Query 017406
Match_columns 372
No_of_seqs 328 out of 1691
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 08:17:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017406.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017406hhsearch_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 1.1E-56 2.5E-61 430.6 23.6 319 21-368 7-334 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 1E-35 2.3E-40 279.2 17.3 219 60-295 106-337 (408)
3 KOG0653 Cyclin B and related k 100.0 1.3E-31 2.8E-36 267.7 20.0 234 66-312 128-367 (391)
4 COG5024 Cyclin [Cell division 100.0 8.3E-31 1.8E-35 260.5 13.8 231 65-308 181-414 (440)
5 KOG0654 G2/Mitotic-specific cy 99.9 1.5E-25 3.2E-30 217.7 7.6 201 82-296 123-325 (359)
6 TIGR00569 ccl1 cyclin ccl1. Un 99.9 2.4E-22 5.2E-27 193.8 18.7 191 93-292 53-251 (305)
7 PF00134 Cyclin_N: Cyclin, N-t 99.9 2.4E-22 5.3E-27 169.4 11.4 124 67-196 1-127 (127)
8 KOG0834 CDK9 kinase-activating 99.9 6.5E-22 1.4E-26 190.7 15.0 200 93-297 36-249 (323)
9 KOG0835 Cyclin L [General func 99.8 1.6E-19 3.4E-24 170.5 17.1 194 93-295 20-231 (367)
10 KOG0794 CDK8 kinase-activating 99.8 3.2E-19 6.9E-24 161.2 10.9 192 94-296 39-241 (264)
11 COG5333 CCL1 Cdk activating ki 99.7 6.2E-17 1.3E-21 153.0 13.7 163 93-261 42-209 (297)
12 PRK00423 tfb transcription ini 99.5 2.9E-12 6.2E-17 124.8 20.4 183 95-293 121-304 (310)
13 PF02984 Cyclin_C: Cyclin, C-t 99.4 3.4E-13 7.3E-18 111.6 7.0 104 198-308 1-105 (118)
14 cd00043 CYCLIN Cyclin box fold 99.4 7.9E-13 1.7E-17 102.6 7.8 87 96-188 2-88 (88)
15 KOG2496 Cdk activating kinase 99.4 9.4E-12 2E-16 117.2 13.6 158 95-259 59-223 (325)
16 smart00385 CYCLIN domain prese 99.3 4.8E-12 1E-16 97.2 7.4 83 101-189 1-83 (83)
17 COG1405 SUA7 Transcription ini 98.8 1.5E-07 3.4E-12 90.2 16.9 185 94-293 95-279 (285)
18 KOG1597 Transcription initiati 98.6 2.2E-06 4.8E-11 81.1 15.4 182 97-294 105-289 (308)
19 PF08613 Cyclin: Cyclin; Inte 98.2 5.3E-06 1.1E-10 72.5 8.1 93 98-195 53-149 (149)
20 KOG4164 Cyclin ik3-1/CABLES [C 98.1 1.1E-06 2.4E-11 85.7 1.9 98 98-198 384-482 (497)
21 smart00385 CYCLIN domain prese 98.1 2E-05 4.2E-10 60.0 8.4 81 202-290 1-82 (83)
22 cd00043 CYCLIN Cyclin box fold 98.1 2.8E-05 6E-10 59.7 9.0 85 197-289 2-87 (88)
23 KOG1598 Transcription initiati 97.8 0.00031 6.7E-09 71.7 12.8 173 102-289 73-250 (521)
24 PF00382 TFIIB: Transcription 95.3 0.069 1.5E-06 40.3 6.5 60 103-166 1-60 (71)
25 PF00382 TFIIB: Transcription 94.9 0.14 3E-06 38.6 7.2 70 204-281 1-70 (71)
26 KOG1674 Cyclin [General functi 94.5 0.12 2.5E-06 48.1 7.1 97 99-198 78-181 (218)
27 PRK00423 tfb transcription ini 91.6 0.99 2.2E-05 44.1 8.9 88 100-195 220-308 (310)
28 PF09241 Herp-Cyclin: Herpesvi 83.9 12 0.00025 29.3 8.5 95 199-294 3-99 (106)
29 PF09080 K-cyclin_vir_C: K cyc 83.1 9.3 0.0002 30.2 7.7 94 200-294 4-100 (106)
30 KOG0834 CDK9 kinase-activating 80.1 1.6 3.4E-05 43.0 3.2 66 98-166 154-219 (323)
31 COG1405 SUA7 Transcription ini 72.8 9.9 0.00022 36.8 6.4 57 98-157 193-249 (285)
32 PF02984 Cyclin_C: Cyclin, C-t 66.1 7.4 0.00016 31.2 3.5 55 100-157 4-58 (118)
33 KOG1675 Predicted cyclin [Gene 65.1 6.7 0.00015 38.1 3.4 98 107-209 201-299 (343)
34 PF00134 Cyclin_N: Cyclin, N-t 59.3 63 0.0014 26.2 8.0 70 220-292 50-121 (127)
35 KOG1597 Transcription initiati 53.9 21 0.00045 34.6 4.6 51 241-295 144-194 (308)
36 KOG0835 Cyclin L [General func 47.7 57 0.0012 32.2 6.5 59 119-183 163-221 (367)
37 TIGR00569 ccl1 cyclin ccl1. Un 35.7 59 0.0013 31.8 4.8 40 220-259 77-116 (305)
38 KOG3866 DNA-binding protein of 31.7 1.7E+02 0.0037 28.8 7.0 27 55-81 252-278 (442)
39 PF12550 GCR1_C: Transcription 30.3 1.8E+02 0.0039 22.3 5.8 53 72-127 28-80 (81)
40 COG3474 Cytochrome c2 [Energy 22.7 1.5E+02 0.0032 25.5 4.3 47 61-107 85-131 (135)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.1e-56 Score=430.61 Aligned_cols=319 Identities=41% Similarity=0.592 Sum_probs=254.0
Q ss_pred cCcccccCCCCccccccccccccccccCCCCCCCCccccCCCCCCHHHHHHHHHHHHhcCC--CC-CCCCCchhhHHHHH
Q 017406 21 ALDGLFCDEESFEFEECCIDAETERCEEKESPLPPVLQEHDLFWDDNELLSLICKEKKENF--VP-SDPISDEILILARK 97 (372)
Q Consensus 21 ~~~~l~c~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~e~l~~Ll~kE~~~~~--~~-~~~q~~~i~~~~R~ 97 (372)
..|.|+|+|+.+.++.+. ... ..+...+.+...+.++|++|.+.+|+++|.++.| +| ..+++. +++.+|.
T Consensus 7 ~e~~l~c~E~~~~~~~~~--~~~----D~~~~~~~~~~~~~~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~-~~~~~R~ 79 (335)
T KOG0656|consen 7 MESQLLCHEESTSDEQDR--ADN----DESSTESSIPQLGFLLWDERVLANLLEKEEQHNPSLDYFLCVQKL-ILSSMRK 79 (335)
T ss_pred cccccccCCCCccccccc--ccC----CcccccccccccccccccHHHHHHHHHHHHHhCCCCchhhhcccc-cccHHHH
Confidence 456799999866543110 000 0111111111112278999999999999999998 33 333444 8899999
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccceeecCCCccccH
Q 017406 98 EVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEA 177 (372)
Q Consensus 98 ~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~~~~ft~ 177 (372)
++++||++||+++++.++|++|||||||||++.+++++.+||++||+|+|||+||||+||+.+|.+.|++|.+.+|+|++
T Consensus 80 ~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~fea 159 (335)
T KOG0656|consen 80 QALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEA 159 (335)
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHh
Q 017406 178 KTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQE 257 (372)
Q Consensus 178 ~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~ 257 (372)
++|++||++||++|+|+|+++||++|+++|+++++........++.++..+++.+..|.+|++|+||+||+|+++.+...
T Consensus 160 ktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~ 239 (335)
T KOG0656|consen 160 KTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSAS 239 (335)
T ss_pred HHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999988777889999999999999999999999999999999999988
Q ss_pred cCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHHhcCCCCCcccccccCCCCCCcccccccccccCCCCCCCCC----
Q 017406 258 VEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNGSQNQSCKRKHFPLPGSPSCIIDANFSCDSSNDSWPA---- 333 (372)
Q Consensus 258 l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~~~~~~~~~~~~~k~~s~p~SP~~V~d~~~s~d~~~~s~~~---- 333 (372)
+.+.....+.+.+..++++++ +.+..|+. .. +. ....++.++++. +.++.+|..
