Query 041510
Match_columns 339
No_of_seqs 209 out of 1637
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 07:55:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041510.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041510hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0654 G2/Mitotic-specific cy 100.0 5.3E-46 1.1E-50 356.1 12.2 313 8-339 4-319 (359)
2 KOG0653 Cyclin B and related k 100.0 2.7E-42 5.9E-47 340.1 18.0 229 100-338 109-340 (391)
3 COG5024 Cyclin [Cell division 100.0 3E-41 6.4E-46 331.3 14.6 229 100-338 163-394 (440)
4 KOG0655 G1/S-specific cyclin E 100.0 1.2E-37 2.6E-42 289.8 18.9 212 114-337 111-329 (408)
5 KOG0656 G1/S-specific cyclin D 100.0 3.4E-35 7.3E-40 279.4 20.2 220 115-337 44-268 (335)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 3.7E-26 8E-31 190.1 12.8 127 118-247 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 3.9E-22 8.4E-27 190.1 17.4 166 149-315 54-225 (305)
8 KOG0834 CDK9 kinase-activating 99.8 1.5E-19 3.3E-24 172.5 11.9 189 147-337 35-239 (323)
9 KOG0835 Cyclin L [General func 99.8 2.9E-18 6.3E-23 160.5 17.2 183 145-335 17-221 (367)
10 COG5333 CCL1 Cdk activating ki 99.7 1.7E-16 3.6E-21 148.6 14.7 167 147-319 41-213 (297)
11 KOG0794 CDK8 kinase-activating 99.7 3.4E-16 7.5E-21 140.5 10.8 179 151-337 41-232 (264)
12 PF02984 Cyclin_C: Cyclin, C-t 99.6 3.7E-15 8E-20 121.7 8.5 84 249-338 1-84 (118)
13 cd00043 CYCLIN Cyclin box fold 99.5 2E-14 4.4E-19 110.0 8.7 87 151-239 2-88 (88)
14 PRK00423 tfb transcription ini 99.5 5.3E-12 1.1E-16 121.4 21.7 177 152-338 123-299 (310)
15 smart00385 CYCLIN domain prese 99.5 1.8E-13 4E-18 103.7 8.4 83 156-240 1-83 (83)
16 KOG2496 Cdk activating kinase 99.3 1.1E-10 2.3E-15 109.1 14.4 156 150-306 55-218 (325)
17 KOG1597 Transcription initiati 98.9 8.2E-08 1.8E-12 89.8 16.9 173 156-338 109-283 (308)
18 COG1405 SUA7 Transcription ini 98.8 3.3E-07 7.2E-12 87.0 19.1 175 151-335 97-271 (285)
19 smart00385 CYCLIN domain prese 98.6 1.7E-07 3.7E-12 70.6 8.5 78 254-338 2-80 (83)
20 PF08613 Cyclin: Cyclin; Inte 98.6 2.2E-07 4.9E-12 80.1 10.2 92 153-246 53-149 (149)
21 cd00043 CYCLIN Cyclin box fold 98.6 5.8E-07 1.3E-11 68.2 10.2 84 248-338 2-86 (88)
22 KOG4164 Cyclin ik3-1/CABLES [C 97.8 1.9E-05 4.2E-10 76.5 4.7 114 146-260 377-492 (497)
23 KOG1598 Transcription initiati 97.0 0.011 2.3E-07 60.1 13.2 172 134-311 44-224 (521)
24 PF00382 TFIIB: Transcription 96.9 0.0057 1.2E-07 45.7 7.4 65 158-223 1-65 (71)
25 KOG1674 Cyclin [General functi 95.8 0.033 7.2E-07 51.1 7.3 95 153-249 77-181 (218)
26 PRK00423 tfb transcription ini 95.3 0.14 3E-06 49.5 10.3 90 154-246 219-308 (310)
27 PF00382 TFIIB: Transcription 93.1 0.68 1.5E-05 34.4 7.7 59 272-332 13-71 (71)
28 KOG1675 Predicted cyclin [Gene 92.7 0.18 3.8E-06 48.2 4.9 97 160-258 199-297 (343)
29 PF02984 Cyclin_C: Cyclin, C-t 91.0 1.1 2.3E-05 35.8 7.2 87 155-243 4-90 (118)
30 KOG0834 CDK9 kinase-activating 88.0 0.74 1.6E-05 44.7 4.7 96 151-246 152-249 (323)
31 COG1405 SUA7 Transcription ini 86.3 4.5 9.8E-05 38.7 8.9 87 153-242 193-279 (285)
32 PF00134 Cyclin_N: Cyclin, N-t 79.0 15 0.00034 29.5 8.4 62 272-334 50-113 (127)
33 PF08613 Cyclin: Cyclin; Inte 64.5 43 0.00094 28.5 8.1 82 247-334 50-136 (149)
34 KOG0835 Cyclin L [General func 60.4 34 0.00074 33.4 7.2 64 172-237 161-224 (367)
35 PF01857 RB_B: Retinoblastoma- 49.6 57 0.0012 27.6 6.2 64 156-220 16-81 (135)
36 TIGR00569 ccl1 cyclin ccl1. Un 48.8 40 0.00087 32.6 5.8 38 273-310 78-115 (305)
37 KOG1597 Transcription initiati 46.9 68 0.0015 30.8 6.8 69 154-223 203-271 (308)
38 PF03261 CDK5_activator: Cycli 33.8 1.2E+02 0.0025 29.9 6.3 62 152-213 222-294 (346)
39 PF09241 Herp-Cyclin: Herpesvi 33.7 2.3E+02 0.005 22.1 6.7 54 272-325 24-77 (106)
40 cd04441 DEP_2_DEP6 DEP (Dishev 23.3 79 0.0017 24.6 2.6 30 151-181 35-64 (85)
41 KOG0794 CDK8 kinase-activating 23.1 1.6E+02 0.0034 27.6 4.8 30 281-310 69-98 (264)
42 cd04443 DEP_GPR155 DEP (Dishev 20.1 1E+02 0.0023 23.7 2.7 30 151-181 33-62 (83)
No 1
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=5.3e-46 Score=356.12 Aligned_cols=313 Identities=41% Similarity=0.637 Sum_probs=258.6
Q ss_pred cccccCCccccchhhcc-cccCCCCCCCCCCCCCCccccccccCCCCCCCCcccC-CcCCCCccchhhccccCCccchhh
Q 041510 8 QENRVRDPRSSSKNRAS-LFSSASPPRHHALETPRRVVLGELTNSFNAGSSQCSD-SRNTQKPKRILKRKYGEDTLESIQ 85 (339)
Q Consensus 8 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~r~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 85 (339)
+.++.|.++++.+ +++ ...+. ++.|-..++++.|+++++++..... .. ..++.+.....-....++ .+.
T Consensus 4 ~~~~~~~~~~~~~-~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~e---~~~ 74 (359)
T KOG0654|consen 4 KVAKPQNIFAADS-KKANTSNVI----DVEPIRQDYAVDGDLTALEELRSPP-KILSKQTNKSDLELLKLFSSE---HKL 74 (359)
T ss_pred hhhcccCCccCch-hhhcccccc----cCCCccchhhhhchhhhhhhhhccc-cccchhhhhhhhccccccccc---chh
Confidence 4566788888888 665 33332 4445788999999999987543322 22 222222111100000000 000
Q ss_pred hhchhhcccchhhccCCcccCCCCcccc-ccHHHHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 041510 86 HESKETKNENEELAGRKSNESLSALRNC-AYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEE 164 (339)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~d~q~~-eY~~dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~ 164 (339)
.. .+.-.... ...|+|.+..||++| .|+.+|++|++..|... .+|.++|++.+|.++|+.||.++|+|++++.+.
