKDYVICC-MINIWNVKYNSIHCVANLLAGLVLYQ---------ED 73 (248)
T ss_dssp HHHHHHHHHHTTCSTTSHHHHHHHHHTSCTTSHHHHHHHHHH-HHCGGGSCGGGHHHHHHHHHHHTTTC---------HH
T ss_pred HHHHHHHHHHHHcccccHHHHHHHHHcCCCCcHHHHHHHHHH-hcchhhcccchHHHHHHHHHHHHhhC---------hH
Confidence 456677777 78889999999999998877666655444444 334321 1122456677777777543 23
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhcCCCCCCccHHHHHHHHHhhhhhHHHHHHHHhhcCCCchhHHHHHHHHhccCCCCC--
Q psy8135 102 FKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESILHTCIQELLPKNRKV-- 179 (295)
Q Consensus 102 Fr~~Ll~~~q~~F~~~~~~~~~~~~~~l~~ee~e~~~~~k~r~~g~i~FigeLf~~~~i~~~ii~~~l~~Ll~~~~~~-- 179 (295)
|.-.+++..-+......+..+ ...++|.++.++||||||+.++++..+|++++..|+.- |.+
T Consensus 74 ~~i~vVD~vlE~Ir~gLE~n~---------------~~~nQrRia~vkyLgELYny~lv~s~vIf~~Ly~li~f-g~~~~ 137 (248)
T 1uw4_B 74 VGIHVVDGVLEDIRLGMEVNQ---------------PKFNQRRISSAKFLGELYNYRMVESAVIFRTLYSFTSF-GVNPD 137 (248)
T ss_dssp HHHHHHHHHHHHHHHHHHHCC---------------GGGHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHT-TCCTT
T ss_pred HhhhhHHHHHHHHHHHHhcCc---------------HHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHcC-CCCCC
Confidence 444444433333332211100 12346778999999999999999999999999999873 221
Q ss_pred ---CCCCCCh--hhHHHHHHHHHHhhhhhcCchhhhHHHHHHHHHHHHHh---------CCCCCChHHHHHHHHHHHH-H
Q psy8135 180 ---QTNKDVS--ENLECLCQIMKTCGRILDSEKGQGLMNQYFSRMKTVQT---------STPHLPLRIRFMLQDVEDL-R 244 (295)
Q Consensus 180 ---~~~~~~e--~~iE~l~~LL~~~G~~L~~~~~~~~ld~~f~~L~~l~~---------~~~~~s~rirfmi~~liel-R 244 (295)
..-+|.+ .-|.++|.||.+||+.++....+..||.++..++...- ..+.+|.+++||++|+++. |
T Consensus 138 ~~~~~~D~p~d~FRIrLvCtLL~tcg~~f~~~~~~kkLd~fL~ffQ~Y~~~K~~~~~~~k~~plP~~vef~l~D~~~~lr 217 (248)
T 1uw4_B 138 GSPSSLDPPEHLFRIRLVCTILDTCGQYFDRGSSKRKLDCFLVYFQRYVWWKKSLEVWTKDHPFPIDIDYMISDTLELLR 217 (248)
T ss_dssp SCCCSSSCTTCCHHHHHHHHHHHHHGGGCSSHHHHHHHHHHHHHHHHHHHHHHTSTTCCSSSCCCHHHHHHHHHHHHHHC
T ss_pred CCCCCCCCCccchhHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHhhcccccccccCCCCCHHHHHHHHHHHHHhc
Confidence 0001111 13999999999999999987677789999999999852 2236899999999999999 7
Q ss_pred hCCCccCccCCCCCCCChHHHHHHhc
Q psy8135 245 RNNWVPRQANNPEKPVPINQIIEEDH 270 (295)
Q Consensus 245 ~~~W~~~~~~~~~~p~~~~~i~~~~~ 270 (295)
.+-|..+. -++.+..+++++++..
T Consensus 218 p~~~~~~~--~eEa~~~v~~le~~~~ 241 (248)
T 1uw4_B 218 PKIKLCNS--LEESIRQVQDLEREFL 241 (248)
T ss_dssp TTCCCCSS--HHHHHHHHHHHHHHHH
T ss_pred ccCcccCC--HHHHHHHHHHHHHHHH
Confidence 65555443 2566777777777654
No 6
>1h2v_C 80 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: a.118.1.14 a.118.1.14 a.118.1.14 PDB: 1n52_A* 1n54_A 3fex_A 3fey_A 1h6k_A 1h2t_C* 1h2u_A*
Probab=99.18 E-value=9.9e-10 Score=110.60 Aligned_cols=200 Identities=10% Similarity=0.170 Sum_probs=147.4
Q ss_pred HHHHHHHHHHHhhccCh---hhHHHHHHHHHhhccCC-HHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHhhCCCCCCC
Q psy8135 21 QDATFRKVRELLNKLTP---EKFDKLSDDLLQLDLNS-SKILKGVILLIFEKALHETKYTSMYARLCKRLTEQAPNFEPP 96 (295)
Q Consensus 21 ~~~l~~~v~~iLNkLt~---~n~~~i~~~l~~~~i~~-~~~l~~vv~~I~ekAv~e~~f~~~yA~Lc~~L~~~~~~~~~~ 96 (295)
.+.+...++.++-++++ ++++.-+..|...-..+ ...-..+++.++.-++..|.++++||.|+..++...