T Consensus 240 ~~~l~~~~~~~~~~~~~~l~~-e~~~~~~~--~~-~~--------------~~~~~~~~~l~~----~~~~~~~~~~~~~ 297 (335)
T KOG0656|consen 240 VDGLDFREYENNLLSLLSLSK-EKVNRCYD--HF-LS--------------KILNSESDCLRG----EASNESGEASLRD 297 (335)
T ss_pred hcchhhhhhhHHHHHHHHhhH-Hhhhcchh--hh-hh--------------hccCCccccccH----HHHhhhhcccccc
Confidence 876665556678888899999 99999998 00 00 123345555553 222222211
Q ss_pred --CCCCCCCCCCCCcccchhhhhccCCCCceEEeecc
Q 017406 334 --ASPFSSPPEPRFKRSRIHVQQMRLPSLTRTFVDVL 368 (372)
Q Consensus 334 --~s~~~s~~~~~~k~~~~~~~~~~~~~~~~~~~~~~ 368 (372)
.++..++++|..|+||.+.++++..+..+..+..+
T Consensus 298 ~~~~s~~~~~~~~~~~rr~~~~~~~~~s~~~~~~~~l 334 (335)
T KOG0656|consen 298 SSSSSSQSPNSPSLKKRRVSSDKERKQSSPPTEVRDL 334 (335)
T ss_pred cchhccCCCCcccccccccccccccccCCCCcccccc
Confidence 11222223677789999999999998888776654
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1e-35 Score=279.24 Aligned_cols=219 Identities=25% Similarity=0.374 Sum_probs=188.0
Q ss_pred CCCCCC--HHHHHHHHHHHHhcCCCCCCCCCc-hhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccC-cccC
Q 017406 60 HDLFWD--DNELLSLICKEKKENFVPSDPISD-EILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSH-SFQK 135 (372)
Q Consensus 60 ~~~f~~--~e~l~~Ll~kE~~~~~~~~~~q~~-~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~-~v~~ 135 (372)
+.+-|. .+++..|+.||+.+..+-..+..+ ++.++||++++|||++||+.|++.++|+|||+.||||||... .+.+
T Consensus 106 p~lswgn~~eVW~lM~kkee~~l~~~~~l~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~k 185 (408)
T KOG0655|consen 106 PCLSWGNSKEVWLLMLKKEERYLRDKHFLEQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSK 185 (408)
T ss_pred ccccccCHHHHHHHHHccchhhhhhhHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhh
Confidence 334466 488999999999877644333333 378999999999999999999999999999999999999764 5666
Q ss_pred CCCchhHHHHHHHHHhhhhccccCCccccce-eecCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCC
Q 017406 136 DKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLK 214 (372)
Q Consensus 136 ~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl-~v~~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~ 214 (372)
.+ +||+|+||||||||+||+++|++.+| +|+++.+ +.++|+.||+.||++|+|++.++|...+|..|+...+.+
T Consensus 186 t~---lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAc--s~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n 260 (408)
T KOG0655|consen 186 TN---LQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGAC--SEDDILTMELIILKALKWELSPITIISWLNVYLQVDALN 260 (408)
T ss_pred hh---HHHhhHHHHHHHHHHhhccCccccceeeeccCcc--chHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcC
Confidence 66 99999999999999999999999999 9999876 699999999999999999999999999999999986654
Q ss_pred Cc--------ccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCCChHHHHHHHH
Q 017406 215 TH--------LHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECY 286 (372)
Q Consensus 215 ~~--------~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~ 286 (372)
+. ...+|+..| ++++.++.+...+.|.-++|||||+++.... ....+.+|+.+ ..|.+|+
T Consensus 261 ~~~k~l~Pq~~~~efiqia-qlLDlc~ldids~~fsYrilaAAal~h~~s~----------e~v~kaSG~~w-~~ie~cv 328 (408)
T KOG0655|consen 261 DAPKVLLPQYSQEEFIQIA-QLLDLCILDIDSLEFSYRILAAAALCHFTSI----------EVVKKASGLEW-DSIEECV 328 (408)
T ss_pred CCCceeccccchHHHHHHH-HHHHHHHhccccccchHHHHHHHHHHHHhHH----------HHHHHcccccH-HHHHHHH
Confidence 32 235677777 7888889999999999999999999987652 34567899999 9999999
Q ss_pred HHHHHHHhc
Q 017406 287 LLILELSRG 295 (372)
Q Consensus 287 ~~i~el~~~ 295 (372)
+.|.-+.+.
T Consensus 329 ~wm~Pf~rv 337 (408)
T KOG0655|consen 329 DWMVPFVRV 337 (408)
T ss_pred HHHHHHHHH
Confidence 999887754
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.98 E-value=1.3e-31 Score=267.70 Aligned_cols=234 Identities=24% Similarity=0.263 Sum_probs=194.5
Q ss_pred HHHHHHHHHHHHhcCC-CCCCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHH
Q 017406 66 DNELLSLICKEKKENF-VPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLV 144 (372)
Q Consensus 66 ~e~l~~Ll~kE~~~~~-~~~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLv 144 (372)
+++...+..+|....| .+. .+...++..||.++|+|+++|+.+|++.++|+++||+++||||+...++..+ +||+
T Consensus 128 ~di~~~l~~~e~~~~p~~~~-~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~---lqLv 203 (391)
T KOG0653|consen 128 QDIFEYLRQLELEFLPLSYD-ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKK---LQLV 203 (391)
T ss_pred HHHHHHHHHHHHhhCchhhh-cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHH---hhHH
Confidence 5667777777744444 222 2333488899999999999999999999999999999999999998888777 9999
Q ss_pred HHHHHH-hhhhccccCCccccce-eecCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHH
Q 017406 145 AVACLS-LAAKVDETQVPLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFL 222 (372)
Q Consensus 145 avaCL~-LAaK~eE~~vP~l~dl-~v~~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l 222 (372)
|++||+ ||+|+||..+|.+.|+ +++++. |++++|++||+.||.+|+|++..|||+.||++|++..... ....
T Consensus 204 gvsalf~IA~K~EE~~~P~v~dlv~isd~~--~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d----~~~~ 277 (391)
T KOG0653|consen 204 GVSALLSIACKYEEISLPSVEDLVLITDGA--YSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYD----IKTR 277 (391)
T ss_pred hHHHHHHHHHhhhhccCCccceeEeeeCCc--cchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcc----hhHH
Confidence 999966 9999999999999999 777766 5899999999999999999999999999999999987722 2344
Q ss_pred HHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHHhcCC-CC-C
Q 017406 223 YRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGNG-SQ-N 300 (372)
Q Consensus 223 ~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~~~~~-~~-~ 300 (372)
....++++..++|++++.++||.+|+|++++++....... .|...+..++|+.. ..+.+|.+.+..+..... .+ .
T Consensus 278 ~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~--~w~~~~~~~sg~~~-~~~~~~~~~~~~~~~~~~~~~~~ 354 (391)
T KOG0653|consen 278 TLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGD--VWSPTLEHYSGYSE-SYLFECARSLSALSLSSLQNPSL 354 (391)
T ss_pred HHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCC--ccCCCCeeccCCCc-HHHHHHHHHHHHHHHHhcccchh
Confidence 5566788889999999999999999999999999876432 58899999999999 899999999998665443 22 2
Q ss_pred cc-cccccCCCCC
Q 017406 301 QS-CKRKHFPLPG 312 (372)
Q Consensus 301 ~~-~~~k~~s~p~ 312 (372)
.. .++||.+.+.
T Consensus 355 ~~~~~~ky~~~~~ 367 (391)
T KOG0653|consen 355 RASVLNKYNSSKF 367 (391)
T ss_pred HHHHHHHhccccc
Confidence 22 5677765443
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.97 E-value=8.3e-31 Score=260.49 Aligned_cols=231 Identities=22% Similarity=0.234 Sum_probs=197.2
Q ss_pred CHHHHHHHHHHHHhcCCCCCCCCCch-hhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHH
Q 017406 65 DDNELLSLICKEKKENFVPSDPISDE-ILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQL 143 (372)
Q Consensus 65 ~~e~l~~Ll~kE~~~~~~~~~~q~~~-i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqL 143 (372)
..+++..|+.+|....|....+.+++ +...||..+++||.+|+.+|++.++|+++||+++||||+...+.-.+ +||
T Consensus 181 ~~~Ife~l~k~e~~~lp~~~yl~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k---~QL 257 (440)
T COG5024 181 ASDIFEYLLKLELIDLPNPNYLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEK---YQL 257 (440)
T ss_pred HHHHHHHHHHHHHHhcCcHHHHhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHH---HHH
Confidence 57889999999999998443344443 45599999999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHhhhhccccCCccccce-eecCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHH
Q 017406 144 VAVACLSLAAKVDETQVPLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFL 222 (372)
Q Consensus 144 vavaCL~LAaK~eE~~vP~l~dl-~v~~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l 222 (372)
+|++|||||||+||.+.|.+.++ +++++.| +.++|+++|+-+|.+|+|++..|+|..|++++.+.-.... .-.
T Consensus 258 vg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~--t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd~----~sr 331 (440)
T COG5024 258 VGISALFIASKYEEVNCPSIKDLVYATDGAF--TRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYDI----FSR 331 (440)
T ss_pred HHHHHHHHHHhHhHhcCHHHHHHHHHHcccc--cHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccch----hhh
Confidence 99999999999999999999999 6777655 7999999999999999999999999999877766533221 112
Q ss_pred HHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcC-CChHHHHHHHHHHHHHHHhcCCCCCc
Q 017406 223 YRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLN-ISQQDKLKECYLLILELSRGNGSQNQ 301 (372)
Q Consensus 223 ~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~-i~~~e~v~~C~~~i~el~~~~~~~~~ 301 (372)
..+.+++..+..+++|.+++||.+||||++.+++.++... |...+..++| |+. +++..++..+.+.+..+.....
