Query 013766
Match_columns 437
No_of_seqs 286 out of 1861
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 07:11:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013766.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013766hhsearch_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 1.2E-46 2.7E-51 387.2 23.7 271 163-434 108-385 (391)
2 COG5024 Cyclin [Cell division 100.0 7E-44 1.5E-48 364.7 16.7 262 163-426 162-424 (440)
3 KOG0654 G2/Mitotic-specific cy 100.0 7.6E-40 1.6E-44 327.1 12.7 263 164-429 86-351 (359)
4 KOG0655 G1/S-specific cyclin E 100.0 3.3E-36 7.2E-41 291.5 18.2 211 182-401 113-336 (408)
5 KOG0656 G1/S-specific cyclin D 100.0 1.6E-32 3.4E-37 272.4 20.8 216 179-394 42-268 (335)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 2.6E-25 5.5E-30 192.9 11.8 127 184-310 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 5.4E-22 1.2E-26 197.3 19.3 157 212-369 54-221 (305)
8 KOG0834 CDK9 kinase-activating 99.9 2.6E-21 5.6E-26 192.5 14.3 198 206-404 31-249 (323)
9 PF02984 Cyclin_C: Cyclin, C-t 99.9 3.7E-21 7.9E-26 164.2 11.0 118 312-429 1-118 (118)
10 KOG0835 Cyclin L [General func 99.8 5.3E-19 1.1E-23 172.3 17.9 190 208-402 17-231 (367)
11 KOG0794 CDK8 kinase-activating 99.8 3.7E-18 8.1E-23 159.4 12.7 189 214-404 41-242 (264)
12 COG5333 CCL1 Cdk activating ki 99.7 2.8E-17 6E-22 160.4 14.5 163 212-376 43-213 (297)
13 PRK00423 tfb transcription ini 99.7 8.7E-16 1.9E-20 154.1 22.6 182 215-400 123-304 (310)
14 KOG1597 Transcription initiati 99.5 1.6E-12 3.5E-17 125.9 17.3 178 219-400 109-288 (308)
15 cd00043 CYCLIN Cyclin box fold 99.5 1.3E-13 2.9E-18 109.9 8.1 87 214-302 2-88 (88)
16 COG1405 SUA7 Transcription ini 99.4 9.5E-12 2.1E-16 122.9 20.0 183 213-399 96-278 (285)
17 smart00385 CYCLIN domain prese 99.4 5.7E-13 1.2E-17 105.2 7.2 83 219-303 1-83 (83)
18 KOG2496 Cdk activating kinase 99.3 6.2E-12 1.3E-16 122.3 10.5 135 229-364 73-218 (325)
19 smart00385 CYCLIN domain prese 98.7 7E-08 1.5E-12 75.9 9.4 81 316-397 1-82 (83)
20 cd00043 CYCLIN Cyclin box fold 98.7 1.5E-07 3.2E-12 74.7 10.0 85 311-396 2-87 (88)
21 KOG4164 Cyclin ik3-1/CABLES [C 98.6 2.7E-08 5.8E-13 99.8 2.3 150 163-312 319-482 (497)
22 PF08613 Cyclin: Cyclin; Inte 98.4 9.5E-07 2.1E-11 79.6 9.3 91 217-309 54-149 (149)
23 KOG1598 Transcription initiati 98.0 3.7E-05 8.1E-10 80.8 10.9 173 220-397 73-251 (521)
24 PF00382 TFIIB: Transcription 97.4 0.00062 1.4E-08 53.3 7.5 65 221-286 1-65 (71)
25 PF00382 TFIIB: Transcription 97.3 0.0024 5.2E-08 50.0 9.0 71 318-389 1-71 (71)
26 PRK00423 tfb transcription ini 96.7 0.0094 2E-07 60.1 9.7 89 218-309 220-308 (310)
27 KOG1674 Cyclin [General functi 95.3 0.053 1.1E-06 52.0 7.2 94 217-312 78-181 (218)
28 COG1405 SUA7 Transcription ini 92.8 0.46 1E-05 47.4 8.3 88 217-307 194-281 (285)
29 PF00134 Cyclin_N: Cyclin, N-t 92.3 1.4 3.1E-05 37.4 9.8 85 315-399 35-121 (127)
30 KOG1675 Predicted cyclin [Gene 91.3 0.29 6.3E-06 48.8 4.7 85 229-314 205-291 (343)
31 PF02984 Cyclin_C: Cyclin, C-t 90.5 0.76 1.7E-05 38.4 6.1 87 218-306 4-90 (118)
32 PF08613 Cyclin: Cyclin; Inte 85.4 11 0.00024 33.6 10.7 90 310-399 50-144 (149)
33 KOG0834 CDK9 kinase-activating 85.0 1.2 2.6E-05 45.3 4.6 93 215-307 153-247 (323)
34 KOG1597 Transcription initiati 84.5 9.7 0.00021 38.0 10.4 85 315-401 108-193 (308)
35 PF01857 RB_B: Retinoblastoma- 70.6 12 0.00025 33.3 5.9 65 219-284 16-82 (135)
36 TIGR00569 ccl1 cyclin ccl1. Un 67.8 31 0.00066 34.9 8.9 51 317-367 62-114 (305)
37 KOG0835 Cyclin L [General func 65.0 22 0.00048 36.1 7.1 68 228-297 152-221 (367)
38 PF09241 Herp-Cyclin: Herpesvi 54.0 1.2E+02 0.0026 24.7 9.4 85 314-398 4-96 (106)
39 COG5024 Cyclin [Cell division 24.1 1.9E+02 0.0041 30.9 6.4 85 352-436 254-341 (440)
40 KOG0794 CDK8 kinase-activating 23.7 1.7E+02 0.0036 28.7 5.3 25 343-367 73-97 (264)
41 KOG1598 Transcription initiati 22.8 1.2E+02 0.0026 32.9 4.6 52 232-284 184-235 (521)
42 PF12550 GCR1_C: Transcription 22.5 3.6E+02 0.0077 21.4 6.4 33 210-245 48-80 (81)
43 KOG0656 G1/S-specific cyclin D 20.9 3E+02 0.0065 28.3 6.8 56 314-369 81-139 (335)
44 PF08427 DUF1741: Domain of un 20.6 7.9E+02 0.017 23.9 11.3 92 229-335 28-132 (237)
No 1
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.2e-46 Score=387.15 Aligned_cols=271 Identities=48% Similarity=0.757 Sum_probs=247.9
Q ss_pred CCCCCCCCCCCCccchhhhHHHHHHHHHHhhhcCCCCCCccccCCCCCHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHH
Q 013766 163 PVMDIDYEEKKNPQAVVEYIDDIYNFYKKAESSGYVPPNYMAQQFDINERMRGILIDWLIEVHYKFELMEETLYLTVNLI 242 (437)
Q Consensus 163 ~~~did~~~~~~p~~~~eY~~dI~~~l~~~E~~~~~~~~yl~~q~~i~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~ 242 (437)
.+.|+|..+..+|+++.+|+++||.||+..|.. +.+..|+..|.+++.+||.+++|||++||.+|+|.+||+|+||+|+
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 689999999999999999999999999999952 3445566789999999999999999999999999999999999999
Q ss_pred HHhhccCcccccchhhhHhhHHH-hhhhccccCCcchhHHHhhhhcccCHHHHHHHHHHHHHHcCCccccCChHHHHHHH
Q 013766 243 DRFLTVQPVVRKKLQLVGVTAML-LACKYEEVSVPVVEDLILISDKAYSRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRF 321 (437)
Q Consensus 243 DRfLs~~~v~~~~lqLva~acL~-IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~f 321 (437)
||||++..+.+.++||+|++||| ||||+||..+|.++|++.++++.||+++|++||+.||.+|+|+++.|+|+.||++|
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 99999999999999999999966 99999999999999999999999999999999999999999999999999999999
Q ss_pred HHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCCCHHHHHHHHHHHHHHHH
Q 013766 322 LKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSYSEEQLLECSRLMVIFHQ 401 (437)
Q Consensus 322 l~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgys~~~l~ec~~~l~~l~~ 401 (437)
+++...+.+.+.++.+++|++++|+.++.++||.+|+|+.++++........|...+.+++||+..++.+|.+.+..++.
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 99999999999999999999999999999999999999999999877655579999999999999999999999998665
Q ss_pred hcC-CCCcch-hhcccCCcccCccc----cCCCchhhhc
Q 013766 402 KAG-TGKLTG-VHRKYSTSKFGYAA----KTRLPNFLLG 434 (437)
Q Consensus 402 ~~~-~~~l~~-i~~KYss~kf~~va----~~~~~~~l~~ 434 (437)
... .+...+ +++||++++|+.++ ..+.+.....
