Query 015387
Match_columns 408
No_of_seqs 295 out of 1872
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 05:50:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015387.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015387hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0653 Cyclin B and related k 100.0 1.9E-46 4.1E-51 381.8 22.6 262 135-397 108-372 (391)
2 COG5024 Cyclin [Cell division 100.0 5.6E-46 1.2E-50 376.5 18.0 261 135-397 162-423 (440)
3 KOG0654 G2/Mitotic-specific cy 100.0 2.6E-41 5.6E-46 334.4 11.5 263 136-401 86-351 (359)
4 KOG0655 G1/S-specific cyclin E 100.0 1.2E-36 2.6E-41 292.1 20.8 218 147-373 104-336 (408)
5 KOG0656 G1/S-specific cyclin D 100.0 7.6E-33 1.6E-37 272.0 21.1 216 151-366 42-268 (335)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 8.3E-26 1.8E-30 194.0 12.3 127 156-282 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 9.2E-23 2E-27 200.8 19.0 157 184-341 54-221 (305)
8 KOG0834 CDK9 kinase-activating 99.9 2.7E-22 5.8E-27 197.7 14.3 195 180-375 33-248 (323)
9 KOG0835 Cyclin L [General func 99.9 8.6E-21 1.9E-25 183.1 17.8 189 181-374 18-231 (367)
10 PF02984 Cyclin_C: Cyclin, C-t 99.9 3.3E-21 7.2E-26 162.7 10.3 118 284-401 1-118 (118)
11 KOG0794 CDK8 kinase-activating 99.8 1.4E-18 3E-23 160.8 12.0 184 189-374 44-240 (264)
12 COG5333 CCL1 Cdk activating ki 99.8 6.7E-18 1.5E-22 163.1 14.4 163 184-348 43-213 (297)
13 PRK00423 tfb transcription ini 99.7 6.3E-16 1.4E-20 153.4 22.2 182 187-372 123-304 (310)
14 KOG1597 Transcription initiati 99.5 5.6E-13 1.2E-17 127.9 17.1 178 192-373 110-289 (308)
15 cd00043 CYCLIN Cyclin box fold 99.5 7.8E-14 1.7E-18 110.1 8.1 87 186-274 2-88 (88)
16 COG1405 SUA7 Transcription ini 99.5 4.7E-12 1E-16 123.8 19.7 183 186-372 97-279 (285)
17 smart00385 CYCLIN domain prese 99.4 3E-13 6.6E-18 105.7 7.4 83 191-275 1-83 (83)
18 KOG2496 Cdk activating kinase 99.3 1.9E-11 4E-16 117.9 10.8 143 193-336 63-218 (325)
19 smart00385 CYCLIN domain prese 98.8 1.9E-08 4E-13 78.3 9.1 81 288-369 1-82 (83)
20 cd00043 CYCLIN Cyclin box fold 98.8 5.2E-08 1.1E-12 76.5 9.4 85 283-368 2-87 (88)
21 KOG4164 Cyclin ik3-1/CABLES [C 98.5 4.8E-08 1E-12 97.2 2.7 149 136-284 320-482 (497)
22 PF08613 Cyclin: Cyclin; Inte 98.5 8.7E-07 1.9E-11 79.0 9.6 91 189-281 54-149 (149)
23 KOG1598 Transcription initiati 98.1 2.3E-05 5E-10 81.5 11.5 173 192-369 73-251 (521)
24 PF00382 TFIIB: Transcription 97.4 0.0014 3.1E-08 50.7 9.1 71 290-361 1-71 (71)
25 PF00382 TFIIB: Transcription 97.3 0.00094 2E-08 51.8 6.7 65 193-258 1-65 (71)
26 PRK00423 tfb transcription ini 96.4 0.019 4.2E-07 57.3 9.8 89 190-281 220-308 (310)
27 KOG1674 Cyclin [General functi 95.0 0.081 1.8E-06 50.2 7.4 94 189-284 78-181 (218)
28 PF00134 Cyclin_N: Cyclin, N-t 93.7 0.71 1.5E-05 38.9 9.9 85 287-371 35-121 (127)
29 KOG1675 Predicted cyclin [Gene 92.5 0.26 5.6E-06 48.7 5.9 90 196-286 200-291 (343)
30 PF02984 Cyclin_C: Cyclin, C-t 91.3 0.64 1.4E-05 38.4 6.4 87 190-278 4-90 (118)
31 COG1405 SUA7 Transcription ini 90.7 2.5 5.5E-05 41.8 10.7 87 285-372 99-185 (285)
32 KOG0834 CDK9 kinase-activating 87.1 0.99 2.2E-05 45.4 5.2 94 187-280 153-248 (323)
33 PF08613 Cyclin: Cyclin; Inte 86.6 8.1 0.00017 34.2 10.3 89 284-372 52-145 (149)
34 KOG1597 Transcription initiati 83.6 8.9 0.00019 38.0 9.6 86 286-373 107-193 (308)
35 TIGR00569 ccl1 cyclin ccl1. Un 70.6 25 0.00054 35.2 8.9 52 289-340 62-115 (305)
36 PF01857 RB_B: Retinoblastoma- 66.0 17 0.00036 32.0 5.8 66 192-258 17-84 (135)
37 KOG0835 Cyclin L [General func 57.8 42 0.00091 33.9 7.5 78 187-270 143-222 (367)
38 PF09241 Herp-Cyclin: Herpesvi 46.6 1.5E+02 0.0034 23.8 9.6 86 286-371 4-97 (106)
39 KOG0794 CDK8 kinase-activating 32.8 92 0.002 30.1 5.3 51 289-339 47-97 (264)
40 PF12550 GCR1_C: Transcription 32.7 2.2E+02 0.0047 22.4 6.8 52 161-217 28-80 (81)
41 COG5024 Cyclin [Cell division 30.0 1.4E+02 0.0031 31.4 6.7 101 306-406 236-339 (440)
42 KOG0656 G1/S-specific cyclin D 26.4 1.9E+02 0.0041 29.4 6.6 55 286-340 81-138 (335)
43 COG5333 CCL1 Cdk activating ki 25.3 67 0.0015 32.0 3.1 78 263-340 18-102 (297)
No 1
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.9e-46 Score=381.81 Aligned_cols=262 Identities=48% Similarity=0.791 Sum_probs=243.8
Q ss_pred CccCCCCCCCCCccchhhhHHHHHHHHHHhHhhcCCCCCccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHH
Q 015387 135 PILDIDGRDLKNPLAVVEYVDDIYAYYRKIEISSCVSPTYMDHQSDINEKMRAILIDWLLEVHYKFELMDETLFLTINIV 214 (408)
Q Consensus 135 ~~~did~~d~~~p~~~~eY~~dI~~~l~~~E~~~~~~~~y~~~q~~i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~ 214 (408)
++.|+|..|..+|+++.+|++|||.|++..|.. ..+..|+..|.+++++||.+++|||++||.+|+|.+||+|+||+++
T Consensus 108 ~~~dl~~~d~~~~~~~~ey~~di~~~l~~~e~~-~~p~~~~~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnli 186 (391)
T KOG0653|consen 108 SILDLDSEDKSDPSMIVEYVQDIFEYLRQLELE-FLPLSYDISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLI 186 (391)
T ss_pred CccCcchhcccCcHHHHHHHHHHHHHHHHHHHh-hCchhhhcccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHH
Confidence 699999999999999999999999999999963 3445667889999999999999999999999999999999999999
Q ss_pred HhhhhcccccccchhhhHhHHHH-hhhhccccCCcchhhHHhhhccccCHHHHHHHHHHHHHHcCCccccCcchhHHHHH
Q 015387 215 DKFLERQVVVRKKLQLVGVTAML-LACKYEEVSVPIVDDFILISDNAYTRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRF 293 (408)
Q Consensus 215 DRfLs~~~v~~~~lqLva~acL~-IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~f 293 (408)
||||++..+.++++||+|++||| |||||||..+|.++|++.++++.||+++|++||+.||++|+|++++|+|+.||++|
T Consensus 187 DRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~ 266 (391)
T KOG0653|consen 187 DRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRF 266 (391)
T ss_pred HHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHH
Confidence 99999999999999999999976 99999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCCCHHHHHHHHHHHHHHHh
Q 015387 294 LKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNYPEDQLLECSRLMVTLHE 373 (408)
Q Consensus 294 l~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgys~~~L~~c~~~L~~l~~ 373 (408)
+++...+.+.+.++++++|++++|+.++.++||.+|+|++++++.+......|+..+.+++||+..++.+|.+.+..++.
T Consensus 267 ~ka~~~d~~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~~w~~~~~~~sg~~~~~~~~~~~~~~~~~~ 346 (391)
T KOG0653|consen 267 LKAADYDIKTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGDVWSPTLEHYSGYSESYLFECARSLSALSL 346 (391)
T ss_pred HHhhhcchhHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCCccCCCCeeccCCCcHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999877654479999999999999999999999998665
Q ss_pred hcCC-CCchh-hhcccCCcccccccc
Q 015387 374 KAAT-GKLTG-VYRKFNTSKFGHAAK 397 (408)
Q Consensus 374 ~~~~-~~~~~-i~~KYss~~f~~vs~ 397 (408)
.... ....+ +++||++++|..++.