T Consensus 5 ~~~~~~~l~~lI~rlge~~~~s~~~~l~~L~~~l~~~l~~~r~~i~~~l~~~~~~~P~Kt~vyAaLVgllN~k~------ 78 (771)
T 1h2v_C 5 ANETEDHLESLICKVGEKSACSLESNLEGLAGVLEADLPNYKSKILRLLCTVARLLPEKLTIYTTLVGLLNARN------ 78 (771)
T ss_dssp -----CHHHHHHHTTTSSCSSCHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTC------
T ss_pred cccHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCcchHHHHHHHHHHcCC------
Confidence 45567888999999997 45554454544331112 234456889999999999999999999999999754
Q ss_pred CchhhHHHHHHHHHHHHHhhhhhhhhhcCCCCCCccHHHHHHHHHhhhhhHHHHHHHHhhcCCCchhHHHHHHHHhccCC
Q psy8135 97 DESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESILHTCIQELLPKN 176 (295)
Q Consensus 97 ~~~~~Fr~~Ll~~~q~~F~~~~~~~~~~~~~~l~~ee~e~~~~~k~r~~g~i~FigeLf~~~~i~~~ii~~~l~~Ll~~~ 176 (295)
..|...++.++...|+...... .++++...++|||+|.+.+++++..+..++..|+...
T Consensus 79 ---pe~G~~lv~~l~~~f~~~l~~~------------------~~~~~k~~lrFLa~L~n~~Vv~~~~il~lL~~Ll~~~ 137 (771)
T 1h2v_C 79 ---YNFGGEFVEAMIRQLKESLKAN------------------NYNEAVYLVRFLSDLVNCHVIAAPSMVAMFENFVSVT 137 (771)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHTT------------------CHHHHHHHHHHHHHHHHTTSBCHHHHHHHHHHHHHGG
T ss_pred ---hhHHHHHHHHHHHHHHHHHHcc------------------ChHHHHHHHHHHHHhccCCeecHHHHHHHHHHHHHhh
Confidence 3577777777777776543321 2346779999999999999999999999999999964
Q ss_pred CCCCCCCCC---hhhHHHHHHHHHHhhhhhcCchhhhHHHHHHHHHHHHHhCCCC----------------CChHHHHHH
Q psy8135 177 RKVQTNKDV---SENLECLCQIMKTCGRILDSEKGQGLMNQYFSRMKTVQTSTPH----------------LPLRIRFML 237 (295)
Q Consensus 177 ~~~~~~~~~---e~~iE~l~~LL~~~G~~L~~~~~~~~ld~~f~~L~~l~~~~~~----------------~s~rirfmi 237 (295)
.... .+. +..+.|++..|..+|+.|-.. .+..++.+|++++.....++. ...++.+|+
T Consensus 138 ~e~~--~~q~r~D~~v~~vL~~Lp~~G~~L~e~-~~~~l~~lle~~~~yl~~r~~~~~~ll~~~~~~~~~~~~~~l~~L~ 214 (771)
T 1h2v_C 138 QEED--VPQVRRDWYVYAFLSSLPWVGKELYEK-KDAEMDRIFANTESYLKRRQKTHVPMLQVWTADKPHPQEEYLDCLW 214 (771)
T ss_dssp GCSS--CCHHHHHHHHHHHHTTHHHHHHHHHHH-HHHHHHHHHHHHHHHHHTCCCTTHHHHCSBCCCSSCCCCBHHHHHH
T ss_pred hhcC--CcccchhHHHHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHHHhcCccchhhhhccccCCCCchhhHHHHHH
Confidence 2211 122 456899999999999999763 557799999999997643312 247999999
Q ss_pred HHHHHHHhCCCcc
Q psy8135 238 QDVEDLRRNNWVP 250 (295)
Q Consensus 238 ~~lielR~~~W~~ 250 (295)
..|..+|++||..
T Consensus 215 ~ql~~lr~~~w~~ 227 (771)
T 1h2v_C 215 AQIQKLKKDRWQE 227 (771)
T ss_dssp HHHHHHHHTTTCC
T ss_pred HHHHHHHHCCCCC
Confidence 9999999999975
No 7
>4b89_A General negative regulator of transcription subun; 1.50A {Saccharomyces cerevisiae S288C} PDB: 4b8a_A 4b8c_B
Probab=96.88 E-value=0.03 Score=48.28 Aligned_cols=197 Identities=12% Similarity=0.150 Sum_probs=120.8
Q ss_pred CCcchHHHHHHHHHHHhhccChhhHHHHHHHHHhhccCCHHHHHHHHHH-HHHHhhhcccchHHHHHHHHHHHhhCCCCC
Q psy8135 16 TPENVQDATFRKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGVILL-IFEKALHETKYTSMYARLCKRLTEQAPNFE 94 (295)
Q Consensus 16 ~e~~~~~~l~~~v~~iLNkLt~~n~~~i~~~l~~~~i~~~~~l~~vv~~-I~ekAv~e~~f~~~yA~Lc~~L~~~~~~~~ 94 (295)
..++..+.+..+|..++|.+|++|++.-+.++.+. + .++...=++.- +.++|..||+|..+|..|+..+...