T Consensus 347 ~~~~~~~~~~~~~~ky~~~~~~~~~~~~~~~~~~~~~~~ 385 (391)
T KOG0653|consen 347 SSLQNPSLRASVLNKYNSSKFLPASPHVWILEKITSSAP 385 (391)
T ss_pred HhcccchhHHHHHHHhcccccchhhhhcceecccccccc
Confidence 443 345565 99999999999999 4555444433
No 2
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=7e-44 Score=364.69 Aligned_cols=262 Identities=36% Similarity=0.603 Sum_probs=250.9
Q ss_pred CCCCCCCCCCCCccchhhhHHHHHHHHHHhhhcCCCCCCccccCCCCCHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHH
Q 013766 163 PVMDIDYEEKKNPQAVVEYIDDIYNFYKKAESSGYVPPNYMAQQFDINERMRGILIDWLIEVHYKFELMEETLYLTVNLI 242 (437)
Q Consensus 163 ~~~did~~~~~~p~~~~eY~~dI~~~l~~~E~~~~~~~~yl~~q~~i~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~ 242 (437)
.+.|+|..+.++|.++.||..+|+.|+.++|....+.++||..|+.+.+.||.+|++||+++|.+|++.++|+++|++++
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 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHHHHHHHHHcCCccccCChHHHHHHHH
Q 013766 243 DRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRFL 322 (437)
Q Consensus 243 DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl 322 (437)
||||+...+.-.++||+|++|||||||+||.+.|.+.+|+.++++.|+.++|+++|+.||.+|+|+++.|+|+.||+++.
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 HHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcC-CCHHHHHHHHHHHHHHHH
Q 013766 323 KASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTS-YSEEQLLECSRLMVIFHQ 401 (437)
Q Consensus 323 ~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tg-ys~~~l~ec~~~l~~l~~ 401 (437)
++.+.+...+.++.|+++.+..++.|..++||.+||||.++|+..++..+ |...+..++| |+..++.+++..+.+.+.
T Consensus 322 ka~dyd~~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~-w~~~l~~ySg~y~~~~l~~~~~~~~~~l~ 400 (440)
T COG5024 322 KASDYDIFSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ-WDRTLIHYSGNYTNPDLKPLNESNKENLQ 400 (440)
T ss_pred hhcccchhhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccCC-CCccccccCCCCCchhHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999998887655 9999999999 999999999999999887
Q ss_pred hcCCCCcchhhcccCCcccCccccC
Q 013766 402 KAGTGKLTGVHRKYSTSKFGYAAKT 426 (437)
Q Consensus 402 ~~~~~~l~~i~~KYss~kf~~va~~ 426 (437)
.+..+ +.++.+||++.+|+.++.+
T Consensus 401 ~~~~~-~~~i~~Ky~~~~~~~~s~~ 424 (440)
T COG5024 401 NPSVH-HDAIFPKYPSPTFGKASSP 424 (440)
T ss_pred ccchh-hhhhhhccccccccccchH
Confidence 76544 4899999999999998864
No 3
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=7.6e-40 Score=327.06 Aligned_cols=263 Identities=41% Similarity=0.659 Sum_probs=252.0
Q ss_pred CCCCCCCCCCCccchhhhHHHHHHHHHHhhhc-CCCCCCcccc-CCCCCHHHHHHHHHHHHHHHHHcCCChhhHHHHHHH
Q 013766 164 VMDIDYEEKKNPQAVVEYIDDIYNFYKKAESS-GYVPPNYMAQ-QFDINERMRGILIDWLIEVHYKFELMEETLYLTVNL 241 (437)
Q Consensus 164 ~~did~~~~~~p~~~~eY~~dI~~~l~~~E~~-~~~~~~yl~~-q~~i~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l 241 (437)
++|||. +..+|++|..|..+|++|++..|.. ..+.++||+. |.++++.||.++++|++++++.+++..+++|+++++
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 367765 4679999999999999999999999 8889999998 999999999999999999999999999999999999
Q ss_pred HHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHHHHHHHHHcCCccccCChHHHHHHH
Q 013766 242 IDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRF 321 (437)
Q Consensus 242 ~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~f 321 (437)
+|||+....+.+.++|++|.+|++||+|+||..+|.+.+|++++++.|+..++..||..||+.|.|.+..||...|+++|
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 HHHcC-CcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCCCHHHHHHHHHHHHHHH
Q 013766 322 LKASQ-SDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSYSEEQLLECSRLMVIFH 400 (437)
Q Consensus 322 l~~~~-~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgys~~~l~ec~~~l~~l~ 400 (437)
+.... ...+++.++.|+.|+++.|+.|+.|.||.|||||+++|+.+++ ...|+..|+++|||+-+++..|+..|. ++
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 88877 6778899999999999999999999999999999999998887 789999999999999999999999999 88
Q ss_pred HhcCCCCcchhhcccCCcccCccccCCCc
Q 013766 401 QKAGTGKLTGVHRKYSTSKFGYAAKTRLP 429 (437)
Q Consensus 401 ~~~~~~~l~~i~~KYss~kf~~va~~~~~ 429 (437)
...+...+++|+.||+.++|+.||..++|
T Consensus 323 l~~~~~~l~air~ky~~~k~~~Va~~~~p 351 (359)
T KOG0654|consen 323 LNASGTDLPAIREKYKQSKFKEVALLPVP 351 (359)
T ss_pred cCCCCCchHHHHHHhhhhhhhhhhccCCC
Confidence 88888999999999999999999999887
No 4
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.3e-36 Score=291.50 Aligned_cols=211 Identities=28% Similarity=0.518 Sum_probs=191.1
Q ss_pred HHHHHHHHHHhhhcCCCCCCccccCCCCCHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCc-ccccchhhhH
Q 013766 182 IDDIYNFYKKAESSGYVPPNYMAQQFDINERMRGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQP-VVRKKLQLVG 260 (437)
Q Consensus 182 ~~dI~~~l~~~E~~~~~~~~yl~~q~~i~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~-v~~~~lqLva 260 (437)
..++|..|.++|..+.....++.+|+++.++||++|+|||++||+.++|.+||+|+|+-||||||.... +.+.+|||+|
T Consensus 113 ~~eVW~lM~kkee~~l~~~~~l~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIG 192 (408)
T KOG0655|consen 113 SKEVWLLMLKKEERYLRDKHFLEQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIG 192 (408)
T ss_pred HHHHHHHHHccchhhhhhhHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhh
Confidence 489999999999988888888999999999999999999999999999999999999999999997655 9999999999
Q ss_pred hhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCCcH-----------
Q 013766 261 VTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQSDK----------- 329 (437)
Q Consensus 261 ~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~----------- 329 (437)
+||||||+|+||+++|++.+|.++++++||.++|+.||..||++|+|+|++.|...||..|+.....+.
T Consensus 193 itsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~ 272 (408)
T KOG0655|consen 193 ITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQ 272 (408)
T ss_pred HHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccch
Confidence 999999999999999999999999999999999999999999999999999999999999998754322
Q ss_pred -HHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCCCHHHHHHHHHHHHHHHH
Q 013766 330 -KLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSYSEEQLLECSRLMVIFHQ 401 (437)
Q Consensus 330 -~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgys~~~l~ec~~~l~~l~~ 401 (437)
...++| .|+++|++|...+.|+-+.||||||+.-.. .......+|+.+.+|.+|+++|.-|.+
T Consensus 273 ~efiqia-qlLDlc~ldids~~fsYrilaAAal~h~~s--------~e~v~kaSG~~w~~ie~cv~wm~Pf~r 336 (408)
T KOG0655|consen 273 EEFIQIA-QLLDLCILDIDSLEFSYRILAAAALCHFTS--------IEVVKKASGLEWDSIEECVDWMVPFVR 336 (408)
T ss_pred HHHHHHH-HHHHHHHhccccccchHHHHHHHHHHHHhH--------HHHHHHcccccHHHHHHHHHHHHHHHH
Confidence 123344 589999999999999999999999986532 235677899999999999999997764
No 5
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.6e-32 Score=272.36 Aligned_cols=216 Identities=25% Similarity=0.450 Sum_probs=184.4
Q ss_pred hhhHHHHHHHHHHhhhcCCCCCCc-cccCCCCCHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccc--
Q 013766 179 VEYIDDIYNFYKKAESSGYVPPNY-MAQQFDINERMRGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKK-- 255 (437)
Q Consensus 179 ~eY~~dI~~~l~~~E~~~~~~~~y-l~~q~~i~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~-- 255 (437)
.-+.++++..|.+.|..+.+..+| +..|..+.+.||...++||.+||.++++.++|+++|+|||||||+.+.+++.+
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 456678888888999888887774 44588999999999999999999999999999999999999999999999999
Q ss_pred -hhhhHhhHHHhhhhccccCCcchhHHH-hhhhcccCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCCc----H
Q 013766 256 -LQLVGVTAMLLACKYEEVSVPVVEDLI-LISDKAYSRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQSD----K 329 (437)
Q Consensus 256 -lqLva~acL~IAsK~EE~~~p~i~dl~-~is~~~yt~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~----~ 329 (437)
+||+|+|||+||||+||..+|.+.|+. ..+++.|..+.|.+||..||.+|+|++..+||++|+++|++.++.. .
