Query 003396
Match_columns 823
No_of_seqs 132 out of 188
Neff 5.4
Searched_HMMs 29240
Date Mon Mar 25 23:48:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003396.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/003396hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4b4t_P 26S proteasome regulato 99.0 2.6E-07 8.8E-12 104.2 30.2 410 8-537 18-434 (445)
2 3txn_A 26S proteasome regulato 98.9 1.2E-06 4E-11 97.7 30.4 291 155-512 58-363 (394)
3 4b4t_Q 26S proteasome regulato 98.8 1.2E-05 4.1E-10 86.2 35.1 392 6-514 3-405 (434)
4 4b4t_R RPN7, 26S proteasome re 98.3 2.4E-05 8.1E-10 87.6 20.1 221 230-511 167-393 (429)
5 4b4t_O 26S proteasome regulato 98.1 0.00012 4.2E-09 81.2 19.9 223 231-510 127-352 (393)
6 1ufm_A COP9 complex subunit 4; 97.3 0.00041 1.4E-08 61.2 6.3 60 450-510 16-75 (84)
7 4b4t_S RPN3, 26S proteasome re 97.1 0.002 7E-08 73.9 12.1 71 441-511 378-448 (523)
8 3etw_A Adhesin A; antiparallel 96.3 0.094 3.2E-06 49.1 14.8 46 658-703 67-112 (119)
9 3t5x_A PCI domain-containing p 95.6 0.021 7.1E-07 57.9 7.4 73 443-515 118-198 (203)
10 3t5v_B Nuclear mRNA export pro 90.2 0.32 1.1E-05 55.1 6.2 73 443-515 335-438 (455)
11 4b0z_A RPN12, 26S proteasome r 86.6 1.5 5.1E-05 45.0 7.9 67 436-510 162-228 (229)
12 1rz4_A Eukaryotic translation 85.7 26 0.00088 35.9 16.6 67 437-510 125-191 (226)
13 3chm_A COP9 signalosome comple 82.5 3 0.0001 41.1 7.7 50 461-510 106-156 (169)
14 4b4t_T 26S proteasome regulato 59.7 12 0.0004 39.5 6.1 70 435-512 170-239 (274)
15 3kmi_A Putative membrane prote 48.4 1.2E+02 0.0042 29.7 11.0 140 168-322 14-157 (177)
16 3vkg_A Dynein heavy chain, cyt 44.3 5.1E+02 0.018 36.3 19.1 11 198-208 1396-1406(3245)
17 2dfs_A Myosin-5A; myosin-V, in 38.8 4.1E+02 0.014 33.2 15.9 19 726-744 992-1010(1080)
18 2v66_B Nuclear distribution pr 34.4 2.8E+02 0.0094 25.5 10.5 41 663-703 39-79 (111)
19 3vkg_A Dynein heavy chain, cyt 27.6 1.5E+03 0.051 31.9 30.3 18 518-535 1860-1877(3245)
No 1
>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=98.98 E-value=2.6e-07 Score=104.17 Aligned_cols=410 Identities=17% Similarity=0.152 Sum_probs=215.4
Q ss_pred hhHHHhHHHHHhcCChHHHHHHHHHHHhcccccchhchHHHHHHHHHHHHhhcccccchhhhhHHHHHhhhccCcCcHHH
Q 003396 8 EAALNQAEALINVGQKQDALQVLHDLITSKRHRAWQKILEKIMFKYVELCVDMRRGKFAKDGLIQYRIVCQQVNVTSLEE 87 (823)
Q Consensus 8 EnALKRA~ELi~vGq~~~AL~~L~d~i~skr~r~w~~~lE~Im~~~ieLCVel~kg~~aKdgL~QYk~~~Q~~nv~SLe~ 87 (823)
++.+..|+.|.. |++++|++.|..+-..-|.-.=..+.-.+....|.||++.+.-. .-..++..++...+. +-.
T Consensus 18 ~~~~~~~~~l~~-~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~---~l~e~i~~Lskkr~q--lk~ 91 (445)
T 4b4t_P 18 KEEFPKIDSLAQ-NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWD---DLNEQLTLLSKKHGQ--LKL 91 (445)
T ss_dssp ----------CH-HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHH---HHHHHHHHHHTTTTT--SHH
T ss_pred HHHHHHHHHHHc-CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHH---HHHHHHHHHHHHhhh--hHH
Confidence 567888888855 89999999998877653322111333445556678999887632 223344444543321 233
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCccccccCCChhHHHHHhhcCccccCcccccccchHHHHHHHHHHHHHHhhcc
Q 003396 88 VIKHFMHLSTEKAEQARSQAQALEEALDVDDLEADKRPEDLMLSYVSGEKGKDRSDRELVTPWFKFLWETYRTVLEILRN 167 (823)
Q Consensus 88 Vi~~fl~lae~K~~~Aq~ka~~~~~~~~vdDLE~~~TPE~lLlsavs~e~~~drtdr~~vtPwlkFLWEsYR~vLdiLRn 167 (823)
.+.+.+..+..-+... .+++ -+++-.++++|+.
T Consensus 92 ai~~~V~~~~~~l~~~-------------------~~~d----------------------------~~~~~~~i~~l~~ 124 (445)
T 4b4t_P 92 SIQYMIQKVMEYLKSS-------------------KSLD----------------------------LNTRISVIETIRV 124 (445)
T ss_dssp HHHHHHHHHHHHHHHH-------------------CTTH----------------------------HHHHHHHHHCCSS
T ss_pred HHHHHHHHHHHHHhcC-------------------Cchh----------------------------HHHHHHHHHHHHH
Confidence 3333333332222110 0000 0222333444432
Q ss_pred c--hh--hHHHHHHHHHHHHHHHHhhCchhHHHHHHHHHHHHHHHHHhcccCCCCCCCCChhHHHHHHHHHHHHHHHHHh
Q 003396 168 N--SK--LEALYAMTAHRAFQFCKQYKRTTEFRRLCEIIRNHLLNLNKYRDQRDRPDLSSPESLQLYLDTRFEQLKVATD 243 (823)
Q Consensus 168 N--~k--LE~lY~~ta~~Af~FClkY~RktEFrRLce~LR~Hl~~~~K~~~~~~~~~ls~peT~q~~LetRf~QL~~Av~ 243 (823)
- .| ||... |+=...+|.=|....++...+++|..=.... + + ..+..+ =++.-+.|+.....