T Consensus 26 ~~e~P~~~v~dki~Fi~NNls~~Nl~~k~~el~~~-l-~~~y~~WFA~YLV~~Ra~~EpN~H~lY~~~l~~l~~~----- 98 (249)
T 4b89_A 26 NQEGAPKDVVEKVLFVLNNVTLANLNNKVDELKKS-L-TPNYFSWFSTYLVTQRAKTEPNYHDLYSKVIVAMGSG----- 98 (249)
T ss_dssp CCCCCCHHHHHHHHHHHHHCCTTTHHHHHHHHHHH-C-CGGGHHHHHHHHHHHTTTTCGGGHHHHHHHHHHHTCH-----
T ss_pred cCCCcCHHHHhhhhhhhhcCChHHHHHHHHHHHHH-H-HHHHHHHHHHHHHhhhhhcCCccHHHHHHHHHHhCCH-----
Confidence 45678889999999999999999999999999875 2 34455556655 5569999999999999999998642
Q ss_pred CCCchhhHHHHHHHHHHHHHhhhhhhhhhcCCCCCCccHHHHHHHHHhhhhhHHHHHHHHhhcCCCchhHHHHHHHHhcc
Q psy8135 95 PPDESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESILHTCIQELLP 174 (295)
Q Consensus 95 ~~~~~~~Fr~~Ll~~~q~~F~~~~~~~~~~~~~~l~~ee~e~~~~~k~r~~g~i~FigeLf~~~~i~~~ii~~~l~~Ll~ 174 (295)
.+-+.+++.. |.+....+.. +.++..+ +...-+.-.++|-|-.-.=-+-..-.-.+..|+-
T Consensus 99 ------~L~~~vl~~T---~~~i~~LL~~---~~i~~~e-------Rs~LKNLG~WLG~iTLarNkPI~~~~ld~K~LL~ 159 (249)
T 4b89_A 99 ------LLHQFMVNVT---LRQLFVLLST---KDEQAID-------KKHLKNLASWLGCITLALNKPIKHKNIAFREMLI 159 (249)
T ss_dssp ------HHHHHHHHHH---HHHHHHHHTB---SCGGGSC-------HHHHHHHHHHHHHHTGGGTCCCCTTTBCHHHHHH
T ss_pred ------HHHHHHHHHH---HHHHHHHhhh---cccChHH-------HHHHHHHHHHHhHHHHhcCCCchhcccCHHHHHH
Confidence 2223333211 2111111100 0111111 1122245578888877321111000001122221
Q ss_pred -CCCCCCCCCCChhhHHHHHHHHHHhh--hhhcCchhhhHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHHh
Q psy8135 175 -KNRKVQTNKDVSENLECLCQIMKTCG--RILDSEKGQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDVEDLRR 245 (295)
Q Consensus 175 -~~~~~~~~~~~e~~iE~l~~LL~~~G--~~L~~~~~~~~ld~~f~~L~~l~~~~~~~s~rirfmi~~lielR~ 245 (295)
.+... .-..-|-.+|++|+.|. +.+. + +-+++-.++..|.++-... .+-.-++|-|+-|+.-=+
T Consensus 160 eay~~g----~L~~vIPFVcKvLe~~k~SkiFk-P-PNPWt~~IL~lL~Ely~~~-~LKlnlkFEIEvL~k~l~ 226 (249)
T 4b89_A 160 EAYKEN----RLEIVVPFVTKILQRASESKIFK-P-PNPWTVGILKLLIELNEKA-NWKLSLTFEVEVLLKSFN 226 (249)
T ss_dssp HHHHHT----CHHHHHHHHHHHHGGGTTCSSSS-T-TCHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTT
T ss_pred HHHHcC----CeEEEeeHHHHHHHhcccCCccC-C-CCchHHHHHHHHHHHHhCc-chhHhHHHHHHHHHHHcC
Confidence 11101 12446788899998884 4443 2 3468888999999988876 778899999999987654
No 8
>4gmj_A CCR4-NOT transcription complex subunit 1; mRNA decay, deadenylase, RNA bindin; HET: GOL; 2.70A {Homo sapiens} PDB: 4gml_A
Probab=96.32 E-value=0.2 Score=42.71 Aligned_cols=195 Identities=13% Similarity=0.196 Sum_probs=113.2
Q ss_pred HHHHHHHHHHhhccChhhHHHHHHHHHhhccCCHHHHHHHHH-HHHHHhhhcccchHHHHHHHHHHHhhCCCCCCCCchh
Q psy8135 22 DATFRKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGVIL-LIFEKALHETKYTSMYARLCKRLTEQAPNFEPPDESC 100 (295)
Q Consensus 22 ~~l~~~v~~iLNkLt~~n~~~i~~~l~~~~i~~~~~l~~vv~-~I~ekAv~e~~f~~~yA~Lc~~L~~~~~~~~~~~~~~ 100 (295)
+.+..+|..++|.+|++|++.-++++-+. + .++-..=++. ++.++|..||+|-.+|+.++..+.. .