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 5578999999999999999999999999999999999999998763 2
Q ss_pred HHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCC--chhhhhhhcCCCHHHHHHHHH
Q 013766 330 KLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQ--WSKTSEWYTSYSEEQLLECSR 394 (437)
Q Consensus 330 ~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~--W~~~l~~~tgys~~~l~ec~~ 394 (437)
.+..-+..++-.+..|..|+.|+||+||+|++.++...+.+... ....+..+.+++.+.+..|+.
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 34444566666778999999999999999999888766654321 124455566777777777777
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=99.92 E-value=2.6e-25 Score=192.95 Aligned_cols=127 Identities=40% Similarity=0.725 Sum_probs=117.2
Q ss_pred HHHHHHHHhhhcCCCCCCccccCCCCCHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhH
Q 013766 184 DIYNFYKKAESSGYVPPNYMAQQFDINERMRGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTA 263 (437)
Q Consensus 184 dI~~~l~~~E~~~~~~~~yl~~q~~i~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~ac 263 (437)
||++++++.|.++.+++.|++.+++++..+|..+++||.+++..+++++.|+++|+.|||||+.+.++.+.+++++|+||
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 79999999999998899999988899999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhccccCCcchhHHHhhhhcccCHHHHHHHHHHHHHHcCCccc
Q 013766 264 MLLACKYEEVSVPVVEDLILISDKAYSRKEVLDMEKLMVNTLQFNMS 310 (437)
Q Consensus 264 L~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE~~IL~~L~f~L~ 310 (437)
++||||++|..+|.+.+++.++++.|+.++|.+||+.||++|+|+++
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=99.89 E-value=5.4e-22 Score=197.33 Aligned_cols=157 Identities=20% Similarity=0.305 Sum_probs=138.4
Q ss_pred HHHHHHHHHHHHHHHHcC--CChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcc-
Q 013766 212 RMRGILIDWLIEVHYKFE--LMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKA- 288 (437)
Q Consensus 212 ~~R~~LvdWl~ev~~~~~--L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~- 288 (437)
..|....++|.++|.+|+ |+++|+.+|+.||+||+..+++...+.+++++||||||||+||. +.++.+++......
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 567888899999999999 99999999999999999999999999999999999999999998 55788888655443
Q ss_pred -cCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcC-------CcHHHHHHHHHHHHHHHccccccCcCHHHHHHHH
Q 013766 289 -YSRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQ-------SDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAA 360 (437)
Q Consensus 289 -yt~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~-------~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAa 360 (437)
..+++|++||..||++|+|++.+++|+.+|..|+..+. ....+...++.+++.++....++.|+||.||+||
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 2345677888899988887779999999999999
Q ss_pred HHHHHHHhc
Q 013766 361 VYTAQCTLS 369 (437)
Q Consensus 361 I~lA~~~l~ 369 (437)
|++|...++
T Consensus 213 I~lA~~~~~ 221 (305)
T TIGR00569 213 ILHTASRAG 221 (305)
T ss_pred HHHHHHHhC
Confidence 999987765
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.86 E-value=2.6e-21 Score=192.51 Aligned_cols=198 Identities=19% Similarity=0.281 Sum_probs=169.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhh
Q 013766 206 QFDINERMRGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILIS 285 (437)
Q Consensus 206 q~~i~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is 285 (437)
...-....|.....||.+++.+++++..|+.+|+.||+||+..+++.....+.+|++|||||+|+||. +..++|++..+
T Consensus 31 ~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEet-p~kl~dIi~~s 109 (323)
T KOG0834|consen 31 DLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEET-PRKLEDIIKVS 109 (323)
T ss_pred chhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccC-cccHHHHHHHH
Confidence 33444577999999999999999999999999999999999999999999999999999999999997 88899998776
Q ss_pred hcccC-------------HHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCCcHH----HHHHHHHHHHHHHccccc
Q 013766 286 DKAYS-------------RKEVLDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQSDKK----LELLSFFLIELCLVEYEM 348 (437)
Q Consensus 286 ~~~yt-------------~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~----l~~la~~llelsl~d~~~ 348 (437)
...++ ++.|+..|+.||++|+|++++-+||.||..|++.+..+.. +..+|+.++..++....+
T Consensus 110 ~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~c 189 (323)
T KOG0834|consen 110 YRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLC 189 (323)
T ss_pred HHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeee
Confidence 65444 5789999999999999999999999999999999887664 889999999999999989
Q ss_pred cCcCHHHHHHHHHHHHHHHhcCC-CCchhh-hhhhcC--CCHHHHHHHHHHHHHHHHhcC
Q 013766 349 LKFPPSLLAAAAVYTAQCTLSGF-KQWSKT-SEWYTS--YSEEQLLECSRLMVIFHQKAG 404 (437)
Q Consensus 349 l~~~PS~IAaAaI~lA~~~l~~~-~~W~~~-l~~~tg--ys~~~l~ec~~~l~~l~~~~~ 404 (437)
++|+|..||+|||++|....+.. +.|... .-...+ ++.+++.+.+..++.++.+..
T Consensus 190 L~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~ 249 (323)
T KOG0834|consen 190 LQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQTP 249 (323)
T ss_pred EeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999998655421 111111 111244 899999999999999985443
No 9
>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=3.7e-21 Score=164.18 Aligned_cols=118 Identities=41% Similarity=0.716 Sum_probs=106.6
Q ss_pred CChHHHHHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCCCHHHHHH
Q 013766 312 PTPYVFMRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSYSEEQLLE 391 (437)
Q Consensus 312 pTp~~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgys~~~l~e 391 (437)
|||++||++|++..+.+..+..+++||++++++++.|+.|+||.||+||+++|+..++....|...+..++||+.++|.+
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 89999999998877778899999999999999999999999999999999999999886679999999999999999999
Q ss_pred HHHHHHHHHHhcCCCCcchhhcccCCcccCccccCCCc
Q 013766 392 CSRLMVIFHQKAGTGKLTGVHRKYSTSKFGYAAKTRLP 429 (437)
Q Consensus 392 c~~~l~~l~~~~~~~~l~~i~~KYss~kf~~va~~~~~ 429 (437)
|++.|..++.+....+++++++||++.+|+.||.++||
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 99999999998887888999999999999999999886
No 10
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.82 E-value=5.3e-19 Score=172.31 Aligned_cols=190 Identities=21% Similarity=0.290 Sum_probs=165.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhc
Q 013766 208 DINERMRGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDK 287 (437)
Q Consensus 208 ~i~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~ 287 (437)
+-....|..-+.||.+.+.-++|+..+.+++..||.||+...++.+.++..+++||++||||+||. |..+.+++.+...
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 445578999999999999999999999999999999999999999999999999999999999996 7777777654322
Q ss_pred --------cc-----------CHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCCcH--HHHHHHHHHHHHHHccc
Q 013766 288 --------AY-----------SRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQSDK--KLELLSFFLIELCLVEY 346 (437)
Q Consensus 288 --------~y-----------t~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~--~l~~la~~llelsl~d~ 346 (437)
.+ .+.+++++|+.||+.|+|++++.+|+-++-.|+..++... ++.+.+|.+++.++...
T Consensus 96 L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~ 175 (367)
T KOG0835|consen 96 LEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTD 175 (367)
T ss_pred HHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHHHHhhhhccccc
Confidence 01 1457899999999999999999999999999999987544 56889999999999999
Q ss_pred cccCcCHHHHHHHHHHHHHHHhc----CCCCchhhhhhhcCCCHHHHHHHHHHHHHHHHh
Q 013766 347 EMLKFPPSLLAAAAVYTAQCTLS----GFKQWSKTSEWYTSYSEEQLLECSRLMVIFHQK 402 (437)
Q Consensus 347 ~~l~~~PS~IAaAaI~lA~~~l~----~~~~W~~~l~~~tgys~~~l~ec~~~l~~l~~~ 402 (437)
-|..|+|+.|||||||+|...+. ..+.|.. +.+.++.+|.+.+..+..++..