T Consensus 125 vte~kiflE~er---arl~~~La~i~e~~g~~~eA~~iL~~l~~Et--~--~----~~~~~~----kve~~l~q~rl~l~ 189 (445)
T 4b4t_P 125 VTENKIFVEVER---ARVTKDLVEIKKEEGKIDEAADILCELQVET--Y--G----SMEMSE----KIQFILEQMELSIL 189 (445)
T ss_dssp SSSCCCCCCHHH---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--C--S----SSCHHH----HHHHHHHHHHHHHH
T ss_pred HhccchHHHHHH---HHHHHHHHHHHHHccCHHHHHHHHHHHHHHH--H--h----cccHHH----HHHHHHHHHHHHHH
Confidence 1 11 23222 2223456666777788888888876522111 1 1 112233 45556679999999
Q ss_pred hhcHHHHHHHHhHHHHHhhhhcCCCChhHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhhhhCCCCCHHHHHHHHHHH
Q 003396 244 LQLWQEAFYSVEDIHGLMCMVKKTPKPSLLVVYYAKLTEIFWISSSHLYHAYAWFKLFTLQKTYNKNLSLKDLQLIASSV 323 (823)
Q Consensus 244 LeLWqEAFrsvEDI~~Lm~~skk~pkp~~ma~YYekLa~IFwvs~n~LfHA~A~~k~f~l~k~~~~~~s~ee~~~~AS~v 323 (823)
.+-|..|--.+.=|..- ....+|.|.+++.||.-++.++.--++|+=-+ ..||.++..++-.-.+......-..+
T Consensus 190 ~~d~~~a~~~~~ki~~~--~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~---~~y~e~~~~~~~~~d~~~~~~~L~~~ 264 (445)
T 4b4t_P 190 KGDYSQATVLSRKILKK--TFKNPKYESLKLEYYNLLVKISLHKREYLEVA---QYLQEIYQTDAIKSDEAKWKPVLSHI 264 (445)
T ss_dssp HTCHHHHHHHHHHHHHH--HHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHH---HHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHh--hcccCCcHHHHHHHHHHHHHHHHHhhhHHHHH---HHHHHHHhcccccCCHHHHHHHHHHH
Confidence 99999998776665432 12345678999999999999999999987433 33455554332222344445555555
Q ss_pred HHHhhccCCCCCCCccchhhhhhhHhHHhhhhHhhCCCCCCCCcccccccHHHHHHHHHHcCCcccccHHHHHHHHHHhh
Q 003396 324 VLAALLVVPYDRSRSASHLELENEKDRNLRMANLIGFELDPKFDSREALSRSSLLSELVSKGVMSCATQEVKDLYNLLEH 403 (823)
Q Consensus 324 lLAaLsIP~~~~~~~~~~~~~d~~~~k~~Rla~LLgl~~~~~~~~~~~PtR~~Ll~~l~~~~vl~~a~~ev~~LY~lLE~ 403 (823)
|+.++--|.++.... + -....+..++ ..+|.-..|++......+... |.+...|. .
T Consensus 265 v~~~iLa~~~~~~~~---l--l~~~~~~~~~--------------~~l~~~~~L~k~f~~~~L~~~--~~~~~~~~---~ 320 (445)
T 4b4t_P 265 VYFLVLSPYGNLQND---L--IHKIQNDNNL--------------KKLESQESLVKLFTTNELMRW--PIVQKTYE---P 320 (445)
T ss_dssp HHHHHHSSCSSTTHH---H--HHSHHHHSSC--------------HHHHHHHHHHHHHHHCCSSSH--HHHHHHTC---S
T ss_pred HHHHHhCCCCchHHH---H--HHHHhhcccc--------------cccHHHHHHHHHHHhchHhhh--HHHHHHHH---H
Confidence 666555555432100 0 0001111111 134666677777666655533 22222221 1
Q ss_pred cCChhhhHHhhHHHHHHHhhhcCCcccCCCCChhhhhhhHHHHHHHHHHHHHHHHHhHhceeehhhhhhccCCCChHHHH
Q 003396 404 EFLPLDLASKVQPLLAKISKYGGKLASASSVPEVQLSRYIPALEKLVTLRVLQQVSEVYQMMRIESLSQMIPFFDFAVVE 483 (823)
Q Consensus 404 ~f~Pl~l~~k~~p~L~~l~~~~~~~~~~~~~~~~~~~~Yv~~L~~vi~~Rll~qlSqvY~ti~i~~l~~l~~f~~~~~iE 483 (823)
.+.|.. ....+.....++..|.+.++..-|..+|+.|++|++++|.+++. .|..++|
T Consensus 321 ~L~~~~----------------------~~~~~~~~~~~~~~L~~~v~ehnl~~i~k~Ys~I~l~~la~lL~-l~~~evE 377 (445)
T 4b4t_P 321 VLNEDD----------------------LAFGGEANKHHWEDLQKRVIEHNLRVISEYYSRITLLRLNELLD-LTESQTE 377 (445)
T ss_dssp STTTCC----------------------SSCCCSCSSHHHHHHHHHHHHHHHHHHHHHEEEEEHHHHHHHHT-SCHHHHH
T ss_pred Hhcccc----------------------hhhhcchhhHHHHHHHHHHHHHHHHHHHHHhceeeHHHHHHHhC-cCHHHHH
Confidence 111100 01112233567888999999999999999999999999999986 4789999
Q ss_pred HHHHHHHhcCceeEEEeccCCeEEEecCCCCchhh---hHHHHHHHHHHHHHHhhhC
Q 003396 484 KISVEAVKHNFIAMKIDHMRGVVVFCNLGLESDGL---RDHLTIFAQSLNKVRALIY 537 (823)
Q Consensus 484 k~lv~a~~~~~l~vrIDH~~~~i~F~~~~~~s~~i---r~qL~~la~~L~~~~~~i~ 537 (823)
++|.+.+..|.|..+||...|+|+|+...-+++.+ .+++..|...+.++.++|+
T Consensus 378 ~~ls~mI~~g~i~akIDq~~giV~F~~~~~~~~~l~~W~~~i~~l~~~v~k~~~lI~ 434 (445)
T 4b4t_P 378 TYISDLVNQGIIYAKVNRPAKIVNFEKPKNSSQLLNEWSHNVDELLEHIETIGHLIT 434 (445)
T ss_dssp HHHHHHHHHTSSCCEEETTTTEEEC--------------------------------
T ss_pred HHHHHHHHCCCEEEEEcCCCCEEEECCCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999754333322 2344455555555555554
No 2
>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A
Probab=98.88 E-value=1.2e-06 Score=97.72 Aligned_cols=291 Identities=12% Similarity=0.101 Sum_probs=184.1
Q ss_pred HHHHHHHHHhhccchhhHHHHHHHHHHHHHHHHhhCchhHHH-----HHHHHHH---------HHHHHHHhcccCCCCCC
Q 003396 155 WETYRTVLEILRNNSKLEALYAMTAHRAFQFCKQYKRTTEFR-----RLCEIIR---------NHLLNLNKYRDQRDRPD 220 (823)
Q Consensus 155 WEsYR~vLdiLRnN~kLE~lY~~ta~~Af~FClkY~RktEFr-----RLce~LR---------~Hl~~~~K~~~~~~~~~ 220 (823)
=..-|+++|.+-+.+.-..+--.++..++++|. .+|++-+| |||+++- ..+..+.++-..
T Consensus 58 ~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~----- 131 (394)
T 3txn_A 58 AKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLRQSLEARLIALYFDTALYTEALALGAQLLRELKK----- 131 (394)
T ss_dssp HHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTT-----
T ss_pred HHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhc-----
Confidence 345677778876654445666788999999998 45666667 7888654 223333333211
Q ss_pred CCChhHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhHHHHHhhhhcCCCChhHHHHHHHHHHHHHH-HhCchhHHHHHHHH
Q 003396 221 LSSPESLQLYLDTRFEQLKVATDLQLWQEAFYSVEDIHGLMCMVKKTPKPSLLVVYYAKLTEIFW-ISSSHLYHAYAWFK 299 (823)
Q Consensus 221 ls~peT~q~~LetRf~QL~~Av~LeLWqEAFrsvEDI~~Lm~~skk~pkp~~ma~YYekLa~IFw-vs~n~LfHA~A~~k 299 (823)
+.|+ ..-||.-+....+...++-+..+=.++.---+..+-. +|.|.+++.+..--+.+.. ..++|-=-+ ..
