Query 046440
Match_columns 284
No_of_seqs 218 out of 1677
Neff 7.6
Searched_HMMs 29240
Date Mon Mar 25 21:22:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046440.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/046440hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3g33_B CCND3 protein; Ser/Thr 100.0 3.7E-43 1.3E-47 321.7 21.4 225 9-240 16-270 (306)
2 1f5q_B Gamma herpesvirus cycli 100.0 1.1E-41 3.8E-46 303.7 17.0 199 31-239 21-244 (252)
3 2w96_A G1/S-specific cyclin-D1 100.0 1.6E-40 5.6E-45 299.3 20.7 224 9-240 4-260 (271)
4 1g3n_C V-cyclin; cyclin-depend 100.0 4.6E-40 1.6E-44 294.2 22.6 202 32-240 20-251 (257)
5 2f2c_A Cyclin homolog, V-cycli 100.0 5.9E-40 2E-44 293.0 22.7 200 32-238 21-249 (254)
6 2cch_B Cyclin A2, cyclin-A; co 100.0 9.3E-40 3.2E-44 292.6 21.1 203 28-239 4-230 (260)
7 1w98_B Cyclin E, G1/S-specific 100.0 1.6E-38 5.3E-43 288.1 23.2 200 28-238 15-243 (283)
8 2b9r_A Human cyclin B1; cell c 100.0 6.5E-39 2.2E-43 288.6 18.3 201 28-239 4-227 (269)
9 2i53_A Cyclin K; cell cycle, t 100.0 2.9E-31 9.8E-36 236.8 16.9 176 60-239 35-253 (258)
10 2ivx_A Cyclin-T2; transcriptio 100.0 2.7E-30 9.2E-35 230.6 20.6 171 61-238 26-241 (257)
11 3rgf_B Cyclin-C; protein kinas 100.0 4.4E-30 1.5E-34 232.8 18.6 171 62-239 39-244 (285)
12 1zp2_A RNA polymerase II holoe 100.0 1.1E-29 3.7E-34 224.0 16.7 168 66-239 28-222 (235)
13 2pk2_A Cyclin-T1, protein TAT; 100.0 4.4E-30 1.5E-34 239.6 12.0 172 61-239 33-249 (358)
14 1jkw_A Cyclin H; cell cycle, c 100.0 2.1E-28 7.1E-33 225.4 18.8 174 62-238 53-262 (323)
15 1c9b_A General transcription f 99.9 2.9E-22 1E-26 173.0 17.7 167 65-239 4-191 (207)
16 1ais_B TFB TFIIB, protein (tra 99.8 2.4E-18 8.4E-23 147.5 19.1 164 65-236 8-194 (200)
17 3k7a_M Transcription initiatio 99.5 6.8E-15 2.3E-19 136.3 4.7 162 67-236 127-321 (345)
18 4bbr_M Transcription initiatio 99.0 4.1E-10 1.4E-14 104.1 8.8 161 67-233 127-318 (345)
19 2pmi_B PHO85 cyclin PHO80, ami 97.4 0.0011 3.9E-08 59.1 10.5 89 69-161 77-186 (293)
20 1ais_B TFB TFIIB, protein (tra 95.6 0.043 1.5E-06 45.9 8.3 56 71-129 110-165 (200)
21 1c9b_A General transcription f 94.1 0.28 9.6E-06 41.0 9.4 85 149-236 8-94 (207)
22 1zp2_A RNA polymerase II holoe 89.9 1.6 5.6E-05 37.0 9.2 77 167-243 46-133 (235)
23 2i53_A Cyclin K; cell cycle, t 85.1 2.4 8.2E-05 36.4 7.4 55 71-128 153-211 (258)
24 4bbr_M Transcription initiatio 83.9 4.1 0.00014 36.9 8.8 86 148-236 128-215 (345)
25 3rgf_B Cyclin-C; protein kinas 81.1 1.9 6.5E-05 37.9 5.2 53 71-126 159-211 (285)
26 3k7a_M Transcription initiatio 79.6 1.3 4.3E-05 40.3 3.6 84 150-236 130-215 (345)
27 2ivx_A Cyclin-T2; transcriptio 79.5 5.3 0.00018 34.2 7.5 56 71-129 148-204 (257)
28 2b9r_A Human cyclin B1; cell c 75.1 6.3 0.00021 34.1 6.7 54 71-127 140-193 (269)
29 2w96_A G1/S-specific cyclin-D1 72.4 21 0.00072 30.7 9.4 68 170-237 78-150 (271)
30 1jkw_A Cyclin H; cell cycle, c 71.1 20 0.00068 31.9 9.2 69 168-236 78-155 (323)
31 2pk2_A Cyclin-T1, protein TAT; 65.5 5.4 0.00018 36.3 4.2 56 72-130 156-212 (358)
32 2cch_B Cyclin A2, cyclin-A; co 65.0 17 0.00058 31.1 7.2 67 171-237 61-132 (260)
33 3h4c_A Transcription factor TF 64.6 37 0.0013 28.5 8.6 55 68-125 14-71 (260)
34 2f2c_A Cyclin homolog, V-cycli 62.6 40 0.0014 28.5 9.1 72 167-238 70-146 (254)
35 3g33_B CCND3 protein; Ser/Thr 58.3 46 0.0016 29.2 8.9 69 169-237 91-164 (306)
36 1g3n_C V-cyclin; cyclin-depend 56.6 16 0.00055 31.1 5.5 55 70-127 152-210 (257)
37 1w98_B Cyclin E, G1/S-specific 45.8 69 0.0024 27.6 7.9 66 172-237 73-144 (283)
38 1f5q_B Gamma herpesvirus cycli 35.8 1.6E+02 0.0055 24.9 8.5 68 168-235 68-140 (252)
39 3m03_A ORC6, origin recognitio 35.6 1.1E+02 0.0038 22.2 6.3 55 73-132 6-66 (95)
40 2qdj_A Retinoblastoma-associat 27.3 2.2E+02 0.0076 25.0 8.1 65 73-141 6-74 (304)
41 3ul0_C Nuclear CAP-binding pro 20.6 76 0.0026 16.9 2.2 11 260-270 3-13 (26)
No 1
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens}
Probab=100.00 E-value=3.7e-43 Score=321.69 Aligned_cols=225 Identities=16% Similarity=0.166 Sum_probs=177.6
Q ss_pred cccccC-CCccccccccCCCCCChHHHHHHHHHHhhccCCCCCCCCccc-cCCcChHHHHHHHHHHHHHHHHHcCCChHH
Q 046440 9 GLLCPE-SKTCLDEDSAVLDVEDEDEYVNTLGDKEISFGFKRGETDKSV-MLSDDIKCARLEAIAWILNTRAVFGFRPKT 86 (284)
Q Consensus 9 ~l~c~e-~~~~~~~~~~~~~~~~~~e~l~~L~~~E~~~~~~~~~~~~~~-~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT 86 (284)
+|+|.| .++.... ..+.+-.|++|++++|+++|.++.| ..+|.. .+.++++.||.++|+||++|+..|++.++|
T Consensus 16 ~l~~~e~~~~~~~a-~~dp~l~~~~~i~~~l~~~E~~~~p---~~~y~~~~q~~i~~~~R~~lvdwl~ev~~~~~l~~~t 91 (306)
T 3g33_B 16 ELLCCEGTRHAPRA-GPDPRLLGDQRVLQSLLRLEERYVP---RASYFQCVQREIKPHMRKMLAYWMLEVCEEQRCEEEV 91 (306)
T ss_dssp ----------------------CHHHHHHHHHHHGGGGSC---SSCCTTTSTTTCCHHHHHHHHHHHHHHHHHTTCCTTH
T ss_pred ceeeeccccccccc-CCCCcccchHHHHHHHHHHHHHhCC---CcHHHhhcCccCCHHHHHHHHHHHHHHHHHhCCcHhH
Confidence 699999 3322211 1223445899999999999999855 345654 456899999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccC
Q 046440 87 AYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGI 146 (284)
Q Consensus 87 ~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~ 146 (284)
+++||+|||||+++..+.+.++ ||+|+||||||+|+||..+|.+ +.||++|+|+++.
T Consensus 92 ~~lAv~~lDRfls~~~v~~~~l---qLv~~tcL~lAsK~eE~~p~~~~~l~~~~~~~~~~~~i~~mE~~IL~~L~f~l~~ 168 (306)
T 3g33_B 92 FPLAMNYLDRYLSCVPTRKAQL---QLLGAVCMLLASKLRETTPLTIEKLCIYTDHAVSPRQLRDWEVLVLGKLKWDLAA 168 (306)
T ss_dssp HHHHHHHHHHHHHHCCCCGGGH---HHHHHHHHHHHHHHHCSSCCCTTHHHHHTTTSSCHHHHHHHHHHHHHHTTTCCCC
T ss_pred HHHHHHHHHHHHhcCCCcHHHH---HHHHHHHHHHHHHhccCCCCCHHHHHHHhccCccHHHHHHHHHHHHHHcCCccCC
Confidence 9999999999999999999999 9999999999999999988776 9999999999999
Q ss_pred CChHHHHHHHHHHhcCCCCCcc-hHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccch----hhh---HhhcC
Q 046440 147 NHSISFLHHFIRKFCKDSSPSN-VLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQ----ALE---SCCGF 218 (284)
Q Consensus 147 pTp~~Fl~~fl~~~~~~~~~~~-~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~----~~~---~~~~~ 218 (284)
|||++||.+|+..++....... +...+.++++.++.++.|+.|+||.||+|||++|+..+.... .|. ..++|
T Consensus 169 ~tp~~fl~~~l~~l~~~~~~~~~~~~~a~~~l~lsl~d~~~l~~~PS~IAaAai~lA~~~l~~~~~w~~~w~~~L~~~tg 248 (306)
T 3g33_B 169 VIAHDFLAFILHRLSLPRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQGLGACSMSGDELTELLAGITG 248 (306)
T ss_dssp CCGGGGHHHHHHTSSCCTTTHHHHHHHHHHHHHHHHHCGGGTTSCHHHHHHHHHHHHHHTCC---CCHHHHHHHHHHHHT
T ss_pred CCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHHhcCCCCchhhHHHHHHHHHC
Confidence 9999999999998875533222 345677889999999999999999999999999987654322 233 46789
Q ss_pred CChhhHHHHHHHHHHHHHhhcC
Q 046440 219 LEVGDVSTCYSIMQKLEMEKYK 240 (284)
Q Consensus 219 ~~~~~l~~C~~~m~~l~~~~~~ 240 (284)
|++++|.+|++.|.+++....+
T Consensus 249 ~~~~~l~~c~~~I~~l~~~~l~ 270 (306)
T 3g33_B 249 TEVDCLRACQEQIEAALRESLR 270 (306)
T ss_dssp CCHHHHHHHHHHHHHHHHTC--
T ss_pred CCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999997553
No 2
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1
Probab=100.00 E-value=1.1e-41 Score=303.75 Aligned_cols=199 Identities=10% Similarity=0.087 Sum_probs=169.9
Q ss_pred hHHHHHHHHHHhhccCCCCCCCCccccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhh
Q 046440 31 EDEYVNTLGDKEISFGFKRGETDKSVMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWA 110 (284)
Q Consensus 31 ~~e~l~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~ 110 (284)
.|+++++|+++|.+|.| ...+.++++.||.++|+||++|+..|+++++|+|+||+|+||||+.+.+.+.++
T Consensus 21 ~d~i~~~l~~~E~~~~p-------~~~q~~i~~~~R~~lvdWl~ev~~~~~l~~eT~~lAv~~lDRfLs~~~v~~~~l-- 91 (252)
T 1f5q_B 21 RQMIYRSEREHDARMVG-------VNVDQHFTSQYRKVLTTWMFCVCKDLRQDNNVFPLAVALLDELFLSTRIDRENY-- 91 (252)
T ss_dssp HHHHHHHHHHHHHHHSS-------SSHHHHHHCSHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHSCCCGGGH--
T ss_pred HHHHHHHHHHHHHHhCc-------CccCCCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCCcCHHHH--
Confidence 46999999999999744 223457889999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCC-cch
Q 046440 111 IKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSP-SNV 169 (284)
Q Consensus 111 ~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~-~~~ 169 (284)
||+|+|||+||+|+||..+|.+ +.||++|+|+++.|||++|+++|++.++..... ..+
T Consensus 92 -qLvg~tcl~iAsK~eE~~p~~~~~l~~~~~~~yt~~~i~~mE~~IL~~L~w~l~~pTp~~FL~~~l~~~~~~~~~~~~~ 170 (252)
T 1f5q_B 92 -QSTAAVALHIAGKVRAYMPIKATQLAYLCGGATTADKLLTLEVKSLDTLSWVADRCLSTDLICYILHIMHAPREDYLNI 170 (252)
T ss_dssp -HHHHHHHHHHHHHHHCSSCCCHHHHHHHHCTTCCHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHHHTTCCHHHHHHH
T ss_pred -HHHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCCCHHHHHHHHHHHHHHCCCccCCCCHHHHHHHHHHHcCCCcchHHHH
Confidence 9999999999999999998877 999999999999999999999999987644221 234
Q ss_pred HHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccc-hhhh---HhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 170 LPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTR-QALE---SCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 170 ~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~-~~~~---~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
...+.++++.++.|+.|+.|+||+||+||+.+++....+. ..|. ..++||++++|.+|++.|.++...-.