T Consensus 75 -~~-~~~~~~~~-~~~~~ds~~~dp~~c~~~~~~I~~~~r~~ei~~-~rp~~~~~e~vq~d~t~smrgilvdwlvevsee 150 (359)
T KOG0654|consen 75 -SL-DEASAMDG-FVMRIDSVGEDPQMCLKIAAKIYNTLRVSDIKS-ERPLPSKFEFVQADITPSMRGILVDWLVEVSEE 150 (359)
T ss_pred -hh-cccccccc-cccchhhcccchHHHHHHHHHHhhcccccchhh-ccCcccceeeeecCCCcchhhhhhhhhhHHHHH
Confidence 00 00001111 126888999999999 99999999999888753 889999999999999999999999999999999
Q ss_pred ccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCC
Q 041510 165 YKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNF 244 (339)
Q Consensus 165 l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f 244 (339)
+++..++||++++++|||++...+.+.++|++|.+|++||+|+||+.+|.+++|+++++++|+..++..||.+||+.|.|
T Consensus 151 ~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~ 230 (359)
T KOG0654|consen 151 YRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTF 230 (359)
T ss_pred HHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHH
Q 041510 245 EMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTF 324 (339)
Q Consensus 245 ~l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~ 324 (339)
.+..||..+|++.|++..+. ...+++.++.||+|++++|+.|++|.||.||+||++||+.+++ .++|+..|+++
T Consensus 231 ~~~~pt~~~~l~~~~~~~~~----~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~--~~pW~~~L~~~ 304 (359)
T KOG0654|consen 231 ELVRPTSKTFLRRFLRVAQT----PELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD--FHPWNQTLEDY 304 (359)
T ss_pred HHhCchHHHHHHHHHHhhcc----hhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc--CCCCchhhHHh
Confidence 99999999999999998876 5678899999999999999999999999999999999999996 89999999999
Q ss_pred hCCCHHhHHHHHHhC
Q 041510 325 SGYRPSDLKECHKVF 339 (339)
Q Consensus 325 tgy~~~dL~~C~~~~ 339 (339)
|||+.+||+.|+..|
T Consensus 305 T~y~~edl~~~v~~L 319 (359)
T KOG0654|consen 305 TGYKAEDLKPCVLDL 319 (359)
T ss_pred hcccHHHHHHHHHHH
Confidence 999999999999753
No 2
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.7e-42 Score=340.09 Aligned_cols=229 Identities=43% Similarity=0.636 Sum_probs=208.4
Q ss_pred cCCcc-cCCCCcccc-ccHHHHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Q 041510 100 GRKSN-ESLSALRNC-AYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVS 177 (339)
Q Consensus 100 ~~~~~-~~~~d~q~~-eY~~dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~ 177 (339)
..|++ .+..+|+++ +|+.|||.|++.+|. ...|.. |+ ..|.+++..||.++||||++||..|+|.+||+|+||+
T Consensus 109 ~~dl~~~d~~~~~~~~ey~~di~~~l~~~e~--~~~p~~-~~-~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVn 184 (391)
T KOG0653|consen 109 ILDLDSEDKSDPSMIVEYVQDIFEYLRQLEL--EFLPLS-YD-ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVN 184 (391)
T ss_pred ccCcchhcccCcHHHHHHHHHHHHHHHHHHH--hhCchh-hh-cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHH
Confidence 45666 778899999 999999999999885 344443 43 4588999999999999999999999999999999999
Q ss_pred HHHHHhhcCcCccchhHHHHHHHHH-HhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCHHHHHH
Q 041510 178 YVDRFLSSHALSRNKLQLLGVCCML-IASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLR 256 (339)
Q Consensus 178 llDRfLs~~~i~~~~lqLvavtcL~-IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~ 256 (339)
++||||++..+.+.++||+|++||| ||+||||..+|.+.||+++++++||.++|++||..||.+|+|+++.|||+.||+
T Consensus 185 liDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLr 264 (391)
T KOG0653|consen 185 LIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLR 264 (391)
T ss_pred HHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHH
Confidence 9999999988999999999999966 999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHhCCCHHhHHHHH
Q 041510 257 IFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKECH 336 (339)
Q Consensus 257 ~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~tgy~~~dL~~C~ 336 (339)
+|+.+... +.....++.|++|++++|+.++.++||.+|+|++++++.+...+. .|...+.++|||...++.+|.
T Consensus 265 r~~ka~~~-----d~~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~-~w~~~~~~~sg~~~~~~~~~~ 338 (391)
T KOG0653|consen 265 RFLKAADY-----DIKTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGD-VWSPTLEHYSGYSESYLFECA 338 (391)
T ss_pred HHHHhhhc-----chhHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCC-ccCCCCeeccCCCcHHHHHHH
Confidence 99999873 345567899999999999999999999999999999999996432 699999999999999998887
Q ss_pred Hh
Q 041510 337 KV 338 (339)
Q Consensus 337 ~~ 338 (339)
..
T Consensus 339 ~~ 340 (391)
T KOG0653|consen 339 RS 340 (391)
T ss_pred HH
Confidence 53
No 3
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=3e-41 Score=331.29 Aligned_cols=229 Identities=35% Similarity=0.616 Sum_probs=212.9
Q ss_pred cCCcc-cCCCCcccc-ccHHHHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Q 041510 100 GRKSN-ESLSALRNC-AYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVS 177 (339)
Q Consensus 100 ~~~~~-~~~~d~q~~-eY~~dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~ 177 (339)
.+|+| ++.+||.+. ||++||+.|++.+|. ...|.++|+.+ |+.+.+.||.+||+|++++|..|++.++|+++||+
T Consensus 163 ~~dld~~~~~d~~mv~Ey~~~Ife~l~k~e~--~~lp~~~yl~k-q~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lain 239 (440)
T COG5024 163 WQDLDATDQEDPLMVPEYASDIFEYLLKLEL--IDLPNPNYLIK-QSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAIN 239 (440)
T ss_pred ccccccccccCccchHHHHHHHHHHHHHHHH--HhcCcHHHHhh-cchhHHhHHHHHHHHHHHhcccccccchHHHHHHH
Confidence 56777 778899999 999999999999987 57888999876 89999999999999999999999999999999999
Q ss_pred HHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCHHHHHHH
Q 041510 178 YVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRI 257 (339)
Q Consensus 178 llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~ 257 (339)
++||||+...+.-.++||+|++||||||||||+..|.+.+|++++++.|+.++|+++|+.+|.+|+|+++.|+|..||++
T Consensus 240 iiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRr 319 (440)
T COG5024 240 IIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRR 319 (440)
T ss_pred HHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHhC-CCHHhHHHHH
Q 041510 258 FTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSG-YRPSDLKECH 336 (339)
Q Consensus 258 fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~tg-y~~~dL~~C~ 336 (339)
+..+...+ .+....+.|+++.+++++.|..++||.+|+||.++|+.+++.+ .|...|.+++| |+..+|++++
T Consensus 320 iSka~dyd-----~~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~--~w~~~l~~ySg~y~~~~l~~~~ 392 (440)
T COG5024 320 ISKASDYD-----IFSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQN--QWDRTLIHYSGNYTNPDLKPLN 392 (440)
T ss_pred HHhhcccc-----hhhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccC--CCCccccccCCCCCchhHHHHH
Confidence 98875443 3445589999999999999999999999999999999999753 49999999999 9999999887
Q ss_pred Hh
Q 041510 337 KV 338 (339)
Q Consensus 337 ~~ 338 (339)
..
T Consensus 393 ~~ 394 (440)
T COG5024 393 ES 394 (440)
T ss_pred HH
Confidence 53
No 4
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.2e-37 Score=289.80 Aligned_cols=212 Identities=31% Similarity=0.503 Sum_probs=182.9
Q ss_pred ccHHHHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhc-CcCccch
Q 041510 114 AYSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSS-HALSRNK 192 (339)
Q Consensus 114 eY~~dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~-~~i~~~~ 192 (339)
.-..+++..|..+|. .++-...++.. ++++.|+||++++|||.|||+.++|..+|||+|+-||||||.. ..+.+.+
T Consensus 111 gn~~eVW~lM~kkee--~~l~~~~~l~q-Hpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~ 187 (408)
T KOG0655|consen 111 GNSKEVWLLMLKKEE--RYLRDKHFLEQ-HPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTN 187 (408)
T ss_pred cCHHHHHHHHHccch--hhhhhhHHHhh-CCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhh
Confidence 457889998888774 34433455544 8999999999999999999999999999999999999999954 7899999
Q ss_pred hHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcCCCc---
Q 041510 193 LQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKP--- 269 (339)
Q Consensus 193 lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~--- 269 (339)
|||||+||||||+|+||++||.+.+|.|++|++||.++|+.||..||+.|+|++++.|...||..|+++...+....
