Query 019656
Match_columns 337
No_of_seqs 320 out of 1852
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 03:30:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019656.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019656hhsearch_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 2.4E-48 5.2E-53 362.0 23.5 223 48-275 43-268 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 7.3E-38 1.6E-42 284.6 18.3 240 48-306 111-371 (408)
3 KOG0653 Cyclin B and related k 100.0 1.3E-33 2.9E-38 274.4 20.6 226 48-288 125-352 (391)
4 COG5024 Cyclin [Cell division 100.0 6.1E-33 1.3E-37 267.6 13.2 224 47-287 178-405 (440)
5 KOG0654 G2/Mitotic-specific cy 99.9 4.6E-28 1E-32 228.1 7.2 229 50-293 103-334 (359)
6 TIGR00569 ccl1 cyclin ccl1. Un 99.9 2.1E-24 4.5E-29 202.1 17.8 157 85-245 54-219 (305)
7 PF00134 Cyclin_N: Cyclin, N-t 99.9 9.2E-25 2E-29 179.7 11.2 126 52-185 1-127 (127)
8 KOG0834 CDK9 kinase-activating 99.9 1.7E-23 3.8E-28 195.7 13.6 194 85-285 37-249 (323)
9 KOG0835 Cyclin L [General func 99.8 8.8E-20 1.9E-24 166.9 15.3 191 84-283 20-231 (367)
10 KOG0794 CDK8 kinase-activating 99.8 3.3E-20 7.1E-25 162.2 9.8 189 85-283 39-240 (264)
11 COG5333 CCL1 Cdk activating ki 99.8 8.4E-19 1.8E-23 160.5 12.3 156 85-245 43-205 (297)
12 PRK00423 tfb transcription ini 99.6 1.7E-13 3.6E-18 129.8 18.5 182 87-281 122-304 (310)
13 KOG2496 Cdk activating kinase 99.5 4.7E-14 1E-18 128.5 12.4 147 92-242 61-218 (325)
14 cd00043 CYCLIN Cyclin box fold 99.5 3.3E-14 7.1E-19 107.9 7.3 86 87-177 2-88 (88)
15 smart00385 CYCLIN domain prese 99.5 1.7E-13 3.7E-18 102.9 7.4 82 92-178 1-83 (83)
16 PF02984 Cyclin_C: Cyclin, C-t 99.3 3.9E-12 8.5E-17 102.7 5.5 93 187-285 1-93 (118)
17 COG1405 SUA7 Transcription ini 99.0 2E-08 4.3E-13 93.5 16.8 184 85-281 95-279 (285)
18 KOG1597 Transcription initiati 98.9 2.8E-08 6E-13 90.8 13.6 181 88-282 105-289 (308)
19 PF08613 Cyclin: Cyclin; Inte 98.4 1.3E-06 2.8E-11 74.1 8.4 90 90-184 54-149 (149)
20 KOG1598 Transcription initiati 98.1 2.3E-05 4.9E-10 77.5 10.7 146 93-245 73-222 (521)
21 KOG4164 Cyclin ik3-1/CABLES [C 98.0 2.3E-06 5E-11 81.0 2.7 99 85-187 381-482 (497)
22 cd00043 CYCLIN Cyclin box fold 98.0 3.9E-05 8.6E-10 57.4 7.9 85 186-277 2-87 (88)
23 smart00385 CYCLIN domain prese 97.9 4.8E-05 1E-09 56.3 7.2 81 191-278 1-82 (83)
24 PF00382 TFIIB: Transcription 96.8 0.0033 7.1E-08 46.2 5.5 61 94-158 1-61 (71)
25 PRK00423 tfb transcription ini 95.6 0.059 1.3E-06 51.2 8.6 88 91-184 220-308 (310)
26 KOG1674 Cyclin [General functi 95.1 0.047 1E-06 49.3 5.9 97 90-187 78-181 (218)
27 PF00382 TFIIB: Transcription 93.6 0.26 5.7E-06 35.9 6.0 49 194-245 2-50 (71)
28 KOG0834 CDK9 kinase-activating 88.8 0.53 1.1E-05 44.9 4.1 88 88-178 153-243 (323)
29 PF02984 Cyclin_C: Cyclin, C-t 87.9 1.3 2.8E-05 34.8 5.4 85 91-180 4-89 (118)
30 COG1405 SUA7 Transcription ini 85.5 2.2 4.8E-05 40.0 6.3 57 90-149 194-250 (285)
31 KOG0835 Cyclin L [General func 76.4 11 0.00024 35.9 7.4 65 108-176 161-225 (367)
32 KOG1675 Predicted cyclin [Gene 76.2 2.5 5.3E-05 39.8 3.0 94 101-198 204-299 (343)
33 PF00134 Cyclin_N: Cyclin, N-t 73.8 21 0.00045 28.3 7.8 40 206-245 48-87 (127)
34 TIGR00569 ccl1 cyclin ccl1. Un 72.8 20 0.00044 34.0 8.4 40 207-246 76-115 (305)
35 KOG1597 Transcription initiati 42.5 52 0.0011 31.0 5.2 16 133-148 243-258 (308)
36 PF09080 K-cyclin_vir_C: K cyc 39.1 1.8E+02 0.0038 22.3 6.7 90 190-279 5-97 (106)
37 KOG0794 CDK8 kinase-activating 27.8 2E+02 0.0044 26.2 6.3 38 209-246 61-98 (264)
38 KOG0656 G1/S-specific cyclin D 24.9 2E+02 0.0042 27.8 6.1 41 208-248 97-140 (335)
39 PF07226 DUF1422: Protein of u 22.1 1.5E+02 0.0032 24.0 3.9 39 103-145 39-77 (117)
40 PF01857 RB_B: Retinoblastoma- 22.0 2.6E+02 0.0057 23.1 5.6 57 90-148 14-71 (135)
41 cd04441 DEP_2_DEP6 DEP (Dishev 20.7 1E+02 0.0023 23.4 2.7 28 88-116 36-63 (85)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.4e-48 Score=362.02 Aligned_cols=223 Identities=35% Similarity=0.532 Sum_probs=192.4
Q ss_pred CChHHHHHHHHHHHhccCCCCCCCCCCcccccccchHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccc
Q 019656 48 NGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDG 127 (337)
Q Consensus 48 ~~~~e~~~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~ 127 (337)
..+||+++.|+++|.++.|..++ .......+++.+|..+++||++|+.++++.++|+++|+||||||++.+.+++.
T Consensus 43 ~~~e~~i~~ll~kEe~~~p~~~~----~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~ 118 (335)
T KOG0656|consen 43 LWDERVLANLLEKEEQHNPSLDY----FLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKD 118 (335)
T ss_pred cccHHHHHHHHHHHHHhCCCCch----hhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCC
Confidence 45899999999999999998763 23344557778999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHhhhhccCCCCcccee--eccCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCC
Q 019656 128 KLWAIRLLSVACLSLAAKMEECQVPALSEFQ--VDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECR 205 (337)
Q Consensus 128 ~~w~lqLla~acL~LAaK~EE~~~p~l~dl~--i~~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~ 205 (337)
++|++||+|+|||+||||+||+.+|.+.|++ .+++.|.+++|++||+.||++|+|+|+++||++|+++|+.+++....
T Consensus 119 k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~ 198 (335)
T KOG0656|consen 119 KPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDH 198 (335)
T ss_pred chHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccc
Confidence 9999999999999999999999999999998 35699999999999999999999999999999999999999988765
Q ss_pred hH-HHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCCCCHhHHHHHHH
Q 019656 206 PK-ELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYS 275 (337)
Q Consensus 206 ~~-~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~ 275 (337)
.+ .+..++..++..++.+..|++|+||+||+|++..+....... .+......+..+..++.+.+..|+.
T Consensus 199 ~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l-~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 199 NKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGL-DFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred hHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcch-hhhhhhHHHHHHHHhhHHhhhcchh
Confidence 54 455666778888999999999999999999998876433222 2222124455567788899999998
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=7.3e-38 Score=284.64 Aligned_cols=240 Identities=24% Similarity=0.335 Sum_probs=202.3
Q ss_pred CChHHHHHHHHHHHhccCCCCCCCCCCcccccccchHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcc-ccccc
Q 019656 48 NGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSK-RSIDD 126 (337)
Q Consensus 48 ~~~~e~~~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~-~~v~~ 126 (337)
....|++..|+.||..|.-..++++.++ ++.++||++++|||++||..|+|.++|+|+|+.|||||+.. ..+.+
T Consensus 111 gn~~eVW~lM~kkee~~l~~~~~l~qHp-----dlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~k 185 (408)
T KOG0655|consen 111 GNSKEVWLLMLKKEERYLRDKHFLEQHP-----DLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSK 185 (408)
T ss_pred cCHHHHHHHHHccchhhhhhhHHHhhCC-----CCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhh
Confidence 4689999999999999877777665544 45679999999999999999999999999999999999965 67888
Q ss_pred chhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCC
Q 019656 127 GKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECR 205 (337)
Q Consensus 127 ~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~ 205 (337)
.++ ||+|++|||||||+||++||++.+|+ ++++.++.++|+.||..||++|+|++.++|...+|..|++.......
