Query 020177
Match_columns 330
No_of_seqs 277 out of 1729
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 07:39:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020177.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020177hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0656 G1/S-specific cyclin D 100.0 3.5E-52 7.6E-57 388.5 23.5 254 10-264 9-268 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 1.8E-37 3.8E-42 283.0 16.8 218 39-272 112-337 (408)
3 KOG0653 Cyclin B and related k 100.0 8E-34 1.7E-38 276.0 19.3 222 39-273 126-348 (391)
4 COG5024 Cyclin [Cell division 100.0 6.6E-34 1.4E-38 274.8 15.0 225 39-276 180-405 (440)
5 KOG0654 G2/Mitotic-specific cy 100.0 3.9E-29 8.5E-34 235.8 10.3 225 42-278 105-330 (359)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 2.6E-25 5.6E-30 183.0 13.1 127 42-174 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 7.9E-24 1.7E-28 198.5 18.9 191 72-270 54-252 (305)
8 KOG0834 CDK9 kinase-activating 99.9 3.6E-24 7.7E-29 200.7 15.9 200 71-275 36-250 (323)
9 KOG0835 Cyclin L [General func 99.9 1E-20 2.2E-25 173.5 18.6 196 69-272 18-231 (367)
10 KOG0794 CDK8 kinase-activating 99.8 1.1E-19 2.4E-24 159.5 9.7 189 74-272 41-240 (264)
11 COG5333 CCL1 Cdk activating ki 99.8 6.9E-18 1.5E-22 154.9 13.9 187 39-237 16-207 (297)
12 PRK00423 tfb transcription ini 99.6 2.7E-13 5.8E-18 128.5 21.5 183 74-270 122-304 (310)
13 cd00043 CYCLIN Cyclin box fold 99.5 2.3E-13 5E-18 103.1 8.8 86 74-166 2-88 (88)
14 PF02984 Cyclin_C: Cyclin, C-t 99.4 1.7E-13 3.7E-18 110.6 7.1 93 176-274 1-93 (118)
15 smart00385 CYCLIN domain prese 99.4 8.2E-13 1.8E-17 99.1 7.6 83 79-167 1-83 (83)
16 KOG2496 Cdk activating kinase 99.4 6.9E-12 1.5E-16 114.8 14.5 154 78-236 60-222 (325)
17 COG1405 SUA7 Transcription ini 99.0 5.9E-08 1.3E-12 90.5 19.0 184 72-269 95-278 (285)
18 KOG1597 Transcription initiati 98.9 1.6E-07 3.5E-12 86.1 17.0 184 73-270 103-288 (308)
19 PF08613 Cyclin: Cyclin; Inte 98.4 1.4E-06 3E-11 74.0 9.2 94 76-173 53-149 (149)
20 smart00385 CYCLIN domain prese 98.2 1.1E-05 2.4E-10 59.9 8.4 81 180-267 1-82 (83)
21 cd00043 CYCLIN Cyclin box fold 98.2 1.6E-05 3.4E-10 59.6 9.2 85 175-266 2-87 (88)
22 KOG4164 Cyclin ik3-1/CABLES [C 98.1 3.8E-06 8.2E-11 79.8 4.3 105 69-176 377-482 (497)
23 KOG1598 Transcription initiati 97.7 0.00073 1.6E-08 67.2 13.2 173 56-237 44-224 (521)
24 PF00382 TFIIB: Transcription 96.1 0.044 9.5E-07 40.2 8.1 62 81-146 1-62 (71)
25 KOG1674 Cyclin [General functi 96.1 0.023 5E-07 51.3 7.5 97 77-176 78-181 (218)
26 PF00382 TFIIB: Transcription 95.8 0.059 1.3E-06 39.5 7.4 71 182-259 1-71 (71)
27 PRK00423 tfb transcription ini 93.5 0.7 1.5E-05 43.9 10.3 89 78-173 220-308 (310)
28 KOG1675 Predicted cyclin [Gene 86.7 1.1 2.4E-05 42.1 4.8 91 84-178 200-291 (343)
29 PF02984 Cyclin_C: Cyclin, C-t 84.7 3.3 7.1E-05 32.5 6.2 87 78-170 4-90 (118)
30 PF09080 K-cyclin_vir_C: K cyc 79.6 24 0.00053 27.0 8.6 91 178-270 4-99 (106)
31 KOG0834 CDK9 kinase-activating 78.9 2.7 5.9E-05 40.1 4.3 92 75-169 153-245 (323)
32 COG1405 SUA7 Transcription ini 75.8 15 0.00033 34.5 8.3 89 75-170 192-280 (285)
33 KOG1597 Transcription initiati 69.6 27 0.00059 32.8 8.2 83 180-270 109-192 (308)
34 KOG0835 Cyclin L [General func 67.9 26 0.00056 33.5 7.7 45 118-165 181-225 (367)
35 PF00134 Cyclin_N: Cyclin, N-t 64.4 28 0.0006 27.5 6.6 67 200-268 52-120 (127)
36 TIGR00569 ccl1 cyclin ccl1. Un 50.1 21 0.00046 33.9 4.0 38 199-236 78-115 (305)
37 PF07226 DUF1422: Protein of u 36.9 54 0.0012 26.5 3.8 39 90-132 39-77 (117)
38 KOG0794 CDK8 kinase-activating 31.5 71 0.0015 29.2 4.1 39 196-234 58-96 (264)
39 PRK11056 hypothetical protein; 28.9 86 0.0019 25.5 3.8 39 90-132 39-77 (120)
40 PF01857 RB_B: Retinoblastoma- 28.4 1.8E+02 0.0038 24.2 5.8 65 77-144 14-79 (135)
41 KOG1925 Rac1 GTPase effector F 25.5 94 0.002 31.6 4.1 73 39-111 547-619 (817)
42 PF11357 Spy1: Cell cycle regu 23.9 2.2E+02 0.0047 23.6 5.4 75 94-175 32-109 (131)
43 cd04441 DEP_2_DEP6 DEP (Dishev 23.1 78 0.0017 24.1 2.5 29 75-104 36-64 (85)
44 cd04443 DEP_GPR155 DEP (Dishev 21.0 93 0.002 23.5 2.5 29 75-104 34-62 (83)
45 cd04439 DEP_1_P-Rex DEP (Dishe 20.8 81 0.0018 23.7 2.2 29 75-104 32-60 (81)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.5e-52 Score=388.51 Aligned_cols=254 Identities=44% Similarity=0.670 Sum_probs=223.9
Q ss_pred cccccccccccccC---CCCCCCCCCCCCC---CCChHHHHHHHHHHHhccCCCCCccccccCCCCCHHHHHHHHHHHHH
Q 020177 10 PDLLCGEDSGIFAG---ESSPACSSSDLES---SASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILK 83 (330)
Q Consensus 10 ~~l~c~ed~~~~~~---~~~~~~~~~~~~~---~~~~~e~l~~ll~~E~~~~p~~~yl~~~q~~~i~~~~R~~lvdWi~~ 83 (330)
+.|+|+|++....+ .+|+.-+..++.. -.++||.+.+|+++|.++.|+.+|...+| ..+++.+|.++++||++
T Consensus 9 ~~l~c~E~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~e~~i~~ll~kEe~~~p~~~~~~~~~-~~~~~~~R~~A~~WIl~ 87 (335)
T KOG0656|consen 9 SQLLCHEESTSDEQDRADNDESSTESSIPQLGFLLWDERVLANLLEKEEQHNPSLDYFLCVQ-KLILSSMRKQALDWILK 87 (335)
T ss_pred cccccCCCCcccccccccCCcccccccccccccccccHHHHHHHHHHHHHhCCCCchhhhcc-cccccHHHHHHHHHHHH
Confidence 44899998875542 1112111112221 25899999999999999999999776654 46889999999999999
Q ss_pred HHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcccccccHHHHHHHHH
Q 020177 84 VQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMEL 163 (330)
Q Consensus 84 v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE~ 163 (330)
|++++++.++|+++|+||||||++.+.+++.++|++||+|+|||+||||+||+.+|.+.|+++.+.+|.|.+++|++||+
T Consensus 88 V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmEL 167 (335)
T KOG0656|consen 88 VCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMEL 167 (335)
T ss_pred HHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCccccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCC
Q 020177 164 LVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVN 243 (330)
Q Consensus 164 ~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~ 243 (330)
+||++|+|||+.+||++|+++|+++++..+...+.++.++..++..+..|.+|++|+||+||+|++..+...+.......
T Consensus 168 LVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~ 247 (335)
T KOG0656|consen 168 LVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFRE 247 (335)
T ss_pred HHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhh
Confidence 99999999999999999999999999998888899999999999999999999999999999999999988776554444
Q ss_pred ccccchhccCCCHHHHHHHHH
Q 020177 244 PEHAESWCDGLSKEKIISCYR 264 (330)
Q Consensus 244 ~~~~l~~~~~~~~e~l~~c~~ 264 (330)
.++.+.++.+++++.+..|+.