T Consensus 347 ~~~~~~~~~~~~~~ky~~~~~~~~~~ 372 (391)
T KOG0653|consen 347 SSLQNPSLRASVLNKYNSSKFLPASP 372 (391)
T ss_pred HhcccchhHHHHHHHhcccccchhhh
Confidence 4433 34554 999999999999983
No 2
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=5.6e-46 Score=376.48 Aligned_cols=261 Identities=38% Similarity=0.639 Sum_probs=250.3
Q ss_pred CccCCCCCCCCCccchhhhHHHHHHHHHHhHhhcCCCCCccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHH
Q 015387 135 PILDIDGRDLKNPLAVVEYVDDIYAYYRKIEISSCVSPTYMDHQSDINEKMRAILIDWLLEVHYKFELMDETLFLTINIV 214 (408)
Q Consensus 135 ~~~did~~d~~~p~~~~eY~~dI~~~l~~~E~~~~~~~~y~~~q~~i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~ 214 (408)
.+.|+|..+.+||.++.||..+|+.|++++|....+.++||.+|+.+.+.||.+|++||+++|.+|++.++|+++|++++
T Consensus 162 ~~~dld~~~~~d~~mv~Ey~~~Ife~l~k~e~~~lp~~~yl~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainii 241 (440)
T COG5024 162 SWQDLDATDQEDPLMVPEYASDIFEYLLKLELIDLPNPNYLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINII 241 (440)
T ss_pred CccccccccccCccchHHHHHHHHHHHHHHHHHhcCcHHHHhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHH
Confidence 57889988999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHHHHHHHHHcCCccccCcchhHHHHHH
Q 015387 215 DKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRFL 294 (408)
Q Consensus 215 DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~fl 294 (408)
||||+...+.-+++||+|++||||||||||+++|++++|+.++++.|+.++|+++|+.||.+|+|+++.|+|+.|||++.
T Consensus 242 DrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriS 321 (440)
T COG5024 242 DRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRIS 321 (440)
T ss_pred HHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcC-CCHHHHHHHHHHHHHHHh
Q 015387 295 KAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTN-YPEDQLLECSRLMVTLHE 373 (408)
Q Consensus 295 ~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tg-ys~~~L~~c~~~L~~l~~ 373 (408)
++...+...+..+.|+++.+..++.|+.++||.+||||.++++.+++. ..|...+..++| |+..++.+++..+++.++
T Consensus 322 ka~dyd~~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~-~~w~~~l~~ySg~y~~~~l~~~~~~~~~~l~ 400 (440)
T COG5024 322 KASDYDIFSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQ-NQWDRTLIHYSGNYTNPDLKPLNESNKENLQ 400 (440)
T ss_pred hhcccchhhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhcc-CCCCccccccCCCCCchhHHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999988765 459999999998 999999999999999987
Q ss_pred hcCCCCchhhhcccCCcccccccc
Q 015387 374 KAATGKLTGVYRKFNTSKFGHAAK 397 (408)
Q Consensus 374 ~~~~~~~~~i~~KYss~~f~~vs~ 397 (408)
.+..+ +.++.+||++++|+.++.
T Consensus 401 ~~~~~-~~~i~~Ky~~~~~~~~s~ 423 (440)
T COG5024 401 NPSVH-HDAIFPKYPSPTFGKASS 423 (440)
T ss_pred ccchh-hhhhhhccccccccccch
Confidence 66544 489999999999999874
No 3
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.6e-41 Score=334.39 Aligned_cols=263 Identities=38% Similarity=0.622 Sum_probs=253.0
Q ss_pred ccCCCCCCCCCccchhhhHHHHHHHHHHhHhh-cCCCCCcccc-CCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHH
Q 015387 136 ILDIDGRDLKNPLAVVEYVDDIYAYYRKIEIS-SCVSPTYMDH-QSDINEKMRAILIDWLLEVHYKFELMDETLFLTINI 213 (408)
Q Consensus 136 ~~did~~d~~~p~~~~eY~~dI~~~l~~~E~~-~~~~~~y~~~-q~~i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l 213 (408)
++++|. +..+|++|..|..+|++|++..|.. ..+.++||.. |.++++.||.++|+|++++.+.+++..+|+|+++++
T Consensus 86 ~~~~ds-~~~dp~~c~~~~~~I~~~~r~~ei~~~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~ 164 (359)
T KOG0654|consen 86 VMRIDS-VGEDPQMCLKIAAKIYNTLRVSDIKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNY 164 (359)
T ss_pred ccchhh-cccchHHHHHHHHHHhhcccccchhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHH
Confidence 367777 5789999999999999999999999 8899999997 999999999999999999999999999999999999
Q ss_pred HHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHHHHHHHHHcCCccccCcchhHHHHH
Q 015387 214 VDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRF 293 (408)
Q Consensus 214 ~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~f 293 (408)
+|||++...+.+.++|++|.+|++||+|+||..+|.+.+|+.++++.|+..++..||..||+.|.|.+..||...|+++|
T Consensus 165 ~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~ 244 (359)
T KOG0654|consen 165 RDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRF 244 (359)
T ss_pred HHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhc-CcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCCCHHHHHHHHHHHHHHH
Q 015387 294 LKAAQ-SDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNYPEDQLLECSRLMVTLH 372 (408)
Q Consensus 294 l~~~~-~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgys~~~L~~c~~~L~~l~ 372 (408)
+.+.+ ...+++.++.|+.|+++.++.|+.|.||.|||||+++|+.+++ ..+|+..|+.+|||+.+++..|+..|. ++
T Consensus 245 ~~~~~~~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~-~~pW~~~L~~~T~y~~edl~~~v~~L~-~~ 322 (359)
T KOG0654|consen 245 LRVAQTPELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD-FHPWNQTLEDYTGYKAEDLKPCVLDLH-LY 322 (359)
T ss_pred HHhhcchhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc-CCCCchhhHHhhcccHHHHHHHHHHHh-cc
Confidence 98877 6778999999999999999999999999999999999998887 899999999999999999999999999 88
Q ss_pred hhcCCCCchhhhcccCCccccccccCCcc
Q 015387 373 EKAATGKLTGVYRKFNTSKFGHAAKAEPA 401 (408)
Q Consensus 373 ~~~~~~~~~~i~~KYss~~f~~vs~~~p~ 401 (408)
..++...+++|+.||+.++|++||..+++
T Consensus 323 l~~~~~~l~air~ky~~~k~~~Va~~~~p 351 (359)
T KOG0654|consen 323 LNASGTDLPAIREKYKQSKFKEVALLPVP 351 (359)
T ss_pred cCCCCCchHHHHHHhhhhhhhhhhccCCC
Confidence 88999999999999999999999988876
No 4
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.2e-36 Score=292.11 Aligned_cols=218 Identities=28% Similarity=0.543 Sum_probs=194.3
Q ss_pred ccchhhh--HHHHHHHHHHhHhhcCCCCCccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhccc-c
Q 015387 147 PLAVVEY--VDDIYAYYRKIEISSCVSPTYMDHQSDINEKMRAILIDWLLEVHYKFELMDETLFLTINIVDKFLERQV-V 223 (408)
Q Consensus 147 p~~~~eY--~~dI~~~l~~~E~~~~~~~~y~~~q~~i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~-v 223 (408)
|+-+..+ ..++|..|..+|..+.....++.+|+++.++||++|+|||++||+.++|.+||+|||+-||||||.... +
T Consensus 104 plp~lswgn~~eVW~lM~kkee~~l~~~~~l~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v 183 (408)
T KOG0655|consen 104 PLPCLSWGNSKEVWLLMLKKEERYLRDKHFLEQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEV 183 (408)
T ss_pred CCccccccCHHHHHHHHHccchhhhhhhHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHh
Confidence 4444444 489999999999998888899999999999999999999999999999999999999999999997655 9
Q ss_pred cccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHHHHHHHHHcCCccccCcchhHHHHHHHHhcCcH--
Q 015387 224 VRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQSDK-- 301 (408)
Q Consensus 224 ~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~-- 301 (408)
.+.+|||||+||||||+|+||+++|.+.+|.++++++||.++|+.||..||+.|+|++++.|...+|.-|+.....+.
T Consensus 184 ~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~ 263 (408)
T KOG0655|consen 184 SKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAP 263 (408)
T ss_pred hhhhHHHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999998754331
Q ss_pred ----------HHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCCCHHHHHHHHHHHHHH
Q 015387 302 ----------KLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNYPEDQLLECSRLMVTL 371 (408)
Q Consensus 302 ----------~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgys~~~L~~c~~~L~~l 371 (408)
...++| .|+++|+++...+.|+-+.|||||++.-.. .......+|+.+.+|.+|++.|..+
T Consensus 264 k~l~Pq~~~~efiqia-qlLDlc~ldids~~fsYrilaAAal~h~~s--------~e~v~kaSG~~w~~ie~cv~wm~Pf 334 (408)
T KOG0655|consen 264 KVLLPQYSQEEFIQIA-QLLDLCILDIDSLEFSYRILAAAALCHFTS--------IEVVKKASGLEWDSIEECVDWMVPF 334 (408)
T ss_pred ceeccccchHHHHHHH-HHHHHHHhccccccchHHHHHHHHHHHHhH--------HHHHHHcccccHHHHHHHHHHHHHH
Confidence 123333 489999999999999999999999986532 2346678999999999999999988
Q ss_pred Hh
Q 015387 372 HE 373 (408)
Q Consensus 372 ~~ 373 (408)
..