T Consensus 186 t~l---QLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~ 262 (408)
T KOG0655|consen 186 TNL---QLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDA 262 (408)
T ss_pred hhH---HHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCC
Confidence 887 99999999999999999999999999 99999999999999999999999999999999999999998766543
Q ss_pred h--------HHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCCCCHhHHHHHHHHH
Q 019656 206 P--------KELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLM 277 (337)
Q Consensus 206 ~--------~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~~i 277 (337)
. ....-+..+++..|+.+..++.|.-++|||||++.-.. .. .....+|+.+..|.+|+++|
T Consensus 263 ~k~l~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s----~e-------~v~kaSG~~w~~ie~cv~wm 331 (408)
T KOG0655|consen 263 PKVLLPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTS----IE-------VVKKASGLEWDSIEECVDWM 331 (408)
T ss_pred CceeccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhH----HH-------HHHHcccccHHHHHHHHHHH
Confidence 2 33344667888899999999999999999999998742 11 12245699999999999999
Q ss_pred HHhHhccC-------CCCCccc---cCC-CCCCCcccccc
Q 019656 278 QGIEMGKL-------NTPNSVI---SHS-LSSTSSIDVLK 306 (337)
Q Consensus 278 ~~l~~~~~-------~~~~~~~---~~~-~~~~s~~~v~~ 306 (337)
.-+...-. ++.+++. +|| +++.+.++..+
T Consensus 332 ~Pf~rvi~~~~~~~~~~~~kI~~eDsHnIQtht~~ldM~d 371 (408)
T KOG0655|consen 332 VPFVRVIKSTSPVKLKTFKKIPMEDSHNIQTHTNYLDMLD 371 (408)
T ss_pred HHHHHHHhhccchHhhhccCCCcccccchhhhhhHHHHHH
Confidence 98764322 3333443 666 78888777765
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.3e-33 Score=274.35 Aligned_cols=226 Identities=23% Similarity=0.353 Sum_probs=186.7
Q ss_pred CChHHHHHHHHHHHhccCCCCCCCCCCcccccccchHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccc
Q 019656 48 NGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDG 127 (337)
Q Consensus 48 ~~~~e~~~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~ 127 (337)
+..++++.++..+|..+.|...+ .....+...||.++|||+++||.+|++.+||+++||+++||||++..+++.
T Consensus 125 ey~~di~~~l~~~e~~~~p~~~~------~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~ 198 (391)
T KOG0653|consen 125 EYVQDIFEYLRQLELEFLPLSYD------ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLK 198 (391)
T ss_pred HHHHHHHHHHHHHHHhhCchhhh------cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHH
Confidence 45789999999999655565433 233456778999999999999999999999999999999999999889999
Q ss_pred hhhHHHHHHHHHHH-HHhhhhccCCCCcccee-eccCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCC
Q 019656 128 KLWAIRLLSVACLS-LAAKMEECQVPALSEFQ-VDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECR 205 (337)
Q Consensus 128 ~~w~lqLla~acL~-LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~ 205 (337)
++ ||+|++||+ ||+|+||..+|.+.|++ ++++.|++++|++||+.||++|+|+++.|+|+.||++|.+....+..
T Consensus 199 ~l---qLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d~~ 275 (391)
T KOG0653|consen 199 KL---QLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYDIK 275 (391)
T ss_pred Hh---hHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcchh
Confidence 97 999999966 99999999999999999 99999999999999999999999999999999999999998874322
Q ss_pred hHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCCCCHhHHHHHHHHHHHhHhccC
Q 019656 206 PKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKL 285 (337)
Q Consensus 206 ~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~~i~~l~~~~~ 285 (337)
...... .++...++++.++.++||.+|+|++++++........| ...+..++|+...++.+|.+.+..+.....
T Consensus 276 ~~~~~k---~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~~w---~~~~~~~sg~~~~~~~~~~~~~~~~~~~~~ 349 (391)
T KOG0653|consen 276 TRTLVK---YLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGDVW---SPTLEHYSGYSESYLFECARSLSALSLSSL 349 (391)
T ss_pred HHHHHH---HHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCCcc---CCCCeeccCCCcHHHHHHHHHHHHHHHHhc
Confidence 222222 23445688999999999999999999998544333223 355566788888899999999998665544
Q ss_pred CCC
Q 019656 286 NTP 288 (337)
Q Consensus 286 ~~~ 288 (337)
..|
T Consensus 350 ~~~ 352 (391)
T KOG0653|consen 350 QNP 352 (391)
T ss_pred ccc
Confidence 443
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=6.1e-33 Score=267.62 Aligned_cols=224 Identities=19% Similarity=0.212 Sum_probs=190.9
Q ss_pred CCChHHHHHHHHHHHhccCCCCCCCCCCcccccccchHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhccccccc
Q 019656 47 GNGDEEFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDD 126 (337)
Q Consensus 47 ~~~~~e~~~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~ 126 (337)
.+...|++.+|+.+|..+.|+++|+..+.... -.||..+++||++||.+|++.++|+++||+++|||++++.+.-
T Consensus 178 ~Ey~~~Ife~l~k~e~~~lp~~~yl~kq~~~~-----~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l 252 (440)
T COG5024 178 PEYASDIFEYLLKLELIDLPNPNYLIKQSLYE-----WSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSL 252 (440)
T ss_pred HHHHHHHHHHHHHHHHHhcCcHHHHhhcchhH-----HhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccH
Confidence 46788999999999999999998866554432 2899999999999999999999999999999999999999999
Q ss_pred chhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCC
Q 019656 127 GKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECR 205 (337)
Q Consensus 127 ~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~ 205 (337)
+++ ||+|++|||||||+||+..|.+++|+ ++++.|+.++|+++|+.+|.+|+|++..|+|..||+++.+.-..+
T Consensus 253 ~k~---QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd-- 327 (440)
T COG5024 253 EKY---QLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYD-- 327 (440)
T ss_pred HHH---HHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccc--
Confidence 998 99999999999999999999999999 999999999999999999999999999999999999988764332
Q ss_pred hHHHHHH-HHH-HHHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCC-CCHhHHHHHHHHHHHhHh
Q 019656 206 PKELVSR-AVE-LIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGS-PEIEHIYSCYSLMQGIEM 282 (337)
Q Consensus 206 ~~~~~~~-~~~-~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~-~~~~~l~~C~~~i~~l~~ 282 (337)
...+ ... ++.....++.|++++||.+||||++.++... ....|+ ..+..++| |+.+++..+...+.+...
T Consensus 328 ---~~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~-~~~~w~---~~l~~ySg~y~~~~l~~~~~~~~~~l~ 400 (440)
T COG5024 328 ---IFSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKIL-SQNQWD---RTLIHYSGNYTNPDLKPLNESNKENLQ 400 (440)
T ss_pred ---hhhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhh-ccCCCC---ccccccCCCCCchhHHHHHHHHHHHhc
Confidence 2222 222 3334588999999999999999999998543 333455 45556666 999999999999998776
Q ss_pred ccCCC
Q 019656 283 GKLNT 287 (337)
Q Consensus 283 ~~~~~ 287 (337)
+...+
T Consensus 401 ~~~~~ 405 (440)
T COG5024 401 NPSVH 405 (440)
T ss_pred ccchh
Confidence 65444
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.94 E-value=4.6e-28 Score=228.10 Aligned_cols=229 Identities=21% Similarity=0.267 Sum_probs=193.1
Q ss_pred hHHHHHHHHHHHhc-cCCCCCCCCCCcccccccchHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccch
Q 019656 50 DEEFIEKLVDKETD-FGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGK 128 (337)
Q Consensus 50 ~~e~~~~L~~~E~~-~~~~~~~~~~~~~~~~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~ 128 (337)
..++.++++.-|.. ..|.+++++. ...++++.||.++|+|.++|+..+++..+|+|+++++.|||+....+.+.+
T Consensus 103 ~~~I~~~~r~~ei~~~rp~~~~~e~----vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k 178 (359)
T KOG0654|consen 103 AAKIYNTLRVSDIKSERPLPSKFEF----VQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQK 178 (359)
T ss_pred HHHHhhcccccchhhccCcccceee----eecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHH
Confidence 55778888888887 8888777653 345678899999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCChH
Q 019656 129 LWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPK 207 (337)
Q Consensus 129 ~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~~~ 207 (337)
. |++|.+|++||+|+||..+|.+.+|+ ++++.|+..++.+||..||+.|.|.+..||...|++.|+...... ..