T Consensus 171 ~~~a~~~l~~~l~d~~~l~~~PS~iAaaa~~~~l~~~~~~~~~~~~~L~~~t~~~~~~l~~C~~~i~~~l~~~~ 244 (252)
T 1f5q_B 171 YNLCRPKIFCALCDGRSAMKRPVLITLACMHLTMNQKYDYYENRIDGVCKSLYITKEELHQCCDLVDIAIVSFD 244 (252)
T ss_dssp HHHHHHHHHHHHHCHHHHTSCHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHhchhhhccCHHHHHHHHHHHHhccCCCchhhHHHHHHHHHCcCHHHHHHHHHHHHHHHHHhC
Confidence 4567788899999999999999999999987776433222 1121 46799999999999999999876543
No 3
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A
Probab=100.00 E-value=1.6e-40 Score=299.25 Aligned_cols=224 Identities=17% Similarity=0.230 Sum_probs=180.1
Q ss_pred cccccCCCccccccccCCCCCChHHHHHHHHHHhhccCCCCCCCCccc-cCCcChHHHHHHHHHHHHHHHHHcCCChHHH
Q 046440 9 GLLCPESKTCLDEDSAVLDVEDEDEYVNTLGDKEISFGFKRGETDKSV-MLSDDIKCARLEAIAWILNTRAVFGFRPKTA 87 (284)
Q Consensus 9 ~l~c~e~~~~~~~~~~~~~~~~~~e~l~~L~~~E~~~~~~~~~~~~~~-~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~ 87 (284)
+|+|.|++.......+ .+- .++|++++|+++|.+|.| ..+|.. .+.++++.||.++++||.+|+..+++.++|+
T Consensus 4 ~l~c~e~~~~~~~~~d-p~~-~~~~i~~~l~~~E~~~~p---~~~y~~~~q~~i~~~~R~~lv~wl~~v~~~~~l~~~tl 78 (271)
T 2w96_A 4 QLLCCEVETIRRAYPD-ANL-LNDRVLRAMLKAEETCAP---SVSYFKCVQKEVLPSMRKIVATWMLEVCEEQKCEEEVF 78 (271)
T ss_dssp --CCCSSSCC-------------CHHHHHHHHHHHHTCC---CTTHHHHTCSSCCHHHHHHHHHHHHHHHHHTTCCTTHH
T ss_pred ceeeCCCCccccCCCC-Ccc-cHHHHHHHHHHHHHHhCC---CchHHHhcCCcCCHHHHHHHHHHHHHHHHHHCCchhHH
Confidence 5999997753322111 111 277999999999999754 456653 4568999999999999999999999999999
Q ss_pred HHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCC
Q 046440 88 YLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGIN 147 (284)
Q Consensus 88 ~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~p 147 (284)
++||+|+|||++..++.+.++ |++|+||||||||+||+.+|.+ +.||++|+|+++.|
T Consensus 79 ~lAv~~lDRfls~~~v~~~~l---qlv~~acL~iAsK~EE~~p~~~~~~~~~~~~~~~~~eI~~mE~~IL~~L~~~l~~~ 155 (271)
T 2w96_A 79 PLAMNYLDRFLSLEPVKKSRL---QLLGATCMFVASKMKETIPLTAEKLCIYTDNSIRPEELLQMELLLVNKLKWNLAAM 155 (271)
T ss_dssp HHHHHHHHHHHTTSCCCTTTH---HHHHHHHHHHHHHHHCSSCCCHHHHHHHTTTSSCHHHHHHHHHHHHHHTTTCCCCC
T ss_pred HHHHHHHHHhCCcCCcCHHHH---HHHHHHHHHHHHHHhhcCCCCHHHHHHHhcCCCCHHHHHHHHHHHHHHCCCccCCC
Confidence 999999999999999999999 9999999999999999988776 99999999999999
Q ss_pred ChHHHHHHHHHHhcCCCCCcc-hHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhcc---c-hhhh-------Hh
Q 046440 148 HSISFLHHFIRKFCKDSSPSN-VLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLT---R-QALE-------SC 215 (284)
Q Consensus 148 Tp~~Fl~~fl~~~~~~~~~~~-~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~---~-~~~~-------~~ 215 (284)
||++|+.+|+..++....... +...+.++++.++.++.|+.|+||.||+|||++|+..... . ..|. ..
T Consensus 156 tp~~fl~~~~~~l~~~~~~~~~~~~~a~~~l~~~~~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~~~~w~~~~~~~l~~ 235 (271)
T 2w96_A 156 TPHDFIEHFLSKMPEAEENKQIIRKHAQTFVALCATDVKFISNPPSMVAAGSVVAAVQGLNLRSPNNFLSYYRLTRFLSR 235 (271)
T ss_dssp CHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHTSTHHHHSCHHHHHHHHHHHHHHHHHHHSTTSCGGGTTHHHHHHH
T ss_pred CHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHHHhhhhhhccCHHHHHHHHHHHHHHHhCcCCCCCCCcHHHHHHHHHH
Confidence 999999999998764422111 2345778888899999999999999999999999865421 1 1121 35
Q ss_pred hcCCChhhHHHHHHHHHHHHHhhcC
Q 046440 216 CGFLEVGDVSTCYSIMQKLEMEKYK 240 (284)
Q Consensus 216 ~~~~~~~~l~~C~~~m~~l~~~~~~ 240 (284)
++||++++|.+|++.|.+++....+
T Consensus 236 ~~~v~~~~l~~c~~~i~~l~~~~~~ 260 (271)
T 2w96_A 236 VIKCDPDCLRACQEQIEALLESSLR 260 (271)
T ss_dssp HHTSCHHHHHHHHHHHHHHHTTTTT
T ss_pred HHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999886553
No 4
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1
Probab=100.00 E-value=4.6e-40 Score=294.18 Aligned_cols=202 Identities=11% Similarity=0.088 Sum_probs=175.5
Q ss_pred HHHHHHHHHHhhccCCCCCCCCcc-ccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhh
Q 046440 32 DEYVNTLGDKEISFGFKRGETDKS-VMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWA 110 (284)
Q Consensus 32 ~e~l~~L~~~E~~~~~~~~~~~~~-~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~ 110 (284)
+|++ +|+++|.++.| ..+|+ ..+.++++.||.++|+||++|+..|++.++|+++||+|+|||++...+.+.++
T Consensus 20 ~~i~-~l~~~E~~~~p---~~~y~~~~q~~i~~~~R~~lvdwl~ev~~~~~l~~etl~lAv~~~DRfls~~~v~~~~l-- 93 (257)
T 1g3n_C 20 RIFY-NILEIEPRFLT---SDSVFGTFQQSLTSHMRKLLGTWMFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKEHF-- 93 (257)
T ss_dssp HHHH-HHHHHGGGGCC---CGGGHHHHTSSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCCHHHH--
T ss_pred HHHH-HHHHHHHHhCC---ChhHHHhcCccCCHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHccCCCCHHHH--
Confidence 8899 99999999754 45665 35678999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCc-ch
Q 046440 111 IKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPS-NV 169 (284)
Q Consensus 111 ~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~-~~ 169 (284)
||+|+||||||||+||..+|.+ +.||++|+|+++.|||++|+.+|+..++.+.... .+
T Consensus 94 -qLv~~acl~iA~K~eE~~~p~~~d~~~~~~~~~~~~~i~~mE~~iL~~L~~~l~~~tp~~fl~~~~~~~~~~~~~~~~~ 172 (257)
T 1g3n_C 94 -QKTGSACLLVASKLRSLTPISTSSLCYAAADSFSRQELIDQEKELLEKLAWRTEAVLATDVTSFLLLKLVGGSQHLDFW 172 (257)
T ss_dssp -HHHHHHHHHHHHHHHCSSCCCHHHHHHHTTTCSCHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHHHHSCSSTTHHHH
T ss_pred -HHHHHHHHHHHHHHccccCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCcCCCCCHHHHHHHHHHHcCCChhHHHHH
Confidence 9999999999999999998877 9999999999999999999999999987543321 23
Q ss_pred HHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccc-----hhhh---HhhcCCChhhHHHHHHHHHHHHHhhcC
Q 046440 170 LPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTR-----QALE---SCCGFLEVGDVSTCYSIMQKLEMEKYK 240 (284)
Q Consensus 170 ~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~-----~~~~---~~~~~~~~~~l~~C~~~m~~l~~~~~~ 240 (284)
...+.++++.++.++.|++|+||.||+|||++|+...... +.|. ..++||++++|.+|++.|.+++.....
T Consensus 173 ~~~a~~~le~~l~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~~~~~w~~~l~~~t~~~~~~l~~c~~~i~~l~~~~~~ 251 (257)
T 1g3n_C 173 HHEVNTLITKALVDPLTGSLPASIISAAGCALLVPANVIPQDTHSGGVVPQLASILGCDVSVLQAAVEQILTSVSDFDL 251 (257)
T ss_dssp HHHHHHHHHHHHTSTTGGGSCHHHHHHHHHHHHCCGGGSCC-----CHHHHHHHHHTCCHHHHHHHHHHHHHHHHHCCC
T ss_pred HHHHHHHHHHHHhCcchhCcCHHHHHHHHHHHHHHHhCCCcccchhhHHHHHHHHHCcCHHHHHHHHHHHHHHHHHCCH
Confidence 4557789999999999999999999999999998655421 2343 457899999999999999999886543
No 5
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A
Probab=100.00 E-value=5.9e-40 Score=292.99 Aligned_cols=200 Identities=14% Similarity=0.090 Sum_probs=173.7
Q ss_pred HHHHHHHHHHhhccCCCCCCCCccc-cCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhh
Q 046440 32 DEYVNTLGDKEISFGFKRGETDKSV-MLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWA 110 (284)
Q Consensus 32 ~e~l~~L~~~E~~~~~~~~~~~~~~-~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~ 110 (284)
+|+++ |+++|.++.+ ..+|+. .+.++++.||.++|+||++|+..|++.++|+++||+|+|||++.+.+.+.++
T Consensus 21 ~~i~~-l~~~E~~~~p---~~~y~~~~q~~i~~~~R~~lvdwl~~v~~~~~l~~etl~lAv~~~DRfls~~~v~~~~l-- 94 (254)
T 2f2c_A 21 PRVLN-NLKLRELLLP---KFTSLWEIQTEVTVDNRTILLTWMHLLCESFELDKSVFPLSVSILDRYLCKKQGTKKTL-- 94 (254)
T ss_dssp HHHHH-HHHHHHTTSC---CCSSTTTTCSSCCHHHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHTTTSCCCTTTH--
T ss_pred HHHHH-HHHHHHhhCC---CchhhhhcCccCCHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHHccCCcCHHHc--
Confidence 89999 9999999754 456653 5678999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCc-ch
Q 046440 111 IKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPS-NV 169 (284)
Q Consensus 111 ~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~-~~ 169 (284)
||+|+||||||||+||..+|.+ +.||++|+|+++.|||++|+.+|+..++.+.... .+
T Consensus 95 -qLv~~acl~iA~K~eE~~~p~~~d~~~~~~~~~~~~~i~~mE~~IL~~L~~~l~~~tp~~fl~~~~~~~~~~~~~~~~~ 173 (254)
T 2f2c_A 95 -QKIGAACVLIGSKIRTVKPMTVSKLTYLSCDCFTNLELINQEKDILEALKWDTEAVLATDFLIPLCNALKIPEDLWPQL 173 (254)
T ss_dssp -HHHHHHHHHHHHHHHCSSCCCHHHHSTTC---CCHHHHHHHHHHHHHHTTTCCCCCCGGGSHHHHHHHTTCCGGGHHHH
T ss_pred -cHHHHHHHHHHHHhcccCCCCHHHHHHHhCCCCCHHHHHHHHHHHHHHCCCcCCCCCHHHHHHHHHHHcCCChhhHHHH
Confidence 9999999999999999988877 9999999999999999999999999887543221 12
Q ss_pred HHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccch-hh---h---HhhcCCChhhHHHHHHHHHHHHHhh
Q 046440 170 LPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQ-AL---E---SCCGFLEVGDVSTCYSIMQKLEMEK 238 (284)
Q Consensus 170 ~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~-~~---~---~~~~~~~~~~l~~C~~~m~~l~~~~ 238 (284)
...+.++++.++.++.|++|+||.||+|||++|+......+ .| . ..++||++++|.+|++.|.+++.+.
