Query 045573
Match_columns 535
No_of_seqs 236 out of 1538
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 03:26:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045573.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045573hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5024 Cyclin [Cell division 100.0 5.3E-34 1.1E-38 302.7 12.7 217 298-534 162-392 (440)
2 KOG0653 Cyclin B and related k 100.0 1.1E-33 2.5E-38 298.7 13.9 206 320-534 120-338 (391)
3 KOG0655 G1/S-specific cyclin E 100.0 2.7E-32 5.8E-37 276.7 17.7 195 324-535 110-329 (408)
4 KOG0656 G1/S-specific cyclin D 100.0 7.2E-31 1.6E-35 270.5 17.5 203 325-534 43-267 (335)
5 KOG0654 G2/Mitotic-specific cy 99.9 5.1E-29 1.1E-33 258.8 4.6 206 321-534 97-316 (359)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 1.4E-21 3.1E-26 172.5 10.5 115 329-451 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.8 1.5E-19 3.3E-24 185.9 13.2 151 359-511 46-222 (305)
8 KOG0834 CDK9 kinase-activating 99.7 2E-17 4.4E-22 171.0 7.4 148 362-511 36-211 (323)
9 KOG0835 Cyclin L [General func 99.7 4.3E-16 9.3E-21 159.2 13.0 169 361-531 19-219 (367)
10 COG5333 CCL1 Cdk activating ki 99.6 1.3E-15 2.9E-20 154.9 12.4 153 361-516 41-212 (297)
11 PF02984 Cyclin_C: Cyclin, C-t 99.5 9E-15 1.9E-19 126.8 3.8 83 453-535 1-83 (118)
12 KOG0794 CDK8 kinase-activating 99.5 2.5E-14 5.3E-19 140.7 7.0 167 364-534 40-231 (264)
13 PRK00423 tfb transcription ini 99.3 9.3E-11 2E-15 121.3 16.7 164 366-533 123-296 (310)
14 cd00043 CYCLIN Cyclin box fold 99.2 5.2E-11 1.1E-15 96.3 6.1 76 365-443 2-88 (88)
15 smart00385 CYCLIN domain prese 99.1 3.1E-10 6.7E-15 91.0 6.3 73 370-444 1-83 (83)
16 KOG2496 Cdk activating kinase 99.0 1.6E-09 3.4E-14 110.7 10.0 147 360-510 55-223 (325)
17 COG1405 SUA7 Transcription ini 98.6 4E-06 8.6E-11 86.4 21.2 164 365-531 97-269 (285)
18 smart00385 CYCLIN domain prese 98.5 1.7E-07 3.8E-12 75.0 5.2 77 457-534 1-78 (83)
19 cd00043 CYCLIN Cyclin box fold 98.5 4E-07 8.7E-12 73.5 7.0 82 452-534 2-84 (88)
20 KOG1597 Transcription initiati 98.1 4E-05 8.6E-10 78.8 12.8 158 370-531 109-278 (308)
21 PF08613 Cyclin: Cyclin; Inte 97.9 3.4E-05 7.4E-10 71.9 7.6 82 368-450 54-149 (149)
22 KOG4164 Cyclin ik3-1/CABLES [C 97.2 0.00034 7.3E-09 74.4 4.7 92 360-453 377-482 (497)
23 PF00382 TFIIB: Transcription 95.7 0.043 9.2E-07 44.8 7.1 70 459-529 1-70 (71)
24 KOG1598 Transcription initiati 95.0 0.14 3E-06 56.9 10.1 138 372-512 74-226 (521)
25 PF00382 TFIIB: Transcription 91.9 0.29 6.3E-06 39.8 4.7 53 373-427 2-54 (71)
26 KOG1674 Cyclin [General functi 89.6 0.47 1E-05 47.5 4.7 83 370-453 80-181 (218)
27 PF00134 Cyclin_N: Cyclin, N-t 89.2 1.4 3E-05 38.6 6.9 68 456-523 35-102 (127)
28 PRK00423 tfb transcription ini 83.8 3.3 7.1E-05 43.4 7.3 78 455-533 125-202 (310)
29 KOG1675 Predicted cyclin [Gene 77.7 4.6 9.9E-05 42.7 5.8 74 381-454 205-290 (343)
30 PF02984 Cyclin_C: Cyclin, C-t 69.2 14 0.00031 31.5 6.1 56 369-426 4-59 (118)
31 KOG0086 GTPase Rab4, small G p 68.6 1.9 4E-05 41.8 0.4 15 78-92 66-80 (214)
32 PF08613 Cyclin: Cyclin; Inte 64.3 29 0.00063 32.4 7.5 80 452-531 51-135 (149)
33 COG1405 SUA7 Transcription ini 59.0 15 0.00032 38.5 5.0 57 367-425 193-249 (285)
34 KOG1597 Transcription initiati 55.2 34 0.00074 36.2 6.7 76 458-535 110-186 (308)
35 TIGR00569 ccl1 cyclin ccl1. Un 52.1 30 0.00066 36.5 5.9 52 460-511 64-117 (305)
36 KOG0091 GTPase Rab39, small G 45.0 8.5 0.00018 37.8 0.5 15 78-92 66-80 (213)
37 KOG0834 CDK9 kinase-activating 38.5 69 0.0015 34.3 6.1 56 456-511 43-98 (323)
38 KOG0835 Cyclin L [General func 31.6 1.3E+02 0.0028 32.5 6.7 40 387-427 161-200 (367)
No 1
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=5.3e-34 Score=302.66 Aligned_cols=217 Identities=24% Similarity=0.248 Sum_probs=201.1
Q ss_pred CCCCCC-CcccccccccCCCcccCCCCCCcHHHHHHHHHHHHhhhcCCcchHhhhhcCCCCCCCcHHHHHHHHHHhHhhc
Q 045573 298 SSVPLD-SRKCFLVQEENQPSTFVRFEDEEDEESYQRFRERERRQTFLYDYAEEYFSGTEYGDLIREQRSQMVHWIVEQQ 376 (535)
Q Consensus 298 s~~P~d-t~ty~i~~v~e~~~~~~~~edEY~eEIy~~LrerE~k~~p~~dyL~~~q~~~~q~~It~~~R~~LVDWMieV~ 376 (535)
..++-| ++..+++|++| |..+|+.+|+++|....|.++|+.+ |+.+.+.||.+||+|++++
T Consensus 162 ~~~dld~~~~~d~~mv~E-----------y~~~Ife~l~k~e~~~lp~~~yl~k------q~~~~~~mR~~Lv~wlvev- 223 (440)
T COG5024 162 SWQDLDATDQEDPLMVPE-----------YASDIFEYLLKLELIDLPNPNYLIK------QSLYEWSMRSILVDWLVEV- 223 (440)
T ss_pred CccccccccccCccchHH-----------HHHHHHHHHHHHHHHhcCcHHHHhh------cchhHHhHHHHHHHHHHHh-
Confidence 344444 45555666665 8999999999999999999999875 4788899999999999999
Q ss_pred cccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc------------HHHHHHHHHHHHH
Q 045573 377 CTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG------------RCEVVAMEWLVQE 444 (535)
Q Consensus 377 ~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~------------~~eIl~mE~~IL~ 444 (535)
|..|++.++|+++||++|||||+...+. ..++||+|++|||||+|+||+.+|.. .++|+.+|+.||.
