Query 021047
Match_columns 318
No_of_seqs 290 out of 1639
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 07:11:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021047.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021047hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0656 G1/S-specific cyclin D 100.0 7E-52 1.5E-56 381.3 23.5 223 15-239 44-268 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 5.5E-39 1.2E-43 288.7 17.9 216 16-246 113-336 (408)
3 KOG0653 Cyclin B and related k 100.0 1.3E-37 2.8E-42 298.8 17.8 229 4-246 116-346 (391)
4 COG5024 Cyclin [Cell division 100.0 1.2E-36 2.7E-41 289.8 15.5 229 4-246 170-400 (440)
5 KOG0654 G2/Mitotic-specific cy 100.0 1.2E-33 2.6E-38 262.7 8.1 248 4-275 92-341 (359)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 2.3E-25 5E-30 181.2 13.9 126 18-148 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 2.7E-24 5.8E-29 199.0 17.1 219 48-278 54-280 (305)
8 KOG0834 CDK9 kinase-activating 99.9 5.4E-21 1.2E-25 176.9 15.9 198 47-249 36-249 (323)
9 KOG0835 Cyclin L [General func 99.8 4.1E-18 8.9E-23 154.3 18.7 189 45-244 18-228 (367)
10 KOG0794 CDK8 kinase-activating 99.8 5.6E-18 1.2E-22 146.7 12.4 187 49-246 40-239 (264)
11 COG5333 CCL1 Cdk activating ki 99.7 6.3E-17 1.4E-21 146.6 14.2 161 47-213 42-208 (297)
12 PRK00423 tfb transcription ini 99.6 3E-13 6.5E-18 126.6 21.9 182 51-245 123-304 (310)
13 PF02984 Cyclin_C: Cyclin, C-t 99.6 2.9E-15 6.2E-20 119.8 7.0 110 150-277 1-110 (118)
14 KOG2496 Cdk activating kinase 99.5 1.3E-13 2.8E-18 124.2 13.0 151 56-212 62-223 (325)
15 cd00043 CYCLIN Cyclin box fold 99.5 9.1E-14 2E-18 104.3 9.0 86 50-140 2-88 (88)
16 smart00385 CYCLIN domain prese 99.5 1.3E-13 2.8E-18 102.4 8.5 83 55-141 1-83 (83)
17 COG1405 SUA7 Transcription ini 99.0 4.8E-08 1E-12 89.9 20.3 185 48-245 95-279 (285)
18 KOG1597 Transcription initiati 98.7 1.1E-06 2.4E-11 79.6 17.3 181 51-245 105-288 (308)
19 PF08613 Cyclin: Cyclin; Inte 98.4 2.1E-06 4.6E-11 72.0 9.6 93 52-147 53-149 (149)
20 cd00043 CYCLIN Cyclin box fold 98.4 2.5E-06 5.5E-11 63.3 8.4 85 149-241 2-87 (88)
21 smart00385 CYCLIN domain prese 98.3 1.7E-06 3.6E-11 63.7 7.0 81 154-242 1-82 (83)
22 KOG4164 Cyclin ik3-1/CABLES [C 98.1 5.6E-06 1.2E-10 77.5 6.0 103 45-150 377-482 (497)
23 KOG1598 Transcription initiati 97.8 0.00046 1E-08 67.6 13.3 193 32-236 44-245 (521)
24 PF00382 TFIIB: Transcription 97.0 0.007 1.5E-07 43.8 8.6 63 57-122 1-63 (71)
25 PF00382 TFIIB: Transcription 96.1 0.024 5.3E-07 41.0 6.7 70 156-233 1-70 (71)
26 KOG1674 Cyclin [General functi 95.3 0.078 1.7E-06 47.3 7.9 95 54-150 79-181 (218)
27 PRK00423 tfb transcription ini 95.1 0.22 4.8E-06 46.8 10.7 90 53-147 219-308 (310)
28 PF09080 K-cyclin_vir_C: K cyc 92.7 2.3 5E-05 32.0 9.7 93 152-245 4-99 (106)
29 PF02984 Cyclin_C: Cyclin, C-t 86.4 2.8 6E-05 32.5 6.5 84 55-143 5-89 (118)
30 COG1405 SUA7 Transcription ini 84.7 5.8 0.00013 36.8 8.6 66 51-119 192-257 (285)
31 KOG1597 Transcription initiati 84.0 8 0.00017 35.8 8.9 87 152-247 107-194 (308)
32 PF09241 Herp-Cyclin: Herpesvi 81.2 20 0.00043 26.7 9.7 94 152-246 4-99 (106)
33 KOG0834 CDK9 kinase-activating 77.4 2.8 6.2E-05 39.5 3.9 89 52-143 154-245 (323)
34 KOG1675 Predicted cyclin [Gene 75.1 5.1 0.00011 37.3 4.7 99 60-162 200-300 (343)
35 PF00134 Cyclin_N: Cyclin, N-t 66.3 49 0.0011 25.8 8.3 65 177-243 54-120 (127)
36 KOG0835 Cyclin L [General func 66.2 35 0.00076 32.2 8.1 42 95-138 182-224 (367)
37 TIGR00569 ccl1 cyclin ccl1. Un 41.5 72 0.0016 29.9 6.1 34 178-211 82-115 (305)
38 PF12550 GCR1_C: Transcription 39.4 1.5E+02 0.0033 21.7 6.8 73 3-81 2-80 (81)
39 PF01857 RB_B: Retinoblastoma- 31.8 1.8E+02 0.0039 23.7 6.3 63 55-119 16-79 (135)
40 cd04441 DEP_2_DEP6 DEP (Dishev 29.1 50 0.0011 24.8 2.3 30 50-80 35-64 (85)
41 KOG1925 Rac1 GTPase effector F 26.6 1E+02 0.0022 30.9 4.6 67 17-83 549-615 (817)
42 cd04449 DEP_DEPDC5-like DEP (D 26.4 60 0.0013 24.0 2.4 31 50-80 32-62 (83)
43 cd04439 DEP_1_P-Rex DEP (Dishe 25.1 56 0.0012 24.2 2.0 30 50-80 31-60 (81)
44 cd04443 DEP_GPR155 DEP (Dishev 25.0 65 0.0014 24.0 2.3 31 49-80 32-62 (83)
45 PF03261 CDK5_activator: Cycli 24.8 3E+02 0.0065 26.3 7.1 31 93-123 270-302 (346)
46 TIGR01446 DnaD_dom DnaD and ph 24.5 1.9E+02 0.0041 20.3 4.7 30 44-77 12-41 (73)
47 cd04442 DEP_1_DEP6 DEP (Dishev 23.2 67 0.0014 23.9 2.1 11 51-61 32-42 (82)
48 cd04438 DEP_dishevelled DEP (D 22.4 79 0.0017 23.6 2.4 31 50-80 32-62 (84)
49 cd04447 DEP_BRCC3 DEP (Disheve 21.2 1.6E+02 0.0036 22.4 3.9 38 50-87 32-71 (92)
50 cd04440 DEP_2_P-Rex DEP (Dishe 20.2 83 0.0018 24.1 2.1 30 49-79 39-68 (93)
51 cd04437 DEP_Epac DEP (Dishevel 20.1 83 0.0018 25.5 2.2 33 49-85 32-64 (125)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=7e-52 Score=381.25 Aligned_cols=223 Identities=40% Similarity=0.725 Sum_probs=205.8
Q ss_pred chHHHHHHHHHHhhhhCCCCchhhhhccCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchh
Q 021047 15 HQSDTLLDLFATESDHMPSHNFVQCLKITDFYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWV 94 (318)
Q Consensus 15 Y~~di~~~L~~~E~~~~p~~~y~~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~ 94 (318)
+.+|.+.+|+++|+++.|..+|..+++. .+++.+|.++++||++||+++++.++|++||||||||||+.+.+++.+||+
T Consensus 44 ~~e~~i~~ll~kEe~~~p~~~~~~~~~~-~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~ 122 (335)
T KOG0656|consen 44 WDERVLANLLEKEEQHNPSLDYFLCVQK-LILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWM 122 (335)
T ss_pred ccHHHHHHHHHHHHHhCCCCchhhhccc-ccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHH
Confidence 6689999999999999999997777765 589999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhhhccCCCC-hhhhhhhc-ccccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCCCchhHH
Q 021047 95 LRLLAVSCISLAAKMKNTHFP-LSKFQGDQ-KLIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFISLFEPKDPPLTQ 172 (318)
Q Consensus 95 lqL~avacL~iAaK~eE~~~p-l~dl~~~~-~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~~~~~ 172 (318)
+||+|+|||+||||+||+.+| +.|++++. .+.|.+++|++||+.||++|+|+|+.+||++|+++|+.+++..+... +
T Consensus 123 lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~-~ 201 (335)
T KOG0656|consen 123 LQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNK-H 201 (335)
T ss_pred HHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchH-H
Confidence 999999999999999999999 58998877 79999999999999999999999999999999999999999874443 4
Q ss_pred HHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCCCcccHHHHHH
Q 021047 173 ALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYVNKEDLSKCYD 239 (318)
Q Consensus 173 ~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~~~~~l~~C~~ 239 (318)
.+..++..++..+..|.+|++|+||+||+|++..+...+.+.........+..+.+++++.+..|++
T Consensus 202 ~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 202 LFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred HHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 6778899999999999999999999999999999988887766666667888889999999999999
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=5.5e-39 Score=288.72 Aligned_cols=216 Identities=21% Similarity=0.341 Sum_probs=185.6
Q ss_pred hHHHHHHHHHHhhhhCCCCchhhhhccCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCc-cCCCCchh
Q 021047 16 QSDTLLDLFATESDHMPSHNFVQCLKITDFYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQE-IPQGKPWV 94 (318)
Q Consensus 16 ~~di~~~L~~~E~~~~p~~~y~~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~-v~~~~~~~ 94 (318)
..+.+..|+.+|+.+.....++. |++++.++||++++|||++||+.|++.+|||||||.||||||.... +.+..
T Consensus 113 ~~eVW~lM~kkee~~l~~~~~l~--qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~--- 187 (408)
T KOG0655|consen 113 SKEVWLLMLKKEERYLRDKHFLE--QHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTN--- 187 (408)
T ss_pred HHHHHHHHHccchhhhhhhHHHh--hCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhh---
Confidence 36899999999998877666665 5678999999999999999999999999999999999999998763 66666
Q ss_pred HHHHHHHHHHhhhhhccCCCC-hhhhhhhcccccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCCCc-----
Q 021047 95 LRLLAVSCISLAAKMKNTHFP-LSKFQGDQKLIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFISLFEPKDP----- 168 (318)
Q Consensus 95 lqL~avacL~iAaK~eE~~~p-l~dl~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~----- 168 (318)
+||+|+||||||||+||+++| +.+|..-.+.+|+.++|++||+.||++|+|+|.+.|...+|..|+.....++.
T Consensus 188 lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~ 267 (408)
T KOG0655|consen 188 LQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLL 267 (408)
T ss_pred HHHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceec
Confidence 999999999999999999999 88884444448999999999999999999999999999999999998765532
Q ss_pred -hhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCCCcccHHHHHHHHHHHHH
Q 021047 169 -PLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYVNKEDLSKCYDTVQEMVE 246 (318)
Q Consensus 169 -~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~~~~~l~~C~~~l~~~~~ 246 (318)
++.+...-...+++++++.+...+.|.-++||||||+.-.. ...++..+|+.+.+|.+|+++|..+..