T Consensus 179 ~---ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~--~~ 253 (359)
T KOG0654|consen 179 L---QLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTP--EL 253 (359)
T ss_pred H---HHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcch--hH
Confidence 8 99999999999999999999999999 999999999999999999999999999999999999998887541 12
Q ss_pred HHHHHHHHH-HHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCCCCHhHHHHHHHHHHHhHhccCC
Q 019656 208 ELVSRAVEL-IMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMGKLN 286 (337)
Q Consensus 208 ~~~~~~~~~-l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~~i~~l~~~~~~ 286 (337)
. +...+.+ ....+.++.|+.|.||.|||||+++|..... ...|+ +.+..+++|+.+++..|+..|+ ++.+...
T Consensus 254 ~-~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~-~~pW~---~~L~~~T~y~~edl~~~v~~L~-~~l~~~~ 327 (359)
T KOG0654|consen 254 Q-VEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD-FHPWN---QTLEDYTGYKAEDLKPCVLDLH-LYLNASG 327 (359)
T ss_pred H-HHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc-CCCCc---hhhHHhhcccHHHHHHHHHHHh-cccCCCC
Confidence 2 2223333 3345788889999999999999999975433 34444 6677889999999999999999 7776655
Q ss_pred CCCcccc
Q 019656 287 TPNSVIS 293 (337)
Q Consensus 287 ~~~~~~~ 293 (337)
.+-+...
T Consensus 328 ~~l~air 334 (359)
T KOG0654|consen 328 TDLPAIR 334 (359)
T ss_pred CchHHHH
Confidence 5444433
No 6
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.92 E-value=2.1e-24 Score=202.11 Aligned_cols=157 Identities=18% Similarity=0.223 Sum_probs=135.0
Q ss_pred HHHHHHHHHHHHhHHHhC--CChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-ecc
Q 019656 85 CARLDAIEWIFNKRAMFG--FQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDD 161 (337)
Q Consensus 85 ~~R~~~v~Wi~~v~~~~~--l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~ 161 (337)
..|...+++|.++|.+|+ +++.|+++|+.||+||+.++++...++ +++|+||||||||+||.. .++.+|+ ...
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p---~~Ia~tclfLA~KvEE~~-~si~~fv~~~~ 129 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHP---KIIMLTCVFLACKVEEFN-VSIDQFVGNLK 129 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCH---HHHHHHHHHHHHhccccC-cCHHHHHhhcc
Confidence 689999999999999999 999999999999999999999999998 999999999999999995 4578876 322
Q ss_pred --CCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCC----CChHHHHHHHHHHHHHHHhhhhccCCcHHHHH
Q 019656 162 --FDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGE----CRPKELVSRAVELIMTITKVINLMNHRPSAIA 235 (337)
Q Consensus 162 --~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~----~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IA 235 (337)
.....++|++||..||++|+|++.+++|+.+|..|+..++.. .....+...++.++.+.+....++.|+||+||
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 234679999999999999999999999999999998765421 12244566778888888777778889999999
Q ss_pred HHHHHHHHcC
Q 019656 236 AAAVLAASDG 245 (337)
Q Consensus 236 aAal~lA~~~ 245 (337)
+|||++|...
T Consensus 210 lAAI~lA~~~ 219 (305)
T TIGR00569 210 LAAILHTASR 219 (305)
T ss_pred HHHHHHHHHH
Confidence 9999999754
No 7
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.92 E-value=9.2e-25 Score=179.73 Aligned_cols=126 Identities=31% Similarity=0.481 Sum_probs=110.1
Q ss_pred HHHHHHHHHHhccCCCCCCCCCCcccccccchHHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhH
Q 019656 52 EFIEKLVDKETDFGSKGCGFSDDCSTRTQSWLKCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWA 131 (337)
Q Consensus 52 e~~~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~ 131 (337)
|++.+|+++|.++.++..+++.++ .++...|..+++||.+++..+++++.|+++|+.|||||+....+.+.++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~~~-----~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~-- 73 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQQP-----EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKL-- 73 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTGTS-----SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGH--
T ss_pred CHHHHHHHHHHHHCcCccccccCh-----hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchh--
Confidence 689999999999988777765433 4667899999999999999999999999999999999999999888887
Q ss_pred HHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHHHHHHHHHHHHcCCccc
Q 019656 132 IRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVIQRMELLVLSTLDWKMG 185 (337)
Q Consensus 132 lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~~mE~~IL~~L~~~l~ 185 (337)
+++|+|||+||+|++|..+|.+.++. ++++.|++++|.+||+.||++|+|+++
T Consensus 74 -~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 74 -QLIALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp -HHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred -hhhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999999999998 788899999999999999999999985
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.90 E-value=1.7e-23 Score=195.68 Aligned_cols=194 Identities=18% Similarity=0.170 Sum_probs=161.9
Q ss_pred HHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCC
Q 019656 85 CARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFD 163 (337)
Q Consensus 85 ~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~ 163 (337)
+.|...+.||.+++..+|+++.|+++|+.||+||+...++....+ +.+|++|||||+|+||. +.+++|++ ++...
T Consensus 37 ~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~---~~vA~sclfLAgKvEet-p~kl~dIi~~s~~~ 112 (323)
T KOG0834|consen 37 RLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDP---YTVAASCLFLAGKVEET-PRKLEDIIKVSYRY 112 (323)
T ss_pred HHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcH---HHHHHHHHHHHhhcccC-cccHHHHHHHHHHH
Confidence 689999999999999999999999999999999999999999998 99999999999999999 67788887 44322
Q ss_pred C-------------CHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCCh-HHHHHHHHHHHHHHHhhhhccCC
Q 019656 164 F-------------ENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRP-KELVSRAVELIMTITKVINLMNH 229 (337)
Q Consensus 164 ~-------------~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~~-~~~~~~~~~~l~~~l~~~~~l~~ 229 (337)
+ .++.|+..|+.||++|+|++++-+||.||-.|++.++..... ..+...++.++.+++....+++|
T Consensus 113 ~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y 192 (323)
T KOG0834|consen 113 LNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQY 192 (323)
T ss_pred cCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEee
Confidence 2 246699999999999999999999999999999999876543 24667778899999998999999
Q ss_pred cHHHHHHHHHHHHHcCCCCchhhhhhhcccccC--CC--CCHhHHHHHHHHHHHhHhccC
Q 019656 230 RPSAIAAAAVLAASDGQLTRETIELKMNVFPSC--GS--PEIEHIYSCYSLMQGIEMGKL 285 (337)
Q Consensus 230 ~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~--~~--~~~~~l~~C~~~i~~l~~~~~ 285 (337)
+|..||+|||++|...... .++.+... .|| .+ ++.+.|.+.+..+..+|....
T Consensus 193 ~p~~IAva~i~lA~~~~~~--~~~~~~~~-~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~ 249 (323)
T KOG0834|consen 193 SPHSIAVACIHLAAKLLGV--ELPSDTDK-RWWREFDETVTNELLDDICHEFLDLYEQTP 249 (323)
T ss_pred cCcEEEeehhhHHHHHcCC--CCCCCccc-chhhhhcccCCHHHHHHHHHHHHHHHhhcc
Confidence 9999999999999753322 22211111 233 33 889999999999999996543
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.83 E-value=8.8e-20 Score=166.88 Aligned_cols=191 Identities=15% Similarity=0.122 Sum_probs=153.9
Q ss_pred HHHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-ecc-
Q 019656 84 KCARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDD- 161 (337)
Q Consensus 84 ~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~- 161 (337)
...|...++||.+.+.-++|++.+.+++..+|.||+...++-+.++ ..+++||++||+|+||. |..++++. +-.
T Consensus 20 ~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~---e~vv~ACv~LASKiEE~-Prr~rdVinVFh~ 95 (367)
T KOG0835|consen 20 EELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDF---EIVVMACVLLASKIEEE-PRRIRDVINVFHY 95 (367)
T ss_pred HHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccH---HHHHHHHHHHHhhhccc-cccHhHHHHHHHH
Confidence 4689999999999999999999999999999999999999988887 99999999999999998 55566653 210
Q ss_pred ------------------CCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhh
Q 019656 162 ------------------FDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKV 223 (337)
Q Consensus 162 ------------------~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~ 223 (337)
+.-.+..+.++|+.||++|+|++++.+|+.++-.|++.++.... ..+++.+|.|+.+.+..