T Consensus 132 ~dd~---~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai--~~~p~i~a~i~~~~Gi~~l~~~rdyk~A~---~~ 203 (394)
T 3txn_A 132 LDDK---NLLVEVQLLESKTYHALSNLPKARAALTSARTTANAI--YCPPKVQGALDLQSGILHAADERDFKTAF---SY 203 (394)
T ss_dssp SSCT---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHHHHHTTSCHHHHH---HH
T ss_pred cccc---hhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccC--CCCHHHHHHHHHHhhHHHHHhccCHHHHH---HH
Confidence 2222 5678999999999999999988866665554443322 4779999988888887777 677765333 33
Q ss_pred HHHHhhhhCCCCCHHHHHHHHHHHHHHhhccCCCCCCCccchhhhhhhHhHHhhhhHhhCCCCCCCCcccccccHHHHHH
Q 003396 300 LFTLQKTYNKNLSLKDLQLIASSVVLAALLVVPYDRSRSASHLELENEKDRNLRMANLIGFELDPKFDSREALSRSSLLS 379 (823)
Q Consensus 300 ~f~l~k~~~~~~s~ee~~~~AS~vlLAaLsIP~~~~~~~~~~~~~d~~~~k~~Rla~LLgl~~~~~~~~~~~PtR~~Ll~ 379 (823)
||.-.+.+...-++ .....+ |-.=|++|++++. |....++.
T Consensus 204 F~eaf~~f~~~~~~-~~~~~l-----------------------------kYlvL~aLl~~~r---------~el~~~l~ 244 (394)
T 3txn_A 204 FYEAFEGFDSVDSV-KALTSL-----------------------------KYMLLCKIMLGQS---------DDVNQLVS 244 (394)
T ss_dssp HHHHHHHHTTTCHH-HHHHHH-----------------------------HHHHHHHHHTTCG---------GGHHHHHH
T ss_pred HHHHHhcccccccH-HHHHHH-----------------------------HHHHHHHHHcCCH---------HHHHHHhc
Confidence 33333333321111 111111 2222444444431 12222211
Q ss_pred HHHHcCCcccccHHHHHHHHHHhhcCChhhhHHhhHHHHHHHhhhcCCcccCCCCChhhhhhhHHHHHHHHHHHHHHHHH
Q 003396 380 ELVSKGVMSCATQEVKDLYNLLEHEFLPLDLASKVQPLLAKISKYGGKLASASSVPEVQLSRYIPALEKLVTLRVLQQVS 459 (823)
Q Consensus 380 ~l~~~~vl~~a~~ev~~LY~lLE~~f~Pl~l~~k~~p~L~~l~~~~~~~~~~~~~~~~~~~~Yv~~L~~vi~~Rll~qlS 459 (823)
.+....+.+|+|..+++++.. |.--++ .....+|...+. .-..|+.+..++..|.+-|..+-+.+++
T Consensus 245 ---~~~~~~~~~pei~~l~~L~~a-~~~~dl-~~f~~iL~~~~~--------~l~~D~~l~~h~~~L~~~Ir~~~L~~i~ 311 (394)
T 3txn_A 245 ---GKLAITYSGRDIDAMKSVAEA-SHKRSL-ADFQAALKEYKK--------ELAEDVIVQAHLGTLYDTMLEQNLCRII 311 (394)
T ss_dssp ---SHHHHTTCSHHHHHHHHHHHH-HHTTCH-HHHHHHHHHSTT--------TTTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ---cccccccCCccHHHHHHHHHH-HHhCCH-HHHHHHHHHHHH--------HHhcChHHHHHHHHHHHHHHHHHHHHHh
Confidence 111122356777776666662 211111 111222222111 0112688899999999999999999999
Q ss_pred hHhceeehhhhhhccCCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEecCC
Q 003396 460 EVYQMMRIESLSQMIPFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCNLG 512 (823)
Q Consensus 460 qvY~ti~i~~l~~l~~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~~~ 512 (823)
.-|++|+|+++.+.+.. +..++|..|+.++..|.|..+||+.+|+|.|...+
T Consensus 312 ~pYsrIsl~~iA~~l~l-s~~evE~~L~~lI~dg~I~a~IDq~~giv~~~~~~ 363 (394)
T 3txn_A 312 EPYSRVQVAHVAESIQL-PMPQVEKKLSQMILDKKFSGILDQGEGVLIVFEET 363 (394)
T ss_dssp TTCSEEEHHHHHHHHTC-CHHHHHHHHHHHHHTTSSCEEEETTTTEEEECCC-
T ss_pred HhhceeeHHHHHHHHCc-CHHHHHHHHHHHHHCCCeeEEEcCCCCEEEECCCc
Confidence 99999999999988764 99999999999999999999999999999998754
No 3
>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=98.83 E-value=1.2e-05 Score=86.16 Aligned_cols=392 Identities=13% Similarity=0.094 Sum_probs=212.3
Q ss_pred ChhhHHHhHHHHHhcCChHHHHHHHHHHHhcccccch-----------hchHHHHHHHHHHHHhhcccccchhhhhHHHH
Q 003396 6 KPEAALNQAEALINVGQKQDALQVLHDLITSKRHRAW-----------QKILEKIMFKYVELCVDMRRGKFAKDGLIQYR 74 (823)
Q Consensus 6 kPEnALKRA~ELi~vGq~~~AL~~L~d~i~skr~r~w-----------~~~lE~Im~~~ieLCVel~kg~~aKdgL~QYk 74 (823)
-|..-|..|+.|+..|++..|++.+..++..-+..+. ....|........+|.++.+-..|.+-+-+-.
T Consensus 3 ~p~~~l~~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~ 82 (434)
T 4b4t_Q 3 LPGSKLEEARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHST 82 (434)
T ss_dssp STTHHHHHHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTH
T ss_pred ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 4889999999999999999999999999986443211 13456677778888888776444443333333
Q ss_pred HhhhccCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccccCCChhHHHHHhhcCccccCcccccccchHHHHH
Q 003396 75 IVCQQVNVTSLEEVIKHFMHLSTEKAEQARSQAQALEEALDVDDLEADKRPEDLMLSYVSGEKGKDRSDRELVTPWFKFL 154 (823)
Q Consensus 75 ~~~Q~~nv~SLe~Vi~~fl~lae~K~~~Aq~ka~~~~~~~~vdDLE~~~TPE~lLlsavs~e~~~drtdr~~vtPwlkFL 154 (823)
.+.++.+-......++..+ +.+.... +..+ -.