T Consensus 335 ~r 336 (408)
T KOG0655|consen 335 VR 336 (408)
T ss_pred HH
Confidence 75
No 5
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=7.6e-33 Score=271.99 Aligned_cols=216 Identities=28% Similarity=0.439 Sum_probs=186.2
Q ss_pred hhhHHHHHHHHHHhHhhcCCCCCc-cccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccc--
Q 015387 151 VEYVDDIYAYYRKIEISSCVSPTY-MDHQSDINEKMRAILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKK-- 227 (408)
Q Consensus 151 ~eY~~dI~~~l~~~E~~~~~~~~y-~~~q~~i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~-- 227 (408)
.-+.++++..+.+.|..+.|..+| +..|..+.+.||...++||.+||.++++.++|++||+||||||++...+++.+
T Consensus 42 ~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W 121 (335)
T KOG0656|consen 42 LLWDERVLANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPW 121 (335)
T ss_pred ccccHHHHHHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchH
Confidence 456688888899999988887774 44588899999999999999999999999999999999999999999999999
Q ss_pred -hhhhHhHHHHhhhhccccCCcchhhHH-hhhccccCHHHHHHHHHHHHHHcCCccccCcchhHHHHHHHHhcCc----H
Q 015387 228 -LQLVGVTAMLLACKYEEVSVPIVDDFI-LISDNAYTRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQSD----K 301 (408)
Q Consensus 228 -lqLva~acL~IAsK~EE~~~p~i~dlv-~is~~~yt~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~----~ 301 (408)
+||+|+|||+||||+||+.+|.+.|+. ..+++.|.++.|.+||..||.+|+|+++.+||++|+++|++.+... .
T Consensus 122 ~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~ 201 (335)
T KOG0656|consen 122 MLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKH 201 (335)
T ss_pred HHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHH
Confidence 999999999999999999888888875 4578999999999999999999999999999999999999998653 3
Q ss_pred HHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCc--hhhhhhhcCCCHHHHHHHHH
Q 015387 302 KLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQW--TKTSEWLTNYPEDQLLECSR 366 (408)
Q Consensus 302 ~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w--~~~l~~~tgys~~~L~~c~~ 366 (408)
.+...+..++-.+..|..|+.|+||.||+|++.++...+.+...- ...+..+.+++.+.+..|+.
T Consensus 202 ~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 202 LFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred HHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 455556667777889999999999999999998887666543322 24455667788888888887
No 6
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.93 E-value=8.3e-26 Score=193.96 Aligned_cols=127 Identities=39% Similarity=0.746 Sum_probs=117.5
Q ss_pred HHHHHHHHhHhhcCCCCCccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHH
Q 015387 156 DIYAYYRKIEISSCVSPTYMDHQSDINEKMRAILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTA 235 (408)
Q Consensus 156 dI~~~l~~~E~~~~~~~~y~~~q~~i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~ac 235 (408)
||+.++++.|.++.+++.|++.|++++..+|..+++||.+++..+++++.|+++|+.|||||+.+.++.+.+++++|+||
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~c 80 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQQPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALAC 80 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTGTSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHH
T ss_pred CHHHHHHHHHHHHCcCccccccChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhH
Confidence 79999999999999999999998899999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhccccCCcchhhHHhhhccccCHHHHHHHHHHHHHHcCCccc
Q 015387 236 MLLACKYEEVSVPIVDDFILISDNAYTRKEVLDMEKLLLNTLQFNMS 282 (408)
Q Consensus 236 L~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE~~IL~~L~f~l~ 282 (408)
|+||||++|..+|.+.+++.++++.|++++|.+||+.||++|+|+++
T Consensus 81 l~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 81 LFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred HHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999999999999999999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.90 E-value=9.2e-23 Score=200.83 Aligned_cols=157 Identities=24% Similarity=0.308 Sum_probs=139.3
Q ss_pred HHHHHHHHHHHHHHHHcC--CChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccc-
Q 015387 184 KMRAILIDWLLEVHYKFE--LMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNA- 260 (408)
Q Consensus 184 ~~R~~lidWl~ev~~~~~--L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~- 260 (408)
..|.--+++|.++|.+|+ |+..|+.+|+.||+||+..+++...+.++|++||||||||+||. +.++.+++......
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~-~~si~~fv~~~~~~~ 132 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEF-NVSIDQFVGNLKETP 132 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcccc-CcCHHHHHhhccCCc
Confidence 467777888999999999 99999999999999999999999999999999999999999998 45788888765443
Q ss_pred -cCHHHHHHHHHHHHHHcCCccccCcchhHHHHHHHHhc-------CcHHHHHHHHHHHHHHhccccccCcCHHHHHHHH
Q 015387 261 -YTRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQ-------SDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAA 332 (408)
Q Consensus 261 -yt~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~-------~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAa 332 (408)
..+++|+++|..||++|+|++.+++|+.+|..|+..++ ....+...|+.+++.++.+..++.|+||.||+||
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 35799999999999999999999999999999886432 2346778899999999998889999999999999
Q ss_pred HHHHHHHhc
Q 015387 333 IYTAQCSLY 341 (408)
Q Consensus 333 I~lA~~~l~ 341 (408)
|++|.+.++
T Consensus 213 I~lA~~~~~ 221 (305)
T TIGR00569 213 ILHTASRAG 221 (305)
T ss_pred HHHHHHHhC
Confidence 999998775
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.88 E-value=2.7e-22 Score=197.65 Aligned_cols=195 Identities=23% Similarity=0.288 Sum_probs=168.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhcc
Q 015387 180 DINEKMRAILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDN 259 (408)
Q Consensus 180 ~i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~ 259 (408)
.-....|.....||.+++.+++++..|+.+|+.||+||+...++.....+.+|++|||||+|+||. +..++|++.++..
T Consensus 33 ~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEet-p~kl~dIi~~s~~ 111 (323)
T KOG0834|consen 33 KKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEET-PRKLEDIIKVSYR 111 (323)
T ss_pred hHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccC-cccHHHHHHHHHH
Confidence 334567999999999999999999999999999999999999999999999999999999999997 8888999988765
Q ss_pred ccC-------------HHHHHHHHHHHHHHcCCccccCcchhHHHHHHHHhcCcH----HHHHHHHHHHHHHhccccccC
Q 015387 260 AYT-------------RKEVLDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQSDK----KLELLAFFIVELCLVEYKMLK 322 (408)
Q Consensus 260 ~yt-------------~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~----~~~~la~~llelsl~d~~~l~ 322 (408)
.+. ++.|+..|+.||++|+|++++-+||.||-.|++.++.+. ++..+||.++..++....+++
T Consensus 112 ~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~ 191 (323)
T KOG0834|consen 112 YLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQ 191 (323)
T ss_pred HcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEe
Confidence 544 577999999999999999999999999999999988766 488999999999999999999
Q ss_pred cCHHHHHHHHHHHHHHHhcc-CCCchhh-hhhhcC--CCHHHHHHHHHHHHHHHhhc
Q 015387 323 FPPSLLAAAAIYTAQCSLYQ-LKQWTKT-SEWLTN--YPEDQLLECSRLMVTLHEKA 375 (408)
Q Consensus 323 ~~PS~IAaAaI~lA~~~l~~-~~~w~~~-l~~~tg--ys~~~L~~c~~~L~~l~~~~ 375 (408)
|+|..||+|||++|....+. .+.|... .-...+ ++.+++.+.+..++.+|...
T Consensus 192 y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 192 YSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQT 248 (323)
T ss_pred ecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhc
Confidence 99999999999999866542 1112111 112334 89999999999999998543
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.86 E-value=8.6e-21 Score=183.09 Aligned_cols=189 Identities=21% Similarity=0.279 Sum_probs=166.7
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccc
Q 015387 181 INEKMRAILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNA 260 (408)
Q Consensus 181 i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~ 260 (408)
-....|..-+.||.+.+..++|+..+.+++..+|.||+...++.+.++..+++||++||||+||. |..+.+++.+....
T Consensus 18 ~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~-Prr~rdVinVFh~L 96 (367)
T KOG0835|consen 18 TEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE-PRRIRDVINVFHYL 96 (367)
T ss_pred hHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc-cccHhHHHHHHHHH
Confidence 34567999999999999999999999999999999999999999999999999999999999996 77778877654321
Q ss_pred --------c-----------CHHHHHHHHHHHHHHcCCccccCcchhHHHHHHHHhcCc--HHHHHHHHHHHHHHhcccc
Q 015387 261 --------Y-----------TRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQSD--KKLELLAFFIVELCLVEYK 319 (408)
Q Consensus 261 --------y-----------t~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~--~~~~~la~~llelsl~d~~ 319 (408)
+ .+.+++++|+.||+.|||++++.+|+.++-.|+..++.. .++.+.+|.++++++....