T Consensus 96 L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~-~~l~Q~~wNfmNDslRT 174 (367)
T KOG0835|consen 96 LEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPN-LKLLQAAWNFMNDSLRT 174 (367)
T ss_pred HHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCc-hhHHHHHHHhhhhcccc
Confidence 11133458899999999999999999999999999999988765 46788899999999999
Q ss_pred hhccCCcHHHHHHHHHHHHHcCCC-CchhhhhhhcccccCCCCCHhHHHHHHHHHHHhHhc
Q 019656 224 INLMNHRPSAIAAAAVLAASDGQL-TRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMG 283 (337)
Q Consensus 224 ~~~l~~~PS~IAaAal~lA~~~~~-~~~~~~~~~~~l~~~~~~~~~~l~~C~~~i~~l~~~ 283 (337)
-.|+.|+|+.||+|||++|..... +....+.|+. +.+.++.+|.+.+-.+..+|..
T Consensus 175 ~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~----~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 175 DVFVRYSPESIACACIYLAARNLEIPLPFQPHWFK----AFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred ceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHH----HcCCcHHHHHHHHHHHHHHHHh
Confidence 999999999999999999974332 2122223332 2356777777655555555543
No 10
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.82 E-value=3.3e-20 Score=162.23 Aligned_cols=189 Identities=20% Similarity=0.242 Sum_probs=152.5
Q ss_pred HHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-----e
Q 019656 85 CARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-----V 159 (337)
Q Consensus 85 ~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-----i 159 (337)
+.+--..+.|..++.++++.+.++++|+.||-||+.++++..-.+ .++|.||++||||+||..+-.++-++ +
T Consensus 39 ~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p---~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L 115 (264)
T KOG0794|consen 39 KLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEP---RLLAPTCLYLACKVEECPIVHIRLLVNEAKVL 115 (264)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCH---HHHHHHHHHHHhhhhhcchHHHHHHHHHHHHH
Confidence 455667788999999999999999999999999999999888888 99999999999999998322122111 1
Q ss_pred --------ccCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcH
Q 019656 160 --------DDFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRP 231 (337)
Q Consensus 160 --------~~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~P 231 (337)
....+..+.|..||..+|+.|+.-|-+.+||.-|..+++..+..+ ......++.++++....-.++-|+|
T Consensus 116 ~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d--~~~l~~~W~ivNDSyr~Dl~Ll~PP 193 (264)
T KOG0794|consen 116 KTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGIND--QKLLQLAWSIVNDSYRMDLCLLYPP 193 (264)
T ss_pred hhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccc--hhhhhhhHhhhcchhhcceeeecCH
Confidence 125677888999999999999999999999999999999887643 4567777888888887788888999
Q ss_pred HHHHHHHHHHHHcCCCCchhhhhhhcccccCCCCCHhHHHHHHHHHHHhHhc
Q 019656 232 SAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEMG 283 (337)
Q Consensus 232 S~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~~i~~l~~~ 283 (337)
.+||.||++.|..... +..-..|+..+ .+|.+.|.+|++.|.++|..
T Consensus 194 h~IalAcl~Ia~~~~~-k~~~~~w~~el----~vD~ekV~~~v~~I~~lYe~ 240 (264)
T KOG0794|consen 194 HQIALACLYIACVIDE-KDIPKAWFAEL----SVDMEKVKDIVQEILKLYEL 240 (264)
T ss_pred HHHHHHHHHHHHhhcC-CChHHHHHHHH----hccHHHHHHHHHHHHHHHHH
Confidence 9999999999964322 11113333333 48999999999999998853
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=99.79 E-value=8.4e-19 Score=160.53 Aligned_cols=156 Identities=21% Similarity=0.298 Sum_probs=136.2
Q ss_pred HHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhcc--CCCCccceee---
Q 019656 85 CARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEEC--QVPALSEFQV--- 159 (337)
Q Consensus 85 ~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~--~~p~l~dl~i--- 159 (337)
..|-....||..+|.+++++..++.+||.||+||+.+..+....+ +-++.||++||+|+||+ .+. +..+..
T Consensus 43 ~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~---~~vv~tcv~LA~K~ed~~~~I~-i~~~~~~~~ 118 (297)
T COG5333 43 NLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISL---YSVVTTCVYLACKVEDTPRDIS-IESFEARDL 118 (297)
T ss_pred hHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccH---HHHHHhheeeeeecccccchhh-HHHHHhhcc
Confidence 578888899999999999999999999999999999999988887 99999999999999995 211 111111
Q ss_pred -c-cCCCCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcHHHHHHH
Q 019656 160 -D-DFDFENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAA 237 (337)
Q Consensus 160 -~-~~~~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaA 237 (337)
+ ...-+++.|..+|..||+.|+|++.+++||..+.+|++.+...+. .+....++.++.+.+....++-|+|..||+|
T Consensus 119 ~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~-~~~~~~aw~~inDa~~t~~~llypphiIA~a 197 (297)
T COG5333 119 WSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK-YKLLQIAWKIINDALRTDLCLLYPPHIIALA 197 (297)
T ss_pred ccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH-HHHHHHHHHHHHhhhhceeeeecChHHHHHH
Confidence 1 245688999999999999999999999999999999999887665 5678889999999999999999999999999
Q ss_pred HHHHHHcC
Q 019656 238 AVLAASDG 245 (337)
Q Consensus 238 al~lA~~~ 245 (337)
|++.|...
T Consensus 198 ~l~ia~~~ 205 (297)
T COG5333 198 ALLIACEV 205 (297)
T ss_pred HHHHHHHh
Confidence 99999743
No 12
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.57 E-value=1.7e-13 Score=129.80 Aligned_cols=182 Identities=17% Similarity=0.124 Sum_probs=148.7
Q ss_pred HHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCC
Q 019656 87 RLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFE 165 (337)
Q Consensus 87 R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~ 165 (337)
-.....-|.+++..++++..+.-.|..++.+++....+..... ..+++||||+|||.++. |.++.++. ++ ..+
T Consensus 122 l~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~---~~i~AAclYiACR~~~~-prtl~eI~~~~--~v~ 195 (310)
T PRK00423 122 LAFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSI---EGVVAAALYAACRRCKV-PRTLDEIAEVS--RVS 195 (310)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCH---HHHHHHHHHHHHHHcCC-CcCHHHHHHHh--CCC
Confidence 3556678999999999999999999999999999877766665 99999999999999888 67888887 55 368
Q ss_pred HHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcC
Q 019656 166 NKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDG 245 (337)
Q Consensus 166 ~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~ 245 (337)
.++|.+.++.|++.|++++...+|.+|+..|...++.. ..+...+..++..+.......+.+|..|||||||+|...
T Consensus 196 ~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~---~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~ 272 (310)
T PRK00423 196 RKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLS---GEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLL 272 (310)
T ss_pred HHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999774 345556666665555555557899999999999999643
Q ss_pred CCCchhhhhhhcccccCCCCCHhHHHHHHHHHHHhH
Q 019656 246 QLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIE 281 (337)
Q Consensus 246 ~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~~i~~l~ 281 (337)
.... .....+....+++...|+..++.|.+.+
T Consensus 273 ~g~~----~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 273 LGER----RTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred hCCC----CCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 2211 1223455667999999999999998754
No 13
>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=99.55 E-value=4.7e-14 Score=128.49 Aligned_cols=147 Identities=19% Similarity=0.334 Sum_probs=117.2
Q ss_pred HHHHHhHHHh--CCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee--e-ccCCCCH
Q 019656 92 EWIFNKRAMF--GFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ--V-DDFDFEN 166 (337)
Q Consensus 92 ~Wi~~v~~~~--~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~--i-~~~~~~~ 166 (337)
.-+++.+.+| .+++.++.+|+.||-||+...++...++ ..|.+||+|+|+|+||.++ ++.+|+ + .+..-+.