T Consensus 83 ~~~~~~~~~~~~~~~~~~l-------------------------------------~~~~~~~--~~~~---------~a 114 (434)
T 4b4t_Q 83 EYMMQFAKSKTVKVLKTLI-------------------------------------EKFEQVP--DSLD---------DQ 114 (434)
T ss_dssp HHHHTSCHHHHHHHHHHHH-------------------------------------HHHCSCC--SCHH---------HH
T ss_pred HHHHHccchHHHHHHHHHH-------------------------------------HHHHhCC--CCHH---------HH
Confidence 3333332222222222221 1111111 0001 11
Q ss_pred HHHHHHHHHhhccchhhHHHHHHHHHHHHHHHHhhCchhHHHHHHHHHHHHHHHHHhcccCCCCCCCCChhHHHHHHHHH
Q 003396 155 WETYRTVLEILRNNSKLEALYAMTAHRAFQFCKQYKRTTEFRRLCEIIRNHLLNLNKYRDQRDRPDLSSPESLQLYLDTR 234 (823)
Q Consensus 155 WEsYR~vLdiLRnN~kLE~lY~~ta~~Af~FClkY~RktEFrRLce~LR~Hl~~~~K~~~~~~~~~ls~peT~q~~LetR 234 (823)
-+.|+.++++.+.+.. +.+++.+ ....|.-|--..+|....+.+..-+....+. . ..|. .+++-
T Consensus 115 ~~~~~~~~~~~~~~~~-~~~~~~~---~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~---~-----~~~~----~~~~~ 178 (434)
T 4b4t_Q 115 IFVCEKSIEFAKREKR-VFLKHSL---SIKLATLHYQKKQYKDSLALINDLLREFKKL---D-----DKPS----LVDVH 178 (434)
T ss_dssp HHHHHHHHHHHHHSSC-CSSHHHH---HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTS---S-----CSTH----HHHHH
T ss_pred HHHHHHHHHHHHHhCc-cHHHHHH---HHHHHHHHHHccChHHHHHHHHHHHHHHHhc---c-----cchh----HHHHH
Confidence 2234555555543321 1111111 1222333333334444554444433222221 1 1233 45667
Q ss_pred HHHHHHHHhhhcHHHHHHHHhHHHHHhhhhcCCCChhHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhhhhCCCCCHH
Q 003396 235 FEQLKVATDLQLWQEAFYSVEDIHGLMCMVKKTPKPSLLVVYYAKLTEIFWISSSHLYHAYAWFKLFTLQKTYNKNLSLK 314 (823)
Q Consensus 235 f~QL~~Av~LeLWqEAFrsvEDI~~Lm~~skk~pkp~~ma~YYekLa~IFwvs~n~LfHA~A~~k~f~l~k~~~~~~s~e 314 (823)
+.+..+-..++-|..|-....-+-.+.. .-+..|..++.+|..+..+++.-++|.=-.-.+...|..+..........
T Consensus 179 ~~~~~~~~~~~~~~~A~~~~~~al~~~~--~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~~~~~~~~~~~~~ 256 (434)
T 4b4t_Q 179 LLESKVYHKLRNLAKSKASLTAARTAAN--SIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFESYHNLTTHNSYE 256 (434)
T ss_dssp HHHHHHHHHTTCHHHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHTTTSSCHH
T ss_pred HHHHHHHHHhCcHHHHHHHHHHHHHHhh--cCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhhhhhhhhHH
Confidence 7888888999999998776665544422 12223588999999999999998888766666666666554333222222
Q ss_pred HHHHHHHHHHHHhhccCCCCCCCccchhhhhhhHhHHhhhhHhhCCCCCCCCcccccccHHHHHHHHHHcCCcccccHHH
Q 003396 315 DLQLIASSVVLAALLVVPYDRSRSASHLELENEKDRNLRMANLIGFELDPKFDSREALSRSSLLSELVSKGVMSCATQEV 394 (823)
Q Consensus 315 e~~~~AS~vlLAaLsIP~~~~~~~~~~~~~d~~~~k~~Rla~LLgl~~~~~~~~~~~PtR~~Ll~~l~~~~vl~~a~~ev 394 (823)
..... +....++.+..... . .....+........ .....+|.-..|.......+ +
T Consensus 257 ~~~~~---~~~~~l~~~~~~~~-------~----~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~--------l 311 (434)
T 4b4t_Q 257 KACQV---LKYMLLSKIMLNLI-------D----DVKNILNAKYTKET---YQSRGIDAMKAVAEAYNNRS--------L 311 (434)
T ss_dssp HHHHH---HHHHHHHHHHHTCH-------H----HHHHHHHCSSSSTT---CCCHHHHHHHHHHHHHHHTC--------H
T ss_pred HHHHH---HHHHHHHHHhccch-------h----HHHhHHHHHHHHHH---hcchhhhHHHHHHHHHHhhh--------H
Confidence 22222 22222222221100 0 00111111111110 01111222222222221111 1
Q ss_pred HHHHHHHhhcCChhhhHHhhHHHHHHHhhhcCCcccCCCCChhhhhhhHHHHHHHHHHHHHHHHHhHhceeehhhhhhcc
Q 003396 395 KDLYNLLEHEFLPLDLASKVQPLLAKISKYGGKLASASSVPEVQLSRYIPALEKLVTLRVLQQVSEVYQMMRIESLSQMI 474 (823)
Q Consensus 395 ~~LY~lLE~~f~Pl~l~~k~~p~L~~l~~~~~~~~~~~~~~~~~~~~Yv~~L~~vi~~Rll~qlSqvY~ti~i~~l~~l~ 474 (823)
......++ ..-..+.. ++.+..++..+...+....+.+++..|++|+++++.+.+
T Consensus 312 ~~~~~~~~-------------~~~~~~~~------------~~~~~~~~~~l~~~~~~~~l~~~~~~y~~i~l~~la~~l 366 (434)
T 4b4t_Q 312 LDFNTALK-------------QYEKELMG------------DELTRSHFNALYDTLLESNLCKIIEPFECVEISHISKII 366 (434)
T ss_dssp HHHHHHHH-------------HTHHHHTC------------SHHHHHHHHHHHHHHHHHHHHHHHSSCSCEEHHHHHHHH
T ss_pred HHHHHHHH-------------HHHHHHcc------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHh
Confidence 11111111 11112222 467788899999999999999999999999999999876
Q ss_pred CCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEecCCCC
Q 003396 475 PFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCNLGLE 514 (823)
Q Consensus 475 ~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~~~~~ 514 (823)
. .+..++|+.|.+++..|.|..+||+..|+|.|...+-+
T Consensus 367 ~-~~~~~~E~~l~~lI~~~~i~a~id~~~g~v~~~~~~~~ 405 (434)
T 4b4t_Q 367 G-LDTQQVEGKLSQMILDKIFYGVLDQGNGWLYVYETPNQ 405 (434)
T ss_dssp T-CCHHHHHHHHHHHHHHTSSCCEEETTTTEEECC-----
T ss_pred C-cCHHHHHHHHHHHHhCCCcceecccccCeEeeCCCcch
Confidence 5 47899999999999999999999999999999875543
No 4
>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=98.30 E-value=2.4e-05 Score=87.60 Aligned_cols=221 Identities=14% Similarity=0.123 Sum_probs=141.7
Q ss_pred HHHHHHHHHHHHHhhhcHHHHHHHHhHHHHHhhhhcCCCChhHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhhhhCC
Q 003396 230 YLDTRFEQLKVATDLQLWQEAFYSVEDIHGLMCMVKKTPKPSLLVVYYAKLTEIFWISSSHLYHAYAWFKLFTLQKTYNK 309 (823)
Q Consensus 230 ~LetRf~QL~~Av~LeLWqEAFrsvEDI~~Lm~~skk~pkp~~ma~YYekLa~IFwvs~n~LfHA~A~~k~f~l~k~~~~ 309 (823)
-+|.-|.++.+++..+-|..|=..+.-+..++. ..+.|..++.|..--+.+.|-.++|.=+|- .|+.....+.
