Query 011434
Match_columns 486
No_of_seqs 256 out of 1829
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 01:19:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011434.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011434hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0654 G2/Mitotic-specific cy 100.0 9.2E-48 2E-52 391.8 12.8 271 207-485 87-358 (359)
2 KOG0653 Cyclin B and related k 100.0 2.1E-44 4.6E-49 377.2 22.2 262 205-474 108-373 (391)
3 COG5024 Cyclin [Cell division 100.0 5.1E-44 1.1E-48 373.1 16.9 262 204-474 161-424 (440)
4 KOG0655 G1/S-specific cyclin E 100.0 2.5E-36 5.5E-41 298.9 16.0 214 223-447 113-334 (408)
5 KOG0656 G1/S-specific cyclin D 100.0 3.9E-33 8.6E-38 282.4 20.3 222 220-442 42-268 (335)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 1.6E-25 3.5E-30 197.2 11.8 127 225-352 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 8E-23 1.7E-27 207.3 19.3 163 254-417 54-222 (305)
8 KOG0834 CDK9 kinase-activating 99.8 7E-21 1.5E-25 193.4 13.0 202 248-451 31-248 (323)
9 PF02984 Cyclin_C: Cyclin, C-t 99.8 9.3E-21 2E-25 164.2 9.7 118 354-477 1-118 (118)
10 KOG0835 Cyclin L [General func 99.8 2.1E-19 4.5E-24 179.1 17.7 198 249-451 16-232 (367)
11 KOG0794 CDK8 kinase-activating 99.7 2.3E-17 5.1E-22 157.7 12.4 190 256-452 41-242 (264)
12 COG5333 CCL1 Cdk activating ki 99.7 7E-17 1.5E-21 161.0 15.1 166 252-423 41-212 (297)
13 cd00043 CYCLIN Cyclin box fold 99.5 8.3E-14 1.8E-18 112.8 7.8 87 256-344 2-88 (88)
14 PRK00423 tfb transcription ini 99.4 1E-11 2.3E-16 127.0 20.6 180 257-446 123-302 (310)
15 smart00385 CYCLIN domain prese 99.4 4.9E-13 1.1E-17 107.3 7.0 83 261-345 1-83 (83)
16 KOG2496 Cdk activating kinase 99.3 3.4E-11 7.4E-16 119.9 16.7 152 260-412 60-219 (325)
17 COG1405 SUA7 Transcription ini 98.7 7.8E-07 1.7E-11 90.0 18.0 181 256-446 97-277 (285)
18 KOG1597 Transcription initiati 98.7 4.2E-07 9.1E-12 90.8 15.4 178 259-446 107-286 (308)
19 smart00385 CYCLIN domain prese 98.6 2E-07 4.4E-12 74.4 8.4 81 358-445 1-82 (83)
20 PF08613 Cyclin: Cyclin; Inte 98.5 4E-07 8.7E-12 83.7 9.1 91 259-351 54-149 (149)
21 cd00043 CYCLIN Cyclin box fold 98.5 8.6E-07 1.9E-11 71.4 9.1 85 353-444 2-87 (88)
22 KOG4164 Cyclin ik3-1/CABLES [C 97.8 8.3E-06 1.8E-10 84.1 2.6 142 213-354 338-482 (497)
23 KOG1598 Transcription initiati 97.1 0.0028 6.1E-08 68.4 10.2 173 239-417 44-225 (521)
24 PF00382 TFIIB: Transcription 96.1 0.018 4E-07 46.0 6.3 65 263-328 1-65 (71)
25 KOG1674 Cyclin [General functi 95.1 0.054 1.2E-06 53.1 6.8 94 259-354 78-181 (218)
26 KOG1675 Predicted cyclin [Gene 94.9 0.068 1.5E-06 54.4 6.8 92 263-355 197-290 (343)
27 PRK00423 tfb transcription ini 93.5 0.39 8.5E-06 49.4 9.4 89 260-351 220-308 (310)
28 PF00382 TFIIB: Transcription 92.9 0.71 1.5E-05 36.7 8.1 58 377-436 13-70 (71)
29 PF02984 Cyclin_C: Cyclin, C-t 91.9 0.59 1.3E-05 39.8 6.9 87 260-348 4-90 (118)
30 KOG0834 CDK9 kinase-activating 86.8 0.82 1.8E-05 47.5 4.5 95 256-350 152-248 (323)
31 PF00134 Cyclin_N: Cyclin, N-t 79.6 12 0.00025 32.4 8.3 62 377-439 50-113 (127)
32 COG1405 SUA7 Transcription ini 74.9 13 0.00028 38.1 8.2 68 259-327 194-261 (285)
33 PF08613 Cyclin: Cyclin; Inte 44.7 1.3E+02 0.0028 27.4 8.3 80 355-440 53-137 (149)
34 KOG0835 Cyclin L [General func 42.5 71 0.0015 33.4 6.6 61 277-339 161-221 (367)
35 TIGR00569 ccl1 cyclin ccl1. Un 37.1 78 0.0017 32.8 6.1 38 380-417 80-117 (305)
36 KOG1597 Transcription initiati 33.7 1.1E+02 0.0023 31.7 6.2 69 259-328 203-271 (308)
37 PF09241 Herp-Cyclin: Herpesvi 30.1 3.4E+02 0.0073 22.9 9.7 90 356-446 4-96 (106)
38 KOG0794 CDK8 kinase-activating 25.3 2.2E+02 0.0049 28.5 6.7 53 391-444 74-140 (264)
39 KOG2145 Cytoplasmic tryptophan 23.6 59 0.0013 33.6 2.4 64 4-72 220-287 (397)
No 1
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=9.2e-48 Score=391.80 Aligned_cols=271 Identities=59% Similarity=0.910 Sum_probs=261.5
Q ss_pred cCCCCCCCCcchhhchHHHHHHHHHHHHHh-cCCCcchhhhcCCCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHHHHH
Q 011434 207 VNIDSNLEDPQVCSLYAPDIYNNIRVTELD-QRPSTTYMEKLQQDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVNLID 285 (486)
Q Consensus 207 ~did~d~~dp~~~seY~~dI~~~L~~~E~~-~~p~~~yl~~~Q~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~llD 285 (486)
.|||.+..||++|..|+.+|++|++..|.. .+|.++||+.+|.++|+.||.++|+|+++|++.+++..+++|++++++|
T Consensus 87 ~~~ds~~~dp~~c~~~~~~I~~~~r~~ei~~~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~d 166 (359)
T KOG0654|consen 87 MRIDSVGEDPQMCLKIAAKIYNTLRVSDIKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRD 166 (359)
T ss_pred cchhhcccchHHHHHHHHHHhhcccccchhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHH
Confidence 789999999999999999999999999999 9999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCchHHHHHHHH
Q 011434 286 RFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKMESQVLNFLHFQLSVPTTKSFLRRFIQ 365 (486)
Q Consensus 286 RfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~ 365 (486)
||+....+.+.++|++|.+|++||+|+||+.+|.+++|++++++.|+..++..||..||..|.|.+..||...|+++|+.
T Consensus 167 rfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~ 246 (359)
T KOG0654|consen 167 RFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLR 246 (359)
T ss_pred HHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcCCChhhHHHHHHHHH
Q 011434 366 AAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTSYKASELKCTVLALE 445 (486)
Q Consensus 366 ~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tgY~~~dL~~~v~~L~ 445 (486)
+.+. +..+++.++.||.|+++.|+.|+.|.||.|||||++||+++++ .++|++.|+++|||+.+||++|+..|.
T Consensus 247 ~~~~----~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~--~~pW~~~L~~~T~y~~edl~~~v~~L~ 320 (359)
T KOG0654|consen 247 VAQT----PELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD--FHPWNQTLEDYTGYKAEDLKPCVLDLH 320 (359)
T ss_pred hhcc----hhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc--CCCCchhhHHhhcccHHHHHHHHHHHh
Confidence 8875 4668899999999999999999999999999999999999999 489999999999999999999999999
Q ss_pred HHHhhcCCCChhhhHhhhCCcccCceeccCCCcchhhhhc
Q 011434 446 DLQLNTDGCSLNAIREKYRQEKFKCVATMTPTERVLSVFS 485 (486)
Q Consensus 446 ~l~~~~~~~~l~aI~~KY~s~kf~~Vs~~~~P~~~~~~~~ 485 (486)
++++..++.+.+|++||++++|++|+.+++| +..++|.