T Consensus 61 ~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~p---k~I~~tc~flA~Kieef~I-SieqFvkn~~~~~~k~~ 136 (325)
T KOG2496|consen 61 LSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSP---KIIMATCFFLACKIEEFYI-SIEQFVKNMNGRKWKTH 136 (325)
T ss_pred HHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcCh---HHHHHHHHHHHhhhHhhee-cHHHHHhhccCcccccH
Confidence 3444455555 6899999999999999999999999998 9999999999999999865 588887 3 2356788
Q ss_pred HHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCC---CChHHHHHHH---HHHHHHHHhhhhccCCcHHHHHHHHHH
Q 019656 167 KVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGE---CRPKELVSRA---VELIMTITKVINLMNHRPSAIAAAAVL 240 (337)
Q Consensus 167 ~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~---~~~~~~~~~~---~~~l~~~l~~~~~l~~~PS~IAaAal~ 240 (337)
+.|+..|..+++.|+|++.+.+||..++.|+..+... ....++.... ..++..++..-.++-|+||+||.|||+
T Consensus 137 e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil 216 (325)
T KOG2496|consen 137 EIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAIL 216 (325)
T ss_pred HHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHH
Confidence 9999999999999999999999999999998766432 0111222211 356777766777777999999999997
Q ss_pred HH
Q 019656 241 AA 242 (337)
Q Consensus 241 lA 242 (337)
.|
T Consensus 217 ~a 218 (325)
T KOG2496|consen 217 HA 218 (325)
T ss_pred HH
Confidence 66
No 14
>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=99.52 E-value=3.3e-14 Score=107.91 Aligned_cols=86 Identities=34% Similarity=0.463 Sum_probs=78.1
Q ss_pred HHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCC
Q 019656 87 RLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFE 165 (337)
Q Consensus 87 R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~ 165 (337)
|...++||.+++..++++++|.++|+.|+|||+....+.+.++ +++|+||++||+|++|. ++.++++. ++++. +
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~---~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~-~ 76 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSP---SLVAAAALYLAAKVEEI-PPWLKDLVHVTGYA-T 76 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCCh---HHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCC-C
Confidence 6789999999999999999999999999999999988887777 99999999999999999 78888887 65433 9
Q ss_pred HHHHHHHHHHHH
Q 019656 166 NKVIQRMELLVL 177 (337)
Q Consensus 166 ~~~I~~mE~~IL 177 (337)
.++|.+||..|+
T Consensus 77 ~~~i~~~e~~il 88 (88)
T cd00043 77 EEEILRMEKLLL 88 (88)
T ss_pred HHHHHHHHHHhC
Confidence 999999999875
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=99.46 E-value=1.7e-13 Score=102.89 Aligned_cols=82 Identities=33% Similarity=0.422 Sum_probs=73.0
Q ss_pred HHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHHH
Q 019656 92 EWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVIQ 170 (337)
Q Consensus 92 ~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~ 170 (337)
+||.+++..++++++|.++|+.++|||+....+.+.++ +++|+||++||+|++|.. |...++. ++++ |+.++|.
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~---~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~-~~~~~i~ 75 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSP---SLIAAAALYLAAKTEEIP-PWTKELVHYTGY-FTEEEIL 75 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCH---HHHHHHHHHHHHHHhcCC-CCchhHhHhhCC-CCHHHHH
Confidence 59999999999999999999999999999777777777 999999999999999986 5677776 6655 7999999
Q ss_pred HHHHHHHH
Q 019656 171 RMELLVLS 178 (337)
Q Consensus 171 ~mE~~IL~ 178 (337)
+||+.||.
T Consensus 76 ~~~~~il~ 83 (83)
T smart00385 76 RMEKLLLE 83 (83)
T ss_pred HHHHHHhC
Confidence 99999873
No 16
>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=99.28 E-value=3.9e-12 Score=102.68 Aligned_cols=93 Identities=23% Similarity=0.202 Sum_probs=65.4
Q ss_pred CChHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCCCC
Q 019656 187 ITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSPE 266 (337)
Q Consensus 187 ~Tp~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~~ 266 (337)
|||++||++|++..+. .......+..++..++.+..|++|+||+||+||+++|+........|+.. +..++|++
T Consensus 1 PTp~~Fl~~~~~~~~~---~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~---l~~~t~~~ 74 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA---DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPES---LEKLTGYD 74 (118)
T ss_dssp --HHHHHHHHHTSSSH---HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHH---HHHHHTS-
T ss_pred CcHHHHHHHHHHHcCC---cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccCCcc---chhhcCCC
Confidence 7999999999553211 23344444556667799999999999999999999998653322345543 44556899
Q ss_pred HhHHHHHHHHHHHhHhccC
Q 019656 267 IEHIYSCYSLMQGIEMGKL 285 (337)
Q Consensus 267 ~~~l~~C~~~i~~l~~~~~ 285 (337)
+++|.+|++.|.+++....
T Consensus 75 ~~~l~~c~~~i~~~~~~~~ 93 (118)
T PF02984_consen 75 KEDLKECIELIQELLSKAS 93 (118)
T ss_dssp HHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHhcC
Confidence 9999999999999987543
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.00 E-value=2e-08 Score=93.54 Aligned_cols=184 Identities=17% Similarity=0.174 Sum_probs=149.2
Q ss_pred HHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCC
Q 019656 85 CARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFD 163 (337)
Q Consensus 85 ~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~ 163 (337)
+.-..+..-|-.++..++++..+.-.|..++-+.+...-+..... +-++++|+|+||+.... |.++.++. +.+
T Consensus 95 rnl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsi---e~v~AA~iY~acR~~~~-prtl~eIa~a~~-- 168 (285)
T COG1405 95 RNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSI---ESVAAACIYAACRINGV-PRTLDEIAKALG-- 168 (285)
T ss_pred hHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcH---HHHHHHHHHHHHHHcCC-CccHHHHHHHHC--
Confidence 345567788889999999999999999999999998877766665 99999999999999987 66777777 554
Q ss_pred CCHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHH
Q 019656 164 FENKVIQRMELLVLSTLDWKMGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAAS 243 (337)
Q Consensus 164 ~~~~~I~~mE~~IL~~L~~~l~~~Tp~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~ 243 (337)
.++++|.++.+.+...|+=.+.+..|..|+.+|...++.+ .++...+.+++..+.......+-.|+.|||||+|+|.
T Consensus 169 V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~---~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as 245 (285)
T COG1405 169 VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLS---DEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLAS 245 (285)
T ss_pred CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHH
Confidence 6789999999999999999999999999999999999885 4556667777777766667778999999999999996
Q ss_pred cCCCCchhhhhhhcccccCCCCCHhHHHHHHHHHHHhH
Q 019656 244 DGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIE 281 (337)
Q Consensus 244 ~~~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~~i~~l~ 281 (337)
.... .......+...+++++..|+.-++.|.+..
T Consensus 246 ~l~~----~~~tq~eva~v~~vtevTIrnrykel~~~~ 279 (285)
T COG1405 246 LLLG----ERRTQKEVAKVAGVTEVTIRNRYKELADAL 279 (285)
T ss_pred HHhC----CchHHHHHHHHhCCeeeHHHHHHHHHHHhh
Confidence 3222 111113344567899999999997776543
No 18
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.91 E-value=2.8e-08 Score=90.83 Aligned_cols=181 Identities=17% Similarity=0.143 Sum_probs=137.3
Q ss_pred HHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCH
Q 019656 88 LDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFEN 166 (337)
Q Consensus 88 ~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~ 166 (337)
.....-|..++...+|+....-.|-.+|-++-..+....... +-+++|||+|||+-++. |.+++++. +++ .++
T Consensus 105 ~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~---eai~AAclyiACRq~~~-pRT~kEI~~~an--v~k 178 (308)
T KOG1597|consen 105 KAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSV---EALAAACLYIACRQEDV-PRTFKEISAVAN--VSK 178 (308)
T ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccH---HHHHHHHHHHHHHhcCC-CchHHHHHHHHc--CCH
Confidence 345556778899999999999999999999997666655554 99999999999999887 78889888 664 899
Q ss_pred HHHHHHHHHHHHHcCCccccCC--hHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhcc-CCcHHHHHHHHHHHHH
Q 019656 167 KVIQRMELLVLSTLDWKMGSIT--PFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLM-NHRPSAIAAAAVLAAS 243 (337)
Q Consensus 167 ~~I~~mE~~IL~~L~~~l~~~T--p~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l-~~~PS~IAaAal~lA~ 243 (337)
++|-+.-..|+..|+=.....+ ..+|+.+|...++.+... ..++..+.....+..+. +-.|=.||||+||++.
T Consensus 179 KEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~----q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmis 254 (308)
T KOG1597|consen 179 KEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKSA----QEAATEIAEKAEEMDIRAGRSPISIAAAAIYMIS 254 (308)
T ss_pred HHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHH----HHHHHHHHHHHHHhccccCCCchhHHHHHHHHHH
Confidence 9999999999999987766665 889999999999875432 22233333333444444 4779999999999996
Q ss_pred cCCCCchhhhhhhcccccCCCCCHhHHHHHHHHHHHhHh
Q 019656 244 DGQLTRETIELKMNVFPSCGSPEIEHIYSCYSLMQGIEM 282 (337)
Q Consensus 244 ~~~~~~~~~~~~~~~l~~~~~~~~~~l~~C~~~i~~l~~ 282 (337)
.....+. ....+...+|+.+..|+.-|+.|.....