T Consensus 188 lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~ 267 (408)
T KOG0655|consen 188 LQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLL 267 (408)
T ss_pred HHHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceec
Confidence 99999999999999999999999999999999999999999999999999999999999999999998775443211
Q ss_pred --hhHHHHH-HHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHhCCCHHhHHHHHH
Q 041510 270 --DLLYEFL-SCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDLKECHK 337 (339)
Q Consensus 270 --~~~i~~l-a~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~tgy~~~dL~~C~~ 337 (339)
-.+.+++ -+.|++++++|.+++.|+-++||||||+.--. ....++.||+...+|.+|++
T Consensus 268 Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s---------~e~v~kaSG~~w~~ie~cv~ 329 (408)
T KOG0655|consen 268 PQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTS---------IEVVKKASGLEWDSIEECVD 329 (408)
T ss_pred cccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhH---------HHHHHHcccccHHHHHHHHH
Confidence 1122222 45688999999999999999999999985321 56789999999999999986
No 5
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.4e-35 Score=279.44 Aligned_cols=220 Identities=28% Similarity=0.431 Sum_probs=180.9
Q ss_pred cHHHHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccch--
Q 041510 115 YSSSIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNK-- 192 (339)
Q Consensus 115 Y~~dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~-- 192 (339)
+.+++...+.. .|..+.|..+|...+|..+++.||.+.++||++||+++++.++++++|++|||||++...+++++
T Consensus 44 ~~e~~i~~ll~--kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W 121 (335)
T KOG0656|consen 44 WDERVLANLLE--KEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPW 121 (335)
T ss_pred ccHHHHHHHHH--HHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchH
Confidence 55666666644 44567888888888999999999999999999999999999999999999999999999999999
Q ss_pred -hHHHHHHHHHHhhhhccCCCCChhhh-hhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcCCCch
Q 041510 193 -LQLLGVCCMLIASKYEEISPPHVEDF-CYITDNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPD 270 (339)
Q Consensus 193 -lqLvavtcL~IAsK~EE~~~p~l~dl-~~i~~~~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~ 270 (339)
+||+|+|||+||||+||+.+|.+.|+ +..+++.|.++.|.+||+.||++|+|+++.+||++|+++|++-...... ..
T Consensus 122 ~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~-~~ 200 (335)
T KOG0656|consen 122 MLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDH-NK 200 (335)
T ss_pred HHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccc-hH
Confidence 99999999999999999988888776 5577999999999999999999999999999999999999987755421 22
Q ss_pred hHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCC-CCCChHHHHHHhCCCHHhHHHHHH
Q 041510 271 LLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPK-IHPWSWELQTFSGYRPSDLKECHK 337 (339)
Q Consensus 271 ~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~-~~~W~~~L~~~tgy~~~dL~~C~~ 337 (339)
..+..-+.-++-.+..|..|+.|+||+||+|++.++...+.+- .......+..+.+.+.+....|+.
T Consensus 201 ~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 201 HLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred HHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 2333345556666778999999999999999988877766432 122234566666777776666654
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=99.94 E-value=3.7e-26 Score=190.10 Aligned_cols=127 Identities=41% Similarity=0.791 Sum_probs=113.9
Q ss_pred HHHHHHHHhHhhccCCCCCchhhhcCCCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHH
Q 041510 118 SIYKHLRSLEIEDKTRPLPNYLEKVQNDISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLG 197 (339)
Q Consensus 118 dI~~~l~~~E~e~~~~p~~~yl~~~Q~~it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva 197 (339)
||+.++++.|.. +.+.+.|++. |++++..+|..+++||.+++..++++++|+++|+.|||||+...++.+.+++++|
T Consensus 1 ~i~~~~~~~e~~--~~~~~~~~~~-~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~ 77 (127)
T PF00134_consen 1 DIFRYLLEKELK--YKPNPDYLEQ-QPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIA 77 (127)
T ss_dssp HHHHHHHHHHHH--TTCCTTHGTG-TSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHH
T ss_pred CHHHHHHHHHHH--HCcCcccccc-ChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhh
Confidence 799999888764 5777889874 7789999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCCccc
Q 041510 198 VCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFEMG 247 (339)
Q Consensus 198 vtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f~l~ 247 (339)
+|||+||+|++|..+|.+.+++.++++.|+.++|.+||+.||+.|+|+++
T Consensus 78 ~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 78 LACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999999999999999999999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.89 E-value=3.9e-22 Score=190.12 Aligned_cols=166 Identities=17% Similarity=0.228 Sum_probs=139.7
Q ss_pred HHHHHHHHHHHHHHHHcc--CchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCC-
Q 041510 149 NMRQTLVDWLVEVLEEYK--LVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNT- 225 (339)
Q Consensus 149 ~~R~~lVdWl~ev~~~l~--L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~- 225 (339)
.+|..-..+|.++|..|+ |+.+|+.+|+.||+||+..+++...+.++|++||+|||||+||.. .++.+|+....+.
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~~~~ 132 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFN-VSIDQFVGNLKETP 132 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccC-cCHHHHHhhccCCc
Confidence 678888899999999999 999999999999999999999999999999999999999999984 5799998765543
Q ss_pred -CCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcC--CCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHH
Q 041510 226 -YMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENC--KKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASS 302 (339)
Q Consensus 226 -~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~--~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAa 302 (339)
...++|++||..||+.|+|++..++|+.|+..|+..++... ......+...++.++.-+++..-++.|+||.||+||
T Consensus 133 ~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAA 212 (305)
T TIGR00569 133 LKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAA 212 (305)
T ss_pred hhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHH
Confidence 36799999999999999999999999999999986554321 111224455667676667666668889999999999
Q ss_pred HHHHHHHhCCCCC
Q 041510 303 IFLSRFIMQPKIH 315 (339)
Q Consensus 303 i~lA~~~l~~~~~ 315 (339)
|++|...++.+.+
T Consensus 213 I~lA~~~~~~~l~ 225 (305)
T TIGR00569 213 ILHTASRAGLNME 225 (305)
T ss_pred HHHHHHHhCCCCc
Confidence 9999998875443
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.81 E-value=1.5e-19 Score=172.45 Aligned_cols=189 Identities=19% Similarity=0.242 Sum_probs=161.2
Q ss_pred CHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCC
Q 041510 147 SINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTY 226 (339)
Q Consensus 147 t~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~ 226 (339)
-...|.....||.+++..+|++..|+..|+.|+.||+...++...+.+.+|++|||||+|+||. |-.++|++..+...+
T Consensus 35 E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEet-p~kl~dIi~~s~~~~ 113 (323)
T KOG0834|consen 35 ELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEET-PRKLEDIIKVSYRYL 113 (323)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccC-cccHHHHHHHHHHHc
Confidence 3578999999999999999999999999999999999999999999999999999999999997 778899887665433
Q ss_pred C-------------HHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCC
Q 041510 227 M-------------KEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWY 293 (339)
Q Consensus 227 t-------------~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~ 293 (339)
. +++|+..|..||++|+||+++-.|+.||-.|+..+..+.... ..+...|+.++.-++...-+++|
T Consensus 114 ~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~-~~~a~~Aw~~~nD~~~t~~cL~y 192 (323)
T KOG0834|consen 114 NPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLK-QPLAQAAWNFVNDSLRTTLCLQY 192 (323)
T ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhcc-ccHHHHHHHHhchhheeeeeEee
Confidence 3 478999999999999999999999999999998887655322 24567899999999998889999
Q ss_pred cHHHHHHHHHHHHHHHhCCCCCCChHH-HHHHhC--CCHHhHHHHHH
Q 041510 294 LPSLVAASSIFLSRFIMQPKIHPWSWE-LQTFSG--YRPSDLKECHK 337 (339)
Q Consensus 294 ~PS~iAaAai~lA~~~l~~~~~~W~~~-L~~~tg--y~~~dL~~C~~ 337 (339)
+|..||+|||++|....+-..+.|... .-...+ .+.++|.+.+.
T Consensus 193 ~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~ 239 (323)
T KOG0834|consen 193 SPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICH 239 (323)
T ss_pred cCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHH
Confidence 999999999999999987555555544 334445 77787776554
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.79 E-value=2.9e-18 Score=160.53 Aligned_cols=183 Identities=18% Similarity=0.247 Sum_probs=155.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcC
Q 041510 145 DISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDN 224 (339)
Q Consensus 145 ~it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~ 224 (339)
+-....|..-++||.+.+.-++|+..+.+.+..||-||+...++.+.++..++++|++||||+||. |-.+.+.+++...
T Consensus 17 e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~-Prr~rdVinVFh~ 95 (367)
T KOG0835|consen 17 ETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE-PRRIRDVINVFHY 95 (367)
T ss_pred chHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc-cccHhHHHHHHHH
Confidence 444678999999999999999999999999999999999999999999999999999999999996 5566666543211
Q ss_pred -------------------CCCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhh
Q 041510 225 -------------------TYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSL 285 (339)
Q Consensus 225 -------------------~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL 285 (339)
.-.+..++++|..||+.|+|++++-.|+-++-.|++.++-.. ...+.+.++.|+..++
T Consensus 96 L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~---~~~l~Q~~wNfmNDsl 172 (367)
T KOG0835|consen 96 LEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPP---NLKLLQAAWNFMNDSL 172 (367)
T ss_pred HHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCC---chhHHHHHHHhhhhcc
Confidence 113567899999999999999999999999999999987544 3356778999999999
Q ss_pred hhhcccCCcHHHHHHHHHHHHHHHhC---CCCCCChHHHHHHhCCCHHhHHHH
Q 041510 286 LDYGCLWYLPSLVAASSIFLSRFIMQ---PKIHPWSWELQTFSGYRPSDLKEC 335 (339)
Q Consensus 286 ~d~~~~~~~PS~iAaAai~lA~~~l~---~~~~~W~~~L~~~tgy~~~dL~~C 335 (339)
..--|+.|+|+.||||||+||-+.++ |..++|.. +.+.+..+|.+.