T Consensus 5 e~v~dki~Fi~NNls~~N~~~k~~elk~~-l-~~~y~~Wfa~YLV~~Ras~EpN~h~lY~~fl~~l~~-----------~ 71 (229)
T 4gmj_A 5 ENIQEKIAFIFNNLSQSNMTQKVEELKET-V-KEEFMPWVSQYLVMKRVSIEPNFHSLYSNFLDTLKN-----------P 71 (229)
T ss_dssp HHHHHHHHHHHHSCCSSTHHHHHHHHHHH-S-CGGGHHHHHHHHHHHTTTTCGGGHHHHHHHHHHHTC-----------H
T ss_pred HHhhhhheeehhcCCHHHHHHHHHHHHHH-H-hHHHHHHHHHHHHHhhhhcccccHHHHHHHHHHhCh-----------H
Confidence 56788999999999999999999999875 2 2333444553 3567788899999999999988753 2
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhhcCCCCCCccHHHHHHHHHhhhhhHHHHHHHHhhcCCCchhHHHHHHHHhccC-CCCC
Q psy8135 101 TFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTESILHTCIQELLPK-NRKV 179 (295)
Q Consensus 101 ~Fr~~Ll~~~q~~F~~~~~~~~~~~~~~l~~ee~e~~~~~k~r~~g~i~FigeLf~~~~i~~~ii~~~l~~Ll~~-~~~~ 179 (295)
.+-+.+++. .|......+.. ++ .. ....+ ++. .-+.-.++|-|-.-.=.+-..-.-.+..|+-. +.++
T Consensus 72 ~l~~~vl~~---T~~~i~~LL~s-~~-~~-~~~~e-R~~----LKNLG~WLG~lTLarnkPI~~~~l~~K~LL~eay~~g 140 (229)
T 4gmj_A 72 EFNKMVLNE---TYRNIKVLLTS-DK-AA-ANFSD-RSL----LKNLGHWLGMITLAKNKPILHTDLDVKSLLLEAYVKG 140 (229)
T ss_dssp HHHHHHHHH---HHHHHHHHHTS-CC-CT-TCHHH-HHH----HHHHHHHHHHHTGGGTCCCCTTTCCHHHHHHHHHHHC
T ss_pred HHHHHHHHH---HHHHHHHHHhh-cc-cc-cchHH-HHH----HHHHHHHHHHHHHccCCCchhcccCHHHHHHHHHHCC
Confidence 233444432 23322221110 00 11 11111 111 22455788888763211110000112222211 1000
Q ss_pred CCCCCChhhHHHHHHHHHHh--hhhhcCchhhhHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHHh
Q psy8135 180 QTNKDVSENLECLCQIMKTC--GRILDSEKGQGLMNQYFSRMKTVQTSTPHLPLRIRFMLQDVEDLRR 245 (295)
Q Consensus 180 ~~~~~~e~~iE~l~~LL~~~--G~~L~~~~~~~~ld~~f~~L~~l~~~~~~~s~rirfmi~~lielR~ 245 (295)
. ..-.--|-.+|++|+.| ++.+. + +-+++-.++..|.++-... .+.--++|=|+-++.-=+
T Consensus 141 ~--~rL~~viPFVcKvLe~~~~S~iFk-P-PNPW~~~IL~lL~Ely~~~-~lKlnlkFEIEvLfk~l~ 203 (229)
T 4gmj_A 141 Q--QELLYVVPFVAKVLESSIRSVVFR-P-PNPWTMAIMNVLAELHQEH-DLKLNLKFEIEVLCKNLA 203 (229)
T ss_dssp H--HHHHHHHHHHHHHHHTTTTCTTTS-T-TCHHHHHHHHHHHHHHHCT-TSCHHHHHHHHHHHHHTT
T ss_pred C--ceEEEeehhHHHHHHhcccCCcCC-C-CChhHHHHHHHHHHHHhCc-cchhhHHHHHHHHHHHcC
Confidence 0 00112366778888887 34454 2 3468888999999888776 778889999999887643
No 9
>3u0r_A Apoptosis inhibitor 5; heat repeat, armadillo repeat, lysine acetylation; 2.50A {Homo sapiens} PDB: 3v6a_A
Probab=91.97 E-value=3.2 Score=39.21 Aligned_cols=166 Identities=19% Similarity=0.217 Sum_probs=101.1
Q ss_pred cchHHHHHHHHHHHhhccChhhHHHHHHHHHhhcc-CCHHHHHHHHHHHHHHhhhcccc----hHHHHHHHHHHHhhCCC
Q psy8135 18 ENVQDATFRKVRELLNKLTPEKFDKLSDDLLQLDL-NSSKILKGVILLIFEKALHETKY----TSMYARLCKRLTEQAPN 92 (295)
Q Consensus 18 ~~~~~~l~~~v~~iLNkLt~~n~~~i~~~l~~~~i-~~~~~l~~vv~~I~ekAv~e~~f----~~~yA~Lc~~L~~~~~~ 92 (295)