T Consensus 174 ~~~a~~ll~~~l~d~~~~~~~PS~iAaAai~la~~~~~~~~~~w~~~~~~l~~~tg~~~~~l~~c~~~i~~~~~~~ 249 (254)
T 2f2c_A 174 YEAASTTICKALIQPNIALLSPGLICAGGLLTTIETDNTNCRPWTCYLEDLSSILNFSTNTVRTVKDQVSEAFSLY 249 (254)
T ss_dssp HHHHHHHHHHHTTSGGGTTSCHHHHHHHHHHHHHHTTCCSSCCTHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHcCcchhccCHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHhC
Confidence 34577888999999999999999999999999997642211 12 2 4678999999999999999998654
No 6
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ...
Probab=100.00 E-value=9.3e-40 Score=292.64 Aligned_cols=203 Identities=18% Similarity=0.187 Sum_probs=180.6
Q ss_pred CCChHHHHHHHHHHhhccCCCCCCCCccccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCc
Q 046440 28 VEDEDEYVNTLGDKEISFGFKRGETDKSVMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDK 107 (284)
Q Consensus 28 ~~~~~e~l~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~ 107 (284)
.+|.+|++++|+++|.++. |..+|+..++++++.||.++++||.+|+..|++.++|+++|++|+|||++...+++.+
T Consensus 4 ~eY~~di~~~l~~~E~~~~---p~~~y~~~q~~i~~~~R~~lvdwl~~v~~~~~l~~~tl~lAv~~lDRfls~~~v~~~~ 80 (260)
T 2cch_B 4 PDYHEDIHTYLREMEVKCK---PKVGYMKKQPDITNSMRAILVDWLVEVGEEYKLQNETLHLAVNYIDRFLSSMSVLRGK 80 (260)
T ss_dssp CTTHHHHHHHHHHHHHHTC---CCTTGGGGCSSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCCCHHH
T ss_pred HhHHHHHHHHHHHHHhhcC---CCchhhhcCCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccCCCCHHH
Confidence 4799999999999999974 4467887788999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCc
Q 046440 108 LWAIKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPS 167 (284)
Q Consensus 108 l~~~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~ 167 (284)
+ |++|+|||+||||+||..+|.+ +.||++|+|+++.|||++|+.+|+..++.++ .
T Consensus 81 l---qlv~~acl~iA~K~ee~~~~~~~d~~~i~~~~~~~~~i~~mE~~iL~~L~~~l~~~tp~~fl~~~~~~l~~~~--~ 155 (260)
T 2cch_B 81 L---QLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLTFDLAAPTVNQFLTQYFLHQQPAN--C 155 (260)
T ss_dssp H---HHHHHHHHHHHHHHHCSSCCCHHHHHHHTTSSSCHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHTTCSSCC--H
T ss_pred H---hHHHHHHHHHHHHhcccCCCCHHHHHHHHcCCcCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHcCCCh--H
Confidence 9 9999999999999999988877 8999999999999999999999998876432 2
Q ss_pred chHHHHHHHHHHHHchhh-hcCCCHHHHHHHHHHHHHhhhccchhhh---HhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 168 NVLPRTVALILAIMREIN-LMEHRPSAIAVAATLVAFDQKLTRQALE---SCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 168 ~~~~~~~~~l~~~l~d~~-~l~~~PS~iAaAai~~A~~~~~~~~~~~---~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
.+...++++++.++.++. |+.|+||.||+|||++|...... +.|. ..++||++++|.+|++.|.+++....
T Consensus 156 ~~~~~a~~l~e~sl~~~~~~~~~~Ps~iAaAai~lA~~~~~~-~~w~~~l~~~~g~~~~~i~~~~~~l~~~~~~~~ 230 (260)
T 2cch_B 156 KVESLAMFLGELSLIDADPYLKYLPSVIAGAAFHLALYTVTG-QSWPESLIRKTGYTLESLKPCLMDLHQTYLKAP 230 (260)
T ss_dssp HHHHHHHHHHHHHHHCHHHHTTSCHHHHHHHHHHHHHHHHHS-CCSCHHHHHHHCCCHHHHHHHHHHHHHHHHHGG
T ss_pred HHHHHHHHHHHHHHHhHHHHhCCCHHHHHHHHHHHHHHHhCC-CcchHHHHHHhCcCHHHHHHHHHHHHHHHHhcC
Confidence 456678888999999999 99999999999999999865432 3333 46789999999999999999987644
No 7
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1
Probab=100.00 E-value=1.6e-38 Score=288.09 Aligned_cols=200 Identities=15% Similarity=0.191 Sum_probs=173.8
Q ss_pred CCChHHHHHHHHHHhhccCCCCCCCCccccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcC-CccCCC
Q 046440 28 VEDEDEYVNTLGDKEISFGFKRGETDKSVMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLST-RFIDSD 106 (284)
Q Consensus 28 ~~~~~e~l~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~-~~i~~~ 106 (284)
-+|++|++++|+++|.+|.+ ..+|+..++++++.||.++++||.+|+..+++.++|+++||+|||||++. ..+.+.
T Consensus 15 ~~y~~~i~~~l~~~E~~~~~---~~~y~~~q~~i~~~~R~~lv~wl~~v~~~~~l~~~tl~lAv~~lDRfls~~~~v~~~ 91 (283)
T 1w98_B 15 WANREEVWKIMLNKEKTYLR---DQHFLEQHPLLQPKMRAILLDWLMEVCEVYKLHRETFYLAQDFFDRYMATQENVVKT 91 (283)
T ss_dssp SSCHHHHHHHHHHHTTTSCC---CTTGGGGCTTCCHHHHHHHHHHHHHHHHHTTCBHHHHHHHHHHHHHHHHHCCCCCGG
T ss_pred hcCHHHHHHHHHHHHHHhCC---CchhhccCCCCCHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHhCCCCCHH
Confidence 47889999999999999754 46677777899999999999999999999999999999999999999998 688888
Q ss_pred chhhHHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCC
Q 046440 107 KLWAIKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSP 166 (284)
Q Consensus 107 ~l~~~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~ 166 (284)
++ ||+|+|||+||||+||..+|.+ +.||++|+|+++.|||++||.+|+..++.++..
T Consensus 92 ~l---qlv~~acL~iA~K~eE~~~p~l~~~~~i~~~~~~~~ei~~mE~~IL~~L~~~l~~~tp~~fL~~f~~~~~~~~~~ 168 (283)
T 1w98_B 92 LL---QLIGISSLFIAAKLEEIYPPKLHQFAYVTDGACSGDEILTMELMIMKALKWRLSPLTIVSWLNVYMQVAYLNDLH 168 (283)
T ss_dssp GH---HHHHHHHHHHHHHHHCSSCCCHHHHHHTTTTSSCHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHHHHTCCSSC
T ss_pred HH---HHHHHHHHHHHHHhcccCCCcHHHHHHHHcCCCCHHHHHHHHHHHHHHcCCcCCCCCHHHHHHHHHHHhccCchh
Confidence 88 9999999999999999988876 999999999999999999999999987654321
Q ss_pred c--------chHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhhHhhcCCChhhHHHHHHHHHHHHHhh
Q 046440 167 S--------NVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALESCCGFLEVGDVSTCYSIMQKLEMEK 238 (284)
Q Consensus 167 ~--------~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~~~~~~~l~~C~~~m~~l~~~~ 238 (284)
. .....+.++++.++.++.|++|+||.||||||++|.. .......+||++++|.+|++.|..++..-
T Consensus 169 ~~~~~~~~~~~~~~~~~llelsl~d~~~l~~~PS~iAaAai~la~~-----~~~l~~~tg~~~~~i~~c~~~l~~~~~~~ 243 (283)
T 1w98_B 169 EVLLPQYPQQIFIQIAELLDLCVLDVDCLEFPYGILAASALYHFSS-----SELMQKVSGYQWCDIENCVKWMVPFAMVI 243 (283)
T ss_dssp CSSSCCSCHHHHHHHHHHHHHHHHSGGGGGSCHHHHHHHHHHHTSC-----HHHHHHHSCCCHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHhhhHHHHHHHHHHHHHHHhhhhhhcCCHHHHHHHHHHHHHC-----hHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 1 1223456688889999999999999999999999963 22234789999999999999999987754
No 8
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B*
Probab=100.00 E-value=6.5e-39 Score=288.56 Aligned_cols=201 Identities=16% Similarity=0.155 Sum_probs=175.8
Q ss_pred CCChHHHHHHHHHHhhccCCCCCCCCccccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCc
Q 046440 28 VEDEDEYVNTLGDKEISFGFKRGETDKSVMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDK 107 (284)
Q Consensus 28 ~~~~~e~l~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~ 107 (284)
.+|.+|++++|+++|.++.+ ..+|+..+ ++++.||.++++||.+|+..|++.++|+++|++|+|||++...+++.+
T Consensus 4 ~eY~~di~~~l~~~E~~~~~---~~~y~~~q-~i~~~~R~~lv~wl~~v~~~~~l~~~tl~lAv~~lDRfl~~~~v~~~~ 79 (269)
T 2b9r_A 4 SEYVKDIYAYLRQLEAAQAV---RPKYLLGR-EVTGNMRAILIDWLVQVQMKFRLLQETMYMTVSIIDRFMQNNSVPKKM 79 (269)
T ss_dssp ---CCTTTTTHHHHHHTTCC---CTTTTSSS-SSCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHTTSCCCGGG
T ss_pred HHHHHHHHHHHHHHHHhhCC---CcccccCC-CCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCcHHH
Confidence 36889999999999999754 35666554 999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCc
Q 046440 108 LWAIKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPS 167 (284)
Q Consensus 108 l~~~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~ 167 (284)
+ |++|+||||||||+||..+|.+ +.||++|+|+++.|||++|+.+|+...+.+ .
T Consensus 80 l---qlv~~acL~iA~K~eE~~~p~~~d~~~~~~~~~~~~eI~~mE~~IL~~L~f~l~~~tp~~fl~~~~~~~~~~---~ 153 (269)
T 2b9r_A 80 L---QLVGVTAMFIASKYEEMYPPEIGDFAFVTDNTYTKHQIRQMEMKILRALNFGLGRPLPLHFLRRASKIGEVD---V 153 (269)
T ss_dssp H---HHHHHHHHHHHHHHHCSSCCCHHHHHHHTCSSSCHHHHHHHHHHHHHHTTSCCCCCCHHHHHHHHHHSSCCC---H
T ss_pred h---hHHHHHHHHHHHhcccccCccHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHhcCCC---H
Confidence 9 9999999999999999988876 899999999999999999999998875532 3
Q ss_pred chHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh---HhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 168 NVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE---SCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 168 ~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~---~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
++...++++++.++.++.|+.|+||.||+|||++|+...... .|. ..++||++++|.+|++.|.+++....
T Consensus 154 ~~~~~a~~l~e~sl~~~~~~~~~Ps~iAaAai~lA~~~l~~~-~w~~~l~~~tg~~~~~l~~~~~~l~~~~~~~~ 227 (269)
T 2b9r_A 154 EQHTLAKYLMELTMLDYDMVHFPPSQIAAGAFSLALKILDNG-EWTPTLQHYLSYTEESLLPVMQHLAKNVVMVN 227 (269)
T ss_dssp HHHHHHHHHHHHGGGCGGGSSSCTTHHHHHHHHHHHHHHTCC-CSCTTHHHHSCCCSSTTTTHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHhhhhhhcCCHHHHHHHHHHHHHHHhCCC-CCCHHHHHHHCCCHHHHHHHHHHHHHHHHHhc
Confidence 456678889999999999999999999999999998654332 343 46889999999999999999887654
No 9
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1
Probab=99.97 E-value=2.9e-31 Score=236.84 Aligned_cols=176 Identities=14% Similarity=0.152 Sum_probs=150.8
Q ss_pred cChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH------
Q 046440 60 DDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG------ 133 (284)
Q Consensus 60 ~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------ 133 (284)
+....+|..+++||.+++..++++++|+++|++|||||++.+++.+.++ |++|+||||||||+||.. +.+
T Consensus 35 ~~e~~~R~~~~~~i~~v~~~l~l~~~t~~~A~~~~dRf~~~~~~~~~~~---qlv~~acL~lA~K~eE~~-~~l~d~~~~ 110 (258)
T 2i53_A 35 ATEARYRREGARFIFDVGTRLGLHYDTLATGIIYFHRFYMFHSFKQFPR---YVTGACCLFLAGKVEETP-KKCKDIIKT 110 (258)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTSCTTTSCH---HHHHHHHHHHHHHHTTCC-CCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCChhhcCH---HHHHHHHHHHHHcccccc-ccHHHHHHH
Confidence 4567899999999999999999999999999999999999999999999 999999999999999953 221
Q ss_pred -------------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCC-cchHHHHHHHHHHHHchhhhc
Q 046440 134 -------------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSP-SNVLPRTVALILAIMREINLM 187 (284)
Q Consensus 134 -------------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~-~~~~~~~~~~l~~~l~d~~~l 187 (284)
+.||++|+|++++|||++|+.+|+..++.+... .++...++++++.++.+..++
T Consensus 111 ~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~l~~~~P~~fl~~~~~~l~~~~~~~~~~~~~A~~l~~~s~~~~~~l 190 (258)
T 2i53_A 111 ARSLLNDVQFGQFGDDPKEEVMVLERILLQTIKFDLQVEHPYQFLLKYAKQLKGDKNKIQKLVQMAWTFVNDSLCTTLSL 190 (258)
T ss_dssp HHHHSCHHHHGGGCSCHHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHHTBCSCHHHHHHHHHHHHHHHHHHTTTTGGG
T ss_pred HHHHhchhhhhhhhhhHHHHHHHHHHHHHHHCCCceeccChHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHcCCchh
Confidence 779999999999999999999999887653211 256778899999999999999
Q ss_pred CCCHHHHHHHHHHHHHhhhcc-c---------hhhhH-hhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 188 EHRPSAIAVAATLVAFDQKLT-R---------QALES-CCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 188 ~~~PS~iAaAai~~A~~~~~~-~---------~~~~~-~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
.|+||.||+|||++|...... . ..|.. ..++++.++|.+|++.|.++|....