T Consensus 173 RT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~----~Fd~~k~eid~i 221 (367)
T KOG0835|consen 173 RTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFK----AFDTTKREIDEI 221 (367)
T ss_pred ccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHH----HcCCcHHHHHHH
Confidence 99999999999999999999999988 66666764 447777777653
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=99.71 E-value=1.7e-16 Score=148.58 Aligned_cols=167 Identities=17% Similarity=0.284 Sum_probs=142.9
Q ss_pred CHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhc---
Q 041510 147 SINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITD--- 223 (339)
Q Consensus 147 t~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~--- 223 (339)
+.+.|..-.-|+..+|.+++++..++.+||.+++||+.+.++....++-++.||++||+|+||+ +-.+.-.+....
T Consensus 41 e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~-~~~I~i~~~~~~~~~ 119 (297)
T COG5333 41 ELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDT-PRDISIESFEARDLW 119 (297)
T ss_pred hhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccc-cchhhHHHHHhhccc
Confidence 3456777778999999999999999999999999999999999999999999999999999996 333444443333
Q ss_pred ---CCCCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHH
Q 041510 224 ---NTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAA 300 (339)
Q Consensus 224 ---~~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAa 300 (339)
-.-+++.|..+|..+|..|+|++.+++|+..+..|+...+.... .....+++-++.-++...-++.|+|..||+
T Consensus 120 se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~---~~~~~~aw~~inDa~~t~~~llypphiIA~ 196 (297)
T COG5333 120 SEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK---YKLLQIAWKIINDALRTDLCLLYPPHIIAL 196 (297)
T ss_pred cccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH---HHHHHHHHHHHHhhhhceeeeecChHHHHH
Confidence 23478999999999999999999999999999999988876554 345668999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCCChH
Q 041510 301 SSIFLSRFIMQPKIHPWSW 319 (339)
Q Consensus 301 Aai~lA~~~l~~~~~~W~~ 319 (339)
||+..|...++ .+.|..
T Consensus 197 a~l~ia~~~~~--~~~~~~ 213 (297)
T COG5333 197 AALLIACEVLG--MPIIKL 213 (297)
T ss_pred HHHHHHHHhcC--Cccchh
Confidence 99999999985 445554
No 11
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.67 E-value=3.4e-16 Score=140.47 Aligned_cols=179 Identities=21% Similarity=0.274 Sum_probs=142.9
Q ss_pred HHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhh--------
Q 041510 151 RQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYIT-------- 222 (339)
Q Consensus 151 R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~-------- 222 (339)
+--.-+.+..+++++++...++.+|+.||-||+.+.++..-++.|++.||+++|||+||.....++.++..+
T Consensus 41 ~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~ 120 (264)
T KOG0794|consen 41 KIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFS 120 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcc
Confidence 334455688899999999999999999999999999999999999999999999999998533344443211
Q ss_pred ----cCCCCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHH
Q 041510 223 ----DNTYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLV 298 (339)
Q Consensus 223 ----~~~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~i 298 (339)
...|...+|.+||..+|..||+.+.+-+|+.-|..++..+... +..+..+++.+..-++...-++-|+|-.|
T Consensus 121 ~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~----d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~I 196 (264)
T KOG0794|consen 121 YWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGIN----DQKLLQLAWSIVNDSYRMDLCLLYPPHQI 196 (264)
T ss_pred cchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhccc----chhhhhhhHhhhcchhhcceeeecCHHHH
Confidence 1256788999999999999999999999999988888766432 22345578888888887777788999999
Q ss_pred HHHHHHHHHHHhCCCC-CCChHHHHHHhCCCHHhHHHHHH
Q 041510 299 AASSIFLSRFIMQPKI-HPWSWELQTFSGYRPSDLKECHK 337 (339)
Q Consensus 299 AaAai~lA~~~l~~~~-~~W~~~L~~~tgy~~~dL~~C~~ 337 (339)
|.|||++|....+.+. ..|...+ ..+.+.+++|+.
T Consensus 197 alAcl~Ia~~~~~k~~~~~w~~el----~vD~ekV~~~v~ 232 (264)
T KOG0794|consen 197 ALACLYIACVIDEKDIPKAWFAEL----SVDMEKVKDIVQ 232 (264)
T ss_pred HHHHHHHHHhhcCCChHHHHHHHH----hccHHHHHHHHH
Confidence 9999999999887655 3455444 466777777764
No 12
>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=99.59 E-value=3.7e-15 Score=121.75 Aligned_cols=84 Identities=45% Similarity=0.752 Sum_probs=71.5
Q ss_pred CCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHhCCC
Q 041510 249 PTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYR 328 (339)
Q Consensus 249 pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~tgy~ 328 (339)
|||++||++|+...+. +..+..++.||+|++++|+.|++|+||+||+||+++|+.+++ ..+.|+..|..+|||+
T Consensus 1 PTp~~Fl~~~~~~~~~-----~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~-~~~~~~~~l~~~t~~~ 74 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA-----DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILG-KEPPWPESLEKLTGYD 74 (118)
T ss_dssp --HHHHHHHHHTSSSH-----HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHH-SSTCSHHHHHHHHTS-
T ss_pred CcHHHHHHHHHHHcCC-----cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhC-ccccCCccchhhcCCC
Confidence 8999999999765332 446788999999999999999999999999999999999997 2369999999999999
Q ss_pred HHhHHHHHHh
Q 041510 329 PSDLKECHKV 338 (339)
Q Consensus 329 ~~dL~~C~~~ 338 (339)
.++|++|++.
T Consensus 75 ~~~l~~c~~~ 84 (118)
T PF02984_consen 75 KEDLKECIEL 84 (118)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 9999999975
No 13
>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=99.55 E-value=2e-14 Score=110.02 Aligned_cols=87 Identities=33% Similarity=0.530 Sum_probs=81.6
Q ss_pred HHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHH
Q 041510 151 RQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEE 230 (339)
Q Consensus 151 R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~e 230 (339)
|...++||.+++..+++++++.++|+.++|||+....+.+.+++++|++|++||+|+++. ++...+++.+++.. +.++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~-~~~~ 79 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYA-TEEE 79 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCC-CHHH
Confidence 678899999999999999999999999999999999999999999999999999999999 88999999888654 9999
Q ss_pred HHHHHHHHH
Q 041510 231 VVEMEEKVL 239 (339)
Q Consensus 231 i~~mE~~IL 239 (339)
|.+||..|+
T Consensus 80 i~~~e~~il 88 (88)
T cd00043 80 ILRMEKLLL 88 (88)
T ss_pred HHHHHHHhC
Confidence 999999875
No 14
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.49 E-value=5.3e-12 Score=121.42 Aligned_cols=177 Identities=9% Similarity=0.067 Sum_probs=151.4
Q ss_pred HHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHH
Q 041510 152 QTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEV 231 (339)
Q Consensus 152 ~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei 231 (339)
.....-|-.++..++|+..+.-.|..++.+++....+.......++++|+|+|||.++. |-++.+++.+++ .+..+|
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~-prtl~eI~~~~~--v~~k~i 199 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKV-PRTLDEIAEVSR--VSRKEI 199 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhC--CCHHHH
Confidence 44556788999999999999999999999999998888899999999999999999776 778999988875 689999
Q ss_pred HHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhC
Q 041510 232 VEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQ 311 (339)
Q Consensus 232 ~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~ 311 (339)
-+.++.|++.|++++....|.+|+.+|...+.-. ..+...|.+++..+.-..-.....|..||+||||+|....+
T Consensus 200 ~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~-----~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g 274 (310)
T PRK00423 200 GRCYRFLLRELNLKLPPTDPIDYVPRFASELGLS-----GEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLG 274 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999999887542 24566788888776654445689999999999999998875
Q ss_pred CCCCCChHHHHHHhCCCHHhHHHHHHh
Q 041510 312 PKIHPWSWELQTFSGYRPSDLKECHKV 338 (339)
Q Consensus 312 ~~~~~W~~~L~~~tgy~~~dL~~C~~~ 338 (339)
. +.-...+...+|.+...|+..+..