T Consensus 268 Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s----------~e~v~kaSG~~w~~ie~cv~wm~Pf~r 336 (408)
T KOG0655|consen 268 PQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTS----------IEVVKKASGLEWDSIEECVDWMVPFVR 336 (408)
T ss_pred cccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhH----------HHHHHHcccccHHHHHHHHHHHHHHHH
Confidence 12222223456889999999999999999999999987643 255678899999999999999998764
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.3e-37 Score=298.84 Aligned_cols=229 Identities=21% Similarity=0.304 Sum_probs=199.5
Q ss_pred cCCCCCCCchhchHHHHHHHHHHhhhhCCCCchhhhhccCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhc
Q 021047 4 DLENPFTSFEEHQSDTLLDLFATESDHMPSHNFVQCLKITDFYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFIS 83 (318)
Q Consensus 4 d~~~~l~~~~eY~~di~~~L~~~E~~~~p~~~y~~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls 83 (318)
|..||+.+ .||.+||+.+|...|.++.|.. |+ .++..++..||.++|||+++||..|++.+||+|||||++||||+
T Consensus 116 d~~~~~~~-~ey~~di~~~l~~~e~~~~p~~-~~--~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~ 191 (391)
T KOG0653|consen 116 DKSDPSMI-VEYVQDIFEYLRQLELEFLPLS-YD--ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLS 191 (391)
T ss_pred cccCcHHH-HHHHHHHHHHHHHHHHhhCchh-hh--cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHH
Confidence 44566655 4599999999999997666664 33 23467999999999999999999999999999999999999999
Q ss_pred CCccCCCCchhHHHHHHHHHH-hhhhhccCCCC-hhhhhhhcccccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHH
Q 021047 84 RQEIPQGKPWVLRLLAVSCIS-LAAKMKNTHFP-LSKFQGDQKLIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFIS 161 (318)
Q Consensus 84 ~~~v~~~~~~~lqL~avacL~-iAaK~eE~~~p-l~dl~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~ 161 (318)
+..++..+ +||+|++||+ ||+|+||..+| +.||+...++.|++++|++||+.||++|+|+++.|||+.||++|++
T Consensus 192 ~~~v~~~~---lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~k 268 (391)
T KOG0653|consen 192 KVKVPLKK---LQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLK 268 (391)
T ss_pred HhcccHHH---hhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHH
Confidence 98898887 9999999966 99999999999 6899877777899999999999999999999999999999999999
Q ss_pred hhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCCCcccHHHHHHHH
Q 021047 162 LFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYVNKEDLSKCYDTV 241 (318)
Q Consensus 162 ~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~~~~~l~~C~~~l 241 (318)
....+. ..+....++++++++|+.++.++||.+|+|++++++....... .|...+..++|+...++.+|.+.+
T Consensus 269 a~~~d~-----~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~--~w~~~~~~~sg~~~~~~~~~~~~~ 341 (391)
T KOG0653|consen 269 AADYDI-----KTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGD--VWSPTLEHYSGYSESYLFECARSL 341 (391)
T ss_pred hhhcch-----hHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCC--ccCCCCeeccCCCcHHHHHHHHHH
Confidence 887432 2334556778888899999999999999999999999875332 699999999999999999999999
Q ss_pred HHHHH
Q 021047 242 QEMVE 246 (318)
Q Consensus 242 ~~~~~ 246 (318)
..++.
T Consensus 342 ~~~~~ 346 (391)
T KOG0653|consen 342 SALSL 346 (391)
T ss_pred HHHHH
Confidence 99554
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=1.2e-36 Score=289.77 Aligned_cols=229 Identities=22% Similarity=0.282 Sum_probs=204.4
Q ss_pred cCCCCCCCchhchHHHHHHHHHHhhhhCCCCchhhhhccCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhc
Q 021047 4 DLENPFTSFEEHQSDTLLDLFATESDHMPSHNFVQCLKITDFYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFIS 83 (318)
Q Consensus 4 d~~~~l~~~~eY~~di~~~L~~~E~~~~p~~~y~~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls 83 (318)
|.++|+ .+.||+.||+.+|+++|..+.|.+.|+.+ +..+...||..+|+||++||..|++.++|+++|||++||||+
T Consensus 170 ~~~d~~-mv~Ey~~~Ife~l~k~e~~~lp~~~yl~k--q~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs 246 (440)
T COG5024 170 DQEDPL-MVPEYASDIFEYLLKLELIDLPNPNYLIK--QSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLS 246 (440)
T ss_pred cccCcc-chHHHHHHHHHHHHHHHHHhcCcHHHHhh--cchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhc
Confidence 345666 46779999999999999999999999775 345777999999999999999999999999999999999999
Q ss_pred CCccCCCCchhHHHHHHHHHHhhhhhccCCCC-hhhhhhhcccccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHHh
Q 021047 84 RQEIPQGKPWVLRLLAVSCISLAAKMKNTHFP-LSKFQGDQKLIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFISL 162 (318)
Q Consensus 84 ~~~v~~~~~~~lqL~avacL~iAaK~eE~~~p-l~dl~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~ 162 (318)
...++-++ +||+|++|||||+|+||.+.| +.+|+......|+.++|+++|+.+|.+|+|++..|+|..|++++.+.
T Consensus 247 ~~~v~l~k---~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka 323 (440)
T COG5024 247 SRVVSLEK---YQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKA 323 (440)
T ss_pred cCcccHHH---HHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhh
Confidence 99999998 999999999999999999999 68998777779999999999999999999999999999999988876
Q ss_pred hCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcC-CCcccHHHHHHHH
Q 021047 163 FEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDY-VNKEDLSKCYDTV 241 (318)
Q Consensus 163 ~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~-~~~~~l~~C~~~l 241 (318)
...+- ..+..+.+++..+..++.|+.++||.+|+||.+.++..++..+ |...+..++| |+.+++.++...+
T Consensus 324 ~dyd~-----~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~---w~~~l~~ySg~y~~~~l~~~~~~~ 395 (440)
T COG5024 324 SDYDI-----FSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ---WDRTLIHYSGNYTNPDLKPLNESN 395 (440)
T ss_pred cccch-----hhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccCC---CCccccccCCCCCchhHHHHHHHH
Confidence 55431 2233456677778899999999999999999999999997544 8899999998 9999999999999
Q ss_pred HHHHH
Q 021047 242 QEMVE 246 (318)
Q Consensus 242 ~~~~~ 246 (318)
.+.+.
T Consensus 396 ~~~l~ 400 (440)
T COG5024 396 KENLQ 400 (440)
T ss_pred HHHhc
Confidence 99875
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.2e-33 Score=262.72 Aligned_cols=248 Identities=23% Similarity=0.308 Sum_probs=221.8
Q ss_pred cCCCCCCCchhchHHHHHHHHHHhhh-hCCCCchhhhhccCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHh
Q 021047 4 DLENPFTSFEEHQSDTLLDLFATESD-HMPSHNFVQCLKITDFYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFI 82 (318)
Q Consensus 4 d~~~~l~~~~eY~~di~~~L~~~E~~-~~p~~~y~~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfl 82 (318)
+.++|+-|.. |+.+|+.++...|.. ++|.++|++.+|. ++++.||.++|+|.++|.+.+++..+++|+++++.|||+
T Consensus 92 ~~~dp~~c~~-~~~~I~~~~r~~ei~~~rp~~~~~e~vq~-d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl 169 (359)
T KOG0654|consen 92 VGEDPQMCLK-IAAKIYNTLRVSDIKSERPLPSKFEFVQA-DITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFL 169 (359)
T ss_pred cccchHHHHH-HHHHHhhcccccchhhccCcccceeeeec-CCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHh
Confidence 4568888877 999999999999999 9999999999886 699999999999999999999999999999999999999
Q ss_pred cCCccCCCCchhHHHHHHHHHHhhhhhccCCCC-hhhhhhhcccccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHH
Q 021047 83 SRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFP-LSKFQGDQKLIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFIS 161 (318)
Q Consensus 83 s~~~v~~~~~~~lqL~avacL~iAaK~eE~~~p-l~dl~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~ 161 (318)
....+.+.+ +|++|++|++||+|+||..+| +.+|+....+.|+..++.+||..||+.|.|.+..||.-.|+..|+.
T Consensus 170 ~~~~~~~~k---~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~ 246 (359)
T KOG0654|consen 170 SYKEVNKQK---LQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLR 246 (359)
T ss_pred ccCccHHHH---HHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHH
Confidence 999999888 999999999999999999999 6888777777899999999999999999999999999999999988
Q ss_pred hhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCCCcccHHHHHHHH
Q 021047 162 LFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYVNKEDLSKCYDTV 241 (318)
Q Consensus 162 ~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~~~~~l~~C~~~l 241 (318)
..... ...+...+.++.++++.|+.|+.|.||+|||||+++|...++ ...|.+.|.++|||+.+++..|+..|
T Consensus 247 ~~~~~----~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~---~~pW~~~L~~~T~y~~edl~~~v~~L 319 (359)
T KOG0654|consen 247 VAQTP----ELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD---FHPWNQTLEDYTGYKAEDLKPCVLDL 319 (359)
T ss_pred hhcch----hHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc---CCCCchhhHHhhcccHHHHHHHHHHH
Confidence 76542 235677888999999999999999999999999999999887 34599999999999999999999999
Q ss_pred HHHHHhcCcccccCCCCCCCCccchhhcccccCC
Q 021047 242 QEMVEMDGCESILDTLSSSRTQFSVVDYKCTKSE 275 (318)
Q Consensus 242 ~~~~~~~~~~~~~~~~~~~~sp~~vl~~~~~s~~ 275 (318)
+ +.. +.++++...+..+|.-.+
T Consensus 320 ~-~~l-----------~~~~~~l~air~ky~~~k 341 (359)
T KOG0654|consen 320 H-LYL-----------NASGTDLPAIREKYKQSK 341 (359)
T ss_pred h-ccc-----------CCCCCchHHHHHHhhhhh
Confidence 9 543 455666667776665433
No 6
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.93 E-value=2.3e-25 Score=181.19 Aligned_cols=126 Identities=27% Similarity=0.438 Sum_probs=111.0
Q ss_pred HHHHHHHHHhhhhCCCCchhhhhccCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHH
Q 021047 18 DTLLDLFATESDHMPSHNFVQCLKITDFYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRL 97 (318)
Q Consensus 18 di~~~L~~~E~~~~p~~~y~~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL 97 (318)
||+.+|+++|.++.+.+.|++. ++.++...|..+++||.+++..+++++.|+++|+.|+|||+....+.+.+ +++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~--~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~---~~l 75 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQ--QPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSK---LQL 75 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTG--TSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCG---HHH
T ss_pred CHHHHHHHHHHHHCcCcccccc--ChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccch---hhh
Confidence 7999999999999988899985 23689999999999999999999999999999999999999999987777 999
Q ss_pred HHHHHHHhhhhhccCCCC-hhhhhhhcccccCHHHHHHHHHHHHHHcCcccc
Q 021047 98 LAVSCISLAAKMKNTHFP-LSKFQGDQKLIFDAQTIHRMELLILDALNWRMR 148 (318)
Q Consensus 98 ~avacL~iAaK~eE~~~p-l~dl~~~~~~~~~~~~i~~mE~~IL~~L~w~l~ 148 (318)
+|++||+||+|++|..+| +.+++...++.|+.++|.+||+.||++|+|+++
T Consensus 76 i~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 76 IALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 999999999999999877 788877667789999999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.92 E-value=2.7e-24 Score=199.00 Aligned_cols=219 Identities=19% Similarity=0.265 Sum_probs=163.5
Q ss_pred HHHHHHHHHHHHHHHHcC--CChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhcc-
Q 021047 48 SLRQETVSLILQIQFACN--FEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQK- 124 (318)
Q Consensus 48 ~~R~~~v~Wi~~v~~~~~--l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~~- 124 (318)
..|.--.+.|.+++..++ ++..|+++|+.||+||+...++.... .+++|+|||+||+|+||..+++.+|+....