++..+-+...++.+|-.+|.+.|.-+.+=|-.+.+ .+....+++++++.++|=.+..| .....++..-+...+|-
T Consensus 172 ~E~E~~i~~~ikK~L~DVT~~EF~L~m~lL~~lkl~~t~~g~qeLv~ii~eQa~L~~~f~~sD~e~vdRlI~C~~~ALP~ 251 (507)
T 3u0r_A 172 KEVEELILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVAEQADLEQTFNPSDPDCVDRLLQCTRQAVPL 251 (507)
T ss_dssp HHHHHHHHHHHHHHTTSCCHHHHHHHHHHHHTSGGGSSHHHHHHHHHHHHHHHTTTSCCCSSCHHHHHHHHHHHHHHGGG
T ss_pred HHHHHHHHHHHHHHhccccHHHHHHHHHHHHhcccccCchHHHHHHHHHHHHHhccCCCCCcCHHHHHHHHHHHHHHHHH
Confidence 45667788888889999999999877744444544 46788899999999998543433 46778888888888887
Q ss_pred CCCCCchhhHHHHHHHHHHHHHhhhhhhhhhcCCCCCCccHHHHHHHHHhhhhhHHHHHHHHhhcCC-Cch--hHHHHHH
Q psy8135 93 FEPPDESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEI-VTE--SILHTCI 169 (295)
Q Consensus 93 ~~~~~~~~~Fr~~Ll~~~q~~F~~~~~~~~~~~~~~l~~ee~e~~~~~k~r~~g~i~FigeLf~~~~-i~~--~ii~~~l 169 (295)
+..+..++.|-..+.++ .|-... .++..+.+ . .+.+-..+.+||+-.+-- +.. ..+-.+.
T Consensus 252 FS~~v~StkFv~y~~~k---IlP~l~---------~L~e~~~~----~-~~kL~LLK~lAE~s~~~~~~e~a~~~l~~iy 314 (507)
T 3u0r_A 252 FSKNVHSTRFVTYFCEQ---VLPNLG---------TLTTPVEG----L-DIQLEVLKLLAEMSSFCGDMEKLETNLRKLF 314 (507)
T ss_dssp CBTTBCCHHHHHHHHHH---TGGGTT---------CCCCC--C----C-CHHHHHHHHHHHHHTTCCCCTTHHHHHHHHH
T ss_pred hccCCChHHHHHHHHHh---hccchh---------hccccccc----h-HHHHHHHHHHHHHccCCCccchHHHHHHHHH
Confidence 76555566676555543 222111 11111000 0 023467888999987532 332 2333333
Q ss_pred HHhccCCCCCCCCCCC----------------hhhHHHHHHHHHHhhhhhc
Q psy8135 170 QELLPKNRKVQTNKDV----------------SENLECLCQIMKTCGRILD 204 (295)
Q Consensus 170 ~~Ll~~~~~~~~~~~~----------------e~~iE~l~~LL~~~G~~L~ 204 (295)
+.|+. +.+.. |+ =..|||++-.+.+.|++.-
T Consensus 315 ~~L~~-ymP~~---p~~~~~~~~~~~~~p~l~fS~vECLLy~fH~L~~k~P 361 (507)
T 3u0r_A 315 DKLLE-YMPLP---PEEAENGENAGNEEPKLQFSYVECLLYSFHQLGRKLP 361 (507)
T ss_dssp HHHHT-TSCCC---C--------------CCCHHHHHHHHHHHHHHHTTCT
T ss_pred HHHHH-HCCCC---cccccccccccccCcccchhHHHHHHHHHHHHhhhCh
Confidence 33332 21111 11 1159999999999998864
No 10
>3pev_B Nucleoporin GLE1; RECA, heat, DEAD-BOX, ATPase, helicase, mRNA export, nuclear hydrolase; HET: IHP; 2.50A {Saccharomyces cerevisiae} PDB: 3peu_B* 3pex_B* 3pez_B* 3rrm_B* 3rrn_B*
Probab=90.26 E-value=9.2 Score=33.76 Aligned_cols=170 Identities=12% Similarity=0.084 Sum_probs=99.7
Q ss_pred hHHHHHHHHHHHhhccC--hhhHHHHHHHHHhhcc---CCH----HHHHHHHHHHHHHhh----hcccchHHHHHHHHHH
Q psy8135 20 VQDATFRKVRELLNKLT--PEKFDKLSDDLLQLDL---NSS----KILKGVILLIFEKAL----HETKYTSMYARLCKRL 86 (295)
Q Consensus 20 ~~~~l~~~v~~iLNkLt--~~n~~~i~~~l~~~~i---~~~----~~l~~vv~~I~ekAv----~e~~f~~~yA~Lc~~L 86 (295)
..-..+|+|+..+|+|| .+.+..+..+|.++-- .++ -.+..+++.|+.+|- ..|..+.-+|.++..|