T Consensus 176 v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~----~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 176 VFVRYSPESIACACIYLAARNLEIPLPFQPHWFK----AFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred eeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHH----HcCCcHHHHHHHHHHHHHHHHh
Confidence 99999999999999999998877 3345544 5789999999999998888876
No 11
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.77 E-value=3.7e-18 Score=159.37 Aligned_cols=189 Identities=20% Similarity=0.261 Sum_probs=155.7
Q ss_pred HHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhh-------
Q 013766 214 RGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISD------- 286 (437)
Q Consensus 214 R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~------- 286 (437)
+--.-+.|..+++++++.+.++.+|+.||.||+.+.++..-++.+++.||++||||+||.-+..++-++..+.
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 4445567889999999999999999999999999999999999999999999999999963233343332211
Q ss_pred -----cccCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCC-cHHHHHHHHHHHHHHHccccccCcCHHHHHHHH
Q 013766 287 -----KAYSRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQS-DKKLELLSFFLIELCLVEYEMLKFPPSLLAAAA 360 (437)
Q Consensus 287 -----~~yt~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~-~~~l~~la~~llelsl~d~~~l~~~PS~IAaAa 360 (437)
..|....|.+||..+|+.|++-|-+-+||.-|..++...+. +.++..+++.+++.++...-++.|+|..||.||
T Consensus 121 ~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAc 200 (264)
T KOG0794|consen 121 YWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALAC 200 (264)
T ss_pred cchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcchhhcceeeecCHHHHHHHH
Confidence 14567899999999999999999999999999999998876 677999999999999988888999999999999
Q ss_pred HHHHHHHhcCCCCchhhhhhhcCCCHHHHHHHHHHHHHHHHhcC
Q 013766 361 VYTAQCTLSGFKQWSKTSEWYTSYSEEQLLECSRLMVIFHQKAG 404 (437)
Q Consensus 361 I~lA~~~l~~~~~W~~~l~~~tgys~~~l~ec~~~l~~l~~~~~ 404 (437)
|++|.+..+. + -++..-.-...+.+.+.+|++.+++++..-.
T Consensus 201 l~Ia~~~~~k-~-~~~~w~~el~vD~ekV~~~v~~I~~lYe~wk 242 (264)
T KOG0794|consen 201 LYIACVIDEK-D-IPKAWFAELSVDMEKVKDIVQEILKLYELWK 242 (264)
T ss_pred HHHHHhhcCC-C-hHHHHHHHHhccHHHHHHHHHHHHHHHHHHh
Confidence 9999765443 2 1122223357789999999999999886443
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=99.74 E-value=2.8e-17 Score=160.36 Aligned_cols=163 Identities=23% Similarity=0.333 Sum_probs=139.5
Q ss_pred HHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhc----
Q 013766 212 RMRGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDK---- 287 (437)
Q Consensus 212 ~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~---- 287 (437)
..|..-.-|+..+|.+++++..++.+|+.+|+||+.+.++....++-++.||++||||+||. +..+.-.....++
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 45666778999999999999999999999999999999999999999999999999999995 2223222222221
Q ss_pred --ccCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCCcHH--HHHHHHHHHHHHHccccccCcCHHHHHHHHHHH
Q 013766 288 --AYSRKEVLDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQSDKK--LELLSFFLIELCLVEYEMLKFPPSLLAAAAVYT 363 (437)
Q Consensus 288 --~yt~~eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~--l~~la~~llelsl~d~~~l~~~PS~IAaAaI~l 363 (437)
.-+++.|..+|..||+.|+|++.+++||.++..|+..+..... ...+||-++..++....++.|+|..||+||++.
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 3468999999999999999999999999999999998765554 889999999999999999999999999999999
Q ss_pred HHHHhcCCCCchh
Q 013766 364 AQCTLSGFKQWSK 376 (437)
Q Consensus 364 A~~~l~~~~~W~~ 376 (437)
|... .+.+.|..
T Consensus 202 a~~~-~~~~~~~~ 213 (297)
T COG5333 202 ACEV-LGMPIIKL 213 (297)
T ss_pred HHHh-cCCccchh
Confidence 9765 45566644
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.72 E-value=8.7e-16 Score=154.05 Aligned_cols=182 Identities=14% Similarity=0.139 Sum_probs=164.2
Q ss_pred HHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHH
Q 013766 215 GILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEV 294 (437)
Q Consensus 215 ~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI 294 (437)
.....-|.+++..++|+..+...|..||.+++....+.......+++||||+|||.+.. |.+++|+..+++ .+..+|
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 45567788999999999999999999999999998899999999999999999998876 889999998876 689999
Q ss_pred HHHHHHHHHHcCCccccCChHHHHHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCc
Q 013766 295 LDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQW 374 (437)
Q Consensus 295 ~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W 374 (437)
.+.++.|++.|++++...+|.+|+.+|+..++.+..+...|..++..+.......+.+|..|||||||+|... .+.+.-
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 GRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLL-LGERRT 278 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHH-hCCCCC
Confidence 9999999999999999999999999999999999999999999999887665567899999999999999754 455666
Q ss_pred hhhhhhhcCCCHHHHHHHHHHHHHHH
Q 013766 375 SKTSEWYTSYSEEQLLECSRLMVIFH 400 (437)
Q Consensus 375 ~~~l~~~tgys~~~l~ec~~~l~~l~ 400 (437)
.+.+...+|+++..|...++.|...+
T Consensus 279 ~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 279 QREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 77788899999999999999998754
No 14
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=99.48 E-value=1.6e-12 Score=125.92 Aligned_cols=178 Identities=16% Similarity=0.122 Sum_probs=157.6
Q ss_pred HHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHHH
Q 013766 219 DWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDME 298 (437)
Q Consensus 219 dWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE 298 (437)
.-|..+++.++|+......|-.+|.++...+....+..+-+++|||+|||+-++. +.+++++..+++ .+++||.+.=
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 4477789999999999999999999999888899999999999999999997776 999999999988 8999999999
Q ss_pred HHHHHHcCCccccCC--hHHHHHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchh
Q 013766 299 KLMVNTLQFNMSVPT--PYVFMRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSK 376 (437)
Q Consensus 299 ~~IL~~L~f~L~~pT--p~~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~ 376 (437)
+.|+..|+-.+...+ ..+|+.||+..++.+......|..+.+.+..-......+|-.||||+||++... ...+.-.+
T Consensus 186 K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisql-s~~kkt~k 264 (308)
T KOG1597|consen 186 KLIGEALETSVDLISISTGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQL-SDEKKTQK 264 (308)
T ss_pred HHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHh-ccCcccHH
Confidence 999999987766555 899999999999999999999999988875544445689999999999999754 44677788
Q ss_pred hhhhhcCCCHHHHHHHHHHHHHHH
Q 013766 377 TSEWYTSYSEEQLLECSRLMVIFH 400 (437)
Q Consensus 377 ~l~~~tgys~~~l~ec~~~l~~l~ 400 (437)
.+...||+++..|+..|+.|+...
T Consensus 265 eI~~vtgVaE~TIr~sYK~Lyp~~ 288 (308)
T KOG1597|consen 265 EIGEVTGVAEVTIRNSYKDLYPHA 288 (308)
T ss_pred HHHHHhhhhHHHHHHHHHHHhhch
Confidence 899999999999999999998654
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=99.47 E-value=1.3e-13 Score=109.94 Aligned_cols=87 Identities=40% Similarity=0.578 Sum_probs=81.3
Q ss_pred HHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHH
Q 013766 214 RGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKE 293 (437)
Q Consensus 214 R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~e 293 (437)
|...++||.+++..++++++|.++|+.++|||+....+.+.+++++|+||++||+|+++. ++..+++..+++.. +.++
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 88999999887643 9999
Q ss_pred HHHHHHHHH
Q 013766 294 VLDMEKLMV 302 (437)
Q Consensus 294 I~~mE~~IL 302 (437)
|.++|+.||
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=99.44 E-value=9.5e-12 Score=122.86 Aligned_cols=183 Identities=15% Similarity=0.140 Sum_probs=167.6
Q ss_pred HHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHH
Q 013766 213 MRGILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRK 292 (437)
Q Consensus 213 ~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~ 292 (437)
.-......|-.++..++++..+...|..++-+.+.+..+.....+-++++|+|+||+.... +.++.++..+.+ .++.