T Consensus 332 t~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~---w~~~l~~ySg~y~~-~~l~~~~~~~~~~l~~~~~~~~ 407 (440)
T COG5024 332 TPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ---WDRTLIHYSGNYTN-PDLKPLNESNKENLQNPSVHHD 407 (440)
T ss_pred hhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccCC---CCccccccCCCCCc-hhHHHHHHHHHHHhcccchhhh
Confidence 3466777888999999999999999999999999987543 8899999998 999 9999999999999987654324
Q ss_pred ccccccC
Q 017406 302 SCKRKHF 308 (372)
Q Consensus 302 ~~~~k~~ 308 (372)
+..+||.
T Consensus 408 ~i~~Ky~ 414 (440)
T COG5024 408 AIFPKYP 414 (440)
T ss_pred hhhhccc
Confidence 4556664
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.92 E-value=1.5e-25 Score=217.69 Aligned_cols=201 Identities=23% Similarity=0.316 Sum_probs=179.6
Q ss_pred CC-CCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCC
Q 017406 82 VP-SDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQV 160 (372)
Q Consensus 82 ~~-~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~v 160 (372)
+| ..+|.+ +++.||.++|+|.++|++.+++..+++++++++.|||+....+.+.+ +|++|.+|++||+|+||...
T Consensus 123 ~~~e~vq~d-~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k---~ql~g~s~m~I~sk~ee~~~ 198 (359)
T KOG0654|consen 123 SKFEFVQAD-ITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQK---LQLVGISAMLIASKYEEIKE 198 (359)
T ss_pred cceeeeecC-CCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHH---HHHhCcccceeeccchhhcc
Confidence 44 666777 99999999999999999999999999999999999999999999888 99999999999999999999
Q ss_pred ccccce-eecCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhcc
Q 017406 161 PLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFM 239 (372)
Q Consensus 161 P~l~dl-~v~~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl 239 (372)
|.+.++ .+.+.. |+..++.+||..||..|.|.+..||.-.|+..|++.... ...+.-..|.++.+..+.++.|+
T Consensus 199 ~~~~ef~~itd~t--y~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~---~~~~~e~~~~yl~elsll~~~~l 273 (359)
T KOG0654|consen 199 PRVEEFCYITDNT--YTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQT---PELQVEPLANYLTELSLLDYIFL 273 (359)
T ss_pred hHHHHHHhhhhhh--hHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcc---hhHHHHHHHHHHHHhhhhhHHHh
Confidence 988888 665654 478999999999999999999999999999999887543 22344566778889999999999
Q ss_pred CCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHHhcC
Q 017406 240 CYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGN 296 (372)
Q Consensus 240 ~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~~~~ 296 (372)
.|.||.|||||+++|.-.++ ...|.+.|...+||+. +++..|+..|+ ++.+.
T Consensus 274 ~y~PSliAasAv~lA~~~~~---~~pW~~~L~~~T~y~~-edl~~~v~~L~-~~l~~ 325 (359)
T KOG0654|consen 274 KYLPSLIAASAVFLARLTLD---FHPWNQTLEDYTGYKA-EDLKPCVLDLH-LYLNA 325 (359)
T ss_pred ccChHHHHHHHHHHHHhhcc---CCCCchhhHHhhcccH-HHHHHHHHHHh-cccCC
Confidence 99999999999999998887 3459999999999999 99999999999 66554
No 6
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.89 E-value=2.4e-22 Score=193.77 Aligned_cols=191 Identities=19% Similarity=0.267 Sum_probs=144.1
Q ss_pred HHHHHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce-eec
Q 017406 93 ILARKEVVEWVLRVKAHFG--FTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QVK 169 (372)
Q Consensus 93 ~~~R~~~v~Wi~~v~~~~~--l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl-~v~ 169 (372)
...|...+..|.++|.+++ +++.|+++|+.||+||+...++...+ .+++|+||||||+|+||..+ .+.++ ...
T Consensus 53 ~~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~---p~~Ia~tclfLA~KvEE~~~-si~~fv~~~ 128 (305)
T TIGR00569 53 LDLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYH---PKIIMLTCVFLACKVEEFNV-SIDQFVGNL 128 (305)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcC---HHHHHHHHHHHHHhccccCc-CHHHHHhhc
Confidence 3789999999999999999 99999999999999999999998777 99999999999999999954 45666 222
Q ss_pred CCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCC--C-cccHHHHHHHHHHHHHHhcchhccCCCHHHH
Q 017406 170 DPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLK--T-HLHWEFLYRCEHLLLSVIADSRFMCYLPSTL 246 (372)
Q Consensus 170 ~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~--~-~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~I 246 (372)
........++|++||..||++|+|++.+++|+.++..|+..+... . .........+..++..++...-++.|+||+|
T Consensus 129 ~~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~I 208 (305)
T TIGR00569 129 KETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQI 208 (305)
T ss_pred cCCchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHH
Confidence 222223579999999999999999999999999999988654311 1 1112334556666666555555888999999
Q ss_pred HHHHHHHHHHhcCCCCCcCcccchhhhcCC--ChHHHHHHHHHHHHHH
Q 017406 247 ATATMLHTIQEVEPCNPVEHQNLLMGVLNI--SQQDKLKECYLLILEL 292 (372)
Q Consensus 247 AaAal~~a~~~l~~~~~~~~~~~L~~~~~i--~~~e~v~~C~~~i~el 292 (372)
|+|||++|.+.++...+ ...+..++. +. +.+..-+..|.++
T Consensus 209 AlAAI~lA~~~~~~~l~----~~~~e~~~~~~~~-~~~~~l~~~~~~~ 251 (305)
T TIGR00569 209 ALAAILHTASRAGLNME----SYLTEQLSVPGNR-EELPQLIDIMREL 251 (305)
T ss_pred HHHHHHHHHHHhCCCCc----ccchhhhcccccH-HHHHHHHHHHHHH
Confidence 99999999998874322 222244555 44 5554555544443
No 7
>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=99.88 E-value=2.4e-22 Score=169.39 Aligned_cols=124 Identities=31% Similarity=0.461 Sum_probs=103.4
Q ss_pred HHHHHHHHHHHhcCC--CCCCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHH
Q 017406 67 NELLSLICKEKKENF--VPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLV 144 (372)
Q Consensus 67 e~l~~Ll~kE~~~~~--~~~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLv 144 (372)
|++..|+++|.++.+ .|-..+. .++...|..+++||.+++..+++++.|+++|+.|||||+...++.+.+ ++++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~~~-~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~---~~li 76 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQQP-EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSK---LQLI 76 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTGTS-SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCG---HHHH
T ss_pred CHHHHHHHHHHHHCcCccccccCh-hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccch---hhhh
Confidence 578899999999875 3333233 488999999999999999999999999999999999999999877766 9999
Q ss_pred HHHHHHhhhhccccCCccccce-eecCCCccccHHHHHHHHHHHHHHcCcccc
Q 017406 145 AVACLSLAAKVDETQVPLLLDL-QVKDPKYVFEAKTIQRMELLVLSTLQWRMN 196 (372)
Q Consensus 145 avaCL~LAaK~eE~~vP~l~dl-~v~~~~~~ft~~~I~~mE~~IL~~L~w~l~ 196 (372)
|+|||+||+|++|..+|.+.++ .+. .+.|++++|.+||+.||++|+|+++
T Consensus 77 ~~~cl~lA~K~~e~~~~~~~~~~~~~--~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 77 ALACLFLASKMEEDNPPSISDLIRIS--DNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHTSS--HHHHHHHHT--TTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhHHHHhhhhhccccchHHHHHHHH--cCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 9999999999999988998888 343 4577899999999999999999985
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.88 E-value=6.5e-22 Score=190.75 Aligned_cols=200 Identities=22% Similarity=0.298 Sum_probs=165.4
Q ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCcccccee-ecC-
Q 017406 93 ILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQ-VKD- 170 (372)
Q Consensus 93 ~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~-v~~- 170 (372)
...|...+.||.+++..++++..|+++|+.||+||+..+++.... .+.+|++|||||+|+||+ +..+.|+. +..
T Consensus 36 ~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~---~~~vA~sclfLAgKvEet-p~kl~dIi~~s~~ 111 (323)
T KOG0834|consen 36 LRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFD---PYTVAASCLFLAGKVEET-PRKLEDIIKVSYR 111 (323)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCc---HHHHHHHHHHHHhhcccC-cccHHHHHHHHHH
Confidence 579999999999999999999999999999999999999999888 799999999999999999 55667762 111
Q ss_pred ----------CCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccC
Q 017406 171 ----------PKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMC 240 (372)
Q Consensus 171 ----------~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~ 240 (372)
..|.=.++.|...|+.||++|+|++++-.||.||..++..++...+........|..++..++...-+++
T Consensus 112 ~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~ 191 (323)
T KOG0834|consen 112 YLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQ 191 (323)
T ss_pred HcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEe
Confidence 1222236889999999999999999999999999999999987665332344556666666777777899
Q ss_pred CCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcC--CChHHHHHHHHHHHHHHHhcCC
Q 017406 241 YLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLN--ISQQDKLKECYLLILELSRGNG 297 (372)
Q Consensus 241 ~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~--i~~~e~v~~C~~~i~el~~~~~ 297 (372)
|+|..||+|||.+|....+...+..-...|+...+ ++. +.+.+.+..+.+++....