T Consensus 40 ~~~~~kR~I~~~igQLt~s~~qi~~i~~~L~~ll~~~~~~~~~~~~~ln~lAK~iV~Q~e~ev~~~p~sA~PlA~v~~~l 119 (297)
T 3pev_B 40 LLSRHKRKINPKFGQLTNSNQQLFKIQNELTQLINDTKGDSLAYHWILNFIAKAVVHQAETEVRVKPESALPLGKLTLYL 119 (297)
T ss_dssp HHHHHHHHHTTHHHHCCSBHHHHHHHHHHHHHHHHTTTTSHHHHHHHHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred HHHHHhhhccchhccccCCHHHHHHHHHHHHHHHhCccCCchHHHHHHHHHHHHHHHHHHHHhccCCcccchHHHHHHHH
Confidence 45678899999999999 4477777777776411 111 245666777776663 3677888899999999
Q ss_pred HhhCCCCCCCCchhhHHHHHHHHHHHHHhhhh------h-----hhhhcCC-CCCCccHHHHHHHHHhhhhhHHHHHHHH
Q psy8135 87 TEQAPNFEPPDESCTFKKHLLWVCKNEFENRS------R-----ATEAFGN-LPLSPDDEDRRQLAKQKMLGNIKFIGEL 154 (295)
Q Consensus 87 ~~~~~~~~~~~~~~~Fr~~Ll~~~q~~F~~~~------~-----~~~~~~~-~~l~~ee~e~~~~~k~r~~g~i~FigeL 154 (295)
....|+ |...|+.++.+.---.. . ..-+..+ ++-.-|. +...-.|+.|++++-+.+
T Consensus 120 ~~~~p~---------~~dillA~l~k~CP~~vp~~~~~~teegr~~mG~~~~~dg~~E~---~~~y~~Rm~Gi~~lyAAI 187 (297)
T 3pev_B 120 LVQFPE---------LQELFMARLVKKCPFVIGFTCEIDTEKGRQNMGWKRNNENKWED---NTSYDERMGGILSLFAII 187 (297)
T ss_dssp HHHSTT---------HHHHHHHHHHHHCGGGGTCCCCCSSHHHHHHTTCCBCTTSCBCC---HHHHHHHHHHHHHHHHHH
T ss_pred HHhCcc---------HHHHHHHHHhhcCCcccccCCCcccHHHHHHcCCeeCCCCCccc---HHHHHHHHHHHHHHHHHH
Confidence 887653 44445544443211000 0 0001100 0000011 112335788999999999
Q ss_pred hhcCC-----------CchhHHHHHHHHhccCCCCCCCCCCChhhHHHHHHHHHHhhhhhcC
Q psy8135 155 GKHEI-----------VTESILHTCIQELLPKNRKVQTNKDVSENLECLCQIMKTCGRILDS 205 (295)
Q Consensus 155 f~~~~-----------i~~~ii~~~l~~Ll~~~~~~~~~~~~e~~iE~l~~LL~~~G~~L~~ 205 (295)
..... .+....=..+..+++.. +. ..+.....++..+|+.+|..|-.
T Consensus 188 ~~~~~~~~~~~~~~~p~~~~~~W~wLArilN~~--p~--~~t~t~~~vL~~~Le~ag~~l~~ 245 (297)
T 3pev_B 188 TRLQLPQEFITTTSHPFPIALSWHILARICNTP--LN--LITNTHFVILGSWWDAAAVQFLQ 245 (297)
T ss_dssp HHSCCCTTTTTTSCCSSCTHHHHHHHHHHHTSC--GG--GCCHHHHHHHHHHHHHHHHHHHH
T ss_pred HhCcCcccccccCCCCCCchHHHHHHHHHhCCC--HH--hhcccHHHHHHHHHHHHHHHHHH
Confidence 76531 22344445566666651 10 12344567888999999999986
No 11
>1juq_A ADP-ribosylation factor binding protein GGA3; protein-peptide compelx, VHS domain, DXXLL sorting signal, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.9.2 PDB: 1jpl_A 1lf8_A*
Probab=47.14 E-value=81 Score=25.07 Aligned_cols=89 Identities=15% Similarity=0.123 Sum_probs=53.2
Q ss_pred hHHHHHHHHhhcCCCchhHHHHHHHHhccCCCCCCCCCCChh----hHHHHHHHHHHhhhhhcCch-hhhHHHHHHHHHH
Q psy8135 146 GNIKFIGELGKHEIVTESILHTCIQELLPKNRKVQTNKDVSE----NLECLCQIMKTCGRILDSEK-GQGLMNQYFSRMK 220 (295)
Q Consensus 146 g~i~FigeLf~~~~i~~~ii~~~l~~Ll~~~~~~~~~~~~e~----~iE~l~~LL~~~G~~L~~~~-~~~~ld~~f~~L~ 220 (295)
+.+.-|+++.+.+-...+-....|..-+.. .++. .+..+=.+++.||+.+...- ++.+++++ .