T Consensus 224 H~~F~llpeTL~lainiiDrfLs~~~v~-l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~ 302 (440)
T COG5024 224 HGKFGLLPETLFLAINIIDRFLSSRVVS-LEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLE 302 (440)
T ss_pred cccccccchHHHHHHHHHHHHhccCccc-HHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhh
Confidence 9999999999999999999999999998 99999999999999999999998865 9999999999999
Q ss_pred HcCccccCCCHHHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhC
Q 045573 445 VLNFQCFLPTIYNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVR 524 (535)
Q Consensus 445 tLdFdL~~PTP~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTG 524 (535)
+|+|++.+|+|+.|++++.++.+.+...+.++.|+++++..++.|.+++||++||||.++|+.+++... |...|..++|
T Consensus 303 ~l~f~is~P~P~sFLRriSka~dyd~~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~-w~~~l~~ySg 381 (440)
T COG5024 303 VLDFNISWPSPMSFLRRISKASDYDIFSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ-WDRTLIHYSG 381 (440)
T ss_pred hcccccCCCChHHHHHHHHhhcccchhhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccCC-CCccccccCC
Confidence 999999999999999999999999999999999999999999999999999999999999999999944 9999999999
Q ss_pred -CCcCcccccc
Q 045573 525 -TKENDLPDCI 534 (535)
Q Consensus 525 -yt~~dL~eCi 534 (535)
|+..+|.+++
T Consensus 382 ~y~~~~l~~~~ 392 (440)
T COG5024 382 NYTNPDLKPLN 392 (440)
T ss_pred CCCchhHHHHH
Confidence 9999888764
No 2
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.1e-33 Score=298.69 Aligned_cols=206 Identities=32% Similarity=0.366 Sum_probs=188.6
Q ss_pred CCCCCCcHHHHHHHHHHHHhhhcCCcchHhhhhcCCCCCCCcHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHh
Q 045573 320 VRFEDEEDEESYQRFRERERRQTFLYDYAEEYFSGTEYGDLIREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLS 399 (535)
Q Consensus 320 ~~~edEY~eEIy~~LrerE~k~~p~~dyL~~~q~~~~q~~It~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLs 399 (535)
.....+|.+|||.+++++|....|...+ . .++++++.||.++||||++| |..|+|.+||+|+||+|+||||+
T Consensus 120 ~~~~~ey~~di~~~l~~~e~~~~p~~~~-~------~~~e~~~~mR~iLvdwlvev-h~~F~L~~ETL~LaVnliDRfL~ 191 (391)
T KOG0653|consen 120 PSMIVEYVQDIFEYLRQLELEFLPLSYD-I------SQSEIRAKMRAILVDWLVEV-HEKFGLSPETLYLAVNLIDRFLS 191 (391)
T ss_pred cHHHHHHHHHHHHHHHHHHHhhCchhhh-c------ccccccHHHHHHHHHHHHHh-hhhcCcCHHHHHHHHHHHHHHHH
Confidence 3345579999999999999633444444 2 36899999999999999999 99999999999999999999999
Q ss_pred cCcccccccchhhhhhHhh-hhhhhhccCCCCc------------HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHh
Q 045573 400 RGFFKIKRNLQIVGVACLA-LATRIEENQPYNG------------RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAA 466 (535)
Q Consensus 400 k~~V~~~~~LQLVgiTCLf-IASK~EE~~pp~~------------~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l 466 (535)
+..++ +.++||+|++||| ||+|+||..+|.. .++|++||+.||.+|+|++..|||+.||++|+++.
T Consensus 192 ~~~v~-~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~ 270 (391)
T KOG0653|consen 192 KVKVP-LKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAA 270 (391)
T ss_pred Hhccc-HHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhh
Confidence 99987 9999999999966 9999999988854 99999999999999999999999999999999999
Q ss_pred ccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCCcCcccccc
Q 045573 467 KADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRTKENDLPDCI 534 (535)
Q Consensus 467 ~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~dL~eCi 534 (535)
..+...+.+++|+++++++|+.++.++||.+|+|++++++.+......|...+..++||...++.+|.
T Consensus 271 ~~d~~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~~w~~~~~~~sg~~~~~~~~~~ 338 (391)
T KOG0653|consen 271 DYDIKTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGDVWSPTLEHYSGYSESYLFECA 338 (391)
T ss_pred hcchhHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCCccCCCCeeccCCCcHHHHHHH
Confidence 99999999999999999999999999999999999999999998856799999999999988888775
No 3
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.7e-32 Score=276.73 Aligned_cols=195 Identities=24% Similarity=0.366 Sum_probs=172.4
Q ss_pred CCcHHHHHHHHHHHHhhhcCCcchHhhhhcCCCCCCCcHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcC-c
Q 045573 324 DEEDEESYQRFRERERRQTFLYDYAEEYFSGTEYGDLIREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRG-F 402 (535)
Q Consensus 324 dEY~eEIy~~LrerE~k~~p~~dyL~~~q~~~~q~~It~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~-~ 402 (535)
..-..++|..|..+|..+.....++. +|+.+.++||++++|||++| |+.++|.+||||||+.||||||... .
T Consensus 110 wgn~~eVW~lM~kkee~~l~~~~~l~------qHpdlqp~mRaILlDWlmEV-CEvykLHRETFyLAvDy~DRyl~t~~~ 182 (408)
T KOG0655|consen 110 WGNSKEVWLLMLKKEERYLRDKHFLE------QHPDLQPQMRAILLDWLMEV-CEVYKLHRETFYLAVDYFDRYLETQVE 182 (408)
T ss_pred ccCHHHHHHHHHccchhhhhhhHHHh------hCCCCCHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence 34578999999999998766666665 47999999999999999999 9999999999999999999999654 4
Q ss_pred ccccccchhhhhhHhhhhhhhhccCCCCc------------HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhccCh
Q 045573 403 FKIKRNLQIVGVACLALATRIEENQPYNG------------RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKADA 470 (535)
Q Consensus 403 V~~~~~LQLVgiTCLfIASK~EE~~pp~~------------~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~d~ 470 (535)
+ .+.+|||||+||||||||+||++||.+ .++|+.||..||++|+|+|.+.|...||..|+.....+.
T Consensus 183 v-~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~ 261 (408)
T KOG0655|consen 183 V-SKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALND 261 (408)
T ss_pred h-hhhhHHHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCC
Confidence 5 489999999999999999999999987 899999999999999999999999999999999885432
Q ss_pred ------------hhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCCcCccccccC
Q 045573 471 ------------GVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRTKENDLPDCIK 535 (535)
Q Consensus 471 ------------~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~dL~eCik 535 (535)
...++ ..|+++++++...+.|.-++||||||+.--. ...+++.+|+.+++|.+|++
T Consensus 262 ~~k~l~Pq~~~~efiqi-aqlLDlc~ldids~~fsYrilaAAal~h~~s--------~e~v~kaSG~~w~~ie~cv~ 329 (408)
T KOG0655|consen 262 APKVLLPQYSQEEFIQI-AQLLDLCILDIDSLEFSYRILAAAALCHFTS--------IEVVKKASGLEWDSIEECVD 329 (408)
T ss_pred CCceeccccchHHHHHH-HHHHHHHHhccccccchHHHHHHHHHHHHhH--------HHHHHHcccccHHHHHHHHH
Confidence 13333 4588999999999999999999999887433 56799999999999999985
No 4
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.97 E-value=7.2e-31 Score=270.53 Aligned_cols=203 Identities=24% Similarity=0.337 Sum_probs=170.3
Q ss_pred CcHHHHHHHHHHHHhhhcCCcchHhhhhcCCCCCCCcHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCccc
Q 045573 325 EEDEESYQRFRERERRQTFLYDYAEEYFSGTEYGDLIREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFK 404 (535)
Q Consensus 325 EY~eEIy~~LrerE~k~~p~~dyL~~~q~~~~q~~It~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~ 404 (535)
-++++++..|.+.|..+.|..+|.... +..+++.||.++++||++| |+++++.++|++|||+||||||+...++
T Consensus 43 ~~~e~~i~~ll~kEe~~~p~~~~~~~~-----~~~~~~~~R~~A~~WIl~V-~~~~~~~~~~~~LA~NYlDRFls~~~l~ 116 (335)
T KOG0656|consen 43 LWDERVLANLLEKEEQHNPSLDYFLCV-----QKLILSSMRKQALDWILKV-CEEYNFEPLVFLLAMNYLDRFLSSQKLP 116 (335)
T ss_pred cccHHHHHHHHHHHHHhCCCCchhhhc-----ccccccHHHHHHHHHHHHH-HHHhCCchHHHHHHHHHHHHhhcccccC
Confidence 366889999999999998888855443 4789999999999999999 9999999999999999999999999998
Q ss_pred cccc---chhhhhhHhhhhhhhhccCCCCc-------------HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhcc
Q 045573 405 IKRN---LQIVGVACLALATRIEENQPYNG-------------RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKA 468 (535)
Q Consensus 405 ~~~~---LQLVgiTCLfIASK~EE~~pp~~-------------~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~ 468 (535)
+++ +||+|+|||+||||++|+..|.. ++.|.+||..||.+|+|+++.+||++|+++|+..++.
T Consensus 117 -k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~ 195 (335)
T KOG0656|consen 117 -KDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQ 195 (335)
T ss_pred -CCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCc
Confidence 777 99999999999999999974433 9999999999999999999999999999999999986
Q ss_pred C----hhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCC--chHHHHHHHhCCCcCcccccc
Q 045573 469 D----AGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDT--SYHRVIEIHVRTKENDLPDCI 534 (535)
Q Consensus 469 d----~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~--~W~~~Lq~lTGyt~~dL~eCi 534 (535)
. ..+...+.-++-.+..+..|+.|+||+||+|++.++...+..-. .....+..+.+.+.+....|.
