Query 018657
Match_columns 352
No_of_seqs 316 out of 1793
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 02:56:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018657.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018657hhsearch_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 1.1E-52 2.3E-57 393.2 22.9 220 54-279 42-268 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 1.9E-36 4.2E-41 276.6 16.7 223 54-287 110-337 (408)
3 KOG0653 Cyclin B and related k 100.0 2.9E-32 6.2E-37 266.7 19.7 218 55-288 125-348 (391)
4 COG5024 Cyclin [Cell division 100.0 9.4E-32 2E-36 260.8 15.0 219 54-288 178-402 (440)
5 KOG0654 G2/Mitotic-specific cy 99.9 1.8E-26 3.8E-31 218.6 10.0 214 57-285 103-322 (359)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 3.4E-24 7.3E-29 177.5 12.3 127 59-193 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 6E-22 1.3E-26 186.6 18.2 190 91-284 54-251 (305)
8 PRK00423 tfb transcription ini 99.9 3.1E-20 6.7E-25 176.7 20.5 261 6-285 24-304 (310)
9 KOG0834 CDK9 kinase-activating 99.8 2.9E-20 6.3E-25 175.0 16.3 192 90-288 36-248 (323)
10 KOG1597 Transcription initiati 99.8 6.9E-19 1.5E-23 160.1 16.6 264 5-290 14-293 (308)
11 KOG0835 Cyclin L [General func 99.8 1.9E-17 4.1E-22 152.4 19.6 186 90-284 20-229 (367)
12 COG5333 CCL1 Cdk activating ki 99.7 2.7E-16 5.8E-21 144.9 12.5 165 90-264 42-211 (297)
13 KOG0794 CDK8 kinase-activating 99.6 3.8E-16 8.2E-21 137.5 8.5 183 95-287 43-240 (264)
14 cd00043 CYCLIN Cyclin box fold 99.5 2.3E-13 4.9E-18 103.9 9.0 87 93-185 2-88 (88)
15 COG1405 SUA7 Transcription ini 99.4 1.5E-11 3.2E-16 115.0 20.1 253 6-284 14-278 (285)
16 smart00385 CYCLIN domain prese 99.4 6.4E-13 1.4E-17 100.4 8.2 83 98-186 1-83 (83)
17 KOG2496 Cdk activating kinase 99.2 1.8E-11 4E-16 112.2 8.2 156 96-255 59-219 (325)
18 PF02984 Cyclin_C: Cyclin, C-t 99.2 7.5E-11 1.6E-15 95.8 7.0 86 195-287 1-91 (118)
19 PF08613 Cyclin: Cyclin; Inte 98.5 6.6E-07 1.4E-11 76.4 9.5 93 96-192 54-149 (149)
20 KOG1598 Transcription initiati 98.5 2.5E-06 5.3E-11 84.6 13.8 147 99-257 73-222 (521)
21 KOG4164 Cyclin ik3-1/CABLES [C 98.1 2.1E-06 4.5E-11 81.7 4.5 105 88-195 377-482 (497)
22 smart00385 CYCLIN domain prese 97.6 0.00031 6.7E-09 52.3 7.5 76 199-282 1-82 (83)
23 cd00043 CYCLIN Cyclin box fold 97.6 0.00056 1.2E-08 51.4 9.0 80 194-281 2-87 (88)
24 PF00382 TFIIB: Transcription 97.1 0.0034 7.3E-08 46.4 8.1 63 100-166 1-63 (71)
25 KOG1674 Cyclin [General functi 96.0 0.047 1E-06 49.5 9.1 97 96-195 78-181 (218)
26 PRK00423 tfb transcription ini 95.9 0.058 1.3E-06 51.6 10.1 89 97-192 220-308 (310)
27 PF00382 TFIIB: Transcription 92.6 0.68 1.5E-05 33.9 7.0 50 201-257 1-50 (71)
28 PF02984 Cyclin_C: Cyclin, C-t 87.4 2.8 6.2E-05 33.0 7.2 87 97-189 4-90 (118)
29 COG1405 SUA7 Transcription ini 87.2 1.7 3.6E-05 41.1 6.5 88 95-189 193-280 (285)
30 KOG0834 CDK9 kinase-activating 86.2 0.84 1.8E-05 43.8 3.9 91 95-188 154-245 (323)
31 PF08271 TF_Zn_Ribbon: TFIIB z 81.8 0.96 2.1E-05 29.8 1.6 27 6-33 13-42 (43)
32 KOG1675 Predicted cyclin [Gene 80.9 2.3 5E-05 40.1 4.3 99 103-205 200-298 (343)
33 KOG0835 Cyclin L [General func 74.7 18 0.00038 34.7 8.3 45 136-183 180-224 (367)
34 PF01857 RB_B: Retinoblastoma- 44.9 83 0.0018 26.2 6.4 67 96-165 14-81 (135)