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 1 155789999999999999999999999999999998754 4679999999999999999
Q ss_pred ccCcCHHHHHHHHHHHHHHHhc----cCCCchhhhhhhcCCCHHHHHHHHHHHHHHHhh
Q 015387 320 MLKFPPSLLAAAAIYTAQCSLY----QLKQWTKTSEWLTNYPEDQLLECSRLMVTLHEK 374 (408)
Q Consensus 320 ~l~~~PS~IAaAaI~lA~~~l~----~~~~w~~~l~~~tgys~~~L~~c~~~L~~l~~~ 374 (408)
|+.|+|+.|||||||+|.+.+. ..+.|. .+.+.++.+|.+.+..+..+|..
T Consensus 177 ~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf----~~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 177 FVRYSPESIACACIYLAARNLEIPLPFQPHWF----KAFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred eeecCHHHHHHHHHHHHHhhhcCCCCCCccHH----HHcCCcHHHHHHHHHHHHHHHHh
Confidence 9999999999999999998887 344554 56788999999999999988876
No 10
>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=99.85 E-value=3.3e-21 Score=162.71 Aligned_cols=118 Identities=39% Similarity=0.715 Sum_probs=106.3
Q ss_pred CcchhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCCCHHHHHH
Q 015387 284 PTPYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNYPEDQLLE 363 (408)
Q Consensus 284 pTp~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgys~~~L~~ 363 (408)
|||++||++|++..+.+.++..+++|+++++++++.|+.|+||.||+||+++|+.+++..+.|...+..++||+.++|.+
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 89999999998777778899999999999999999999999999999999999999876679999999999999999999
Q ss_pred HHHHHHHHHhhcCCCCchhhhcccCCccccccccCCcc
Q 015387 364 CSRLMVTLHEKAATGKLTGVYRKFNTSKFGHAAKAEPA 401 (408)
Q Consensus 364 c~~~L~~l~~~~~~~~~~~i~~KYss~~f~~vs~~~p~ 401 (408)
|++.|..++.+....+++++++||++.+|++||.++|+
T Consensus 81 c~~~i~~~~~~~~~~~~~ai~~Kys~~~~~~vs~~~~~ 118 (118)
T PF02984_consen 81 CIELIQELLSKASNSKLQAIRKKYSSQKFSSVSQIPPP 118 (118)
T ss_dssp HHHHHHHHHHHCCGSSCTHHHHHTTSGGGTTGGGSS--
T ss_pred HHHHHHHHHHhcCCccchHHHHHhCccccCCccCCCCC
Confidence 99999999988777889999999999999999999875
No 11
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.78 E-value=1.4e-18 Score=160.83 Aligned_cols=184 Identities=23% Similarity=0.284 Sum_probs=152.6
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhc----------
Q 015387 189 LIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISD---------- 258 (408)
Q Consensus 189 lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~---------- 258 (408)
.-+.|..++.++++...++.+|+.||-||+.++++..-.+.+++.||++||||+||.-+..++-++..+.
T Consensus 44 ~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~ 123 (264)
T KOG0794|consen 44 MANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWP 123 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccch
Confidence 3455888899999999999999999999999999999999999999999999999964233333332211
Q ss_pred --cccCHHHHHHHHHHHHHHcCCccccCcchhHHHHHHHHhcC-cHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHH
Q 015387 259 --NAYTRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQS-DKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYT 335 (408)
Q Consensus 259 --~~yt~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~-~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~l 335 (408)
..|...+|.+||..+|+.|++.+-+-+||.-|..++...+. +.+...++|.+++.++.....+-|+|..||.|||+.
T Consensus 124 e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~I 203 (264)
T KOG0794|consen 124 EKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYI 203 (264)
T ss_pred hhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHH
Confidence 14567899999999999999999999999999999988765 778999999999999999999999999999999999
Q ss_pred HHHHhccCCCchhhhhhhcCCCHHHHHHHHHHHHHHHhh
Q 015387 336 AQCSLYQLKQWTKTSEWLTNYPEDQLLECSRLMVTLHEK 374 (408)
Q Consensus 336 A~~~l~~~~~w~~~l~~~tgys~~~L~~c~~~L~~l~~~ 374 (408)
|+...+ .+. ....-.-..++.+.+.+|++.++++|..
T Consensus 204 a~~~~~-k~~-~~~w~~el~vD~ekV~~~v~~I~~lYe~ 240 (264)
T KOG0794|consen 204 ACVIDE-KDI-PKAWFAELSVDMEKVKDIVQEILKLYEL 240 (264)
T ss_pred HHhhcC-CCh-HHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence 986543 222 1222233467899999999999998853
No 12
>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=99.76 E-value=6.7e-18 Score=163.09 Aligned_cols=163 Identities=25% Similarity=0.343 Sum_probs=139.2
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhc-----
Q 015387 184 KMRAILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISD----- 258 (408)
Q Consensus 184 ~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~----- 258 (408)
..|-.-..|+..+|.+++++..++.+|+.+|+||+.+.++....++-++.||++||||+||. +..+.-.....+
T Consensus 43 ~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~-~~~I~i~~~~~~~~~se 121 (297)
T COG5333 43 NLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDT-PRDISIESFEARDLWSE 121 (297)
T ss_pred hHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccc-cchhhHHHHHhhccccc
Confidence 44666678999999999999999999999999999999999999999999999999999995 222222222222
Q ss_pred -cccCHHHHHHHHHHHHHHcCCccccCcchhHHHHHHHHhcCcH--HHHHHHHHHHHHHhccccccCcCHHHHHHHHHHH
Q 015387 259 -NAYTRKEVLDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQSDK--KLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYT 335 (408)
Q Consensus 259 -~~yt~~eI~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~--~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~l 335 (408)
..-+++.|..+|..||+.|+|++.+++|+.++..|++.++... ++..+||.++..++....++.|+|..||+||++.
T Consensus 122 ~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~~t~~~llypphiIA~a~l~i 201 (297)
T COG5333 122 EPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPHIIALAALLI 201 (297)
T ss_pred cccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhceeeeecChHHHHHHHHHH
Confidence 1346899999999999999999999999999999999887654 4999999999999999999999999999999999
Q ss_pred HHHHhccCCCchh
Q 015387 336 AQCSLYQLKQWTK 348 (408)
Q Consensus 336 A~~~l~~~~~w~~ 348 (408)
|.+.+ +.+.|..
T Consensus 202 a~~~~-~~~~~~~ 213 (297)
T COG5333 202 ACEVL-GMPIIKL 213 (297)
T ss_pred HHHhc-CCccchh
Confidence 98765 4555543
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.72 E-value=6.3e-16 Score=153.44 Aligned_cols=182 Identities=19% Similarity=0.179 Sum_probs=163.8
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHH
Q 015387 187 AILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEV 266 (408)
Q Consensus 187 ~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI 266 (408)
.....-|.+++..++|+..+...|..||.+++....+.......+++||||+|||.+.. |.+++++..+++ .++.+|
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 44556688999999999999999999999999998899999999999999999997665 889999998874 589999
Q ss_pred HHHHHHHHHHcCCccccCcchhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCc
Q 015387 267 LDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQW 346 (408)
Q Consensus 267 ~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w 346 (408)
.+.++.|++.|++++...+|.+|+.+|+..++.+..+...|++++..+.......+.+|..|||||||+|.+.. +.+.-
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 GRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLL-GERRT 278 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHh-CCCCC
Confidence 99999999999999999999999999999999999999999999998877666679999999999999998654 55556
Q ss_pred hhhhhhhcCCCHHHHHHHHHHHHHHH
Q 015387 347 TKTSEWLTNYPEDQLLECSRLMVTLH 372 (408)
Q Consensus 347 ~~~l~~~tgys~~~L~~c~~~L~~l~ 372 (408)
...+...+|+++.+|...++.|...+
T Consensus 279 ~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 279 QREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 67788899999999999999998754
No 14
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=99.51 E-value=5.6e-13 Score=127.93 Aligned_cols=178 Identities=17% Similarity=0.126 Sum_probs=157.7
Q ss_pred HHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHHHH
Q 015387 192 WLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDMEK 271 (408)
Q Consensus 192 Wl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE~ 271 (408)
-|..++..++|+....-.|-.+|.++...+....++.+-+++|||+|||+-++ .+.+++++..+++ .+++||.+.=+
T Consensus 110 ~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~-~pRT~kEI~~~an--v~kKEIgr~~K 186 (308)
T KOG1597|consen 110 EITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQED-VPRTFKEISAVAN--VSKKEIGRCVK 186 (308)
T ss_pred HHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcC-CCchHHHHHHHHc--CCHHHHHHHHH
Confidence 37788999999999999999999999988889999999999999999999555 5999999999887 79999999999
Q ss_pred HHHHHcCCccccCc--chhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhh
Q 015387 272 LLLNTLQFNMSVPT--PYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKT 349 (408)
Q Consensus 272 ~IL~~L~f~l~~pT--p~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~ 349 (408)
.|+..|+-.+...+ .-+|+.||+..++.+++....|.++.+.+..--...+.+|-.||||+||++.... +.+.....