T Consensus 196 ~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~ 267 (335)
T KOG0656|consen 196 KDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCY 267 (335)
T ss_pred ccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcch
Confidence 3 34666777788888899999999999999998877776654411 122444444555555544443
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.95 E-value=5.1e-29 Score=258.84 Aligned_cols=206 Identities=30% Similarity=0.405 Sum_probs=195.2
Q ss_pred CCCCCcHHHHHHHHHHHHhh-hcCCcchHhhhhcCCCCCCCcHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHh
Q 045573 321 RFEDEEDEESYQRFRERERR-QTFLYDYAEEYFSGTEYGDLIREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLS 399 (535)
Q Consensus 321 ~~edEY~eEIy~~LrerE~k-~~p~~dyL~~~q~~~~q~~It~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLs 399 (535)
+.+..|..+|++|++.-|.. .++.++|++..| .++++.||.++|+|++++ .+.+++..++||+++++.|||+.
T Consensus 97 ~~c~~~~~~I~~~~r~~ei~~~rp~~~~~e~vq-----~d~t~smrgilvdwlvev-see~r~~~e~l~ls~~~~drfl~ 170 (359)
T KOG0654|consen 97 QMCLKIAAKIYNTLRVSDIKSERPLPSKFEFVQ-----ADITPSMRGILVDWLVEV-SEEYRLTFETLYLSVNYRDRFLS 170 (359)
T ss_pred HHHHHHHHHHhhcccccchhhccCcccceeeee-----cCCCcchhhhhhhhhhHH-HHHHHhhhhheeecHHHHHHHhc
Confidence 44567999999999999999 899999998864 899999999999999999 99999999999999999999999
Q ss_pred cCcccccccchhhhhhHhhhhhhhhccCCCCc------------HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhc
Q 045573 400 RGFFKIKRNLQIVGVACLALATRIEENQPYNG------------RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAK 467 (535)
Q Consensus 400 k~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~------------~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~ 467 (535)
...+. +.++|++|.+|++||+|++|+.++.. ..++..||..||..|.|.+..||.-.|++.|+....
T Consensus 171 ~~~~~-~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~ 249 (359)
T KOG0654|consen 171 YKEVN-KQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQ 249 (359)
T ss_pred cCccH-HHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhc
Confidence 99998 99999999999999999999998843 899999999999999999999999999999988877
Q ss_pred -cChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCCcCcccccc
Q 045573 468 -ADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRTKENDLPDCI 534 (535)
Q Consensus 468 -~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~dL~eCi 534 (535)
...++..++.||.+++++++.|+.|.||.|||||++||+.+++ ..+|+..|+++|||+..+|.+|+
T Consensus 250 ~~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~-~~pW~~~L~~~T~y~~edl~~~v 316 (359)
T KOG0654|consen 250 TPELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD-FHPWNQTLEDYTGYKAEDLKPCV 316 (359)
T ss_pred chhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc-CCCCchhhHHhhcccHHHHHHHH
Confidence 5678999999999999999999999999999999999999999 59999999999999999999997
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=99.86 E-value=1.4e-21 Score=172.48 Aligned_cols=115 Identities=31% Similarity=0.563 Sum_probs=102.1
Q ss_pred HHHHHHHHHHhhhcCCcchHhhhhcCCCCCCCcHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCccccccc
Q 045573 329 ESYQRFRERERRQTFLYDYAEEYFSGTEYGDLIREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRN 408 (535)
Q Consensus 329 EIy~~LrerE~k~~p~~dyL~~~q~~~~q~~It~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~ 408 (535)
||+.+|+++|.++.+++.|++. ++.++..+|..+++||.++ +..+++++.|+++|+.|||||+.+..+. +.+
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~------~~~~~~~~r~~~~~~i~~~-~~~~~l~~~~~~~A~~~~dr~~~~~~~~-~~~ 72 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQ------QPEITPEMRQIIIDWIIEL-CQRLKLSPETLHLAIYLFDRFLSKRPVN-RSK 72 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTG------TSSHHHHHHHHHHHHHHHH-HHHTT-BHHHHHHHHHHHHHHHTTS-TT-CCG
T ss_pred CHHHHHHHHHHHHCcCcccccc------ChhcCHHHHHHHHHHHHHH-HHhcccchhHHHHHHHHHHHHHhhcccc-cch
Confidence 7999999999999889999974 3689999999999999999 9999999999999999999999999887 999
Q ss_pred chhhhhhHhhhhhhhhccCCCCc------------HHHHHHHHHHHHHHcCcccc
Q 045573 409 LQIVGVACLALATRIEENQPYNG------------RCEVVAMEWLVQEVLNFQCF 451 (535)
Q Consensus 409 LQLVgiTCLfIASK~EE~~pp~~------------~~eIl~mE~~IL~tLdFdL~ 451 (535)
++++|+|||+||+|++|..++.. .++|++||+.||.+|+|+++
T Consensus 73 ~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 73 LQLIALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999976644 89999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.81 E-value=1.5e-19 Score=185.91 Aligned_cols=151 Identities=20% Similarity=0.212 Sum_probs=133.7
Q ss_pred CCcH----HHHHHHHHHhHhhcccccc--CchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc-
Q 045573 359 DLIR----EQRSQMVHWIVEQQCTAKE--LHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG- 431 (535)
Q Consensus 359 ~It~----~~R~~LVDWMieV~~~~fk--Ls~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~- 431 (535)
.+++ .+|...+.+|.++ |..++ |+..|+.+|+.||+||+..+.+. ..+.++||+||||||+|+||......
T Consensus 46 ~Lt~eeE~~l~~~y~~~i~~~-~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~-~~~p~~Ia~tclfLA~KvEE~~~si~~ 123 (305)
T TIGR00569 46 FLTPEEELDLVKYYEKRLLDF-CSAFKPTMPTSVVGTAIMYFKRFYLNNSVM-EYHPKIIMLTCVFLACKVEEFNVSIDQ 123 (305)
T ss_pred CCCHHHHHHHHHHHHHHHHHH-HHHhcCCCCchHHHHHHHHHhHHhccCchh-hcCHHHHHHHHHHHHHhccccCcCHHH
Confidence 4665 5888999999999 99999 99999999999999999999997 89999999999999999999753211
Q ss_pred ------------HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhc-------cChhhHHHHHHHHHHHhccccccCC
Q 045573 432 ------------RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAK-------ADAGVDKKAKYLAVLALSDHEHLSY 492 (535)
Q Consensus 432 ------------~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~-------~d~~i~~lA~yLLelsLld~~fl~y 492 (535)
.++|++||..||+.|+|+|..++|+.++..|+..++ ....+...|+.++..++++.-++.|
T Consensus 124 fv~~~~~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y 203 (305)
T TIGR00569 124 FVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLY 203 (305)
T ss_pred HHhhccCCchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecC
Confidence 589999999999999999999999999998886443 2235778888999888888889999
Q ss_pred cHHHHHHHHHHHHHHHcCC
Q 045573 493 WPSTVAAALVILALLESHQ 511 (535)
Q Consensus 493 ~PS~IAAAaI~LA~~iL~~ 511 (535)
+|++||+|||++|...++.
T Consensus 204 ~Ps~IAlAAI~lA~~~~~~ 222 (305)
T TIGR00569 204 TPSQIALAAILHTASRAGL 222 (305)
T ss_pred CHHHHHHHHHHHHHHHhCC
Confidence 9999999999999998876
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.70 E-value=2e-17 Score=170.99 Aligned_cols=148 Identities=27% Similarity=0.318 Sum_probs=136.5
Q ss_pred HHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCC-------------
Q 045573 362 REQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQP------------- 428 (535)
Q Consensus 362 ~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~p------------- 428 (535)
...|.....||.++ +..++++..|+.+|+.|++||+..+... ..+...||++|||||+|+||..-
T Consensus 36 ~~~r~~~~~fI~el-g~~L~~~~~ti~tA~~~~hRFy~~~s~~-~~~~~~vA~sclfLAgKvEetp~kl~dIi~~s~~~~ 113 (323)
T KOG0834|consen 36 LRLRQEGAKFIQEL-GVRLKMPQKTIATAIVIFHRFYMFHSFK-KFDPYTVAASCLFLAGKVEETPRKLEDIIKVSYRYL 113 (323)
T ss_pred HHHHHHHHHHHHHH-HHHcCCCccchhhhhhhhhhhhhhcccc-cCcHHHHHHHHHHHHhhcccCcccHHHHHHHHHHHc
Confidence 45799999999999 9999999999999999999999999997 88889999999999999999631
Q ss_pred -C---Cc-------HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhccChh----hHHHHHHHHHHHhccccccCCc
Q 045573 429 -Y---NG-------RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKADAG----VDKKAKYLAVLALSDHEHLSYW 493 (535)
Q Consensus 429 -p---~~-------~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~d~~----i~~lA~yLLelsLld~~fl~y~ 493 (535)
+ .. ++.|+..|..||++|+||+++-.||.||-.|++.++.+.. +..+|++++..++...-+++|+
T Consensus 114 ~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~ 193 (323)
T KOG0834|consen 114 NPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYS 193 (323)
T ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeec
Confidence 1 11 8899999999999999999999999999999999987664 8899999999999999899999
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 045573 494 PSTVAAALVILALLESHQ 511 (535)
Q Consensus 494 PS~IAAAaI~LA~~iL~~ 511 (535)
|..||+|||.+|....|.