T Consensus 32 ~~ileicD~I~~~~~~~k~A~ral~krl~~--------~n~~vql~AL~LLd~~vkNCG~~Fh~evas~~Fl~eL----~ 99 (171)
T 1juq_A 32 EYIIGFCDQINKELEGPQIAVRLLAHKIQS--------PQEWEALQALTVLEACMKNCGRRFHNEVGKFRFLNEL----I 99 (171)
T ss_dssp HHHHHHHHHHHHSTTHHHHHHHHHHHHHTC--------SSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHHHHHHH----H
T ss_pred HHHHHHHHHHHcCCccHHHHHHHHHHHhcC--------CCHHHHHHHHHHHHHHHHHcCHHHHHHHhhHHHHHHH----H
Confidence 456678888887655544444444444443 2333 35566666777888887532 23455554 4
Q ss_pred HHHhCC---CCCChHHHHHHHHHHHHHhC
Q psy8135 221 TVQTST---PHLPLRIRFMLQDVEDLRRN 246 (295)
Q Consensus 221 ~l~~~~---~~~s~rirfmi~~lielR~~ 246 (295)
.+...+ +..+..+|-.|..++.-...
T Consensus 100 kl~~~k~~~~~~~~~Vk~kil~li~~W~~ 128 (171)
T 1juq_A 100 KVVSPKYLGDRVSEKVKTKVIELLYSWTM 128 (171)
T ss_dssp HHHCCCCCCTTSCHHHHHHHHHHHHHHHH
T ss_pred HHhccccCCCCCCHHHHHHHHHHHHHHHH
Confidence 444321 24678999999999987653
No 12
>3g2s_A C-terminal fragment of sortilin-related receptor; ADP-ribosylation factor binding protein GGA1, VHS, acidic- cluster dileucine signal, sorla; 1.70A {Homo sapiens} SCOP: a.118.9.2 PDB: 3g2t_A* 3g2u_A 3g2v_A* 3g2w_A 1ujk_A* 1jwf_A 1ujj_A 1jwg_A* 1py1_A*
Probab=35.33 E-value=1.5e+02 Score=22.85 Aligned_cols=89 Identities=12% Similarity=0.144 Sum_probs=52.8
Q ss_pred hHHHHHHHHhhcCCCchhHHHHHHHHhccCCCCCCCCCCChh----hHHHHHHHHHHhhhhhcCch-hhhHHHHHHHHHH
Q psy8135 146 GNIKFIGELGKHEIVTESILHTCIQELLPKNRKVQTNKDVSE----NLECLCQIMKTCGRILDSEK-GQGLMNQYFSRMK 220 (295)
Q Consensus 146 g~i~FigeLf~~~~i~~~ii~~~l~~Ll~~~~~~~~~~~~e~----~iE~l~~LL~~~G~~L~~~~-~~~~ld~~f~~L~ 220 (295)
+.+.-||++.+.+-...+-....|..-+.. .++. .+..+=.+.+.||..+...- ++++++++.
T Consensus 30 ~~ileicD~I~~~~~~pk~a~ral~krl~~--------~n~~v~l~AL~LLe~cvkNCG~~fh~eias~~Fl~eL~---- 97 (149)
T 3g2s_A 30 ASINGFCEQLNEDFEGPPLATRLLAHKIQS--------PQEWEAIQALTVLETCMKSCGKRFHDEVGKFRFLNELI---- 97 (149)
T ss_dssp HHHHHHHHHGGGSSSHHHHHHHHHHHHHTC--------SSHHHHHHHHHHHHHHHHHCCHHHHHHHTSHHHHHHHH----
T ss_pred HHHHHHHHHHHCCCCcHHHHHHHHHHHHcC--------CCHHHHHHHHHHHHHHHHhcCHHHHHHHhhHHHHHHHH----
Confidence 566778888887655554444444443433 2333 35555666677788876432 344565544
Q ss_pred HHHhCC---CCCChHHHHHHHHHHHHHhC
Q psy8135 221 TVQTST---PHLPLRIRFMLQDVEDLRRN 246 (295)
Q Consensus 221 ~l~~~~---~~~s~rirfmi~~lielR~~ 246 (295)
.+...+ +..+..++-.|..++.-...
T Consensus 98 kl~~~k~~~~~~~~~Vk~kil~li~~W~~ 126 (149)
T 3g2s_A 98 KVVSPKYLGSRTSEKVKNKILELLYSWTV 126 (149)
T ss_dssp HHHCTTTTGGGSCHHHHHHHHHHHHHHHH
T ss_pred HHHcccccCCCCCHHHHHHHHHHHHHHHH
Confidence 333321 13578999999999987653
No 13
>1ug3_A EIF4GI, eukaryotic protein synthesis initiation factor 4G; heat repeat, translation; 2.24A {Homo sapiens} SCOP: a.118.1.14 a.118.1.14
Probab=26.29 E-value=3.3e+02 Score=23.80 Aligned_cols=124 Identities=10% Similarity=0.081 Sum_probs=67.4
Q ss_pred chHHHHHHHHHHHhhcc-ChhhHHHHHHHHHhhccCCHHHHHHHHHHHHHHhhhc-ccchHHHHHHHHHHHhhCCCCCCC
Q psy8135 19 NVQDATFRKVRELLNKL-TPEKFDKLSDDLLQLDLNSSKILKGVILLIFEKALHE-TKYTSMYARLCKRLTEQAPNFEPP 96 (295)
Q Consensus 19 ~~~~~l~~~v~~iLNkL-t~~n~~~i~~~l~~~~i~~~~~l~~vv~~I~ekAv~e-~~f~~~yA~Lc~~L~~~~~~~~~~ 96 (295)
...+++.++++.+|.-- +-...++.+.-+-++..+ ....++|..++..+++. +....+-++|...|.+. .-+.