T Consensus 275 ~--~~t~keIa~v~~Vs~~tI~~~yke 299 (310)
T PRK00423 275 E--RRTQREVAEVAGVTEVTVRNRYKE 299 (310)
T ss_pred C--CCCHHHHHHHcCCCHHHHHHHHHH
Confidence 3 334567899999999999987754
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=99.47 E-value=1.8e-13 Score=103.69 Aligned_cols=83 Identities=33% Similarity=0.524 Sum_probs=76.1
Q ss_pred HHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHH
Q 041510 156 DWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEME 235 (339)
Q Consensus 156 dWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE 235 (339)
+||.+++..++++.++.++|++++|||+....+.+.+.+++|++|++||+|++|.. |...++..+++. |+.++|.+||
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~-~~~~~i~~~~ 78 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGY-FTEEEILRME 78 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCC-CCHHHHHHHH
Confidence 59999999999999999999999999999888888999999999999999999986 567888887776 7999999999
Q ss_pred HHHHH
Q 041510 236 EKVLE 240 (339)
Q Consensus 236 ~~IL~ 240 (339)
..||.
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 99973
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=99.26 E-value=1.1e-10 Score=109.14 Aligned_cols=156 Identities=21% Similarity=0.281 Sum_probs=120.6
Q ss_pred HHHHHHHHHHHHHHHcc--CchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhc--CC
Q 041510 150 MRQTLVDWLVEVLEEYK--LVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITD--NT 225 (339)
Q Consensus 150 ~R~~lVdWl~ev~~~l~--L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~--~~ 225 (339)
+-.....-+++.+..|+ ++..++..|+.+|-||+-.+++..-..+.|.+||+|+|+|++|.++ ++++|+.-.. ..
T Consensus 55 l~k~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~I-SieqFvkn~~~~~~ 133 (325)
T KOG2496|consen 55 LTKEEELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYI-SIEQFVKNMNGRKW 133 (325)
T ss_pred ccHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhhee-cHHHHHhhccCccc
Confidence 44456667777788775 6899999999999999999999999999999999999999999754 7999986433 34
Q ss_pred CCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcC---CCchhH-HHHHHHHHHHHhhhhhcccCCcHHHHHHH
Q 041510 226 YMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENC---KKPDLL-YEFLSCYLAELSLLDYGCLWYLPSLVAAS 301 (339)
Q Consensus 226 ~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~---~~~~~~-i~~la~~l~elsL~d~~~~~~~PS~iAaA 301 (339)
-+.+.|++.|..+|+.|+|++...+|+.-++-|+.-++.-. ...+.. ......-+++-+++.-.++-|+||+||+|
T Consensus 134 k~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALa 213 (325)
T KOG2496|consen 134 KTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALA 213 (325)
T ss_pred ccHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHH
Confidence 68899999999999999999999999999999976554331 111110 01112334455555556677999999999
Q ss_pred HHHHH
Q 041510 302 SIFLS 306 (339)
Q Consensus 302 ai~lA 306 (339)
||..|
T Consensus 214 Ail~a 218 (325)
T KOG2496|consen 214 AILHA 218 (325)
T ss_pred HHHHH
Confidence 99544
No 17
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.90 E-value=8.2e-08 Score=89.79 Aligned_cols=173 Identities=14% Similarity=0.115 Sum_probs=143.0
Q ss_pred HHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHH
Q 041510 156 DWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEME 235 (339)
Q Consensus 156 dWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE 235 (339)
.-+..+++.++|+...--.|-.+|.++-..+.....+.+-++++||+||++-++. |-++.+++.+++ .+++||-+.=
T Consensus 109 ~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~-pRT~kEI~~~an--v~kKEIgr~~ 185 (308)
T KOG1597|consen 109 KEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDV-PRTFKEISAVAN--VSKKEIGRCV 185 (308)
T ss_pred HHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCC-CchHHHHHHHHc--CCHHHHHHHH
Confidence 3467889999999999999999999999888899999999999999999998775 888899988877 8999999999
Q ss_pred HHHHHHcCCcccCCC--HHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCC
Q 041510 236 EKVLEFLNFEMGSPT--TKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPK 313 (339)
Q Consensus 236 ~~IL~~L~f~l~~pT--p~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~ 313 (339)
..|+..|+-.+...| .-+|+.+|...++-+ .+....|.++.+-+.--.....-.|-.||||+||++..+..
T Consensus 186 K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~-----~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~-- 258 (308)
T KOG1597|consen 186 KLIGEALETSVDLISISTGDFMPRFCSNLGLP-----KSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSD-- 258 (308)
T ss_pred HHHHHHHhccchhhhhhHHHHHHHHHHhcCCC-----HHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhcc--
Confidence 999999998887766 889999999887533 34445667776666443333446899999999999988874
Q ss_pred CCCChHHHHHHhCCCHHhHHHHHHh
Q 041510 314 IHPWSWELQTFSGYRPSDLKECHKV 338 (339)
Q Consensus 314 ~~~W~~~L~~~tgy~~~dL~~C~~~ 338 (339)
...-...+.+.||..+..|+.-+..
T Consensus 259 ~kkt~keI~~vtgVaE~TIr~sYK~ 283 (308)
T KOG1597|consen 259 EKKTQKEIGEVTGVAEVTIRNSYKD 283 (308)
T ss_pred CcccHHHHHHHhhhhHHHHHHHHHH
Confidence 3345678999999999999887764
No 18
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.84 E-value=3.3e-07 Score=86.99 Aligned_cols=175 Identities=10% Similarity=0.107 Sum_probs=151.8
Q ss_pred HHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHH
Q 041510 151 RQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEE 230 (339)
Q Consensus 151 R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~e 230 (339)
-.....-+-.++..++++..+.-.|..++-..+....+.....+-++++|+++|++.... |-++.++....+ .++.+
T Consensus 97 l~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~-prtl~eIa~a~~--V~~ke 173 (285)
T COG1405 97 LITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGV-PRTLDEIAKALG--VSKKE 173 (285)
T ss_pred HHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCC-CccHHHHHHHHC--CCHHH
Confidence 446677788899999999999999999999999999999999999999999999999776 777888887776 78899
Q ss_pred HHHHHHHHHHHcCCcccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHh
Q 041510 231 VVEMEEKVLEFLNFEMGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIM 310 (339)
Q Consensus 231 i~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l 310 (339)
|.++.+.+...|+=.+....|.+|+.+|...+.-+ ..+...+..|+..+.-......=.|+-+|+||||+|..+.
T Consensus 174 i~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~-----~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~ 248 (285)
T COG1405 174 IGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLS-----DEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLL 248 (285)
T ss_pred HHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHh
Confidence 99999999999999999999999999999887543 3455678888888887777778999999999999999988
Q ss_pred CCCCCCChHHHHHHhCCCHHhHHHH
Q 041510 311 QPKIHPWSWELQTFSGYRPSDLKEC 335 (339)
Q Consensus 311 ~~~~~~W~~~L~~~tgy~~~dL~~C 335 (339)
+ ...-.....+++|.++..|.+=
T Consensus 249 ~--~~~tq~eva~v~~vtevTIrnr 271 (285)
T COG1405 249 G--ERRTQKEVAKVAGVTEVTIRNR 271 (285)
T ss_pred C--CchHHHHHHHHhCCeeeHHHHH
Confidence 5 3445677999999999888753
No 19
>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=98.64 E-value=1.7e-07 Score=70.56 Aligned_cols=78 Identities=32% Similarity=0.499 Sum_probs=66.0
Q ss_pred HHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHhCC-CHHhH
Q 041510 254 FLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGY-RPSDL 332 (339)
Q Consensus 254 FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~tgy-~~~dL 332 (339)
|+..+....+- ...+..+|.++++.++.+..+.+++|+.+|+||+++|.++.+ .++|...+..++|+ +.+++
T Consensus 2 ~l~~~~~~~~~-----~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~--~~~~~~~~~~~~~~~~~~~i 74 (83)
T smart00385 2 FLRRVCKALNL-----DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEE--IPPWTKELVHYTGYFTEEEI 74 (83)
T ss_pred HHHHHHHHcCC-----CHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhc--CCCCchhHhHhhCCCCHHHH
Confidence 56666655533 235677899999999999999999999999999999999985 45899999999999 99999
Q ss_pred HHHHHh
Q 041510 333 KECHKV 338 (339)
Q Consensus 333 ~~C~~~ 338 (339)
.+|...