T Consensus 96 nl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~-prtl~eIa~a~~--V~~k 172 (285)
T COG1405 96 NLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGV-PRTLDEIAKALG--VSKK 172 (285)
T ss_pred HHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCC-CccHHHHHHHHC--CCHH
Confidence 3456677788889999999999999999999999999999999999999999999998886 889999998877 7889
Q ss_pred HHHHHHHHHHHHcCCccccCChHHHHHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCC
Q 013766 293 EVLDMEKLMVNTLQFNMSVPTPYVFMRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFK 372 (437)
Q Consensus 293 eI~~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~ 372 (437)
+|.++.+.+.+.|+=.+.+..|.+|+.+|...++.+..+...|..|+..+...-....-.|+.||+||||+|... .+..
T Consensus 173 ei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l-~~~~ 251 (285)
T COG1405 173 EIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLL-LGER 251 (285)
T ss_pred HHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHH-hCCc
Confidence 999999999999999999999999999999999999999999999999998888888999999999999999754 4567
Q ss_pred CchhhhhhhcCCCHHHHHHHHHHHHHH
Q 013766 373 QWSKTSEWYTSYSEEQLLECSRLMVIF 399 (437)
Q Consensus 373 ~W~~~l~~~tgys~~~l~ec~~~l~~l 399 (437)
.-++.+..++|+++..|+.-+++|.+.
T Consensus 252 ~tq~eva~v~~vtevTIrnrykel~~~ 278 (285)
T COG1405 252 RTQKEVAKVAGVTEVTIRNRYKELADA 278 (285)
T ss_pred hHHHHHHHHhCCeeeHHHHHHHHHHHh
Confidence 778889999999999999999888764
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=99.40 E-value=5.7e-13 Score=105.25 Aligned_cols=83 Identities=36% Similarity=0.572 Sum_probs=76.1
Q ss_pred HHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHHH
Q 013766 219 DWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDME 298 (437)
Q Consensus 219 dWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE 298 (437)
+||.+++..+++++++.++|+.++|||+....+.+..++++|+||++||+|+++.. +...++..+++. |+.++|.++|
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 59999999999999999999999999999877888999999999999999999985 677888888776 7999999999
Q ss_pred HHHHH
Q 013766 299 KLMVN 303 (437)
Q Consensus 299 ~~IL~ 303 (437)
+.||.
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 99974
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=99.33 E-value=6.2e-12 Score=122.26 Aligned_cols=135 Identities=24% Similarity=0.382 Sum_probs=111.4
Q ss_pred CCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhh--cccCHHHHHHHHHHHHHHcC
Q 013766 229 ELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISD--KAYSRKEVLDMEKLMVNTLQ 306 (437)
Q Consensus 229 ~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~--~~yt~~eI~~mE~~IL~~L~ 306 (437)
.+++.++.+|+.+|.||+-..++..-..+.|.+||+|+|||++|. ..++++|+.-.. ..-+.+.|+..|..+++.|+
T Consensus 73 ~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef-~ISieqFvkn~~~~~~k~~e~vLk~E~~llqsL~ 151 (325)
T KOG2496|consen 73 NLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEF-YISIEQFVKNMNGRKWKTHEIVLKYEFLLLQSLK 151 (325)
T ss_pred CCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhh-eecHHHHHhhccCcccccHHHHHhchHHHHHhhh
Confidence 578899999999999999999999999999999999999999997 567888886443 34578999999999999999
Q ss_pred CccccCChHHHHHHHHHHcCC------cHHH---HHHHHHHHHHHHccccccCcCHHHHHHHHHHHH
Q 013766 307 FNMSVPTPYVFMRRFLKASQS------DKKL---ELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTA 364 (437)
Q Consensus 307 f~L~~pTp~~FL~~fl~~~~~------~~~l---~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA 364 (437)
|++.+.+|+.=++-|+..+.. +..+ ...+..+++-+++.-.++-|+||.||+|||..|
T Consensus 152 f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a 218 (325)
T KOG2496|consen 152 FSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHA 218 (325)
T ss_pred hhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHH
Confidence 999999999999888764421 1111 222346677777777788899999999999655
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=98.74 E-value=7e-08 Score=75.88 Aligned_cols=81 Identities=38% Similarity=0.585 Sum_probs=74.1
Q ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCC-CHHHHHHHHH
Q 013766 316 VFMRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSY-SEEQLLECSR 394 (437)
Q Consensus 316 ~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgy-s~~~l~ec~~ 394 (437)
+|+.++...++.+.++..+|.++++.++.++.+..++|+.+|+||+++|.+..+. ..|...+..++|+ +.++|.++.+
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 4889999999999999999999999999988999999999999999999877654 5799999999999 9999999998
Q ss_pred HHH
Q 013766 395 LMV 397 (437)
Q Consensus 395 ~l~ 397 (437)
.|+
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=98.69 E-value=1.5e-07 Score=74.71 Aligned_cols=85 Identities=35% Similarity=0.492 Sum_probs=78.5
Q ss_pred cCChHHHHHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCC-CHHHH
Q 013766 311 VPTPYVFMRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSY-SEEQL 389 (437)
Q Consensus 311 ~pTp~~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgy-s~~~l 389 (437)
.+++.+|+.++...++.+.....+|.++++.++....+..++|+.||+||+++|.+..+. ..|.+.+..++++ +.++|
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 578999999999999999999999999999999999999999999999999999876555 8999999999999 99999
Q ss_pred HHHHHHH
Q 013766 390 LECSRLM 396 (437)
Q Consensus 390 ~ec~~~l 396 (437)
..+.+.+
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=98.55 E-value=2.7e-08 Score=99.82 Aligned_cols=150 Identities=14% Similarity=0.244 Sum_probs=117.9
Q ss_pred CCCCCCCCCCCCccc----------hhhhHHHHHHHHHHhhhcCCCCCCcccc--CCCCCHHHHHHHHHHHHHHHHHcCC
Q 013766 163 PVMDIDYEEKKNPQA----------VVEYIDDIYNFYKKAESSGYVPPNYMAQ--QFDINERMRGILIDWLIEVHYKFEL 230 (437)
Q Consensus 163 ~~~did~~~~~~p~~----------~~eY~~dI~~~l~~~E~~~~~~~~yl~~--q~~i~~~~R~~LvdWl~ev~~~~~L 230 (437)
..+|.|..-.+||+| +++|.-.+..|.+....+.-.+.+|-+. +-.++-..-+.|-.-|.++....++
T Consensus 319 d~~dydasllDdPq~~~gkhk~~l~F~symttvidyVrpsdlKkdmNe~FreKfP~IkLTLSKirSlKREMr~l~~d~~i 398 (497)
T KOG4164|consen 319 DKCDYDASLLDDPQWPCGKHKRVLIFSSYMTTVIDYVRPSDLKKDMNETFREKFPHIKLTLSKIRSLKREMRELGEDCGI 398 (497)
T ss_pred cccccCcccccCcccccccccceeEeccccceeEEEechHHHHHHHhHHHHHhCCeeEEeHHHHHHHHHHHHHhhhccCc
Confidence 466777777777776 5667666666665555444344444443 2234444445567789999999999
Q ss_pred ChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhc--ccCHHHHHHHHHHHHHHcCCc
Q 013766 231 MEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDK--AYSRKEVLDMEKLMVNTLQFN 308 (437)
Q Consensus 231 ~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~--~yt~~eI~~mE~~IL~~L~f~ 308 (437)
..-|+.+|-.||.....+..+.+.+-+|+|.||+++|+|+.+..-..++.++.-... .+++.|++..|.-||-+|+|.
T Consensus 399 d~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia~Ef~VlvaLefa 478 (497)
T KOG4164|consen 399 DVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIAFEFPVLVALEFA 478 (497)
T ss_pred cceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhhhhhhHHHhhhhh
Confidence 999999999999999999999999999999999999999998877788888765444 578999999999999999999
Q ss_pred cccC
Q 013766 309 MSVP 312 (437)
Q Consensus 309 L~~p 312 (437)
|..|
T Consensus 479 L~~~ 482 (497)
T KOG4164|consen 479 LHLP 482 (497)
T ss_pred ccCC
Confidence 9865
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=98.45 E-value=9.5e-07 Score=79.60 Aligned_cols=91 Identities=20% Similarity=0.280 Sum_probs=72.4
Q ss_pred HHHHHHHHHHHcCCChhhHHHHHHHHHHhhc---cCc--ccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCH
Q 013766 217 LIDWLIEVHYKFELMEETLYLTVNLIDRFLT---VQP--VVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSR 291 (437)
Q Consensus 217 LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs---~~~--v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~ 291 (437)
+.+|+.++....+++++++-+|..|+||+.. ... +.....+-+-++|+.+|+|+-+....+-+.+..+++ ++.