T Consensus 192 y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~-e~l~~i~~~~l~~y~~~~ 249 (323)
T KOG0834|consen 192 YSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTN-ELLDDICHEFLDLYEQTP 249 (323)
T ss_pred ecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCH-HHHHHHHHHHHHHHhhcc
Confidence 99999999999999998775322222225778888 999 999999999999997654
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.83 E-value=1.6e-19 Score=170.54 Aligned_cols=194 Identities=19% Similarity=0.293 Sum_probs=165.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce-ee---
Q 017406 93 ILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QV--- 168 (372)
Q Consensus 93 ~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl-~v--- 168 (372)
...|...++||.+.+.-++|++.+.+++..+|-||+...++-+.+ +..+++||++||+|+||. |-.+.|. .|
T Consensus 20 ~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~---~e~vv~ACv~LASKiEE~-Prr~rdVinVFh~ 95 (367)
T KOG0835|consen 20 EELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHD---FEIVVMACVLLASKIEEE-PRRIRDVINVFHY 95 (367)
T ss_pred HHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhcccccccc---HHHHHHHHHHHHhhhccc-cccHhHHHHHHHH
Confidence 568999999999999999999999999999999999999988777 999999999999999998 4455554 12
Q ss_pred -------c-------CCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhc
Q 017406 169 -------K-------DPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIA 234 (372)
Q Consensus 169 -------~-------~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~ 234 (372)
. +..+.-.+..+.++|+.||..|+|++++..|+.++-.|+..++..++. .++..+..++..++.
T Consensus 96 L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~--~l~Q~~wNfmNDslR 173 (367)
T KOG0835|consen 96 LEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNL--KLLQAAWNFMNDSLR 173 (367)
T ss_pred HHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCch--hHHHHHHHhhhhccc
Confidence 0 111112356799999999999999999999999999999999998876 577778888888888
Q ss_pred chhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHHhc
Q 017406 235 DSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRG 295 (372)
Q Consensus 235 d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~~~ 295 (372)
.--|+.|+|+.||+||+++|.+.++. +....+.|..+++.++ ++|.+.+..+..+|..
T Consensus 174 T~v~vry~pe~iACaciyLaAR~~eI--pLp~~P~Wf~~Fd~~k-~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 174 TDVFVRYSPESIACACIYLAARNLEI--PLPFQPHWFKAFDTTK-REIDEICYRLIPLYKR 231 (367)
T ss_pred cceeeecCHHHHHHHHHHHHHhhhcC--CCCCCccHHHHcCCcH-HHHHHHHHHHHHHHHh
Confidence 88899999999999999999998872 2224456778899999 9999999999999987
No 10
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.80 E-value=3.2e-19 Score=161.23 Aligned_cols=192 Identities=21% Similarity=0.265 Sum_probs=154.6
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce-------
Q 017406 94 LARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL------- 166 (372)
Q Consensus 94 ~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl------- 166 (372)
..+--..+.|.+++.++++.+.++++|+.||-||+.+.++..-. ..|+|.||++||||+||..+...+-+
T Consensus 39 ~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~---p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L 115 (264)
T KOG0794|consen 39 KLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIE---PRLLAPTCLYLACKVEECPIVHIRLLVNEAKVL 115 (264)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC---HHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHH
Confidence 45556677899999999999999999999999999999988777 99999999999999999832121111
Q ss_pred ----eecCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCC
Q 017406 167 ----QVKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYL 242 (372)
Q Consensus 167 ----~v~~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~ 242 (372)
..-...+.++.+.|..||..+|+.|+.-+-+-+|+.-|..++...|..+. ..+..+..+...+....-.+-|+
T Consensus 116 ~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~---~~l~~~W~ivNDSyr~Dl~Ll~P 192 (264)
T KOG0794|consen 116 KTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQ---KLLQLAWSIVNDSYRMDLCLLYP 192 (264)
T ss_pred hhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccch---hhhhhhHhhhcchhhcceeeecC
Confidence 01233455568899999999999999999999999999999999988543 23444555555555555677899
Q ss_pred HHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHHhcC
Q 017406 243 PSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRGN 296 (372)
Q Consensus 243 PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~~~~ 296 (372)
|.+||.||++.|....+... .+.|...+.+|. ++|.+|++.|.++|..-
T Consensus 193 Ph~IalAcl~Ia~~~~~k~~----~~~w~~el~vD~-ekV~~~v~~I~~lYe~w 241 (264)
T KOG0794|consen 193 PHQIALACLYIACVIDEKDI----PKAWFAELSVDM-EKVKDIVQEILKLYELW 241 (264)
T ss_pred HHHHHHHHHHHHHhhcCCCh----HHHHHHHHhccH-HHHHHHHHHHHHHHHHH
Confidence 99999999999998765432 256677789999 99999999999999753
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=99.72 E-value=6.2e-17 Score=152.98 Aligned_cols=163 Identities=16% Similarity=0.273 Sum_probs=136.3
Q ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhcccc--CCcccccee---
Q 017406 93 ILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDET--QVPLLLDLQ--- 167 (372)
Q Consensus 93 ~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~--~vP~l~dl~--- 167 (372)
...|.....||..+|.+++++..++.+||.||+||+.+.++.... ++-++.||++||+|+||+ ++- +..+.
T Consensus 42 ~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~---~~~vv~tcv~LA~K~ed~~~~I~-i~~~~~~~ 117 (297)
T COG5333 42 LNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEIS---LYSVVTTCVYLACKVEDTPRDIS-IESFEARD 117 (297)
T ss_pred hhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhccccccc---HHHHHHhheeeeeecccccchhh-HHHHHhhc
Confidence 457888889999999999999999999999999999999988777 999999999999999996 211 11110
Q ss_pred ecCCCccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHH
Q 017406 168 VKDPKYVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLA 247 (372)
Q Consensus 168 v~~~~~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IA 247 (372)
+......-+++.|..+|..||+.|+|++.+++|+..+..|+..+..... .+....|..++..++...-++.|+|..||
T Consensus 118 ~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~--~~~~~~aw~~inDa~~t~~~llypphiIA 195 (297)
T COG5333 118 LWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK--YKLLQIAWKIINDALRTDLCLLYPPHIIA 195 (297)
T ss_pred cccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH--HHHHHHHHHHHHhhhhceeeeecChHHHH
Confidence 0111223368999999999999999999999999999999998766554 46778888888888888889999999999
Q ss_pred HHHHHHHHHhcCCC
Q 017406 248 TATMLHTIQEVEPC 261 (372)
Q Consensus 248 aAal~~a~~~l~~~ 261 (372)
+||++.|.+.++..
T Consensus 196 ~a~l~ia~~~~~~~ 209 (297)
T COG5333 196 LAALLIACEVLGMP 209 (297)
T ss_pred HHHHHHHHHhcCCc
Confidence 99999999987643
No 12
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.49 E-value=2.9e-12 Score=124.84 Aligned_cols=183 Identities=16% Similarity=0.159 Sum_probs=151.5
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce-eecCCCc
Q 017406 95 ARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QVKDPKY 173 (372)
Q Consensus 95 ~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl-~v~~~~~ 173 (372)
.-..+..-|..++..++++..+.-.|..++.+++....+.... ...+++||||+|+|.++. +..+.++ .+. .
T Consensus 121 ~l~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs---~~~i~AAclYiACR~~~~-prtl~eI~~~~---~ 193 (310)
T PRK00423 121 NLAFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRS---IEGVVAAALYAACRRCKV-PRTLDEIAEVS---R 193 (310)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCC---HHHHHHHHHHHHHHHcCC-CcCHHHHHHHh---C
Confidence 3456777899999999999999999999999999987776656 899999999999999888 4566776 221 1
Q ss_pred cccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHH
Q 017406 174 VFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLH 253 (372)
Q Consensus 174 ~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~ 253 (372)
.+.++|-+.++.|++.|+.++.+..|.+|+..|...|+++. .+.+.+..++..+....-..+.+|..|||||||+
T Consensus 194 -v~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~----~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYl 268 (310)
T PRK00423 194 -VSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG----EVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYI 268 (310)
T ss_pred -CCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHH
Confidence 26899999999999999999999999999999999999865 3456666666655544445799999999999999
Q ss_pred HHHhcCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHH
Q 017406 254 TIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELS 293 (372)
Q Consensus 254 a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~ 293 (372)
|....+... -...+..+.|++. ..|...|+.|.+.+
T Consensus 269 A~~~~g~~~---t~keIa~v~~Vs~-~tI~~~ykel~~~l 304 (310)
T PRK00423 269 ASLLLGERR---TQREVAEVAGVTE-VTVRNRYKELAEKL 304 (310)
T ss_pred HHHHhCCCC---CHHHHHHHcCCCH-HHHHHHHHHHHHHh
Confidence 998766332 3467788999999 99999999998865
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=99.42 E-value=3.4e-13 Score=111.65 Aligned_cols=104 Identities=25% Similarity=0.282 Sum_probs=81.5
Q ss_pred CChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCCC
Q 017406 198 VTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNIS 277 (372)
Q Consensus 198 ~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i~ 277 (372)
|||++||++|++..+. ..+....+.++++.++.++.|++|+||+||+||+++|+..++.. ..|...+..++|++
T Consensus 1 PTp~~Fl~~~~~~~~~----~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~--~~~~~~l~~~t~~~ 74 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA----DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKE--PPWPESLEKLTGYD 74 (118)
T ss_dssp --HHHHHHHHHTSSSH----HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSS--TCSHHHHHHHHTS-
T ss_pred CcHHHHHHHHHHHcCC----cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCcc--ccCCccchhhcCCC
Confidence 7999999999553222 23456778899999999999999999999999999999998732 26888899999999
Q ss_pred hHHHHHHHHHHHHHHHhcCC-CCCcccccccC
Q 017406 278 QQDKLKECYLLILELSRGNG-SQNQSCKRKHF 308 (372)
Q Consensus 278 ~~e~v~~C~~~i~el~~~~~-~~~~~~~~k~~ 308 (372)
. ++|.+|++.|.+++.+.. ...++.++||.