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~---p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~ 130 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYH---PKIIMLTCVFLACKVEEFNVSIDQFVGNLKE 130 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcC---HHHHHHHHHHHHHhccccCcCHHHHHhhccC
Confidence 678888899999999999 99999999999999999999987766 999999999999999999988888865431
Q ss_pred -cccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCC--CchhHHHHHHHHHHHHHHHcccccccccCHHHHHH
Q 021047 125 -LIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFISLFEPK--DPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAA 201 (318)
Q Consensus 125 -~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~--~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAa 201 (318)
.....++|++||..||++|+|++.+++|+.|+..|+..+... .....+.+.+.+..++..++...-++.|+||+||+
T Consensus 131 ~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAl 210 (305)
T TIGR00569 131 TPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIAL 210 (305)
T ss_pred CchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHH
Confidence 224679999999999999999999999999999988644311 00111356778888888787777789999999999
Q ss_pred HHHHHHHhhhCCCCCcchHHHhhhhcCC--CcccHHHHHHHHHHHHHhcCcccccCCCCCCCCccchhhcccccCCCCC
Q 021047 202 SAVLLSSYELFPLQFPSFKTSILSSDYV--NKEDLSKCYDTVQEMVEMDGCESILDTLSSSRTQFSVVDYKCTKSESQQ 278 (318)
Q Consensus 202 Aai~~a~~~l~~~~~~~~~~~l~~~~~~--~~~~l~~C~~~l~~~~~~~~~~~~~~~~~~~~sp~~vl~~~~~s~~s~~ 278 (318)
|||++|...++. ..+.... ..... +.+.+..-++.|.++...- .....++..-+..+++++-.|.+..
T Consensus 211 AAI~lA~~~~~~-~l~~~~~---e~~~~~~~~~~~~~l~~~~~~~~~~~-----~~~~~~~~~~~~~i~~kl~~c~~~~ 280 (305)
T TIGR00569 211 AAILHTASRAGL-NMESYLT---EQLSVPGNREELPQLIDIMRELRILV-----KKYEEPRSEKVAALKKKLDECHSIE 280 (305)
T ss_pred HHHHHHHHHhCC-CCcccch---hhhcccccHHHHHHHHHHHHHHHHHH-----HcCCCCCHHHHHHHHHHHHHHhChh
Confidence 999999998864 3332211 22333 4455555555555543210 1111122336678888876666554
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.86 E-value=5.4e-21 Score=176.86 Aligned_cols=198 Identities=20% Similarity=0.261 Sum_probs=164.4
Q ss_pred HHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhcc-c
Q 021047 47 VSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQK-L 125 (318)
Q Consensus 47 ~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~~-~ 125 (318)
...|.....||.+++..++++..|+..|+.|++||+...++.... .+.+|++||+||+|+||+..++.|++.... +
T Consensus 36 ~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~---~~~vA~sclfLAgKvEetp~kl~dIi~~s~~~ 112 (323)
T KOG0834|consen 36 LRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFD---PYTVAASCLFLAGKVEETPRKLEDIIKVSYRY 112 (323)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCc---HHHHHHHHHHHHhhcccCcccHHHHHHHHHHH
Confidence 478999999999999999999999999999999999999998877 799999999999999999988888754331 1
Q ss_pred c----------c--CHHHHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccc
Q 021047 126 I----------F--DAQTIHRMELLILDALNWRMRSITPFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLE 193 (318)
Q Consensus 126 ~----------~--~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~ 193 (318)
. | .++.|...|+.||++|+|++++-.|+.||..|+..++..... ...+...|+.++..++...-+++
T Consensus 113 ~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~-~~~~a~~Aw~~~nD~~~t~~cL~ 191 (323)
T KOG0834|consen 113 LNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENL-KQPLAQAAWNFVNDSLRTTLCLQ 191 (323)
T ss_pred cCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhc-cccHHHHHHHHhchhheeeeeEe
Confidence 1 1 257899999999999999999999999999999999876322 12467889999999998888999
Q ss_pred cCHHHHHHHHHHHHHhhhCCCCCcchHHH-hhhhcC--CCcccHHHHHHHHHHHHHhcC
Q 021047 194 FRPSVIAASAVLLSSYELFPLQFPSFKTS-ILSSDY--VNKEDLSKCYDTVQEMVEMDG 249 (318)
Q Consensus 194 ~~PS~iAaAai~~a~~~l~~~~~~~~~~~-l~~~~~--~~~~~l~~C~~~l~~~~~~~~ 249 (318)
|+|..||+|||.+|....+. ..+.+... --...+ ++.++|.+....+.+++....
T Consensus 192 y~p~~IAva~i~lA~~~~~~-~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~ 249 (323)
T KOG0834|consen 192 YSPHSIAVACIHLAAKLLGV-ELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQTP 249 (323)
T ss_pred ecCcEEEeehhhHHHHHcCC-CCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999987764 33333322 011234 789999999999999887553
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.80 E-value=4.1e-18 Score=154.25 Aligned_cols=189 Identities=15% Similarity=0.218 Sum_probs=151.1
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhh---
Q 021047 45 FYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQG--- 121 (318)
Q Consensus 45 i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~--- 121 (318)
-....|.--++||.+.+--++|+..+.+.+..+|-||+...++-+.+ +..++.+|++||+|+||....+.|++.
T Consensus 18 ~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~---~e~vv~ACv~LASKiEE~Prr~rdVinVFh 94 (367)
T KOG0835|consen 18 TEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHD---FEIVVMACVLLASKIEEEPRRIRDVINVFH 94 (367)
T ss_pred hHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhcccccccc---HHHHHHHHHHHHhhhccccccHhHHHHHHH
Confidence 34578888899999999999999999999999999999999987777 999999999999999998755555420
Q ss_pred -----hc-----------ccccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHH
Q 021047 122 -----DQ-----------KLIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFISLFEPKDPPLTQALKDRATDIIFRA 185 (318)
Q Consensus 122 -----~~-----------~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~ 185 (318)
.. .+.-.+.++.++|..||..|+|++++..|+-++-.|+..++..+.. .|.+.++.++..+
T Consensus 95 ~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~---~l~Q~~wNfmNDs 171 (367)
T KOG0835|consen 95 YLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNL---KLLQAAWNFMNDS 171 (367)
T ss_pred HHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCch---hHHHHHHHhhhhc
Confidence 00 1112356789999999999999999999999999999999987542 4677889999999
Q ss_pred cccccccccCHHHHHHHHHHHHHhhhC---CCCCcchHHHhhhhcCCCcccHHHHHHHHHHH
Q 021047 186 HSEIKLLEFRPSVIAASAVLLSSYELF---PLQFPSFKTSILSSDYVNKEDLSKCYDTVQEM 244 (318)
Q Consensus 186 l~d~~~~~~~PS~iAaAai~~a~~~l~---~~~~~~~~~~l~~~~~~~~~~l~~C~~~l~~~ 244 (318)
+...-|+.|+|+.||+|||++|...++ |. .|.|.. +.+.++++|.+..-.+..+
T Consensus 172 lRT~v~vry~pe~iACaciyLaAR~~eIpLp~-~P~Wf~----~Fd~~k~eid~ic~~l~~l 228 (367)
T KOG0835|consen 172 LRTDVFVRYSPESIACACIYLAARNLEIPLPF-QPHWFK----AFDTTKREIDEICYRLIPL 228 (367)
T ss_pred cccceeeecCHHHHHHHHHHHHHhhhcCCCCC-CccHHH----HcCCcHHHHHHHHHHHHHH
Confidence 999999999999999999999999887 32 344543 2344555554433333333
No 10
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.76 E-value=5.6e-18 Score=146.65 Aligned_cols=187 Identities=19% Similarity=0.233 Sum_probs=152.1
Q ss_pred HHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCC-hhhhh-------
Q 021047 49 LRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFP-LSKFQ------- 120 (318)
Q Consensus 49 ~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~p-l~dl~------- 120 (318)
.+--..+.|..+++++++...++.+|+.||-||+.+.++..-. +.|+|.||++||+|+||..+. .+-++
T Consensus 40 l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~---p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~ 116 (264)
T KOG0794|consen 40 LKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIE---PRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLK 116 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC---HHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHh
Confidence 3344456688999999999999999999999999999986666 999999999999999998622 22221
Q ss_pred -----hhcccccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccC
Q 021047 121 -----GDQKLIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFR 195 (318)
Q Consensus 121 -----~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~ 195 (318)
-...+.++.++|.+||..+|+.|+..|-+.+|+.-|..++.-.+..+. .+.+.++.++..+....-++-|+
T Consensus 117 ~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~----~~l~~~W~ivNDSyr~Dl~Ll~P 192 (264)
T KOG0794|consen 117 TRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQ----KLLQLAWSIVNDSYRMDLCLLYP 192 (264)
T ss_pred hhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccch----hhhhhhHhhhcchhhcceeeecC
Confidence 122356788999999999999999999999999999999998877543 34567778888888888889999
Q ss_pred HHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCCCcccHHHHHHHHHHHHH
Q 021047 196 PSVIAASAVLLSSYELFPLQFPSFKTSILSSDYVNKEDLSKCYDTVQEMVE 246 (318)
Q Consensus 196 PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~~~~~l~~C~~~l~~~~~ 246 (318)
|-+||.|||++|....+......|. .-..+|.+.|.+|++.|.+++.
T Consensus 193 Ph~IalAcl~Ia~~~~~k~~~~~w~----~el~vD~ekV~~~v~~I~~lYe 239 (264)
T KOG0794|consen 193 PHQIALACLYIACVIDEKDIPKAWF----AELSVDMEKVKDIVQEILKLYE 239 (264)
T ss_pred HHHHHHHHHHHHHhhcCCChHHHHH----HHHhccHHHHHHHHHHHHHHHH
Confidence 9999999999999877644322343 3356799999999999999876
No 11
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.73 E-value=6.3e-17 Score=146.57 Aligned_cols=161 Identities=22% Similarity=0.321 Sum_probs=137.8
Q ss_pred HHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccC--CCChhhhhhhc-
Q 021047 47 VSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNT--HFPLSKFQGDQ- 123 (318)
Q Consensus 47 ~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~--~~pl~dl~~~~- 123 (318)
...|..-..||..+|..++++..++.+||.+|+||+.+..+.... ++-++.||++||+|+||+ +..+..+....