T Consensus 248 ~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 248 YENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred hhHHHHHHHHhhHHhhhcchh
Confidence 456778889999999999998
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.8e-37 Score=283.04 Aligned_cols=218 Identities=22% Similarity=0.352 Sum_probs=188.9
Q ss_pred ChHHHHHHHHHHHhccCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCC-CcCCCCCC
Q 020177 39 SIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSR-RLPDNNGW 117 (330)
Q Consensus 39 ~~~e~l~~ll~~E~~~~p~~~yl~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~-~i~~~~~~ 117 (330)
...|+|..|+.+|..+.....++.. ++.++++||++++|||++||+.|+|.+||||+|+.||||||... .+.++
T Consensus 112 n~~eVW~lM~kkee~~l~~~~~l~q--Hpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt--- 186 (408)
T KOG0655|consen 112 NSKEVWLLMLKKEERYLRDKHFLEQ--HPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKT--- 186 (408)
T ss_pred CHHHHHHHHHccchhhhhhhHHHhh--CCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhh---
Confidence 5569999999999999888888876 89999999999999999999999999999999999999999765 56777
Q ss_pred chhHHHHHHhhhhhhhccccCCchhhhhHhcccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCC----
Q 020177 118 PWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTG---- 193 (330)
Q Consensus 118 ~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~---- 193 (330)
.+||+|+||||||||+||++||++.+|+.. +++.++.++|+.||+.||+.|+|++.+.|...+|..|+......+
T Consensus 187 ~lQLIGitsLFIAAK~EEIYpPKl~eFAyv-TDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~ 265 (408)
T KOG0655|consen 187 NLQLIGITSLFIAAKLEEIYPPKLIEFAYV-TDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKV 265 (408)
T ss_pred hHHHhhHHHHHHHHHHhhccCccccceeee-ccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCce
Confidence 799999999999999999999999999765 788999999999999999999999999999999999996543321
Q ss_pred ---ChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCCCHHHHHHHHHHHHHHH
Q 020177 194 ---TFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKEKIISCYRLMQRLV 270 (330)
Q Consensus 194 ---~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~~~e~l~~c~~~l~~l~ 270 (330)
.+.+...-...+++++++.|..++.|..++|||||+++-... .....++|+.+..|.+|++.|..+.
T Consensus 266 l~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s~----------e~v~kaSG~~w~~ie~cv~wm~Pf~ 335 (408)
T KOG0655|consen 266 LLPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTSI----------EVVKKASGLEWDSIEECVDWMVPFV 335 (408)
T ss_pred eccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhHH----------HHHHHcccccHHHHHHHHHHHHHHH
Confidence 122322233457889999999999999999999999876531 2356679999999999999999877
Q ss_pred hh
Q 020177 271 LN 272 (330)
Q Consensus 271 ~~ 272 (330)
..
T Consensus 336 rv 337 (408)
T KOG0655|consen 336 RV 337 (408)
T ss_pred HH
Confidence 53
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=8e-34 Score=276.05 Aligned_cols=222 Identities=27% Similarity=0.374 Sum_probs=187.9
Q ss_pred ChHHHHHHHHHHHhccCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCc
Q 020177 39 SIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWP 118 (330)
Q Consensus 39 ~~~e~l~~ll~~E~~~~p~~~yl~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~ 118 (330)
..+++...|.++|..+.|.. |... +.+++..||.++|||+++||.+|++.+||+|+||+++||||++..++.. +
T Consensus 126 y~~di~~~l~~~e~~~~p~~-~~~~--~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~---~ 199 (391)
T KOG0653|consen 126 YVQDIFEYLRQLELEFLPLS-YDIS--QSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLK---K 199 (391)
T ss_pred HHHHHHHHHHHHHHhhCchh-hhcc--cccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHH---H
Confidence 34466666777775666665 4443 7889999999999999999999999999999999999999999999887 7
Q ss_pred hhHHHHHHhh-hhhhhccccCCchhhhhHhcccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCCChHH
Q 020177 119 WQLLSVACLS-LAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMG 197 (330)
Q Consensus 119 lqLla~aCL~-LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~ 197 (330)
+||+|++||| ||+|+||..+|.+.++... +++.|++++|++||+.||++|+|++..|||+.||++|++....+ .
T Consensus 200 lqLvgvsalf~IA~K~EE~~~P~v~dlv~i-sd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d----~ 274 (391)
T KOG0653|consen 200 LQLVGVSALLSIACKYEEISLPSVEDLVLI-TDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYD----I 274 (391)
T ss_pred hhHHhHHHHHHHHHhhhhccCCccceeEee-eCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcc----h
Confidence 9999999966 9999999999999999654 78899999999999999999999999999999999998765522 2
Q ss_pred HHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCCCHHHHHHHHHHHHHHHhhc
Q 020177 198 FLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKEKIISCYRLMQRLVLND 273 (330)
Q Consensus 198 ~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~~~e~l~~c~~~l~~l~~~~ 273 (330)
.....+.++++.+++|+.++.++||.+|||+++++++....-..|. ..+..++|+...++.+|.+.+..+....
T Consensus 275 ~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~~w~--~~~~~~sg~~~~~~~~~~~~~~~~~~~~ 348 (391)
T KOG0653|consen 275 KTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGDVWS--PTLEHYSGYSESYLFECARSLSALSLSS 348 (391)
T ss_pred hHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCCccC--CCCeeccCCCcHHHHHHHHHHHHHHHHh
Confidence 3445588999999999999999999999999999998664322232 2466778998889999999998865543
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=6.6e-34 Score=274.76 Aligned_cols=225 Identities=24% Similarity=0.305 Sum_probs=198.1
Q ss_pred ChHHHHHHHHHHHhccCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCc
Q 020177 39 SIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWP 118 (330)
Q Consensus 39 ~~~e~l~~ll~~E~~~~p~~~yl~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~ 118 (330)
...|++..|+++|..+.|.++|+.+ ++.+...||..+++||.+||..|++.++|+++||+++||||+...+.-+ +
T Consensus 180 y~~~Ife~l~k~e~~~lp~~~yl~k--q~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~---k 254 (440)
T COG5024 180 YASDIFEYLLKLELIDLPNPNYLIK--QSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLE---K 254 (440)
T ss_pred HHHHHHHHHHHHHHHhcCcHHHHhh--cchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHH---H
Confidence 5668999999999999999999766 7888889999999999999999999999999999999999999999998 7
Q ss_pred hhHHHHHHhhhhhhhccccCCchhhhhHhcccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCCChHHH
Q 020177 119 WQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGF 198 (330)
Q Consensus 119 lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~ 198 (330)
+||+|++|||||||+||...|.+.+|+.. +++.|+.++|.++|+.+|.+|+|++..|+|..|++++... +... ..
T Consensus 255 ~QLvg~s~LfIa~K~EE~~~p~i~~l~~~-t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka-~dyd---~~ 329 (440)
T COG5024 255 YQLVGISALFIASKYEEVNCPSIKDLVYA-TDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKA-SDYD---IF 329 (440)
T ss_pred HHHHHHHHHHHHHhHhHhcCHHHHHHHHH-HcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhh-cccc---hh
Confidence 99999999999999999999999999765 7789999999999999999999999999999999888543 3333 22
Q ss_pred HHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccC-CCHHHHHHHHHHHHHHHhhcCCC
Q 020177 199 LISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDG-LSKEKIISCYRLMQRLVLNDSRR 276 (330)
Q Consensus 199 ~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~-~~~e~l~~c~~~l~~l~~~~~~~ 276 (330)
.+..+.++++.+..++.|.+++||.+||||++.+++.++.-+ | ...+..++| |+++++.+++..+.+...+...+
T Consensus 330 srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~-w--~~~l~~ySg~y~~~~l~~~~~~~~~~l~~~~~~ 405 (440)
T COG5024 330 SRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ-W--DRTLIHYSGNYTNPDLKPLNESNKENLQNPSVH 405 (440)
T ss_pred hhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccCC-C--CccccccCCCCCchhHHHHHHHHHHHhcccchh
Confidence 334588999999999999999999999999999998775432 3 335667777 99999999999999988665443
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.96 E-value=3.9e-29 Score=235.79 Aligned_cols=225 Identities=24% Similarity=0.276 Sum_probs=196.6
Q ss_pred HHHHHHHHHHhc-cCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchh
Q 020177 42 ESIAGFIEDERN-FVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQ 120 (330)
Q Consensus 42 e~l~~ll~~E~~-~~p~~~yl~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lq 120 (330)
++..++..-|.+ ++|.++|+..+|. ++|+.||.++|+|.++|++.+++..+++|+++++.|||+....+.+. ++|
T Consensus 105 ~I~~~~r~~ei~~~rp~~~~~e~vq~-d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~---k~q 180 (359)
T KOG0654|consen 105 KIYNTLRVSDIKSERPLPSKFEFVQA-DITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQ---KLQ 180 (359)
T ss_pred HHhhcccccchhhccCcccceeeeec-CCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHH---HHH
Confidence 344455566777 8899999998864 69999999999999999999999999999999999999999999887 799
Q ss_pred HHHHHHhhhhhhhccccCCchhhhhHhcccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCCChHHHHH
Q 020177 121 LLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLI 200 (330)
Q Consensus 121 Lla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~ 200 (330)
++|.+|++||+|+||..+|.+.+|... .++.|+..++.+||..||+.|.|.+..||.-.|+..|++.... ....+.
T Consensus 181 l~g~s~m~I~sk~ee~~~~~~~ef~~i-td~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~---~~~~~e 256 (359)
T KOG0654|consen 181 LVGISAMLIASKYEEIKEPRVEEFCYI-TDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQT---PELQVE 256 (359)
T ss_pred HhCcccceeeccchhhcchHHHHHHhh-hhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcc---hhHHHH
Confidence 999999999999999999999999655 7889999999999999999999999999999999999765443 234456
Q ss_pred HHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCCCHHHHHHHHHHHHHHHhhcCCCCC
Q 020177 201 SRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKEKIISCYRLMQRLVLNDSRRKQ 278 (330)
Q Consensus 201 ~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~~~e~l~~c~~~l~~l~~~~~~~~~ 278 (330)
..+.++.+.++.++.|+.|.||.|||||+++|.-.++ ...|. ..+..++||+-+++..|+..|+ ++.+.++...