T Consensus 75 ~-~~l~~c~~~i~~~~~~~~~~~~~ai~~Kys 105 (118)
T PF02984_consen 75 K-EDLKECIELIQELLSKASNSKLQAIRKKYS 105 (118)
T ss_dssp H-HHHHHHHHHHHHHHHHCCGSSCTHHHHHTT
T ss_pred H-HHHHHHHHHHHHHHHhcCCccchHHHHHhC
Confidence 9 999999999999998654 34455677774
No 14
>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=99.40 E-value=7.9e-13 Score=102.58 Aligned_cols=87 Identities=41% Similarity=0.538 Sum_probs=75.0
Q ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccceeecCCCccc
Q 017406 96 RKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVF 175 (372)
Q Consensus 96 R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~~~~f 175 (372)
|..+++||.+++..+++++.|.++|+.|+|||+....+.+.+ .+++|+||++||+|+++. ++...++. ....+.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~ia~a~l~lA~k~~~~-~~~~~~~~-~~~~~~- 75 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRS---PSLVAAAALYLAAKVEEI-PPWLKDLV-HVTGYA- 75 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCC---hHHHHHHHHHHHHHHcCC-CCCHHHHh-HHhCCC-
Confidence 678999999999999999999999999999999998887555 999999999999999999 67777772 122221
Q ss_pred cHHHHHHHHHHHH
Q 017406 176 EAKTIQRMELLVL 188 (372)
Q Consensus 176 t~~~I~~mE~~IL 188 (372)
+.++|.+||+.|+
T Consensus 76 ~~~~i~~~e~~il 88 (88)
T cd00043 76 TEEEILRMEKLLL 88 (88)
T ss_pred CHHHHHHHHHHhC
Confidence 7999999999875
No 15
>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=99.36 E-value=9.4e-12 Score=117.23 Aligned_cols=158 Identities=16% Similarity=0.311 Sum_probs=114.3
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce--eecCCC
Q 017406 95 ARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL--QVKDPK 172 (372)
Q Consensus 95 ~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl--~v~~~~ 172 (372)
.-..++++..+.-- .+++.+..+|+.||-||+...++.... ...|.+||+|+|+|++|.++ .+.++ .+. +.
T Consensus 59 ~E~~l~~f~~k~~p--~lp~~Vv~TA~~fFkRffL~nsvme~~---pk~I~~tc~flA~Kieef~I-SieqFvkn~~-~~ 131 (325)
T KOG2496|consen 59 EELSLVNFYSKFKP--NLPTSVVSTAIEFFKRFFLENSVMEYS---PKIIMATCFFLACKIEEFYI-SIEQFVKNMN-GR 131 (325)
T ss_pred HHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHhcchhhcC---hHHHHHHHHHHHhhhHhhee-cHHHHHhhcc-Cc
Confidence 33344444433322 578999999999999999999998777 78899999999999999865 44555 122 22
Q ss_pred ccccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhC----CCCcc-cHHHHHHHHHHHHHHhcchhccCCCHHHHH
Q 017406 173 YVFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLG----LKTHL-HWEFLYRCEHLLLSVIADSRFMCYLPSTLA 247 (372)
Q Consensus 173 ~~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~----~~~~~-~~~~l~~~~~ll~~~l~d~~fl~~~PS~IA 247 (372)
-.-+.+.|+..|..+|+.|+|++.+.+||.-++-|+..+. ...+. ..........++..++....++-|.||.||
T Consensus 132 ~~k~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIA 211 (325)
T KOG2496|consen 132 KWKTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIA 211 (325)
T ss_pred ccccHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHH
Confidence 2337899999999999999999999999999998887642 11111 011111224566666666667789999999
Q ss_pred HHHHHHHHHhcC
Q 017406 248 TATMLHTIQEVE 259 (372)
Q Consensus 248 aAal~~a~~~l~ 259 (372)
+|||+.+....+
T Consensus 212 LaAil~a~~~~~ 223 (325)
T KOG2496|consen 212 LAAILHAAGRTG 223 (325)
T ss_pred HHHHHHHhcccc
Confidence 999977754443
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=99.32 E-value=4.8e-12 Score=97.22 Aligned_cols=83 Identities=37% Similarity=0.492 Sum_probs=70.4
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccceeecCCCccccHHHH
Q 017406 101 EWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTI 180 (372)
Q Consensus 101 ~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~~~~ft~~~I 180 (372)
+||.+++..+++++++.++|+.++|||+....+.+.+ .+++|+||++||+|++|.. |...++. ...++ |+.++|
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~---~~~ia~a~l~lA~k~~~~~-~~~~~~~-~~~~~-~~~~~i 74 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYS---PSLIAAAALYLAAKTEEIP-PWTKELV-HYTGY-FTEEEI 74 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCC---HHHHHHHHHHHHHHHhcCC-CCchhHh-HhhCC-CCHHHH
Confidence 5999999999999999999999999999977766666 9999999999999999985 5556662 12233 689999
Q ss_pred HHHHHHHHH
Q 017406 181 QRMELLVLS 189 (372)
Q Consensus 181 ~~mE~~IL~ 189 (372)
.+||+.||.
T Consensus 75 ~~~~~~il~ 83 (83)
T smart00385 75 LRMEKLLLE 83 (83)
T ss_pred HHHHHHHhC
Confidence 999999874
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.84 E-value=1.5e-07 Score=90.25 Aligned_cols=185 Identities=16% Similarity=0.208 Sum_probs=150.6
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccceeecCCCc
Q 017406 94 LARKEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKY 173 (372)
Q Consensus 94 ~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~~~ 173 (372)
..-..+..-|-.++..++++..+.-.|..++-+.+...-+.... .+-++++|+++|++.... +..+.++. ...+
T Consensus 95 rnl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRs---ie~v~AA~iY~acR~~~~-prtl~eIa-~a~~- 168 (285)
T COG1405 95 RNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRS---IESVAAACIYAACRINGV-PRTLDEIA-KALG- 168 (285)
T ss_pred hHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCc---HHHHHHHHHHHHHHHcCC-CccHHHHH-HHHC-
Confidence 34556778888999999999999999999999999887777666 999999999999999887 33444542 1222
Q ss_pred cccHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHH
Q 017406 174 VFEAKTIQRMELLVLSTLQWRMNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLH 253 (372)
Q Consensus 174 ~ft~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~ 253 (372)
-++++|.++.+.+...|+=.+.+..|.+|+..|...|++++ ++...+..++..+...-.-.+-.|+-||+||+|+
T Consensus 169 -V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~----~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~ 243 (285)
T COG1405 169 -VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSD----EVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYL 243 (285)
T ss_pred -CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHH
Confidence 26899999999999999999999999999999999999985 4456666666666555556699999999999999
Q ss_pred HHHhcCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHH
Q 017406 254 TIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELS 293 (372)
Q Consensus 254 a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~ 293 (372)
|....+.. .-+..+..++|+++ ..|+.=|+.|.+..
T Consensus 244 as~l~~~~---~tq~eva~v~~vte-vTIrnrykel~~~~ 279 (285)
T COG1405 244 ASLLLGER---RTQKEVAKVAGVTE-VTIRNRYKELADAL 279 (285)
T ss_pred HHHHhCCc---hHHHHHHHHhCCee-eHHHHHHHHHHHhh
Confidence 99877622 23467788999999 99999997776644
No 18
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.57 E-value=2.2e-06 Score=81.07 Aligned_cols=182 Identities=14% Similarity=0.150 Sum_probs=138.2
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccceeecCCCcccc
Q 017406 97 KEVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFE 176 (372)
Q Consensus 97 ~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~~~~ft 176 (372)
..+..-|..++...+++....-.|-.+|-++-........+ ..-+++|||+||+.-++. +..++++..-.. -+
T Consensus 105 ~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks---~eai~AAclyiACRq~~~-pRT~kEI~~~an---v~ 177 (308)
T KOG1597|consen 105 KAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKS---VEALAAACLYIACRQEDV-PRTFKEISAVAN---VS 177 (308)
T ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCcc---HHHHHHHHHHHHHHhcCC-CchHHHHHHHHc---CC
Confidence 34455677899999999999999999999999666665555 899999999999998877 556677632222 27
Q ss_pred HHHHHHHHHHHHHHcCccccCCC--hhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchh-ccCCCHHHHHHHHHHH
Q 017406 177 AKTIQRMELLVLSTLQWRMNPVT--PISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSR-FMCYLPSTLATATMLH 253 (372)
Q Consensus 177 ~~~I~~mE~~IL~~L~w~l~~~T--p~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~-fl~~~PS~IAaAal~~ 253 (372)
+++|-+.=+.|+..|+=.....| .-+|+.+|...|+++...+ ..+.++...+. +.. ..+-.|=.||||+||.