T Consensus 167 kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~---~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~---~f~e~~~t~~- 239 (429)
T 4b4t_R 167 KIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIE---KGGDWERRNRYKTYYGIHCLAVRNFKEAAK---LLVDSLATFT- 239 (429)
T ss_dssp HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT---TCCCTHHHHHHHHHHHHGGGGTSCHHHHHH---HHHHHHHHSC-
T ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhh---cCCCHHHHHHHHHHHHHHHHHhChHHHHHH---HHHHHhccCC-
Confidence 578889999999999999999888888877754 346678888888888888888888654333 2333333221
Q ss_pred CCCHHHHHHHHHHHHHHhhccCCCCCCCccchhhhhhhHhHHhhhhHhhCCCCCCCCcccccccHHHHHHHHHHc----C
Q 003396 310 NLSLKDLQLIASSVVLAALLVVPYDRSRSASHLELENEKDRNLRMANLIGFELDPKFDSREALSRSSLLSELVSK----G 385 (823)
Q Consensus 310 ~~s~ee~~~~AS~vlLAaLsIP~~~~~~~~~~~~~d~~~~k~~Rla~LLgl~~~~~~~~~~~PtR~~Ll~~l~~~----~ 385 (823)
....-.....|-..+|++|+.+. |..|...++.. +
T Consensus 240 ~~e~~~~~~~~~y~~l~al~~~~-----------------------------------------r~~l~~~v~~~~~~~~ 278 (429)
T 4b4t_R 240 SIELTSYESIATYASVTGLFTLE-----------------------------------------RTDLKSKVIDSPELLS 278 (429)
T ss_dssp CSCHHHHHHHHHHHHHHHHHTTC-----------------------------------------HHHHHHSSSSSHHHHH
T ss_pred ccchhhHHHHHHHHHHHHHhcCC-----------------------------------------HHHHHHHHhcCHHHHh
Confidence 11111122233333333333322 22222111110 0
Q ss_pred CcccccHHHHHHHHHHhh--cCChhhhHHhhHHHHHHHhhhcCCcccCCCCChhhhhhhHHHHHHHHHHHHHHHHHhHhc
Q 003396 386 VMSCATQEVKDLYNLLEH--EFLPLDLASKVQPLLAKISKYGGKLASASSVPEVQLSRYIPALEKLVTLRVLQQVSEVYQ 463 (823)
Q Consensus 386 vl~~a~~ev~~LY~lLE~--~f~Pl~l~~k~~p~L~~l~~~~~~~~~~~~~~~~~~~~Yv~~L~~vi~~Rll~qlSqvY~ 463 (823)
++ .-.|.+..+.+++.. .-+-.+.+. .++..... ....++.+..+++.|.+-|..+.+.|+++.|+
T Consensus 279 ~l-~~~p~~~~~~~l~~~~~~~~~~~~~~---~~l~~~~~--------~l~~d~~l~~h~~~l~~~ir~~~l~q~~~~Ys 346 (429)
T 4b4t_R 279 LI-STTAALQSISSLTISLYASDYASYFP---YLLETYAN--------VLIPCKYLNRHADFFVREMRRKVYAQLLESYK 346 (429)
T ss_dssp GG-GSHHHHHHHHHHHHHHHHTCHHHHHH---HHHHHHST--------TTTTCTTSTTTHHHHHHHHHHHHHHHHHHTCS
T ss_pred hc-cCChhHHHHHHHHHHHHhccHHHHHH---HHHHHHHh--------hhccCHHHHHHHHHHHHHHHHHHHHHHhHHhc
Confidence 11 112445544444441 111111111 12222211 11236788999999999999999999999999
Q ss_pred eeehhhhhhccCCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEecC
Q 003396 464 MMRIESLSQMIPFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCNL 511 (823)
Q Consensus 464 ti~i~~l~~l~~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~~ 511 (823)
+|+|+++.+.+. +|..++|+.|++.+..|.|..+||..+|+|.|+..
T Consensus 347 ~I~l~~mA~~l~-~s~~~~E~~L~~lI~~g~l~akID~~~giv~~~~~ 393 (429)
T 4b4t_R 347 TLSLKSMASAFG-VSVAFLDNDLGKFIPNKQLNCVIDRVNGIVETNRP 393 (429)
T ss_dssp EEEHHHHHHHHT-SCHHHHHHHHHHHHHHTSSCEEEETTTTEEEECC-
T ss_pred eeeHHHHHHHhC-cCHHHHHHHHHHHHHcCCeEEEEcCCCCEEEECCC
Confidence 999999998864 58999999999999999999999999999999853
No 5
>4b4t_O 26S proteasome regulatory subunit RPN9; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=98.09 E-value=0.00012 Score=81.17 Aligned_cols=223 Identities=14% Similarity=0.109 Sum_probs=133.9
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhHHHHHhhhhcCCCChhHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhhhhCCC
Q 003396 231 LDTRFEQLKVATDLQLWQEAFYSVEDIHGLMCMVKKTPKPSLLVVYYAKLTEIFWISSSHLYHAYAWFKLFTLQKTYNKN 310 (823)
Q Consensus 231 LetRf~QL~~Av~LeLWqEAFrsvEDI~~Lm~~skk~pkp~~ma~YYekLa~IFwvs~n~LfHA~A~~k~f~l~k~~~~~ 310 (823)
+-.+..-...-..++--.+|=..++.+-++|.... .+-|.+.+.||+-.+..+-.-++|.=.......|+.-+ +...+
T Consensus 127 l~i~~~i~~~yl~~~d~~~a~~~l~~~~~~l~~~~-~~~~~v~~~~y~~~~~~~~~~~~~a~~y~~~l~~l~~~-~~~~~ 204 (393)
T 4b4t_O 127 LLIDSEIARTYLLKNDLVKARDLLDDLEKTLDKKD-SIPLRITNSFYSTNSQYFKFKNDFNSFYYTSLLYLSTL-EPSTS 204 (393)
T ss_dssp HHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSC-CSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTSSS
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhhccC-CccHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc-ccccc
Confidence 33333333334455666778888888888877543 45689999999999999988777632222222222211 12357
Q ss_pred CCHHHHHHHHHHHHHHhhccCCCCCCCccchhhhhhhHhHHhhhhHhhCCCCCCCCcccccccHHHHHHHHHHcCCccc-
Q 003396 311 LSLKDLQLIASSVVLAALLVVPYDRSRSASHLELENEKDRNLRMANLIGFELDPKFDSREALSRSSLLSELVSKGVMSC- 389 (823)
Q Consensus 311 ~s~ee~~~~AS~vlLAaLsIP~~~~~~~~~~~~~d~~~~k~~Rla~LLgl~~~~~~~~~~~PtR~~Ll~~l~~~~vl~~- 389 (823)
+|.++...+|..++++||.-|....- +.||+.+.. -.+
T Consensus 205 ~~~~~~~~~a~~l~~~all~~~i~~f------------------~eLL~~p~i-----------------------~~L~ 243 (393)
T 4b4t_O 205 ITLAERQQLAYDLSISALLGDKIYNF------------------GELLHHPIM-----------------------ETIV 243 (393)
T ss_dssp CSHHHHHHHHHHHHHHHHHCCSSCST------------------HHHHHSCCT-----------------------TSSC
T ss_pred CCHHHHHHHHHHHHHHHHcCCCCCCh------------------HHHhCChHH-----------------------HHhh
Confidence 88999999999999999998864321 123333311 111
Q ss_pred ccHHHHHHHHHHhhcCChhhhHHhhHHHHHHHhhhcCCcccCCCCChhhhhhhHHHHHHHHHHHHHHHH--HhHhceeeh
Q 003396 390 ATQEVKDLYNLLEHEFLPLDLASKVQPLLAKISKYGGKLASASSVPEVQLSRYIPALEKLVTLRVLQQV--SEVYQMMRI 467 (823)
Q Consensus 390 a~~ev~~LY~lLE~~f~Pl~l~~k~~p~L~~l~~~~~~~~~~~~~~~~~~~~Yv~~L~~vi~~Rll~ql--SqvY~ti~i 467 (823)
-+|+...+|++|+ -|+..++.. +...+..+.+ ..|.+..+...+.+-+-...+.++ +.-|.+|++
T Consensus 244 ~~~~~~~l~~Ll~-~f~~g~~~~----f~~~~~~~~~--------~~~~l~~~~~~l~~kirll~l~~l~~~~~~~~i~f 310 (393)
T 4b4t_O 244 NDSNYDWLFQLLN-ALTVGDFDK----FDSLIKVQIS--------KIPILAQHESFLRQKICLMTLIETVFVKNIRMLSF 310 (393)
T ss_dssp SSSSTTHHHHHHH-HHHHTCHHH----HHHHCCHHHH--------HSHHHHHHHHHHHHHHHHHHHHHHHCSSSCCCEEH
T ss_pred cCCchHHHHHHHH-HHhcCCHHH----HHHHHHHhhh--------hCcchhhhHHHHHHHHHHHHHHHHhccCCCCcCcH
Confidence 1233344444444 222222111 1111110000 024455555544444333334343 356889999
Q ss_pred hhhhhccCCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEec
Q 003396 468 ESLSQMIPFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCN 510 (823)
Q Consensus 468 ~~l~~l~~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~ 510 (823)
+.+.+.+.. +..++|.+|++++..|.|.-+||+.+|+|+|..