T Consensus 321 -~~l~~~~~~l~air~ky~~~k~~~Va~~~~p-~p~~~~~ 358 (359)
T KOG0654|consen 321 -LYLNASGTDLPAIREKYKQSKFKEVALLPVP-LPHTFVE 358 (359)
T ss_pred -cccCCCCCchHHHHHHhhhhhhhhhhccCCC-Ccchhcc
Confidence 9999999999999999999999999999999 5566664
No 2
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.1e-44 Score=377.22 Aligned_cols=262 Identities=46% Similarity=0.715 Sum_probs=238.1
Q ss_pred CccCCCC-CCCCcchhhchHHHHHHHHHHHHHhcCCCcchhhhcCCCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHHH
Q 011434 205 SIVNIDS-NLEDPQVCSLYAPDIYNNIRVTELDQRPSTTYMEKLQQDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVNL 283 (486)
Q Consensus 205 ~~~did~-d~~dp~~~seY~~dI~~~L~~~E~~~~p~~~yl~~~Q~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~l 283 (486)
.+.|+|. |..||+++.+|+.|||.+|+..|....|.+.+ . .|.+++..||.++||||++||..|+|.+||+|+||+|
T Consensus 108 ~~~dl~~~d~~~~~~~~ey~~di~~~l~~~e~~~~p~~~~-~-~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnl 185 (391)
T KOG0653|consen 108 SILDLDSEDKSDPSMIVEYVQDIFEYLRQLELEFLPLSYD-I-SQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNL 185 (391)
T ss_pred CccCcchhcccCcHHHHHHHHHHHHHHHHHHHhhCchhhh-c-ccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHH
Confidence 5888988 89999999999999999999998655554444 3 4799999999999999999999999999999999999
Q ss_pred HHhhhhcCCCCcccchhhhhhhhh-hhhccccccccCHHHHHhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCchHHHHH
Q 011434 284 IDRFLSQNHIPKQRLQLVGVTCML-IASKYEEIIAPRLEEFCFITDNTYTREEVLKMESQVLNFLHFQLSVPTTKSFLRR 362 (486)
Q Consensus 284 lDRfLs~~~i~~~~lqLva~TCL~-IASK~EE~~~P~i~dl~~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~ 362 (486)
+||||+...+.+.++||||++||| |||||||.++|.++||++++++.||.++|++||+.||++|+|++.+|||+.||++
T Consensus 186 iDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr 265 (391)
T KOG0653|consen 186 IDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRR 265 (391)
T ss_pred HHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHH
Confidence 999999988999999999999977 9999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcCCChhhHHHHHH
Q 011434 363 FIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTSYKASELKCTVL 442 (486)
Q Consensus 363 fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tgY~~~dL~~~v~ 442 (486)
|+++... +.+.+.+++|++|++++|+.++.++||.+|+|++++++.+...+ ..|+.++.+++||...++.+|..
T Consensus 266 ~~ka~~~-----d~~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~-~~w~~~~~~~sg~~~~~~~~~~~ 339 (391)
T KOG0653|consen 266 FLKAADY-----DIKTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKG-DVWSPTLEHYSGYSESYLFECAR 339 (391)
T ss_pred HHHhhhc-----chhHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccC-CccCCCCeeccCCCcHHHHHHHH
Confidence 9998863 45678899999999999999999999999999999999999875 37999999999999999999999
Q ss_pred HHHHHHhhcCCC-Chhh-hHhhhCCcccCceecc
Q 011434 443 ALEDLQLNTDGC-SLNA-IREKYRQEKFKCVATM 474 (486)
Q Consensus 443 ~L~~l~~~~~~~-~l~a-I~~KY~s~kf~~Vs~~ 474 (486)
.+..+....... .... |++||++++|..++.+
T Consensus 340 ~~~~~~~~~~~~~~~~~~~~~ky~~~~~~~~~~~ 373 (391)
T KOG0653|consen 340 SLSALSLSSLQNPSLRASVLNKYNSSKFLPASPH 373 (391)
T ss_pred HHHHHHHHhcccchhHHHHHHHhcccccchhhhh
Confidence 998865544332 4454 9999999999998853
No 3
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=5.1e-44 Score=373.13 Aligned_cols=262 Identities=35% Similarity=0.612 Sum_probs=244.3
Q ss_pred CCccCCCC-CCCCcchhhchHHHHHHHHHHHHHhcCCCcchhhhcCCCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHH
Q 011434 204 PSIVNIDS-NLEDPQVCSLYAPDIYNNIRVTELDQRPSTTYMEKLQQDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVN 282 (486)
Q Consensus 204 ~~~~did~-d~~dp~~~seY~~dI~~~L~~~E~~~~p~~~yl~~~Q~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~ 282 (486)
....|+|. +..||.++.||++||+.||+..|....|.++||.+ |+.+.+.||.+||+||++||..|++.++|+++||+
T Consensus 161 ~~~~dld~~~~~d~~mv~Ey~~~Ife~l~k~e~~~lp~~~yl~k-q~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lain 239 (440)
T COG5024 161 QSWQDLDATDQEDPLMVPEYASDIFEYLLKLELIDLPNPNYLIK-QSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAIN 239 (440)
T ss_pred cCccccccccccCccchHHHHHHHHHHHHHHHHHhcCcHHHHhh-cchhHHhHHHHHHHHHHHhcccccccchHHHHHHH
Confidence 46678887 89999999999999999999999999999999886 88888999999999999999999999999999999
Q ss_pred HHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCchHHHHH
Q 011434 283 LIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKMESQVLNFLHFQLSVPTTKSFLRR 362 (486)
Q Consensus 283 llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~ 362 (486)
++||||+...+.-.++||+|++||||||||||.+.|.+.+|++++++.|+.++|+++|+.||..|+|++..|+|+.|||+
T Consensus 240 iiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRr 319 (440)
T COG5024 240 IIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRR 319 (440)
T ss_pred HHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcC-CChhhHHHHH
Q 011434 363 FIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTS-YKASELKCTV 441 (486)
Q Consensus 363 fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tg-Y~~~dL~~~v 441 (486)
+..+... +.....++.|+++.+++++.|++++||.+||||.++++.++++. .|...|.+|+| |+..++.+++
T Consensus 320 iSka~dy-----d~~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~--~w~~~l~~ySg~y~~~~l~~~~ 392 (440)
T COG5024 320 ISKASDY-----DIFSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQN--QWDRTLIHYSGNYTNPDLKPLN 392 (440)
T ss_pred HHhhccc-----chhhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccC--CCCccccccCCCCCchhHHHHH
Confidence 9887543 44567899999999999999999999999999999999999975 49999999999 9999999999
Q ss_pred HHHHHHHhhcCCCChhhhHhhhCCcccCceecc
Q 011434 442 LALEDLQLNTDGCSLNAIREKYRQEKFKCVATM 474 (486)
Q Consensus 442 ~~L~~l~~~~~~~~l~aI~~KY~s~kf~~Vs~~ 474 (486)
..+.+.+.+.. .++.++.+||+.++|+.++..