T Consensus 187 ~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls-~~kkt~ke 265 (308)
T KOG1597|consen 187 LIGEALETSVDLISISTGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLS-DEKKTQKE 265 (308)
T ss_pred HHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhc-cCcccHHH
Confidence 99999988776655 7899999999999999999999999988765444556999999999999997644 56777788
Q ss_pred hhhhcCCCHHHHHHHHHHHHHHHh
Q 015387 350 SEWLTNYPEDQLLECSRLMVTLHE 373 (408)
Q Consensus 350 l~~~tgys~~~L~~c~~~L~~l~~ 373 (408)
+...+|+++.+|+..|+.|.....
T Consensus 266 I~~vtgVaE~TIr~sYK~Lyp~~~ 289 (308)
T KOG1597|consen 266 IGEVTGVAEVTIRNSYKDLYPHAD 289 (308)
T ss_pred HHHHhhhhHHHHHHHHHHHhhchh
Confidence 899999999999999999987654
No 15
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=99.49 E-value=7.8e-14 Score=110.13 Aligned_cols=87 Identities=39% Similarity=0.578 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHH
Q 015387 186 RAILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKE 265 (408)
Q Consensus 186 R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~e 265 (408)
|...++||.+++..++++++|.++|+.++|||+....+.+.+++++|+||++||||+++. ++..+++...++.. +.++
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 678899999999999999999999999999999999999999999999999999999998 88999999887544 8999
Q ss_pred HHHHHHHHH
Q 015387 266 VLDMEKLLL 274 (408)
Q Consensus 266 I~~mE~~IL 274 (408)
|.++|+.|+
T Consensus 80 i~~~e~~il 88 (88)
T cd00043 80 ILRMEKLLL 88 (88)
T ss_pred HHHHHHHhC
Confidence 999999875
No 16
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.46 E-value=4.7e-12 Score=123.80 Aligned_cols=183 Identities=17% Similarity=0.178 Sum_probs=167.4
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHH
Q 015387 186 RAILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKE 265 (408)
Q Consensus 186 R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~e 265 (408)
-......+-.++..++|+..+...|..++-+.+....+.....+-++++|+++||+.... +.++.++..+.+ .++.+
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 355677788899999999999999999999999999999999999999999999998775 889999998876 68899
Q ss_pred HHHHHHHHHHHcCCccccCcchhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCC
Q 015387 266 VLDMEKLLLNTLQFNMSVPTPYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQ 345 (408)
Q Consensus 266 I~~mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~ 345 (408)
|.++.+.+.+.|+-.+.+..|.+|+.+|++.++.+..+...|..|+..+...-...+..|+.+||||+|+|.... +...
T Consensus 174 i~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~-~~~~ 252 (285)
T COG1405 174 IGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLL-GERR 252 (285)
T ss_pred HHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHh-CCch
Confidence 999999999999999999999999999999999999999999999999998888889999999999999998655 5677
Q ss_pred chhhhhhhcCCCHHHHHHHHHHHHHHH
Q 015387 346 WTKTSEWLTNYPEDQLLECSRLMVTLH 372 (408)
Q Consensus 346 w~~~l~~~tgys~~~L~~c~~~L~~l~ 372 (408)
.+.....++|+++.+|++-++.|.+..
T Consensus 253 tq~eva~v~~vtevTIrnrykel~~~~ 279 (285)
T COG1405 253 TQKEVAKVAGVTEVTIRNRYKELADAL 279 (285)
T ss_pred HHHHHHHHhCCeeeHHHHHHHHHHHhh
Confidence 778889999999999999998887654
No 17
>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=99.43 E-value=3e-13 Score=105.71 Aligned_cols=83 Identities=35% Similarity=0.561 Sum_probs=76.1
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHHH
Q 015387 191 DWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDME 270 (408)
Q Consensus 191 dWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE 270 (408)
+||.+++..++++++|.++|++++|||+....+.+...+++|++|++||||++|.. |...++..+++. |+.++|.++|
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 59999999999999999999999999999878888999999999999999999985 677888888766 7999999999
Q ss_pred HHHHH
Q 015387 271 KLLLN 275 (408)
Q Consensus 271 ~~IL~ 275 (408)
+.||+
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 99973
No 18
>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=99.28 E-value=1.9e-11 Score=117.92 Aligned_cols=143 Identities=27% Similarity=0.368 Sum_probs=115.2
Q ss_pred HHHHHHHc--CCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhc--cccCHHHHHH
Q 015387 193 LLEVHYKF--ELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISD--NAYTRKEVLD 268 (408)
Q Consensus 193 l~ev~~~~--~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~--~~yt~~eI~~ 268 (408)
+++.+.+| .+++.++.+|+.+|-||+-..++.......|.+||+|+|||++|. ..++.+|+.-.. ..-+.+.|+.
T Consensus 63 l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef-~ISieqFvkn~~~~~~k~~e~vLk 141 (325)
T KOG2496|consen 63 LVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEF-YISIEQFVKNMNGRKWKTHEIVLK 141 (325)
T ss_pred HHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhh-eecHHHHHhhccCcccccHHHHHh
Confidence 33444444 478899999999999999999999999999999999999999996 557788886543 3457899999
Q ss_pred HHHHHHHHcCCccccCcchhHHHHHHHHhcCc-------HH--HHHHHHHHHHHHhccccccCcCHHHHHHHHHHHH
Q 015387 269 MEKLLLNTLQFNMSVPTPYVFMRRFLKAAQSD-------KK--LELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTA 336 (408)
Q Consensus 269 mE~~IL~~L~f~l~~pTp~~FL~~fl~~~~~~-------~~--~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA 336 (408)
.|..+++.|+|++.+-+|+.-++-|+..++.- .. .......+++.++..-.++-|+||.||.|||+.|
T Consensus 142 ~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a 218 (325)
T KOG2496|consen 142 YEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHA 218 (325)
T ss_pred chHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHH
Confidence 99999999999999999999888887644321 11 1223356778888888888999999999999655
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=98.85 E-value=1.9e-08 Score=78.35 Aligned_cols=81 Identities=37% Similarity=0.555 Sum_probs=74.5
Q ss_pred hHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCC-CHHHHHHHHH
Q 015387 288 VFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNY-PEDQLLECSR 366 (408)
Q Consensus 288 ~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgy-s~~~L~~c~~ 366 (408)
+|+.++...++.+.++..+|.++++.++.++.+..++|+.+|+||+++|.+..+. ..|...+..++++ +.+++.++.+
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~~~i~~~~~ 79 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEI-PPWTKELVHYTGYFTEEEILRMEK 79 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcC-CCCchhHhHhhCCCCHHHHHHHHH
Confidence 4899999999999999999999999999999999999999999999999887654 5899999999999 9999999998
Q ss_pred HHH
Q 015387 367 LMV 369 (408)
Q Consensus 367 ~L~ 369 (408)
.|+
T Consensus 80 ~il 82 (83)
T smart00385 80 LLL 82 (83)
T ss_pred HHh
Confidence 875
No 20
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=98.77 E-value=5.2e-08 Score=76.51 Aligned_cols=85 Identities=34% Similarity=0.496 Sum_probs=78.7
Q ss_pred cCcchhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCC-CHHHH
Q 015387 283 VPTPYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNY-PEDQL 361 (408)
Q Consensus 283 ~pTp~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgy-s~~~L 361 (408)
.+++..|+.+++..++.+.....+|.++++.++....+..+.|+.+|+||+++|.+..+. ..|...+..++++ +.++|
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 578999999999999999999999999999999999999999999999999999876654 8999999999999 99999
Q ss_pred HHHHHHH
Q 015387 362 LECSRLM 368 (408)
Q Consensus 362 ~~c~~~L 368 (408)
..+.+.+
T Consensus 81 ~~~e~~i 87 (88)
T cd00043 81 LRMEKLL 87 (88)
T ss_pred HHHHHHh
Confidence 9988765
No 21
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.51 E-value=4.8e-08 Score=97.18 Aligned_cols=149 Identities=17% Similarity=0.274 Sum_probs=117.5
Q ss_pred ccCCCCCCCCCccc----------hhhhHHHHHHHHHHhHhhcCCCCCccccCC--CCCHHHHHHHHHHHHHHHHHcCCC
Q 015387 136 ILDIDGRDLKNPLA----------VVEYVDDIYAYYRKIEISSCVSPTYMDHQS--DINEKMRAILIDWLLEVHYKFELM 203 (408)
Q Consensus 136 ~~did~~d~~~p~~----------~~eY~~dI~~~l~~~E~~~~~~~~y~~~q~--~i~~~~R~~lidWl~ev~~~~~L~ 203 (408)
..|+|..-.+||++ +++|.-...+|.+-...+...+.+|-+.-+ .+|-..-+.|-.-|.+++...++.