T Consensus 75 ~~~~~~ 80 (83)
T smart00385 75 LRMEKL 80 (83)
T ss_pred HHHHHH
Confidence 998764
No 20
>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=98.64 E-value=2.2e-07 Score=80.11 Aligned_cols=92 Identities=20% Similarity=0.385 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHHccCchHHHHHHHHHHHHHhh---c--CcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCC
Q 041510 153 TLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLS---S--HALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYM 227 (339)
Q Consensus 153 ~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs---~--~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t 227 (339)
.+.+|+..+....+++++++.+|..|+||+.. . ..+......-+-++|+.||+|+-+....+-..+..+++ ++
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~g--is 130 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG--IS 130 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT--S-
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcC--CC
Confidence 38889999999999999999999999999998 2 34566778889999999999998888777888888875 79
Q ss_pred HHHHHHHHHHHHHHcCCcc
Q 041510 228 KEEVVEMEEKVLEFLNFEM 246 (339)
Q Consensus 228 ~~ei~~mE~~IL~~L~f~l 246 (339)
.+++.+||+..|..|+|++
T Consensus 131 ~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 131 LKELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHHHHCCCcC
Confidence 9999999999999999986
No 21
>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=98.59 E-value=5.8e-07 Score=68.25 Aligned_cols=84 Identities=31% Similarity=0.453 Sum_probs=73.7
Q ss_pred CCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHhCC
Q 041510 248 SPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGY 327 (339)
Q Consensus 248 ~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~tgy 327 (339)
.|++.+|+..+....+- ......+|.++++.++....+..+.|+.+|+||+++|.++.+ .+.|...+..++|+
T Consensus 2 ~~~~~~~l~~~~~~~~~-----~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~--~~~~~~~~~~~~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGL-----SPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEE--IPPWLKDLVHVTGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCC-----CHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcC--CCCCHHHHhHHhCC
Confidence 58899999999887743 335667899999999999999999999999999999999885 38999999999999
Q ss_pred -CHHhHHHHHHh
Q 041510 328 -RPSDLKECHKV 338 (339)
Q Consensus 328 -~~~dL~~C~~~ 338 (339)
+.+++..|...
T Consensus 75 ~~~~~i~~~e~~ 86 (88)
T cd00043 75 ATEEEILRMEKL 86 (88)
T ss_pred CCHHHHHHHHHH
Confidence 99999998764
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.82 E-value=1.9e-05 Score=76.52 Aligned_cols=114 Identities=18% Similarity=0.330 Sum_probs=94.8
Q ss_pred CCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcC-
Q 041510 146 ISINMRQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDN- 224 (339)
Q Consensus 146 it~~~R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~- 224 (339)
+|..-=+.+-.-|.++.+..++..-|+..|-.||....-+..+.+.+-+|.|.+|+++|+|+.+..--.+..++.-...
T Consensus 377 LTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~ 456 (497)
T KOG4164|consen 377 LTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQ 456 (497)
T ss_pred EeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence 4443334566778999999999999999999999999999999999999999999999999998877778888765544
Q ss_pred -CCCHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHH
Q 041510 225 -TYMKEEVVEMEEKVLEFLNFEMGSPTTKSFLRIFTR 260 (339)
Q Consensus 225 -~~t~~ei~~mE~~IL~~L~f~l~~pTp~~FL~~fl~ 260 (339)
.+.+.|++..|.-||-+|+|.++.| -+..+-+|-+
T Consensus 457 fR~nrrdLia~Ef~VlvaLefaL~~~-~~eVlPHy~R 492 (497)
T KOG4164|consen 457 FRLNRRDLIAFEFPVLVALEFALHLP-EHEVLPHYRR 492 (497)
T ss_pred hcccHHhhhhhhhhHHHhhhhhccCC-hhhcchHHHH
Confidence 6789999999999999999999865 3444444433
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.04 E-value=0.011 Score=60.10 Aligned_cols=172 Identities=10% Similarity=0.050 Sum_probs=128.4
Q ss_pred CCCchhhhcCCCCC--HHHHHHHHH----HHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhh
Q 041510 134 PLPNYLEKVQNDIS--INMRQTLVD----WLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKY 207 (339)
Q Consensus 134 p~~~yl~~~Q~~it--~~~R~~lVd----Wl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~ 207 (339)
+...|+...|.+.+ .+.|...+. -|-+++..+++.. .+-.|.++|---++.+-.+....+.|..+||+|+|..
T Consensus 44 ~~G~~v~~~~~g~~~s~e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~ 122 (521)
T KOG1598|consen 44 AQGQFVRVGQSGAGSSLESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRL 122 (521)
T ss_pred cceeEEeccccCCccchHHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHh
Confidence 45567766676665 355555554 4788999999999 9999999999999999999999999999999999999
Q ss_pred ccCCCCChhhhhhhhcCCCCHHHHHHHHHHHHHHcCCc---ccCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHh
Q 041510 208 EEISPPHVEDFCYITDNTYMKEEVVEMEEKVLEFLNFE---MGSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELS 284 (339)
Q Consensus 208 EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~IL~~L~f~---l~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~els 284 (339)
|.+... +-||..+.. .+--++=.+=+.+...|.-+ +...-|.-|+.+|...+....+. ..+...+..|+.-.
T Consensus 123 e~t~hl-liDfS~~Lq--v~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~--~~Vv~~a~~L~~rM 197 (521)
T KOG1598|consen 123 EKTDHL-LIDFSSYLQ--VSVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT--EDVAKTATRLAQRM 197 (521)
T ss_pred hCCceE-EEEeccceE--EehhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCch--HHHHHHHHHHHHHH
Confidence 887543 233433222 34445555556666777766 56667888888887666544333 34555677888877
Q ss_pred hhhhcccCCcHHHHHHHHHHHHHHHhC
Q 041510 285 LLDYGCLWYLPSLVAASSIFLSRFIMQ 311 (339)
Q Consensus 285 L~d~~~~~~~PS~iAaAai~lA~~~l~ 311 (339)
.-|+-...-+|+-|+-|||++|.++.+
T Consensus 198 krdwm~tGRRPsglcGAaLliAar~h~ 224 (521)
T KOG1598|consen 198 KRDWMQTGRRPSGLCGAALLIAARMHG 224 (521)
T ss_pred HHHHHHhCCCccchhHHHHHHHHHHcC
Confidence 888888899999999999999998864
No 24
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=96.86 E-value=0.0057 Score=45.74 Aligned_cols=65 Identities=9% Similarity=0.197 Sum_probs=53.5
Q ss_pred HHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhc
Q 041510 158 LVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITD 223 (339)
Q Consensus 158 l~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~ 223 (339)
|-.+|..++|+..+.-.|..++++-.........+..-++++|+++|++.+.. +-++.++...++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~-~~t~~eIa~~~~ 65 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGV-PRTLKEIAEAAG 65 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTS-SSSHHHHHHHCT
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhC
Confidence 45789999999999999999999999988888888999999999999998765 557788776554
No 25
>KOG1674 consensus Cyclin [General function prediction only]
Probab=95.76 E-value=0.033 Score=51.12 Aligned_cols=95 Identities=16% Similarity=0.292 Sum_probs=72.6
Q ss_pred HHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCc---------Cccch-hHHHHHHHHHHhhhhccCCCCChhhhhhhh
Q 041510 153 TLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHA---------LSRNK-LQLLGVCCMLIASKYEEISPPHVEDFCYIT 222 (339)
Q Consensus 153 ~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~---------i~~~~-lqLvavtcL~IAsK~EE~~~p~l~dl~~i~ 222 (339)
.+-+++.++.+..+.+++++..|..|||||..... +..-+ ..-+-++|+.+|+|+.+...-.-.-+..+
T Consensus 77 si~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~v- 155 (218)
T KOG1674|consen 77 SIRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKV- 155 (218)
T ss_pred chHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHh-
Confidence 45677788888899999999999999999998622 12222 44578899999999986544333333333
Q ss_pred cCCCCHHHHHHHHHHHHHHcCCcccCC
Q 041510 223 DNTYMKEEVVEMEEKVLEFLNFEMGSP 249 (339)
Q Consensus 223 ~~~~t~~ei~~mE~~IL~~L~f~l~~p 249 (339)
+..+.+++..+|...|..++|++.++
T Consensus 156 -ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 -GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 35789999999999999999999875
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=95.35 E-value=0.14 Score=49.51 Aligned_cols=90 Identities=12% Similarity=0.098 Sum_probs=75.7
Q ss_pred HHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHH
Q 041510 154 LVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVE 233 (339)
Q Consensus 154 lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~ 233 (339)
..++|..++..|+|+.++.-.|..++.+..........+..-++++|++||++..+. +.+..++..+++ .+...|.+
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~-~~t~keIa~v~~--Vs~~tI~~ 295 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGE-RRTQREVAEVAG--VTEVTVRN 295 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCC-CCCHHHHHHHcC--CCHHHHHH
Confidence 358899999999999999999999999888777777888999999999999998764 457888877664 67888888
Q ss_pred HHHHHHHHcCCcc
Q 041510 234 MEEKVLEFLNFEM 246 (339)
Q Consensus 234 mE~~IL~~L~f~l 246 (339)
.=+.|++.|+..+
T Consensus 296 ~ykel~~~l~~~~ 308 (310)
T PRK00423 296 RYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHhCccc
Confidence 8888888776543
No 27
>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=93.10 E-value=0.68 Score=34.36 Aligned_cols=59 Identities=12% Similarity=-0.061 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHhCCCHHhH
Q 041510 272 LYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSGYRPSDL 332 (339)
Q Consensus 272 ~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~tgy~~~dL 332 (339)
.+...|..+...+.-..-.-.-+|..+|+||||+|.+..+ .+.-...+...+|.++.+|
T Consensus 13 ~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~--~~~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 13 DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNG--VPRTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTT--SSSSHHHHHHHCTSSHHHH
T ss_pred HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcC--CCcCHHHHHHHhCCCCCcC
Confidence 4556677777776665555567899999999999999874 4445677888888887764
No 28
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=92.73 E-value=0.18 Score=48.23 Aligned_cols=97 Identities=18% Similarity=0.313 Sum_probs=67.6
Q ss_pred HHHHHccCchHHHHHHHHHHHHHhhcCc--CccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHH
Q 041510 160 EVLEEYKLVSDTLYLTVSYVDRFLSSHA--LSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEK 237 (339)
Q Consensus 160 ev~~~l~L~~eTl~lAV~llDRfLs~~~--i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~ 237 (339)
..+....|..+---....|++|.+.-.. +-+.+...++....++|+|+.....-.-.|.|.|+.. .|.+|+..||+.