T Consensus 311 ~~ia~~l~i-~~~evE~lli~aI~~glI~GkIDQv~~~v~v~~ 352 (393)
T 4b4t_O 311 EDISKATHL-PKDNVEHLVMRAISLGLLKGSIDQVNELVTISW 352 (393)
T ss_dssp HHHHHHHTC-CHHHHHHHHHHHHHHSCSSSCEETTTTEECC--
T ss_pred HHHHHHhCc-CHHHHHHHHHHHHHcCCEEEEEcCCCCEEEEEe
Confidence 999988764 789999999999999999999999999999975
No 6
>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: a.4.5.47
Probab=97.25 E-value=0.00041 Score=61.22 Aligned_cols=60 Identities=25% Similarity=0.355 Sum_probs=52.8
Q ss_pred HHHHHHHHHHhHhceeehhhhhhccCCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEec
Q 003396 450 VTLRVLQQVSEVYQMMRIESLSQMIPFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCN 510 (823)
Q Consensus 450 i~~Rll~qlSqvY~ti~i~~l~~l~~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~ 510 (823)
++---|..+|+.|++|+|++|.+++. .+..++|++|.+.+.++.|..+||..+|+|.|..
T Consensus 16 v~E~nl~~is~~Y~~Isl~~La~ll~-ls~~~vE~~ls~mI~~~~l~akIDq~~g~V~f~~ 75 (84)
T 1ufm_A 16 VIEHNLLSASKLYNNITFEELGALLE-IPAAKAEKIASQMITEGRMNGFIDQIDGIVHFET 75 (84)
T ss_dssp HHHHHHHHHHHSCSEEEHHHHHHHTT-SCHHHHHHHHHHHHHTTSSCEEEETTTTEEEECC
T ss_pred HHHHHHHHHHHhcCeeeHHHHHHHHC-cCHHHHHHHHHHHHhCCcEEEEEeCCCCEEEeCC
Confidence 34444446999999999999999976 4699999999999999999999999999999975
No 7
>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=97.13 E-value=0.002 Score=73.88 Aligned_cols=71 Identities=18% Similarity=0.249 Sum_probs=64.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhHhceeehhhhhhccCCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEecC
Q 003396 441 RYIPALEKLVTLRVLQQVSEVYQMMRIESLSQMIPFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCNL 511 (823)
Q Consensus 441 ~Yv~~L~~vi~~Rll~qlSqvY~ti~i~~l~~l~~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~~ 511 (823)
.-+..|+..++...|..+|..|.+|++..+...+.+.+..++|.++.++++.|.|..+|||..|.|.|...
T Consensus 378 ~LI~rLr~~vir~~irkis~~YsrIsL~dIa~kL~L~s~eeaE~iVAkmI~dG~I~A~Idh~~g~v~ske~ 448 (523)
T 4b4t_S 378 QLCVRLRSNVIKTGIRIISLTYKKISLRDICLKLNLDSEQTVEYMVSRAIRDGVIEAKINHEDGFIETTEL 448 (523)
T ss_dssp HHHHHHHHHHHHHHHHHSCCCSSEECHHHHHHHHHHHHSSCHHHHHHHHHHHTSSCCEECTTTCCEECCSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHhCCCCHHHHHHHHHHHHHcCCceEEEecCCCEEEeCcc
Confidence 35778889999999999999999999999998877777788999999999999999999999999999753
No 8
>3etw_A Adhesin A; antiparallel helix-loop-helix, leucine chain, cell adhesin, cell adhesion; 2.00A {Fusobacterium nucleatum} PDB: 3ety_A 3etx_A 3etz_A 2gl2_A
Probab=96.35 E-value=0.094 Score=49.09 Aligned_cols=46 Identities=9% Similarity=0.118 Sum_probs=42.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHhhhhhhchh
Q 003396 658 VTKQTLMERALTEQLRERQEMEKKLQKLAKTMDYLERAKREEAAPL 703 (823)
Q Consensus 658 ld~~~l~~~~~~~~~Kek~E~~~kl~~~~Kr~Dh~eRA~R~eE~pl 703 (823)
.+..+.++..+.+..+.+++++.+++...+.||+||++.+..|-.|
T Consensus 67 ~~yk~~y~~l~k~Y~~~~keLd~~ik~qekiIdnFE~ik~lr~gn~ 112 (119)
T 3etw_A 67 RFYKSQYQELASKYEDALKKLEAEMEQQKAVISDFEKIQALRAGNL 112 (119)
T ss_dssp CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 4678899999999999999999999999999999999999988654
No 9
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export, transcription; 2.12A {Homo sapiens}
Probab=95.59 E-value=0.021 Score=57.90 Aligned_cols=73 Identities=11% Similarity=0.138 Sum_probs=62.1
Q ss_pred HHHHHHHHHHHHHHHHHhH--hceeehhhhhhccC-----CCChHHHHHHHHHHHhcCceeEEEeccCCeEEEec-CCCC
Q 003396 443 IPALEKLVTLRVLQQVSEV--YQMMRIESLSQMIP-----FFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCN-LGLE 514 (823)
Q Consensus 443 v~~L~~vi~~Rll~qlSqv--Y~ti~i~~l~~l~~-----f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~-~~~~ 514 (823)
+..|+.++++.++..++.. |+.|+++.+..-.. -.|..++|-+|++++..|.|.-.|||..|++.+.. +|||
T Consensus 118 l~rlr~~v~r~l~rkv~~~~~~~rI~l~~i~~~l~~~~~~~~~~~evE~ila~lI~~G~Ikg~I~~~~~~lVlsk~~pFP 197 (203)
T 3t5x_A 118 LEKLKIITYRNLFKKVYLLLKTHQLSLDAFLVALKFMQVEDVDIDEVQCILANLIYMGHVKGYISHQHQKLVVSKQNPFP 197 (203)
T ss_dssp HHTHHHHHHHHHHHHHHHHHCCSEEEHHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSSCEEEETTTTEEEECSSCSSC
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHcCceEEEEcccccEEEECCCCCCC
Confidence 5677788888888888864 99999999885543 24899999999999999999999999999998876 6887
Q ss_pred c
Q 003396 515 S 515 (823)
Q Consensus 515 s 515 (823)
.