T Consensus 393 ~~~~~~l~~~~-~~~~~i~~Ky~~~~~~~~s~~ 424 (440)
T COG5024 393 ESNKENLQNPS-VHHDAIFPKYPSPTFGKASSP 424 (440)
T ss_pred HHHHHHhcccc-hhhhhhhhccccccccccchH
Confidence 98888766543 344999999999999998764
No 4
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.5e-36 Score=298.89 Aligned_cols=214 Identities=30% Similarity=0.488 Sum_probs=188.1
Q ss_pred HHHHHHHHHHHHHhcCCCcchhhhcCCCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhc-CCCCcccchhh
Q 011434 223 APDIYNNIRVTELDQRPSTTYMEKLQQDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQ-NHIPKQRLQLV 301 (486)
Q Consensus 223 ~~dI~~~L~~~E~~~~p~~~yl~~~Q~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~-~~i~~~~lqLv 301 (486)
..++|..|..+|..+.-...|++. ++++.+.||++|+|||++||+.++|.+|||||||-||||||.. +.+.+.+||||
T Consensus 113 ~~eVW~lM~kkee~~l~~~~~l~q-Hpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLI 191 (408)
T KOG0655|consen 113 SKEVWLLMLKKEERYLRDKHFLEQ-HPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLI 191 (408)
T ss_pred HHHHHHHHHccchhhhhhhHHHhh-CCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHh
Confidence 568999999999887766666664 7999999999999999999999999999999999999999965 68999999999
Q ss_pred hhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcccc-------c
Q 011434 302 GVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASHKV-------S 374 (486)
Q Consensus 302 a~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~-------~ 374 (486)
|+||||||+|+||++||.+.+|.++++++||.++|+.||..||+.|+|+|...|...||..|++........ +
T Consensus 192 GitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~ 271 (408)
T KOG0655|consen 192 GITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYS 271 (408)
T ss_pred hHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccc
Confidence 999999999999999999999999999999999999999999999999999999999999999987543221 1
Q ss_pred HHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcCCChhhHHHHHHHHHHH
Q 011434 375 CLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTSYKASELKCTVLALEDL 447 (486)
Q Consensus 375 ~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tgY~~~dL~~~v~~L~~l 447 (486)
..+.-++ ..|++++++|.+.+.|.-+.|||||++.-.. ....++.+||.+.+|.+|+.+|.-+
T Consensus 272 ~~efiqi-aqlLDlc~ldids~~fsYrilaAAal~h~~s---------~e~v~kaSG~~w~~ie~cv~wm~Pf 334 (408)
T KOG0655|consen 272 QEEFIQI-AQLLDLCILDIDSLEFSYRILAAAALCHFTS---------IEVVKKASGLEWDSIEECVDWMVPF 334 (408)
T ss_pred hHHHHHH-HHHHHHHHhccccccchHHHHHHHHHHHHhH---------HHHHHHcccccHHHHHHHHHHHHHH
Confidence 1222223 3578999999999999999999999987432 3456789999999999999998654
No 5
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.9e-33 Score=282.40 Aligned_cols=222 Identities=27% Similarity=0.442 Sum_probs=183.5
Q ss_pred hchHHHHHHHHHHHHHhcCCCcchhhhcCCCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCccc--
Q 011434 220 SLYAPDIYNNIRVTELDQRPSTTYMEKLQQDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQR-- 297 (486)
Q Consensus 220 seY~~dI~~~L~~~E~~~~p~~~yl~~~Q~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~-- 297 (486)
..+.+|++..|...|..+.|..+|...+|..+++.||.++++||.+||.++++.+++++||++||||||+.+.+++++
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 467788999999999999999888777889999999999999999999999999999999999999999999999999
Q ss_pred -chhhhhhhhhhhhccccccccCHHHH-HhhhcCCCCHHHHHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcccccH
Q 011434 298 -LQLVGVTCMLIASKYEEIIAPRLEEF-CFITDNTYTREEVLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASHKVSC 375 (486)
Q Consensus 298 -lqLva~TCL~IASK~EE~~~P~i~dl-~~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~ 375 (486)
+||+|++||+||||+||+..|.+.|+ +..+++.|.++.|.+||..||.+|+|++..+||++|+++|+......... .
T Consensus 122 ~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~-~ 200 (335)
T KOG0656|consen 122 MLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHN-K 200 (335)
T ss_pred HHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccch-H
Confidence 99999999999999999988888776 55779999999999999999999999999999999999999877543222 2
Q ss_pred HHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCC-CCchhhHHhcCCChhhHHHHHH
Q 011434 376 LELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEH-PWNSTLEHYTSYKASELKCTVL 442 (486)
Q Consensus 376 ~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~-~W~~~L~~~tgY~~~dL~~~v~ 442 (486)
..+..-+..++-.+..|..|+.|+||+||+|++.++-..++.... .....+..+.+.+.+.+..|..
T Consensus 201 ~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 201 HLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred HHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 233444566666788999999999999999999887766553211 1113344444445444444443
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=1.6e-25 Score=197.24 Aligned_cols=127 Identities=41% Similarity=0.805 Sum_probs=116.6
Q ss_pred HHHHHHHHHHHhcCCCcchhhhcCCCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhh
Q 011434 225 DIYNNIRVTELDQRPSTTYMEKLQQDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVT 304 (486)
Q Consensus 225 dI~~~L~~~E~~~~p~~~yl~~~Q~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~T 304 (486)
|||++|++.|.++.+.+.|++. |++++..+|..+++||.+++..++++++|+++|+.|+|||+....+.+.+++++|+|
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~-~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~ 79 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQ-QPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALA 79 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTG-TSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHH
T ss_pred CHHHHHHHHHHHHCcCcccccc-ChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhh
Confidence 7999999999999999999985 678999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhccccccccCHHHHHhhhcCCCCHHHHHHHHHHHHHHcCCccc
Q 011434 305 CMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKMESQVLNFLHFQLS 352 (486)
Q Consensus 305 CL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~mE~~IL~~L~f~L~ 352 (486)
||+||+|++|..+|.+.+++.++++.|+.++|.+||+.||+.|+|+++
T Consensus 80 cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 80 CLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred HHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 999999999999999999999999999999999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.90 E-value=8e-23 Score=207.33 Aligned_cols=163 Identities=20% Similarity=0.267 Sum_probs=139.6
Q ss_pred HHHHHHHHHHHHHhhhcC--cchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCC-
Q 011434 254 NMRGILIDWLVEVSEEYK--LVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNT- 330 (486)
Q Consensus 254 ~~R~~LVdWL~eV~~~l~--L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~- 330 (486)
.+|..-+.+|.++|.+|+ |+++|+++|+.||+||+..+++...+.++||+||||||||+||.. .++.+|+......
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~~~~ 132 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFN-VSIDQFVGNLKETP 132 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccC-cCHHHHHhhccCCc
Confidence 678888899999999999 999999999999999999999999999999999999999999984 5789998765544
Q ss_pred -CCHHHHHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcc--cccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHH
Q 011434 331 -YTREEVLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASH--KVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASA 407 (486)
Q Consensus 331 -yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~--~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAa 407 (486)
...++|++||..||+.|+|+|.+++|+.||..|+..++... ......+...|+.++..+++..-++.|+||+||+||
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 36799999999999999999999999999999987654321 111234566677777667766668889999999999
Q ss_pred HHHHHHHhCC
Q 011434 408 VFLAKWTLNQ 417 (486)
Q Consensus 408 I~LA~~~l~~ 417 (486)
|++|...++.
T Consensus 213 I~lA~~~~~~ 222 (305)
T TIGR00569 213 ILHTASRAGL 222 (305)
T ss_pred HHHHHHHhCC
Confidence 9999998875
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.85 E-value=7e-21 Score=193.36 Aligned_cols=202 Identities=18% Similarity=0.220 Sum_probs=172.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhh
Q 011434 248 QQDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFIT 327 (486)
Q Consensus 248 Q~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is 327 (486)
..+-....|.....||.+++.+++++..|+.+|+.|++||+..+.+.....+.+|++|||||+|.||. +..++|++..+
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 33334578999999999999999999999999999999999999999999999999999999999997 77888888765
Q ss_pred cCCCC-------------HHHHHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhc
Q 011434 328 DNTYT-------------REEVLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYS 394 (486)
Q Consensus 328 ~~~yt-------------~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~ 394 (486)
...+. ++.|+..|..||++|+||+++-.||.||..|+..+...... ...+..+|++++..++...-
T Consensus 110 ~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~-~~~~a~~Aw~~~nD~~~t~~ 188 (323)
T KOG0834|consen 110 YRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENL-KQPLAQAAWNFVNDSLRTTL 188 (323)
T ss_pred HHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhc-cccHHHHHHHHhchhheeee
Confidence 43333 56799999999999999999999999999999988764321 12467889999999999998
Q ss_pred ccccCHHHHHHHHHHHHHHHhCCCCCCCchh-hHHhcC--CChhhHHHHHHHHHHHHhhc
Q 011434 395 FLRFRPSLVAASAVFLAKWTLNQSEHPWNST-LEHYTS--YKASELKCTVLALEDLQLNT 451 (486)
Q Consensus 395 fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~-L~~~tg--Y~~~dL~~~v~~L~~l~~~~ 451 (486)
.++|.|..||+|||++|....+...+.|... +....+ .+.++|.+++..+.+++...