T Consensus 194 p~~IAva~i~lA~~~~~~ 211 (323)
T KOG0834|consen 194 PHSIAVACIHLAAKLLGV 211 (323)
T ss_pred CcEEEeehhhHHHHHcCC
Confidence 999999999999999776
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.67 E-value=4.3e-16 Score=159.20 Aligned_cols=169 Identities=21% Similarity=0.243 Sum_probs=144.0
Q ss_pred cHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCC-----c----
Q 045573 361 IREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYN-----G---- 431 (535)
Q Consensus 361 t~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~-----~---- 431 (535)
..+.|..-++||.+- +..++|++.+.+.+..||-||+...... +.++..++++|++||+|+||...-. .
T Consensus 19 e~el~~LG~e~Iqea-~ILL~L~q~a~atgqVLFqRf~~~ks~v-~~~~e~vv~ACv~LASKiEE~Prr~rdVinVFh~L 96 (367)
T KOG0835|consen 19 EEELRILGCELIQEA-GILLNLPQVAMATGQVLFQRFCYSKSFV-RHDFEIVVMACVLLASKIEEEPRRIRDVINVFHYL 96 (367)
T ss_pred HHHHHHHhHHHHHhh-hHhhcCcHHHHHHHHHHHHHHHhccccc-cccHHHHHHHHHHHHhhhccccccHhHHHHHHHHH
Confidence 356888999999999 9999999999999999999999999987 9999999999999999999963211 0
Q ss_pred ---------------------HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhccCh--hhHHHHHHHHHHHhcccc
Q 045573 432 ---------------------RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKADA--GVDKKAKYLAVLALSDHE 488 (535)
Q Consensus 432 ---------------------~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~d~--~i~~lA~yLLelsLld~~ 488 (535)
...++++|..||..|+|++++-.|+.++-.|+..++... .+.+.+|.+++.++...-
T Consensus 97 ~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v 176 (367)
T KOG0835|consen 97 EQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDV 176 (367)
T ss_pred HHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHHHHhhhhccccce
Confidence 667899999999999999999999999999999998655 469999999999999999
Q ss_pred ccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCCcCccc
Q 045573 489 HLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRTKENDLP 531 (535)
Q Consensus 489 fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~dL~ 531 (535)
|..|+|+.||+|||+||...++.+.+..+-+..+.+.+..+|.
T Consensus 177 ~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k~eid 219 (367)
T KOG0835|consen 177 FVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTKREID 219 (367)
T ss_pred eeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcHHHHH
Confidence 9999999999999999999988432222223344555555543
No 10
>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=99.64 E-value=1.3e-15 Score=154.95 Aligned_cols=153 Identities=20% Similarity=0.235 Sum_probs=137.9
Q ss_pred cHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhcc--CCCC--------
Q 045573 361 IREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEEN--QPYN-------- 430 (535)
Q Consensus 361 t~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~--~pp~-------- 430 (535)
....|..-..|+..+ |.+++++..++.+||.+++||+.+..+. ...++-|+.||++||+|.||. ....
T Consensus 41 e~~l~i~~~k~i~~l-~~~L~lp~~~laTAi~~f~Rf~Lk~sv~-e~~~~~vv~tcv~LA~K~ed~~~~I~i~~~~~~~~ 118 (297)
T COG5333 41 ELNLVIYYLKLIMDL-CTRLNLPQTVLATAILFFSRFYLKNSVE-EISLYSVVTTCVYLACKVEDTPRDISIESFEARDL 118 (297)
T ss_pred hhhHHHHHHHHHHHH-HHhcCCCcchHHHHHHHHHHHHhhcccc-cccHHHHHHhheeeeeecccccchhhHHHHHhhcc
Confidence 345677778999999 9999999999999999999999999997 899999999999999999994 1110
Q ss_pred -------cHHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhccChh--hHHHHHHHHHHHhccccccCCcHHHHHHHH
Q 045573 431 -------GRCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKADAG--VDKKAKYLAVLALSDHEHLSYWPSTVAAAL 501 (535)
Q Consensus 431 -------~~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~d~~--i~~lA~yLLelsLld~~fl~y~PS~IAAAa 501 (535)
.++.|+.+|..||+.|+|++.+++|+..+..|+..+..... ..++||-++..++...-++.|+|..||+||
T Consensus 119 ~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~~t~~~llypphiIA~a~ 198 (297)
T COG5333 119 WSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPHIIALAA 198 (297)
T ss_pred ccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhceeeeecChHHHHHHH
Confidence 18899999999999999999999999999999999886655 999999999999999999999999999999
Q ss_pred HHHHHHHcCCCCchH
Q 045573 502 VILALLESHQDTSYH 516 (535)
Q Consensus 502 I~LA~~iL~~~~~W~ 516 (535)
+.+|...+|. +.|.
T Consensus 199 l~ia~~~~~~-~~~~ 212 (297)
T COG5333 199 LLIACEVLGM-PIIK 212 (297)
T ss_pred HHHHHHhcCC-ccch
Confidence 9999999887 4443
No 11
>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=99.51 E-value=9e-15 Score=126.82 Aligned_cols=83 Identities=37% Similarity=0.548 Sum_probs=74.7
Q ss_pred CCHHHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCCcCcccc
Q 045573 453 PTIYNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRTKENDLPD 532 (535)
Q Consensus 453 PTP~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~dL~e 532 (535)
|||++||++|++..+.+..+..+++||++++++++.|+.|+||+||+||+++|+.+++..+.|...+..++||+.++|.+
T Consensus 1 PTp~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~~~~~l~~ 80 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPESLEKLTGYDKEDLKE 80 (118)
T ss_dssp --HHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS-HHHHHH
T ss_pred CcHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccCCccchhhcCCCHHHHHH
Confidence 89999999998877778889999999999999999999999999999999999999987679999999999999999999
Q ss_pred ccC
Q 045573 533 CIK 535 (535)
Q Consensus 533 Cik 535 (535)
|++
T Consensus 81 c~~ 83 (118)
T PF02984_consen 81 CIE 83 (118)
T ss_dssp HHH
T ss_pred HHH
Confidence 974
No 12
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.50 E-value=2.5e-14 Score=140.73 Aligned_cols=167 Identities=19% Similarity=0.223 Sum_probs=138.8
Q ss_pred HHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc------------
Q 045573 364 QRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG------------ 431 (535)
Q Consensus 364 ~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~------------ 431 (535)
.+--.-+.|..+ +.++++.+.++.+|+.||-||+.+.+.. .-.+.|+|.||++||+|+||......