T Consensus 257 ~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~-~~pW~--~~L~~~T~y~~edl~~~v~~L~-~~l~~~~~~l 330 (359)
T KOG0654|consen 257 PLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD-FHPWN--QTLEDYTGYKAEDLKPCVLDLH-LYLNASGTDL 330 (359)
T ss_pred HHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc-CCCCc--hhhHHhhcccHHHHHHHHHHHh-cccCCCCCch
Confidence 6789999999999999999999999999999998776 33442 3688899999999999999999 7766554433
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=2.6e-25 Score=182.96 Aligned_cols=127 Identities=32% Similarity=0.502 Sum_probs=112.8
Q ss_pred HHHHHHHHHHhccCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhH
Q 020177 42 ESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQL 121 (330)
Q Consensus 42 e~l~~ll~~E~~~~p~~~yl~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqL 121 (330)
|++..|+++|.++.+++.|++. +++++...|..+++||.+++..+++++.|+++|+.|||||+.+.++.+. .+++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~--~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~---~~~l 75 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQ--QPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRS---KLQL 75 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTG--TSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCC---GHHH
T ss_pred CHHHHHHHHHHHHCcCcccccc--ChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccc---hhhh
Confidence 6889999999999999999986 5679999999999999999999999999999999999999999988777 7999
Q ss_pred HHHHHhhhhhhhccccCCchhhhhHhcccccccHHHHHHHHHHHHHHcCcccc
Q 020177 122 LSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLR 174 (330)
Q Consensus 122 la~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE~~IL~~L~w~l~ 174 (330)
+|+|||+||+|++|..+|.+.++... +++.|++++|.+||+.||++|+|+++
T Consensus 76 i~~~cl~lA~K~~e~~~~~~~~~~~~-~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 76 IALACLFLASKMEEDNPPSISDLIRI-SDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHTSS--HHHHHHHH-TTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhHHHHhhhhhccccchHHHHHHH-HcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999999999765 47789999999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.92 E-value=7.9e-24 Score=198.48 Aligned_cols=191 Identities=19% Similarity=0.218 Sum_probs=148.7
Q ss_pred HHHHHHHHHHHHHHHHhC--CchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcc
Q 020177 72 SAREESVAWILKVQAYYN--FLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGA 149 (330)
Q Consensus 72 ~~R~~lvdWi~~v~~~~~--l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~ 149 (330)
..|...+++|.+++.+++ +++.|+++|++||+||+..+++... +.+++|+||||||+|+||..+ ++.++.....
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~---~p~~Ia~tclfLA~KvEE~~~-si~~fv~~~~ 129 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEY---HPKIIMLTCVFLACKVEEFNV-SIDQFVGNLK 129 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhc---CHHHHHHHHHHHHHhccccCc-CHHHHHhhcc
Confidence 668889999999999999 9999999999999999999999887 799999999999999999954 7888753322
Q ss_pred c-ccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCC---CCChHHHHHHHHHHHHHHhhchhcccCccHHHHH
Q 020177 150 K-YIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDP---TGTFMGFLISRATKIILSNIQEASFLEYRPSSIA 225 (330)
Q Consensus 150 ~-~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~---~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iA 225 (330)
. .....++|++||..||++|+|++.++||+.|+..|+..+.. .......+...|+.+++.++...-++.|+|+.||
T Consensus 130 ~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IA 209 (305)
T TIGR00569 130 ETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIA 209 (305)
T ss_pred CCchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHH
Confidence 1 12356999999999999999999999999999998854321 1112345677889999988887779999999999
Q ss_pred HHHHHHHHhhCCCCCCCCccccchhccCC--CHHHHHHHHHHHHHHH
Q 020177 226 AAAILCAANEIPNLSLVNPEHAESWCDGL--SKEKIISCYRLMQRLV 270 (330)
Q Consensus 226 aAai~~A~~~~~~~~~~~~~~~l~~~~~~--~~e~l~~c~~~l~~l~ 270 (330)
+|||++|.+.++.. .+.. .....+. +.+.+..-++.|.++.
T Consensus 210 lAAI~lA~~~~~~~-l~~~---~~e~~~~~~~~~~~~~l~~~~~~~~ 252 (305)
T TIGR00569 210 LAAILHTASRAGLN-MESY---LTEQLSVPGNREELPQLIDIMRELR 252 (305)
T ss_pred HHHHHHHHHHhCCC-Cccc---chhhhcccccHHHHHHHHHHHHHHH
Confidence 99999999877531 1111 1223333 4555555555555443
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.92 E-value=3.6e-24 Score=200.67 Aligned_cols=200 Identities=21% Similarity=0.247 Sum_probs=167.3
Q ss_pred HHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhccc
Q 020177 71 ASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAK 150 (330)
Q Consensus 71 ~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~ 150 (330)
...|...+.||.+++..+++++.|+.+|+.||+||+..+.+... ..+.+|++|||||+|+||+ +.++.|++...-+
T Consensus 36 ~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~---~~~~vA~sclfLAgKvEet-p~kl~dIi~~s~~ 111 (323)
T KOG0834|consen 36 LRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKF---DPYTVAASCLFLAGKVEET-PRKLEDIIKVSYR 111 (323)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccC---cHHHHHHHHHHHHhhcccC-cccHHHHHHHHHH
Confidence 46799999999999999999999999999999999999999998 6899999999999999998 6688887532222
Q ss_pred ccc------------cHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccC
Q 020177 151 YIF------------ETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLE 218 (330)
Q Consensus 151 ~~~------------~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~ 218 (330)
+.. -++.|+..|+.||++|+|++++-+||.||..|+..++...+....+...|+.++..++...-+++
T Consensus 112 ~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~ 191 (323)
T KOG0834|consen 112 YLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQ 191 (323)
T ss_pred HcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEe
Confidence 221 26899999999999999999999999999999999888776555677789999999999999999
Q ss_pred ccHHHHHHHHHHHHHhhCCC-CCCCCccccchhccC--CCHHHHHHHHHHHHHHHhhcCC
Q 020177 219 YRPSSIAAAAILCAANEIPN-LSLVNPEHAESWCDG--LSKEKIISCYRLMQRLVLNDSR 275 (330)
Q Consensus 219 ~~PS~iAaAai~~A~~~~~~-~~~~~~~~~l~~~~~--~~~e~l~~c~~~l~~l~~~~~~ 275 (330)
|+|..||+|+|++|....+. ++. .....+....+ ++.+.|.+.+..+.++|.....
T Consensus 192 y~p~~IAva~i~lA~~~~~~~~~~-~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~~ 250 (323)
T KOG0834|consen 192 YSPHSIAVACIHLAAKLLGVELPS-DTDKRWWREFDETVTNELLDDICHEFLDLYEQTPQ 250 (323)
T ss_pred ecCcEEEeehhhHHHHHcCCCCCC-CcccchhhhhcccCCHHHHHHHHHHHHHHHhhccc
Confidence 99999999999999976543 222 12221222255 8999999999999999976433
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.87 E-value=1e-20 Score=173.53 Aligned_cols=196 Identities=20% Similarity=0.241 Sum_probs=161.0
Q ss_pred CCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhH--
Q 020177 69 LDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQV-- 146 (330)
Q Consensus 69 i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~-- 146 (330)
-....|...+.||.+.+.-++|++.+++++..+|-||+....+.+. ++..++++|++||+|+||. |-.+.++..
T Consensus 18 ~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~---~~e~vv~ACv~LASKiEE~-Prr~rdVinVF 93 (367)
T KOG0835|consen 18 TEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRH---DFEIVVMACVLLASKIEEE-PRRIRDVINVF 93 (367)
T ss_pred hHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccc---cHHHHHHHHHHHHhhhccc-cccHhHHHHHH
Confidence 3457799999999999999999999999999999999999999887 7999999999999999997 445555421
Q ss_pred ----------------hcccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHh
Q 020177 147 ----------------EGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSN 210 (330)
Q Consensus 147 ----------------~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~ 210 (330)
..-.+.-.+..+.++|+.||..|+|++++.+|+.++-.|+..++...+. .+.+.+|.+++.+
T Consensus 94 h~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~--~l~Q~~wNfmNDs 171 (367)
T KOG0835|consen 94 HYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNL--KLLQAAWNFMNDS 171 (367)
T ss_pred HHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCch--hHHHHHHHhhhhc
Confidence 0011112367889999999999999999999999999999999887764 6788899999999
Q ss_pred hchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCCCHHHHHHHHHHHHHHHhh
Q 020177 211 IQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKEKIISCYRLMQRLVLN 272 (330)
Q Consensus 211 l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~~~e~l~~c~~~l~~l~~~ 272 (330)
+...-|+.|+|+.||||||++|.+.++. +.+ ...-+..+.+.++++|.+.+-.+..+|..
T Consensus 172 lRT~v~vry~pe~iACaciyLaAR~~eI-pLp-~~P~Wf~~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 172 LRTDVFVRYSPESIACACIYLAARNLEI-PLP-FQPHWFKAFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred cccceeeecCHHHHHHHHHHHHHhhhcC-CCC-CCccHHHHcCCcHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999987761 111 11224445789999999977666666654
No 10
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.81 E-value=1.1e-19 Score=159.46 Aligned_cols=189 Identities=22% Similarity=0.187 Sum_probs=153.0
Q ss_pred HHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhH-------
Q 020177 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQV------- 146 (330)
Q Consensus 74 R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~------- 146 (330)
+--.-+.|..++.++++.+.++++|+.||-||+.+.++... ...|+|.||++||||+||..+-.++.+..