T Consensus 255 qls~~kk----t~keI~~vtgVaE~TIr~sYK~Lyp~~~ 289 (308)
T KOG1597|consen 255 QLSDEKK----TQKEIGEVTGVAEVTIRNSYKDLYPHAD 289 (308)
T ss_pred HhccCcc----cHHHHHHHhhhhHHHHHHHHHHHhhchh
Confidence 4222111 1234556689999999999998876543
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=98.40 E-value=1.3e-06 Score=74.14 Aligned_cols=90 Identities=18% Similarity=0.239 Sum_probs=67.4
Q ss_pred HHHHHHHhHHHhCCChHHHHHHHHHHHhhhc---ccc--cccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCC
Q 019656 90 AIEWIFNKRAMFGFQFRTAYLSVDFLDRFLS---KRS--IDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFD 163 (337)
Q Consensus 90 ~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls---~~~--v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~ 163 (337)
+.+|+.++..+-+++++++.+|+.|+||+.. ... +..... +-+-++||.+|+|+-+-....-+.+. +++
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~---~Rl~l~alilA~K~~~D~~~~n~~~a~v~g-- 128 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNI---HRLFLTALILASKFLDDNTYSNKSWAKVGG-- 128 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTH---HHHHHHHHHHHHHHH-SS---HHHHHHHHT--
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchh---HHHHHHHHHHHHhhcccccccHHHHHhhcC--
Confidence 7789999999999999999999999999998 222 333333 88899999999999555455566666 654
Q ss_pred CCHHHHHHHHHHHHHHcCCcc
Q 019656 164 FENKVIQRMELLVLSTLDWKM 184 (337)
Q Consensus 164 ~~~~~I~~mE~~IL~~L~~~l 184 (337)
++.+++.+||+..|..|+|+|
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 699999999999999999986
No 20
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=98.09 E-value=2.3e-05 Score=77.48 Aligned_cols=146 Identities=16% Similarity=0.178 Sum_probs=122.0
Q ss_pred HHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHHHH
Q 019656 93 WIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVIQR 171 (337)
Q Consensus 93 Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~~ 171 (337)
-|-+++..+++.. .+-.|.++|---+.....+.... +.+..+||||+|..|-+.. .+-||. +.. .+.-++-.
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~---~~vvasClY~vcR~e~t~h-lliDfS~~Lq--v~Vy~LG~ 145 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRS---TEVVAACLYLVCRLEKTDH-LLIDFSSYLQ--VSVYDLGS 145 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcch---HHHHHHHHHHHHHhhCCce-EEEEeccceE--EehhhhhH
Confidence 6788999999999 99999999988888777776665 9999999999999988843 345554 332 45667777
Q ss_pred HHHHHHHHcCCc---cccCChHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcC
Q 019656 172 MELLVLSTLDWK---MGSITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDG 245 (337)
Q Consensus 172 mE~~IL~~L~~~---l~~~Tp~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~ 245 (337)
+=+.|-..|.-. +..+.|.-|+.+|...+...++..+++..+.+++.....|.-..+-+|+-|+-|||++|...
T Consensus 146 ~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~ 222 (521)
T KOG1598|consen 146 NFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARM 222 (521)
T ss_pred HHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHH
Confidence 888888888877 77889999999999999887777778888888888888899999999999999999999743
No 21
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.04 E-value=2.3e-06 Score=80.96 Aligned_cols=99 Identities=19% Similarity=0.284 Sum_probs=84.8
Q ss_pred HHHHHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee--ec-c
Q 019656 85 CARLDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ--VD-D 161 (337)
Q Consensus 85 ~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~--i~-~ 161 (337)
++|. +=.=|.+++..-++..-|+++|-.||.....+..+.+.+. +|.|-|||.||+||.+..--.++.+. .. .
T Consensus 381 KirS-lKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NR---KlcAGAclLlaaKmnD~Kks~vKslIek~Ee~ 456 (497)
T KOG4164|consen 381 KIRS-LKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNR---KLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQ 456 (497)
T ss_pred HHHH-HHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhh---hHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence 3443 4455778888899999999999999999999999998888 99999999999999987666677765 32 2
Q ss_pred CCCCHHHHHHHHHHHHHHcCCccccC
Q 019656 162 FDFENKVIQRMELLVLSTLDWKMGSI 187 (337)
Q Consensus 162 ~~~~~~~I~~mE~~IL~~L~~~l~~~ 187 (337)
..+.+.+++..|.-||.+|.|.|+++
T Consensus 457 fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 457 FRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred hcccHHhhhhhhhhHHHhhhhhccCC
Confidence 88899999999999999999999865
No 22
>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=97.98 E-value=3.9e-05 Score=57.41 Aligned_cols=85 Identities=22% Similarity=0.185 Sum_probs=65.7
Q ss_pred cCChHHHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCCC
Q 019656 186 SITPFAFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSP 265 (337)
Q Consensus 186 ~~Tp~~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~ 265 (337)
.++|..|+..+...++.+ ......+..++..++....+.++.|+.||+||+++|.+.... +.+...+...+++
T Consensus 2 ~~~~~~~l~~~~~~~~~~---~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~----~~~~~~~~~~~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLS---PETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI----PPWLKDLVHVTGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC----CCCHHHHhHHhCC
Confidence 578999999999988553 456667777888888888889999999999999999754333 2333445556678
Q ss_pred -CHhHHHHHHHHH
Q 019656 266 -EIEHIYSCYSLM 277 (337)
Q Consensus 266 -~~~~l~~C~~~i 277 (337)
+.++|..+...|
T Consensus 75 ~~~~~i~~~e~~i 87 (88)
T cd00043 75 ATEEEILRMEKLL 87 (88)
T ss_pred CCHHHHHHHHHHh
Confidence 899999887765
No 23
>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=97.91 E-value=4.8e-05 Score=56.35 Aligned_cols=81 Identities=22% Similarity=0.166 Sum_probs=60.4
Q ss_pred HHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCCCCchhhhhhhcccccCCCC-CHhH
Q 019656 191 AFLHYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQLTRETIELKMNVFPSCGSP-EIEH 269 (337)
Q Consensus 191 ~fl~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~~~~~~~~~~~~~l~~~~~~-~~~~ 269 (337)
+|+..+...++.+ ......+..++..++.+..+++++|+.||+||+++|.+..... . |...+..++++ +.++
T Consensus 1 ~~l~~~~~~~~~~---~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~-~---~~~~~~~~~~~~~~~~ 73 (83)
T smart00385 1 DFLRRVCKALNLD---PETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP-P---WTKELVHYTGYFTEEE 73 (83)
T ss_pred CHHHHHHHHcCCC---HHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC-C---CchhHhHhhCCCCHHH
Confidence 3677777777663 4566667778888888888999999999999999997544322 2 33445566677 9999
Q ss_pred HHHHHHHHH
Q 019656 270 IYSCYSLMQ 278 (337)
Q Consensus 270 l~~C~~~i~ 278 (337)
+.+|...|.
T Consensus 74 i~~~~~~il 82 (83)
T smart00385 74 ILRMEKLLL 82 (83)
T ss_pred HHHHHHHHh
Confidence 999988775
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=96.80 E-value=0.0033 Score=46.18 Aligned_cols=61 Identities=13% Similarity=0.193 Sum_probs=48.2
Q ss_pred HHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee
Q 019656 94 IFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ 158 (337)
Q Consensus 94 i~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~ 158 (337)
|-+++..++|+..+.-.|..++++-....-.....+ ..++++|+|+||+.+.. +.++.++.