T Consensus 191 ~~~Ps~IAaAai~lA~~~~~~~~~~~~~~~~~~~W~~~~~~~~~~~~l~~~~~~il~ly~~~~ 253 (258)
T 2i53_A 191 QWEPEIIAVAVMYLAGRLCKFEIQEWTSKPMYRRWWEQFVQDVPVDVLEDICHQILDLYSQGK 253 (258)
T ss_dssp TSCHHHHHHHHHHHHHHHHTCCGGGGBSSCCSSCGGGGTSSSCCHHHHHHHHHHHHTTTSSSC
T ss_pred ccChHHHHHHHHHHHHHHhCCCCCccccCCCcccHHHHhccCCCHHHHHHHHHHHHHHHhccc
Confidence 999999999999999864421 1 12432 2468999999999999999987654
No 10
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B*
Probab=99.97 E-value=2.7e-30 Score=230.60 Aligned_cols=171 Identities=12% Similarity=0.097 Sum_probs=146.5
Q ss_pred ChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-------
Q 046440 61 DIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG------- 133 (284)
Q Consensus 61 ~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------- 133 (284)
....+|..+++||.+++..|+++++|+++|++|||||++.+++.+.++ |++|+||||||||+||. ++.+
T Consensus 26 ~e~~~R~~~~~~i~~v~~~l~l~~~t~~~A~~~~dRf~~~~~~~~~~~---qlv~~acL~lA~K~EE~-p~~l~d~~~~~ 101 (257)
T 2ivx_A 26 KELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNK---NIISSTALFLAAKVEEQ-ARKLEHVIKVA 101 (257)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTSCTTTSCH---HHHHHHHHHHHHHHTTC-CCCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhCChhhhCH---HHHHHHHHHHHhccccC-CcCHHHHHHHH
Confidence 345899999999999999999999999999999999999999999999 99999999999999997 3322
Q ss_pred -----------------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHc-h
Q 046440 134 -----------------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMR-E 183 (284)
Q Consensus 134 -----------------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~-d 183 (284)
+.||++|+|++++|||+.|+..|+..++.. .++...+++++..++. +
T Consensus 102 ~~~~~~~~~~~~~~~~~y~~~~~~I~~~E~~iL~~L~f~l~~~~P~~fl~~~~~~l~~~---~~~~~~A~~~~~~sl~~~ 178 (257)
T 2ivx_A 102 HACLHPLEPLLDTKCDAYLQQTRELVILETIMLQTLGFEITIEHPHTDVVKCTQLVRAS---KDLAQTSYFMATNSLHLT 178 (257)
T ss_dssp HHHHCTTSCCCCTTSHHHHHHHHHHHHHHHHHHHHTTTCCCCCCHHHHHHHHHHHTTCC---HHHHHHHHHHHHHHHHHC
T ss_pred HHHhccCCCCCCcchHHHHHHHHHHHHHHHHHHHHcccceEeeCcHHHHHHHHHHhCCC---cHHHHHHHHHHHhhhhcc
Confidence 689999999999999999999999988643 4567778889888875 4
Q ss_pred hhhcCCCHHHHHHHHHHHHHhhhc---cc----hhhhH-hhcCCChhhHHHHHHHHHHHHHhh
Q 046440 184 INLMEHRPSAIAVAATLVAFDQKL---TR----QALES-CCGFLEVGDVSTCYSIMQKLEMEK 238 (284)
Q Consensus 184 ~~~l~~~PS~iAaAai~~A~~~~~---~~----~~~~~-~~~~~~~~~l~~C~~~m~~l~~~~ 238 (284)
..++.|+||.||+|||++|..... +. ..|.. ...+|+.++|.+|++.|.+++...
T Consensus 179 ~~~l~~~Ps~IAaAai~lA~~~~~~~~p~~~~~~~W~~~~~~~~~~~~l~~~~~~i~~~~~~~ 241 (257)
T 2ivx_A 179 TFCLQYKPTVIACVCIHLACKWSNWEIPVSTDGKHWWEYVDPTVTLELLDELTHEFLQILEKT 241 (257)
T ss_dssp CGGGTSCHHHHHHHHHHHHHHHHTCCCCCCTTCCCGGGGTCSSCCHHHHHHHHHHHHHHHHTS
T ss_pred cHHHcCCHHHHHHHHHHHHHHHhCCCCCCCCCCchHHHHhCCCCCHHHHHHHHHHHHHHHHhC
Confidence 458999999999999999986432 11 23543 345799999999999999998643
No 11
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens}
Probab=99.97 E-value=4.4e-30 Score=232.78 Aligned_cols=171 Identities=15% Similarity=0.107 Sum_probs=152.1
Q ss_pred hHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH--------
Q 046440 62 IKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG-------- 133 (284)
Q Consensus 62 ~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~-------- 133 (284)
...+|..+++||.+++..+++.++|+++|++|||||++.+++.+.++ |++|+||||||||+||+.+|.+
T Consensus 39 e~~~R~~~~~~I~~v~~~l~L~~~t~~tA~~~~~RF~~~~s~~~~~~---~lva~acLfLA~K~EE~~~~~~~di~~~~~ 115 (285)
T 3rgf_B 39 YWKLQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDP---VLMAPTCVFLASKVEEFGVVSNTRLIAAAT 115 (285)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHSCTTTSCH---HHHHHHHHHHHHHHTTSCCCCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHhCCchhcCH---HHHHHHHHHHHHhhhccccccHHHHHHHHH
Confidence 34799999999999999999999999999999999999999999999 9999999999999999976521
Q ss_pred --------------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhc
Q 046440 134 --------------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLM 187 (284)
Q Consensus 134 --------------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l 187 (284)
+.||++|+|+++++||++||..|+..++.. ..+...++++++.++.+..++
T Consensus 116 ~~~k~~~~~~~~~~~~~~~~~Il~~E~~iL~~L~f~l~v~~P~~fL~~~~~~l~~~---~~~~~~A~~~l~~sl~t~~~l 192 (285)
T 3rgf_B 116 SVLKTRFSYAFPKEFPYRMNHILECEFYLLELMDCCLIVYHPYRPLLQYVQDMGQE---DMLLPLAWRIVNDTYRTDLCL 192 (285)
T ss_dssp HHHHHHCTTTCCSCCCCCHHHHHHHHHHHHHHTTTCCCCCCSHHHHHHHHHHHTCH---HHHHHHHHHHHHHHTTSSHHH
T ss_pred HHHcccccccCchhhHHHHHHHHHHHHHHHHHcCCCeEeCChHHHHHHHHHHhCCC---HHHHHHHHHHHHHHHccChhh
Confidence 679999999999999999999999998743 456788999999999999999
Q ss_pred CCCHHHHHHHHHHHHHhhhcc-chhhhHhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 188 EHRPSAIAVAATLVAFDQKLT-RQALESCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 188 ~~~PS~iAaAai~~A~~~~~~-~~~~~~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
.|+||.||+|||++|...... ...|.. ..+++.++|.+|+..|.++|....
T Consensus 193 ~~~Ps~IAaAaiylA~~~~~~~~~~W~~-~~~~~~~~l~~~~~~il~ly~~~~ 244 (285)
T 3rgf_B 193 LYPPFMIALACLHVACVVQQKDARQWFA-ELSVDMEKILEIIRVILKLYEQWK 244 (285)
T ss_dssp HSCHHHHHHHHHHHHHHHTTCCCHHHHH-TSCSCHHHHHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHHHHHcCCChhhHHH-HHCCCHHHHHHHHHHHHHHHHhcc
Confidence 999999999999999865432 355653 458999999999999999998743
No 12
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe}
Probab=99.97 E-value=1.1e-29 Score=224.02 Aligned_cols=168 Identities=13% Similarity=0.105 Sum_probs=146.5
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCC-CchhhHHHHHHHHHHHHHhhhhcCCcc------------
Q 046440 66 RLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDS-DKLWAIKLLSVACVSVAAKMEECNSEN------------ 132 (284)
Q Consensus 66 R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~-~~l~~~qLla~acL~IAsK~eE~~~p~------------ 132 (284)
|..+++||.+++..++++++|+++|++|||||++.+++.+ .++ |++|+||||||||+||..++.
T Consensus 28 R~~~~~~i~~v~~~l~L~~~t~~~A~~~~~Rf~~~~~~~~~~~~---~lv~~acL~lA~K~Ee~~~~l~d~~~~~~~~~~ 104 (235)
T 1zp2_A 28 TIYQWKVVQTFGDRLRLRQRVLATAIVLLRRYMLKKNEEKGFSL---EALVATCIYLSCKVEECPVHIRTICNEANDLWS 104 (235)
T ss_dssp HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCSCCCCCH---HHHHHHHHHHHHHHTTCCCCHHHHHHHHHTTCC
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccccCH---HHHHHHHHHHHhccccCcccHHHHHHHHHHHcc
Confidence 9999999999999999999999999999999999999999 999 999999999999999964321
Q ss_pred ----H---------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHH
Q 046440 133 ----G---------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAAT 199 (284)
Q Consensus 133 ----~---------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai 199 (284)
. +.||++|+|++.++||+.||..|+..++.+ .++...+++++..++.+..++.|+||.||+|||
T Consensus 105 ~~~~~~~~~I~~~E~~iL~~L~f~l~~~~P~~~l~~~~~~~~~~---~~~~~~A~~~l~~s~~~~~~l~~~Ps~IAaAai 181 (235)
T 1zp2_A 105 LKVKLSRSNISEIEFEIISVLDAFLIVHHPYTSLEQAFHDGIIN---QKQLEFAWSIVNDSYASSLCLMAHPHQLAYAAL 181 (235)
T ss_dssp CSSCCCHHHHHHHHHHHHHHTTTCCCCCCTHHHHHHHHHTTSSC---HHHHHHHHHHHHHHTTTTGGGTSCHHHHHHHHH
T ss_pred chhhccHHHHHHHHHHHHHHCCCcEEecChHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHcCCchhccCHHHHHHHHH
Confidence 0 889999999999999999999999876432 456788999999999999999999999999999
Q ss_pred HHHHhhhccc-hhhhHhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 200 LVAFDQKLTR-QALESCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 200 ~~A~~~~~~~-~~~~~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
++|....... +.+..++.+++.++|.+|++.|.++|....