T Consensus 41 ~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~---~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~ 117 (264)
T KOG0794|consen 41 KIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEI---EPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKT 117 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc---CHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhh
Confidence 44456789999999999999999999999999999998777 69999999999999999974222333221
Q ss_pred ----hcccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHH
Q 020177 147 ----EGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPS 222 (330)
Q Consensus 147 ----~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS 222 (330)
..-.+.|+...|..||..+|+.|++-+-+.+|+.-|..++...+..+ ..+...++.+++.++...-++-|+|-
T Consensus 118 ~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d---~~~l~~~W~ivNDSyr~Dl~Ll~PPh 194 (264)
T KOG0794|consen 118 RFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGIND---QKLLQLAWSIVNDSYRMDLCLLYPPH 194 (264)
T ss_pred hcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccc---hhhhhhhHhhhcchhhcceeeecCHH
Confidence 11234467899999999999999999999999999999988766633 34566689999999998889999999
Q ss_pred HHHHHHHHHHHhhCCCCCCCCccccchhccCCCHHHHHHHHHHHHHHHhh
Q 020177 223 SIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKEKIISCYRLMQRLVLN 272 (330)
Q Consensus 223 ~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~~~e~l~~c~~~l~~l~~~ 272 (330)
.||.||++.|....+.- .++.+..-..++.++|.+|++.|.++|..
T Consensus 195 ~IalAcl~Ia~~~~~k~----~~~~w~~el~vD~ekV~~~v~~I~~lYe~ 240 (264)
T KOG0794|consen 195 QIALACLYIACVIDEKD----IPKAWFAELSVDMEKVKDIVQEILKLYEL 240 (264)
T ss_pred HHHHHHHHHHHhhcCCC----hHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence 99999999998655421 11223333788999999999999999864
No 11
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.76 E-value=6.9e-18 Score=154.93 Aligned_cols=187 Identities=21% Similarity=0.221 Sum_probs=147.2
Q ss_pred ChHHHHHHHHHHHhccCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCc
Q 020177 39 SIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWP 118 (330)
Q Consensus 39 ~~~e~l~~ll~~E~~~~p~~~yl~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~ 118 (330)
...+..++.+++...-.+.. +. -+-+.+.|.....||..++.+++++..++.+||.+|+||+.+..+... .
T Consensus 16 ~~~~~~q~~~e~~l~~~~p~--l~----~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~---~ 86 (297)
T COG5333 16 LSFDSSQNAIELDLLVLEPE--LT----LEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEI---S 86 (297)
T ss_pred cchhHHHHHHHhhHhcCCcc--cc----hhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccc---c
Confidence 34455556666555433321 11 123456788888999999999999999999999999999999998877 7
Q ss_pred hhHHHHHHhhhhhhhccc--cCCchhhhhHh---cccccccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCC
Q 020177 119 WQLLSVACLSLAAKMEET--VVPSLLDLQVE---GAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTG 193 (330)
Q Consensus 119 lqLla~aCL~LAsK~eE~--~~p~l~~l~~~---~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~ 193 (330)
++-++.||++||+|+||+ ++ .+..+... .-...-+++.|..+|..||+.|+|++++++|+..+..|+..+...+
T Consensus 87 ~~~vv~tcv~LA~K~ed~~~~I-~i~~~~~~~~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~ 165 (297)
T COG5333 87 LYSVVTTCVYLACKVEDTPRDI-SIESFEARDLWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKD 165 (297)
T ss_pred HHHHHHhheeeeeecccccchh-hHHHHHhhccccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhcc
Confidence 999999999999999995 22 22222111 0022346899999999999999999999999999999987665544
Q ss_pred ChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCC
Q 020177 194 TFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIP 237 (330)
Q Consensus 194 ~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~ 237 (330)
. ....+.||.++..++...-++-|+|..||+||++.|...++
T Consensus 166 ~--~~~~~~aw~~inDa~~t~~~llypphiIA~a~l~ia~~~~~ 207 (297)
T COG5333 166 K--YKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLG 207 (297)
T ss_pred H--HHHHHHHHHHHHhhhhceeeeecChHHHHHHHHHHHHHhcC
Confidence 3 56778899999999999999999999999999999997654
No 12
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.58 E-value=2.7e-13 Score=128.48 Aligned_cols=183 Identities=14% Similarity=0.144 Sum_probs=152.9
Q ss_pred HHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcccccc
Q 020177 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIF 153 (330)
Q Consensus 74 R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~ 153 (330)
-.....-|.+++..++++..+.-.|..++.+++....+... ....++++|||+|+|.++. |.++.++... . ..
T Consensus 122 l~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgr---s~~~i~AAclYiACR~~~~-prtl~eI~~~-~--~v 194 (310)
T PRK00423 122 LAFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGR---SIEGVVAAALYAACRRCKV-PRTLDEIAEV-S--RV 194 (310)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCC---CHHHHHHHHHHHHHHHcCC-CcCHHHHHHH-h--CC
Confidence 35566789999999999999999999999999998777665 6899999999999998776 6789998644 2 25
Q ss_pred cHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHH
Q 020177 154 ETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAA 233 (330)
Q Consensus 154 ~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~ 233 (330)
++++|.+.++.|++.|+.++...+|.+|+..|...++.+. .+.+.|.+++..+....-..+.+|..|||||||+|.
T Consensus 195 ~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~----~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~ 270 (310)
T PRK00423 195 SRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG----EVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIAS 270 (310)
T ss_pred CHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHH
Confidence 8999999999999999999999999999999999998864 356668888877765444578999999999999999
Q ss_pred hhCCCCCCCCccccchhccCCCHHHHHHHHHHHHHHH
Q 020177 234 NEIPNLSLVNPEHAESWCDGLSKEKIISCYRLMQRLV 270 (330)
Q Consensus 234 ~~~~~~~~~~~~~~l~~~~~~~~e~l~~c~~~l~~l~ 270 (330)
+..+.- .....+...+++++..|...++.|.+.+
T Consensus 271 ~~~g~~---~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 271 LLLGER---RTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred HHhCCC---CCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 766521 1234567779999999999999998754
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=99.47 E-value=2.3e-13 Score=103.11 Aligned_cols=86 Identities=35% Similarity=0.443 Sum_probs=77.4
Q ss_pred HHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcccccc
Q 020177 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIF 153 (330)
Q Consensus 74 R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~ 153 (330)
|...++||.+++..+++++++.++|+.|+|||+....+.+. .++++|++|++||+|+++. ++...++... ++ +
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~-~~--~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGR---SPSLVAAAALYLAAKVEEI-PPWLKDLVHV-TG--Y 74 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccC---ChHHHHHHHHHHHHHHcCC-CCCHHHHhHH-hC--C
Confidence 67899999999999999999999999999999999888755 7999999999999999999 8888998644 33 4
Q ss_pred -cHHHHHHHHHHHH
Q 020177 154 -ETKTIRRMELLVL 166 (330)
Q Consensus 154 -~~~~I~~mE~~IL 166 (330)
+.++|.++|+.||
T Consensus 75 ~~~~~i~~~e~~il 88 (88)
T cd00043 75 ATEEEILRMEKLLL 88 (88)
T ss_pred CCHHHHHHHHHHhC
Confidence 8999999999875
No 14
>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=99.45 E-value=1.7e-13 Score=110.60 Aligned_cols=93 Identities=28% Similarity=0.340 Sum_probs=72.9
Q ss_pred CChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCCC
Q 020177 176 VTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLS 255 (330)
Q Consensus 176 ~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~~ 255 (330)
|||++||++|++ +.. ....+...+.++++.++.++.|++|+||+|||||+++|+..++..+.| ...+...+|++
T Consensus 1 PTp~~Fl~~~~~-~~~---~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~--~~~l~~~t~~~ 74 (118)
T PF02984_consen 1 PTPYDFLRRFLK-ISN---ADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPW--PESLEKLTGYD 74 (118)
T ss_dssp --HHHHHHHHHT-SSS---HHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCS--HHHHHHHHTS-
T ss_pred CcHHHHHHHHHH-HcC---CcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccC--CccchhhcCCC
Confidence 899999999954 322 235577789999999999999999999999999999999886522233 33577789999
Q ss_pred HHHHHHHHHHHHHHHhhcC
Q 020177 256 KEKIISCYRLMQRLVLNDS 274 (330)
Q Consensus 256 ~e~l~~c~~~l~~l~~~~~ 274 (330)
+++|.+|++.|.+++....
T Consensus 75 ~~~l~~c~~~i~~~~~~~~ 93 (118)
T PF02984_consen 75 KEDLKECIELIQELLSKAS 93 (118)
T ss_dssp HHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHhcC
Confidence 9999999999999997644
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=99.40 E-value=8.2e-13 Score=99.07 Aligned_cols=83 Identities=36% Similarity=0.435 Sum_probs=72.2
Q ss_pred HHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcccccccHHHH
Q 020177 79 AWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTI 158 (330)
Q Consensus 79 dWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I 158 (330)
+||.+++..+++++++.++|++++|||+....+.+. ..+++|++|++||+|++|.. |...++... +++ |+.++|
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~---~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~-~~~-~~~~~i 74 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKY---SPSLIAAAALYLAAKTEEIP-PWTKELVHY-TGY-FTEEEI 74 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccC---CHHHHHHHHHHHHHHHhcCC-CCchhHhHh-hCC-CCHHHH
Confidence 599999999999999999999999999997777665 79999999999999999986 566777543 443 799999
Q ss_pred HHHHHHHHH
Q 020177 159 RRMELLVLS 167 (330)
Q Consensus 159 ~~mE~~IL~ 167 (330)
.++|+.||.