T Consensus 320 ~~dydasllDdPq~~~gkhk~~l~F~symttvidyVrpsdlKkdmNe~FreKfP~IkLTLSKirSlKREMr~l~~d~~id 399 (497)
T KOG4164|consen 320 KCDYDASLLDDPQWPCGKHKRVLIFSSYMTTVIDYVRPSDLKKDMNETFREKFPHIKLTLSKIRSLKREMRELGEDCGID 399 (497)
T ss_pred ccccCcccccCcccccccccceeEeccccceeEEEechHHHHHHHhHHHHHhCCeeEEeHHHHHHHHHHHHHhhhccCcc
Confidence 34455544555554 777877777777776666555555544422 344443344666789999999999
Q ss_pred hhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhcc--ccCHHHHHHHHHHHHHHcCCcc
Q 015387 204 DETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDN--AYTRKEVLDMEKLLLNTLQFNM 281 (408)
Q Consensus 204 ~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~--~yt~~eI~~mE~~IL~~L~f~l 281 (408)
.-|+.+|..||.+..-+..+.+.+-.|+|.|||++|+|+.+..--.++.++.-... .+.+.|++..|.-||-+|+|.|
T Consensus 400 ~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia~Ef~VlvaLefaL 479 (497)
T KOG4164|consen 400 VVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIAFEFPVLVALEFAL 479 (497)
T ss_pred ceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhhhhhhHHHhhhhhc
Confidence 99999999999999999999999999999999999999999888888888876555 5679999999999999999999
Q ss_pred ccC
Q 015387 282 SVP 284 (408)
Q Consensus 282 ~~p 284 (408)
+.|
T Consensus 480 ~~~ 482 (497)
T KOG4164|consen 480 HLP 482 (497)
T ss_pred cCC
Confidence 875
No 22
>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=98.47 E-value=8.7e-07 Score=79.01 Aligned_cols=91 Identities=19% Similarity=0.309 Sum_probs=72.3
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHhhhh---ccc--ccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCH
Q 015387 189 LIDWLLEVHYKFELMDETLFLTINIVDKFLE---RQV--VVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTR 263 (408)
Q Consensus 189 lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs---~~~--v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~ 263 (408)
+.+|+.++....+++++++.+|..|+||+.. ... +...+.+-+-++|+.+|+|+-+....+-+.+..+++ ++.
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~g--is~ 131 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG--ISL 131 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT--S-H
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcC--CCH
Confidence 7889999999999999999999999999998 222 666778889999999999997776777788888875 799
Q ss_pred HHHHHHHHHHHHHcCCcc
Q 015387 264 KEVLDMEKLLLNTLQFNM 281 (408)
Q Consensus 264 ~eI~~mE~~IL~~L~f~l 281 (408)
+++-+||+..|..|+|+|
T Consensus 132 ~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 132 KELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHHHCCCcC
Confidence 999999999999999986
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=98.10 E-value=2.3e-05 Score=81.51 Aligned_cols=173 Identities=13% Similarity=0.111 Sum_probs=135.6
Q ss_pred HHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHHHH
Q 015387 192 WLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDMEK 271 (408)
Q Consensus 192 Wl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE~ 271 (408)
-|.+++..+++.. .+..|.++|--.++.+-.+....+.|.++||+|+|+.|-. .-.+-||..+. ..+.-++..+=+
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t-~hlliDfS~~L--qv~Vy~LG~~~l 148 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKT-DHLLIDFSSYL--QVSVYDLGSNFL 148 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCC-ceEEEEeccce--EEehhhhhHHHH
Confidence 4778999999999 9999999999999999999999999999999999996655 33333444333 356778888888
Q ss_pred HHHHHcCCc---cccCcchhHHHHHHHHhc---CcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCC
Q 015387 272 LLLNTLQFN---MSVPTPYVFMRRFLKAAQ---SDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQ 345 (408)
Q Consensus 272 ~IL~~L~f~---l~~pTp~~FL~~fl~~~~---~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~ 345 (408)
.+-..|.-+ +....|.-|+.+|...+. .++++...|..|+.....|.-..+.+|+-|+.|||++|.++. +...
T Consensus 149 ~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h-~~~r 227 (521)
T KOG1598|consen 149 EVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMH-GFRR 227 (521)
T ss_pred HHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHc-Cccc
Confidence 999999888 677889999999988764 335677788889988888999999999999999999998754 3333
Q ss_pred chhhhhhhcCCCHHHHHHHHHHHH
Q 015387 346 WTKTSEWLTNYPEDQLLECSRLMV 369 (408)
Q Consensus 346 w~~~l~~~tgys~~~L~~c~~~L~ 369 (408)
-...+.....+++..|..-+..+.
T Consensus 228 si~dIv~vvhV~e~Tl~kRl~Ef~ 251 (521)
T KOG1598|consen 228 TIGDIAKVVHVCESTLSKRLKEFS 251 (521)
T ss_pred cHHHHHHHHHHhHHHHHHHHHHHh
Confidence 334455555666666666555543
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=97.41 E-value=0.0014 Score=50.74 Aligned_cols=71 Identities=17% Similarity=0.021 Sum_probs=57.2
Q ss_pred HHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCCCHHHH
Q 015387 290 MRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNYPEDQL 361 (408)
Q Consensus 290 L~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgys~~~L 361 (408)
+.+|+..++.+..+...|..+...+......-+.+|..+||||||+|.+.. +.+.....+...+++++.+|
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~-~~~~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLN-GVPRTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHT-TSSSSHHHHHHHCTSSHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHc-CCCcCHHHHHHHhCCCCCcC
Confidence 578999999999999999999999887777778999999999999998654 55666677788888888765
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=97.27 E-value=0.00094 Score=51.78 Aligned_cols=65 Identities=15% Similarity=0.233 Sum_probs=54.1
Q ss_pred HHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhc
Q 015387 193 LLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISD 258 (408)
Q Consensus 193 l~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~ 258 (408)
|-+++..++|+..+.-.|..++++.....-........++++|+++||+.+.. +.+++++..+++
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 45789999999999999999999999988888899999999999999997654 778888876654
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=96.41 E-value=0.019 Score=57.27 Aligned_cols=89 Identities=18% Similarity=0.150 Sum_probs=77.9
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHH
Q 015387 190 IDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDM 269 (408)
Q Consensus 190 idWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~m 269 (408)
.++|..++..|+|+..+...|..++.+..........+..-+++||+++||+.... +.+.+++..+++ .+...|.+.
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~-~~t~keIa~v~~--Vs~~tI~~~ 296 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGE-RRTQREVAEVAG--VTEVTVRNR 296 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCC-CCCHHHHHHHcC--CCHHHHHHH
Confidence 58999999999999999999999999988877778899999999999999998764 578889887764 678999999
Q ss_pred HHHHHHHcCCcc
Q 015387 270 EKLLLNTLQFNM 281 (408)
Q Consensus 270 E~~IL~~L~f~l 281 (408)
-+.|++.|+..+
T Consensus 297 ykel~~~l~~~~ 308 (310)
T PRK00423 297 YKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHhCccc
Confidence 999999887654
No 27
>KOG1674 consensus Cyclin [General function prediction only]
Probab=94.99 E-value=0.081 Score=50.25 Aligned_cols=94 Identities=16% Similarity=0.226 Sum_probs=72.1
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHhhhhccc---------ccccc-hhhhHhHHHHhhhhccccCCcchhhHHhhhc
Q 015387 189 LIDWLLEVHYKFELMDETLFLTINIVDKFLERQV---------VVRKK-LQLVGVTAMLLACKYEEVSVPIVDDFILISD 258 (408)
Q Consensus 189 lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~---------v~~~~-lqLva~acL~IAsK~EE~~~p~i~dlv~is~ 258 (408)
+-+++.++....+.+++++-+|..|||||..+.. +.--+ ..-.-++|+.+|+|+.+...-.-.-+..+
T Consensus 78 i~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~v-- 155 (218)
T KOG1674|consen 78 IRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKV-- 155 (218)
T ss_pred hHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHh--
Confidence 4567888999999999999999999999998622 22223 44467899999999986533332333333
Q ss_pred cccCHHHHHHHHHHHHHHcCCccccC
Q 015387 259 NAYTRKEVLDMEKLLLNTLQFNMSVP 284 (408)
Q Consensus 259 ~~yt~~eI~~mE~~IL~~L~f~l~~p 284 (408)
+..+.+++-.+|...|..++|++.++
T Consensus 156 ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 35689999999999999999999886
No 28
>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=93.71 E-value=0.71 Score=38.86 Aligned_cols=85 Identities=12% Similarity=0.135 Sum_probs=62.4
Q ss_pred hhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhc--CCCHHHHHHH
Q 015387 287 YVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLT--NYPEDQLLEC 364 (408)
Q Consensus 287 ~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~t--gys~~~L~~c 364 (408)
.+|+.......+.+......|..+++.-+.........+..+|+||+++|.+.......+...+...+ .++.++|...
T Consensus 35 ~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~ 114 (127)
T PF00134_consen 35 IDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEM 114 (127)
T ss_dssp HHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHH
T ss_pred HHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHH
Confidence 45666666777888888888999999888877788899999999999999987766556666555555 4677777776
Q ss_pred HHHHHHH
Q 015387 365 SRLMVTL 371 (408)
Q Consensus 365 ~~~L~~l 371 (408)
=..++..