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 566778889999999999997776777888888865 799
Q ss_pred HHHHHHHHHHHHHcCCcc
Q 013766 292 KEVLDMEKLMVNTLQFNM 309 (437)
Q Consensus 292 ~eI~~mE~~IL~~L~f~L 309 (437)
+++-+||+..|..|+|+|
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=98.00 E-value=3.7e-05 Score=80.77 Aligned_cols=173 Identities=14% Similarity=0.104 Sum_probs=134.5
Q ss_pred HHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHHHH
Q 013766 220 WLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDMEK 299 (437)
Q Consensus 220 Wl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE~ 299 (437)
-|-+++..+++.. .+-.|.++|.-.+...-......+.|.++|+||+|+.|-.. -.+-||..+.. .+--++-.+=+
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~-hlliDfS~~Lq--v~Vy~LG~~~l 148 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTD-HLLIDFSSYLQ--VSVYDLGSNFL 148 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCc-eEEEEeccceE--EehhhhhHHHH
Confidence 5778899999999 99999999999999999999999999999999999987763 33334443333 56778888888
Q ss_pred HHHHHcCCc---cccCChHHHHHHHHHHcC---CcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCC
Q 013766 300 LMVNTLQFN---MSVPTPYVFMRRFLKASQ---SDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQ 373 (437)
Q Consensus 300 ~IL~~L~f~---L~~pTp~~FL~~fl~~~~---~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~ 373 (437)
.+-..|.-. +-...|.-|+.+|...+. .++++...|..|+....-|+.....+|+-|+-|||++|.... +...
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 345677778888888888999999999999999999997654 3333
Q ss_pred chhhhhhhcCCCHHHHHHHHHHHH
Q 013766 374 WSKTSEWYTSYSEEQLLECSRLMV 397 (437)
Q Consensus 374 W~~~l~~~tgys~~~l~ec~~~l~ 397 (437)
--..+..+..+.+..|..-+.++.
T Consensus 228 si~dIv~vvhV~e~Tl~kRl~Ef~ 251 (521)
T KOG1598|consen 228 TIGDIAKVVHVCESTLSKRLKEFS 251 (521)
T ss_pred cHHHHHHHHHHhHHHHHHHHHHHh
Confidence 334455555566665555544443
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=97.43 E-value=0.00062 Score=53.33 Aligned_cols=65 Identities=11% Similarity=0.180 Sum_probs=54.7
Q ss_pred HHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhh
Q 013766 221 LIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISD 286 (437)
Q Consensus 221 l~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~ 286 (437)
|-++|..++|+..+.-.|..++++..............++++|+|+||+.+.. +.+++|+...++
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 45789999999999999999999999888888889999999999999998775 778888877655
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=0.0024 Score=50.00 Aligned_cols=71 Identities=15% Similarity=0.053 Sum_probs=56.6
Q ss_pred HHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCCCHHHH
Q 013766 318 MRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSYSEEQL 389 (437)
Q Consensus 318 L~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgys~~~l 389 (437)
+.+|+..++.+..+...|..+...+......-+.+|..+||||||+|.+. .+.+.-...+...+++++.+|
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~-~~~~~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRL-NGVPRTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHH-TTSSSSHHHHHHHCTSSHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHH-cCCCcCHHHHHHHhCCCCCcC
Confidence 46889999999999999999999887777677899999999999999654 455666777888888888765
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=96.69 E-value=0.0094 Score=60.13 Aligned_cols=89 Identities=11% Similarity=0.106 Sum_probs=78.5
Q ss_pred HHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHH
Q 013766 218 IDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDM 297 (437)
Q Consensus 218 vdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~m 297 (437)
.++|..++..|+|+..+...|..++.+.............-+++||+||||+.... +.+.+++..+++ .+...|...
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 48899999999999999999999999998777778899999999999999998875 578899988765 788999999
Q ss_pred HHHHHHHcCCcc
Q 013766 298 EKLMVNTLQFNM 309 (437)
Q Consensus 298 E~~IL~~L~f~L 309 (437)
-+.|++.|+..+
T Consensus 297 ykel~~~l~~~~ 308 (310)
T PRK00423 297 YKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHhCccc
Confidence 999999887644
No 27
>KOG1674 consensus Cyclin [General function prediction only]
Probab=95.30 E-value=0.053 Score=52.05 Aligned_cols=94 Identities=14% Similarity=0.188 Sum_probs=72.4
Q ss_pred HHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCc---------ccccc-hhhhHhhHHHhhhhccccCCcchhHHHhhhh
Q 013766 217 LIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQP---------VVRKK-LQLVGVTAMLLACKYEEVSVPVVEDLILISD 286 (437)
Q Consensus 217 LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~---------v~~~~-lqLva~acL~IAsK~EE~~~p~i~dl~~is~ 286 (437)
+-+++.++......+++++-+|..|||||..... +.--+ ..-+.++|+.+|+|+.+...-.-.-+..+
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 4567778888889999999999999999998622 22233 55578999999999987643333333333
Q ss_pred cccCHHHHHHHHHHHHHHcCCccccC
Q 013766 287 KAYSRKEVLDMEKLMVNTLQFNMSVP 312 (437)
Q Consensus 287 ~~yt~~eI~~mE~~IL~~L~f~L~~p 312 (437)
+..+.+++-.+|...|..++|++.++
T Consensus 156 ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 34788999999999999999999875
No 28
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=92.78 E-value=0.46 Score=47.45 Aligned_cols=88 Identities=11% Similarity=0.118 Sum_probs=71.3
Q ss_pred HHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHH
Q 013766 217 LIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLD 296 (437)
Q Consensus 217 LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~ 296 (437)
-.+++-..+..|+|+.++.-.|..+++..............-+|++|++|||+.... ..+-+++..+++ .|..-|..
T Consensus 194 p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~-~~tq~eva~v~~--vtevTIrn 270 (285)
T COG1405 194 PSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGE-RRTQKEVAKVAG--VTEVTIRN 270 (285)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCC-chHHHHHHHHhC--CeeeHHHH
Confidence 457888999999999999999999999999998888999999999999999999874 556677776665 35555665
Q ss_pred HHHHHHHHcCC
Q 013766 297 MEKLMVNTLQF 307 (437)
Q Consensus 297 mE~~IL~~L~f 307 (437)
--+.+...|+-
T Consensus 271 rykel~~~~~i 281 (285)
T COG1405 271 RYKELADALDI 281 (285)
T ss_pred HHHHHHHhhcc
Confidence 55666666543
No 29
>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=92.31 E-value=1.4 Score=37.42 Aligned_cols=85 Identities=12% Similarity=0.119 Sum_probs=60.9
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhc--CCCHHHHHHH
Q 013766 315 YVFMRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYT--SYSEEQLLEC 392 (437)
Q Consensus 315 ~~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~t--gys~~~l~ec 392 (437)
.+|+.......+.+......|..+++.-+.........+..+|+||+++|.+.......+...+...+ .++.++|...
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 34666666677778888888888888887777788899999999999999987765455555555554 4677888777
Q ss_pred HHHHHHH
Q 013766 393 SRLMVIF 399 (437)
Q Consensus 393 ~~~l~~l 399 (437)
-..++..
T Consensus 115 E~~iL~~ 121 (127)
T PF00134_consen 115 EREILSA 121 (127)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 6666654
No 30
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=91.26 E-value=0.29 Score=48.79 Aligned_cols=85 Identities=21% Similarity=0.240 Sum_probs=60.1
Q ss_pred CCChhhHHHHHHHHHHhhccCccc--ccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHHHHHHHHHcC
Q 013766 229 ELMEETLYLTVNLIDRFLTVQPVV--RKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDMEKLMVNTLQ 306 (437)
Q Consensus 229 ~L~~eTl~lAV~l~DRfLs~~~v~--~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE~~IL~~L~ 306 (437)
.|..+---....|++|.+....+. ..+...+....+++|+|+-....-.-.|.+.++.. .|.+++.+||+.+|..|+
T Consensus 205 qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd-~tveDmNe~ERqfLelLq 283 (343)
T KOG1675|consen 205 QLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKD-QSVDDMNALERQFLELLQ 283 (343)
T ss_pred hhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhh-ccHhhHHHHHHHHHHHHh
Confidence 333333334457788877655544 55666667778999999866544344566666554 589999999999999999
Q ss_pred CccccCCh
Q 013766 307 FNMSVPTP 314 (437)
Q Consensus 307 f~L~~pTp 314 (437)
|++++|-.