T Consensus 40 l~i~~~n~I~~l-g~~lklRQ~ViATAivY~rRfy~r~S~k-~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~ 117 (264)
T KOG0794|consen 40 LKIFMANVIQKL-GQHLKLRQRVIATAIVYFRRFYLRKSLK-EIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKT 117 (264)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhh-ccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhh
Confidence 344455668888 9999999999999999999999999986 78899999999999999999741000
Q ss_pred ------------HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhcc-ChhhHHHHHHHHHHHhccccccCCcHHHHH
Q 045573 432 ------------RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKA-DAGVDKKAKYLAVLALSDHEHLSYWPSTVA 498 (535)
Q Consensus 432 ------------~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~-d~~i~~lA~yLLelsLld~~fl~y~PS~IA 498 (535)
..+|++||..+|+.|++-|..-+|+.-|..++..++. +.....+++.+++.++...-++.|+|-+||
T Consensus 118 ~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~Ia 197 (264)
T KOG0794|consen 118 RFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIA 197 (264)
T ss_pred hcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcchhhcceeeecCHHHHH
Confidence 7789999999999999999999999999999988886 667999999999999999999999999999
Q ss_pred HHHHHHHHHHcCCCCchHHHHHHHhCCCcCcccccc
Q 045573 499 AALVILALLESHQDTSYHRVIEIHVRTKENDLPDCI 534 (535)
Q Consensus 499 AAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~dL~eCi 534 (535)
.|||++|+...++... +.+-.-...+.+.+.+|+
T Consensus 198 lAcl~Ia~~~~~k~~~--~~w~~el~vD~ekV~~~v 231 (264)
T KOG0794|consen 198 LACLYIACVIDEKDIP--KAWFAELSVDMEKVKDIV 231 (264)
T ss_pred HHHHHHHHhhcCCChH--HHHHHHHhccHHHHHHHH
Confidence 9999999999887432 222223344444455543
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.28 E-value=9.3e-11 Score=121.26 Aligned_cols=164 Identities=15% Similarity=0.064 Sum_probs=142.5
Q ss_pred HHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc----------HHHH
Q 045573 366 SQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG----------RCEV 435 (535)
Q Consensus 366 ~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~----------~~eI 435 (535)
.....-|.++ +..++|+..+.-.|..|+.+++....+. ......++++|||+|+|.++.. ..+ ..+|
T Consensus 123 ~~a~~~I~~~-~~~L~Lp~~v~e~A~~iyk~~~~~~~~r-grs~~~i~AAclYiACR~~~~p-rtl~eI~~~~~v~~k~i 199 (310)
T PRK00423 123 AFALSELDRI-ASQLGLPRSVREEAAVIYRKAVEKGLIR-GRSIEGVVAAALYAACRRCKVP-RTLDEIAEVSRVSRKEI 199 (310)
T ss_pred HHHHHHHHHH-HHHcCCCHHHHHHHHHHHHHHHhcCccc-CCCHHHHHHHHHHHHHHHcCCC-cCHHHHHHHhCCCHHHH
Confidence 4556778889 9999999999999999999999988776 7788999999999999987753 222 8899
Q ss_pred HHHHHHHHHHcCccccCCCHHHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCch
Q 045573 436 VAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSY 515 (535)
Q Consensus 436 l~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W 515 (535)
-+.++.|++.|++++....|.+|+..|...++....+...|.+++..+....-.....|..|||||||+|.+..|. +.-
T Consensus 200 ~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~-~~t 278 (310)
T PRK00423 200 GRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGE-RRT 278 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCC-CCC
Confidence 9999999999999999999999999999999999999999999999887655567899999999999999998886 445
Q ss_pred HHHHHHHhCCCcCccccc
Q 045573 516 HRVIEIHVRTKENDLPDC 533 (535)
Q Consensus 516 ~~~Lq~lTGyt~~dL~eC 533 (535)
.+.+...+|.+...|+..
T Consensus 279 ~keIa~v~~Vs~~tI~~~ 296 (310)
T PRK00423 279 QREVAEVAGVTEVTVRNR 296 (310)
T ss_pred HHHHHHHcCCCHHHHHHH
Confidence 667788888887766543
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=99.16 E-value=5.2e-11 Score=96.35 Aligned_cols=76 Identities=34% Similarity=0.379 Sum_probs=67.2
Q ss_pred HHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc-----------HH
Q 045573 365 RSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG-----------RC 433 (535)
Q Consensus 365 R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~-----------~~ 433 (535)
|..+++||.++ +..++++.+|+++|+.++|||+....+. ..+++++|++|++||+|+++. ++.. .+
T Consensus 2 ~~~~~~~l~~~-~~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~~ 78 (88)
T cd00043 2 RPTPLDFLRRV-AKALGLSPETLTLAVNLLDRFLLDYSVL-GRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYATEE 78 (88)
T ss_pred cchHHHHHHHH-HHHcCCCHHHHHHHHHHHHHHHHhcccc-cCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCCCHH
Confidence 67899999999 9999999999999999999999999887 899999999999999999998 4332 56
Q ss_pred HHHHHHHHHH
Q 045573 434 EVVAMEWLVQ 443 (535)
Q Consensus 434 eIl~mE~~IL 443 (535)
+|.+||+.||
T Consensus 79 ~i~~~e~~il 88 (88)
T cd00043 79 EILRMEKLLL 88 (88)
T ss_pred HHHHHHHHhC
Confidence 6777777653
No 15
>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=99.06 E-value=3.1e-10 Score=91.03 Aligned_cols=73 Identities=38% Similarity=0.533 Sum_probs=64.6
Q ss_pred HHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc----------HHHHHHHH
Q 045573 370 HWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG----------RCEVVAME 439 (535)
Q Consensus 370 DWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~----------~~eIl~mE 439 (535)
+||.++ +..++++.++.++|+.++||++....+. +...+++|++|++||+|+++..+... .++|.+||
T Consensus 1 ~~l~~~-~~~~~~~~~~~~~a~~~~~~~l~~~~~~-~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~~~~~i~~~~ 78 (83)
T smart00385 1 DFLRRV-CKALNLDPETLNLAVNLLDRFLSDYKFL-KYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGYFTEEEILRME 78 (83)
T ss_pred CHHHHH-HHHcCCCHHHHHHHHHHHHHHHHHhhcc-cCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCCCCHHHHHHHH
Confidence 599999 9999999999999999999999977776 79999999999999999999865432 67888888
Q ss_pred HHHHH
Q 045573 440 WLVQE 444 (535)
Q Consensus 440 ~~IL~ 444 (535)
+.||.
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 88863
No 16
>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=98.99 E-value=1.6e-09 Score=110.72 Aligned_cols=147 Identities=22% Similarity=0.239 Sum_probs=112.1
Q ss_pred CcHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc--------
Q 045573 360 LIREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG-------- 431 (535)
Q Consensus 360 It~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~-------- 431 (535)
++.+.--.++++.-.. .-.|+..++-+|+.+|-||+-...+. .-+...|.+||+|+|+|++|-+...-
T Consensus 55 l~k~~E~~l~~f~~k~---~p~lp~~Vv~TA~~fFkRffL~nsvm-e~~pk~I~~tc~flA~Kieef~ISieqFvkn~~~ 130 (325)
T KOG2496|consen 55 LTKEEELSLVNFYSKF---KPNLPTSVVSTAIEFFKRFFLENSVM-EYSPKIIMATCFFLACKIEEFYISIEQFVKNMNG 130 (325)
T ss_pred ccHHHHHHHHHHHHHh---cCCCchHHHHHHHHHHHHHHHhcchh-hcChHHHHHHHHHHHhhhHhheecHHHHHhhccC
Confidence 3344444455544333 12689999999999999999999997 88999999999999999998653211
Q ss_pred -----HHHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHhccC-------hhhH--HHHHHHHHHHhccccccCCcHHHH
Q 045573 432 -----RCEVVAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKAD-------AGVD--KKAKYLAVLALSDHEHLSYWPSTV 497 (535)
Q Consensus 432 -----~~eIl~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~d-------~~i~--~lA~yLLelsLld~~fl~y~PS~I 497 (535)
.+.++..|..+|+.|+|+|...+|+.-++-|+.-+..- .... ....-+++-+++...++.|+||+|
T Consensus 131 ~~~k~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQI 210 (325)
T KOG2496|consen 131 RKWKTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQI 210 (325)
T ss_pred cccccHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHH
Confidence 88999999999999999999999999998887766421 1111 222466777777778888999999
Q ss_pred HHHHHHHHHHHcC
Q 045573 498 AAALVILALLESH 510 (535)
Q Consensus 498 AAAaI~LA~~iL~ 510 (535)
|.|||..|.-..|
T Consensus 211 ALaAil~a~~~~~ 223 (325)
T KOG2496|consen 211 ALAAILHAAGRTG 223 (325)
T ss_pred HHHHHHHHhcccc
Confidence 9999955543333
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.65 E-value=4e-06 Score=86.42 Aligned_cols=164 Identities=15% Similarity=0.114 Sum_probs=144.6
Q ss_pred HHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc---------HHHH
Q 045573 365 RSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG---------RCEV 435 (535)
Q Consensus 365 R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~---------~~eI 435 (535)
-.....-+-.+ +..++++..+.-.|..++=..+.+.-.. ....+-++++|+++|++.....-... ..+|
T Consensus 97 l~~a~~~l~~~-~~~l~LP~~v~e~A~~iyr~a~~~~l~r-GRsie~v~AA~iY~acR~~~~prtl~eIa~a~~V~~kei 174 (285)
T COG1405 97 LITALEELERI-ASALGLPESVRETAARIYRKAVDKGLLR-GRSIESVAAACIYAACRINGVPRTLDEIAKALGVSKKEI 174 (285)
T ss_pred HHHHHHHHHHH-HHHhCCCchHHHHHHHHHHHHhhcCCCc-CCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHCCCHHHH
Confidence 44566777788 8899999999999999999999998886 78899999999999999877532211 8899
Q ss_pred HHHHHHHHHHcCccccCCCHHHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCch
Q 045573 436 VAMEWLVQEVLNFQCFLPTIYNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSY 515 (535)
Q Consensus 436 l~mE~~IL~tLdFdL~~PTP~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W 515 (535)
.++.+.+...|+=.+....|.+|+..|...++.+.++...|..++..+...-....-.|.-||+||||+|..+.|. ..-
T Consensus 175 ~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~-~~t 253 (285)
T COG1405 175 GRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGE-RRT 253 (285)
T ss_pred HHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCC-chH
Confidence 9999999999999999999999999999999999999999999999999888888999999999999999999985 667
Q ss_pred HHHHHHHhCCCcCccc
Q 045573 516 HRVIEIHVRTKENDLP 531 (535)
Q Consensus 516 ~~~Lq~lTGyt~~dL~ 531 (535)
+.....++|.++.-|+
T Consensus 254 q~eva~v~~vtevTIr 269 (285)
T COG1405 254 QKEVAKVAGVTEVTIR 269 (285)
T ss_pred HHHHHHHhCCeeeHHH
Confidence 7888888998876654
No 18
>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=98.50 E-value=1.7e-07 Score=74.99 Aligned_cols=77 Identities=26% Similarity=0.196 Sum_probs=71.0
Q ss_pred HHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCC-CcCcccccc
Q 045573 457 NFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRT-KENDLPDCI 534 (535)
Q Consensus 457 ~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGy-t~~dL~eCi 534 (535)
+|+..+...++.+.++..+|.++++.++.+..+..++|+.||+||+++|.+..+. .+|...+..++|+ +.++|.+|.