T Consensus 178 kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~q----~aA~e~a~ka~-~~~~~~gRsPiSIAAa~IYm 252 (308)
T KOG1597|consen 178 KKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKSAQ----EAATEIAEKAE-EMDIRAGRSPISIAAAAIYM 252 (308)
T ss_pred HHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHHH----HHHHHHHHHHH-HhccccCCCchhHHHHHHHH
Confidence 99999999999999998777666 8899999999999876543 33333333322 222 2357899999999999
Q ss_pred HHHhcCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHHh
Q 017406 254 TIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSR 294 (372)
Q Consensus 254 a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~~ 294 (372)
+....... .-...+..++|+.+ ..|+.-|+.|.....
T Consensus 253 isqls~~k---kt~keI~~vtgVaE-~TIr~sYK~Lyp~~~ 289 (308)
T KOG1597|consen 253 ISQLSDEK---KTQKEIGEVTGVAE-VTIRNSYKDLYPHAD 289 (308)
T ss_pred HHHhccCc---ccHHHHHHHhhhhH-HHHHHHHHHHhhchh
Confidence 98765422 23467788999999 999999988866443
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=98.21 E-value=5.3e-06 Score=72.45 Aligned_cols=93 Identities=17% Similarity=0.171 Sum_probs=64.7
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhc---cCcccCCCCchhHHHHHHHHHhhhhccccCCccccce-eecCCCc
Q 017406 98 EVVEWVLRVKAHFGFTALTAILAVNYFDRFIL---SHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QVKDPKY 173 (372)
Q Consensus 98 ~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs---~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl-~v~~~~~ 173 (372)
.+.+|+.++..+-++++.++.+|..|+||+.. ...+.- .+...+-+-++||.||+|+-+-....-..+ .++
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~-~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~---- 127 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPL-NSSNIHRLFLTALILASKFLDDNTYSNKSWAKVG---- 127 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT----STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHH----
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhccccccc-ccchhHHHHHHHHHHHHhhcccccccHHHHHhhc----
Confidence 37889999999999999999999999999999 222221 233378889999999999944322233333 332
Q ss_pred cccHHHHHHHHHHHHHHcCccc
Q 017406 174 VFEAKTIQRMELLVLSTLQWRM 195 (372)
Q Consensus 174 ~ft~~~I~~mE~~IL~~L~w~l 195 (372)
.++.+++.+||+..|..|+|+|
T Consensus 128 gis~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 128 GISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp TS-HHHHHHHHHHHHHHTTT--
T ss_pred CCCHHHHHHHHHHHHHHCCCcC
Confidence 2479999999999999999986
No 20
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.11 E-value=1.1e-06 Score=85.66 Aligned_cols=98 Identities=22% Similarity=0.385 Sum_probs=83.7
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce-eecCCCcccc
Q 017406 98 EVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QVKDPKYVFE 176 (372)
Q Consensus 98 ~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl-~v~~~~~~ft 176 (372)
.+=.=|.+++...++...|+++|..||.....+..+.+.+ -.|+|-|||.||+||.+..--.++.+ .-.+.++.+.
T Consensus 384 SlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~N---RKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~n 460 (497)
T KOG4164|consen 384 SLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQN---RKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLN 460 (497)
T ss_pred HHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhh---hhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhccc
Confidence 3455688889999999999999999999999999898888 99999999999999987644444444 2345678889
Q ss_pred HHHHHHHHHHHHHHcCccccCC
Q 017406 177 AKTIQRMELLVLSTLQWRMNPV 198 (372)
Q Consensus 177 ~~~I~~mE~~IL~~L~w~l~~~ 198 (372)
+++++..|.-||.+|.|.|+++
T Consensus 461 rrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 461 RRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHhhhhhhhhHHHhhhhhccCC
Confidence 9999999999999999999865
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=98.10 E-value=2e-05 Score=59.98 Aligned_cols=81 Identities=22% Similarity=0.324 Sum_probs=66.8
Q ss_pred HHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCC-ChHH
Q 017406 202 SFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNI-SQQD 280 (372)
Q Consensus 202 ~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i-~~~e 280 (372)
+|+..+...++.+. +....+..+++..+.+..+..++|+.||+||+++|.+..+.. .|...+..++|+ +. +
T Consensus 1 ~~l~~~~~~~~~~~----~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~---~~~~~~~~~~~~~~~-~ 72 (83)
T smart00385 1 DFLRRVCKALNLDP----ETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP---PWTKELVHYTGYFTE-E 72 (83)
T ss_pred CHHHHHHHHcCCCH----HHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC---CCchhHhHhhCCCCH-H
Confidence 36777888887643 566777788888888888999999999999999999987642 377888889999 99 9
Q ss_pred HHHHHHHHHH
Q 017406 281 KLKECYLLIL 290 (372)
Q Consensus 281 ~v~~C~~~i~ 290 (372)
+|.+|...|.
T Consensus 73 ~i~~~~~~il 82 (83)
T smart00385 73 EILRMEKLLL 82 (83)
T ss_pred HHHHHHHHHh
Confidence 9999998775
No 22
>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=98.08 E-value=2.8e-05 Score=59.73 Aligned_cols=85 Identities=22% Similarity=0.274 Sum_probs=71.8
Q ss_pred CCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCC
Q 017406 197 PVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNI 276 (372)
Q Consensus 197 ~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i 276 (372)
.+++.+|+..+...++.+. +....+..+++..+....+..+.|+.||+||+++|.+..+. ..|...+...+++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~----~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~---~~~~~~~~~~~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP----ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI---PPWLKDLVHVTGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC---CCCHHHHhHHhCC
Confidence 5789999999999987654 45677778888888888889999999999999999997664 4577888889999
Q ss_pred -ChHHHHHHHHHHH
Q 017406 277 -SQQDKLKECYLLI 289 (372)
Q Consensus 277 -~~~e~v~~C~~~i 289 (372)
+. ++|.++...|
T Consensus 75 ~~~-~~i~~~e~~i 87 (88)
T cd00043 75 ATE-EEILRMEKLL 87 (88)
T ss_pred CCH-HHHHHHHHHh
Confidence 99 9999988765
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.78 E-value=0.00031 Score=71.73 Aligned_cols=173 Identities=16% Similarity=0.141 Sum_probs=131.3
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce--eecCCCccccHHH
Q 017406 102 WVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL--QVKDPKYVFEAKT 179 (372)
Q Consensus 102 Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl--~v~~~~~~ft~~~ 179 (372)
-|-+++..+++.. ..-.|.++|---+...-.+... .+.+..+||+|++..|-+.. .+.|+ +..- +.-+
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~---~~~vvasClY~vcR~e~t~h-lliDfS~~Lqv-----~Vy~ 142 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRR---STEVVAACLYLVCRLEKTDH-LLIDFSSYLQV-----SVYD 142 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcc---hHHHHHHHHHHHHHhhCCce-EEEEeccceEE-----ehhh
Confidence 5888999999999 8999999998888876666555 89999999999999988843 45565 2221 3445
Q ss_pred HHHHHHHHHHHcCcc---ccCCChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHH
Q 017406 180 IQRMELLVLSTLQWR---MNPVTPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQ 256 (372)
Q Consensus 180 I~~mE~~IL~~L~w~---l~~~Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~ 256 (372)
+-.+=+.|-..|.-. +..+-|.-|+.+|..+|...++. .+++..+.+++.....|.-..+-+|+-|+-|||+.|.+
T Consensus 143 LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~-~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar 221 (521)
T KOG1598|consen 143 LGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT-EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAAR 221 (521)
T ss_pred hhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCch-HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHH
Confidence 566666777777777 77888999999999998776665 47888899999999999999999999999999999999
Q ss_pred hcCCCCCcCcccchhhhcCCChHHHHHHHHHHH
Q 017406 257 EVEPCNPVEHQNLLMGVLNISQQDKLKECYLLI 289 (372)
Q Consensus 257 ~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i 289 (372)
..+.... ...+..+.++.. ..+..=+..+
T Consensus 222 ~h~~~rs---i~dIv~vvhV~e-~Tl~kRl~Ef 250 (521)
T KOG1598|consen 222 MHGFRRT---IGDIAKVVHVCE-STLSKRLKEF 250 (521)
T ss_pred HcCcccc---HHHHHHHHHHhH-HHHHHHHHHH
Confidence 8763321 234444555555 4444444433
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=95.31 E-value=0.069 Score=40.28 Aligned_cols=60 Identities=15% Similarity=0.255 Sum_probs=45.9
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce
Q 017406 103 VLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL 166 (372)
Q Consensus 103 i~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl 166 (372)
|-+++..++++..+.-.|..++++-....-....+ ..-++++|+++|++.+... ..+.++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~---~~~iaAA~iY~acr~~~~~-~t~~eI 60 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRS---PESIAAACIYLACRLNGVP-RTLKEI 60 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS----HHHHHHHHHHHHHHHTTSS-SSHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCC---HHHHHHHHHHHHHHHcCCC-cCHHHH
Confidence 45789999999999999999999988776555444 7889999999999998763 344454
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=94.92 E-value=0.14 Score=38.61 Aligned_cols=70 Identities=13% Similarity=0.145 Sum_probs=46.9
Q ss_pred HHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCCChHHH
Q 017406 204 FDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDK 281 (372)
Q Consensus 204 l~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i~~~e~ 281 (372)
+..|...+++++ .+.+.+..+...+....-.-+-+|..|||||+|+|.+..+... -...+...+++++ .+
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----DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPR---TLKEIAEAAGVSE-KT 70 (71)
T ss_dssp HHHHHHHTT--H----HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSS---SHHHHHHHCTSSH-HH
T ss_pred ChHHHhHcCCCH----HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCc---CHHHHHHHhCCCC-Cc
Confidence 356777777765 4566676666666555556678899999999999999876332 2356667778877 44
No 26
>KOG1674 consensus Cyclin [General function prediction only]
Probab=94.52 E-value=0.12 Score=48.09 Aligned_cols=97 Identities=14% Similarity=0.176 Sum_probs=68.8
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcc---c---CCCCch-hHHHHHHHHHhhhhccccCCccccceeecCC
Q 017406 99 VVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSF---Q---KDKPWM-GQLVAVACLSLAAKVDETQVPLLLDLQVKDP 171 (372)
Q Consensus 99 ~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v---~---~~~~~~-lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~ 171 (372)
+-+++-.+..+-+.+++++.+|..|||||....+. . .-+..+ ..-+-++|+.+|+|+.+..- .-..++..-+
T Consensus 78 i~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~-y~n~~~a~vg 156 (218)
T KOG1674|consen 78 IRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVY-YSNAYYAKVG 156 (218)
T ss_pred hHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchh-hhHHHHHHhC
Confidence 34566777788889999999999999999987331 1 111223 55578999999999986521 1111111112
Q ss_pred CccccHHHHHHHHHHHHHHcCccccCC
Q 017406 172 KYVFEAKTIQRMELLVLSTLQWRMNPV 198 (372)
Q Consensus 172 ~~~ft~~~I~~mE~~IL~~L~w~l~~~ 198 (372)
+ .+.+++-.+|+..|..++|++.+.