T Consensus 5 ~s~ee~~k~~~~ll~Ey~~~~d~~Ea~~ci~el~~p--~~~~~~v~~~i~~~le~~~~~re~~~~Ll~~L~~~-~~is-- 79 (339)
T 1ug3_A 5 LSEEELEKKSKAIIEEYLHLNDMKEAVQCVQELASP--SLLFIFVRHGVESTLERSAIAREHMGQLLHQLLCA-GHLS-- 79 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHTTCCG--GGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHT-TSSC--
T ss_pred CCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCc--ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHC-CCCC--
Confidence 35567888888877763 445666666666665433 23556667777666653 34456777777777753 1121
Q ss_pred CchhhHHHHHHHHHHHHHhhhhhhhhhcCCCCCCccHHHHHHHHHhhhhhHHHHHHHHhhcCCCch-hHHHHHH
Q psy8135 97 DESCTFKKHLLWVCKNEFENRSRATEAFGNLPLSPDDEDRRQLAKQKMLGNIKFIGELGKHEIVTE-SILHTCI 169 (295)
Q Consensus 97 ~~~~~Fr~~Ll~~~q~~F~~~~~~~~~~~~~~l~~ee~e~~~~~k~r~~g~i~FigeLf~~~~i~~-~ii~~~l 169 (295)
...|.+-+- ..++...... ++ .|.. +.-...|+|.++..|+++. .++..+.
T Consensus 80 --~~~~~~Gf~----~~~~~l~Dl~--lD----iP~a----------~~~La~~v~~~i~~g~l~~~~l~~~~~ 131 (339)
T 1ug3_A 80 --TAQYYQGLY----EILELAEDME--ID----IPHV----------WLYLAELVTPILQEGGVPMGELFREIT 131 (339)
T ss_dssp --HHHHHHHHH----HHHHHHHHHT--TT----CTTH----------HHHHHHHHGGGGSTTSCCHHHHHHHHT
T ss_pred --HHHHHHHHH----HHHhhChHhh--cC----ccch----------HHHHHHHHHHHHHCCCCCHHHHHHHHH
Confidence 222322222 1222211110 11 1121 1246688999999999997 5544444
No 14
>1sz9_A PCF11 protein; RNA polymerase II CTD interacting domain, arm repeats, transcription; 2.10A {Saccharomyces cerevisiae} SCOP: a.118.9.4 PDB: 1sza_A* 2bf0_X
Probab=25.12 E-value=2.3e+02 Score=21.62 Aligned_cols=89 Identities=12% Similarity=0.154 Sum_probs=51.4
Q ss_pred hHHHHHHHHHHHhhccChhhHHHHHHHHHhhccCCHHHHHHHHHHHHHHhhh---cccchHHHHHHHHHHHhhCCCCCCC
Q psy8135 20 VQDATFRKVRELLNKLTPEKFDKLSDDLLQLDLNSSKILKGVILLIFEKALH---ETKYTSMYARLCKRLTEQAPNFEPP 96 (295)
Q Consensus 20 ~~~~l~~~v~~iLNkLt~~n~~~i~~~l~~~~i~~~~~l~~vv~~I~ekAv~---e~~f~~~yA~Lc~~L~~~~~~~~~~ 96 (295)
..+.+...-+..|+.|+. |=...+..|..+.+.+.+..+.+|+.|.+.-.. +.....+| |+..+.++.. +
T Consensus 4 ~~~~~~~~f~~~L~~L~~-nSk~~I~~LT~~a~~~~~~a~~Iv~~i~~~i~k~~p~~KL~~LY--L~DsIvkN~g----~ 76 (144)
T 1sz9_A 4 DTEVIVKDFNSILEELTF-NSRPIITTLTKLAEENISCAQYFVDAIESRIEKCMPKQKLYAFY--ALDSICKNVG----S 76 (144)
T ss_dssp HHHHHHHHHHHHHTTCSS-CCHHHHHHHHHHHHHTGGGHHHHHHHHHHHHHHSCHHHHHHHHH--HHHHHHHHTC----T
T ss_pred cHHHHHHHHHHHHHHhcc-ccHhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHhhHHHHHH--HHHHHHHhcc----c
Confidence 456777788888888973 333456666666666666667777777665543 33344444 4566766541 1
Q ss_pred CchhhHHHHHHHHHHHHHh
Q psy8135 97 DESCTFKKHLLWVCKNEFE 115 (295)
Q Consensus 97 ~~~~~Fr~~Ll~~~q~~F~ 115 (295)
.....|...|...+...|.
T Consensus 77 ~y~~~F~~~l~~~f~~~~~ 95 (144)
T 1sz9_A 77 PYTIYFSRNLFNLYKRTYL 95 (144)
T ss_dssp THHHHHHTTHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 1234455555554444443
Done!