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~~~i~~~~ 78 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEI-PPWTKELVHYTGYFTEEEILRME 78 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcC-CCCchhHhHhhCCCCHHHHHHHH
Confidence 3788899999999999999999999999989999999999999999999999988 4799999999999 999988774
No 19
>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=98.48 E-value=4e-07 Score=73.50 Aligned_cols=82 Identities=24% Similarity=0.096 Sum_probs=77.2
Q ss_pred CCCHHHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCC-CcCcc
Q 045573 452 LPTIYNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRT-KENDL 530 (535)
Q Consensus 452 ~PTP~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGy-t~~dL 530 (535)
.|++.+|+..+...++.+..+..+|.++++..+....+..+.|+.||+||+++|.++.+. +.|...+..++|+ +.++|
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~~~i 80 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYATEEEI 80 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCCCHHHH
Confidence 589999999999999999999999999999999999999999999999999999999988 8999999999999 99888
Q ss_pred cccc
Q 045573 531 PDCI 534 (535)
Q Consensus 531 ~eCi 534 (535)
..|.
T Consensus 81 ~~~e 84 (88)
T cd00043 81 LRME 84 (88)
T ss_pred HHHH
Confidence 7764
No 20
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.09 E-value=4e-05 Score=78.75 Aligned_cols=158 Identities=16% Similarity=0.129 Sum_probs=130.8
Q ss_pred HHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc----------HHHHHHHH
Q 045573 370 HWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG----------RCEVVAME 439 (535)
Q Consensus 370 DWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~----------~~eIl~mE 439 (535)
.-|..+ +...+|+....-.|-.+|-++-...... .....-++++||+||+.-++. |-+. ++||-+.=
T Consensus 109 ~~I~~m-~d~~~Lp~~I~d~A~~ifk~v~~~k~lr-Gks~eai~AAclyiACRq~~~-pRT~kEI~~~anv~kKEIgr~~ 185 (308)
T KOG1597|consen 109 KEITAM-CDRLSLPATIKDRANEIFKLVEDSKLLR-GKSVEALAAACLYIACRQEDV-PRTFKEISAVANVSKKEIGRCV 185 (308)
T ss_pred HHHHHH-HHHhCCchHHHHHHHHHHHHHHHhhhhc-CccHHHHHHHHHHHHHHhcCC-CchHHHHHHHHcCCHHHHHHHH
Confidence 346677 8889999999999999999999776665 788999999999999996654 2221 88999999
Q ss_pred HHHHHHcCccccCCC--HHHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHH
Q 045573 440 WLVQEVLNFQCFLPT--IYNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHR 517 (535)
Q Consensus 440 ~~IL~tLdFdL~~PT--P~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~ 517 (535)
+.|+..|.=.+...| .-+|+.+|...++.+..+...|.++.+.+..-.....-.|-.||||+||++..+... ..-..
T Consensus 186 K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~-kkt~k 264 (308)
T KOG1597|consen 186 KLIGEALETSVDLISISTGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDE-KKTQK 264 (308)
T ss_pred HHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccC-cccHH
Confidence 999999998888777 899999999999999999999999999887544455678999999999999998874 55667
Q ss_pred HHHHHhCCCcCccc
Q 045573 518 VIEIHVRTKENDLP 531 (535)
Q Consensus 518 ~Lq~lTGyt~~dL~ 531 (535)
.+...+|..+.-|+
T Consensus 265 eI~~vtgVaE~TIr 278 (308)
T KOG1597|consen 265 EIGEVTGVAEVTIR 278 (308)
T ss_pred HHHHHhhhhHHHHH
Confidence 77788887665443
No 21
>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=97.89 E-value=3.4e-05 Score=71.92 Aligned_cols=82 Identities=16% Similarity=0.267 Sum_probs=62.9
Q ss_pred HHHHhHhhccccccCchhHHHHHHHHHHHHHh---cCccc-ccccchhhhhhHhhhhhhhhccCCCCc----------HH
Q 045573 368 MVHWIVEQQCTAKELHQETMFLGVSLLDRFLS---RGFFK-IKRNLQIVGVACLALATRIEENQPYNG----------RC 433 (535)
Q Consensus 368 LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLs---k~~V~-~~~~LQLVgiTCLfIASK~EE~~pp~~----------~~ 433 (535)
+.+|+..+ ...-+++.+++.+|..|+||+.. ...+. .....+-+-++||.||+|+-+-..... .+
T Consensus 54 i~~fl~ri-~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~~ 132 (149)
T PF08613_consen 54 IRDFLSRI-LKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISLK 132 (149)
T ss_dssp HHHHHHHH-HHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-HH
T ss_pred HHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCHH
Confidence 77888999 88889999999999999999999 22222 256788899999999999977654433 89
Q ss_pred HHHHHHHHHHHHcCccc
Q 045573 434 EVVAMEWLVQEVLNFQC 450 (535)
Q Consensus 434 eIl~mE~~IL~tLdFdL 450 (535)
++.+||+..|..|+|+|
T Consensus 133 eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 133 ELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHHCCCcC
Confidence 99999999999999986
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.22 E-value=0.00034 Score=74.39 Aligned_cols=92 Identities=21% Similarity=0.342 Sum_probs=76.1
Q ss_pred CcHHHHHHHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc--------
Q 045573 360 LIREQRSQMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG-------- 431 (535)
Q Consensus 360 It~~~R~~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~-------- 431 (535)
+|..-=+.+=.-|.++ +...++..-|+.+|-.||.....+..+. +.+-.|+|.+||.||+||.+..--.+
T Consensus 377 LTLSKirSlKREMr~l-~~d~~id~~TVa~AyVYFEKliLkglis-K~NRKlcAGAclLlaaKmnD~Kks~vKslIek~E 454 (497)
T KOG4164|consen 377 LTLSKIRSLKREMREL-GEDCGIDVVTVAMAYVYFEKLILKGLIS-KQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLE 454 (497)
T ss_pred EeHHHHHHHHHHHHHh-hhccCccceeehhHHHHHHHHHHhhhhh-hhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence 3433333344557777 7888999999999999999999999997 99999999999999999987543322
Q ss_pred ------HHHHHHHHHHHHHHcCccccCC
Q 045573 432 ------RCEVVAMEWLVQEVLNFQCFLP 453 (535)
Q Consensus 432 ------~~eIl~mE~~IL~tLdFdL~~P 453 (535)
+.|++..|.-||.+|.|.|+.|
T Consensus 455 e~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 455 EQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 8999999999999999999865
No 23
>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=95.75 E-value=0.043 Score=44.77 Aligned_cols=70 Identities=17% Similarity=0.012 Sum_probs=54.2
Q ss_pred HHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCCcCc
Q 045573 459 LWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRTKEND 529 (535)
Q Consensus 459 L~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~d 529 (535)
+..|...++.+..+...|..+...+....-...-.|..+||||||+|.+..+. +.-...+...+|.+..+
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~-~~t~~eIa~~~~Vs~~t 70 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGV-PRTLKEIAEAAGVSEKT 70 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTS-SSSHHHHHHHCTSSHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhCCCCCc
Confidence 45677888888899999999999888766666789999999999999999887 55566677777776543
No 24
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=94.97 E-value=0.14 Score=56.89 Aligned_cols=138 Identities=20% Similarity=0.110 Sum_probs=106.5
Q ss_pred hHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccCCCCc---------HHHHHHHHHHH