T Consensus 75 ~~~~~~il~ 83 (83)
T smart00385 75 LRMEKLLLE 83 (83)
T ss_pred HHHHHHHhC
Confidence 999999873
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=99.39 E-value=6.9e-12 Score=114.76 Aligned_cols=154 Identities=19% Similarity=0.293 Sum_probs=114.4
Q ss_pred HHHHHHHHHHh--CCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcc-ccccc
Q 020177 78 VAWILKVQAYY--NFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGA-KYIFE 154 (330)
Q Consensus 78 vdWi~~v~~~~--~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~-~~~~~ 154 (330)
..-+.+.+..| .+++.++.+|+.+|-||+....+... ....+..||+|+|+|+||.++ ++.+|..... +-.-+
T Consensus 60 E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~---~pk~I~~tc~flA~Kieef~I-SieqFvkn~~~~~~k~ 135 (325)
T KOG2496|consen 60 ELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEY---SPKIIMATCFFLACKIEEFYI-SIEQFVKNMNGRKWKT 135 (325)
T ss_pred HHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhc---ChHHHHHHHHHHHhhhHhhee-cHHHHHhhccCccccc
Confidence 33444444444 57999999999999999999998877 689999999999999999866 8888863322 12247
Q ss_pred HHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcC----C--CCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHH
Q 020177 155 TKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLD----P--TGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAA 228 (330)
Q Consensus 155 ~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~----~--~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAa 228 (330)
.+.|+..|..+|+.|+|++.+.+|+.-++-|+-.+. . +.......... ..++..++...-++-|.||.||.||
T Consensus 136 ~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~-~~fl~~~lltDa~lLytPsQIALaA 214 (325)
T KOG2496|consen 136 HEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDS-KKFLDRALLTDAYLLYTPSQIALAA 214 (325)
T ss_pred HHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhH-HHHHHHHHHhccceecChHHHHHHH
Confidence 899999999999999999999999999998874321 1 11111222222 3555566655556679999999999
Q ss_pred HHHHHhhC
Q 020177 229 ILCAANEI 236 (330)
Q Consensus 229 i~~A~~~~ 236 (330)
|+.|....
T Consensus 215 il~a~~~~ 222 (325)
T KOG2496|consen 215 ILHAAGRT 222 (325)
T ss_pred HHHHhccc
Confidence 97775433
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.98 E-value=5.9e-08 Score=90.53 Aligned_cols=184 Identities=16% Similarity=0.184 Sum_probs=153.1
Q ss_pred HHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcccc
Q 020177 72 SAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKY 151 (330)
Q Consensus 72 ~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~ 151 (330)
..-..+..-|-.++..++++..+.-.|..++=+.+.+.-+... ..+-++++|+++|++.... |.++.++... .+
T Consensus 95 rnl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGR---sie~v~AA~iY~acR~~~~-prtl~eIa~a-~~- 168 (285)
T COG1405 95 RNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGR---SIESVAAACIYAACRINGV-PRTLDEIAKA-LG- 168 (285)
T ss_pred hHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCC---cHHHHHHHHHHHHHHHcCC-CccHHHHHHH-HC-
Confidence 3445677888899999999999999999999999888877766 6999999999999998776 6688887654 22
Q ss_pred cccHHHHHHHHHHHHHHcCccccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHH
Q 020177 152 IFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILC 231 (330)
Q Consensus 152 ~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~ 231 (330)
-++.+|.++.+.+...|+=.+.+..|..|+.+|...|+.++. +...|.+++..+...-.-.+-.|+-+||||+|+
T Consensus 169 -V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~----v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~ 243 (285)
T COG1405 169 -VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDE----VRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYL 243 (285)
T ss_pred -CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHH----HHHHHHHHHHHHHHhCcccCCCchhHHHHHHHH
Confidence 578999999999999999999999999999999999999853 445577787777766667799999999999999
Q ss_pred HHhhCCCCCCCCccccchhccCCCHHHHHHHHHHHHHH
Q 020177 232 AANEIPNLSLVNPEHAESWCDGLSKEKIISCYRLMQRL 269 (330)
Q Consensus 232 A~~~~~~~~~~~~~~~l~~~~~~~~e~l~~c~~~l~~l 269 (330)
|....+.. ..+.....++++++..|..=++.|.+-
T Consensus 244 as~l~~~~---~tq~eva~v~~vtevTIrnrykel~~~ 278 (285)
T COG1405 244 ASLLLGER---RTQKEVAKVAGVTEVTIRNRYKELADA 278 (285)
T ss_pred HHHHhCCc---hHHHHHHHHhCCeeeHHHHHHHHHHHh
Confidence 99877621 224456778999999999998877653
No 18
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.86 E-value=1.6e-07 Score=86.13 Aligned_cols=184 Identities=17% Similarity=0.141 Sum_probs=143.1
Q ss_pred HHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhccccc
Q 020177 73 AREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYI 152 (330)
Q Consensus 73 ~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~ 152 (330)
.-.....-|..++...+|+....-.|-.+|-++-........ ...-+++|||+||++-++. |.++.++... ++
T Consensus 103 ~~~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGk---s~eai~AAclyiACRq~~~-pRT~kEI~~~-an-- 175 (308)
T KOG1597|consen 103 VLKAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGK---SVEALAAACLYIACRQEDV-PRTFKEISAV-AN-- 175 (308)
T ss_pred HHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCc---cHHHHHHHHHHHHHHhcCC-CchHHHHHHH-Hc--
Confidence 334556667888999999999999999999999966666555 6999999999999995554 8889998755 33
Q ss_pred ccHHHHHHHHHHHHHHcCccccCCC--hHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHH
Q 020177 153 FETKTIRRMELLVLSVLDWRLRSVT--PFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAIL 230 (330)
Q Consensus 153 ~~~~~I~~mE~~IL~~L~w~l~~~T--p~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~ 230 (330)
.+++||-+.=..|+..|+=.+...| .-+|+.+|...++.+.. +...|.++.+.+..-....+-.|=.||||+||
T Consensus 176 v~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~----~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IY 251 (308)
T KOG1597|consen 176 VSKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKS----AQEAATEIAEKAEEMDIRAGRSPISIAAAAIY 251 (308)
T ss_pred CCHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHH----HHHHHHHHHHHHHHhccccCCCchhHHHHHHH
Confidence 6899999999999999988777665 88999999999888753 33446666665542222345789999999999
Q ss_pred HHHhhCCCCCCCCccccchhccCCCHHHHHHHHHHHHHHH
Q 020177 231 CAANEIPNLSLVNPEHAESWCDGLSKEKIISCYRLMQRLV 270 (330)
Q Consensus 231 ~A~~~~~~~~~~~~~~~l~~~~~~~~e~l~~c~~~l~~l~ 270 (330)
++.+..+.. .....+...+|+.+.-|+.-|+.|....
T Consensus 252 misqls~~k---kt~keI~~vtgVaE~TIr~sYK~Lyp~~ 288 (308)
T KOG1597|consen 252 MISQLSDEK---KTQKEIGEVTGVAEVTIRNSYKDLYPHA 288 (308)
T ss_pred HHHHhccCc---ccHHHHHHHhhhhHHHHHHHHHHHhhch
Confidence 998766521 2344577789999999999999887543
No 19
>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=98.42 E-value=1.4e-06 Score=74.04 Aligned_cols=94 Identities=21% Similarity=0.243 Sum_probs=68.3
Q ss_pred HHHHHHHHHHHHhCCchhHHHHHHHHHHHHhc---CCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhccccc
Q 020177 76 ESVAWILKVQAYYNFLPLTSYLSVNYMDRFLY---SRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYI 152 (330)
Q Consensus 76 ~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls---~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~ 152 (330)
.+.+|+.++...-+++++++.+|..|+||+.. ...++.. +...+-+-++|+.+|+|+-+........+... + .
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~-~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v-~--g 128 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLN-SSNIHRLFLTALILASKFLDDNTYSNKSWAKV-G--G 128 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---S-TTTHHHHHHHHHHHHHHHH-SS---HHHHHHH-H--T
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccc-cchhHHHHHHHHHHHHhhcccccccHHHHHhh-c--C
Confidence 38889999999999999999999999999999 3333221 12477889999999999977666667777544 2 3
Q ss_pred ccHHHHHHHHHHHHHHcCccc
Q 020177 153 FETKTIRRMELLVLSVLDWRL 173 (330)
Q Consensus 153 ~~~~~I~~mE~~IL~~L~w~l 173 (330)
++.+++.+||+..|..|+|+|
T Consensus 129 is~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 129 ISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp S-HHHHHHHHHHHHHHTTT--
T ss_pred CCHHHHHHHHHHHHHHCCCcC
Confidence 689999999999999999986
No 20
>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=98.18 E-value=1.1e-05 Score=59.86 Aligned_cols=81 Identities=23% Similarity=0.255 Sum_probs=63.6
Q ss_pred HHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCC-CHHH
Q 020177 180 SFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGL-SKEK 258 (330)
Q Consensus 180 ~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~-~~e~ 258 (330)
+|+..+...++.+ ..+...|.++++..+.+..+.+++|+.||+||+++|.+..+.. .| ...+..++++ ++++
T Consensus 1 ~~l~~~~~~~~~~----~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~-~~--~~~~~~~~~~~~~~~ 73 (83)
T smart00385 1 DFLRRVCKALNLD----PETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP-PW--TKELVHYTGYFTEEE 73 (83)
T ss_pred CHHHHHHHHcCCC----HHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC-CC--chhHhHhhCCCCHHH
Confidence 3677777777664 3466679999999998889999999999999999999876542 22 2345666788 9999
Q ss_pred HHHHHHHHH
Q 020177 259 IISCYRLMQ 267 (330)
Q Consensus 259 l~~c~~~l~ 267 (330)
|.+|.+.|.
T Consensus 74 i~~~~~~il 82 (83)
T smart00385 74 ILRMEKLLL 82 (83)
T ss_pred HHHHHHHHh
Confidence 999998774
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=98.18 E-value=1.6e-05 Score=59.59 Aligned_cols=85 Identities=24% Similarity=0.215 Sum_probs=68.8
Q ss_pred CCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCC
Q 020177 175 SVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGL 254 (330)
Q Consensus 175 ~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~ 254 (330)
.+++.+|+..+...++.+. .....|..+++..+....+.++.|+.||+||+++|.+..+. +.+ ...+...+++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~----~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~--~~~~~~~~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP----ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI-PPW--LKDLVHVTGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC-CCC--HHHHhHHhCC
Confidence 5889999999998886653 45566889999999888899999999999999999986654 222 2345667888
Q ss_pred -CHHHHHHHHHHH
Q 020177 255 -SKEKIISCYRLM 266 (330)
Q Consensus 255 -~~e~l~~c~~~l 266 (330)
+.++|.++.+.|
T Consensus 75 ~~~~~i~~~e~~i 87 (88)
T cd00043 75 ATEEEILRMEKLL 87 (88)
T ss_pred CCHHHHHHHHHHh
Confidence 999999988765
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.05 E-value=3.8e-06 Score=79.76 Aligned_cols=105 Identities=19% Similarity=0.244 Sum_probs=86.7
Q ss_pred CCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhh-Hh
Q 020177 69 LDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ-VE 147 (330)
Q Consensus 69 i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~-~~ 147 (330)
+|..-=+.+-.=|.+++...++..-|+++|-.||.....+..+.+.| -.|.|.|||.||+||.+..--.+..++ ..