T Consensus 182 ~lA~~~~~~~~~~~~~~~~~~~~~~i~~~~~~i~~ly~~~~ 222 (235)
T 1zp2_A 182 LISCCNDENTIPKLLDLIKSTDAFKVILCVQRIISIYYFED 222 (235)
T ss_dssp HHHHTSCTTHHHHHHHHCCHHHHHHHHHHHHHHHHHHTSSS
T ss_pred HHHHHhcCCCCCCCcchhhcCCHHHHHHHHHHHHHHHhhCC
Confidence 9998644321 223334558999999999999999988654
No 13
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C
Probab=99.96 E-value=4.4e-30 Score=239.58 Aligned_cols=172 Identities=11% Similarity=0.068 Sum_probs=146.1
Q ss_pred ChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-------
Q 046440 61 DIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG------- 133 (284)
Q Consensus 61 ~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------- 133 (284)
....||..+++||.+|+..|++.++|+++|++|||||++.+.+.+.++ |++|+||||||||+||.. +.+
T Consensus 33 ~E~~~R~~~v~wI~ev~~~l~L~~~t~~tAv~~~dRFl~~~sv~~~~~---qlva~acLfLA~K~EE~p-~~l~d~v~v~ 108 (358)
T 2pk2_A 33 KELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTRFPG---NSVAPAALFLAAKVEEQP-KKLEHVIKVA 108 (358)
T ss_dssp HHHHHHHHHHHHHHHHHTTTTCCHHHHHHHHHHHHHHTTTSCTTTSCH---HHHHHHHHHHHHHHTTCC-CCHHHHHTTH
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcccccH---HHHHHHHHHHHHhhccCC-CCHHHHHHHH
Confidence 345899999999999999999999999999999999999999999999 999999999999999973 211
Q ss_pred -----------------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHch-
Q 046440 134 -----------------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMRE- 183 (284)
Q Consensus 134 -----------------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d- 183 (284)
+.||++|+|+++++||+.||..|+..++.. .++...++++++.++.+
T Consensus 109 ~~~~~~~~~~~~~~~~~y~~~~~~Il~~E~~IL~~L~f~L~v~~P~~fL~~~~~~l~~~---~~l~~~A~~ll~~sl~~t 185 (358)
T 2pk2_A 109 HTCLHPQESLPDTRSEAYLQQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRAS---KDLAQTSYFMATNSLHLT 185 (358)
T ss_dssp HHHHCSSSCCCCTTSHHHHGGGTGGGTHHHHHHHHTTTCCCCCCTTHHHHHHHHHTTCC---HHHHHHHHHHHHHHTTTS
T ss_pred HHHhccccccccccchhhhHHHHHHHHHHHHHHHHcCCceeCCCHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHhcC
Confidence 689999999999999999999999987643 45677888899888854
Q ss_pred hhhcCCCHHHHHHHHHHHHHhhhc---cc----hhhhH-hhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 184 INLMEHRPSAIAVAATLVAFDQKL---TR----QALES-CCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 184 ~~~l~~~PS~iAaAai~~A~~~~~---~~----~~~~~-~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
..++.|+||.||+|||++|..... +. ..|.. ...+|+.++|.+|+..|.++|....
T Consensus 186 ~l~l~y~Ps~IAaAAI~lA~~~l~~~~p~~~~~~~W~~~~~~~vt~~~l~~i~~~il~~y~~~~ 249 (358)
T 2pk2_A 186 TFSLQYTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDATVTLELLDELTHEFLQILEKTP 249 (358)
T ss_dssp CGGGTSCHHHHTTTTTTTHHHHTTCCCCCCSSSCCTTTTSCSSCCHHHHHHHHHHHHHHTTTCT
T ss_pred cchhccCHHHHHHHHHHHHHHHhCCCCCCCccccchHHHHhccCCHHHHHHHHHHHHHHHHhCc
Confidence 448999999999999999986542 11 23543 2347899999999999999986543
No 14
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A
Probab=99.96 E-value=2.1e-28 Score=225.43 Aligned_cols=174 Identities=14% Similarity=0.099 Sum_probs=147.4
Q ss_pred hHHHHHHHHHHHHHHHHHcC--CChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCc--------
Q 046440 62 IKCARLEAIAWILNTRAVFG--FRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSE-------- 131 (284)
Q Consensus 62 ~~~~R~~lvdWl~~v~~~~~--l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p-------- 131 (284)
...+|...++||.++|..|+ +.++|+++|++|||||++.+++.+.++ |++|+||||||||+||..++
T Consensus 53 E~~lr~~~~~~I~ev~~~l~~~Lp~~t~~tA~~~~~RF~~~~s~~~~~~---~lva~acLfLA~K~EE~~~~l~d~v~~~ 129 (323)
T 1jkw_A 53 EMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEYHP---RIIMLTCAFLACKVDEFNVSSPQFVGNL 129 (323)
T ss_dssp HHHHHHHHHHHHHHHHHHCTTTCCHHHHHHHHHHHHHHGGGSCTTTSCH---HHHHHHHHHHHHHHTTCCCCHHHHGGGS
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhhhCChhhcCH---HHHHHHHHHHHHhhhcCCCCHHHHHHHh
Confidence 35689999999999999999 999999999999999999999999999 99999999999999997421
Q ss_pred --c----------H----HHHHHHcCCcccCCChHHHHHHHHHHhcC----CCCCcchHHHHHHHHHHHHchhhhcCCCH
Q 046440 132 --N----------G----AHVINNNGLENGINHSISFLHHFIRKFCK----DSSPSNVLPRTVALILAIMREINLMEHRP 191 (284)
Q Consensus 132 --~----------~----~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~----~~~~~~~~~~~~~~l~~~l~d~~~l~~~P 191 (284)
. + +.||++|+|+++++||+.||..|+..+.. .+....+...+++++..++.+..++.|+|
T Consensus 130 ~~~p~~~~~~~~~Il~~E~~iL~~L~f~l~v~~P~~~L~~~l~~l~~~~~~~~~~~~l~~~A~~~l~~sl~t~~~l~~~P 209 (323)
T 1jkw_A 130 RESPLGQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPILENPEILRKTADDFLNRIALTDAYLLYTP 209 (323)
T ss_dssp SSCHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHTTSTHHHHSCH
T ss_pred ccChhhhHHHHHHHHHHHHHHHHHCCCcEEcCChHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhccHHHcCCH
Confidence 1 0 89999999999999999999999977631 11224566788999999999999999999
Q ss_pred HHHHHHHHHHHHhhhcc-chhhhHhh-----cCCChhhHHHHHHHHHHHHHhh
Q 046440 192 SAIAVAATLVAFDQKLT-RQALESCC-----GFLEVGDVSTCYSIMQKLEMEK 238 (284)
Q Consensus 192 S~iAaAai~~A~~~~~~-~~~~~~~~-----~~~~~~~l~~C~~~m~~l~~~~ 238 (284)
|.||+|||++|...... .+.|...+ ++++.++|.+|+..|..++...
T Consensus 210 s~IAaAai~lA~~~~~~~~~~w~~~l~~~~~~~~~~~~l~~~~~~i~~l~~~~ 262 (323)
T 1jkw_A 210 SQIALTAILSSASRAGITMESYLSESLMLKENRTCLSQLLDIMKSMRNLVKKY 262 (323)
T ss_dssp HHHHHHHHHHHHHHHSCCCTTHHHHHTTSCSSSCCTHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHhccccccccHHHHHHHHHHHHHHHHcc
Confidence 99999999999865432 24455322 4678999999999999999864
No 15
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A*
Probab=99.89 E-value=2.9e-22 Score=172.99 Aligned_cols=167 Identities=10% Similarity=0.129 Sum_probs=144.1
Q ss_pred HHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-----------
Q 046440 65 ARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG----------- 133 (284)
Q Consensus 65 ~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~----------- 133 (284)
......+||.+++..+++++.|+..|+.||+||+..+.+...+. +++|+||||||||+||. ++.+
T Consensus 4 ~l~~a~~~I~~~~~~L~L~~~v~~~A~~~~~r~~~~~~~~~~~~---~~v~aaclylAcK~ee~-p~~l~di~~~~~~~~ 79 (207)
T 1c9b_A 4 AMMNAFKEITTMADRINLPRNIVDRTNNLFKQVYEQKSLKGRAN---DAIASACLYIACRQEGV-PRTFKEICAVSRISK 79 (207)
T ss_dssp GHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTCSTTSCH---HHHHHHHHHHHHHHTTC-CCCHHHHHHTSSSCH
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcCCCCH---HHHHHHHHHHHHHhcCC-CCCHHHHHHHHCCCH
Confidence 46688999999999999999999999999999999999999999 99999999999999997 4444
Q ss_pred -------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhh
Q 046440 134 -------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQK 206 (284)
Q Consensus 134 -------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~ 206 (284)
+.|++.|+|++..++|+.|+..|...++.+ .++...+++++..++.+.-++.++|+.||+|||++|....
T Consensus 80 ~~i~~~~~~ll~~L~~~l~~~~p~~~l~r~~~~l~l~---~~~~~~A~~i~~~~~~~~l~~g~~P~~IAaAaiylA~~~~ 156 (207)
T 1c9b_A 80 KEIGRCFKLILKALETSVDLITTGDFMSRFCSNLCLP---KQVQMAATHIARKAVELDLVPGRSPISVAAAAIYMASQAS 156 (207)
T ss_dssp HHHHHHHHHHHHHTTCCCCCCCTHHHHHHHHHHTTCC---HHHHHHHHHHHHHHHHTTCSTTCCHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHHHHHCCCcCcCCHHHHHHHHHHHCCCC---HHHHHHHHHHHHHHHHcCccCCCChHHHHHHHHHHHHHHH
Confidence 899999999999999999999999988754 3566788889888888888899999999999999998644
Q ss_pred ccc---hhhhHhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 207 LTR---QALESCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 207 ~~~---~~~~~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
... ..+ ....++++..|..|++.|.+......
T Consensus 157 ~~~~~~~~i-~~~~~v~~~tI~~~~~~l~~~l~~~~ 191 (207)
T 1c9b_A 157 AEKRTQKEI-GDIAGVADVTIRQSYRLIYPRAPDLF 191 (207)
T ss_dssp SSCCCHHHH-HHHHTCCHHHHHHHHHHHGGGHHHHS
T ss_pred CCCCCHHHH-HHHhCCCHHHHHHHHHHHHHHHHHhC
Confidence 222 223 36789999999999999988555433
No 16
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B*
Probab=99.80 E-value=2.4e-18 Score=147.49 Aligned_cols=164 Identities=11% Similarity=0.095 Sum_probs=142.2
Q ss_pred HHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-----------
Q 046440 65 ARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG----------- 133 (284)
Q Consensus 65 ~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~----------- 133 (284)
......++|.+++..+++++.+...|..|++||+....+..... +.++++|+++|||.||. +..+
T Consensus 8 ~l~~a~~~I~~~~~~L~L~~~v~~~A~~l~~~~~~~~~~~gr~~---~~vaaAclylAcr~~~~-p~~l~di~~~~~v~~ 83 (200)
T 1ais_B 8 NLAFALSELDRITAQLKLPRHVEEEAARLYREAVRKGLIRGRSI---ESVMAACVYAACRLLKV-PRTLDEIADIARVDK 83 (200)
T ss_dssp CHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTTTTTTCCH---HHHHHHHHHHHHHHHTC-CCCHHHHHHHTTSCH
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhCCCcCCCCH---HHHHHHHHHHHHHHcCC-CCCHHHHHHHHCCCH
Confidence 35689999999999999999999999999999999999988889 99999999999999985 3333
Q ss_pred -------HHHHHHcCCcccC--CChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHh
Q 046440 134 -------AHVINNNGLENGI--NHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFD 204 (284)
Q Consensus 134 -------~~IL~~L~w~l~~--pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~ 204 (284)
+.|++.|+|++.. ++|..|+..|...++.+ .++...+++++..+..+.-+..++|+.||+|||++|..
T Consensus 84 ~~i~~~~~~l~~~L~~~~~~~~~~p~~~i~r~~~~L~l~---~~v~~~A~~i~~~~~~~~~~~gr~P~~iAaAaly~A~~ 160 (200)
T 1ais_B 84 KEIGRSYRFIARNLNLTPKKLFVKPTDYVNKFADELGLS---EKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASL 160 (200)
T ss_dssp HHHHHHHHHHHHHTTCCTTTTCCCGGGGHHHHHHHHTCC---HHHHHHHHHHHHHHHHTTCCTTSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhcccCCcCCCCHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHH
Confidence 8899999999999 99999999999999754 35678899999999888888999999999999999986
Q ss_pred hhccc---hhhhHhhcCCChhhHHHHHHHHHHHHH
Q 046440 205 QKLTR---QALESCCGFLEVGDVSTCYSIMQKLEM 236 (284)
Q Consensus 205 ~~~~~---~~~~~~~~~~~~~~l~~C~~~m~~l~~ 236 (284)
..... +.+ ...+++++..|..|++.|.+...