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~---~~iaAA~iY~acr~~~~-~~t~~eIa 61 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSP---ESIAAACIYLACRLNGV-PRTLKEIA 61 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-H---HHHHHHHHHHHHHHTTS-SSSHHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCH---HHHHHHHHHHHHHHcCC-CcCHHHHH
Confidence 457899999999999999999999888766665566 99999999999999877 44566664
No 25
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=95.62 E-value=0.059 Score=51.25 Aligned_cols=88 Identities=14% Similarity=0.115 Sum_probs=70.6
Q ss_pred HHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHH
Q 019656 91 IEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVI 169 (337)
Q Consensus 91 v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I 169 (337)
-++|...+..++++..+.-.|..++.+.....-....++ .-+|+||+|+||+..+. +.+++++. ++ ..+..+|
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P---~sIAAAaIYlA~~~~g~-~~t~keIa~v~--~Vs~~tI 293 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGP---TGLAAAAIYIASLLLGE-RRTQREVAEVA--GVTEVTV 293 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCH---HHHHHHHHHHHHHHhCC-CCCHHHHHHHc--CCCHHHH
Confidence 388999999999999999999999988876554455566 99999999999999876 34677765 44 4688889
Q ss_pred HHHHHHHHHHcCCcc
Q 019656 170 QRMELLVLSTLDWKM 184 (337)
Q Consensus 170 ~~mE~~IL~~L~~~l 184 (337)
.+.-+.|++.|+..+
T Consensus 294 ~~~ykel~~~l~~~~ 308 (310)
T PRK00423 294 RNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHhCccc
Confidence 998888888876543
No 26
>KOG1674 consensus Cyclin [General function prediction only]
Probab=95.12 E-value=0.047 Score=49.25 Aligned_cols=97 Identities=12% Similarity=0.149 Sum_probs=70.6
Q ss_pred HHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccc---cccc---hhhH-HHHHHHHHHHHHhhhhccCCCCccceeeccC
Q 019656 90 AIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRS---IDDG---KLWA-IRLLSVACLSLAAKMEECQVPALSEFQVDDF 162 (337)
Q Consensus 90 ~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~---v~~~---~~w~-lqLla~acL~LAaK~EE~~~p~l~dl~i~~~ 162 (337)
+-+++.++..+-+.+++++.+|..|||||..+.+ +... ...+ +.-+-++|+.+|+|+.+..--.-.-++.. +
T Consensus 78 i~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~v-g 156 (218)
T KOG1674|consen 78 IRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKV-G 156 (218)
T ss_pred hHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHh-C
Confidence 4467777888899999999999999999998733 1111 1112 45578999999999986532222222211 4
Q ss_pred CCCHHHHHHHHHHHHHHcCCccccC
Q 019656 163 DFENKVIQRMELLVLSTLDWKMGSI 187 (337)
Q Consensus 163 ~~~~~~I~~mE~~IL~~L~~~l~~~ 187 (337)
..+.+++-.+|...|..++|++.+.
T Consensus 157 gl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 157 GLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred CCChHhhhhhhHHHHhhCCeEEEec
Confidence 4678889999999999999999985
No 27
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=93.55 E-value=0.26 Score=35.92 Aligned_cols=49 Identities=24% Similarity=0.165 Sum_probs=31.7
Q ss_pred HHHHHHhhCCCChHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcC
Q 019656 194 HYFMIKLCGECRPKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDG 245 (337)
Q Consensus 194 ~~f~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~ 245 (337)
..|...++.+ .++...+.+++.........-+-+|..|||||+|+|...
T Consensus 2 ~r~~~~L~L~---~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~ 50 (71)
T PF00382_consen 2 PRICSKLGLP---EDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRL 50 (71)
T ss_dssp HHHHHHTT-----HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHH
T ss_pred hHHHhHcCCC---HHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHH
Confidence 4556666553 455666666665555555555678999999999999643
No 28
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=88.75 E-value=0.53 Score=44.87 Aligned_cols=88 Identities=17% Similarity=0.172 Sum_probs=58.8
Q ss_pred HHHHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee---eccCCC
Q 019656 88 LDAIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ---VDDFDF 164 (337)
Q Consensus 88 ~~~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~---i~~~~~ 164 (337)
.-+++|+..+...-+.......+|-+++-..+...-.-+..+ +.||++||+||+|+-...+|.-.+-. ..+...
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 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSP---HSIAVACIHLAAKLLGVELPSDTDKRWWREFDETV 229 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecC---cEEEeehhhHHHHHcCCCCCCCcccchhhhhcccC
Confidence 346666666666666655677888888888776655666677 99999999999999777666544432 222335
Q ss_pred CHHHHHHHHHHHHH
Q 019656 165 ENKVIQRMELLVLS 178 (337)
Q Consensus 165 ~~~~I~~mE~~IL~ 178 (337)
+.+.+..+...+|.
T Consensus 230 t~e~l~~i~~~~l~ 243 (323)
T KOG0834|consen 230 TNELLDDICHEFLD 243 (323)
T ss_pred CHHHHHHHHHHHHH
Confidence 66666555444443
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=87.92 E-value=1.3 Score=34.80 Aligned_cols=85 Identities=12% Similarity=0.102 Sum_probs=54.9
Q ss_pred HHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHH
Q 019656 91 IEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVI 169 (337)
Q Consensus 91 v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I 169 (337)
.+||.......+...++..+|-.+++-.+....+-+..+ -++|+||+++|.+.-....+--..+. ++ .++.++|
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~P---S~iAaAai~lA~~~~~~~~~~~~~l~~~t--~~~~~~l 78 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPP---SVIAAAAILLARKILGKEPPWPESLEKLT--GYDKEDL 78 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-H---HHHHHHHHHHHHHHHHSSTCSHHHHHHHH--TS-HHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCH---HHHHHHHHHHHHHHhCccccCCccchhhc--CCCHHHH
Confidence 455555544444566788888888888787777777777 99999999999999653222222233 34 3477777
Q ss_pred HHHHHHHHHHc
Q 019656 170 QRMELLVLSTL 180 (337)
Q Consensus 170 ~~mE~~IL~~L 180 (337)
..+=..|.+.+
T Consensus 79 ~~c~~~i~~~~ 89 (118)
T PF02984_consen 79 KECIELIQELL 89 (118)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 76655555544
No 30
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=85.54 E-value=2.2 Score=40.05 Aligned_cols=57 Identities=11% Similarity=0.061 Sum_probs=50.3
Q ss_pred HHHHHHHhHHHhCCChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhcc
Q 019656 90 AIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEEC 149 (337)
Q Consensus 90 ~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~ 149 (337)
-.++|-..+..++|+.++--.|+.+++............+ .-+|++|+++|+++...
T Consensus 194 p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P---~glAaaaiy~as~l~~~ 250 (285)
T COG1405 194 PSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSP---AGLAAAAIYLASLLLGE 250 (285)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCc---hhHHHHHHHHHHHHhCC
Confidence 3489999999999999999999999999998866666677 99999999999999763
No 31
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=76.44 E-value=11 Score=35.85 Aligned_cols=65 Identities=18% Similarity=0.250 Sum_probs=40.1
Q ss_pred HHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhhhhccCCCCccceeeccCCCCHHHHHHHHHHH
Q 019656 108 AYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAKMEECQVPALSEFQVDDFDFENKVIQRMELLV 176 (337)
Q Consensus 108 ~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~i~~~~~~~~~I~~mE~~I 176 (337)
+..|-||+.--+-..-..+..+ .+||++|+++||..+|+..|....+- .-+.+++.+|-..=..+
T Consensus 161 ~Q~~wNfmNDslRT~v~vry~p---e~iACaciyLaAR~~eIpLp~~P~Wf-~~Fd~~k~eid~ic~~l 225 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVRYSP---ESIACACIYLAARNLEIPLPFQPHWF-KAFDTTKREIDEICYRL 225 (367)
T ss_pred HHHHHHhhhhccccceeeecCH---HHHHHHHHHHHHhhhcCCCCCCccHH-HHcCCcHHHHHHHHHHH
Confidence 3444455544444444455666 89999999999999997555544332 22456676665544333
No 32
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=76.21 E-value=2.5 Score=39.76 Aligned_cols=94 Identities=13% Similarity=0.178 Sum_probs=56.9
Q ss_pred hCCChHHHHHHHHHHHhhhcccccc-cchhhHHHHHHHHHHHHHhhhhccCCCCcccee-eccCCCCHHHHHHHHHHHHH
Q 019656 101 FGFQFRTAYLSVDFLDRFLSKRSID-DGKLWAIRLLSVACLSLAAKMEECQVPALSEFQ-VDDFDFENKVIQRMELLVLS 178 (337)
Q Consensus 101 ~~l~~~T~~lAv~~~DRfls~~~v~-~~~~w~lqLla~acL~LAaK~EE~~~p~l~dl~-i~~~~~~~~~I~~mE~~IL~ 178 (337)
..+..+..-....|++|-+.-.... ....| ..+..-.+++|+|+-....-.--|.+ |. ...+.+++..||+.+|+
T Consensus 204 ~qlta~~aiitL~~~erl~~~~e~~~~p~~w--~r~~~g~il~sskv~~dqs~wnvdycqIl-Kd~tveDmNe~ERqfLe 280 (343)
T KOG1675|consen 204 AQLTAECDIITLVYAERLLWLAERDPCPRNW--SRAVLGEILLSSKVYDDQSVWNVDYCEIL-KDQSVDDMNALERQFLE 280 (343)
T ss_pred hhhhhccchHHHHhhHhhhhHhhcCCCcchh--hhhhhhhheehhhhhhhhhcccHHHHHHH-hhccHhhHHHHHHHHHH
Confidence 3344444455567888887553332 23343 44455579999998443211112222 22 34578999999999999
Q ss_pred HcCCccccCChHHHHHHHHH
Q 019656 179 TLDWKMGSITPFAFLHYFMI 198 (337)
Q Consensus 179 ~L~~~l~~~Tp~~fl~~f~~ 198 (337)
.|+|+++.|.. -|-.+|..