T Consensus 377 LTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~N---RKlcAGAclLlaaKmnD~Kks~vKslIek~ 453 (497)
T KOG4164|consen 377 LTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQN---RKLCAGACLLLAAKMNDLKKSTVKSLIEKL 453 (497)
T ss_pred EeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhh---hhHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence 45544455667788888999999999999999999999999998874 899999999999999876544555553 22
Q ss_pred cccccccHHHHHHHHHHHHHHcCccccCC
Q 020177 148 GAKYIFETKTIRRMELLVLSVLDWRLRSV 176 (330)
Q Consensus 148 ~~~~~~~~~~I~~mE~~IL~~L~w~l~~~ 176 (330)
+..+.+.+.+++..|.-||.+|+|.|+.|
T Consensus 454 Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 454 EEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 34567889999999999999999999875
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.68 E-value=0.00073 Score=67.15 Aligned_cols=173 Identities=19% Similarity=0.151 Sum_probs=128.9
Q ss_pred CCCCccccccCCCC-CHHHHHHHH----HHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhh
Q 020177 56 PGFDYLTRFQTHSL-DASAREESV----AWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLA 130 (330)
Q Consensus 56 p~~~yl~~~q~~~i-~~~~R~~lv----dWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LA 130 (330)
+...|+..-|.+.- ..+.|...+ .-|-+++..+++.. .+-.|.++|---+...-.+.. ..+.+-.+||||+
T Consensus 44 ~~G~~v~~~~~g~~~s~e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr---~~~~vvasClY~v 119 (521)
T KOG1598|consen 44 AQGQFVRVGQSGAGSSLESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGR---RSTEVVAACLYLV 119 (521)
T ss_pred cceeEEeccccCCccchHHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCc---chHHHHHHHHHHH
Confidence 55556665544422 334454443 36888999999999 999999999988887766665 5899999999999
Q ss_pred hhhccccCCchhhhhHhcccccccHHHHHHHHHHHHHHcCcc---ccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHH
Q 020177 131 AKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWR---LRSVTPFSFIYFFACKLDPTGTFMGFLISRATKII 207 (330)
Q Consensus 131 sK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE~~IL~~L~w~---l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll 207 (330)
+..|-+.. .+-||.-. -..+.-++=.+=+.+-..|.-. +....|.-|+.+|...+...+.. +.+...|..++
T Consensus 120 cR~e~t~h-lliDfS~~---Lqv~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~-~~Vv~~a~~L~ 194 (521)
T KOG1598|consen 120 CRLEKTDH-LLIDFSSY---LQVSVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT-EDVAKTATRLA 194 (521)
T ss_pred HHhhCCce-EEEEeccc---eEEehhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCch-HHHHHHHHHHH
Confidence 99887755 34444211 1134455555666666667666 66789999999999887665544 67788899999
Q ss_pred HHhhchhcccCccHHHHHHHHHHHHHhhCC
Q 020177 208 LSNIQEASFLEYRPSSIAAAAILCAANEIP 237 (330)
Q Consensus 208 ~~~l~d~~~l~~~PS~iAaAai~~A~~~~~ 237 (330)
.....|.-..+-||+-|.-|||+.|.+..+
T Consensus 195 ~rMkrdwm~tGRRPsglcGAaLliAar~h~ 224 (521)
T KOG1598|consen 195 QRMKRDWMQTGRRPSGLCGAALLIAARMHG 224 (521)
T ss_pred HHHHHHHHHhCCCccchhHHHHHHHHHHcC
Confidence 988888888889999999999999998765
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=96.13 E-value=0.044 Score=40.16 Aligned_cols=62 Identities=11% Similarity=0.117 Sum_probs=48.4
Q ss_pred HHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhH
Q 020177 81 ILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQV 146 (330)
Q Consensus 81 i~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~ 146 (330)
|-+++..++|+..+.-.|..++++-....-.... ...-++++|+++|++.+.. +.++.++..
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr---~~~~iaAA~iY~acr~~~~-~~t~~eIa~ 62 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGR---SPESIAAACIYLACRLNGV-PRTLKEIAE 62 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS----HHHHHHHHHHHHHHHTTS-SSSHHHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccC---CHHHHHHHHHHHHHHHcCC-CcCHHHHHH
Confidence 4578899999999999999999998877655444 6899999999999998765 557777753
No 25
>KOG1674 consensus Cyclin [General function prediction only]
Probab=96.06 E-value=0.023 Score=51.32 Aligned_cols=97 Identities=21% Similarity=0.264 Sum_probs=72.8
Q ss_pred HHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCC---cCCC---CCCc-hhHHHHHHhhhhhhhccccCCchhhhhHhcc
Q 020177 77 SVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRR---LPDN---NGWP-WQLLSVACLSLAAKMEETVVPSLLDLQVEGA 149 (330)
Q Consensus 77 lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~---i~~~---~~~~-lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~ 149 (330)
+-+++.++..+.+.+++++.+|..|||||....+ +... +.-. ..-+-++|+.+|+|+.+...-.-..++..
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 4467777888899999999999999999999733 1110 0012 45578999999999987654344444333
Q ss_pred cccccHHHHHHHHHHHHHHcCccccCC
Q 020177 150 KYIFETKTIRRMELLVLSVLDWRLRSV 176 (330)
Q Consensus 150 ~~~~~~~~I~~mE~~IL~~L~w~l~~~ 176 (330)
...+.+++-.+|+..|..++|++.+.
T Consensus 156 -ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 -GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 23688999999999999999999985
No 26
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=95.78 E-value=0.059 Score=39.48 Aligned_cols=71 Identities=24% Similarity=0.141 Sum_probs=45.7
Q ss_pred HHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCCCHHHH
Q 020177 182 IYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKEKI 259 (330)
Q Consensus 182 l~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~~~e~l 259 (330)
+..|...++.+. .+.+.|.++...+....-.-+-+|..|||||+|+|.+..+. ......+....++++..|
T Consensus 1 I~r~~~~L~L~~----~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~---~~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSKLGLPE----DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGV---PRTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHTT--H----HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTS---SSSHHHHHHHCTSSHHHH
T ss_pred ChHHHhHcCCCH----HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCC---CcCHHHHHHHhCCCCCcC
Confidence 345666777664 56667888877766554455688999999999999987652 112334555677776543
No 27
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=93.45 E-value=0.7 Score=43.95 Aligned_cols=89 Identities=9% Similarity=0.028 Sum_probs=69.2
Q ss_pred HHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcccccccHHH
Q 020177 78 VAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKT 157 (330)
Q Consensus 78 vdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~ 157 (330)
-++|...+..++++..+.-.|..++.+.....-.... ...-+|+||+|+|++.... +.++.++... + ..+..+
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr---~P~sIAAAaIYlA~~~~g~-~~t~keIa~v-~--~Vs~~t 292 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGK---GPTGLAAAAIYIASLLLGE-RRTQREVAEV-A--GVTEVT 292 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCC---CHHHHHHHHHHHHHHHhCC-CCCHHHHHHH-c--CCCHHH
Confidence 4888999999999999999999999887764433333 6999999999999998764 4577777543 2 257889
Q ss_pred HHHHHHHHHHHcCccc
Q 020177 158 IRRMELLVLSVLDWRL 173 (330)
Q Consensus 158 I~~mE~~IL~~L~w~l 173 (330)
|.+.=+.|+..|+..+
T Consensus 293 I~~~ykel~~~l~~~~ 308 (310)
T PRK00423 293 VRNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHHhCccc
Confidence 9888888888776543
No 28
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=86.70 E-value=1.1 Score=42.14 Aligned_cols=91 Identities=12% Similarity=0.174 Sum_probs=59.1
Q ss_pred HHHHhCCchhHHHHHHHHHHHHhcCCCcC-CCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcccccccHHHHHHHH
Q 020177 84 VQAYYNFLPLTSYLSVNYMDRFLYSRRLP-DNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRME 162 (330)
Q Consensus 84 v~~~~~l~~~t~~lAv~~~DRfls~~~i~-~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE 162 (330)
......+..+.-.....|++|-+...... ... ....+.....++|+|+-....---.|.+-+ .+ --+.+++..||
T Consensus 200 l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~--~w~r~~~g~il~sskv~~dqs~wnvdycqI-lK-d~tveDmNe~E 275 (343)
T KOG1675|consen 200 LFSWAQLTAECDIITLVYAERLLWLAERDPCPR--NWSRAVLGEILLSSKVYDDQSVWNVDYCEI-LK-DQSVDDMNALE 275 (343)
T ss_pred HhhhhhhhhccchHHHHhhHhhhhHhhcCCCcc--hhhhhhhhhheehhhhhhhhhcccHHHHHH-Hh-hccHhhHHHHH
Confidence 33445566666667778999988765543 222 244444457999999955432222222211 11 24789999999
Q ss_pred HHHHHHcCccccCCCh
Q 020177 163 LLVLSVLDWRLRSVTP 178 (330)
Q Consensus 163 ~~IL~~L~w~l~~~Tp 178 (330)
|.+|+.|+|+++.|..