T Consensus 284 fNinvp~s 291 (343)
T KOG1675|consen 284 FNINVPSS 291 (343)
T ss_pred hccCccHH
Confidence 99999853
No 31
>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=90.48 E-value=0.76 Score=38.36 Aligned_cols=87 Identities=20% Similarity=0.197 Sum_probs=59.7
Q ss_pred HHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHH
Q 013766 218 IDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDM 297 (437)
Q Consensus 218 vdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~m 297 (437)
.+||.......+...++.++|-.+++..+....+..-..-++|++|+++|.+.-....+.-..+..++ .++.+++..+
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 45565554444456678889999999888777777888899999999999998653233334455555 3588888877
Q ss_pred HHHHHHHcC
Q 013766 298 EKLMVNTLQ 306 (437)
Q Consensus 298 E~~IL~~L~ 306 (437)
=..|.+.+.
T Consensus 82 ~~~i~~~~~ 90 (118)
T PF02984_consen 82 IELIQELLS 90 (118)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 766666553
No 32
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=85.44 E-value=11 Score=33.65 Aligned_cols=90 Identities=17% Similarity=0.057 Sum_probs=62.0
Q ss_pred ccCChHHHHHHHHHHcCCcHHHHHHHHHHHHHHHc---cc--cccCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCC
Q 013766 310 SVPTPYVFMRRFLKASQSDKKLELLSFFLIELCLV---EY--EMLKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSY 384 (437)
Q Consensus 310 ~~pTp~~FL~~fl~~~~~~~~l~~la~~llelsl~---d~--~~l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgy 384 (437)
...+..+|+.++.+....+.....+|..+++-... .. ......+.-+-++|+.+|.+.++....|++....++|+
T Consensus 50 p~i~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gi 129 (149)
T PF08613_consen 50 PSISIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGI 129 (149)
T ss_dssp -SS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS
T ss_pred CCCcHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCC
Confidence 44567789999999888888877777766665444 22 23456777888999999999999888889999999999
Q ss_pred CHHHHHHHHHHHHHH
Q 013766 385 SEEQLLECSRLMVIF 399 (437)
Q Consensus 385 s~~~l~ec~~~l~~l 399 (437)
+..++...=..++..
T Consensus 130 s~~eln~lE~~fL~~ 144 (149)
T PF08613_consen 130 SLKELNELEREFLKL 144 (149)
T ss_dssp -HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHH
Confidence 999998877666654
No 33
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=85.05 E-value=1.2 Score=45.27 Aligned_cols=93 Identities=15% Similarity=0.147 Sum_probs=69.6
Q ss_pred HHHHHHHHHHHHHcCCChhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHH--HhhhhcccCHH
Q 013766 215 GILIDWLIEVHYKFELMEETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDL--ILISDKAYSRK 292 (437)
Q Consensus 215 ~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl--~~is~~~yt~~ 292 (437)
.-|++|+..+-...+........|-+++-..+...-+-+-..+-||++||+||+|+-....|...+- ....+...|.+
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 5567777776666655555777888888766666677888899999999999999977655555444 44556668899
Q ss_pred HHHHHHHHHHHHcCC
Q 013766 293 EVLDMEKLMVNTLQF 307 (437)
Q Consensus 293 eI~~mE~~IL~~L~f 307 (437)
++..+...+|....-
T Consensus 233 ~l~~i~~~~l~~y~~ 247 (323)
T KOG0834|consen 233 LLDDICHEFLDLYEQ 247 (323)
T ss_pred HHHHHHHHHHHHHhh
Confidence 999988888887743
No 34
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=84.52 E-value=9.7 Score=38.05 Aligned_cols=85 Identities=13% Similarity=0.069 Sum_probs=62.7
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHccccc-cCcCHHHHHHHHHHHHHHHhcCCCCchhhhhhhcCCCHHHHHHHH
Q 013766 315 YVFMRRFLKASQSDKKLELLSFFLIELCLVEYEM-LKFPPSLLAAAAVYTAQCTLSGFKQWSKTSEWYTSYSEEQLLECS 393 (437)
Q Consensus 315 ~~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~-l~~~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~tgys~~~l~ec~ 393 (437)
+.-+..+...++....+...|..+..... |... -+.+--.|+|||||.|.+. .+.+..-+.+..+++++..+|-.|+
T Consensus 108 ~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~-~~k~lrGks~eai~AAclyiACRq-~~~pRT~kEI~~~anv~kKEIgr~~ 185 (308)
T KOG1597|consen 108 FKEITAMCDRLSLPATIKDRANEIFKLVE-DSKLLRGKSVEALAAACLYIACRQ-EDVPRTFKEISAVANVSKKEIGRCV 185 (308)
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHH-HhhhhcCccHHHHHHHHHHHHHHh-cCCCchHHHHHHHHcCCHHHHHHHH
Confidence 33455666777777777777777766654 4444 4678889999999999654 3445556667888999999999999
Q ss_pred HHHHHHHH
Q 013766 394 RLMVIFHQ 401 (437)
Q Consensus 394 ~~l~~l~~ 401 (437)
+.+..-++
T Consensus 186 K~i~~~l~ 193 (308)
T KOG1597|consen 186 KLIGEALE 193 (308)
T ss_pred HHHHHHHh
Confidence 99987654
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=70.55 E-value=12 Score=33.30 Aligned_cols=65 Identities=15% Similarity=0.164 Sum_probs=50.8
Q ss_pred HHHHHHHHHcCCChhhHHHHHHHHHHhhccCc--ccccchhhhHhhHHHhhhhccccCCcchhHHHhh
Q 013766 219 DWLIEVHYKFELMEETLYLTVNLIDRFLTVQP--VVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILI 284 (437)
Q Consensus 219 dWl~ev~~~~~L~~eTl~lAV~l~DRfLs~~~--v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~i 284 (437)
.-|.++|.+++++++.....-.+|+..+.... +...++--+.++|+++-||+.. ...+.++++..
T Consensus 16 ~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~-~~~sF~~Ii~~ 82 (135)
T PF01857_consen 16 VRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK-EELSFKDIIKA 82 (135)
T ss_dssp HHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT--S--HHHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc-CCCCHHHHHHH
Confidence 44778999999999988999999999987655 6677798899999999999876 36666777654
No 36
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=67.83 E-value=31 Score=34.92 Aligned_cols=51 Identities=10% Similarity=0.178 Sum_probs=37.0
Q ss_pred HHHHHHHHcC--CcHHHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHH
Q 013766 317 FMRRFLKASQ--SDKKLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCT 367 (437)
Q Consensus 317 FL~~fl~~~~--~~~~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~ 367 (437)
++..+...+. ..+.+...|..++.--++...+..|.|-.||++|+|+|.+.
T Consensus 62 ~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~Kv 114 (305)
T TIGR00569 62 RLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKV 114 (305)
T ss_pred HHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhc
Confidence 4444455555 56666666666666666667778899999999999999764
No 37
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=65.04 E-value=22 Score=36.11 Aligned_cols=68 Identities=18% Similarity=0.281 Sum_probs=47.6
Q ss_pred cCCChhh--HHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhhhhcccCHHHHHHH
Q 013766 228 FELMEET--LYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILISDKAYSRKEVLDM 297 (437)
Q Consensus 228 ~~L~~eT--l~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~m 297 (437)
+++++.- +..|-+|+.--+-...+.+.....||++|+++|++.+|+-.|....+..+.+ .++++|-..