T Consensus 189 cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 189 CLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQT 248 (323)
T ss_pred eEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhc
Confidence 8999999999999999999988755656554 556667 88899999999988887543
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=99.84 E-value=9.3e-21 Score=164.18 Aligned_cols=118 Identities=41% Similarity=0.726 Sum_probs=101.8
Q ss_pred CCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcCCC
Q 011434 354 PTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTSYK 433 (486)
Q Consensus 354 pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tgY~ 433 (486)
|||++||++|++.... +.++..+++||+|+++.|+.|+.|+||+||+||+++|+.+++. .+.|+..|..++||+
T Consensus 1 PTp~~Fl~~~~~~~~~-----~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~-~~~~~~~l~~~t~~~ 74 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA-----DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK-EPPWPESLEKLTGYD 74 (118)
T ss_dssp --HHHHHHHHHTSSSH-----HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS-STCSHHHHHHHHTS-
T ss_pred CcHHHHHHHHHHHcCC-----cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc-cccCCccchhhcCCC
Confidence 8999999999664322 4568899999999999999999999999999999999999984 359999999999999
Q ss_pred hhhHHHHHHHHHHHHhhcCCCChhhhHhhhCCcccCceeccCCC
Q 011434 434 ASELKCTVLALEDLQLNTDGCSLNAIREKYRQEKFKCVATMTPT 477 (486)
Q Consensus 434 ~~dL~~~v~~L~~l~~~~~~~~l~aI~~KY~s~kf~~Vs~~~~P 477 (486)
.++|.+|+..|.+++.+.....+.+|++||++.+|++||.+.+|
T Consensus 75 ~~~l~~c~~~i~~~~~~~~~~~~~ai~~Kys~~~~~~vs~~~~~ 118 (118)
T PF02984_consen 75 KEDLKECIELIQELLSKASNSKLQAIRKKYSSQKFSSVSQIPPP 118 (118)
T ss_dssp HHHHHHHHHHHHHHHHHCCGSSCTHHHHHTTSGGGTTGGGSS--
T ss_pred HHHHHHHHHHHHHHHHhcCCccchHHHHHhCccccCCccCCCCC
Confidence 99999999999999887666788999999999999999999877
No 10
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.83 E-value=2.1e-19 Score=179.05 Aligned_cols=198 Identities=19% Similarity=0.261 Sum_probs=171.9
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhc
Q 011434 249 QDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITD 328 (486)
Q Consensus 249 ~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~ 328 (486)
.+-....|..-+.||.+.+.-++|++.+.+.+..||-||+....+.+.++..++++|++||||+||. |-.+.|++.+.+
T Consensus 16 ~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~-Prr~rdVinVFh 94 (367)
T KOG0835|consen 16 LETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE-PRRIRDVINVFH 94 (367)
T ss_pred cchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc-cccHhHHHHHHH
Confidence 3445678999999999999999999999999999999999999999999999999999999999996 566777665442
Q ss_pred C--------C-----------CCHHHHHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHH
Q 011434 329 N--------T-----------YTREEVLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELT 389 (486)
Q Consensus 329 ~--------~-----------yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlels 389 (486)
. . =.+.+++.+|..||+.|+|++++-.|+.++-.|++.++... ...+.+.+|.|+.++
T Consensus 95 ~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~---~~~l~Q~~wNfmNDs 171 (367)
T KOG0835|consen 95 YLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPP---NLKLLQAAWNFMNDS 171 (367)
T ss_pred HHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCC---chhHHHHHHHhhhhc
Confidence 1 0 12567899999999999999999999999999999887643 335778899999999
Q ss_pred hchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcCCChhhHHHHHHHHHHHHhhc
Q 011434 390 LLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTSYKASELKCTVLALEDLQLNT 451 (486)
Q Consensus 390 L~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tgY~~~dL~~~v~~L~~l~~~~ 451 (486)
+...-|+.|+|+.|||||||||...+++. -+..+.|..+.+.+..+|.+++..+..++...
T Consensus 172 lRT~v~vry~pe~iACaciyLaAR~~eIp-Lp~~P~Wf~~Fd~~k~eid~ic~~l~~lY~~~ 232 (367)
T KOG0835|consen 172 LRTDVFVRYSPESIACACIYLAARNLEIP-LPFQPHWFKAFDTTKREIDEICYRLIPLYKRA 232 (367)
T ss_pred cccceeeecCHHHHHHHHHHHHHhhhcCC-CCCCccHHHHcCCcHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999853 34455778999999999999999999998763
No 11
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.73 E-value=2.3e-17 Score=157.70 Aligned_cols=190 Identities=18% Similarity=0.170 Sum_probs=156.0
Q ss_pred HHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhh--------
Q 011434 256 RGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFIT-------- 327 (486)
Q Consensus 256 R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is-------- 327 (486)
+--.-+.|..+++++++.+.++.+|+.||-||+.+.++..-++.|++.||+|||||.||.-...++.++...
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 344557788999999999999999999999999999999999999999999999999997423333333321
Q ss_pred ----cCCCCHHHHHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHH
Q 011434 328 ----DNTYTREEVLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLV 403 (486)
Q Consensus 328 ----~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~I 403 (486)
...|...+|++||..+|..|++.|-+.+|+.-|..+++.++. .+..+..+++.+...++...-.+-|+|.+|
T Consensus 121 ~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi----~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~I 196 (264)
T KOG0794|consen 121 YWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGI----NDQKLLQLAWSIVNDSYRMDLCLLYPPHQI 196 (264)
T ss_pred cchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcc----cchhhhhhhHhhhcchhhcceeeecCHHHH
Confidence 235678889999999999999999999999999999887654 234567889999999998888888999999
Q ss_pred HHHHHHHHHHHhCCCCCCCchhhHHhcCCChhhHHHHHHHHHHHHhhcC
Q 011434 404 AASAVFLAKWTLNQSEHPWNSTLEHYTSYKASELKCTVLALEDLQLNTD 452 (486)
Q Consensus 404 AaAaI~LA~~~l~~~~~~W~~~L~~~tgY~~~dL~~~v~~L~~l~~~~~ 452 (486)
|.|||++|....+.+.+ ..+..-...+.+.+.+|+..+.+++-+-.
T Consensus 197 alAcl~Ia~~~~~k~~~---~~w~~el~vD~ekV~~~v~~I~~lYe~wk 242 (264)
T KOG0794|consen 197 ALACLYIACVIDEKDIP---KAWFAELSVDMEKVKDIVQEILKLYELWK 242 (264)
T ss_pred HHHHHHHHHhhcCCChH---HHHHHHHhccHHHHHHHHHHHHHHHHHHh
Confidence 99999999998876531 23334457888999999999988876543
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=99.72 E-value=7e-17 Score=160.98 Aligned_cols=166 Identities=22% Similarity=0.298 Sum_probs=143.2
Q ss_pred CHHHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcC--
Q 011434 252 TPNMRGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDN-- 329 (486)
Q Consensus 252 t~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~-- 329 (486)
+.+.|-.-..|+..+|.+++++..++.+||.+++||+.+..+....++-|+.||++||||.||. +-.+.-.+....+
T Consensus 41 e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~-~~~I~i~~~~~~~~~ 119 (297)
T COG5333 41 ELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDT-PRDISIESFEARDLW 119 (297)
T ss_pred hhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccc-cchhhHHHHHhhccc
Confidence 3466777789999999999999999999999999999999999999999999999999999996 3334444444432
Q ss_pred ----CCCHHHHHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHH
Q 011434 330 ----TYTREEVLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAA 405 (486)
Q Consensus 330 ----~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAa 405 (486)
.-+++.|.++|..||+.|+|++.+++|+..+..|+..++.... .++.++|+-++..++...-++.|+|..||+
T Consensus 120 se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~---~~~~~~aw~~inDa~~t~~~llypphiIA~ 196 (297)
T COG5333 120 SEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK---YKLLQIAWKIINDALRTDLCLLYPPHIIAL 196 (297)
T ss_pred cccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH---HHHHHHHHHHHHhhhhceeeeecChHHHHH
Confidence 3368889999999999999999999999999999988875432 467889999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCCCc
Q 011434 406 SAVFLAKWTLNQSEHPWN 423 (486)
Q Consensus 406 AaI~LA~~~l~~~~~~W~ 423 (486)
||++.|...++. +.|.