T Consensus 276 RqfLelLqfNinvp~s 291 (343)
T KOG1675|consen 276 RQFLELLQFNINVPSS 291 (343)
T ss_pred HHHHHHHhhccCccHH
Confidence 9999999999999865
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=84.67 E-value=3.3 Score=32.45 Aligned_cols=87 Identities=14% Similarity=0.140 Sum_probs=54.9
Q ss_pred HHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhcccccccHHH
Q 020177 78 VAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKT 157 (330)
Q Consensus 78 vdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~ 157 (330)
.+||.......+.+.++..+|-.+++-.+....+-.. ..-++|++|+++|.++-...++--..+... ++ ++.++
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~---~PS~iAaAai~lA~~~~~~~~~~~~~l~~~-t~--~~~~~ 77 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQY---PPSVIAAAAILLARKILGKEPPWPESLEKL-TG--YDKED 77 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS----HHHHHHHHHHHHHHHHHSSTCSHHHHHHH-HT--S-HHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCC---CHHHHHHHHHHHHHHHhCccccCCccchhh-cC--CCHHH
Confidence 3455555333444667888888888887777776665 578999999999999965322222333222 32 57788
Q ss_pred HHHHHHHHHHHcC
Q 020177 158 IRRMELLVLSVLD 170 (330)
Q Consensus 158 I~~mE~~IL~~L~ 170 (330)
|...=..|.+.+.
T Consensus 78 l~~c~~~i~~~~~ 90 (118)
T PF02984_consen 78 LKECIELIQELLS 90 (118)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 7776555555543
No 30
>PF09080 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IPR015164 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 domain adopts a secondary structure consisting of a five alpha-helix cyclin fold. Interaction with cyclin dependent kinases (CDKs) at a PSTAIRE sequence motif within the catalytic cleft of CDK results in the regulation of CDK activity []. ; PDB: 1G3N_C.
Probab=79.62 E-value=24 Score=27.01 Aligned_cols=91 Identities=16% Similarity=0.047 Sum_probs=55.7
Q ss_pred hHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccCccHHHHHHH-HHHHHHhh-CCCCCCCCcc---ccchhcc
Q 020177 178 PFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLEYRPSSIAAA-AILCAANE-IPNLSLVNPE---HAESWCD 252 (330)
Q Consensus 178 p~~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaA-ai~~A~~~-~~~~~~~~~~---~~l~~~~ 252 (330)
|-+-+...+-++.........+..+....+..++.|..--..+||.|||| |-++.... .++-. +.. ..+....
T Consensus 4 ~TD~~~~~L~K~~~~~e~L~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~--~~~~~~~~LA~~~ 81 (106)
T PF09080_consen 4 PTDAIGPLLFKSGFTKEQLFAWHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDT--HSGGVVPQLAEAL 81 (106)
T ss_dssp CHHHHHHHHHHHS-SSTTHHHHHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS----------HHHHHHHHH
T ss_pred ccccccHHHHHHcccHHHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCcc--ccccchHHHHHHh
Confidence 44555555556666666667777788899999999999999999999998 55554432 22110 000 1355567
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 020177 253 GLSKEKIISCYRLMQRLV 270 (330)
Q Consensus 253 ~~~~e~l~~c~~~l~~l~ 270 (330)
|.+...+..-++.+..-.
T Consensus 82 G~~~a~L~AA~E~v~Tt~ 99 (106)
T PF09080_consen 82 GVSAATLQAAAESVATTL 99 (106)
T ss_dssp T--HHHHHHHHHHHHHHH
T ss_pred CccHHHHHHHHHHHHHHH
Confidence 888877777777665433
No 31
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=78.91 E-value=2.7 Score=40.15 Aligned_cols=92 Identities=17% Similarity=0.157 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhh-Hhcccccc
Q 020177 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ-VEGAKYIF 153 (330)
Q Consensus 75 ~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~-~~~~~~~~ 153 (330)
.-+++++..+...-+........|-+++-..+...-+-+. ..+-+|++|++||+|+-....|...+-. ....+-..
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y---~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~v 229 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQY---SPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETV 229 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEee---cCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccC
Confidence 4566677666665555555667777777666665544444 5788999999999999776555554441 11112226
Q ss_pred cHHHHHHHHHHHHHHc
Q 020177 154 ETKTIRRMELLVLSVL 169 (330)
Q Consensus 154 ~~~~I~~mE~~IL~~L 169 (330)
+.+++..+...+|...
T Consensus 230 t~e~l~~i~~~~l~~y 245 (323)
T KOG0834|consen 230 TNELLDDICHEFLDLY 245 (323)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 6777777655555443
No 32
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=75.84 E-value=15 Score=34.53 Aligned_cols=89 Identities=12% Similarity=0.048 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhhhccccCCchhhhhHhccccccc
Q 020177 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFE 154 (330)
Q Consensus 75 ~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~ 154 (330)
..-.++|-..+..++|+.++.-.|+.+++........-.. ...-+|++|+++|+++... ..+-.+.... ++ .|
T Consensus 192 ~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk---~P~glAaaaiy~as~l~~~-~~tq~eva~v-~~--vt 264 (285)
T COG1405 192 VDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGK---SPAGLAAAAIYLASLLLGE-RRTQKEVAKV-AG--VT 264 (285)
T ss_pred CCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCC---CchhHHHHHHHHHHHHhCC-chHHHHHHHH-hC--Ce
Confidence 3456788899999999999999999999998877665544 5788999999999999762 2223333221 22 34
Q ss_pred HHHHHHHHHHHHHHcC
Q 020177 155 TKTIRRMELLVLSVLD 170 (330)
Q Consensus 155 ~~~I~~mE~~IL~~L~ 170 (330)
..+|..-=..+...++
T Consensus 265 evTIrnrykel~~~~~ 280 (285)
T COG1405 265 EVTIRNRYKELADALD 280 (285)
T ss_pred eeHHHHHHHHHHHhhc
Confidence 4555554444444443
No 33
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=69.61 E-value=27 Score=32.85 Aligned_cols=83 Identities=19% Similarity=0.174 Sum_probs=53.2
Q ss_pred HHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhchhcccC-ccHHHHHHHHHHHHHhhCCCCCCCCccccchhccCCCHHH
Q 020177 180 SFIYFFACKLDPTGTFMGFLISRATKIILSNIQEASFLE-YRPSSIAAAAILCAANEIPNLSLVNPEHAESWCDGLSKEK 258 (330)
Q Consensus 180 ~Fl~~fl~~l~~~~~~~~~~~~~a~~ll~~~l~d~~~l~-~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~~~~~e~ 258 (330)
.-+..+...++.+ ..+..+|.++....- |..+++ -.--.|||||||.|.++-+. +..-+.+..+..+++.+
T Consensus 109 ~~I~~m~d~~~Lp----~~I~d~A~~ifk~v~-~~k~lrGks~eai~AAclyiACRq~~~---pRT~kEI~~~anv~kKE 180 (308)
T KOG1597|consen 109 KEITAMCDRLSLP----ATIKDRANEIFKLVE-DSKLLRGKSVEALAAACLYIACRQEDV---PRTFKEISAVANVSKKE 180 (308)
T ss_pred HHHHHHHHHhCCc----hHHHHHHHHHHHHHH-HhhhhcCccHHHHHHHHHHHHHHhcCC---CchHHHHHHHHcCCHHH
Confidence 3344444455554 345566666655433 555554 55677899999999986542 11122356668899999
Q ss_pred HHHHHHHHHHHH
Q 020177 259 IISCYRLMQRLV 270 (330)
Q Consensus 259 l~~c~~~l~~l~ 270 (330)
|-+|++.|.+-+
T Consensus 181 Igr~~K~i~~~l 192 (308)
T KOG1597|consen 181 IGRCVKLIGEAL 192 (308)
T ss_pred HHHHHHHHHHHH
Confidence 999999997644
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=67.92 E-value=26 Score=33.54 Aligned_cols=45 Identities=18% Similarity=0.183 Sum_probs=31.8
Q ss_pred chhHHHHHHhhhhhhhccccCCchhhhhHhcccccccHHHHHHHHHHH
Q 020177 118 PWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLV 165 (330)
Q Consensus 118 ~lqLla~aCL~LAsK~eE~~~p~l~~l~~~~~~~~~~~~~I~~mE~~I 165 (330)
.-.+||++|++||+..+|+..|....+-.. +.+++.+|-..=..+
T Consensus 181 ~pe~iACaciyLaAR~~eIpLp~~P~Wf~~---Fd~~k~eid~ic~~l 225 (367)
T KOG0835|consen 181 SPESIACACIYLAARNLEIPLPFQPHWFKA---FDTTKREIDEICYRL 225 (367)
T ss_pred CHHHHHHHHHHHHHhhhcCCCCCCccHHHH---cCCcHHHHHHHHHHH
Confidence 567999999999999999766666655322 346777776554433
No 35
>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=64.39 E-value=28 Score=27.54 Aligned_cols=67 Identities=12% Similarity=0.029 Sum_probs=39.9
Q ss_pred HHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhCCCCCCCCccccchhcc--CCCHHHHHHHHHHHHH
Q 020177 200 ISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEIPNLSLVNPEHAESWCD--GLSKEKIISCYRLMQR 268 (330)
Q Consensus 200 ~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~l~~~~--~~~~e~l~~c~~~l~~ 268 (330)
...|..+++.-+.........+..+|+||+++|.+.....+.. .. .+.... .++.++|...-..|.+
T Consensus 52 ~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~-~~-~~~~~~~~~~~~~~i~~~E~~iL~ 120 (127)
T PF00134_consen 52 LHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPS-IS-DLIRISDNTFTKKDILEMEREILS 120 (127)
T ss_dssp HHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--H-HH-HHHHHTTTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccch-HH-HHHHHHcCCCCHHHHHHHHHHHHH
Confidence 3345556666555556777889999999999999866542211 11 122222 4677777766555544
No 36
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=50.06 E-value=21 Score=33.88 Aligned_cols=38 Identities=18% Similarity=0.244 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHhhC
Q 020177 199 LISRATKIILSNIQEASFLEYRPSSIAAAAILCAANEI 236 (330)
Q Consensus 199 ~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~~~ 236 (330)
++..|..+...-.....+..|.|-.||++|+++|.+.-
T Consensus 78 viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvE 115 (305)
T TIGR00569 78 VVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVE 115 (305)
T ss_pred HHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcc
Confidence 33344444444455566778999999999999998743
No 37
>PF07226 DUF1422: Protein of unknown function (DUF1422); InterPro: IPR009867 This family consists of several hypothetical bacterial proteins of around 120 residues in length. The function of this family is unknown.