T Consensus 115 E~~iL~~ 121 (127)
T PF00134_consen 115 EREILSA 121 (127)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 6666554
No 29
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=92.51 E-value=0.26 Score=48.70 Aligned_cols=90 Identities=19% Similarity=0.206 Sum_probs=63.1
Q ss_pred HHHHcCCChhHHHHHHHHHHhhhhccccc--ccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHHHHHH
Q 015387 196 VHYKFELMDETLFLTINIVDKFLERQVVV--RKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDMEKLL 273 (408)
Q Consensus 196 v~~~~~L~~eTl~lAV~l~DRfLs~~~v~--~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~mE~~I 273 (408)
.+....|..+.--....|++|.+.-..+. +.+...+...++++|+|+-....-.--|.+.++. ..|.+|+-.||+.+
T Consensus 200 l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlK-d~tveDmNe~ERqf 278 (343)
T KOG1675|consen 200 LFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILK-DQSVDDMNALERQF 278 (343)
T ss_pred HhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHh-hccHhhHHHHHHHH
Confidence 33334444444444557888877655544 6777777778899999986653333345555553 35899999999999
Q ss_pred HHHcCCccccCcc
Q 015387 274 LNTLQFNMSVPTP 286 (408)
Q Consensus 274 L~~L~f~l~~pTp 286 (408)
|..|+|++++|-.
T Consensus 279 LelLqfNinvp~s 291 (343)
T KOG1675|consen 279 LELLQFNINVPSS 291 (343)
T ss_pred HHHHhhccCccHH
Confidence 9999999999854
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=91.34 E-value=0.64 Score=38.37 Aligned_cols=87 Identities=16% Similarity=0.168 Sum_probs=59.3
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHHHHHHH
Q 015387 190 IDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRKEVLDM 269 (408)
Q Consensus 190 idWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~eI~~m 269 (408)
.+||.......+...++..+|-.+++..+....+-...--.+|++|+++|.+.-....+.-..+..++ .++.+++..+
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 45666664434445678888888888877777777778889999999999998553233334454555 4588888887
Q ss_pred HHHHHHHcC
Q 015387 270 EKLLLNTLQ 278 (408)
Q Consensus 270 E~~IL~~L~ 278 (408)
=..|.+.+.
T Consensus 82 ~~~i~~~~~ 90 (118)
T PF02984_consen 82 IELIQELLS 90 (118)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 777766653
No 31
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=90.67 E-value=2.5 Score=41.80 Aligned_cols=87 Identities=16% Similarity=0.010 Sum_probs=70.7
Q ss_pred cchhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCCCHHHHHHH
Q 015387 285 TPYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNYPEDQLLEC 364 (408)
Q Consensus 285 Tp~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgys~~~L~~c 364 (408)
+....+.++...++....+...|..+.-.++..-..-..+...++|||+|.|.+. .+.+.....+...++++..++..+
T Consensus 99 ~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~-~~~prtl~eIa~a~~V~~kei~rt 177 (285)
T COG1405 99 TALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRI-NGVPRTLDEIAKALGVSKKEIGRT 177 (285)
T ss_pred HHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHH-cCCCccHHHHHHHHCCCHHHHHHH
Confidence 5677888999999999999888888877776665566788999999999999765 455555667778889999999999
Q ss_pred HHHHHHHH
Q 015387 365 SRLMVTLH 372 (408)
Q Consensus 365 ~~~L~~l~ 372 (408)
++.+....
T Consensus 178 yr~~~~~L 185 (285)
T COG1405 178 YRLLVREL 185 (285)
T ss_pred HHHHHHhc
Confidence 99877654
No 32
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=87.12 E-value=0.99 Score=45.36 Aligned_cols=94 Identities=18% Similarity=0.168 Sum_probs=70.5
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhH--HhhhccccCHH
Q 015387 187 AILIDWLLEVHYKFELMDETLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDF--ILISDNAYTRK 264 (408)
Q Consensus 187 ~~lidWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl--v~is~~~yt~~ 264 (408)
.-|++|+..+-...+.......+|-+++...+...-+-....+-||++||+||+|+-....|...+- -...+...|.+
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e 232 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNE 232 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHH
Confidence 4466666666666555555777888888887777778888899999999999999977766665554 44455568899
Q ss_pred HHHHHHHHHHHHcCCc
Q 015387 265 EVLDMEKLLLNTLQFN 280 (408)
Q Consensus 265 eI~~mE~~IL~~L~f~ 280 (408)
++..+-..+|....-+
T Consensus 233 ~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 233 LLDDICHEFLDLYEQT 248 (323)
T ss_pred HHHHHHHHHHHHHhhc
Confidence 9998888888776443
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=86.63 E-value=8.1 Score=34.20 Aligned_cols=89 Identities=18% Similarity=0.056 Sum_probs=62.1
Q ss_pred CcchhHHHHHHHHhcCcHHHHHHHHHHHHHHhc---cc--cccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCCCH
Q 015387 284 PTPYVFMRRFLKAAQSDKKLELLAFFIVELCLV---EY--KMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNYPE 358 (408)
Q Consensus 284 pTp~~FL~~fl~~~~~~~~~~~la~~llelsl~---d~--~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgys~ 358 (408)
.+..+|+.++.+..+.+.....+|..+++.... .. ..-.....-+-.+|+.+|.+.+++...|+......+|++.
T Consensus 52 i~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~ 131 (149)
T PF08613_consen 52 ISIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISL 131 (149)
T ss_dssp S-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-H
T ss_pred CcHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCH
Confidence 445689999999988888888888777776655 22 2235667788899999999999988888888889999999
Q ss_pred HHHHHHHHHHHHHH
Q 015387 359 DQLLECSRLMVTLH 372 (408)
Q Consensus 359 ~~L~~c~~~L~~l~ 372 (408)
.++...=..++.++
T Consensus 132 ~eln~lE~~fL~~l 145 (149)
T PF08613_consen 132 KELNELEREFLKLL 145 (149)
T ss_dssp HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHC
Confidence 99987766666543
No 34
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=83.64 E-value=8.9 Score=37.96 Aligned_cols=86 Identities=17% Similarity=0.127 Sum_probs=62.8
Q ss_pred chhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccc-cCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhcCCCHHHHHHH
Q 015387 286 PYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKM-LKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLTNYPEDQLLEC 364 (408)
Q Consensus 286 p~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~-l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~tgys~~~L~~c 364 (408)
++.-+..++.+++....+...|.++....- +... -+.+--.|+|||||.|++.. +.+...+.+..+++++..+|-.|
T Consensus 107 a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~-~~k~lrGks~eai~AAclyiACRq~-~~pRT~kEI~~~anv~kKEIgr~ 184 (308)
T KOG1597|consen 107 AFKEITAMCDRLSLPATIKDRANEIFKLVE-DSKLLRGKSVEALAAACLYIACRQE-DVPRTFKEISAVANVSKKEIGRC 184 (308)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHH-HhhhhcCccHHHHHHHHHHHHHHhc-CCCchHHHHHHHHcCCHHHHHHH
Confidence 344556667777777777777777766654 4444 46778899999999998643 44555556677889999999999
Q ss_pred HHHHHHHHh
Q 015387 365 SRLMVTLHE 373 (408)
Q Consensus 365 ~~~L~~l~~ 373 (408)
++.+.+-++
T Consensus 185 ~K~i~~~l~ 193 (308)
T KOG1597|consen 185 VKLIGEALE 193 (308)
T ss_pred HHHHHHHHh
Confidence 999887654
No 35
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=70.60 E-value=25 Score=35.16 Aligned_cols=52 Identities=10% Similarity=0.149 Sum_probs=38.3
Q ss_pred HHHHHHHHhc--CcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHh
Q 015387 289 FMRRFLKAAQ--SDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSL 340 (408)
Q Consensus 289 FL~~fl~~~~--~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l 340 (408)
+|..++..+. ..+.+...|..+...-++...+..|.|..||++|+|+|.+.-
T Consensus 62 ~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvE 115 (305)
T TIGR00569 62 RLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVE 115 (305)
T ss_pred HHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcc
Confidence 4445555566 666666777666666666777788999999999999998643
No 36
>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=66.03 E-value=17 Score=32.01 Aligned_cols=66 Identities=14% Similarity=0.146 Sum_probs=51.0
Q ss_pred HHHHHHHHcCCChhHHHHHHHHHHhhhhccc--ccccchhhhHhHHHHhhhhccccCCcchhhHHhhhc
Q 015387 192 WLLEVHYKFELMDETLFLTINIVDKFLERQV--VVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISD 258 (408)
Q Consensus 192 Wl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~--v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~ 258 (408)
-|.++|.+++++++.....-.+|+..+.... +...++--+.++|+++-||+.. ...+.++++....