T Consensus 197 a~l~ia~~~~~~--~~~~ 212 (297)
T COG5333 197 AALLIACEVLGM--PIIK 212 (297)
T ss_pred HHHHHHHHhcCC--ccch
Confidence 999999999876 4554
No 13
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=99.48 E-value=8.3e-14 Score=112.82 Aligned_cols=87 Identities=38% Similarity=0.598 Sum_probs=81.8
Q ss_pred HHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHH
Q 011434 256 RGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREE 335 (486)
Q Consensus 256 R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~e 335 (486)
|..+++||.+++..+++++++.++|+.++|||+....+.+.+++++|++||+||+|++|. ++...+++.+++.. +.++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~-~~~~ 79 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYA-TEEE 79 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCC-CHHH
Confidence 678899999999999999999999999999999999999999999999999999999999 88999999887654 9999
Q ss_pred HHHHHHHHH
Q 011434 336 VLKMESQVL 344 (486)
Q Consensus 336 Il~mE~~IL 344 (486)
|.+||..||
T Consensus 80 i~~~e~~il 88 (88)
T cd00043 80 ILRMEKLLL 88 (88)
T ss_pred HHHHHHHhC
Confidence 999999875
No 14
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.43 E-value=1e-11 Score=127.01 Aligned_cols=180 Identities=13% Similarity=0.130 Sum_probs=154.2
Q ss_pred HHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHH
Q 011434 257 GILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEV 336 (486)
Q Consensus 257 ~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eI 336 (486)
.....-|.+++..++|+..+.-.|..|+.+++....+.......++++|||+||+.++. |-++.+++.+++ .+..+|
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 34557789999999999999999999999999998888888999999999999999886 678999998875 689999
Q ss_pred HHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhC
Q 011434 337 LKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLN 416 (486)
Q Consensus 337 l~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~ 416 (486)
.+.++.|++.|++++....|.+|+.+|...++.+ ..+...|.++++.+....-.....|..|||||||+|....+
T Consensus 200 ~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~-----~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g 274 (310)
T PRK00423 200 GRCYRFLLRELNLKLPPTDPIDYVPRFASELGLS-----GEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLG 274 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999999987642 35677888888877655445689999999999999998876
Q ss_pred CCCCCCchhhHHhcCCChhhHHHHHHHHHH
Q 011434 417 QSEHPWNSTLEHYTSYKASELKCTVLALED 446 (486)
Q Consensus 417 ~~~~~W~~~L~~~tgY~~~dL~~~v~~L~~ 446 (486)
.. .--..+...+|.+...|...+..|..
T Consensus 275 ~~--~t~keIa~v~~Vs~~tI~~~ykel~~ 302 (310)
T PRK00423 275 ER--RTQREVAEVAGVTEVTVRNRYKELAE 302 (310)
T ss_pred CC--CCHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 53 23356788889999999888887765
No 15
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=99.41 E-value=4.9e-13 Score=107.27 Aligned_cols=83 Identities=40% Similarity=0.602 Sum_probs=76.4
Q ss_pred HHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHHHH
Q 011434 261 DWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKME 340 (486)
Q Consensus 261 dWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~mE 340 (486)
+||.+++..+++++++.++|++++|||+....+.+..++++|++||+||+|++|.. |...++..+++. |+.++|.+||
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 59999999999999999999999999999877778999999999999999999985 677888888876 8999999999
Q ss_pred HHHHH
Q 011434 341 SQVLN 345 (486)
Q Consensus 341 ~~IL~ 345 (486)
+.||.
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 99973
No 16
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair]
Probab=99.34 E-value=3.4e-11 Score=119.87 Aligned_cols=152 Identities=23% Similarity=0.304 Sum_probs=118.0
Q ss_pred HHHHHHHhhhc--CcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcC--CCCHHH
Q 011434 260 IDWLVEVSEEY--KLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDN--TYTREE 335 (486)
Q Consensus 260 VdWL~eV~~~l--~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~--~yt~~e 335 (486)
..-+++.+..| .|+..++.+|+.+|-||+..+++..-..+.|.+||+|+|||+||.++ ++++|+.-..+ .=+.+.
T Consensus 60 E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~I-SieqFvkn~~~~~~k~~e~ 138 (325)
T KOG2496|consen 60 ELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYI-SIEQFVKNMNGRKWKTHEI 138 (325)
T ss_pred HHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhhee-cHHHHHhhccCcccccHHH
Confidence 34455556555 57899999999999999999999999999999999999999999754 78999875442 246889
Q ss_pred HHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcc---cccHHH-HHHHHHHHHHHHhchhcccccCHHHHHHHHHHHH
Q 011434 336 VLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASH---KVSCLE-LEFLANYLAELTLLEYSFLRFRPSLVAASAVFLA 411 (486)
Q Consensus 336 Il~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~---~~~~~e-l~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA 411 (486)
|+..|..+|+.|+|++.+.+|+.-++.|+..++.-. .+++.. ......-+++-+++...++-|+||+||.|||+-|
T Consensus 139 vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a 218 (325)
T KOG2496|consen 139 VLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHA 218 (325)
T ss_pred HHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHH
Confidence 999999999999999999999999999987665421 122211 1122234555566666667799999999999555
Q ss_pred H
Q 011434 412 K 412 (486)
Q Consensus 412 ~ 412 (486)
.
T Consensus 219 ~ 219 (325)
T KOG2496|consen 219 A 219 (325)
T ss_pred h
Confidence 3
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.71 E-value=7.8e-07 Score=90.04 Aligned_cols=181 Identities=13% Similarity=0.153 Sum_probs=155.1
Q ss_pred HHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHH
Q 011434 256 RGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREE 335 (486)
Q Consensus 256 R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~e 335 (486)
-......|-.++..++|+..+.-.|..++=+.+....+.....+-++++|+|+||+.... |-++.++..+.+ .++.+
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 445677888899999999999999999999999999999999999999999999999886 678888888877 68899
Q ss_pred HHHHHHHHHHHcCCcccCCCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHh
Q 011434 336 VLKMESQVLNFLHFQLSVPTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTL 415 (486)
Q Consensus 336 Il~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l 415 (486)
|.++.+.+...|+=.+...-|.+|+.+|...++-+ .++...|..|+..+...--...-.|+-||+||||+|..+.
T Consensus 174 i~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~-----~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~ 248 (285)
T COG1405 174 IGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLS-----DEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLL 248 (285)
T ss_pred HHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHh
Confidence 99999999999999999999999999999988652 4667788888888877766679999999999999999988
Q ss_pred CCCCCCCchhhHHhcCCChhhHHHHHHHHHH
Q 011434 416 NQSEHPWNSTLEHYTSYKASELKCTVLALED 446 (486)
Q Consensus 416 ~~~~~~W~~~L~~~tgY~~~dL~~~v~~L~~ 446 (486)
+. +.--....+++|.++.-|+.-.+.|.+
T Consensus 249 ~~--~~tq~eva~v~~vtevTIrnrykel~~ 277 (285)
T COG1405 249 GE--RRTQKEVAKVAGVTEVTIRNRYKELAD 277 (285)
T ss_pred CC--chHHHHHHHHhCCeeeHHHHHHHHHHH
Confidence 74 233356788889988888877766654
No 18
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.70 E-value=4.2e-07 Score=90.78 Aligned_cols=178 Identities=12% Similarity=0.145 Sum_probs=145.6
Q ss_pred HHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHH
Q 011434 259 LIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLK 338 (486)
Q Consensus 259 LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~ 338 (486)
...-|..+++.++|+...--.|-.+|-+|-..+........-++++||+|||.-++. |-++.+++.+++ .++.||-+
T Consensus 107 a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~-pRT~kEI~~~an--v~kKEIgr 183 (308)
T KOG1597|consen 107 AFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDV-PRTFKEISAVAN--VSKKEIGR 183 (308)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCC-CchHHHHHHHHc--CCHHHHHH
Confidence 344577889999999999999999999999888888889999999999999998886 788999998887 89999999
Q ss_pred HHHHHHHHcCCcccCCC--chHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhC
Q 011434 339 MESQVLNFLHFQLSVPT--TKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLN 416 (486)
Q Consensus 339 mE~~IL~~L~f~L~~pT--p~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~ 416 (486)
.=..|+..|+-.+...| .-+|+.+|...++-. .+....|.++.+-+..--....-.|=.||||+||++..+.+
T Consensus 184 ~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~-----~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~ 258 (308)
T KOG1597|consen 184 CVKLIGEALETSVDLISISTGDFMPRFCSNLGLP-----KSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSD 258 (308)
T ss_pred HHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCC-----HHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhcc
Confidence 99999999998887776 889999999887642 34455677777654332222357899999999999998776
Q ss_pred CCCCCCchhhHHhcCCChhhHHHHHHHHHH
Q 011434 417 QSEHPWNSTLEHYTSYKASELKCTVLALED 446 (486)
Q Consensus 417 ~~~~~W~~~L~~~tgY~~~dL~~~v~~L~~ 446 (486)
. +.-...+...+|..+--|+..+..|+.