T Consensus 161 ~~~~~~t~~ei-~~~~~vs~~ti~~~~~~l~~~l~ 194 (200)
T 1ais_B 161 LEGEKRTQREV-AEVARVTEVTVRNRYKELVEKLK 194 (200)
T ss_dssp HTTCCCCHHHH-HHHHTCCHHHHHHHHHHHHHHHT
T ss_pred HhCCCCCHHHH-HHHhCCCHHHHHHHHHHHHHHcC
Confidence 43222 222 46788999999999999988554
No 17
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Probab=99.51 E-value=6.8e-15 Score=136.34 Aligned_cols=162 Identities=9% Similarity=0.013 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-------------
Q 046440 67 LEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG------------- 133 (284)
Q Consensus 67 ~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------------- 133 (284)
..+...|..++..++|+..+.-.|..||.|++....+..... +.+++||||||||.|++. ..+
T Consensus 127 ~~a~~~I~~~~~~L~Lp~~v~d~A~~lyk~~~~~~~~kgr~~---~~vaaAclyiAcR~e~~p-rtl~ei~~~~~v~~ke 202 (345)
T 3k7a_M 127 QAAFAKITMLCDAAELPKIVKDCAKEAYKLCHDEKTLKGKSM---ESIMAASILIGCRRAEVA-RTFKEIQSLIHVKTKE 202 (345)
T ss_dssp HHHHHHHHHHHHHTTCCHHHHTHHHHHHHHHSSSCSSCCCCS---HHHHTTTTTTTSBTTBSS-CCHHHHHHSSSCCSHH
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCcH---HHHHHHHHHHHHHHcCCC-ccHHHHHHHHCCCHHH
Confidence 467889999999999999999999999999999999998899 999999999999998873 333
Q ss_pred -----HHHHHHcC------------CcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHH
Q 046440 134 -----AHVINNNG------------LENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAV 196 (284)
Q Consensus 134 -----~~IL~~L~------------w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAa 196 (284)
+.|++.|+ +.+..++|..|+.+|...++.. .++...|++++..+..+.-+..++|+.||+
T Consensus 203 Igr~~~~l~~~L~~~~~~~~~~~~~~~~~~~~p~~~i~Rf~~~L~l~---~~v~~~A~~i~~~~~~~~l~~Gr~P~~IAa 279 (345)
T 3k7a_M 203 FGKTLNIMKNILRGKSEDGFLKIDTDNMSGAQNLTYIPRFCSHLGLP---MQVTTSAEYTAKKCKEIKEIAGKSPITIAV 279 (345)
T ss_dssp HHHHHHHHHHHHTCC-----------------------------------------------------------------
T ss_pred HHHHHHHHHHHHhhhhccccccccccccCCCCHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHhchhcCCCHHHHHH
Confidence 77888888 9999999999999999988764 345677888888888888888999999999
Q ss_pred HHHHHHHhhhccc---hhhhHhhcCCChhhHHHHHHHHHHHHH
Q 046440 197 AATLVAFDQKLTR---QALESCCGFLEVGDVSTCYSIMQKLEM 236 (284)
Q Consensus 197 Aai~~A~~~~~~~---~~~~~~~~~~~~~~l~~C~~~m~~l~~ 236 (284)
|||++|....... ..+ ....++++..|+.+++.|.+...
T Consensus 280 AaIylAa~~~~~~~t~~eI-a~~~~Vse~TIr~~ykel~~~~~ 321 (345)
T 3k7a_M 280 VSIYLNILLFQIPITAAKV-GQTLQVTEGTIKSGYKILYEHRD 321 (345)
T ss_dssp -------------------------------------------
T ss_pred HHHHHHHHHHCCCCCHHHH-HHHHCCCHHHHHHHHHHHHHHHH
Confidence 9999997543211 122 35678899999999998888664
No 18
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M
Probab=99.04 E-value=4.1e-10 Score=104.10 Aligned_cols=161 Identities=9% Similarity=0.015 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-------------
Q 046440 67 LEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG------------- 133 (284)
Q Consensus 67 ~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------------- 133 (284)
......|.+++..++|+..+.-.|..++.+++....+..... ..++++|+|+|||.++......
T Consensus 127 ~~a~~~I~~~~~~L~Lp~~v~d~A~~lyk~a~~~~~~rGrs~---e~vaAAclYiACR~~~~prtl~eI~~~~~v~~kei 203 (345)
T 4bbr_M 127 QAAFAKITMLCDAAELPKIVKDCAKEAYKLCHDEKTLKGKSM---ESIMAASILIGCRRAEVARTFKEIQSLIHVKTKEF 203 (345)
T ss_dssp THHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTCTTTTTCCH---HHHHHHHHHHHHHHTCCBCCHHHHHHHHTCCTTHH
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccCCCH---HHHHHHHHHHHHHhcCCCccHHHHHHHhCCCHHHH
Confidence 567778899999999999999999999999999988888888 9999999999999987542211
Q ss_pred ----HHHHHHcCCc------------ccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHH
Q 046440 134 ----AHVINNNGLE------------NGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVA 197 (284)
Q Consensus 134 ----~~IL~~L~w~------------l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaA 197 (284)
+.|.+.|+.. +...+|.+|+..|...++.. .++...|.+++..+..+.-...-+|+.||+|
T Consensus 204 gr~~k~l~~~L~l~~~~~~~~~~~~~~~~~~p~~~i~Rf~s~L~l~---~~v~~~A~~i~~~~~~~~i~~GR~P~~IAAA 280 (345)
T 4bbr_M 204 GKTLNIMKNILRGKSEDGFLKIDTDNMSGAQNLTYIPRFCSHLGLP---MQVTTSAEYTAKKCKEIKEIAGKSPITIAVV 280 (345)
T ss_dssp HHHHHHHHHCC---------------------------------------------------------------------
T ss_pred HHHHHHHHHHhCccccccccccccccCCCCCHHHHHHHHHHHcCCc---HHHHHHHHHHHHHHHhcccccCCChHHHHHH
Confidence 7888888864 77889999999999988764 3445566777766666555567899999999
Q ss_pred HHHHHHhhhccchhhh--HhhcCCChhhHHHHHHHHHH
Q 046440 198 ATLVAFDQKLTRQALE--SCCGFLEVGDVSTCYSIMQK 233 (284)
Q Consensus 198 ai~~A~~~~~~~~~~~--~~~~~~~~~~l~~C~~~m~~ 233 (284)
||++|........... ....++++.-|+..++.|.+
T Consensus 281 aIylAa~l~g~~~t~~eIa~v~~Vse~TIr~rykel~~ 318 (345)
T 4bbr_M 281 SIYLNILLFQIPITAAKVGQTLQVTEGTIKSGYKILYE 318 (345)
T ss_dssp --------------------------------------
T ss_pred HHHHHHHHhCCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 9999975332111111 35566777777776665554
No 19
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B*
Probab=97.36 E-value=0.0011 Score=59.15 Aligned_cols=89 Identities=9% Similarity=0.003 Sum_probs=69.0
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCC---ccCCCchhhHHHHHHHHHHHHHhhhhcCCccH------------
Q 046440 69 AIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTR---FIDSDKLWAIKLLSVACVSVAAKMEECNSENG------------ 133 (284)
Q Consensus 69 lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~---~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------------ 133 (284)
+-+|+.++...-+++.+++-.|+.|+||+.... .+..... +-+-++||.+|+|+-+-....-
T Consensus 77 I~~Yl~RI~k~t~ls~~~ll~ALvYLdRL~~~~p~~~l~~~nv---HRLlLtALmlAsK~ldD~~ysN~~wAkVgGisl~ 153 (293)
T 2pmi_B 77 IFNYFIRLTKFSSLEHCVLMTSLYYIDLLQTVYPDFTLNSLTA---HRFLLTATTVATKGLCDSFSTNAHYAKVGGVRCH 153 (293)
T ss_dssp HHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHCTTCCCSTTTH---HHHHHHHHHHHHHHHCSSCCCHHHHHHHHTSCHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhhCCCCccCCchH---HHHHHHHHHHHHHhccccccChhHhhhccCcCHH
Confidence 567899999999999999999999999998742 2344556 8888999999999854332221
Q ss_pred ------HHHHHHcCCcccCCChHHHHHHHHHHhc
Q 046440 134 ------AHVINNNGLENGINHSISFLHHFIRKFC 161 (284)
Q Consensus 134 ------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~ 161 (284)
+..|..|+|+|.+. +-.|..+++...+
T Consensus 154 ELN~LE~eFL~lLdf~L~V~-~ee~~~cy~E~~~ 186 (293)
T 2pmi_B 154 ELNILENDFLKRVNYRIIPR-DHNITLCSIEQKQ 186 (293)
T ss_dssp HHHHHHHHHHHTTTTCCSCC-TTHHHHHHHHSCC
T ss_pred HHHHHHHHHHHHcCCceeeC-HHHHHHHHHHHhh
Confidence 89999999999665 6677777766544
No 20
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B*
Probab=95.61 E-value=0.043 Score=45.86 Aligned_cols=56 Identities=14% Similarity=0.162 Sum_probs=49.4
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcC
Q 046440 71 AWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECN 129 (284)
Q Consensus 71 dWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~ 129 (284)
++|.+.+..++++.++...|..++.+......+..... ..+|+||+++|+++....
T Consensus 110 ~~i~r~~~~L~l~~~v~~~A~~i~~~~~~~~~~~gr~P---~~iAaAaly~A~~~~~~~ 165 (200)
T 1ais_B 110 DYVNKFADELGLSEKVRRRAIEILDEAYKRGLTSGKSP---AGLVAAALYIASLLEGEK 165 (200)
T ss_dssp GGHHHHHHHHTCCHHHHHHHHHHHHHHHHTTCCTTSCH---HHHHHHHHHHHHHHTTCC
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHHcCcccCCCH---HHHHHHHHHHHHHHhCCC
Confidence 57778888999999999999999999998777777888 999999999999986643
No 21
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A*
Probab=94.08 E-value=0.28 Score=41.01 Aligned_cols=85 Identities=15% Similarity=0.236 Sum_probs=61.0
Q ss_pred hHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh--HhhcCCChhhHHH
Q 046440 149 SISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE--SCCGFLEVGDVST 226 (284)
Q Consensus 149 p~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~--~~~~~~~~~~l~~ 226 (284)
...++..+-..++.. ..+...|..++...+....+-.+.+-.||+|||++|.+.......+. ...++++..+|..
T Consensus 8 a~~~I~~~~~~L~L~---~~v~~~A~~~~~r~~~~~~~~~~~~~~v~aaclylAcK~ee~p~~l~di~~~~~~~~~~i~~ 84 (207)
T 1c9b_A 8 AFKEITTMADRINLP---RNIVDRTNNLFKQVYEQKSLKGRANDAIASACLYIACRQEGVPRTFKEICAVSRISKKEIGR 84 (207)
T ss_dssp HHHHHHHHHHHTTCC---HHHHHHHHHHHHHHHHHTCSTTSCHHHHHHHHHHHHHHHTTCCCCHHHHHHTSSSCHHHHHH
T ss_pred HHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHhcCCcCCCCHHHHHHHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHH
Confidence 456677776666643 45566777788877777778889999999999999986543322222 3456688999999
Q ss_pred HHHHHHHHHH
Q 046440 227 CYSIMQKLEM 236 (284)
Q Consensus 227 C~~~m~~l~~ 236 (284)
+...|.+...
T Consensus 85 ~~~~ll~~L~ 94 (207)
T 1c9b_A 85 CFKLILKALE 94 (207)
T ss_dssp HHHHHHHHTT
T ss_pred HHHHHHHHHC
Confidence 9888777544
No 22
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe}
Probab=89.91 E-value=1.6 Score=37.01 Aligned_cols=77 Identities=10% Similarity=0.012 Sum_probs=52.3
Q ss_pred cchHHHHHHHHHHHHchhhhcC-CCHHHHHHHHHHHHHhhhccchhhh---Hhh-------cCCChhhHHHHHHHHHHHH
Q 046440 167 SNVLPRTVALILAIMREINLME-HRPSAIAVAATLVAFDQKLTRQALE---SCC-------GFLEVGDVSTCYSIMQKLE 235 (284)
Q Consensus 167 ~~~~~~~~~~l~~~l~d~~~l~-~~PS~iAaAai~~A~~~~~~~~~~~---~~~-------~~~~~~~l~~C~~~m~~l~ 235 (284)
..+...|..++...+....+.. +.+-.||+|||++|.+.......+. ... ..++.++|..+-..|.+-.
T Consensus 46 ~~t~~~A~~~~~Rf~~~~~~~~~~~~~lv~~acL~lA~K~Ee~~~~l~d~~~~~~~~~~~~~~~~~~~I~~~E~~iL~~L 125 (235)
T 1zp2_A 46 QRVLATAIVLLRRYMLKKNEEKGFSLEALVATCIYLSCKVEECPVHIRTICNEANDLWSLKVKLSRSNISEIEFEIISVL 125 (235)
T ss_dssp HHHHHHHHHHHHHHHHHCCSCCCCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHTTCCCSSCCCHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHhcccccccCHHHHHHHHHHHHhccccCcccHHHHHHHHHHHccchhhccHHHHHHHHHHHHHHC
Confidence 3455667777787777778888 9999999999999986443222222 111 1478899999888887755
Q ss_pred HhhcCCCC
Q 046440 236 MEKYKTPD 243 (284)
Q Consensus 236 ~~~~~~~~ 243 (284)
.-....+.