T Consensus 17 Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~-~~~sF~~Ii~~Yr 84 (135)
T PF01857_consen 17 RLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK-EELSFKDIIKAYR 84 (135)
T ss_dssp HHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT--S--HHHHHHHHT
T ss_pred HHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc-CCCCHHHHHHHHH
Confidence 3678999999999988888899999887555 6777899999999999999876 4667777775443
No 37
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=57.83 E-value=42 Score=33.89 Aligned_cols=78 Identities=19% Similarity=0.309 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHcCCChh--HHHHHHHHHHhhhhcccccccchhhhHhHHHHhhhhccccCCcchhhHHhhhccccCHH
Q 015387 187 AILIDWLLEVHYKFELMDE--TLFLTINIVDKFLERQVVVRKKLQLVGVTAMLLACKYEEVSVPIVDDFILISDNAYTRK 264 (408)
Q Consensus 187 ~~lidWl~ev~~~~~L~~e--Tl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dlv~is~~~yt~~ 264 (408)
..+|.|+.. +++++. .+..|-+|+.--+-...+.+..-..||++|+++|++.+|+-.|....+..+. .+++.
T Consensus 143 klii~YLqt----L~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~F--d~~k~ 216 (367)
T KOG0835|consen 143 KLIIMYLQT----LQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAF--DTTKR 216 (367)
T ss_pred HHHHHHHHH----hcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHc--CCcHH
Confidence 445555544 444444 3667788888777777788888999999999999999997555555554443 34566
Q ss_pred HHHHHH
Q 015387 265 EVLDME 270 (408)
Q Consensus 265 eI~~mE 270 (408)
+|-..=
T Consensus 217 eid~ic 222 (367)
T KOG0835|consen 217 EIDEIC 222 (367)
T ss_pred HHHHHH
Confidence 665443
No 38
>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=46.64 E-value=1.5e+02 Score=23.85 Aligned_cols=86 Identities=16% Similarity=0.184 Sum_probs=60.6
Q ss_pred chhHHHHHHHHhcCc----HHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhc-cCCCchhhhhhh---cCCC
Q 015387 286 PYVFMRRFLKAAQSD----KKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLY-QLKQWTKTSEWL---TNYP 357 (408)
Q Consensus 286 p~~FL~~fl~~~~~~----~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~-~~~~w~~~l~~~---tgys 357 (408)
+-+|+-..+.++... .++..++.--+..++......-.+|..|.|+.++.....-+ ....|+..++.. .+++
T Consensus 4 ~tdflip~c~alkipe~~wpql~e~~s~tickaliqpniall~p~licaggllttiet~ntn~~~wt~yledl~~ilnfs 83 (106)
T PF09241_consen 4 STDFLIPVCHALKIPEDFWPQLFEATSITICKALIQPNIALLPPCLICAGGLLTTIETDNTNCQPWTCYLEDLSCILNFS 83 (106)
T ss_dssp GGGGHHHHHHHTT--GGGHHHHHHHHHHHHHHHTTSGGGGGS-HHHHHHHHHHHHHHTS-TSSSTCHHHHHHHHHHHTCH
T ss_pred hhhhHHHhhhhccCcHHHhHHHHHHHHHHHHHHHcCCCccccCcceeecccceEEEeccCCCCcchhhhHHhhHHHhhcc
Confidence 457888888887654 45666766666778888888899999999999998865433 467898877654 5777
Q ss_pred HHHHHHHHHHHHHH
Q 015387 358 EDQLLECSRLMVTL 371 (408)
Q Consensus 358 ~~~L~~c~~~L~~l 371 (408)
-..++..-..+.+.
T Consensus 84 tntirt~kdqv~ea 97 (106)
T PF09241_consen 84 TNTIRTVKDQVSEA 97 (106)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred cchhhhHHHHHHHH
Confidence 77777665555443
No 39
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=32.76 E-value=92 Score=30.08 Aligned_cols=51 Identities=14% Similarity=0.207 Sum_probs=29.7
Q ss_pred HHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHHHHHH
Q 015387 289 FMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCS 339 (408)
Q Consensus 289 FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~ 339 (408)
++..+...+...+++-..|.-++..-+.-..+-.+.|-.+|..|+|||++.
T Consensus 47 ~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKv 97 (264)
T KOG0794|consen 47 VIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKV 97 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhh
Confidence 333344444444444444433333333334466788999999999999754
No 40
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=32.72 E-value=2.2e+02 Score=22.41 Aligned_cols=52 Identities=13% Similarity=0.190 Sum_probs=33.2
Q ss_pred HHHhHhhcCCCCCccccC-CCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhh
Q 015387 161 YRKIEISSCVSPTYMDHQ-SDINEKMRAILIDWLLEVHYKFELMDETLFLTINIVDKF 217 (408)
Q Consensus 161 l~~~E~~~~~~~~y~~~q-~~i~~~~R~~lidWl~ev~~~~~L~~eTl~lAV~l~DRf 217 (408)
.+.+|.++. ...-... ..-...-|..+|++|..++..-+++ ...|+.++|.+
T Consensus 28 I~~le~~yG--~~WR~~~~~~~~y~rRK~Ii~~I~~l~~~~g~~---~~~ai~~le~~ 80 (81)
T PF12550_consen 28 IRSLEKKYG--SKWRRDSKERRTYSRRKVIIDFIERLANERGIS---EEEAIEILEEI 80 (81)
T ss_pred HHHHHHHhC--hhhccCcccchhHHHHHHHHHHHHHHHHHcCCC---HHHHHHHHHhc
Confidence 455666653 2222121 1234567899999999998887774 55677887765
No 41
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=30.02 E-value=1.4e+02 Score=31.40 Aligned_cols=101 Identities=16% Similarity=0.113 Sum_probs=57.2
Q ss_pred HHHHHHHHHhccccccCcCHHHHHHHHHHHHHHHhccCCCchhhhhhhc--CCCHHHHHHHHHHHHHHHhh-cCCCCchh
Q 015387 306 LAFFIVELCLVEYKMLKFPPSLLAAAAIYTAQCSLYQLKQWTKTSEWLT--NYPEDQLLECSRLMVTLHEK-AATGKLTG 382 (408)
Q Consensus 306 la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~w~~~l~~~t--gys~~~L~~c~~~L~~l~~~-~~~~~~~~ 382 (408)
++-.|++.-+.-.....-+--.+|++|+++|.+.-.-..+-...+...+ .++.+++...-+.|+.-... -+......
T Consensus 236 lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~s 315 (440)
T COG5024 236 LAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMS 315 (440)
T ss_pred HHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHH
Confidence 3333444433333332333446788899999754322222233344444 68999999988888876542 23333344
Q ss_pred hhcccCCccccccccCCcchhhcc
Q 015387 383 VYRKFNTSKFGHAAKAEPALFLLN 406 (408)
Q Consensus 383 i~~KYss~~f~~vs~~~p~~~l~~ 406 (408)
.-++.+......+-..+|++|+.+
T Consensus 316 FLRriSka~dyd~~srt~~k~~~e 339 (440)
T COG5024 316 FLRRISKASDYDIFSRTPAKFSSE 339 (440)
T ss_pred HHHHHHhhcccchhhhhhHhhhCC
Confidence 455666655566666777777765
No 42
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=26.36 E-value=1.9e+02 Score=29.43 Aligned_cols=55 Identities=20% Similarity=0.105 Sum_probs=40.8
Q ss_pred chhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcC---HHHHHHHHHHHHHHHh
Q 015387 286 PYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFP---PSLLAAAAIYTAQCSL 340 (408)
Q Consensus 286 p~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~---PS~IAaAaI~lA~~~l 340 (408)
+.++|-..++..+.+...-.+|-.+++.-+.-+.+-+.+ --.||+||+.+|.++-
T Consensus 81 A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKme 138 (335)
T KOG0656|consen 81 ALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKME 138 (335)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhc
Confidence 345566666666667777777877788877777777777 6788999999998653
No 43
>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=25.34 E-value=67 Score=32.00 Aligned_cols=78 Identities=8% Similarity=0.011 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHHHHcCCcccc-----Cc--chhHHHHHHHHhcCcHHHHHHHHHHHHHHhccccccCcCHHHHHHHHHHH
Q 015387 263 RKEVLDMEKLLLNTLQFNMSV-----PT--PYVFMRRFLKAAQSDKKLELLAFFIVELCLVEYKMLKFPPSLLAAAAIYT 335 (408)
Q Consensus 263 ~~eI~~mE~~IL~~L~f~l~~-----pT--p~~FL~~fl~~~~~~~~~~~la~~llelsl~d~~~l~~~PS~IAaAaI~l 335 (408)
.+..-..+...+..+.|.+.. -+ -..++..++..+.........|..+...-..-.....+.+-.||++||+|
T Consensus 18 ~~~~q~~~e~~l~~~~p~l~~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~L 97 (297)
T COG5333 18 FDSSQNAIELDLLVLEPELTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYL 97 (297)
T ss_pred hhHHHHHHHhhHhcCCcccchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheee
Confidence 334444445555666662111 11 22567777788888888888887777776666667789999999999999
Q ss_pred HHHHh
Q 015387 336 AQCSL 340 (408)
Q Consensus 336 A~~~l 340 (408)
|.+.-
T Consensus 98 A~K~e 102 (297)
T COG5333 98 ACKVE 102 (297)
T ss_pred eeecc
Confidence 97543
Done!