T Consensus 259 ~--kkt~keI~~vtgVaE~TIr~sYK~Lyp 286 (308)
T KOG1597|consen 259 E--KKTQKEIGEVTGVAEVTIRNSYKDLYP 286 (308)
T ss_pred C--cccHHHHHHHhhhhHHHHHHHHHHHhh
Confidence 3 344567888999999888888877754
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=98.60 E-value=2e-07 Score=74.41 Aligned_cols=81 Identities=38% Similarity=0.523 Sum_probs=68.9
Q ss_pred HHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcCC-Chhh
Q 011434 358 SFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTSY-KASE 436 (486)
Q Consensus 358 ~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tgY-~~~d 436 (486)
+|+.++...++. +.++..+|.++++.++.++.+..++|+.||+||+++|.+..+. +.|...+..++|+ +.++
T Consensus 1 ~~l~~~~~~~~~-----~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~--~~~~~~~~~~~~~~~~~~ 73 (83)
T smart00385 1 DFLRRVCKALNL-----DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEI--PPWTKELVHYTGYFTEEE 73 (83)
T ss_pred CHHHHHHHHcCC-----CHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcC--CCCchhHhHhhCCCCHHH
Confidence 367777766543 3467789999999999999999999999999999999999886 4799999999999 9999
Q ss_pred HHHHHHHHH
Q 011434 437 LKCTVLALE 445 (486)
Q Consensus 437 L~~~v~~L~ 445 (486)
+.++...|.
T Consensus 74 i~~~~~~il 82 (83)
T smart00385 74 ILRMEKLLL 82 (83)
T ss_pred HHHHHHHHh
Confidence 998877653
No 20
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=98.52 E-value=4e-07 Score=83.69 Aligned_cols=91 Identities=18% Similarity=0.318 Sum_probs=71.8
Q ss_pred HHHHHHHHhhhcCcchHHHHHHHHHHHhhhh---c--CCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCH
Q 011434 259 LIDWLVEVSEEYKLVPDTLYLTVNLIDRFLS---Q--NHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTR 333 (486)
Q Consensus 259 LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs---~--~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~ 333 (486)
+.+|+.++....+++++++-+|..|+||+.. . ..+...+.+-+-++||.||+|+-+........+..+++ ++.
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 2 24566778888999999999997777777888888865 799
Q ss_pred HHHHHHHHHHHHHcCCcc
Q 011434 334 EEVLKMESQVLNFLHFQL 351 (486)
Q Consensus 334 ~eIl~mE~~IL~~L~f~L 351 (486)
.|+-.||+..|..|+|+|
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 21
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=98.48 E-value=8.6e-07 Score=71.38 Aligned_cols=85 Identities=39% Similarity=0.446 Sum_probs=74.0
Q ss_pred CCCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcCC
Q 011434 353 VPTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTSY 432 (486)
Q Consensus 353 ~pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tgY 432 (486)
.|++.+|+.++...++. ..+...+|.++++.++....+..+.|+.||+||+++|.+..+. +.|...+..++++
T Consensus 2 ~~~~~~~l~~~~~~~~~-----~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~--~~~~~~~~~~~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGL-----SPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI--PPWLKDLVHVTGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCC-----CHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC--CCCHHHHhHHhCC
Confidence 57899999999887743 3456788999999999999999999999999999999998876 7999999999999
Q ss_pred -ChhhHHHHHHHH
Q 011434 433 -KASELKCTVLAL 444 (486)
Q Consensus 433 -~~~dL~~~v~~L 444 (486)
+.+++..+...+
T Consensus 75 ~~~~~i~~~e~~i 87 (88)
T cd00043 75 ATEEEILRMEKLL 87 (88)
T ss_pred CCHHHHHHHHHHh
Confidence 999988776543
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.84 E-value=8.3e-06 Score=84.14 Aligned_cols=142 Identities=20% Similarity=0.316 Sum_probs=104.3
Q ss_pred CCCcchhhchHHHHHHHHHHHHHhcCCCcchhhhcC-CCCCHHHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcC
Q 011434 213 LEDPQVCSLYAPDIYNNIRVTELDQRPSTTYMEKLQ-QDITPNMRGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQN 291 (486)
Q Consensus 213 ~~dp~~~seY~~dI~~~L~~~E~~~~p~~~yl~~~Q-~~It~~~R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~ 291 (486)
++++...+.|.--+..|.+-...+...+..|-++.. -.+|-.-=..|-.-|.+++...++..-|+.+|..||.....+.
T Consensus 338 hk~~l~F~symttvidyVrpsdlKkdmNe~FreKfP~IkLTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkg 417 (497)
T KOG4164|consen 338 HKRVLIFSSYMTTVIDYVRPSDLKKDMNETFREKFPHIKLTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKG 417 (497)
T ss_pred ccceeEeccccceeEEEechHHHHHHHhHHHHHhCCeeEEeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhh
Confidence 444444555555555555544444333334433321 1123322233455678888899999999999999999999999
Q ss_pred CCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcC--CCCHHHHHHHHHHHHHHcCCcccCC
Q 011434 292 HIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDN--TYTREEVLKMESQVLNFLHFQLSVP 354 (486)
Q Consensus 292 ~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~--~yt~~eIl~mE~~IL~~L~f~L~~p 354 (486)
.+.+.+-+|+|.+||++|+|+.|..--.++.++.-.+. .+.+.|++..|.-||-+|+|.|+.|
T Consensus 418 lisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 418 LISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred hhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 99999999999999999999998777777777765544 4679999999999999999999876
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.09 E-value=0.0028 Score=68.43 Aligned_cols=173 Identities=15% Similarity=0.114 Sum_probs=130.4
Q ss_pred CCcchhhhcCCCCC--HHHHHHHHH----HHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhcc
Q 011434 239 PSTTYMEKLQQDIT--PNMRGILID----WLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKY 312 (486)
Q Consensus 239 p~~~yl~~~Q~~It--~~~R~~LVd----WL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~ 312 (486)
+.-+|+...|.+.+ -+.|..-+. -|-+++..+++.. .+-.|.++|---+..+-.+....++|-.+||||+|..
T Consensus 44 ~~G~~v~~~~~g~~~s~e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~ 122 (521)
T KOG1598|consen 44 AQGQFVRVGQSGAGSSLESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRL 122 (521)
T ss_pred cceeEEeccccCCccchHHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHh
Confidence 34455554455554 234444332 5788999999999 9999999999999888888888999999999999999
Q ss_pred ccccccCHHHHHhhhcCCCCHHHHHHHHHHHHHHcCCc---ccCCCchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHH
Q 011434 313 EEIIAPRLEEFCFITDNTYTREEVLKMESQVLNFLHFQ---LSVPTTKSFLRRFIQAAQASHKVSCLELEFLANYLAELT 389 (486)
Q Consensus 313 EE~~~P~i~dl~~is~~~yt~~eIl~mE~~IL~~L~f~---L~~pTp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlels 389 (486)
|-.....+ ||..+.. .+.-++-.+=+.+...|.-+ +...-|.-|+.+|...+..... ..++...|..|+.-.
T Consensus 123 e~t~hlli-DfS~~Lq--v~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~--~~~Vv~~a~~L~~rM 197 (521)
T KOG1598|consen 123 EKTDHLLI-DFSSYLQ--VSVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDK--TEDVAKTATRLAQRM 197 (521)
T ss_pred hCCceEEE-EeccceE--EehhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCc--hHHHHHHHHHHHHHH
Confidence 87633222 3333222 45556666667777777777 6677788899999877755443 366777889999988
Q ss_pred hchhcccccCHHHHHHHHHHHHHHHhCC
Q 011434 390 LLEYSFLRFRPSLVAASAVFLAKWTLNQ 417 (486)
Q Consensus 390 L~d~~fl~y~PS~IAaAaI~LA~~~l~~ 417 (486)
..|+....-+|+-|+-|||++|..+.|.