T Consensus 157 g--l~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 157 G--LTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred C--CChHhhhhhhHHHHhhCCeEEEec
Confidence 2 268899999999999999999975
No 27
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=91.57 E-value=0.99 Score=44.12 Aligned_cols=88 Identities=11% Similarity=0.114 Sum_probs=65.0
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce-eecCCCccccHH
Q 017406 100 VEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL-QVKDPKYVFEAK 178 (372)
Q Consensus 100 v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl-~v~~~~~~ft~~ 178 (372)
.++|...+..++++..+.-.|..++.+.....-....+ ..-+|+||++||+++.... ..+.++ .+. .-+..
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~---P~sIAAAaIYlA~~~~g~~-~t~keIa~v~----~Vs~~ 291 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKG---PTGLAAAAIYIASLLLGER-RTQREVAEVA----GVTEV 291 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCC---HHHHHHHHHHHHHHHhCCC-CCHHHHHHHc----CCCHH
Confidence 47888999999999999999999998877654333334 8889999999999997652 345555 221 12688
Q ss_pred HHHHHHHHHHHHcCccc
Q 017406 179 TIQRMELLVLSTLQWRM 195 (372)
Q Consensus 179 ~I~~mE~~IL~~L~w~l 195 (372)
+|.+.=+.+...|+..+
T Consensus 292 tI~~~ykel~~~l~~~~ 308 (310)
T PRK00423 292 TVRNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHHHhCccc
Confidence 88888888888776543
No 28
>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=83.90 E-value=12 Score=29.30 Aligned_cols=95 Identities=12% Similarity=0.114 Sum_probs=66.9
Q ss_pred ChhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCC--cCcccchhhhcCC
Q 017406 199 TPISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNP--VEHQNLLMGVLNI 276 (372)
Q Consensus 199 Tp~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~--~~~~~~L~~~~~i 276 (372)
-..+|+-...+.+..++.........+...+-.++...+..-.+|-.|.|+.++..++.-+.... ..|.+.|..++++
T Consensus 3 l~tdflip~c~alkipe~~wpql~e~~s~tickaliqpniall~p~licaggllttiet~ntn~~~wt~yledl~~ilnf 82 (106)
T PF09241_consen 3 LSTDFLIPVCHALKIPEDFWPQLFEATSITICKALIQPNIALLPPCLICAGGLLTTIETDNTNCQPWTCYLEDLSCILNF 82 (106)
T ss_dssp -GGGGHHHHHHHTT--GGGHHHHHHHHHHHHHHHTTSGGGGGS-HHHHHHHHHHHHHHTS-TSSSTCHHHHHHHHHHHTC
T ss_pred chhhhHHHhhhhccCcHHHhHHHHHHHHHHHHHHHcCCCccccCcceeecccceEEEeccCCCCcchhhhHHhhHHHhhc
Confidence 45688888888998888775555666666676778888899999999999999999876543222 1234566667888
Q ss_pred ChHHHHHHHHHHHHHHHh
Q 017406 277 SQQDKLKECYLLILELSR 294 (372)
Q Consensus 277 ~~~e~v~~C~~~i~el~~ 294 (372)
+- ..|+..-+++.+.+.
T Consensus 83 st-ntirt~kdqv~ea~~ 99 (106)
T PF09241_consen 83 ST-NTIRTVKDQVSEAFS 99 (106)
T ss_dssp HH-HHHHHHHHHHHHHHH
T ss_pred cc-chhhhHHHHHHHHHH
Confidence 88 888888777776543
No 29
>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=83.11 E-value=9.3 Score=30.19 Aligned_cols=94 Identities=15% Similarity=0.162 Sum_probs=55.5
Q ss_pred hhHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHhcchhccCCCHHHHHHH-HHHHHHHhcCCCCC--cCcccchhhhcCC
Q 017406 200 PISFFDHIVRRLGLKTHLHWEFLYRCEHLLLSVIADSRFMCYLPSTLATA-TMLHTIQEVEPCNP--VEHQNLLMGVLNI 276 (372)
Q Consensus 200 p~~Fl~~~l~~l~~~~~~~~~~l~~~~~ll~~~l~d~~fl~~~PS~IAaA-al~~a~~~l~~~~~--~~~~~~L~~~~~i 276 (372)
|.+-+...+-+++........+-.+....+...+.|+.--..+||.|||| |.+++....-|... .....+|...+|+
T Consensus 4 ~TD~~~~~L~K~~~~~e~L~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~~~~~~~~~LA~~~G~ 83 (106)
T PF09080_consen 4 PTDAIGPLLFKSGFTKEQLFAWHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDTHSGGVVPQLAEALGV 83 (106)
T ss_dssp CHHHHHHHHHHHS-SSTTHHHHHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------HHHHHHHHHT-
T ss_pred ccccccHHHHHHcccHHHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCccccccchHHHHHHhCc
Confidence 44444444545444433222223555677778889999999999999998 77776655443211 1133588889999
Q ss_pred ChHHHHHHHHHHHHHHHh
Q 017406 277 SQQDKLKECYLLILELSR 294 (372)
Q Consensus 277 ~~~e~v~~C~~~i~el~~ 294 (372)
+. ..+....+.+..-++
T Consensus 84 ~~-a~L~AA~E~v~Tt~~ 100 (106)
T PF09080_consen 84 SA-ATLQAAAESVATTLR 100 (106)
T ss_dssp -H-HHHHHHHHHHHHHHH
T ss_pred cH-HHHHHHHHHHHHHHH
Confidence 99 888888777765443
No 30
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=80.15 E-value=1.6 Score=42.97 Aligned_cols=66 Identities=23% Similarity=0.268 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccce
Q 017406 98 EVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDL 166 (372)
Q Consensus 98 ~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl 166 (372)
-+++|+.++...-+........|-+++-..+...-+-+.. .+-||++||+||+|+-...+|...+-
T Consensus 154 ~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~---p~~IAva~i~lA~~~~~~~~~~~~~~ 219 (323)
T KOG0834|consen 154 YLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYS---PHSIAVACIHLAAKLLGVELPSDTDK 219 (323)
T ss_pred HHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeec---CcEEEeehhhHHHHHcCCCCCCCccc
Confidence 4555555555555544456677777776666554444444 67799999999999977666655443
No 31
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=72.80 E-value=9.9 Score=36.80 Aligned_cols=57 Identities=12% Similarity=0.113 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccc
Q 017406 98 EVVEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDE 157 (372)
Q Consensus 98 ~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE 157 (372)
.-.++|-..+..++++.++--.|..+++............ ..-+|++|++||+++..
T Consensus 193 ~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~---P~glAaaaiy~as~l~~ 249 (285)
T COG1405 193 DPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKS---PAGLAAAAIYLASLLLG 249 (285)
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCC---chhHHHHHHHHHHHHhC
Confidence 3457888999999999999999999999988776555444 67799999999999965
No 32
>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=66.07 E-value=7.4 Score=31.22 Aligned_cols=55 Identities=18% Similarity=0.137 Sum_probs=39.5
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccc
Q 017406 100 VEWVLRVKAHFGFTALTAILAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDE 157 (372)
Q Consensus 100 v~Wi~~v~~~~~l~~~T~~lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE 157 (372)
.+||.......+.+..+..+|-.+++-.+....+-..+ --++|+||+++|.++-.