T Consensus 281 lLqfNinvp~s-vYAKyYfd 299 (343)
T KOG1675|consen 281 LLQFNINVPSS-EYAKYYFD 299 (343)
T ss_pred HHhhccCccHH-HHHHHHHH
Confidence 99999998753 33444433
No 33
>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=73.81 E-value=21 Score=28.28 Aligned_cols=40 Identities=20% Similarity=0.105 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcC
Q 019656 206 PKELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDG 245 (337)
Q Consensus 206 ~~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~ 245 (337)
....+..+..++...+.........+..||+||+++|.+.
T Consensus 48 ~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~ 87 (127)
T PF00134_consen 48 SPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKM 87 (127)
T ss_dssp BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhh
Confidence 3566777778888887777788899999999999999864
No 34
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=72.81 E-value=20 Score=33.97 Aligned_cols=40 Identities=18% Similarity=0.190 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCC
Q 019656 207 KELVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQ 246 (337)
Q Consensus 207 ~~~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~ 246 (337)
..++..+.-++.......++..|.|-.||++|+++|.+..
T Consensus 76 q~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvE 115 (305)
T TIGR00569 76 TSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVE 115 (305)
T ss_pred chHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcc
Confidence 4455666667777777788899999999999999997644
No 35
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=42.53 E-value=52 Score=30.96 Aligned_cols=16 Identities=6% Similarity=0.285 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHhhhhc
Q 019656 133 RLLSVACLSLAAKMEE 148 (337)
Q Consensus 133 qLla~acL~LAaK~EE 148 (337)
--||++.+|+++-..+
T Consensus 243 iSIAAa~IYmisqls~ 258 (308)
T KOG1597|consen 243 ISIAAAAIYMISQLSD 258 (308)
T ss_pred hhHHHHHHHHHHHhcc
Confidence 4566666666666654
No 36
>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=39.14 E-value=1.8e+02 Score=22.33 Aligned_cols=90 Identities=12% Similarity=-0.033 Sum_probs=44.5
Q ss_pred HHHHHHHHHHhhCCCChH-HHHHHHHHHHHHHHhhhhccCCcHHHHHHH-HHHHHHcCCCCchh-hhhhhcccccCCCCC
Q 019656 190 FAFLHYFMIKLCGECRPK-ELVSRAVELIMTITKVINLMNHRPSAIAAA-AVLAASDGQLTRET-IELKMNVFPSCGSPE 266 (337)
Q Consensus 190 ~~fl~~f~~~~~~~~~~~-~~~~~~~~~l~~~l~~~~~l~~~PS~IAaA-al~lA~~~~~~~~~-~~~~~~~l~~~~~~~ 266 (337)
-+-+...+-+.....+.. ..-.+..+.+-..+.+..--..+||.|||| |-++......+... ---....+....|.+
T Consensus 5 TD~~~~~L~K~~~~~e~L~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~~~~~~~~~LA~~~G~~ 84 (106)
T PF09080_consen 5 TDAIGPLLFKSGFTKEQLFAWHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDTHSGGVVPQLAEALGVS 84 (106)
T ss_dssp HHHHHHHHHHHS-SSTTHHHHHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------HHHHHHHHHT--
T ss_pred cccccHHHHHHcccHHHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCccccccchHHHHHHhCcc
Confidence 334444444444433332 222344556667788888889999999998 66665432221111 000011233445777
Q ss_pred HhHHHHHHHHHHH
Q 019656 267 IEHIYSCYSLMQG 279 (337)
Q Consensus 267 ~~~l~~C~~~i~~ 279 (337)
...+....+.+..
T Consensus 85 ~a~L~AA~E~v~T 97 (106)
T PF09080_consen 85 AATLQAAAESVAT 97 (106)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 7777777666654
No 37
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=27.77 E-value=2e+02 Score=26.23 Aligned_cols=38 Identities=13% Similarity=0.167 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHhhhhccCCcHHHHHHHHHHHHHcCC
Q 019656 209 LVSRAVELIMTITKVINLMNHRPSAIAAAAVLAASDGQ 246 (337)
Q Consensus 209 ~~~~~~~~l~~~l~~~~~l~~~PS~IAaAal~lA~~~~ 246 (337)
+++-+.-++-......++-++.|-.+|..|+|+|.+..
T Consensus 61 ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvE 98 (264)
T KOG0794|consen 61 VIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVE 98 (264)
T ss_pred HHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhh
Confidence 33434445555666677889999999999999997543
No 38
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=24.89 E-value=2e+02 Score=27.79 Aligned_cols=41 Identities=17% Similarity=0.075 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHhhhhccCCc---HHHHHHHHHHHHHcCCCC
Q 019656 208 ELVSRAVELIMTITKVINLMNHR---PSAIAAAAVLAASDGQLT 248 (337)
Q Consensus 208 ~~~~~~~~~l~~~l~~~~~l~~~---PS~IAaAal~lA~~~~~~ 248 (337)
...-.++.+++..+....+-..+ =-.||+||+.+|.+...+
T Consensus 97 ~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~ 140 (335)
T KOG0656|consen 97 LVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEET 140 (335)
T ss_pred HHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCc
Confidence 34445566777777777777766 556788888888765433
No 39
>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=22.12 E-value=1.5e+02 Score=23.95 Aligned_cols=39 Identities=23% Similarity=0.318 Sum_probs=31.6
Q ss_pred CChHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHhh
Q 019656 103 FQFRTAYLSVDFLDRFLSKRSIDDGKLWAIRLLSVACLSLAAK 145 (337)
Q Consensus 103 l~~~T~~lAv~~~DRfls~~~v~~~~~w~lqLla~acL~LAaK 145 (337)
|+--++.+|+.-+.+-+..+.++.+- -.+|.+|+++..=
T Consensus 39 FPlIaLvLavy~LyQ~Yl~~~m~eg~----P~~a~acFflG~f 77 (117)
T PF07226_consen 39 FPLIALVLAVYCLYQRYLNHPMPEGT----PKLALACFFLGLF 77 (117)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCC----hHHHHHHHHHHHH
Confidence 45678899998888888888888776 5889999998763
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=22.02 E-value=2.6e+02 Score=23.10 Aligned_cols=57 Identities=5% Similarity=0.007 Sum_probs=42.7
Q ss_pred HHHHHHHhHHHhCCChHHHHHHHHHHHhhhcc-cccccchhhHHHHHHHHHHHHHhhhhc
Q 019656 90 AIEWIFNKRAMFGFQFRTAYLSVDFLDRFLSK-RSIDDGKLWAIRLLSVACLSLAAKMEE 148 (337)
Q Consensus 90 ~v~Wi~~v~~~~~l~~~T~~lAv~~~DRfls~-~~v~~~~~w~lqLla~acL~LAaK~EE 148 (337)
+..=|.++|.+++++++..-..-..|+..+.. ..+-+++. +--+.+.|+++-+|+..
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRH--LDQiilCaiY~i~Kv~~ 71 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRH--LDQIILCAIYGICKVSK 71 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS---HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcch--HHHHHHHHHHHHHHhhc
Confidence 44557789999999998877777888888854 44545443 57788999999999865
No 41
>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=20.71 E-value=1e+02 Score=23.37 Aligned_cols=28 Identities=14% Similarity=0.325 Sum_probs=15.6
Q ss_pred HHHHHHHHHhHHHhCCChHHHHHHHHHHH
Q 019656 88 LDAIEWIFNKRAMFGFQFRTAYLSVDFLD 116 (337)
Q Consensus 88 ~~~v~Wi~~v~~~~~l~~~T~~lAv~~~D 116 (337)
.++|+||++.+. ..=..+++.++..++|
T Consensus 36 sElVdWL~~~~~-~~sR~eAv~lgq~Ll~ 63 (85)
T cd04441 36 SEFIDWLLQEGE-AESRREAVQLCRRLLE 63 (85)
T ss_pred hHHHHHHHHcCC-CCCHHHHHHHHHHHHH
Confidence 579999998642 2223344444444444
Done!