T Consensus 126 ~f~l~~~~ 133 (235)
T 1zp2_A 126 DAFLIVHH 133 (235)
T ss_dssp TTCCCCCC
T ss_pred CCcEEecC
Confidence 44443333
No 23
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1
Probab=85.06 E-value=2.4 Score=36.36 Aligned_cols=55 Identities=15% Similarity=0.178 Sum_probs=44.5
Q ss_pred HHHHHHHHHcCCCh----HHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhc
Q 046440 71 AWILNTRAVFGFRP----KTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEEC 128 (284)
Q Consensus 71 dWl~~v~~~~~l~~----eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~ 128 (284)
+++......++.+. +...+|.++++.-+.....-.... ..+|+||+++|+++-..
T Consensus 153 ~fl~~~~~~l~~~~~~~~~~~~~A~~l~~~s~~~~~~l~~~P---s~IAaAai~lA~~~~~~ 211 (258)
T 2i53_A 153 QFLLKYAKQLKGDKNKIQKLVQMAWTFVNDSLCTTLSLQWEP---EIIAVAVMYLAGRLCKF 211 (258)
T ss_dssp HHHHHHHHTBCSCHHHHHHHHHHHHHHHHHHTTTTGGGTSCH---HHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHcCCchhccCh---HHHHHHHHHHHHHHhCC
Confidence 56677777888876 578889999988877666777788 99999999999997544
No 24
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M
Probab=83.94 E-value=4.1 Score=36.91 Aligned_cols=86 Identities=9% Similarity=0.028 Sum_probs=56.5
Q ss_pred ChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh--HhhcCCChhhHH
Q 046440 148 HSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE--SCCGFLEVGDVS 225 (284)
Q Consensus 148 Tp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~--~~~~~~~~~~l~ 225 (284)
..+..|..+...++.. ..+...|..++..+...-.+-..+...||||||++|.+.......+. ...++++..+|.
T Consensus 128 ~a~~~I~~~~~~L~Lp---~~v~d~A~~lyk~a~~~~~~rGrs~e~vaAAclYiACR~~~~prtl~eI~~~~~v~~keig 204 (345)
T 4bbr_M 128 AAFAKITMLCDAAELP---KIVKDCAKEAYKLCHDEKTLKGKSMESIMAASILIGCRRAEVARTFKEIQSLIHVKTKEFG 204 (345)
T ss_dssp HHHHHHHHHHHHTTCC---HHHHHHHHHHHHHHTTCTTTTTCCHHHHHHHHHHHHHHHTCCBCCHHHHHHHHTCCTTHHH
T ss_pred HHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHhcCCCccHHHHHHHhCCCHHHHH
Confidence 3444556665555543 34556666666666554445567889999999999986543322222 346679999999
Q ss_pred HHHHHHHHHHH
Q 046440 226 TCYSIMQKLEM 236 (284)
Q Consensus 226 ~C~~~m~~l~~ 236 (284)
.|+..|.+...
T Consensus 205 r~~k~l~~~L~ 215 (345)
T 4bbr_M 205 KTLNIMKNILR 215 (345)
T ss_dssp HHHHHHHHCC-
T ss_pred HHHHHHHHHhC
Confidence 99999887544
No 25
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens}
Probab=81.05 E-value=1.9 Score=37.92 Aligned_cols=53 Identities=15% Similarity=0.103 Sum_probs=42.6
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhh
Q 046440 71 AWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKME 126 (284)
Q Consensus 71 dWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~e 126 (284)
+++...+..++.+.++..+|.+++..-+....+-.... ..||++|+++|+++.
T Consensus 159 ~fL~~~~~~l~~~~~~~~~A~~~l~~sl~t~~~l~~~P---s~IAaAaiylA~~~~ 211 (285)
T 3rgf_B 159 RPLLQYVQDMGQEDMLLPLAWRIVNDTYRTDLCLLYPP---FMIALACLHVACVVQ 211 (285)
T ss_dssp HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSHHHHSCH---HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHccChhhccCH---HHHHHHHHHHHHHHc
Confidence 45566667778888899999999988776665666777 999999999999863
No 26
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Probab=79.59 E-value=1.3 Score=40.30 Aligned_cols=84 Identities=10% Similarity=0.028 Sum_probs=55.5
Q ss_pred HHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh--HhhcCCChhhHHHH
Q 046440 150 ISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE--SCCGFLEVGDVSTC 227 (284)
Q Consensus 150 ~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~--~~~~~~~~~~l~~C 227 (284)
+.+|..+...++.. ..+...|..++..+...-.+-..+.-.||+|||++|.+.......+. ...++++..+|..|
T Consensus 130 ~~~I~~~~~~L~Lp---~~v~d~A~~lyk~~~~~~~~kgr~~~~vaaAclyiAcR~e~~prtl~ei~~~~~v~~keIgr~ 206 (345)
T 3k7a_M 130 FAKITMLCDAAELP---KIVKDCAKEAYKLCHDEKTLKGKSMESIMAASILIGCRRAEVARTFKEIQSLIHVKTKEFGKT 206 (345)
T ss_dssp HHHHHHHHHHTTCC---HHHHTHHHHHHHHHSSSCSSCCCCSHHHHTTTTTTTSBTTBSSCCHHHHHHSSSCCSHHHHHH
T ss_pred HHHHHHHHHHcCCC---HHHHHHHHHHHHHHHhcCcccCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHCCCHHHHHHH
Confidence 34455555555432 33455566666665555555668899999999999986443322222 35667999999999
Q ss_pred HHHHHHHHH
Q 046440 228 YSIMQKLEM 236 (284)
Q Consensus 228 ~~~m~~l~~ 236 (284)
+..|.+...
T Consensus 207 ~~~l~~~L~ 215 (345)
T 3k7a_M 207 LNIMKNILR 215 (345)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHHHh
Confidence 999988655
No 27
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B*
Probab=79.53 E-value=5.3 Score=34.20 Aligned_cols=56 Identities=16% Similarity=0.146 Sum_probs=40.7
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHh-cCCccCCCchhhHHHHHHHHHHHHHhhhhcC
Q 046440 71 AWILNTRAVFGFRPKTAYLSVTYLDRFL-STRFIDSDKLWAIKLLSVACVSVAAKMEECN 129 (284)
Q Consensus 71 dWl~~v~~~~~l~~eT~~lAv~~lDRfl-s~~~i~~~~l~~~qLla~acL~IAsK~eE~~ 129 (284)
+++......++.+.++..+|.+++..-+ .....-.... ..||++|+++|+++-...
T Consensus 148 ~fl~~~~~~l~~~~~~~~~A~~~~~~sl~~~~~~l~~~P---s~IAaAai~lA~~~~~~~ 204 (257)
T 2ivx_A 148 TDVVKCTQLVRASKDLAQTSYFMATNSLHLTTFCLQYKP---TVIACVCIHLACKWSNWE 204 (257)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCGGGTSCH---HHHHHHHHHHHHHHHTCC
T ss_pred HHHHHHHHHhCCCcHHHHHHHHHHHhhhhcccHHHcCCH---HHHHHHHHHHHHHHhCCC
Confidence 3555666777888888888988885544 2333455677 999999999999975543
No 28
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B*
Probab=75.06 E-value=6.3 Score=34.14 Aligned_cols=54 Identities=7% Similarity=0.007 Sum_probs=44.4
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhh
Q 046440 71 AWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEE 127 (284)
Q Consensus 71 dWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE 127 (284)
+|+...+...+++.++..+|-.+++.-+....+..... ..+|++|+++|.+.-+
T Consensus 140 ~fl~~~~~~~~~~~~~~~~a~~l~e~sl~~~~~~~~~P---s~iAaAai~lA~~~l~ 193 (269)
T 2b9r_A 140 HFLRRASKIGEVDVEQHTLAKYLMELTMLDYDMVHFPP---SQIAAGAFSLALKILD 193 (269)
T ss_dssp HHHHHHHHSSCCCHHHHHHHHHHHHHGGGCGGGSSSCT---THHHHHHHHHHHHHHT
T ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhhhhhhcCCH---HHHHHHHHHHHHHHhC
Confidence 56677777888888888899999998886666667778 8999999999988643
No 29
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A
Probab=72.38 E-value=21 Score=30.68 Aligned_cols=68 Identities=10% Similarity=0.037 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhcc-chhhh--Hhh--cCCChhhHHHHHHHHHHHHHh
Q 046440 170 LPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLT-RQALE--SCC--GFLEVGDVSTCYSIMQKLEME 237 (284)
Q Consensus 170 ~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~-~~~~~--~~~--~~~~~~~l~~C~~~m~~l~~~ 237 (284)
...+..++...+....+.....-.||+||+++|.+.... ...+. ... ..|+.++|..+-..|.+-..-
T Consensus 78 l~lAv~~lDRfls~~~v~~~~lqlv~~acL~iAsK~EE~~p~~~~~~~~~~~~~~~~~eI~~mE~~IL~~L~~ 150 (271)
T 2w96_A 78 FPLAMNYLDRFLSLEPVKKSRLQLLGATCMFVASKMKETIPLTAEKLCIYTDNSIRPEELLQMELLLVNKLKW 150 (271)
T ss_dssp HHHHHHHHHHHHTTSCCCTTTHHHHHHHHHHHHHHHHCSSCCCHHHHHHHTTTSSCHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHhCCcCCcCHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHhcCCCCHHHHHHHHHHHHHHCCC
Confidence 344455555555555555677889999999999864432 11222 122 247899999988887775443
No 30
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A
Probab=71.14 E-value=20 Score=31.90 Aligned_cols=69 Identities=9% Similarity=0.025 Sum_probs=43.5
Q ss_pred chHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhhHhh--cC-------CChhhHHHHHHHHHHHHH
Q 046440 168 NVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALESCC--GF-------LEVGDVSTCYSIMQKLEM 236 (284)
Q Consensus 168 ~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~--~~-------~~~~~l~~C~~~m~~l~~ 236 (284)
.+...|..++...+....+..+.|-.||+|||++|.+.......+...+ .. +..++|..+-..|.+-..
T Consensus 78 ~t~~tA~~~~~RF~~~~s~~~~~~~lva~acLfLA~K~EE~~~~l~d~v~~~~~~p~~~~~~~~~Il~~E~~iL~~L~ 155 (323)
T 1jkw_A 78 SVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEYELLLIQQLN 155 (323)
T ss_dssp HHHHHHHHHHHHHGGGSCTTTSCHHHHHHHHHHHHHHHTTCCCCHHHHGGGSSSCHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHhhhCChhhcCHHHHHHHHHHHHHhhhcCCCCHHHHHHHhccChhhhHHHHHHHHHHHHHHHHHCC
Confidence 4455566677777777788889999999999999986443222222111 11 224667766666665433
No 31
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C
Probab=65.52 E-value=5.4 Score=36.32 Aligned_cols=56 Identities=14% Similarity=0.137 Sum_probs=40.9
Q ss_pred HHHHHHHHcCCChHHHHHHHHHHHHHhc-CCccCCCchhhHHHHHHHHHHHHHhhhhcCC
Q 046440 72 WILNTRAVFGFRPKTAYLSVTYLDRFLS-TRFIDSDKLWAIKLLSVACVSVAAKMEECNS 130 (284)
Q Consensus 72 Wl~~v~~~~~l~~eT~~lAv~~lDRfls-~~~i~~~~l~~~qLla~acL~IAsK~eE~~~ 130 (284)
+|......++.+.++..+|.+++..-+. ...+-.... ..||+||+++|+++-....
T Consensus 156 fL~~~~~~l~~~~~l~~~A~~ll~~sl~~t~l~l~y~P---s~IAaAAI~lA~~~l~~~~ 212 (358)
T 2pk2_A 156 HVVKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQYTP---PVVACVCIHLACKWSNWEI 212 (358)
T ss_dssp HHHHHHHHTTCCHHHHHHHHHHHHHHTTTSCGGGTSCH---HHHTTTTTTTHHHHTTCCC
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhccCH---HHHHHHHHHHHHHHhCCCC
Confidence 4555666778888888999988865552 333455677 9999999999999865443
No 32
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ...