Probab=36.89 E-value=54 Score=26.51 Aligned_cols=39 Identities=21% Similarity=0.307 Sum_probs=32.7
Q ss_pred CchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhh
Q 020177 90 FLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAK 132 (330)
Q Consensus 90 l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK 132 (330)
|+--++.+|++-+..-+..++.+.+ +.++|.+|+++..=
T Consensus 39 FPlIaLvLavy~LyQ~Yl~~~m~eg----~P~~a~acFflG~f 77 (117)
T PF07226_consen 39 FPLIALVLAVYCLYQRYLNHPMPEG----TPKLALACFFLGLF 77 (117)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCC----ChHHHHHHHHHHHH
Confidence 4566888999999988888888886 88999999998754
No 38
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=31.47 E-value=71 Score=29.18 Aligned_cols=39 Identities=18% Similarity=0.136 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHhhchhcccCccHHHHHHHHHHHHHh
Q 020177 196 MGFLISRATKIILSNIQEASFLEYRPSSIAAAAILCAAN 234 (330)
Q Consensus 196 ~~~~~~~a~~ll~~~l~d~~~l~~~PS~iAaAai~~A~~ 234 (330)
.+.++..|.-.+..-+.-..+-.+.|-.+|..|+++|.+
T Consensus 58 RQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcK 96 (264)
T KOG0794|consen 58 RQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACK 96 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhh
Confidence 344444444333333444457789999999999999986
No 39
>PRK11056 hypothetical protein; Provisional
Probab=28.86 E-value=86 Score=25.47 Aligned_cols=39 Identities=23% Similarity=0.370 Sum_probs=31.6
Q ss_pred CchhHHHHHHHHHHHHhcCCCcCCCCCCchhHHHHHHhhhhhh
Q 020177 90 FLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAK 132 (330)
Q Consensus 90 l~~~t~~lAv~~~DRfls~~~i~~~~~~~lqLla~aCL~LAsK 132 (330)
|+--++.+|++-++.=+..+..+.. +-.+|.+|+++..=
T Consensus 39 FPlIaLvLavycLyQ~Yl~~~m~eg----~P~~a~acFflG~f 77 (120)
T PRK11056 39 FPLIALVLAVYCLHQRYLNRPMPEG----LPGLAAACFFLGVF 77 (120)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCC----ChHHHHHHHHHHHH
Confidence 3556888999988877777888876 88999999998754
No 40
>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=28.40 E-value=1.8e+02 Score=24.17 Aligned_cols=65 Identities=8% Similarity=0.030 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCC-CcCCCCCCchhHHHHHHhhhhhhhccccCCchhhh
Q 020177 77 SVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSR-RLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDL 144 (330)
Q Consensus 77 lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~-~i~~~~~~~lqLla~aCL~LAsK~eE~~~p~l~~l 144 (330)
+..-|.+++..++++++..-..-..|+..+..+ .+-.+. ++--+-++|+++-+|+... .++..++
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dR--HLDQiilCaiY~i~Kv~~~-~~sF~~I 79 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDR--HLDQIILCAIYGICKVSKE-ELSFKDI 79 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS---HHHHHHHHHHHHHHHTT--S--HHHH
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcc--hHHHHHHHHHHHHHHhhcC-CCCHHHH
Confidence 445577899999999998888888899888754 344444 7999999999999999752 3344454
No 41
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=25.52 E-value=94 Score=31.60 Aligned_cols=73 Identities=15% Similarity=0.185 Sum_probs=58.7
Q ss_pred ChHHHHHHHHHHHhccCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHhcCCCc
Q 020177 39 SIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRL 111 (330)
Q Consensus 39 ~~~e~l~~ll~~E~~~~p~~~yl~~~q~~~i~~~~R~~lvdWi~~v~~~~~l~~~t~~lAv~~~DRfls~~~i 111 (330)
+.++...+|.+.|++-..+.+.+..+..+++.+..|..+-.|+-+++++.-+-..+--..+|=|+-||.....
T Consensus 547 Df~qL~DNL~qlErrCKaSWe~L~~Iakhe~~p~l~~r~~~fl~~cA~RI~~LKivhrr~~NRfHSFLLy~Gy 619 (817)
T KOG1925|consen 547 DFEQLTDNLGQLERRCKASWESLRSIAKHELAPALRARLTHFLDQCARRIAMLKIVHRRVCNRFHSFLLYLGY 619 (817)
T ss_pred cHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 6778889999999998888888888888899999999999999999987665555444556777777665443
No 42
>PF11357 Spy1: Cell cycle regulatory protein; InterPro: IPR020984 Speedy (Spy1) is a cell cycle regulatory protein which activates CDK2, the major kinase that allows progression through G1/S phase and further replication events. Spy1 expression overcomes a p27-induced cell cycle arrest to allow for DNA synthesis, so cell cycle progression occurs due to an interaction between Spy1 and p27 []. Spy1 is also known as Ringo protein A.
Probab=23.88 E-value=2.2e+02 Score=23.64 Aligned_cols=75 Identities=20% Similarity=0.176 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHhcCCCcCCCCCCchhH-HHHHHhhhhhhhccccC-CchhhhhHhcccc-cccHHHHHHHHHHHHHHcC
Q 020177 94 TSYLSVNYMDRFLYSRRLPDNNGWPWQL-LSVACLSLAAKMEETVV-PSLLDLQVEGAKY-IFETKTIRRMELLVLSVLD 170 (330)
Q Consensus 94 t~~lAv~~~DRfls~~~i~~~~~~~lqL-la~aCL~LAsK~eE~~~-p~l~~l~~~~~~~-~~~~~~I~~mE~~IL~~L~ 170 (330)
.+++.+.||-| -+++.. .++- --..+|+||.-|||... |+..=+.....++ .-....+.++=..+...++
T Consensus 32 LLAmV~~YF~R----agl~~~---~Y~ri~FFlALYLAndmEED~~~~K~~If~f~~G~~w~~~~~~F~klr~~~~~~m~ 104 (131)
T PF11357_consen 32 LLAMVIAYFSR----AGLFSW---QYQRIHFFLALYLANDMEEDDEEPKYEIFPFLYGKNWRSQIPQFHKLRDQFWRRMD 104 (131)
T ss_pred HHHHHHHHHHh----cccchh---hcchHHHHHHHHHhhHHHhccchHHHHHHHHHHCcchHHHhHHHHHHHHHHHHHcC
Confidence 45566666655 333322 3333 35679999999999754 3333333322222 2234667777778888888
Q ss_pred ccccC
Q 020177 171 WRLRS 175 (330)
Q Consensus 171 w~l~~ 175 (330)
|+..+
T Consensus 105 ~Ra~V 109 (131)
T PF11357_consen 105 WRAWV 109 (131)
T ss_pred Cceee
Confidence 87654
No 43
>cd04441 DEP_2_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=23.15 E-value=78 Score=24.13 Aligned_cols=29 Identities=14% Similarity=0.229 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHhCCchhHHHHHHHHHHH
Q 020177 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDR 104 (330)
Q Consensus 75 ~~lvdWi~~v~~~~~l~~~t~~lAv~~~DR 104 (330)
.++||||++.+. ..=..+++.++..++|.
T Consensus 36 sElVdWL~~~~~-~~sR~eAv~lgq~Ll~~ 64 (85)
T cd04441 36 SEFIDWLLQEGE-AESRREAVQLCRRLLEH 64 (85)
T ss_pred hHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 689999998642 23344444555555543
No 44
>cd04443 DEP_GPR155 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in GPR155-like proteins. GRP155-like proteins, also known as PGR22, contain an N-terminal permease domain, a central transmembrane region and a C-terminal DEP domain. They are orphan receptors of the class B G protein-coupled receptors. Their function is unknown.
Probab=21.04 E-value=93 Score=23.52 Aligned_cols=29 Identities=10% Similarity=0.148 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHhCCchhHHHHHHHHHHH
Q 020177 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDR 104 (330)
Q Consensus 75 ~~lvdWi~~v~~~~~l~~~t~~lAv~~~DR 104 (330)
.++|+||++... ..=..+++.+|-.++|.
T Consensus 34 selVdWL~~~~~-~~sR~eAv~lg~~Ll~~ 62 (83)
T cd04443 34 CDLVSWLIEVGL-AQDRGEAVLYGRRLLQG 62 (83)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 689999998522 12223555555555543
No 45
>cd04439 DEP_1_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and by the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=20.80 E-value=81 Score=23.72 Aligned_cols=29 Identities=17% Similarity=0.308 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHhCCchhHHHHHHHHHHH
Q 020177 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDR 104 (330)
Q Consensus 75 ~~lvdWi~~v~~~~~l~~~t~~lAv~~~DR 104 (330)
.++|+||++... ..-..+.+.++-.++|.
T Consensus 32 selVdWL~~~~~-~~~r~eAv~lg~~Ll~~ 60 (81)
T cd04439 32 NEFVSWLLEIGE-ISKPEEGVNLGQALLEN 60 (81)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 679999997642 11123555566555553
Done!