T Consensus 198 ~ 198 (203)
T 3t5x_A 198 P 198 (203)
T ss_dssp C
T ss_pred C
Confidence 4
No 10
>3t5v_B Nuclear mRNA export protein THP1; PCI, mRNA nuclear export, mRNA, nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Probab=90.16 E-value=0.32 Score=55.09 Aligned_cols=73 Identities=8% Similarity=0.113 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHHHHHH----HhHh--ceeehhhhhhccCC--------------------CChHHHHHHHHHHHhcCcee
Q 003396 443 IPALEKLVTLRVLQQV----SEVY--QMMRIESLSQMIPF--------------------FDFAVVEKISVEAVKHNFIA 496 (823)
Q Consensus 443 v~~L~~vi~~Rll~ql----SqvY--~ti~i~~l~~l~~f--------------------~~~~~iEk~lv~a~~~~~l~ 496 (823)
+..|+.++++.++..+ +-.| +.|+++.+..-+.+ .+..++|-+|++++..|.|.
T Consensus 335 lerLr~~v~RnLirkv~~~~~~~~~~srI~l~~i~~aL~~~~~~~~~~~~~~~~~~~~~~~~~devEcIlA~LI~~G~Ik 414 (455)
T 3t5v_B 335 LEKLPMVTYRNLIKTVIKSWTTEWGQNKLPYSLIERVLQLSIGPTFEDPGAQEITIYNGIHSPKNVENVLVTLINLGLLR 414 (455)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTTTCCCEEEHHHHHHHHHHHHCCCTTSTTCCCCCTTTSSCCSSCHHHHHHHHHHHTSCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCeeeHHHHHHHHhhccCccccccccccccccccCCCHHHHHHHHHHHHHcCCeE
Confidence 4566777777777776 6667 79999988744332 47889999999999999999
Q ss_pred EEEeccCCeEEEecC-----CCCc
Q 003396 497 MKIDHMRGVVVFCNL-----GLES 515 (823)
Q Consensus 497 vrIDH~~~~i~F~~~-----~~~s 515 (823)
-.|||..|+|.+... +||.
T Consensus 415 GyIsh~~~~lVlSK~~~~~~pFP~ 438 (455)
T 3t5v_B 415 ANCFPQLQLCVVKKTTMIQEIVPP 438 (455)
T ss_dssp EEEETTTTEEEECCCSCGGGTSCC
T ss_pred EEEecCCCEEEECCCCCCCCCCCC
Confidence 999999999999876 7874
No 11
>4b0z_A RPN12, 26S proteasome regulatory subunit RPN12; protein binding, proteasome ubitquitin; HET: SGM GOL; 1.58A {Schizosaccharomyces pombe}
Probab=86.63 E-value=1.5 Score=45.03 Aligned_cols=67 Identities=13% Similarity=0.251 Sum_probs=53.2
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHhHhceeehhhhhhccCCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEec
Q 003396 436 EVQLSRYIPALEKLVTLRVLQQVSEVYQMMRIESLSQMIPFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCN 510 (823)
Q Consensus 436 ~~~~~~Yv~~L~~vi~~Rll~qlSqvY~ti~i~~l~~l~~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~ 510 (823)
.+.+.-.++-|-.-+=..++..+++.|.+|+++.+.++.-|-|..+++.|+- ++| ..| + .|+|+|.+
T Consensus 162 ~~~~~~~~~~l~~~vR~~~l~~i~kaY~~i~l~~~~~~L~f~s~~e~~~f~~---~~g-w~i--~--dg~i~F~~ 228 (229)
T 4b0z_A 162 FPEFSYFMKIVMSMVRNEIATCAEKVYSEIPLSNATSLLYLENTKETEKLAE---ERG-WDI--R--DGVIYFPK 228 (229)
T ss_dssp CGGGHHHHHHHHHHHHHHHHHHHHHHCSEEEHHHHHHHTTCSSHHHHHHHHH---HHT-CEE--E--TTEEECC-
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHhCCCCHHHHHHHHH---HcC-CEE--e--CCEEecCC
Confidence 3455666677777777788899999999999999999999999999999984 444 333 3 88999964
No 12
>1rz4_A Eukaryotic translation initiation factor 3 subuni; heat analogous motif, winged-helix, biosynthetic protein; 2.10A {Homo sapiens} SCOP: a.4.5.53 a.118.1.18
Probab=85.66 E-value=26 Score=35.94 Aligned_cols=67 Identities=18% Similarity=0.185 Sum_probs=49.0
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHhHhceeehhhhhhccCCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEec
Q 003396 437 VQLSRYIPALEKLVTLRVLQQVSEVYQMMRIESLSQMIPFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCN 510 (823)
Q Consensus 437 ~~~~~Yv~~L~~vi~~Rll~qlSqvY~ti~i~~l~~l~~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~ 510 (823)
+++..-++.+.+.|=.+++..++..|++|+++.+.+++-+.+..++++++.. .| -.+| .+|.|.|.+
T Consensus 125 ~~l~~~i~gf~dsIR~~I~~~i~~aY~sI~~~~la~lLg~~s~~el~~fi~~---~G---W~vd-~~g~I~~~n 191 (226)
T 1rz4_A 125 MDLLEGITGFEDSVRKFICHVVGITYQHIDRWLLAEMLGDLSDSQLKVWMSK---YG---WSAD-ESGQIFICS 191 (226)
T ss_dssp CHHHHTSTTHHHHHHHHHHHHHHHHCSEECHHHHHHHTTSCCHHHHHHHHHH---HT---CEEC-C--CEECCC
T ss_pred hhHHHHHhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHcCCCHHHHHHHHHH---CC---CEEC-CCccEEeCC
Confidence 3444445555666667788899999999999999999988899999999864 23 3445 567786643
No 13
>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix motif, developmental protein, phosphoprotein; 1.50A {Arabidopsis thaliana}
Probab=82.50 E-value=3 Score=41.06 Aligned_cols=50 Identities=10% Similarity=0.162 Sum_probs=46.2
Q ss_pred HhceeehhhhhhccCCCChHHHHHHHH-HHHhcCceeEEEeccCCeEEEec
Q 003396 461 VYQMMRIESLSQMIPFFDFAVVEKISV-EAVKHNFIAMKIDHMRGVVVFCN 510 (823)
Q Consensus 461 vY~ti~i~~l~~l~~f~~~~~iEk~lv-~a~~~~~l~vrIDH~~~~i~F~~ 510 (823)
...+|+++.+.+-+...+..++|.+|| +|+..|.|.-+||..+++|+...
T Consensus 106 ~~~~lsy~~I~~~l~i~~~~evE~lvI~~ai~~gLI~gkiDQ~~~~v~V~~ 156 (169)
T 3chm_A 106 SNKVLPYDTLMVELDVSNVRELEDFLINECMYAGIVRGKLDQLKRCFEVPF 156 (169)
T ss_dssp HCSEEEHHHHHHHHTCCSHHHHHHHHHHTHHHHTSEEEEEETTTTEEEEEE
T ss_pred hCCCcCHHHHHHHhCCCCHHHHHHHHHHHHHHhCCeEEEEcCcCCEEEEEe
Confidence 378999999998888778999999999 99999999999999999999875
No 14
>4b4t_T 26S proteasome regulatory subunit RPN12; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=59.72 E-value=12 Score=39.45 Aligned_cols=70 Identities=13% Similarity=0.263 Sum_probs=52.8
Q ss_pred ChhhhhhhHHHHHHHHHHHHHHHHHhHhceeehhhhhhccCCCChHHHHHHHHHHHhcCceeEEEeccCCeEEEecCC
Q 003396 435 PEVQLSRYIPALEKLVTLRVLQQVSEVYQMMRIESLSQMIPFFDFAVVEKISVEAVKHNFIAMKIDHMRGVVVFCNLG 512 (823)
Q Consensus 435 ~~~~~~~Yv~~L~~vi~~Rll~qlSqvY~ti~i~~l~~l~~f~~~~~iEk~lv~a~~~~~l~vrIDH~~~~i~F~~~~ 512 (823)
|.+.|+-+++-+-+.+=..++..+.+.|.+|+++++.+++-|-+..++..|+- .+| ..+ ..|.|+|....