Probab=64.99 E-value=17 Score=31.08 Aligned_cols=67 Identities=12% Similarity=0.050 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhcc-chhhh--Hhhc--CCChhhHHHHHHHHHHHHHh
Q 046440 171 PRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLT-RQALE--SCCG--FLEVGDVSTCYSIMQKLEME 237 (284)
Q Consensus 171 ~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~-~~~~~--~~~~--~~~~~~l~~C~~~m~~l~~~ 237 (284)
..+..+++..+....+.....-.+|+||+++|.+.... .+.+. ...+ .|+.++|..+-..|.+...-
T Consensus 61 ~lAv~~lDRfls~~~v~~~~lqlv~~acl~iA~K~ee~~~~~~~d~~~i~~~~~~~~~i~~mE~~iL~~L~~ 132 (260)
T 2cch_B 61 HLAVNYIDRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLTF 132 (260)
T ss_dssp HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCSSCCCHHHHHHHTTSSSCHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHhccCCCCHHHHhHHHHHHHHHHHHhcccCCCCHHHHHHHHcCCcCHHHHHHHHHHHHHHcCC
Confidence 34444555444444444456778999999999864432 11221 1222 48899999988888775443
No 33
>3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei}
Probab=64.58 E-value=37 Score=28.54 Aligned_cols=55 Identities=11% Similarity=0.100 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCC---ccCCCchhhHHHHHHHHHHHHHhh
Q 046440 68 EAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTR---FIDSDKLWAIKLLSVACVSVAAKM 125 (284)
Q Consensus 68 ~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~---~i~~~~l~~~qLla~acL~IAsK~ 125 (284)
.+.+.|..++.+-+++.-++--||-+--.|...+ ...-.+- |-+|++|+.||+--
T Consensus 14 ~M~nclr~L~kKs~~~eaVL~~AieLar~fvg~rR~rgqRvE~q---~dVAAAc~miAae~ 71 (260)
T 3h4c_A 14 TMLNCMRGLHKKAVLPEPVLDRGIELARAFVGGRRARGQRVERQ---PDVAAACLMIAAEE 71 (260)
T ss_dssp HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHTTCCCCCH---HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhccCcHHHHHHHHHHHHHHhhhhhhhccccccc---HHHHHHHHHHHHHH
Confidence 3456678999999999999999999999888553 3444566 99999999999853
No 34
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A
Probab=62.59 E-value=40 Score=28.53 Aligned_cols=72 Identities=8% Similarity=0.035 Sum_probs=47.2
Q ss_pred cchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhcc-chhhh--Hhh--cCCChhhHHHHHHHHHHHHHhh
Q 046440 167 SNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLT-RQALE--SCC--GFLEVGDVSTCYSIMQKLEMEK 238 (284)
Q Consensus 167 ~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~-~~~~~--~~~--~~~~~~~l~~C~~~m~~l~~~~ 238 (284)
.+....+..+++..+..........-.+|+||+++|.+.... ...+. ... ..|+.++|.++-..|.+-..-+
T Consensus 70 ~etl~lAv~~~DRfls~~~v~~~~lqLv~~acl~iA~K~eE~~~p~~~d~~~~~~~~~~~~~i~~mE~~IL~~L~~~ 146 (254)
T 2f2c_A 70 KSVFPLSVSILDRYLCKKQGTKKTLQKIGAACVLIGSKIRTVKPMTVSKLTYLSCDCFTNLELINQEKDILEALKWD 146 (254)
T ss_dssp TTHHHHHHHHHHHHTTTSCCCTTTHHHHHHHHHHHHHHHHCSSCCCHHHHSTTC---CCHHHHHHHHHHHHHHTTTC
T ss_pred chHHHHHHHHHHHHHccCCcCHHHccHHHHHHHHHHHHhcccCCCCHHHHHHHhCCCCCHHHHHHHHHHHHHHCCCc
Confidence 345566777777777666677788899999999999864322 11222 122 2478899998888877754433
No 35
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens}
Probab=58.26 E-value=46 Score=29.20 Aligned_cols=69 Identities=7% Similarity=-0.026 Sum_probs=43.5
Q ss_pred hHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhc--c--chhhhHh-hcCCChhhHHHHHHHHHHHHHh
Q 046440 169 VLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKL--T--RQALESC-CGFLEVGDVSTCYSIMQKLEME 237 (284)
Q Consensus 169 ~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~--~--~~~~~~~-~~~~~~~~l~~C~~~m~~l~~~ 237 (284)
....|..++...+....+.....-.||++|+++|.+... + ...+... -..|+.++|.++=..|.+-..-
T Consensus 91 t~~lAv~~lDRfls~~~v~~~~lqLv~~tcL~lAsK~eE~~p~~~~~l~~~~~~~~~~~~i~~mE~~IL~~L~f 164 (306)
T 3g33_B 91 VFPLAMNYLDRYLSCVPTRKAQLQLLGAVCMLLASKLRETTPLTIEKLCIYTDHAVSPRQLRDWEVLVLGKLKW 164 (306)
T ss_dssp HHHHHHHHHHHHHHHCCCCGGGHHHHHHHHHHHHHHHHCSSCCCTTHHHHHTTTSSCHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCccHHHHHHHHHHHHHHcCC
Confidence 344455566655555566667788999999999986432 2 1222211 1247889998887777664443
No 36
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1
Probab=56.62 E-value=16 Score=31.15 Aligned_cols=55 Identities=9% Similarity=-0.100 Sum_probs=38.3
Q ss_pred HHHHHHHHHHcCCChHH----HHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhh
Q 046440 70 IAWILNTRAVFGFRPKT----AYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEE 127 (284)
Q Consensus 70 vdWl~~v~~~~~l~~eT----~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE 127 (284)
.+|+......++.+.++ ..+|..+++.-+....+-.... ..+|++|+++|.+.-.
T Consensus 152 ~~fl~~~~~~~~~~~~~~~~~~~~a~~~le~~l~d~~~~~~~P---S~iAaAai~lA~~~l~ 210 (257)
T 1g3n_C 152 TDVTSFLLLKLVGGSQHLDFWHHEVNTLITKALVDPLTGSLPA---SIISAAGCALLVPANV 210 (257)
T ss_dssp HHHHHHHHHHHSCSSTTHHHHHHHHHHHHHHHHTSTTGGGSCH---HHHHHHHHHHHCCGGG
T ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHHHHHHHHhCcchhCcCH---HHHHHHHHHHHHHHhC
Confidence 34555566666666554 3457777776665555666777 8999999999988643
No 37
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1
Probab=45.78 E-value=69 Score=27.61 Aligned_cols=66 Identities=11% Similarity=0.031 Sum_probs=39.8
Q ss_pred HHHHHHHHHHch-hhhcCCCHHHHHHHHHHHHHhhhcc-c---hhhhHhh-cCCChhhHHHHHHHHHHHHHh
Q 046440 172 RTVALILAIMRE-INLMEHRPSAIAVAATLVAFDQKLT-R---QALESCC-GFLEVGDVSTCYSIMQKLEME 237 (284)
Q Consensus 172 ~~~~~l~~~l~d-~~~l~~~PS~iAaAai~~A~~~~~~-~---~~~~~~~-~~~~~~~l~~C~~~m~~l~~~ 237 (284)
.+..++...+.. ...-....-.+|+||+++|.+.... . +.+.... ..|+.++|..+-..|.+-..-
T Consensus 73 lAv~~lDRfls~~~~v~~~~lqlv~~acL~iA~K~eE~~~p~l~~~~~i~~~~~~~~ei~~mE~~IL~~L~~ 144 (283)
T 1w98_B 73 LAQDFFDRYMATQENVVKTLLQLIGISSLFIAAKLEEIYPPKLHQFAYVTDGACSGDEILTMELMIMKALKW 144 (283)
T ss_dssp HHHHHHHHHHHHCCCCCGGGHHHHHHHHHHHHHHHHCSSCCCHHHHHHTTTTSSCHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcccCCCcHHHHHHHHcCCCCHHHHHHHHHHHHHHcCC
Confidence 344444444433 2344566788999999999864422 1 2222111 247899999988888775443
No 38
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1
Probab=35.85 E-value=1.6e+02 Score=24.90 Aligned_cols=68 Identities=18% Similarity=0.076 Sum_probs=41.0
Q ss_pred chHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhc--cc--hhhhHh-hcCCChhhHHHHHHHHHHHH
Q 046440 168 NVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKL--TR--QALESC-CGFLEVGDVSTCYSIMQKLE 235 (284)
Q Consensus 168 ~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~--~~--~~~~~~-~~~~~~~~l~~C~~~m~~l~ 235 (284)
+....+..+++..+.....-....-.||++|+++|.+... +. ..+... -..|+.++|.+.=..|.+..
T Consensus 68 eT~~lAv~~lDRfLs~~~v~~~~lqLvg~tcl~iAsK~eE~~p~~~~~l~~~~~~~yt~~~i~~mE~~IL~~L 140 (252)
T 1f5q_B 68 NVFPLAVALLDELFLSTRIDRENYQSTAAVALHIAGKVRAYMPIKATQLAYLCGGATTADKLLTLEVKSLDTL 140 (252)
T ss_dssp THHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHHCSSCCCHHHHHHHHCTTCCHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHhcCCCcCHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCCCHHHHHHHHHHHHHHC
Confidence 3445555666665555555556678899999999986432 21 112211 13478888887666665543
No 39
>3m03_A ORC6, origin recognition complex subunit 6; helix turn helix, DNA binding protein, origin recognition CO DNA replication; HET: MES; 2.50A {Homo sapiens}
Probab=35.64 E-value=1.1e+02 Score=22.20 Aligned_cols=55 Identities=16% Similarity=0.201 Sum_probs=40.1
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHHHhcCC------ccCCCchhhHHHHHHHHHHHHHhhhhcCCcc
Q 046440 73 ILNTRAVFGFRPKTAYLSVTYLDRFLSTR------FIDSDKLWAIKLLSVACVSVAAKMEECNSEN 132 (284)
Q Consensus 73 l~~v~~~~~l~~eT~~lAv~~lDRfls~~------~i~~~~l~~~qLla~acL~IAsK~eE~~~p~ 132 (284)
+.++|..|++.. ..-.|-.++++|=..- .+.-+++ ..+++|+|.|||.--..+..
T Consensus 6 v~dLcVqfgc~e-~~~~a~~lL~~Yk~~l~~~~~~~~D~s~P----~f~aaA~~~acr~~K~kVdK 66 (95)
T 3m03_A 6 IRDLAVQFSCIE-AVNMASKILKSYESSLPQTQQVDLDLSRP----LFTSAALLSACKILKLKVDK 66 (95)
T ss_dssp HHHHHHHHTCGG-GHHHHHHHHHHHHTTSCHHHHHHCCTTSH----HHHHHHHHHHHHHTTCCCCH
T ss_pred HHHHHHHhCCHH-HHHHHHHHHHHHHHHhHHHhhcccccccc----HHHHHHHHHHHHHHccCCCH
Confidence 457888898766 7778889999998542 3445565 45567999999987666555
No 40
>2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge, antitumor protein; 2.00A {Homo sapiens}
Probab=27.28 E-value=2.2e+02 Score=25.01 Aligned_cols=65 Identities=14% Similarity=-0.074 Sum_probs=44.9
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHHHhcC----CccCCCchhhHHHHHHHHHHHHHhhhhcCCccHHHHHHHcC
Q 046440 73 ILNTRAVFGFRPKTAYLSVTYLDRFLST----RFIDSDKLWAIKLLSVACVSVAAKMEECNSENGAHVINNNG 141 (284)
Q Consensus 73 l~~v~~~~~l~~eT~~lAv~~lDRfls~----~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~~~IL~~L~ 141 (284)
..++|..++++..|.--|...+.+.-+. .....+. +..-.+|||+|++-.|....++..||+..+
T Consensus 6 F~~lC~~Lnld~~~~~~Aw~~~~~~~~~~~~~~~~~~~~----~~~w~acLY~a~~~~~~n~vsLt~LLr~~~ 74 (304)
T 2qdj_A 6 FTALCQKLKIPDHVRERAWLTWEKVSSVDGVLGGYIQKK----KELWGICIFIAAVDLDEMSFTFTELQKNIE 74 (304)
T ss_dssp HHHHHHHTTCCHHHHHHHHHHHHHHHC----------CH----HHHHHHHHHHHHHHHTCCCSCHHHHHHHHT
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHhccccccCCCccch----HHHHHHhHHHHhhccCCCcCcHHHHHHHcC
Confidence 4578999999999999999999996653 1233233 444455699999766666666677777753
No 41
>3ul0_C Nuclear CAP-binding protein subunit 1; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 2.00A {Mus musculus} PDB: 3ukz_C
Probab=20.64 E-value=76 Score=16.85 Aligned_cols=11 Identities=36% Similarity=0.425 Sum_probs=5.7
Q ss_pred CCCCccccccC
Q 046440 260 SSKRKRLTFND 270 (284)
Q Consensus 260 ~~kr~~~~~~~ 270 (284)
.++|++.+++|
T Consensus 3 msrrrhsdend 13 (26)
T 3ul0_C 3 MSRRRHSDEND 13 (26)
T ss_dssp CCCCCCTTSCS
T ss_pred ccccccccccC
Confidence 35555555544
Done!