T Consensus 152 L~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd--~~k~eid~i 221 (367)
T KOG0835|consen 152 LQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFD--TTKREIDEI 221 (367)
T ss_pred hcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcC--CcHHHHHHH
Confidence 4444433 5667788777777777888889999999999999999965555555554433 566665544
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=54.04 E-value=1.2e+02 Score=24.71 Aligned_cols=85 Identities=16% Similarity=0.170 Sum_probs=58.8
Q ss_pred hHHHHHHHHHHcCCcH----HHHHHHHHHHHHHHccccccCcCHHHHHHHHHHHHHHHhc-CCCCchhhhhhh---cCCC
Q 013766 314 PYVFMRRFLKASQSDK----KLELLSFFLIELCLVEYEMLKFPPSLLAAAAVYTAQCTLS-GFKQWSKTSEWY---TSYS 385 (437)
Q Consensus 314 p~~FL~~fl~~~~~~~----~l~~la~~llelsl~d~~~l~~~PS~IAaAaI~lA~~~l~-~~~~W~~~l~~~---tgys 385 (437)
+-+|+-..+.++.... ++..++..-+..++..+.....+|..|.|+.+......-+ ....|..+++.+ .+++
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 4467777788876554 4556666666778888999999999999999998875433 346898887764 5677
Q ss_pred HHHHHHHHHHHHH
Q 013766 386 EEQLLECSRLMVI 398 (437)
Q Consensus 386 ~~~l~ec~~~l~~ 398 (437)
-+.++..-..+.+
T Consensus 84 tntirt~kdqv~e 96 (106)
T PF09241_consen 84 TNTIRTVKDQVSE 96 (106)
T ss_dssp HHHHHHHHHHHHH
T ss_pred cchhhhHHHHHHH
Confidence 7777765555444
No 39
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=24.06 E-value=1.9e+02 Score=30.86 Aligned_cols=85 Identities=12% Similarity=0.021 Sum_probs=52.3
Q ss_pred CHHHHHHHHHHHHHHHhcCCCCchhhhhhhc--CCCHHHHHHHHHHHHHHHHh-cCCCCcchhhcccCCcccCccccCCC
Q 013766 352 PPSLLAAAAVYTAQCTLSGFKQWSKTSEWYT--SYSEEQLLECSRLMVIFHQK-AGTGKLTGVHRKYSTSKFGYAAKTRL 428 (437)
Q Consensus 352 ~PS~IAaAaI~lA~~~l~~~~~W~~~l~~~t--gys~~~l~ec~~~l~~l~~~-~~~~~l~~i~~KYss~kf~~va~~~~ 428 (437)
+--.+|++|+++|.+.-.....-.+.+...| .++.+++...-+.|+.-..- .+.+.....-++-+...-..+-..++
T Consensus 254 k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd~~srt~ 333 (440)
T COG5024 254 KYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYDIFSRTP 333 (440)
T ss_pred HHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccchhhhhh
Confidence 3446788999999654222111122333333 47899999888888876542 34444445566666666666666678
Q ss_pred chhhhcCC
Q 013766 429 PNFLLGAG 436 (437)
Q Consensus 429 ~~~l~~~~ 436 (437)
++|+.+.+
T Consensus 334 ~k~~~e~s 341 (440)
T COG5024 334 AKFSSEIS 341 (440)
T ss_pred HhhhCCch
Confidence 88887653
No 40
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=23.69 E-value=1.7e+02 Score=28.66 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=19.2
Q ss_pred HccccccCcCHHHHHHHHHHHHHHH
Q 013766 343 LVEYEMLKFPPSLLAAAAVYTAQCT 367 (437)
Q Consensus 343 l~d~~~l~~~PS~IAaAaI~lA~~~ 367 (437)
+.-..+-.+.|-.+|..|+|+|.+.
T Consensus 73 y~r~S~k~~~p~lla~TClyLAcKv 97 (264)
T KOG0794|consen 73 YLRKSLKEIEPRLLAPTCLYLACKV 97 (264)
T ss_pred HHHHhhhccCHHHHHHHHHHHHhhh
Confidence 3334466789999999999999753
No 41
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=22.82 E-value=1.2e+02 Score=32.88 Aligned_cols=52 Identities=13% Similarity=0.133 Sum_probs=40.4
Q ss_pred hhhHHHHHHHHHHhhccCcccccchhhhHhhHHHhhhhccccCCcchhHHHhh
Q 013766 232 EETLYLTVNLIDRFLTVQPVVRKKLQLVGVTAMLLACKYEEVSVPVVEDLILI 284 (437)
Q Consensus 232 ~eTl~lAV~l~DRfLs~~~v~~~~lqLva~acL~IAsK~EE~~~p~i~dl~~i 284 (437)
.++.-+|..++-|..--......+.--++.|||+|||.+... ..++.|++.+
T Consensus 184 ~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~-~rsi~dIv~v 235 (521)
T KOG1598|consen 184 EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGF-RRTIGDIAKV 235 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCc-cccHHHHHHH
Confidence 457778888888876656667777778889999999999886 5667777644
No 42
>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=22.53 E-value=3.6e+02 Score=21.38 Aligned_cols=33 Identities=9% Similarity=0.257 Sum_probs=26.0
Q ss_pred CHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHh
Q 013766 210 NERMRGILIDWLIEVHYKFELMEETLYLTVNLIDRF 245 (437)
Q Consensus 210 ~~~~R~~LvdWl~ev~~~~~L~~eTl~lAV~l~DRf 245 (437)
....|..++++|..++..-++ +...|+.++|.+
T Consensus 48 ~y~rRK~Ii~~I~~l~~~~g~---~~~~ai~~le~~ 80 (81)
T PF12550_consen 48 TYSRRKVIIDFIERLANERGI---SEEEAIEILEEI 80 (81)
T ss_pred hHHHHHHHHHHHHHHHHHcCC---CHHHHHHHHHhc
Confidence 446799999999999888777 466778888765
No 43
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=20.85 E-value=3e+02 Score=28.33 Aligned_cols=56 Identities=16% Similarity=0.095 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHcCCcHHHHHHHHHHHHHHHccccccCcC---HHHHHHHHHHHHHHHhc
Q 013766 314 PYVFMRRFLKASQSDKKLELLSFFLIELCLVEYEMLKFP---PSLLAAAAVYTAQCTLS 369 (437)
Q Consensus 314 p~~FL~~fl~~~~~~~~l~~la~~llelsl~d~~~l~~~---PS~IAaAaI~lA~~~l~ 369 (437)
+.+|+-......+.+....-+|..+++--+..+.+-..+ --.||+||+.+|.+.-.
T Consensus 81 A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE 139 (335)
T KOG0656|consen 81 ALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEE 139 (335)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcC
Confidence 344555555555666666667777777777767776666 56789999999986533
No 44
>PF08427 DUF1741: Domain of unknown function (DUF1741); InterPro: IPR013636 This is a eukaryotic domain of unknown function.
Probab=20.63 E-value=7.9e+02 Score=23.92 Aligned_cols=92 Identities=16% Similarity=0.301 Sum_probs=57.2
Q ss_pred CCChhhHHHHHHHHHHhhccCcccccchh-------hhHhhHH-HhhhhccccCCcchhHHHhhhhcccCHHHHHHHHHH
Q 013766 229 ELMEETLYLTVNLIDRFLTVQPVVRKKLQ-------LVGVTAM-LLACKYEEVSVPVVEDLILISDKAYSRKEVLDMEKL 300 (437)
Q Consensus 229 ~L~~eTl~lAV~l~DRfLs~~~v~~~~lq-------Lva~acL-~IAsK~EE~~~p~i~dl~~is~~~yt~~eI~~mE~~ 300 (437)
+|+-+...+|+.++.|.++..+-.+-+|. -.-++.+ ||++...+. -+..+|..+=..
T Consensus 28 ~l~v~lY~~~l~ii~Rll~y~~~~~~RL~Y~W~eLW~aLlsLl~Fl~~~~~~l---------------~~~~~i~~L~~~ 92 (237)
T PF08427_consen 28 RLDVDLYSLCLGIIHRLLCYLKRSRIRLEYHWSELWRALLSLLRFLTTYESDL---------------KDSPDIFQLAEQ 92 (237)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHhcCccccccHHHHHHHHHHHHHHHHhchhhh---------------hcccChHHHHHH
Confidence 67888889999999999876552222221 1111111 443332222 122445555567
Q ss_pred HHHHcCCcc-----ccCChHHHHHHHHHHcCCcHHHHHHH
Q 013766 301 MVNTLQFNM-----SVPTPYVFMRRFLKASQSDKKLELLS 335 (437)
Q Consensus 301 IL~~L~f~L-----~~pTp~~FL~~fl~~~~~~~~l~~la 335 (437)
++..|+|-+ -.|+|..|=+.|.+.+....-+..+.
T Consensus 93 vv~l~n~~is~GDtFLPsp~~yDdL~YelVr~~~v~~~~~ 132 (237)
T PF08427_consen 93 VVNLFNFFISYGDTFLPSPASYDDLFYELVRSGQVFDKFR 132 (237)
T ss_pred HHHHHHHHHHhccccCCChHHHHhHHHHhHhchHHHHHHH
Confidence 777777755 35999999999999888877666554
Done!