T Consensus 170 p~~~~~~f~d~l~~~iR~~a~~~i~kaY~~i~l~~~~~~L~F~s~~e~~~F~~---~~g-W~~----~~~~v~F~~~~ 239 (274)
T 4b4t_T 170 NISEFDSFTDILKSAIRDEIAKNTELSYDFLPLSNIKALLFFNNEKETEKFAL---ERN-WPI----VNSKVYFNNQS 239 (274)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHHHCSSCCHHHHHHHHTCCSHHHHHHHHH---HTT-CCC----CSSCCCC----
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHhCCCCHHHHHHHHH---HcC-CEE----eCCEeEECCcc
Confidence 44556667777777777778889999999999999999999999999999984 444 333 47888897643
No 15
>3kmi_A Putative membrane protein COG4129; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: MSE; 1.96A {Clostridium difficile}
Probab=48.44 E-value=1.2e+02 Score=29.68 Aligned_cols=140 Identities=11% Similarity=0.089 Sum_probs=90.9
Q ss_pred chhhHHHHHHHHHHHHHHH-HhhCchhHHHHHHHHHHHHHHHHHh--cccCCCCCCCCChhHHHHHHHHHHHHHHHHHhh
Q 003396 168 NSKLEALYAMTAHRAFQFC-KQYKRTTEFRRLCEIIRNHLLNLNK--YRDQRDRPDLSSPESLQLYLDTRFEQLKVATDL 244 (823)
Q Consensus 168 N~kLE~lY~~ta~~Af~FC-lkY~RktEFrRLce~LR~Hl~~~~K--~~~~~~~~~ls~peT~q~~LetRf~QL~~Av~L 244 (823)
-.++|..+..|-..-=.+| ..-+-. -...++..|...+..+.+ +.+..|.. ++++...-.|++-|-.|+++
T Consensus 14 ~~~IE~~~k~Il~~~a~~L~~~~~~~-~~~~~~~~l~~~i~~a~~~A~~~~~N~l-~~~~~yy~~Yf~MR~~Q~~i---- 87 (177)
T 3kmi_A 14 QKKLQEEVSIVLIDIADIIVNPKKEN-GYSRDLYTLNSLIDSSISETYDNINNTL-LSDTRFFLEHMDIIKSQRDI---- 87 (177)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCTTSCC-SHHHHHHHHHHHHHHHHHHHHHTGGGSC-HHHHHHHHHHHHHHHHHHHH----
T ss_pred HHHHHHHHHHHHHHHHHHHhhCcccc-cHHHHHHHHHHHHHHHHHHHHHhcCCCc-ccCchHHHHHHHHHHHHHHH----
Confidence 3677788888887777888 443322 234455555555555432 12222222 57889999999999999877
Q ss_pred hcHHHHHHHHhHHHHHhhhhcC-CCChhHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhhhhCCCCCHHHHHHHHHH
Q 003396 245 QLWQEAFYSVEDIHGLMCMVKK-TPKPSLLVVYYAKLTEIFWISSSHLYHAYAWFKLFTLQKTYNKNLSLKDLQLIASS 322 (823)
Q Consensus 245 eLWqEAFrsvEDI~~Lm~~skk-~pkp~~ma~YYekLa~IFwvs~n~LfHA~A~~k~f~l~k~~~~~~s~ee~~~~AS~ 322 (823)
+++++..++-... +|-..++|.|.+++|.-+-..|+...=---+..+..-++...=+-|.+|+..=|+.
T Consensus 88 ---------L~~m~~~i~~i~~~~~q~~~iA~~~~~~a~~~~e~n~a~~ll~~L~~l~~~fr~~~LP~TReEFE~RA~L 157 (177)
T 3kmi_A 88 ---------LENLYSYVSQLNSTPPQAHILSAFIHKIGYTEFEAETGNLLLEELKRLMISMKNQPLPVDRTEFENRAIL 157 (177)
T ss_dssp ---------HHHHHHHHTTCSCCCHHHHHHHHHHHHHHHCCCCTTHHHHHHHHHHHHHHHHHTSCCCSSHHHHHHHHHH
T ss_pred ---------HHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHH
Confidence 7777877764444 45578899999999987666555444333444555555666667788887765543
No 16
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*
Probab=44.29 E-value=5.1e+02 Score=36.33 Aligned_cols=11 Identities=18% Similarity=0.289 Sum_probs=7.9
Q ss_pred HHHHHHHHHHH
Q 003396 198 LCEIIRNHLLN 208 (823)
Q Consensus 198 Lce~LR~Hl~~ 208 (823)
.-++||++++.
T Consensus 1396 ~ielLrqlld~ 1406 (3245)
T 3vkg_A 1396 VITFIRQMVEK 1406 (3245)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHc
Confidence 55778888764
No 17
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}
Probab=38.75 E-value=4.1e+02 Score=33.15 Aligned_cols=19 Identities=21% Similarity=0.214 Sum_probs=9.5
Q ss_pred HHHHHHHhhHhhHHHHHHh
Q 003396 726 EVELSRQRHDGDLREKYRL 744 (823)
Q Consensus 726 ~~~~ak~~he~~l~~k~rL 744 (823)
.++..+++.+...++++.|
T Consensus 992 e~~~l~~~~~~~~ke~~~l 1010 (1080)
T 2dfs_A 992 EIAKLRKELHQTQTEKKTI 1010 (1080)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555554
No 18
>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}
Probab=34.44 E-value=2.8e+02 Score=25.51 Aligned_cols=41 Identities=29% Similarity=0.458 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHhhhhhhchh
Q 003396 663 LMERALTEQLRERQEMEKKLQKLAKTMDYLERAKREEAAPL 703 (823)
Q Consensus 663 l~~~~~~~~~Kek~E~~~kl~~~~Kr~Dh~eRA~R~eE~pl 703 (823)
-++..+.++...+..+..+++.++-.-|-||||.|---..|
T Consensus 39 ~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SL 79 (111)
T 2v66_B 39 VLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSL 79 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhH
Confidence 34667889999999999999999999999999999865543
No 19
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*
Probab=27.60 E-value=1.5e+03 Score=31.92 Aligned_cols=18 Identities=11% Similarity=0.004 Sum_probs=12.8
Q ss_pred hhHHHHHHHHHHHHHHhh
Q 003396 518 LRDHLTIFAQSLNKVRAL 535 (823)
Q Consensus 518 ir~qL~~la~~L~~~~~~ 535 (823)
++..++.+-...|.++.-
T Consensus 1860 ~~~~~~~~~~~iH~sv~~ 1877 (3245)
T 3vkg_A 1860 HRDAVVSSLVYIHQTIGE 1877 (3245)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 477788777777777653
Done!