Q 045573 372 IVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQPYNG---------RCEVVAMEWLV 442 (535)
Q Consensus 372 MieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~pp~~---------~~eIl~mE~~I 442 (535)
|-++ +..+++.. .+-.|.++|---+...-.+ ....++|-++||||++..+-+....+ .-++=.+=+.|
T Consensus 74 i~~~-~~~l~l~~-~~~~a~~~~k~a~~~nftk-Gr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv~Vy~LG~~~l~l 150 (521)
T KOG1598|consen 74 IEEL-TERLNLGN-KTEVAFNFFKLAPDRNFTK-GRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQVSVYDLGSNFLEV 150 (521)
T ss_pred HHHH-HHhcCcch-HHHHHHHHHHHHhhCCCCC-CcchHHHHHHHHHHHHHhhCCceEEEEeccceEEehhhhhHHHHHH
Confidence 5566 78888888 8888999988888888886 78899999999999999887654432 33333344444
Q ss_pred HHHcCcc---ccCCCHHHHHHHHHHHhccC---hhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCC
Q 045573 443 QEVLNFQ---CFLPTIYNFLWFYLKAAKAD---AGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQD 512 (535)
Q Consensus 443 L~tLdFd---L~~PTP~~FL~~fl~~l~~d---~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~ 512 (535)
-..|.=. +-...|.-|+.+|...+... .++...|..|+.-...|.-...-+|+-|+-|||++|.++.|..
T Consensus 151 ~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~ 226 (521)
T KOG1598|consen 151 TDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFR 226 (521)
T ss_pred HHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCcc
Confidence 5555555 56677888888888877543 4577788888888888888888999999999999999998763
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=91.90 E-value=0.29 Score=39.85 Aligned_cols=53 Identities=21% Similarity=0.360 Sum_probs=43.0
Q ss_pred HhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccC
Q 045573 373 VEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQ 427 (535)
Q Consensus 373 ieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~ 427 (535)
-.+ +..++|+..+.-.|..++++-....-.. .....-++++|+++|++.....
T Consensus 2 ~r~-~~~L~L~~~v~~~A~~i~~~~~~~~~~~-Gr~~~~iaAA~iY~acr~~~~~ 54 (71)
T PF00382_consen 2 PRI-CSKLGLPEDVRERAKEIYKKAQERGLLK-GRSPESIAAACIYLACRLNGVP 54 (71)
T ss_dssp HHH-HHHTT--HHHHHHHHHHHHHHHHTTTST-TS-HHHHHHHHHHHHHHHTTSS
T ss_pred hHH-HhHcCCCHHHHHHHHHHHHHHHHcCCcc-cCCHHHHHHHHHHHHHHHcCCC
Confidence 356 8899999999999999999998887775 6778999999999999987653
No 26
>KOG1674 consensus Cyclin [General function prediction only]
Probab=89.65 E-value=0.47 Score=47.46 Aligned_cols=83 Identities=17% Similarity=0.283 Sum_probs=63.5
Q ss_pred HHhHhhccccccCchhHHHHHHHHHHHHHhcCc---cc-----cccc-chhhhhhHhhhhhhhhccCCCCc---------
Q 045573 370 HWIVEQQCTAKELHQETMFLGVSLLDRFLSRGF---FK-----IKRN-LQIVGVACLALATRIEENQPYNG--------- 431 (535)
Q Consensus 370 DWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~---V~-----~~~~-LQLVgiTCLfIASK~EE~~pp~~--------- 431 (535)
+++..+ ...-+.+++++.+|..|||||..+.. +. .--. ..-+-++|+.+|+|+.+......
T Consensus 80 ~yleri-~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vggl 158 (218)
T KOG1674|consen 80 QYLERI-FKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVGGL 158 (218)
T ss_pred HHHHHH-HHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhCCC
Confidence 344455 56667799999999999999999733 11 0112 44578999999999987654332
Q ss_pred -HHHHHHHHHHHHHHcCccccCC
Q 045573 432 -RCEVVAMEWLVQEVLNFQCFLP 453 (535)
Q Consensus 432 -~~eIl~mE~~IL~tLdFdL~~P 453 (535)
.+++..+|...|..++|++.++
T Consensus 159 ~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 159 TTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred ChHhhhhhhHHHHhhCCeEEEec
Confidence 8899999999999999999986
No 27
>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=89.17 E-value=1.4 Score=38.63 Aligned_cols=68 Identities=15% Similarity=-0.038 Sum_probs=51.3
Q ss_pred HHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHh
Q 045573 456 YNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHV 523 (535)
Q Consensus 456 ~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lT 523 (535)
.+|+.......+....+...|.++++.-+.........+..+|+||+++|.++.+...++...+...+
T Consensus 35 ~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~ 102 (127)
T PF00134_consen 35 IDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRIS 102 (127)
T ss_dssp HHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHT
T ss_pred HHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHH
Confidence 44555555666777788889999999888877788899999999999999999887666666666665
No 28
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=83.83 E-value=3.3 Score=43.40 Aligned_cols=78 Identities=14% Similarity=-0.019 Sum_probs=61.3
Q ss_pred HHHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCCcCccccc
Q 045573 455 IYNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRTKENDLPDC 533 (535)
Q Consensus 455 P~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~dL~eC 533 (535)
.+..|..+...++....+...|..+...+.....+-....-.+||||||+|++..+. +.-...+..+++.+..+|..|
T Consensus 125 a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~-prtl~eI~~~~~v~~k~i~~~ 202 (310)
T PRK00423 125 ALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKV-PRTLDEIAEVSRVSRKEIGRC 202 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhCCCHHHHHHH
Confidence 445678888888888899999999998888766667789999999999999998776 344455666677776666544
No 29
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=77.71 E-value=4.6 Score=42.73 Aligned_cols=74 Identities=19% Similarity=0.227 Sum_probs=51.4
Q ss_pred cCchhHHHHHHHHHHHHHhcCccc-ccccchhhhhhHhhhhhhhhccCCCCc-----------HHHHHHHHHHHHHHcCc
Q 045573 381 ELHQETMFLGVSLLDRFLSRGFFK-IKRNLQIVGVACLALATRIEENQPYNG-----------RCEVVAMEWLVQEVLNF 448 (535)
Q Consensus 381 kLs~eTl~LAV~LLDRFLsk~~V~-~~~~LQLVgiTCLfIASK~EE~~pp~~-----------~~eIl~mE~~IL~tLdF 448 (535)
.|..+---....|++|.+...... -......++..+.++|+|+-....... .+|+.+||+.+|+.|.|
T Consensus 205 qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd~tveDmNe~ERqfLelLqf 284 (343)
T KOG1675|consen 205 QLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKDQSVDDMNALERQFLELLQF 284 (343)
T ss_pred hhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhhccHhhHHHHHHHHHHHHhh
Confidence 333443444566777776543332 245666777778999999765443221 89999999999999999
Q ss_pred cccCCC
Q 045573 449 QCFLPT 454 (535)
Q Consensus 449 dL~~PT 454 (535)
+++.|.
T Consensus 285 Ninvp~ 290 (343)
T KOG1675|consen 285 NINVPS 290 (343)
T ss_pred ccCccH
Confidence 999875
No 30
>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=69.16 E-value=14 Score=31.51 Aligned_cols=56 Identities=20% Similarity=0.145 Sum_probs=40.1
Q ss_pred HHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhcc
Q 045573 369 VHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEEN 426 (535)
Q Consensus 369 VDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~ 426 (535)
.+||... ....+...++..+|-.+++..+...... .-.--+||++|+++|.++...