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~---PS~iAaAai~lA~~~~~ 58 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYP---PSVIAAAAILLARKILG 58 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS----HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCC---HHHHHHHHHHHHHHHhC
Confidence 45555553334446678888888888777776666666 78899999999999954
No 33
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=65.06 E-value=6.7 Score=38.11 Aligned_cols=98 Identities=16% Similarity=0.143 Sum_probs=58.7
Q ss_pred HHHcCCCHHHHHHHHHHHHHHhccCccc-CCCCchhHHHHHHHHHhhhhccccCCccccceeecCCCccccHHHHHHHHH
Q 017406 107 KAHFGFTALTAILAVNYFDRFILSHSFQ-KDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRMEL 185 (372)
Q Consensus 107 ~~~~~l~~~T~~lAv~ylDRfLs~~~v~-~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~~~~ft~~~I~~mE~ 185 (372)
+....+..+.......|++|-+...... ...+ ...+....+++|+|+-....---.|. +...+- -+.+++..||+
T Consensus 201 ~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~--w~r~~~g~il~sskv~~dqs~wnvdy-cqIlKd-~tveDmNe~ER 276 (343)
T KOG1675|consen 201 FSWAQLTAECDIITLVYAERLLWLAERDPCPRN--WSRAVLGEILLSSKVYDDQSVWNVDY-CEILKD-QSVDDMNALER 276 (343)
T ss_pred hhhhhhhhccchHHHHhhHhhhhHhhcCCCcch--hhhhhhhhheehhhhhhhhhcccHHH-HHHHhh-ccHhhHHHHHH
Confidence 3344455555556668888877665443 2233 44445557999999944321111121 111221 26899999999
Q ss_pred HHHHHcCccccCCChhHHHHHHHH
Q 017406 186 LVLSTLQWRMNPVTPISFFDHIVR 209 (372)
Q Consensus 186 ~IL~~L~w~l~~~Tp~~Fl~~~l~ 209 (372)
.+|+.|+|++++|-. .|..+|..
T Consensus 277 qfLelLqfNinvp~s-vYAKyYfd 299 (343)
T KOG1675|consen 277 QFLELLQFNINVPSS-EYAKYYFD 299 (343)
T ss_pred HHHHHHhhccCccHH-HHHHHHHH
Confidence 999999999998753 33444443
No 34
>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=59.27 E-value=63 Score=26.18 Aligned_cols=70 Identities=14% Similarity=0.023 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhc--CCChHHHHHHHHHHHHHH
Q 017406 220 EFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVL--NISQQDKLKECYLLILEL 292 (372)
Q Consensus 220 ~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~--~i~~~e~v~~C~~~i~el 292 (372)
..+..+..+++..+....+....+..+|+||+++|.+..+... .+...+.... .++. +++.+.=..|.+.
T Consensus 50 ~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~--~~~~~~~~~~~~~~~~-~~i~~~E~~iL~~ 121 (127)
T PF00134_consen 50 ETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNP--PSISDLIRISDNTFTK-KDILEMEREILSA 121 (127)
T ss_dssp HHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS----HHHHHHHHTTTSSHH-HHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcccc--chHHHHHHHHcCCCCH-HHHHHHHHHHHHH
Confidence 3444555555555555567788899999999999999765421 1223333333 4566 6666655555543
No 35
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=53.87 E-value=21 Score=34.59 Aligned_cols=51 Identities=20% Similarity=0.188 Sum_probs=39.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCCCCcCcccchhhhcCCChHHHHHHHHHHHHHHHhc
Q 017406 241 YLPSTLATATMLHTIQEVEPCNPVEHQNLLMGVLNISQQDKLKECYLLILELSRG 295 (372)
Q Consensus 241 ~~PS~IAaAal~~a~~~l~~~~~~~~~~~L~~~~~i~~~e~v~~C~~~i~el~~~ 295 (372)
-.--.||||||+.|.+..+.. .-...+..+.++++ .+|-+|++.|.+-+..
T Consensus 144 ks~eai~AAclyiACRq~~~p---RT~kEI~~~anv~k-KEIgr~~K~i~~~l~~ 194 (308)
T KOG1597|consen 144 KSVEALAAACLYIACRQEDVP---RTFKEISAVANVSK-KEIGRCVKLIGEALET 194 (308)
T ss_pred ccHHHHHHHHHHHHHHhcCCC---chHHHHHHHHcCCH-HHHHHHHHHHHHHHhc
Confidence 334568999999999986522 23356777889999 9999999999886644
No 36
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=47.68 E-value=57 Score=32.21 Aligned_cols=59 Identities=20% Similarity=0.313 Sum_probs=34.9
Q ss_pred HHHHHHHHHhccCcccCCCCchhHHHHHHHHHhhhhccccCCccccceeecCCCccccHHHHHHH
Q 017406 119 LAVNYFDRFILSHSFQKDKPWMGQLVAVACLSLAAKVDETQVPLLLDLQVKDPKYVFEAKTIQRM 183 (372)
Q Consensus 119 lAv~ylDRfLs~~~v~~~~~~~lqLvavaCL~LAaK~eE~~vP~l~dl~v~~~~~~ft~~~I~~m 183 (372)
.|-||+.--+-..-+.... --+||++|++|||..+|+-.|...... ..+.+++.+|...
T Consensus 163 ~~wNfmNDslRT~v~vry~---pe~iACaciyLaAR~~eIpLp~~P~Wf---~~Fd~~k~eid~i 221 (367)
T KOG0835|consen 163 AAWNFMNDSLRTDVFVRYS---PESIACACIYLAARNLEIPLPFQPHWF---KAFDTTKREIDEI 221 (367)
T ss_pred HHHHhhhhccccceeeecC---HHHHHHHHHHHHHhhhcCCCCCCccHH---HHcCCcHHHHHHH
Confidence 3334444333333333444 678999999999999996555554442 1234466666543
No 37
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=35.68 E-value=59 Score=31.78 Aligned_cols=40 Identities=10% Similarity=0.110 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhcchhccCCCHHHHHHHHHHHHHHhcC
Q 017406 220 EFLYRCEHLLLSVIADSRFMCYLPSTLATATMLHTIQEVE 259 (372)
Q Consensus 220 ~~l~~~~~ll~~~l~d~~fl~~~PS~IAaAal~~a~~~l~ 259 (372)
..+..|..++..-.....+..|.|-.||++|+++|.+.-+
T Consensus 77 ~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE 116 (305)
T TIGR00569 77 SVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEE 116 (305)
T ss_pred hHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccc
Confidence 3444444444444455667789999999999999998654
No 38
>KOG3866 consensus DNA-binding protein of the nucleobindin family [General function prediction only]
Probab=31.74 E-value=1.7e+02 Score=28.77 Aligned_cols=27 Identities=30% Similarity=0.321 Sum_probs=22.3
Q ss_pred CccccCCCCCCHHHHHHHHHHHHhcCC
Q 017406 55 PVLQEHDLFWDDNELLSLICKEKKENF 81 (372)
Q Consensus 55 ~~~~~~~~f~~~e~l~~Ll~kE~~~~~ 81 (372)
+.-++.|=||++-+|.+|+.+|.+.+.
T Consensus 252 LHD~NsDGfldeqELEaLFtkELEKvY 278 (442)
T KOG3866|consen 252 LHDLNSDGFLDEQELEALFTKELEKVY 278 (442)
T ss_pred eeccCCcccccHHHHHHHHHHHHHHhc
Confidence 344678899999999999999887653
No 39
>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=30.34 E-value=1.8e+02 Score=22.32 Aligned_cols=53 Identities=15% Similarity=0.171 Sum_probs=33.7
Q ss_pred HHHHHHhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q 017406 72 LICKEKKENFVPSDPISDEILILARKEVVEWVLRVKAHFGFTALTAILAVNYFDRF 127 (372)
Q Consensus 72 Ll~kE~~~~~~~~~~q~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~ylDRf 127 (372)
+.+.|+.+......-..+.-+-..|..+|++|.+++..-|++.+ .|+..+|.+
T Consensus 28 I~~le~~yG~~WR~~~~~~~~y~rRK~Ii~~I~~l~~~~g~~~~---~ai~~le~~ 80 (81)
T PF12550_consen 28 IRSLEKKYGSKWRRDSKERRTYSRRKVIIDFIERLANERGISEE---EAIEILEEI 80 (81)
T ss_pred HHHHHHHhChhhccCcccchhHHHHHHHHHHHHHHHHHcCCCHH---HHHHHHHhc
Confidence 34445655432321222224567899999999999888887765 456666654
No 40
>COG3474 Cytochrome c2 [Energy production and conversion]
Probab=22.68 E-value=1.5e+02 Score=25.48 Aligned_cols=47 Identities=13% Similarity=0.210 Sum_probs=34.1
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCCCCchhhHHHHHHHHHHHHHHH
Q 017406 61 DLFWDDNELLSLICKEKKENFVPSDPISDEILILARKEVVEWVLRVK 107 (372)
Q Consensus 61 ~~f~~~e~l~~Ll~kE~~~~~~~~~~q~~~i~~~~R~~~v~Wi~~v~ 107 (372)
-+-|+++.|...|..=+.+.|.-+..-.+--....|..+|-||....
T Consensus 85 g~vWd~~~L~~fL~~Pkk~vpGTkM~faGlkk~~dradlIAYLk~~~ 131 (135)
T COG3474 85 GIVWDEDNLDEFLTAPKKYVPGTKMAFAGLKKDQDRADLIAYLKSLP 131 (135)
T ss_pred CcccCHHHHHHHHhChhhhCCCcceeecCCCCHHHHHHHHHHHHhcc
Confidence 56799999999999999999843222122123479999999987643
Done!