T Consensus 199 ~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd-~tveDmNe~ERq 277 (343)
T KOG1675|consen 199 ILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKD-QSVDDMNALERQ 277 (343)
T ss_pred hHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhh-ccHhhHHHHHHH
Confidence 3344444444444455677888776533 4466777777778999999987665444667776653 589999999999
Q ss_pred HHHHcCCcccCCCHHHHHHHH
Q 041510 238 VLEFLNFEMGSPTTKSFLRIF 258 (339)
Q Consensus 238 IL~~L~f~l~~pTp~~FL~~f 258 (339)
+|..|+|+++.|.. .|-.+|
T Consensus 278 fLelLqfNinvp~s-vYAKyY 297 (343)
T KOG1675|consen 278 FLELLQFNINVPSS-EYAKYY 297 (343)
T ss_pred HHHHHhhccCccHH-HHHHHH
Confidence 99999999999843 333444
No 29
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=91.02 E-value=1.1 Score=35.78 Aligned_cols=87 Identities=22% Similarity=0.248 Sum_probs=58.7
Q ss_pred HHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHH
Q 041510 155 VDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEM 234 (339)
Q Consensus 155 VdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~m 234 (339)
.+||.....-.+...++-++|-++++..+....+..-.--++|++|+++|.+.-+..++--..+..++ .++.+++..+
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t--~~~~~~l~~c 81 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPESLEKLT--GYDKEDLKEC 81 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHH--TS-HHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccCCccchhhc--CCCHHHHHHH
Confidence 34555553333446678888889999888777777788899999999999999664333334455555 3588888877
Q ss_pred HHHHHHHcC
Q 041510 235 EEKVLEFLN 243 (339)
Q Consensus 235 E~~IL~~L~ 243 (339)
=..|.+.+.
T Consensus 82 ~~~i~~~~~ 90 (118)
T PF02984_consen 82 IELIQELLS 90 (118)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 666665554
No 30
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=87.96 E-value=0.74 Score=44.71 Aligned_cols=96 Identities=16% Similarity=0.182 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhh--hhhhcCCCCH
Q 041510 151 RQTLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDF--CYITDNTYMK 228 (339)
Q Consensus 151 R~~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl--~~i~~~~~t~ 228 (339)
-.-+++|+..+-...+........|-+++-..+...-+-....+-||++||+||+|+-....|...+- ....+...|.
T Consensus 152 y~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~ 231 (323)
T KOG0834|consen 152 YKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTN 231 (323)
T ss_pred hHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCH
Confidence 44677777777666665556677777888777777778888899999999999999988766655554 4566778999
Q ss_pred HHHHHHHHHHHHHcCCcc
Q 041510 229 EEVVEMEEKVLEFLNFEM 246 (339)
Q Consensus 229 ~ei~~mE~~IL~~L~f~l 246 (339)
+++.++...+|....-+-
T Consensus 232 e~l~~i~~~~l~~y~~~~ 249 (323)
T KOG0834|consen 232 ELLDDICHEFLDLYEQTP 249 (323)
T ss_pred HHHHHHHHHHHHHHhhcc
Confidence 999999999988876553
No 31
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=86.29 E-value=4.5 Score=38.69 Aligned_cols=87 Identities=8% Similarity=0.059 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHH
Q 041510 153 TLVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVV 232 (339)
Q Consensus 153 ~lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~ 232 (339)
.-.+++-.++..|+|+.++--.|+.+++..............-+|++|++|||..... .-+-.+...+++ .|...|.
T Consensus 193 ~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~-~~tq~eva~v~~--vtevTIr 269 (285)
T COG1405 193 DPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGE-RRTQKEVAKVAG--VTEVTIR 269 (285)
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCC-chHHHHHHHHhC--CeeeHHH
Confidence 4467888999999999999999999999999998888999999999999999999773 333344444433 2233333
Q ss_pred HHHHHHHHHc
Q 041510 233 EMEEKVLEFL 242 (339)
Q Consensus 233 ~mE~~IL~~L 242 (339)
+-=.+|...+
T Consensus 270 nrykel~~~~ 279 (285)
T COG1405 270 NRYKELADAL 279 (285)
T ss_pred HHHHHHHHhh
Confidence 3334444443
No 32
>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=79.03 E-value=15 Score=29.47 Aligned_cols=62 Identities=21% Similarity=0.168 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHhC--CCHHhHHH
Q 041510 272 LYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFSG--YRPSDLKE 334 (339)
Q Consensus 272 ~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~tg--y~~~dL~~ 334 (339)
.....|.++++.-+.........+..+|+||+++|.++-.. ..++...+...++ |+.++|..
T Consensus 50 ~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~-~~~~~~~~~~~~~~~~~~~~i~~ 113 (127)
T PF00134_consen 50 ETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEED-NPPSISDLIRISDNTFTKKDILE 113 (127)
T ss_dssp HHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTS-S--HHHHHHHHTTTSSHHHHHHH
T ss_pred hHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcc-ccchHHHHHHHHcCCCCHHHHHH
Confidence 34456777777777666677889999999999999998753 4566777777774 66666653
No 33
>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=64.52 E-value=43 Score=28.46 Aligned_cols=82 Identities=11% Similarity=-0.005 Sum_probs=44.7
Q ss_pred cCCCHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHhhh-----hhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHH
Q 041510 247 GSPTTKSFLRIFTRVTEENCKKPDLLYEFLSCYLAELSLL-----DYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWEL 321 (339)
Q Consensus 247 ~~pTp~~FL~~fl~~~~~~~~~~~~~i~~la~~l~elsL~-----d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L 321 (339)
...+..+|+.++....+-.. ....+|.++++--.. ........+--+=++|+.+|.+.+. +...|+...
T Consensus 50 p~i~i~~fl~ri~~~~~~s~-----~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~-D~~~~n~~~ 123 (149)
T PF08613_consen 50 PSISIRDFLSRILKYTQCSP-----ECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLD-DNTYSNKSW 123 (149)
T ss_dssp -SS-HHHHHHHHHHHTT--H-----HHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH--SS---HHHH
T ss_pred CCCcHHHHHHHHHHHcCCCh-----HHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcc-cccccHHHH
Confidence 33456667777665543221 222234333332222 1122245566788899999999987 467889999
Q ss_pred HHHhCCCHHhHHH
Q 041510 322 QTFSGYRPSDLKE 334 (339)
Q Consensus 322 ~~~tgy~~~dL~~ 334 (339)
.+++|++..||..
T Consensus 124 a~v~gis~~eln~ 136 (149)
T PF08613_consen 124 AKVGGISLKELNE 136 (149)
T ss_dssp HHHHTS-HHHHHH
T ss_pred HhhcCCCHHHHHH
Confidence 9999999988753
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=60.39 E-value=34 Score=33.35 Aligned_cols=64 Identities=17% Similarity=0.279 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhcCCCCHHHHHHHHHH
Q 041510 172 LYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITDNTYMKEEVVEMEEK 237 (339)
Q Consensus 172 l~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~~~~t~~ei~~mE~~ 237 (339)
+-.+-+|+.--+....+.+..-.+||.+|+++|+..+|+-.|....+-.+. .+++.+|-..=..