T Consensus 42 ~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~---~~~vv~tcv~LA~K~ed~~~~I~i~~~~~~~~ 118 (297)
T COG5333 42 LNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEIS---LYSVVTTCVYLACKVEDTPRDISIESFEARDL 118 (297)
T ss_pred hhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhccccccc---HHHHHHhheeeeeecccccchhhHHHHHhhcc
Confidence 467777789999999999999999999999999999999986666 999999999999999995 33333332211
Q ss_pred ---ccccCHHHHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHH
Q 021047 124 ---KLIFDAQTIHRMELLILDALNWRMRSITPFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIA 200 (318)
Q Consensus 124 ---~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iA 200 (318)
...-+++.|..+|..||+.|+|++.+++|+..+..|+..+...+. ..+.+.++.++..+....-++.|+|..||
T Consensus 119 ~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~---~~~~~~aw~~inDa~~t~~~llypphiIA 195 (297)
T COG5333 119 WSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK---YKLLQIAWKIINDALRTDLCLLYPPHIIA 195 (297)
T ss_pred ccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH---HHHHHHHHHHHHhhhhceeeeecChHHHH
Confidence 234578999999999999999999999999999999998877654 24667899999999999999999999999
Q ss_pred HHHHHHHHhhhCC
Q 021047 201 ASAVLLSSYELFP 213 (318)
Q Consensus 201 aAai~~a~~~l~~ 213 (318)
+||++.|...++.
T Consensus 196 ~a~l~ia~~~~~~ 208 (297)
T COG5333 196 LAALLIACEVLGM 208 (297)
T ss_pred HHHHHHHHHhcCC
Confidence 9999999998764
No 12
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.59 E-value=3e-13 Score=126.56 Aligned_cols=182 Identities=14% Similarity=0.143 Sum_probs=156.1
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhcccccCHH
Q 021047 51 QETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQKLIFDAQ 130 (318)
Q Consensus 51 ~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~~~~~~~~ 130 (318)
.....-|..++..++++..+.-.|..++.++.....+.... ...++++|+|+|+|.++....+.++.... ..+.+
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs---~~~i~AAclYiACR~~~~prtl~eI~~~~--~v~~k 197 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRS---IEGVVAAALYAACRRCKVPRTLDEIAEVS--RVSRK 197 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCC---HHHHHHHHHHHHHHHcCCCcCHHHHHHHh--CCCHH
Confidence 44566788999999999999999999999999987776666 89999999999999999877788886554 46899
Q ss_pred HHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhh
Q 021047 131 TIHRMELLILDALNWRMRSITPFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYE 210 (318)
Q Consensus 131 ~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~ 210 (318)
+|-+.++.|++.|+.++.+..|.+|+..|...++... .+.+.|.+++..+....-..+.+|..|||||||+|...
T Consensus 198 ~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~-----~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~ 272 (310)
T PRK00423 198 EIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG-----EVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLL 272 (310)
T ss_pred HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH-----HHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999998763 45677888887766555557899999999999999986
Q ss_pred hCCCCCcchHHHhhhhcCCCcccHHHHHHHHHHHH
Q 021047 211 LFPLQFPSFKTSILSSDYVNKEDLSKCYDTVQEMV 245 (318)
Q Consensus 211 l~~~~~~~~~~~l~~~~~~~~~~l~~C~~~l~~~~ 245 (318)
.+. +.-...+...+|+++..|...++.|.+.+
T Consensus 273 ~g~---~~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 273 LGE---RRTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred hCC---CCCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 653 23467888899999999999999999865
No 13
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=99.58 E-value=2.9e-15 Score=119.76 Aligned_cols=110 Identities=26% Similarity=0.419 Sum_probs=86.6
Q ss_pred cChHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCC
Q 021047 150 ITPFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYV 229 (318)
Q Consensus 150 pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~ 229 (318)
|||++||++|++..+. ...+...+.+++++++.++.|++|+||+||+||+++|+..++. .+.|...+..++|+
T Consensus 1 PTp~~Fl~~~~~~~~~-----~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~--~~~~~~~l~~~t~~ 73 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA-----DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK--EPPWPESLEKLTGY 73 (118)
T ss_dssp --HHHHHHHHHTSSSH-----HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS--STCSHHHHHHHHTS
T ss_pred CcHHHHHHHHHHHcCC-----cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc--cccCCccchhhcCC
Confidence 8999999999654222 2356778889999999999999999999999999999999862 24699999999999
Q ss_pred CcccHHHHHHHHHHHHHhcCcccccCCCCCCCCccchhhcccccCCCC
Q 021047 230 NKEDLSKCYDTVQEMVEMDGCESILDTLSSSRTQFSVVDYKCTKSESQ 277 (318)
Q Consensus 230 ~~~~l~~C~~~l~~~~~~~~~~~~~~~~~~~~sp~~vl~~~~~s~~s~ 277 (318)
++++|.+|++.|.+++.. .+.+....+..+|++.+..
T Consensus 74 ~~~~l~~c~~~i~~~~~~-----------~~~~~~~ai~~Kys~~~~~ 110 (118)
T PF02984_consen 74 DKEDLKECIELIQELLSK-----------ASNSKLQAIRKKYSSQKFS 110 (118)
T ss_dssp -HHHHHHHHHHHHHHHHH-----------CCGSSCTHHHHHTTSGGGT
T ss_pred CHHHHHHHHHHHHHHHHh-----------cCCccchHHHHHhCccccC
Confidence 999999999999998862 2345667778788775544
No 14
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair]
Probab=99.53 E-value=1.3e-13 Score=124.24 Aligned_cols=151 Identities=18% Similarity=0.299 Sum_probs=117.4
Q ss_pred HHHHHHHHc--CCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhc--ccccCHHH
Q 021047 56 LILQIQFAC--NFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQ--KLIFDAQT 131 (318)
Q Consensus 56 Wi~~v~~~~--~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~--~~~~~~~~ 131 (318)
-+++.+..| .+++.++.+|+.+|-||+-..++.... ...+..||+|+|+|++|.++.+.+|+... .-.-+.+.
T Consensus 62 ~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~---pk~I~~tc~flA~Kieef~ISieqFvkn~~~~~~k~~e~ 138 (325)
T KOG2496|consen 62 SLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYS---PKIIMATCFFLACKIEEFYISIEQFVKNMNGRKWKTHEI 138 (325)
T ss_pred HHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcC---hHHHHHHHHHHHhhhHhheecHHHHHhhccCcccccHHH
Confidence 344455444 568999999999999999999987766 88999999999999999999999986543 22357889
Q ss_pred HHHHHHHHHHHcCccccccChHHHHHHHHHhhCC-----CCchhHHHHHHHH--HHHHHHHcccccccccCHHHHHHHHH
Q 021047 132 IHRMELLILDALNWRMRSITPFSFLCFFISLFEP-----KDPPLTQALKDRA--TDIIFRAHSEIKLLEFRPSVIAASAV 204 (318)
Q Consensus 132 i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~-----~~~~~~~~l~~~~--~~ll~~~l~d~~~~~~~PS~iAaAai 204 (318)
|+..|..+|+.|+|++.+.+|+.-++-|+.-+.. .++. .+.... ..++..++....++-|.||+||.|||
T Consensus 139 vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d---~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAi 215 (325)
T KOG2496|consen 139 VLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPD---ILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAI 215 (325)
T ss_pred HHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHH---HHhhhhhHHHHHHHHHHhccceecChHHHHHHHH
Confidence 9999999999999999999999999988754432 1222 222222 35667777777788899999999999
Q ss_pred HHHHhhhC
Q 021047 205 LLSSYELF 212 (318)
Q Consensus 205 ~~a~~~l~ 212 (318)
+.|....+
T Consensus 216 l~a~~~~~ 223 (325)
T KOG2496|consen 216 LHAAGRTG 223 (325)
T ss_pred HHHhcccc
Confidence 76654443
No 15
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=99.51 E-value=9.1e-14 Score=104.26 Aligned_cols=86 Identities=27% Similarity=0.317 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhccccc-C
Q 021047 50 RQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQKLIF-D 128 (318)
Q Consensus 50 R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~~~~~-~ 128 (318)
|..+++||.+++..++++++|.++|+.|+|||+....+.+.+ ++++|++|++||+|++|..+.+.++.... .+ +
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~ia~a~l~lA~k~~~~~~~~~~~~~~~--~~~~ 76 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRS---PSLVAAAALYLAAKVEEIPPWLKDLVHVT--GYAT 76 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCC---hHHHHHHHHHHHHHHcCCCCCHHHHhHHh--CCCC
Confidence 678899999999999999999999999999999998887655 99999999999999999944478887665 34 9
Q ss_pred HHHHHHHHHHHH
Q 021047 129 AQTIHRMELLIL 140 (318)
Q Consensus 129 ~~~i~~mE~~IL 140 (318)
.++|.+||+.||
T Consensus 77 ~~~i~~~e~~il 88 (88)
T cd00043 77 EEEILRMEKLLL 88 (88)
T ss_pred HHHHHHHHHHhC
Confidence 999999999875
No 16
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=99.49 E-value=1.3e-13 Score=102.38 Aligned_cols=83 Identities=29% Similarity=0.340 Sum_probs=73.5
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhcccccCHHHHHH
Q 021047 55 SLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQKLIFDAQTIHR 134 (318)
Q Consensus 55 ~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~~~~~~~~~i~~ 134 (318)
+||.+++..+++++++.++|++++|||+....+.+.. .+++|++|++||+|++|..++..++....++ |+.++|.+
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~---~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~-~~~~~i~~ 76 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYS---PSLIAAAALYLAAKTEEIPPWTKELVHYTGY-FTEEEILR 76 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCC---HHHHHHHHHHHHHHHhcCCCCchhHhHhhCC-CCHHHHHH
Confidence 5999999999999999999999999999977776666 9999999999999999998667777655543 79999999
Q ss_pred HHHHHHH
Q 021047 135 MELLILD 141 (318)
Q Consensus 135 mE~~IL~ 141 (318)
||+.||.
T Consensus 77 ~~~~il~ 83 (83)
T smart00385 77 MEKLLLE 83 (83)
T ss_pred HHHHHhC
Confidence 9999874
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.03 E-value=4.8e-08 Score=89.92 Aligned_cols=185 Identities=15% Similarity=0.183 Sum_probs=157.3
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhccccc
Q 021047 48 SLRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQKLIF 127 (318)
Q Consensus 48 ~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~~~~~ 127 (318)
..-..+..-|-.++..++++..+.-.|..++=+.+.+.-+.... .+-++++|+++|++.......+.++.... ..