T Consensus 4 ~~Fl~~~-~~~~~~~~~~~~~a~~l~el~l~~~~fl-~~~PS~iAaAai~lA~~~~~~ 59 (118)
T PF02984_consen 4 YDFLRRF-LKISNADQEVRNLARYLLELSLLDYEFL-QYPPSVIAAAAILLARKILGK 59 (118)
T ss_dssp HHHHHHH-HTSSSHHHHHHHHHHHHHHHHHHSHHHT-TS-HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHH-HHHcCCcHHHHHHHHHHHHHHHhhcccc-CCCHHHHHHHHHHHHHHHhCc
Confidence 3444444 4444556678888888888777666665 667789999999999998653
No 31
>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.58 E-value=1.9 Score=41.75 Aligned_cols=15 Identities=60% Similarity=1.161 Sum_probs=14.1
Q ss_pred cCCccchhhhhhHHH
Q 045573 78 QGDEPFRRITRSYYK 92 (535)
Q Consensus 78 ~~~~~~~~~~~~~~~ 92 (535)
-|.|+||-.|||||+
T Consensus 66 AGQErFRSVtRsYYR 80 (214)
T KOG0086|consen 66 AGQERFRSVTRSYYR 80 (214)
T ss_pred ccHHHHHHHHHHHhc
Confidence 489999999999999
No 32
>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=64.32 E-value=29 Score=32.37 Aligned_cols=80 Identities=15% Similarity=-0.085 Sum_probs=53.1
Q ss_pred CCCHHHHHHHHHHHhccChhhHHHHHHHHHHHhc---c--ccccCCcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCC
Q 045573 452 LPTIYNFLWFYLKAAKADAGVDKKAKYLAVLALS---D--HEHLSYWPSTVAAALVILALLESHQDTSYHRVIEIHVRTK 526 (535)
Q Consensus 452 ~PTP~~FL~~fl~~l~~d~~i~~lA~yLLelsLl---d--~~fl~y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt 526 (535)
.++..+|+..++........+.-+|..+++-... . .......+--|=++|+.+|.+.++....|...+..++|++
T Consensus 51 ~i~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis 130 (149)
T PF08613_consen 51 SISIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGIS 130 (149)
T ss_dssp SS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-
T ss_pred CCcHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCC
Confidence 3456778888888888887777777766665444 1 2233456678889999999999998888999999999998
Q ss_pred cCccc
Q 045573 527 ENDLP 531 (535)
Q Consensus 527 ~~dL~ 531 (535)
..+|.
T Consensus 131 ~~eln 135 (149)
T PF08613_consen 131 LKELN 135 (149)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 87764
No 33
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=59.04 E-value=15 Score=38.46 Aligned_cols=57 Identities=12% Similarity=0.123 Sum_probs=50.4
Q ss_pred HHHHHhHhhccccccCchhHHHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhc
Q 045573 367 QMVHWIVEQQCTAKELHQETMFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEE 425 (535)
Q Consensus 367 ~LVDWMieV~~~~fkLs~eTl~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE 425 (535)
.-.+++-.. +..++|+.++--.|+.+++......... .....-+|++|++||+++..
T Consensus 193 ~p~~yi~rf-~s~L~l~~~v~~~a~ei~~~~~~~g~~~-Gk~P~glAaaaiy~as~l~~ 249 (285)
T COG1405 193 DPSDYIPRF-ASKLGLSDEVRRKAIEIVKKAKRAGLTA-GKSPAGLAAAAIYLASLLLG 249 (285)
T ss_pred CHHHHHHHH-HHHcCCCHHHHHHHHHHHHHHHHhCccc-CCCchhHHHHHHHHHHHHhC
Confidence 345677788 9999999999999999999999888886 78889999999999999876
No 34
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=55.20 E-value=34 Score=36.15 Aligned_cols=76 Identities=16% Similarity=0.147 Sum_probs=57.0
Q ss_pred HHHHHHHHhccChhhHHHHHHHHHHHhccccccC-CcHHHHHHHHHHHHHHHcCCCCchHHHHHHHhCCCcCccccccC
Q 045573 458 FLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLS-YWPSTVAAALVILALLESHQDTSYHRVIEIHVRTKENDLPDCIK 535 (535)
Q Consensus 458 FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~-y~PS~IAAAaI~LA~~iL~~~~~W~~~Lq~lTGyt~~dL~eCik 535 (535)
-+..+...+.....+...|.++..... +..++. -.--.||||||+.|++..+. +.-.+.+..++..+..||..|+|
T Consensus 110 ~I~~m~d~~~Lp~~I~d~A~~ifk~v~-~~k~lrGks~eai~AAclyiACRq~~~-pRT~kEI~~~anv~kKEIgr~~K 186 (308)
T KOG1597|consen 110 EITAMCDRLSLPATIKDRANEIFKLVE-DSKLLRGKSVEALAAACLYIACRQEDV-PRTFKEISAVANVSKKEIGRCVK 186 (308)
T ss_pred HHHHHHHHhCCchHHHHHHHHHHHHHH-HhhhhcCccHHHHHHHHHHHHHHhcCC-CchHHHHHHHHcCCHHHHHHHHH
Confidence 345666667777778888888877665 555544 55678999999999998877 55666777778888888888864
No 35
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=52.06 E-value=30 Score=36.51 Aligned_cols=52 Identities=17% Similarity=0.084 Sum_probs=37.9
Q ss_pred HHHHHHhc--cChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCC
Q 045573 460 WFYLKAAK--ADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQ 511 (535)
Q Consensus 460 ~~fl~~l~--~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~ 511 (535)
..+...++ ..+.+...|..++.--.+...+..|.|-.||++|++||.+.-+.
T Consensus 64 ~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~ 117 (305)
T TIGR00569 64 LDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEF 117 (305)
T ss_pred HHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcccc
Confidence 33444445 55566666766666666677788899999999999999987654
No 36
>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]
Probab=45.03 E-value=8.5 Score=37.78 Aligned_cols=15 Identities=60% Similarity=1.136 Sum_probs=14.1
Q ss_pred cCCccchhhhhhHHH
Q 045573 78 QGDEPFRRITRSYYK 92 (535)
Q Consensus 78 ~~~~~~~~~~~~~~~ 92 (535)
-|.|.||-||||||+
T Consensus 66 agqerfrsitksyyr 80 (213)
T KOG0091|consen 66 AGQERFRSITKSYYR 80 (213)
T ss_pred cchHHHHHHHHHHhh
Confidence 489999999999999
No 37
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=38.53 E-value=69 Score=34.26 Aligned_cols=56 Identities=20% Similarity=-0.003 Sum_probs=44.7
Q ss_pred HHHHHHHHHHhccChhhHHHHHHHHHHHhccccccCCcHHHHHHHHHHHHHHHcCC
Q 045573 456 YNFLWFYLKAAKADAGVDKKAKYLAVLALSDHEHLSYWPSTVAAALVILALLESHQ 511 (535)
Q Consensus 456 ~~FL~~fl~~l~~d~~i~~lA~yLLelsLld~~fl~y~PS~IAAAaI~LA~~iL~~ 511 (535)
..||..+-..++........|..+..--.+-+.|-.|.|-++|++||+||-+.-+.
T Consensus 43 ~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEet 98 (323)
T KOG0834|consen 43 AKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEET 98 (323)
T ss_pred HHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccC
Confidence 45677777777777777777777777777788888999999999999999887554
No 38
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=31.64 E-value=1.3e+02 Score=32.53 Aligned_cols=40 Identities=20% Similarity=0.293 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhcCcccccccchhhhhhHhhhhhhhhccC
Q 045573 387 MFLGVSLLDRFLSRGFFKIKRNLQIVGVACLALATRIEENQ 427 (535)
Q Consensus 387 l~LAV~LLDRFLsk~~V~~~~~LQLVgiTCLfIASK~EE~~ 427 (535)
+..|-++|.--+-..... ...--+||++|++||+...|+.
T Consensus 161 ~Q~~wNfmNDslRT~v~v-ry~pe~iACaciyLaAR~~eIp 200 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFV-RYSPESIACACIYLAARNLEIP 200 (367)
T ss_pred HHHHHHhhhhccccceee-ecCHHHHHHHHHHHHHhhhcCC
Confidence 566667666666555554 6778899999999999999953
Done!