T Consensus 161 ~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~F--d~~k~eid~ic~~ 224 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAF--DTTKREIDEICYR 224 (367)
T ss_pred HHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHc--CCcHHHHHHHHHH
Confidence 334444555555556677788899999999999999997656555544443 3566665544333
No 35
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=49.61 E-value=57 Score=27.61 Aligned_cols=64 Identities=16% Similarity=0.162 Sum_probs=47.7
Q ss_pred HHHHHHHHHccCchHHHHHHHHHHHHHhhc--CcCccchhHHHHHHHHHHhhhhccCCCCChhhhhh
Q 041510 156 DWLVEVLEEYKLVSDTLYLTVSYVDRFLSS--HALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCY 220 (339)
Q Consensus 156 dWl~ev~~~l~L~~eTl~lAV~llDRfLs~--~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~ 220 (339)
.-|.++|+.++++++.....-..|+..+.. .-+...++.-+-++|+++-+|+.. ..++..++..
T Consensus 16 ~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~-~~~sF~~Ii~ 81 (135)
T PF01857_consen 16 VRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK-EELSFKDIIK 81 (135)
T ss_dssp HHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT--S--HHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc-CCCCHHHHHH
Confidence 446789999999999888888899988864 345556799999999999999976 3445555543
No 36
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=48.76 E-value=40 Score=32.55 Aligned_cols=38 Identities=13% Similarity=0.159 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHh
Q 041510 273 YEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIM 310 (339)
Q Consensus 273 i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l 310 (339)
+...|..+..-.++...+..|.|-.||++|++||.++-
T Consensus 78 viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvE 115 (305)
T TIGR00569 78 VVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVE 115 (305)
T ss_pred HHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcc
Confidence 33455555566666677788999999999999999875
No 37
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=46.85 E-value=68 Score=30.83 Aligned_cols=69 Identities=6% Similarity=0.055 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHccCchHHHHHHHHHHHHHhhcCcCccchhHHHHHHHHHHhhhhccCCCCChhhhhhhhc
Q 041510 154 LVDWLVEVLEEYKLVSDTLYLTVSYVDRFLSSHALSRNKLQLLGVCCMLIASKYEEISPPHVEDFCYITD 223 (339)
Q Consensus 154 lVdWl~ev~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLvavtcL~IAsK~EE~~~p~l~dl~~i~~ 223 (339)
.-++|..+|..|+|+..+.-.|-.+-...-....+.....--|+++.+|+++-..+ ..-+..++..+++
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~-~kkt~keI~~vtg 271 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSD-EKKTQKEIGEVTG 271 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhcc-CcccHHHHHHHhh
Confidence 44566667777777777777666666666666566666677888888888888877 3445566655544
No 38
>PF03261 CDK5_activator: Cyclin-dependent kinase 5 activator protein; InterPro: IPR004944 These proteins are neuron specific activators of cyclin-dependent kinase 5 (CDK5) []. They form a heterodimer with the catalytic subunit (CDK5) [].; GO: 0016534 cyclin-dependent protein kinase 5 activator activity, 0016533 cyclin-dependent protein kinase 5 holoenzyme complex; PDB: 3O0G_D 1H4L_E 1UNH_D 1UNL_E 1UNG_E.
Probab=33.77 E-value=1.2e+02 Score=29.89 Aligned_cols=62 Identities=23% Similarity=0.353 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHc---cCchHHHHHHHHHHHHHhhc-C-----cCccchhHHHHHHHHHHhhhh--ccCCCC
Q 041510 152 QTLVDWLVEVLEEY---KLVSDTLYLTVSYVDRFLSS-H-----ALSRNKLQLLGVCCMLIASKY--EEISPP 213 (339)
Q Consensus 152 ~~lVdWl~ev~~~l---~L~~eTl~lAV~llDRfLs~-~-----~i~~~~lqLvavtcL~IAsK~--EE~~~p 213 (339)
..+|-||..|-..+ |..+..|-.-.+++--||-. . .-...++|-+.+|||+||--| .|+..|
T Consensus 222 ~~~vmWlR~vDRsLLlqgwqd~~fi~pan~vf~yml~r~~~~~~~~~~~~l~~~~l~cly~sysy~gneisyp 294 (346)
T PF03261_consen 222 GDVVMWLRAVDRSLLLQGWQDQAFINPANVVFVYMLCRDVVSGEVSSERELQAIVLTCLYLSYSYMGNEISYP 294 (346)
T ss_dssp HHHHHHHHHHHHHHHHTTS-SS-S--HHHHHHHHHHHHHHS-TT--SHHHHHHHHHHHHHHHHHHH-SSS---
T ss_pred cceEeehhhcCHHHHhccccccceeccchhhhhHHHHHHhhccccCCHHHHHHHHHHHHHHHhhhcCcccccc
Confidence 37788888877765 45555555444444445432 2 223356999999999999888 355544
No 39
>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=33.67 E-value=2.3e+02 Score=22.07 Aligned_cols=54 Identities=15% Similarity=0.179 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHhhhhhcccCCcHHHHHHHHHHHHHHHhCCCCCCChHHHHHHh
Q 041510 272 LYEFLSCYLAELSLLDYGCLWYLPSLVAASSIFLSRFIMQPKIHPWSWELQTFS 325 (339)
Q Consensus 272 ~i~~la~~l~elsL~d~~~~~~~PS~iAaAai~lA~~~l~~~~~~W~~~L~~~t 325 (339)
|+..++..-+--++..+...-.+|..|.++.+.-....-+.+-.+|...|+..+
T Consensus 24 ql~e~~s~tickaliqpniall~p~licaggllttiet~ntn~~~wt~yledl~ 77 (106)
T PF09241_consen 24 QLFEATSITICKALIQPNIALLPPCLICAGGLLTTIETDNTNCQPWTCYLEDLS 77 (106)
T ss_dssp HHHHHHHHHHHHHTTSGGGGGS-HHHHHHHHHHHHHHTS-TSSSTCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCccccCcceeecccceEEEeccCCCCcchhhhHHhhH
Confidence 444444444444567777778899999999999888877777789997766543
No 40
>cd04441 DEP_2_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=23.30 E-value=79 Score=24.61 Aligned_cols=30 Identities=17% Similarity=0.361 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHccCchHHHHHHHHHHHH
Q 041510 151 RQTLVDWLVEVLEEYKLVSDTLYLTVSYVDR 181 (339)
Q Consensus 151 R~~lVdWl~ev~~~l~L~~eTl~lAV~llDR 181 (339)
=..+||||++.. ...-..+++.++-.++|.
T Consensus 35 GsElVdWL~~~~-~~~sR~eAv~lgq~Ll~~ 64 (85)
T cd04441 35 GSEFIDWLLQEG-EAESRREAVQLCRRLLEH 64 (85)
T ss_pred chHHHHHHHHcC-CCCCHHHHHHHHHHHHHC
Confidence 358999999964 233344555555555554
No 41
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=23.09 E-value=1.6e+02 Score=27.60 Aligned_cols=30 Identities=17% Similarity=0.111 Sum_probs=23.1
Q ss_pred HHHhhhhhcccCCcHHHHHHHHHHHHHHHh
Q 041510 281 AELSLLDYGCLWYLPSLVAASSIFLSRFIM 310 (339)
Q Consensus 281 ~elsL~d~~~~~~~PS~iAaAai~lA~~~l 310 (339)
+.-.+...++-.+.|-.+|..|++||.+.-
T Consensus 69 ~rRfy~r~S~k~~~p~lla~TClyLAcKvE 98 (264)
T KOG0794|consen 69 FRRFYLRKSLKEIEPRLLAPTCLYLACKVE 98 (264)
T ss_pred HHHHHHHHhhhccCHHHHHHHHHHHHhhhh
Confidence 333445556778999999999999998864
No 42
>cd04443 DEP_GPR155 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in GPR155-like proteins. GRP155-like proteins, also known as PGR22, contain an N-terminal permease domain, a central transmembrane region and a C-terminal DEP domain. They are orphan receptors of the class B G protein-coupled receptors. Their function is unknown.
Probab=20.14 E-value=1e+02 Score=23.74 Aligned_cols=30 Identities=20% Similarity=0.255 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHccCchHHHHHHHHHHHH
Q 041510 151 RQTLVDWLVEVLEEYKLVSDTLYLTVSYVDR 181 (339)
Q Consensus 151 R~~lVdWl~ev~~~l~L~~eTl~lAV~llDR 181 (339)
=..+|+||++... ..-..+++.++-.++|.
T Consensus 33 GselVdWL~~~~~-~~sR~eAv~lg~~Ll~~ 62 (83)
T cd04443 33 GCDLVSWLIEVGL-AQDRGEAVLYGRRLLQG 62 (83)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 4589999997521 12234666666666653
Done!