T Consensus 95 rnl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRs---ie~v~AA~iY~acR~~~~prtl~eIa~a~--~V 169 (285)
T COG1405 95 RNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRS---IESVAAACIYAACRINGVPRTLDEIAKAL--GV 169 (285)
T ss_pred hHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCc---HHHHHHHHHHHHHHHcCCCccHHHHHHHH--CC
Confidence 34445677788899999999999999999999999888877666 99999999999999998877777776665 37
Q ss_pred CHHHHHHHHHHHHHHcCccccccChHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHH
Q 021047 128 DAQTIHRMELLILDALNWRMRSITPFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLS 207 (318)
Q Consensus 128 ~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a 207 (318)
++++|.++.+.+...|+=.+.+.-|..|+..|...++.++ .....+.+++..+...-.-.+-.|+-+|+||||+|
T Consensus 170 ~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~-----~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~a 244 (285)
T COG1405 170 SKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSD-----EVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLA 244 (285)
T ss_pred CHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCH-----HHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHH
Confidence 7899999999999999999999999999999999999873 34567778888777766777999999999999999
Q ss_pred HhhhCCCCCcchHHHhhhhcCCCcccHHHHHHHHHHHH
Q 021047 208 SYELFPLQFPSFKTSILSSDYVNKEDLSKCYDTVQEMV 245 (318)
Q Consensus 208 ~~~l~~~~~~~~~~~l~~~~~~~~~~l~~C~~~l~~~~ 245 (318)
....+ ...-+..+..++|+++..|+.=++.|.+.+
T Consensus 245 s~l~~---~~~tq~eva~v~~vtevTIrnrykel~~~~ 279 (285)
T COG1405 245 SLLLG---ERRTQKEVAKVAGVTEVTIRNRYKELADAL 279 (285)
T ss_pred HHHhC---CchHHHHHHHHhCCeeeHHHHHHHHHHHhh
Confidence 98765 334567889999999999999998777654
No 18
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.72 E-value=1.1e-06 Score=79.55 Aligned_cols=181 Identities=17% Similarity=0.145 Sum_probs=141.8
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhcccccCHH
Q 021047 51 QETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQKLIFDAQ 130 (318)
Q Consensus 51 ~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~~~~~~~~ 130 (318)
.....-|..++...+|+....-.|-.+|-++-......... ..-+++|||+||+.-++....+.++....+ .+.+
T Consensus 105 ~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks---~eai~AAclyiACRq~~~pRT~kEI~~~an--v~kK 179 (308)
T KOG1597|consen 105 KAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKS---VEALAAACLYIACRQEDVPRTFKEISAVAN--VSKK 179 (308)
T ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCcc---HHHHHHHHHHHHHHhcCCCchHHHHHHHHc--CCHH
Confidence 33445577899999999999999999999999666665555 999999999999997776555777766653 8899
Q ss_pred HHHHHHHHHHHHcCccccccC--hHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccc-cccCHHHHHHHHHHHH
Q 021047 131 TIHRMELLILDALNWRMRSIT--PFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKL-LEFRPSVIAASAVLLS 207 (318)
Q Consensus 131 ~i~~mE~~IL~~L~w~l~~pT--p~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~-~~~~PS~iAaAai~~a 207 (318)
+|-+.=+.|+..|+=.+...| .-+|+.+|...+..+. .....|.++...+. +..+ .+-.|=.||||+||++
T Consensus 180 EIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~-----~~q~aA~e~a~ka~-~~~~~~gRsPiSIAAa~IYmi 253 (308)
T KOG1597|consen 180 EIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPK-----SAQEAATEIAEKAE-EMDIRAGRSPISIAAAAIYMI 253 (308)
T ss_pred HHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCH-----HHHHHHHHHHHHHH-HhccccCCCchhHHHHHHHHH
Confidence 999999999999998777666 8899999999998874 23344555555443 2333 3478999999999999
Q ss_pred HhhhCCCCCcchHHHhhhhcCCCcccHHHHHHHHHHHH
Q 021047 208 SYELFPLQFPSFKTSILSSDYVNKEDLSKCYDTVQEMV 245 (318)
Q Consensus 208 ~~~l~~~~~~~~~~~l~~~~~~~~~~l~~C~~~l~~~~ 245 (318)
.+.-. .+.-...+..++|+.+.-|+.-|+.|....
T Consensus 254 sqls~---~kkt~keI~~vtgVaE~TIr~sYK~Lyp~~ 288 (308)
T KOG1597|consen 254 SQLSD---EKKTQKEIGEVTGVAEVTIRNSYKDLYPHA 288 (308)
T ss_pred HHhcc---CcccHHHHHHHhhhhHHHHHHHHHHHhhch
Confidence 87553 223467888999999999999999998744
No 19
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=98.40 E-value=2.1e-06 Score=71.96 Aligned_cols=93 Identities=18% Similarity=0.247 Sum_probs=67.2
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHHHhc---CCccCCCCchhHHHHHHHHHHhhhhhccCCCC-hhhhhhhccccc
Q 021047 52 ETVSLILQIQFACNFEPFISYLAVTYLDRFIS---RQEIPQGKPWVLRLLAVSCISLAAKMKNTHFP-LSKFQGDQKLIF 127 (318)
Q Consensus 52 ~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls---~~~v~~~~~~~lqL~avacL~iAaK~eE~~~p-l~dl~~~~~~~~ 127 (318)
.+.+|+.++...-+++++++.+|..|+||+.. ...+.- .+....-+-++|+.+|+|+-+-... -..+.... .+
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~-~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~--gi 129 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPL-NSSNIHRLFLTALILASKFLDDNTYSNKSWAKVG--GI 129 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT----STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHH--TS
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhccccccc-ccchhHHHHHHHHHHHHhhcccccccHHHHHhhc--CC
Confidence 37789999999999999999999999999999 333222 2334778889999999999665533 44554444 47
Q ss_pred CHHHHHHHHHHHHHHcCccc
Q 021047 128 DAQTIHRMELLILDALNWRM 147 (318)
Q Consensus 128 ~~~~i~~mE~~IL~~L~w~l 147 (318)
+.+++.+||+..|..|+|+|
T Consensus 130 s~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 130 SLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp -HHHHHHHHHHHHHHTTT--
T ss_pred CHHHHHHHHHHHHHHCCCcC
Confidence 99999999999999999986
No 20
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=98.36 E-value=2.5e-06 Score=63.30 Aligned_cols=85 Identities=18% Similarity=0.194 Sum_probs=72.0
Q ss_pred ccChHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcC
Q 021047 149 SITPFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDY 228 (318)
Q Consensus 149 ~pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~ 228 (318)
.+++.+|+..+...++.+. .....+..+++..+....+..+.|+.||+||+++|.+..+. +.|...+..+++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~-----~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~---~~~~~~~~~~~~ 73 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP-----ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI---PPWLKDLVHVTG 73 (88)
T ss_pred cchHHHHHHHHHHHcCCCH-----HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC---CCCHHHHhHHhC
Confidence 5899999999999997652 34567788888888888889999999999999999987653 668899999999
Q ss_pred C-CcccHHHHHHHH
Q 021047 229 V-NKEDLSKCYDTV 241 (318)
Q Consensus 229 ~-~~~~l~~C~~~l 241 (318)
+ +.++|..+.+.|
T Consensus 74 ~~~~~~i~~~e~~i 87 (88)
T cd00043 74 YATEEEILRMEKLL 87 (88)
T ss_pred CCCHHHHHHHHHHh
Confidence 9 999999988765
No 21
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=98.35 E-value=1.7e-06 Score=63.67 Aligned_cols=81 Identities=20% Similarity=0.264 Sum_probs=67.0
Q ss_pred HHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCC-Ccc
Q 021047 154 SFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYV-NKE 232 (318)
Q Consensus 154 ~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~-~~~ 232 (318)
+|+..+...++.+. .....+.++++.++.+..+..++|+.||+||+++|.+..+. +.|...+..++|+ +++
T Consensus 1 ~~l~~~~~~~~~~~-----~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~---~~~~~~~~~~~~~~~~~ 72 (83)
T smart00385 1 DFLRRVCKALNLDP-----ETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEI---PPWTKELVHYTGYFTEE 72 (83)
T ss_pred CHHHHHHHHcCCCH-----HHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcC---CCCchhHhHhhCCCCHH
Confidence 47888888887652 45567888888888888899999999999999999988753 2478888889998 999
Q ss_pred cHHHHHHHHH
Q 021047 233 DLSKCYDTVQ 242 (318)
Q Consensus 233 ~l~~C~~~l~ 242 (318)
++.+|.+.|.
T Consensus 73 ~i~~~~~~il 82 (83)
T smart00385 73 EILRMEKLLL 82 (83)
T ss_pred HHHHHHHHHh
Confidence 9999988774
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.08 E-value=5.6e-06 Score=77.53 Aligned_cols=103 Identities=17% Similarity=0.294 Sum_probs=85.8
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCC-hhhhh--h
Q 021047 45 FYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFP-LSKFQ--G 121 (318)
Q Consensus 45 i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~p-l~dl~--~ 121 (318)
+|..--+.+=.-|.++....++..-|+.+|-.||.....+..+.+.+ -.|.|.|||.+|+||.+..-. +..|+ .
T Consensus 377 LTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~N---RKlcAGAclLlaaKmnD~Kks~vKslIek~ 453 (497)
T KOG4164|consen 377 LTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQN---RKLCAGACLLLAAKMNDLKKSTVKSLIEKL 453 (497)
T ss_pred EeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhh---hhHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence 33333333444577888899999999999999999999999898887 999999999999999976655 66664 4
Q ss_pred hcccccCHHHHHHHHHHHHHHcCcccccc
Q 021047 122 DQKLIFDAQTIHRMELLILDALNWRMRSI 150 (318)
Q Consensus 122 ~~~~~~~~~~i~~mE~~IL~~L~w~l~~p 150 (318)
++.+.+.+.+++..|.-||.+|+|.|+.|
T Consensus 454 Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 454 EEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 45688999999999999999999999875
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.77 E-value=0.00046 Score=67.62 Aligned_cols=193 Identities=17% Similarity=0.147 Sum_probs=136.6
Q ss_pred CCCchhhhhccCCCC--HHHHHHHHH----HHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHh
Q 021047 32 PSHNFVQCLKITDFY--VSLRQETVS----LILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISL 105 (318)
Q Consensus 32 p~~~y~~~~~~~~i~--~~~R~~~v~----Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~i 105 (318)
+...|+..-|.+ .. ...|...+. -|-+++..+++.. .+-.|.++|---+...-.+... .+.+..+||+|
T Consensus 44 ~~G~~v~~~~~g-~~~s~e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~---~~~vvasClY~ 118 (521)
T KOG1598|consen 44 AQGQFVRVGQSG-AGSSLESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRR---STEVVAACLYL 118 (521)
T ss_pred cceeEEeccccC-CccchHHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcc---hHHHHHHHHHH
Confidence 444555544432 32 344444433 5778999999999 9999999999988888777777 99999999999
Q ss_pred hhhhccCCCChhhhhhhcccccCHHHHHHHHHHHHHHcCcc---ccccChHHHHHHHHHhhCCCCchhHHHHHHHHHHHH
Q 021047 106 AAKMKNTHFPLSKFQGDQKLIFDAQTIHRMELLILDALNWR---MRSITPFSFLCFFISLFEPKDPPLTQALKDRATDII 182 (318)
Q Consensus 106 AaK~eE~~~pl~dl~~~~~~~~~~~~i~~mE~~IL~~L~w~---l~~pTp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll 182 (318)
++..|-+..-+-||.... ..+.-++-.+=+.|-..|.=. +..+-|.-|+.+|...+...++. +.+...+..++
T Consensus 119 vcR~e~t~hlliDfS~~L--qv~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~--~~Vv~~a~~L~ 194 (521)
T KOG1598|consen 119 VCRLEKTDHLLIDFSSYL--QVSVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT--EDVAKTATRLA 194 (521)
T ss_pred HHHhhCCceEEEEeccce--EEehhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCch--HHHHHHHHHHH
Confidence 999988875555653332 233444555555556666666 67788999999999988766544 45677888898
Q ss_pred HHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCCCcccHHH
Q 021047 183 FRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYVNKEDLSK 236 (318)
Q Consensus 183 ~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~~~~~l~~ 236 (318)
.....|.-..+-+|+-|+.|||++|....+- ..-...+..+.++.+.-+..