T Consensus 198 krdwm~tGRRPsglcGAaLliAar~h~~ 225 (521)
T KOG1598|consen 198 KRDWMQTGRRPSGLCGAALLIAARMHGF 225 (521)
T ss_pred HHHHHHhCCCccchhHHHHHHHHHHcCc
Confidence 8999999999999999999999988764
No 24
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=96.08 E-value=0.018 Score=45.98 Aligned_cols=65 Identities=9% Similarity=0.208 Sum_probs=52.9
Q ss_pred HHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhc
Q 011434 263 LVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITD 328 (486)
Q Consensus 263 L~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~ 328 (486)
|-.++..++|+..+.-.|..++++-............-++++|+|+||+.+.. +-++.++...++
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 45789999999999999999999998888777788999999999999998865 557788776654
No 25
>KOG1674 consensus Cyclin [General function prediction only]
Probab=95.13 E-value=0.054 Score=53.15 Aligned_cols=94 Identities=21% Similarity=0.348 Sum_probs=71.4
Q ss_pred HHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCC---------CCccc-chhhhhhhhhhhhccccccccCHHHHHhhhc
Q 011434 259 LIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNH---------IPKQR-LQLVGVTCMLIASKYEEIIAPRLEEFCFITD 328 (486)
Q Consensus 259 LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~---------i~~~~-lqLva~TCL~IASK~EE~~~P~i~dl~~is~ 328 (486)
+-+++..+....+.+++++-+|..|||||..... +..-+ ..-.-++|+.+|+|+.+...-.-.-+..+
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 3456777778888999999999999999998622 22223 44567899999999987543333333333
Q ss_pred CCCCHHHHHHHHHHHHHHcCCcccCC
Q 011434 329 NTYTREEVLKMESQVLNFLHFQLSVP 354 (486)
Q Consensus 329 ~~yt~~eIl~mE~~IL~~L~f~L~~p 354 (486)
++.+.+++-.+|...|..++|++.++
T Consensus 156 ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 56789999999999999999999886
No 26
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=94.87 E-value=0.068 Score=54.41 Aligned_cols=92 Identities=17% Similarity=0.227 Sum_probs=68.5
Q ss_pred HHHHhhhcCcchHHHHHHHHHHHhhhhcCCC--CcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHHHH
Q 011434 263 LVEVSEEYKLVPDTLYLTVNLIDRFLSQNHI--PKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKME 340 (486)
Q Consensus 263 L~eV~~~l~L~~eTl~lAV~llDRfLs~~~i--~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~mE 340 (486)
+...+....|..+.--....|++|.+.-... ...+...+..-.+++|+|+-....-.--|.|.|+.. .|.+|+-.||
T Consensus 197 v~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd-~tveDmNe~E 275 (343)
T KOG1675|consen 197 VRILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKD-QSVDDMNALE 275 (343)
T ss_pred hhhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhh-ccHhhHHHHH
Confidence 3344444555666666677788888765433 366677777778999999977655555677777765 4899999999
Q ss_pred HHHHHHcCCcccCCC
Q 011434 341 SQVLNFLHFQLSVPT 355 (486)
Q Consensus 341 ~~IL~~L~f~L~~pT 355 (486)
+.+|..|+|++++|-
T Consensus 276 RqfLelLqfNinvp~ 290 (343)
T KOG1675|consen 276 RQFLELLQFNINVPS 290 (343)
T ss_pred HHHHHHHhhccCccH
Confidence 999999999999984
No 27
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=93.53 E-value=0.39 Score=49.45 Aligned_cols=89 Identities=12% Similarity=0.122 Sum_probs=74.5
Q ss_pred HHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHHH
Q 011434 260 IDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKM 339 (486)
Q Consensus 260 VdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~m 339 (486)
.++|..++..++|+.++.-.|..++.+.....-....+..-++++|+||||+.... +.+..++..+++ .+...|...
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 58899999999999999999999999888766667788999999999999998764 457888877754 678888888
Q ss_pred HHHHHHHcCCcc
Q 011434 340 ESQVLNFLHFQL 351 (486)
Q Consensus 340 E~~IL~~L~f~L 351 (486)
=++|+..|+..+
T Consensus 297 ykel~~~l~~~~ 308 (310)
T PRK00423 297 YKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHhCccc
Confidence 888888776543
No 28
>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=92.94 E-value=0.71 Score=36.72 Aligned_cols=58 Identities=10% Similarity=-0.003 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcCCChhh
Q 011434 377 ELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTSYKASE 436 (486)
Q Consensus 377 el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tgY~~~d 436 (486)
.+...|..+.+.+....-...-.|..|||||||+|....+.. .--..+...+|.+..+
T Consensus 13 ~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~--~t~~eIa~~~~Vs~~t 70 (71)
T PF00382_consen 13 DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVP--RTLKEIAEAAGVSEKT 70 (71)
T ss_dssp HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSS--SSHHHHHHHCTSSHHH
T ss_pred HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCC--cCHHHHHHHhCCCCCc
Confidence 566778888877666555567889999999999999987652 3334556666665543
No 29
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=91.90 E-value=0.59 Score=39.81 Aligned_cols=87 Identities=16% Similarity=0.171 Sum_probs=62.1
Q ss_pred HHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHHH
Q 011434 260 IDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKM 339 (486)
Q Consensus 260 VdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~m 339 (486)
.+||.......+...++.++|-++++..+....+-.-..-+||++|+++|.+.-...++.-..+..++ +|+.++|..+
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 45666665545567788899999999888777777788899999999999999653334445566665 4688888877
Q ss_pred HHHHHHHcC
Q 011434 340 ESQVLNFLH 348 (486)
Q Consensus 340 E~~IL~~L~ 348 (486)
=..|.+.+.
T Consensus 82 ~~~i~~~~~ 90 (118)
T PF02984_consen 82 IELIQELLS 90 (118)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 666665554
No 30
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=86.82 E-value=0.82 Score=47.48 Aligned_cols=95 Identities=16% Similarity=0.163 Sum_probs=71.7
Q ss_pred HHHHHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHH--HhhhcCCCCH
Q 011434 256 RGILIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEF--CFITDNTYTR 333 (486)
Q Consensus 256 R~~LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl--~~is~~~yt~ 333 (486)
-.-|++|+..+....+........|-+++-..+...-.-....+-||++||+||+|+-....|...+- ....+...|.
T Consensus 152 y~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~ 231 (323)
T KOG0834|consen 152 YKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTN 231 (323)
T ss_pred hHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCH
Confidence 34577777777766666556677777777766666667778889999999999999977655555444 5566777999
Q ss_pred HHHHHHHHHHHHHcCCc
Q 011434 334 EEVLKMESQVLNFLHFQ 350 (486)
Q Consensus 334 ~eIl~mE~~IL~~L~f~ 350 (486)
+++.++.-++|..+.-+
T Consensus 232 e~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 232 ELLDDICHEFLDLYEQT 248 (323)
T ss_pred HHHHHHHHHHHHHHhhc
Confidence 99999988888877544
No 31
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=79.64 E-value=12 Score=32.35 Aligned_cols=62 Identities=24% Similarity=0.239 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhcC--CChhhHHH
Q 011434 377 ELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYTS--YKASELKC 439 (486)
Q Consensus 377 el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~tg--Y~~~dL~~ 439 (486)
....+|-++++..+....+....+..+|+||+++|.++.+. .+++...+..+++ |+.++|..
T Consensus 50 ~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~-~~~~~~~~~~~~~~~~~~~~i~~ 113 (127)
T PF00134_consen 50 ETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEED-NPPSISDLIRISDNTFTKKDILE 113 (127)
T ss_dssp HHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTS-S--HHHHHHHHTTTSSHHHHHHH
T ss_pred hHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcc-ccchHHHHHHHHcCCCCHHHHHH
Confidence 34556777777777766778899999999999999998765 2466666666663 56666654
No 32
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=74.93 E-value=13 Score=38.05 Aligned_cols=68 Identities=7% Similarity=0.073 Sum_probs=56.1
Q ss_pred HHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhh
Q 011434 259 LIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFIT 327 (486)
Q Consensus 259 LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is 327 (486)
-.+++-..+..|+|+.++--.|..+++..............-+|++|+||||..... .-+-.++..++
T Consensus 194 p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~-~~tq~eva~v~ 261 (285)
T COG1405 194 PSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGE-RRTQKEVAKVA 261 (285)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCC-chHHHHHHHHh
Confidence 367888999999999999999999999999888777888999999999999999763 23334444443
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=44.68 E-value=1.3e+02 Score=27.39 Aligned_cols=80 Identities=19% Similarity=0.121 Sum_probs=45.1
Q ss_pred CchHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhc-----hhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHh
Q 011434 355 TTKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLL-----EYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHY 429 (486)
Q Consensus 355 Tp~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~-----d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~ 429 (486)
+..+|+.+++.....+ .....+|-++++-... ....-...+.-+=.+|+.+|.+.++- ...|+..+..+
T Consensus 53 ~i~~fl~ri~~~~~~s-----~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D-~~~~n~~~a~v 126 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCS-----PECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDD-NTYSNKSWAKV 126 (149)
T ss_dssp -HHHHHHHHHHHTT-------HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-S-S---HHHHHHH
T ss_pred cHHHHHHHHHHHcCCC-----hHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhccc-ccccHHHHHhh
Confidence 3456777766654322 1223334333333222 12233566778889999999999875 36789999999
Q ss_pred cCCChhhHHHH
Q 011434 430 TSYKASELKCT 440 (486)
Q Consensus 430 tgY~~~dL~~~ 440 (486)
+|++..||...