T Consensus 195 ~rMkrdwm~tGRRPsglcGAaLliAar~h~~---~rsi~dIv~vvhV~e~Tl~k 245 (521)
T KOG1598|consen 195 QRMKRDWMQTGRRPSGLCGAALLIAARMHGF---RRTIGDIAKVVHVCESTLSK 245 (521)
T ss_pred HHHHHHHHHhCCCccchhHHHHHHHHHHcCc---cccHHHHHHHHHHhHHHHHH
Confidence 8888888889999999999999999988752 22234444444444444333
No 24
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=96.99 E-value=0.007 Score=43.85 Aligned_cols=63 Identities=16% Similarity=0.138 Sum_probs=51.1
Q ss_pred HHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhh
Q 021047 57 ILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGD 122 (318)
Q Consensus 57 i~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~ 122 (318)
|-+++..++++..+.-.|..++++-....-....+ ..-++++|+++|++.+....++.++...
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~---~~~iaAA~iY~acr~~~~~~t~~eIa~~ 63 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRS---PESIAAACIYLACRLNGVPRTLKEIAEA 63 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS----HHHHHHHHHHHHHHHTTSSSSHHHHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCC---HHHHHHHHHHHHHHHcCCCcCHHHHHHH
Confidence 45789999999999999999999998877666556 8899999999999999888888777443
No 25
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=96.15 E-value=0.024 Score=40.97 Aligned_cols=70 Identities=20% Similarity=0.160 Sum_probs=49.1
Q ss_pred HHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCCCccc
Q 021047 156 LCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYVNKED 233 (318)
Q Consensus 156 l~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~~~~~ 233 (318)
|..|...++.+. .+.+.+.++...+....-.-+-+|..+|+||||+|.+..+. +.-...+...+|+++..
T Consensus 1 I~r~~~~L~L~~-----~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~---~~t~~eIa~~~~Vs~~t 70 (71)
T PF00382_consen 1 IPRICSKLGLPE-----DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGV---PRTLKEIAEAAGVSEKT 70 (71)
T ss_dssp HHHHHHHTT--H-----HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTS---SSSHHHHHHHCTSSHHH
T ss_pred ChHHHhHcCCCH-----HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCC---CcCHHHHHHHhCCCCCc
Confidence 456777777653 56678888887766555556788999999999999987743 33467778888887654
No 26
>KOG1674 consensus Cyclin [General function prediction only]
Probab=95.34 E-value=0.078 Score=47.25 Aligned_cols=95 Identities=19% Similarity=0.287 Sum_probs=69.5
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCc------hh-HHHHHHHHHHhhhhhccCCCC-hhhhhhhccc
Q 021047 54 VSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKP------WV-LRLLAVSCISLAAKMKNTHFP-LSKFQGDQKL 125 (318)
Q Consensus 54 v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~------~~-lqL~avacL~iAaK~eE~~~p-l~dl~~~~~~ 125 (318)
-+++.++..+-+.+++++.+|..|||||....+....+| .+ ..-+-++|+.+|+|+.+...- -.-+...+
T Consensus 79 ~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vg-- 156 (218)
T KOG1674|consen 79 RQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVG-- 156 (218)
T ss_pred HHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhC--
Confidence 356677888899999999999999999999743111111 12 444779999999999865421 11122222
Q ss_pred ccCHHHHHHHHHHHHHHcCcccccc
Q 021047 126 IFDAQTIHRMELLILDALNWRMRSI 150 (318)
Q Consensus 126 ~~~~~~i~~mE~~IL~~L~w~l~~p 150 (318)
..+.+++-.+|...|..++|++.+.
T Consensus 157 gl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 157 GLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred CCChHhhhhhhHHHHhhCCeEEEec
Confidence 4678899999999999999999986
No 27
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=95.12 E-value=0.22 Score=46.75 Aligned_cols=90 Identities=9% Similarity=0.034 Sum_probs=71.6
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhhhhhcccccCHHHH
Q 021047 53 TVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKFQGDQKLIFDAQTI 132 (318)
Q Consensus 53 ~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl~~~~~~~~~~~~i 132 (318)
.-++|..++..++++..+.-.|..++.+.....-....+ ..-+|+||++||++..+...++.++.... ..+..+|
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~---P~sIAAAaIYlA~~~~g~~~t~keIa~v~--~Vs~~tI 293 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKG---PTGLAAAAIYIASLLLGERRTQREVAEVA--GVTEVTV 293 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCC---HHHHHHHHHHHHHHHhCCCCCHHHHHHHc--CCCHHHH
Confidence 358899999999999999999999998887655444555 89999999999999988776677775444 4678888
Q ss_pred HHHHHHHHHHcCccc
Q 021047 133 HRMELLILDALNWRM 147 (318)
Q Consensus 133 ~~mE~~IL~~L~w~l 147 (318)
.+.=+.|+..|+..+
T Consensus 294 ~~~ykel~~~l~~~~ 308 (310)
T PRK00423 294 RNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHhCccc
Confidence 887777777776433
No 28
>PF09080 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IPR015164 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This domain adopts a secondary structure consisting of a five alpha-helix cyclin fold. Interaction with cyclin dependent kinases (CDKs) at a PSTAIRE sequence motif within the catalytic cleft of CDK results in the regulation of CDK activity []. ; PDB: 1G3N_C.
Probab=92.74 E-value=2.3 Score=31.96 Aligned_cols=93 Identities=16% Similarity=0.110 Sum_probs=60.1
Q ss_pred hHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHH-HHHHHHhhhCCC--CCcchHHHhhhhcC
Q 021047 152 PFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAAS-AVLLSSYELFPL--QFPSFKTSILSSDY 228 (318)
Q Consensus 152 p~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaA-ai~~a~~~l~~~--~~~~~~~~l~~~~~ 228 (318)
|-+-+...+-+.....+.+ .++..+..+++..++.+..--..+||.||+| |-+++....-|. ......++|....|
T Consensus 4 ~TD~~~~~L~K~~~~~e~L-~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~~~~~~~~~LA~~~G 82 (106)
T PF09080_consen 4 PTDAIGPLLFKSGFTKEQL-FAWHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDTHSGGVVPQLAEALG 82 (106)
T ss_dssp CHHHHHHHHHHHS-SSTTH-HHHHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------HHHHHHHHHT
T ss_pred ccccccHHHHHHcccHHHH-HHHHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCccccccchHHHHHHhC
Confidence 3444555555554443333 4677888899999999999999999999999 777776655443 22335678888899
Q ss_pred CCcccHHHHHHHHHHHH
Q 021047 229 VNKEDLSKCYDTVQEMV 245 (318)
Q Consensus 229 ~~~~~l~~C~~~l~~~~ 245 (318)
++..-+..-.+.+..-+
T Consensus 83 ~~~a~L~AA~E~v~Tt~ 99 (106)
T PF09080_consen 83 VSAATLQAAAESVATTL 99 (106)
T ss_dssp --HHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHH
Confidence 99888877777766543
No 29
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=86.41 E-value=2.8 Score=32.50 Aligned_cols=84 Identities=19% Similarity=0.165 Sum_probs=51.8
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCCh-hhhhhhcccccCHHHHH
Q 021047 55 SLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPL-SKFQGDQKLIFDAQTIH 133 (318)
Q Consensus 55 ~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl-~dl~~~~~~~~~~~~i~ 133 (318)
+||.......+.+.++-.+|-.+++-.+....+-.-+ .-++|++|+++|.++-....+. ..+.... .++.+++.
T Consensus 5 ~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~---PS~iAaAai~lA~~~~~~~~~~~~~l~~~t--~~~~~~l~ 79 (118)
T PF02984_consen 5 DFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYP---PSVIAAAAILLARKILGKEPPWPESLEKLT--GYDKEDLK 79 (118)
T ss_dssp HHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS----HHHHHHHHHHHHHHHHHSSTCSHHHHHHHH--TS-HHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCC---HHHHHHHHHHHHHHHhCccccCCccchhhc--CCCHHHHH
Confidence 4444443333335567777888888777766665556 8899999999999996643343 3343343 35777777
Q ss_pred HHHHHHHHHc
Q 021047 134 RMELLILDAL 143 (318)
Q Consensus 134 ~mE~~IL~~L 143 (318)
..=..|.+.+
T Consensus 80 ~c~~~i~~~~ 89 (118)
T PF02984_consen 80 ECIELIQELL 89 (118)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 6554444444
No 30
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=84.73 E-value=5.8 Score=36.83 Aligned_cols=66 Identities=11% Similarity=0.013 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCChhhh
Q 021047 51 QETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKF 119 (318)
Q Consensus 51 ~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl 119 (318)
..-.++|-..+..++++.++--.|..+++............ ..-+|++|++||+++......-.+.
T Consensus 192 ~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~---P~glAaaaiy~as~l~~~~~tq~ev 257 (285)
T COG1405 192 VDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKS---PAGLAAAAIYLASLLLGERRTQKEV 257 (285)
T ss_pred CCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCC---chhHHHHHHHHHHHHhCCchHHHHH
Confidence 34568888999999999999999999999999887766556 8889999999999987744333333
No 31
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=83.99 E-value=8 Score=35.80 Aligned_cols=87 Identities=21% Similarity=0.298 Sum_probs=59.4
Q ss_pred hHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccc-cCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhcCCC
Q 021047 152 PFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLE-FRPSVIAASAVLLSSYELFPLQFPSFKTSILSSDYVN 230 (318)
Q Consensus 152 p~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~-~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~~~~ 230 (318)
.+.=+..+...++.. ..+..++.++....- +...+. -.--.|+||||+.|.+..+ .|--...+..+.+++
T Consensus 107 a~~~I~~m~d~~~Lp-----~~I~d~A~~ifk~v~-~~k~lrGks~eai~AAclyiACRq~~---~pRT~kEI~~~anv~ 177 (308)
T KOG1597|consen 107 AFKEITAMCDRLSLP-----ATIKDRANEIFKLVE-DSKLLRGKSVEALAAACLYIACRQED---VPRTFKEISAVANVS 177 (308)
T ss_pred HHHHHHHHHHHhCCc-----hHHHHHHHHHHHHHH-HhhhhcCccHHHHHHHHHHHHHHhcC---CCchHHHHHHHHcCC
Confidence 344444555555544 245667777665433 454543 4455799999999998764 344567788888999
Q ss_pred cccHHHHHHHHHHHHHh
Q 021047 231 KEDLSKCYDTVQEMVEM 247 (318)
Q Consensus 231 ~~~l~~C~~~l~~~~~~ 247 (318)
+.+|-+|++.|.+-+..
T Consensus 178 kKEIgr~~K~i~~~l~~ 194 (308)
T KOG1597|consen 178 KKEIGRCVKLIGEALET 194 (308)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 99999999999887653
No 32
>PF09241 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: IPR015322 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry represents a domain found in a family of viral cyclins that specifically activate CDK6 of host cells to a very high degree []. This domain adopts a helical structure consisting of five alpha-helices, with one helix surrounded by the others.; PDB: 1XO2_A 1JOW_A 2F2C_A 2EUF_A 1BU2_A.
Probab=81.22 E-value=20 Score=26.67 Aligned_cols=94 Identities=13% Similarity=0.105 Sum_probs=68.4
Q ss_pred hHHHHHHHHHhhCCCCchhHHHHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCC--CCCcchHHHhhhhcCC
Q 021047 152 PFSFLCFFISLFEPKDPPLTQALKDRATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFP--LQFPSFKTSILSSDYV 229 (318)
Q Consensus 152 p~~Fl~~~l~~~~~~~~~~~~~l~~~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~--~~~~~~~~~l~~~~~~ 229 (318)
.-+|+-...+.+... ++++..+.+.+.-.+-.++......-.+|-.|.++.++..+..-+. ..+..+.+.|..+.++
T Consensus 4 ~tdflip~c~alkip-e~~wpql~e~~s~tickaliqpniall~p~licaggllttiet~ntn~~~wt~yledl~~ilnf 82 (106)
T PF09241_consen 4 STDFLIPVCHALKIP-EDFWPQLFEATSITICKALIQPNIALLPPCLICAGGLLTTIETDNTNCQPWTCYLEDLSCILNF 82 (106)
T ss_dssp GGGGHHHHHHHTT---GGGHHHHHHHHHHHHHHHTTSGGGGGS-HHHHHHHHHHHHHHTS-TSSSTCHHHHHHHHHHHTC
T ss_pred hhhhHHHhhhhccCc-HHHhHHHHHHHHHHHHHHHcCCCccccCcceeecccceEEEeccCCCCcchhhhHHhhHHHhhc
Confidence 457888888888765 5677777777777777788888888899999999999988875432 2344566777778888
Q ss_pred CcccHHHHHHHHHHHHH
Q 021047 230 NKEDLSKCYDTVQEMVE 246 (318)
Q Consensus 230 ~~~~l~~C~~~l~~~~~ 246 (318)
+...++..-+.+.+.++
T Consensus 83 stntirt~kdqv~ea~~ 99 (106)
T PF09241_consen 83 STNTIRTVKDQVSEAFS 99 (106)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred ccchhhhHHHHHHHHHH
Confidence 88888887777776553
No 33
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=77.40 E-value=2.8 Score=39.50 Aligned_cols=89 Identities=16% Similarity=0.170 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCCccCCCCchhHHHHHHHHHHhhhhhccCCCCh-hhh--hhhcccccC
Q 021047 52 ETVSLILQIQFACNFEPFISYLAVTYLDRFISRQEIPQGKPWVLRLLAVSCISLAAKMKNTHFPL-SKF--QGDQKLIFD 128 (318)
Q Consensus 52 ~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~v~~~~~~~lqL~avacL~iAaK~eE~~~pl-~dl--~~~~~~~~~ 128 (318)
-+++++..+-..-+........|-+++-..+...-.-+.+ .+-+|++|++||+|+-....|. .+- ....+-..+
T Consensus 154 ~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~---p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt 230 (323)
T KOG0834|consen 154 YLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYS---PHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVT 230 (323)
T ss_pred HHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeec---CcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCC
Confidence 3444444444444433345566666665555444333334 7789999999999998887664 332 111111366
Q ss_pred HHHHHHHHHHHHHHc
Q 021047 129 AQTIHRMELLILDAL 143 (318)
Q Consensus 129 ~~~i~~mE~~IL~~L 143 (318)
.+.+..+...+|...
T Consensus 231 ~e~l~~i~~~~l~~y 245 (323)
T KOG0834|consen 231 NELLDDICHEFLDLY 245 (323)
T ss_pred HHHHHHHHHHHHHHH
Confidence 677766655555433
No 34
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=75.12 E-value=5.1 Score=37.30 Aligned_cols=99 Identities=11% Similarity=0.188 Sum_probs=61.1
Q ss_pred HHHHcCCChhHHHHHHHHHHHHhcCCccC-CCCchhHHHHHHHHHHhhhhhccCCCCh-hhhhhhcccccCHHHHHHHHH
Q 021047 60 IQFACNFEPFISYLAVTYLDRFISRQEIP-QGKPWVLRLLAVSCISLAAKMKNTHFPL-SKFQGDQKLIFDAQTIHRMEL 137 (318)
Q Consensus 60 v~~~~~l~~~t~~lAv~~lDRfls~~~v~-~~~~~~lqL~avacL~iAaK~eE~~~pl-~dl~~~~~~~~~~~~i~~mE~ 137 (318)
.+....+..+.......|++|-+...... ...+| ..+.....++|+|+-....-- -|.+... ---+++++..||+
T Consensus 200 l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w--~r~~~g~il~sskv~~dqs~wnvdycqIl-Kd~tveDmNe~ER 276 (343)
T KOG1675|consen 200 LFSWAQLTAECDIITLVYAERLLWLAERDPCPRNW--SRAVLGEILLSSKVYDDQSVWNVDYCEIL-KDQSVDDMNALER 276 (343)
T ss_pred HhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchh--hhhhhhhheehhhhhhhhhcccHHHHHHH-hhccHhhHHHHHH
Confidence 33344455555555668888888766543 22334 444444789999975543211 1211111 1257899999999
Q ss_pred HHHHHcCccccccChHHHHHHHHHh
Q 021047 138 LILDALNWRMRSITPFSFLCFFISL 162 (318)
Q Consensus 138 ~IL~~L~w~l~~pTp~~Fl~~~l~~ 162 (318)
.+|..|+|+++.|.. .|..+|...
T Consensus 277 qfLelLqfNinvp~s-vYAKyYfdl 300 (343)
T KOG1675|consen 277 QFLELLQFNINVPSS-EYAKYYFDL 300 (343)
T ss_pred HHHHHHhhccCccHH-HHHHHHHHH
Confidence 999999999998854 455555443
No 35
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=66.30 E-value=49 Score=25.75 Aligned_cols=65 Identities=15% Similarity=0.083 Sum_probs=37.8
Q ss_pred HHHHHHHHHcccccccccCHHHHHHHHHHHHHhhhCCCCCcchHHHhhhhc--CCCcccHHHHHHHHHH
Q 021047 177 RATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYELFPLQFPSFKTSILSSD--YVNKEDLSKCYDTVQE 243 (318)
Q Consensus 177 ~~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l~~~~~~~~~~~l~~~~--~~~~~~l~~C~~~l~~ 243 (318)
.|..+++.-+.........+..+|+||+++|.+..+. .+.+...+.... .++.+++..-=..|..
T Consensus 54 ~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~--~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~ 120 (127)
T PF00134_consen 54 LAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEED--NPPSISDLIRISDNTFTKKDILEMEREILS 120 (127)
T ss_dssp HHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTS--S--HHHHHHHHTTTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcc--ccchHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 4444555444445567788899999999999997653 222344444443 3555555554444433
No 36
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=66.24 E-value=35 Score=32.22 Aligned_cols=42 Identities=19% Similarity=0.240 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhhhhhccCCCC-hhhhhhhcccccCHHHHHHHHHH
Q 021047 95 LRLLAVSCISLAAKMKNTHFP-LSKFQGDQKLIFDAQTIHRMELL 138 (318)
Q Consensus 95 lqL~avacL~iAaK~eE~~~p-l~dl~~~~~~~~~~~~i~~mE~~ 138 (318)
--++|++|.++||..+|+..| .++.-.. +.+++.+|...=..
T Consensus 182 pe~iACaciyLaAR~~eIpLp~~P~Wf~~--Fd~~k~eid~ic~~ 224 (367)
T KOG0835|consen 182 PESIACACIYLAARNLEIPLPFQPHWFKA--FDTTKREIDEICYR 224 (367)
T ss_pred HHHHHHHHHHHHHhhhcCCCCCCccHHHH--cCCcHHHHHHHHHH
Confidence 668999999999999997655 3443333 24677776654333
No 37
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=41.50 E-value=72 Score=29.91 Aligned_cols=34 Identities=21% Similarity=0.244 Sum_probs=23.8
Q ss_pred HHHHHHHHcccccccccCHHHHHHHHHHHHHhhh
Q 021047 178 ATDIIFRAHSEIKLLEFRPSVIAASAVLLSSYEL 211 (318)
Q Consensus 178 ~~~ll~~~l~d~~~~~~~PS~iAaAai~~a~~~l 211 (318)
|..+...-.....+..|.|-.||++||++|.+.-
T Consensus 82 Aivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvE 115 (305)
T TIGR00569 82 AIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVE 115 (305)
T ss_pred HHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcc
Confidence 3333333334556678999999999999998754
No 38
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=39.36 E-value=1.5e+02 Score=21.67 Aligned_cols=73 Identities=10% Similarity=0.075 Sum_probs=45.6
Q ss_pred CcCCCCCCCchhchHHHHHH------HHHHhhhhCCCCchhhhhccCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHH
Q 021047 3 FDLENPFTSFEEHQSDTLLD------LFATESDHMPSHNFVQCLKITDFYVSLRQETVSLILQIQFACNFEPFISYLAVT 76 (318)
Q Consensus 3 ~d~~~~l~~~~eY~~di~~~------L~~~E~~~~p~~~y~~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~ 76 (318)
|.+.....++.|...|-+.- ..+.|..+-. ..-.. ....-...-|..+|++|..+...-|++.+ .||.
T Consensus 2 ~~m~~~~~TV~dlw~Ew~~g~~g~psI~~le~~yG~--~WR~~-~~~~~~y~rRK~Ii~~I~~l~~~~g~~~~---~ai~ 75 (81)
T PF12550_consen 2 FKMSRSIKTVYDLWREWFTGLNGQPSIRSLEKKYGS--KWRRD-SKERRTYSRRKVIIDFIERLANERGISEE---EAIE 75 (81)
T ss_pred eecCCCCCcHHHHHHHHhcCCCCCCCHHHHHHHhCh--hhccC-cccchhHHHHHHHHHHHHHHHHHcCCCHH---HHHH
Confidence 44455555666666666554 6666776642 12211 11224567899999999999888877654 5677
Q ss_pred HHHHH
Q 021047 77 YLDRF 81 (318)
Q Consensus 77 ~lDRf 81 (318)
.+|.+
T Consensus 76 ~le~~ 80 (81)
T PF12550_consen 76 ILEEI 80 (81)
T ss_pred HHHhc
Confidence 77754
No 39
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=31.83 E-value=1.8e+02 Score=23.75 Aligned_cols=63 Identities=6% Similarity=0.093 Sum_probs=45.9
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHhcCCc-cCCCCchhHHHHHHHHHHhhhhhccCCCChhhh
Q 021047 55 SLILQIQFACNFEPFISYLAVTYLDRFISRQE-IPQGKPWVLRLLAVSCISLAAKMKNTHFPLSKF 119 (318)
Q Consensus 55 ~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~~-v~~~~~~~lqL~avacL~iAaK~eE~~~pl~dl 119 (318)
.-|.++|..++++++..-..-..|+..+.... +-+++ ++--+-++|+++-+|+........++
T Consensus 16 ~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dR--HLDQiilCaiY~i~Kv~~~~~sF~~I 79 (135)
T PF01857_consen 16 VRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDR--HLDQIILCAIYGICKVSKEELSFKDI 79 (135)
T ss_dssp HHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS---HHHHHHHHHHHHHHHTT-S--HHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcc--hHHHHHHHHHHHHHHhhcCCCCHHHH
Confidence 44678999999999887888888888887543 44444 58889999999999998754444555
No 40
>cd04441 DEP_2_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=29.07 E-value=50 Score=24.82 Aligned_cols=30 Identities=17% Similarity=0.109 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 021047 50 RQETVSLILQIQFACNFEPFISYLAVTYLDR 80 (318)
Q Consensus 50 R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDR 80 (318)
=.++||||++.. ...-..+++.++..++|.