T Consensus 127 ~gis~~eln~l 137 (149)
T PF08613_consen 127 GGISLKELNEL 137 (149)
T ss_dssp HTS-HHHHHHH
T ss_pred cCCCHHHHHHH
Confidence 99999888643
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=42.46 E-value=71 Score=33.44 Aligned_cols=61 Identities=16% Similarity=0.242 Sum_probs=40.6
Q ss_pred HHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhcCCCCHHHHHHH
Q 011434 277 LYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITDNTYTREEVLKM 339 (486)
Q Consensus 277 l~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~~~yt~~eIl~m 339 (486)
+..+-+|+.--+-...+.+.....||++|+++|+..+|+-.|...++..+. .+++.+|-..
T Consensus 161 ~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~F--d~~k~eid~i 221 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAF--DTTKREIDEI 221 (367)
T ss_pred HHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHc--CCcHHHHHHH
Confidence 444555555555555667778899999999999999996555544544443 3456665444
No 35
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=37.13 E-value=78 Score=32.75 Aligned_cols=38 Identities=21% Similarity=0.193 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCC
Q 011434 380 FLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQ 417 (486)
Q Consensus 380 ~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~ 417 (486)
..|..++.--++...+..|.|-.||++|+|||.++-+.
T Consensus 80 aTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~ 117 (305)
T TIGR00569 80 GTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEF 117 (305)
T ss_pred HHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcccc
Confidence 34444454455566677899999999999999987553
No 36
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=33.68 E-value=1.1e+02 Score=31.67 Aligned_cols=69 Identities=7% Similarity=0.059 Sum_probs=51.4
Q ss_pred HHHHHHHHhhhcCcchHHHHHHHHHHHhhhhcCCCCcccchhhhhhhhhhhhccccccccCHHHHHhhhc
Q 011434 259 LIDWLVEVSEEYKLVPDTLYLTVNLIDRFLSQNHIPKQRLQLVGVTCMLIASKYEEIIAPRLEEFCFITD 328 (486)
Q Consensus 259 LVdWL~eV~~~l~L~~eTl~lAV~llDRfLs~~~i~~~~lqLva~TCL~IASK~EE~~~P~i~dl~~is~ 328 (486)
.-++|...|..|+|+..+.-.|..+-..+--...+.....--|+++++|+++-..+ ..-+..++..+++
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~-~kkt~keI~~vtg 271 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSD-EKKTQKEIGEVTG 271 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhcc-CcccHHHHHHHhh
Confidence 45777888888888888888887777777666666667777888899999998877 4555666665544
No 37
>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=30.09 E-value=3.4e+02 Score=22.87 Aligned_cols=90 Identities=16% Similarity=0.228 Sum_probs=53.3
Q ss_pred chHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHhchhcccccCHHHHHHHHHHHHHHHhCCCCCCCchhhHHhc---CC
Q 011434 356 TKSFLRRFIQAAQASHKVSCLELEFLANYLAELTLLEYSFLRFRPSLVAASAVFLAKWTLNQSEHPWNSTLEHYT---SY 432 (486)
Q Consensus 356 p~~FL~~fl~~~~~~~~~~~~el~~lA~yLlelsL~d~~fl~y~PS~IAaAaI~LA~~~l~~~~~~W~~~L~~~t---gY 432 (486)
..+||--...++....+ -..++..++..-+--+|..+...-.+|-.|.|+.++.....-+-...+|+-.|+.+. ++
T Consensus 4 ~tdflip~c~alkipe~-~wpql~e~~s~tickaliqpniall~p~licaggllttiet~ntn~~~wt~yledl~~ilnf 82 (106)
T PF09241_consen 4 STDFLIPVCHALKIPED-FWPQLFEATSITICKALIQPNIALLPPCLICAGGLLTTIETDNTNCQPWTCYLEDLSCILNF 82 (106)
T ss_dssp GGGGHHHHHHHTT--GG-GHHHHHHHHHHHHHHHTTSGGGGGS-HHHHHHHHHHHHHHTS-TSSSTCHHHHHHHHHHHTC
T ss_pred hhhhHHHhhhhccCcHH-HhHHHHHHHHHHHHHHHcCCCccccCcceeecccceEEEeccCCCCcchhhhHHhhHHHhhc
Confidence 34566555554433221 123444444333334678888889999999999999998877666678987665543 45
Q ss_pred ChhhHHHHHHHHHH
Q 011434 433 KASELKCTVLALED 446 (486)
Q Consensus 433 ~~~dL~~~v~~L~~ 446 (486)
+..-++..-..+.+
T Consensus 83 stntirt~kdqv~e 96 (106)
T PF09241_consen 83 STNTIRTVKDQVSE 96 (106)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred ccchhhhHHHHHHH
Confidence 55555554444444
No 38
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=25.32 E-value=2.2e+02 Score=28.53 Aligned_cols=53 Identities=17% Similarity=0.224 Sum_probs=33.5
Q ss_pred chhcccccCHHHHHHHHHHHHHHHhCCC--------------CCCCchhhHHhcCCChhhHHHHHHHH
Q 011434 391 LEYSFLRFRPSLVAASAVFLAKWTLNQS--------------EHPWNSTLEHYTSYKASELKCTVLAL 444 (486)
Q Consensus 391 ~d~~fl~y~PS~IAaAaI~LA~~~l~~~--------------~~~W~~~L~~~tgY~~~dL~~~v~~L 444 (486)
.-..+-.+.|-.+|..|+|||.++-..+ ...|. .....+.|...++.++-..+
T Consensus 74 ~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~-~~~e~~~~~~~~I~e~Ef~l 140 (264)
T KOG0794|consen 74 LRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFS-YWPEKFPYERKDILEMEFYL 140 (264)
T ss_pred HHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcc-cchhhcCCCcCcchhhhhhH
Confidence 3344778999999999999999865431 01232 23445566666666654333
No 39
>KOG2145 consensus Cytoplasmic tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=23.60 E-value=59 Score=33.63 Aligned_cols=64 Identities=30% Similarity=0.267 Sum_probs=41.1
Q ss_pred Ccccccccccccc----ccccccCCCcchhHHHHHHhccCCCCCCCCCCCCCccccchhcccccCCCCccccc
Q 011434 4 SSSRHVNINKENK----THAKIEEPTSRITRAKAKALGTSGGIFPSSKPTFKPDHKHVLRMNSKRGASDENKA 72 (486)
Q Consensus 4 ~~~~~~~~~k~n~----~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kr~~~~~~~~ 72 (486)
||-.|.--++.|+ -++-.|.|--|+||--|.+|+.+. |.+-..++=.. ..++++|..|||.|.+
T Consensus 220 sSFp~if~~~~~~~CLiPcAiDQDPyFRmtRDvA~rlg~~K--pali~stffpa---LqG~~~KMSASdpns~ 287 (397)
T KOG2145|consen 220 SSFPFIFGGRDDIPCLIPCAIDQDPYFRMTRDVAPRLGYPK--PALIHSTFFPA---LQGAQTKMSASDPNSA 287 (397)
T ss_pred ccchhhcCCCcCCceeceeeccCChHHHhhhhhhhhhCCCC--cceeehhhchh---hhCcccccccCCCCce
Confidence 4456665555544 344558999999999999999863 22222222111 1245899999999843
Done!