T Consensus 35 GsElVdWL~~~~-~~~sR~eAv~lgq~Ll~~ 64 (85)
T cd04441 35 GSEFIDWLLQEG-EAESRREAVQLCRRLLEH 64 (85)
T ss_pred chHHHHHHHHcC-CCCCHHHHHHHHHHHHHC
Confidence 368999999854 222234444555444443
No 41
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=26.61 E-value=1e+02 Score=30.94 Aligned_cols=67 Identities=10% Similarity=0.055 Sum_probs=49.3
Q ss_pred HHHHHHHHHHhhhhCCCCchhhhhccCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhc
Q 021047 17 SDTLLDLFATESDHMPSHNFVQCLKITDFYVSLRQETVSLILQIQFACNFEPFISYLAVTYLDRFIS 83 (318)
Q Consensus 17 ~di~~~L~~~E~~~~p~~~y~~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls 83 (318)
++...+|...|.++..+.+.+..+.+.++.+..|..+.+++-++++...+-.-+--..+|-|.-||.
T Consensus 549 ~qL~DNL~qlErrCKaSWe~L~~Iakhe~~p~l~~r~~~fl~~cA~RI~~LKivhrr~~NRfHSFLL 615 (817)
T KOG1925|consen 549 EQLTDNLGQLERRCKASWESLRSIAKHELAPALRARLTHFLDQCARRIAMLKIVHRRVCNRFHSFLL 615 (817)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677899999999999888888888888999999999999998887654322222223344444443
No 42
>cd04449 DEP_DEPDC5-like DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
Probab=26.39 E-value=60 Score=24.02 Aligned_cols=31 Identities=13% Similarity=0.054 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 021047 50 RQETVSLILQIQFACNFEPFISYLAVTYLDR 80 (318)
Q Consensus 50 R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDR 80 (318)
=.++|+||.+-.....-..+++.++-.++|.
T Consensus 32 G~e~VdWL~~~~~~~~~r~eAv~lgq~Ll~~ 62 (83)
T cd04449 32 GSEAVSWLINNFEDVDTREEAVELGQELMNE 62 (83)
T ss_pred hHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC
Confidence 4789999997543222334455555555543
No 43
>cd04439 DEP_1_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and by the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=25.12 E-value=56 Score=24.21 Aligned_cols=30 Identities=23% Similarity=0.101 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 021047 50 RQETVSLILQIQFACNFEPFISYLAVTYLDR 80 (318)
Q Consensus 50 R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDR 80 (318)
=.++|+||++... ..-..+.+.++-.++|.
T Consensus 31 GselVdWL~~~~~-~~~r~eAv~lg~~Ll~~ 60 (81)
T cd04439 31 GNEFVSWLLEIGE-ISKPEEGVNLGQALLEN 60 (81)
T ss_pred hHHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 4679999997642 11123556666555553
No 44
>cd04443 DEP_GPR155 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in GPR155-like proteins. GRP155-like proteins, also known as PGR22, contain an N-terminal permease domain, a central transmembrane region and a C-terminal DEP domain. They are orphan receptors of the class B G protein-coupled receptors. Their function is unknown.
Probab=25.00 E-value=65 Score=24.01 Aligned_cols=31 Identities=10% Similarity=0.054 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 021047 49 LRQETVSLILQIQFACNFEPFISYLAVTYLDR 80 (318)
Q Consensus 49 ~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDR 80 (318)
.=.++|+||++... ..-..+++.++-.++|.
T Consensus 32 ~GselVdWL~~~~~-~~sR~eAv~lg~~Ll~~ 62 (83)
T cd04443 32 CGCDLVSWLIEVGL-AQDRGEAVLYGRRLLQG 62 (83)
T ss_pred cHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 34679999998521 12234555555555553
No 45
>PF03261 CDK5_activator: Cyclin-dependent kinase 5 activator protein; InterPro: IPR004944 These proteins are neuron specific activators of cyclin-dependent kinase 5 (CDK5) []. They form a heterodimer with the catalytic subunit (CDK5) [].; GO: 0016534 cyclin-dependent protein kinase 5 activator activity, 0016533 cyclin-dependent protein kinase 5 holoenzyme complex; PDB: 3O0G_D 1H4L_E 1UNH_D 1UNL_E 1UNG_E.
Probab=24.78 E-value=3e+02 Score=26.27 Aligned_cols=31 Identities=19% Similarity=0.493 Sum_probs=21.1
Q ss_pred hhHHHHHHHHHHhhhhh--ccCCCChhhhhhhc
Q 021047 93 WVLRLLAVSCISLAAKM--KNTHFPLSKFQGDQ 123 (318)
Q Consensus 93 ~~lqL~avacL~iAaK~--eE~~~pl~dl~~~~ 123 (318)
-.+|-+.++||+||--| .|+..|+.-|+++.
T Consensus 270 ~~l~~~~l~cly~sysy~gneisyplkpflv~~ 302 (346)
T PF03261_consen 270 RELQAIVLTCLYLSYSYMGNEISYPLKPFLVEE 302 (346)
T ss_dssp HHHHHHHHHHHHHHHHHH-SSS---SGGG--SS
T ss_pred HHHHHHHHHHHHHHhhhcCcccccccCCeeecc
Confidence 35999999999999887 46667887776554
No 46
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=24.50 E-value=1.9e+02 Score=20.31 Aligned_cols=30 Identities=7% Similarity=-0.184 Sum_probs=25.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHH
Q 021047 44 DFYVSLRQETVSLILQIQFACNFEPFISYLAVTY 77 (318)
Q Consensus 44 ~i~~~~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~ 77 (318)
.+++.....+.+|+ ..++++++++..|+.+
T Consensus 12 ~ls~~e~~~i~~~~----~~~~~~~evI~~ai~~ 41 (73)
T TIGR01446 12 MLSPFEMEDLKYWL----DEFGNSPELIKEALKE 41 (73)
T ss_pred CCCHHHHHHHHHHH----HHhCCCHHHHHHHHHH
Confidence 57888888888887 4678899999999877
No 47
>cd04442 DEP_1_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=23.23 E-value=67 Score=23.93 Aligned_cols=11 Identities=9% Similarity=0.404 Sum_probs=8.8
Q ss_pred HHHHHHHHHHH
Q 021047 51 QETVSLILQIQ 61 (318)
Q Consensus 51 ~~~v~Wi~~v~ 61 (318)
.++||||++..
T Consensus 32 selVdWL~~~~ 42 (82)
T cd04442 32 KELIDWLIEHK 42 (82)
T ss_pred HHHHHHHHHcC
Confidence 57999999654
No 48
>cd04438 DEP_dishevelled DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in dishevelled-like proteins. Dishevelled-like proteins play a key role in the transduction of the Wnt signal from the cell surface to the nucleus, which in turn is an important regulatory pathway for cellular development and growth. They contain an N-terminal DIX domain, a central PDZ domain, and a C-terminal DEP domain.
Probab=22.37 E-value=79 Score=23.59 Aligned_cols=31 Identities=13% Similarity=-0.041 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 021047 50 RQETVSLILQIQFACNFEPFISYLAVTYLDR 80 (318)
Q Consensus 50 R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDR 80 (318)
=.++|+||++-.....-..+++.++-.+++.
T Consensus 32 GsdlVdWL~~~~~~~~~R~eAv~~g~~Ll~~ 62 (84)
T cd04438 32 GSDLVDWLLSHVEGLTDRREARKYASSLLKL 62 (84)
T ss_pred chHHHHHHHHhCCCCCCHHHHHHHHHHHHHC
Confidence 4679999988654444445666666666554
No 49
>cd04447 DEP_BRCC3 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in BBRC3-like proteins. BBRC3, also known as DEPDC1B, is a DEP containing protein of unknown function.
Probab=21.22 E-value=1.6e+02 Score=22.44 Aligned_cols=38 Identities=21% Similarity=0.343 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHH-cCCC-hhHHHHHHHHHHHHhcCCcc
Q 021047 50 RQETVSLILQIQFA-CNFE-PFISYLAVTYLDRFISRQEI 87 (318)
Q Consensus 50 R~~~v~Wi~~v~~~-~~l~-~~t~~lAv~~lDRfls~~~v 87 (318)
=.++||||.+.-.. -+|. .-|-..||.++.++|...-+
T Consensus 32 gsEAVDwL~~~l~~n~~fg~~vtR~~av~l~qkll~~hVi 71 (92)
T cd04447 32 ASEAVDWLHELLRSNSNFGPEVTRQQTVQLLKKFLKNHVI 71 (92)
T ss_pred hHHHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHcCCc
Confidence 36899999987532 2233 44788999999999987765
No 50
>cd04440 DEP_2_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=20.18 E-value=83 Score=24.07 Aligned_cols=30 Identities=17% Similarity=0.162 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q 021047 49 LRQETVSLILQIQFACNFEPFISYLAVTYLD 79 (318)
Q Consensus 49 ~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lD 79 (318)
.=.++|+||++.. ...-..+++.++..++|
T Consensus 39 vGsElVdWLi~~g-~~~tR~eAv~~gq~Ll~ 68 (93)
T cd04440 39 PASKLVDWLLAQG-DCRTREEAVILGVGLCN 68 (93)
T ss_pred chhHHHHHHHHcC-CCCCHHHHHHHHHHHHh
Confidence 3467999999873 22223344444444444
No 51
>cd04437 DEP_Epac DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by cyclic AMP, a second messenger that plays a role in the control of diverse cellular processes, such as cell adhesion and insulin secretion. Epac-like proteins share a common domain architecture, containing RasGEF, DEP and CAP-effector (cAMP binding) domains. The DEP domain is involved in membrane localization.
Probab=20.11 E-value=83 Score=25.47 Aligned_cols=33 Identities=18% Similarity=0.101 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcCC
Q 021047 49 LRQETVSLILQIQFACNFEPFISYLAVTYLDRFISRQ 85 (318)
Q Consensus 49 ~R~~~v~Wi~~v~~~~~l~~~t~~lAv~~lDRfls~~ 85 (318)
.=.++||||++..... .+-..||.|-.+.+...
T Consensus 32 ~GsElVdWLl~~~~~v----~sR~eAv~lgq~Ll~~g 64 (125)
T cd04437 32 VGTELVDWLLQQSPCV----QSRSQAVGMWQVLLEEG 64 (125)
T ss_pred ccHHHHHHHHHcCCCC----CCHHHHHHHHHHHHhCC
Confidence 3467999999876322 23445555555555443
Done!