35 KOG1597 Transcription initiati 43.6 1.5E+02 0.0033 28.1 8.4 27 137-164 241-267 (308)
36 PF09080 K-cyclin_vir_C: K cyc 42.9 1.5E+02 0.0033 22.7 8.4 87 197-286 4-100 (106)
37 TIGR00569 ccl1 cyclin ccl1. Un 30.8 1.1E+02 0.0024 29.2 5.6 20 236-255 93-112 (305)
38 PF00134 Cyclin_N: Cyclin, N-t 29.1 2.3E+02 0.0051 22.2 6.6 23 238-260 68-90 (127)
39 PF03261 CDK5_activator: Cycli 26.7 1.5E+02 0.0032 28.7 5.6 66 94-159 222-295 (346)
40 PF11357 Spy1: Cell cycle regu 25.8 3.6E+02 0.0078 22.4 7.0 76 113-194 32-109 (131)
41 PF07226 DUF1422: Protein of u 24.0 1.1E+02 0.0024 24.8 3.5 39 109-151 39-77 (117)
42 TIGR01446 DnaD_dom DnaD and ph 21.8 1.6E+02 0.0035 21.1 4.0 30 87-120 12-41 (73)
43 PF14376 Haem_bd: Haem-binding 20.7 1.2E+02 0.0025 25.3 3.3 44 58-102 92-135 (137)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.1e-52 Score=393.21 Aligned_cols=220 Identities=40% Similarity=0.650 Sum_probs=199.3
Q ss_pred CCChHHHHHHHHHHhhhhccCCCccccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCC
Q 018657 54 DADADDVVSRLIDRESETHHMLHPDYLHRFRDCSVFVTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLA 133 (352)
Q Consensus 54 ~~~~~e~l~~ll~rE~E~~~~p~~~yl~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~ 133 (352)
-.+++|++.+|++ +|..|.|..+|.... +..+.+.+|.++++||++|+++++++++|++||+||||||++.+.+++.
T Consensus 42 ~~~~e~~i~~ll~--kEe~~~p~~~~~~~~-~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~ 118 (335)
T KOG0656|consen 42 LLWDERVLANLLE--KEEQHNPSLDYFLCV-QKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKD 118 (335)
T ss_pred ccccHHHHHHHHH--HHHHhCCCCchhhhc-ccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCC
Confidence 4588999999999 888999999876544 4678889999999999999999999999999999999999999999999
Q ss_pred CCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCC
Q 018657 134 NGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSS 213 (352)
Q Consensus 134 ~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~ 213 (352)
++|++||+|+|||+||||+||+.+|.+.|++++++++.|.+++|+|||++||++|+|||+++||++|+++|+++++..
T Consensus 119 k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~-- 196 (335)
T KOG0656|consen 119 KPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQK-- 196 (335)
T ss_pred chHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcc--
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhccCCCCC-------ccccCCCHHHHHHHHH
Q 018657 214 EPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPA-------ICHQRLNEEMVRSCHQ 279 (352)
Q Consensus 214 ~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~-------~~~~~~~~e~l~~C~~ 279 (352)
.+....+..++..+++.++.+++|++|+||+||||+++.+...+.+... ..+.+++++.+..|++
T Consensus 197 -~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 197 -DHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred -cchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 3445678889999999999999999999999999999888765544321 1266788888888888
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.9e-36 Score=276.61 Aligned_cols=223 Identities=21% Similarity=0.310 Sum_probs=187.1
Q ss_pred CCChHHHHHHHHHHhhhhccCCCccccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcc-cccC
Q 018657 54 DADADDVVSRLIDRESETHHMLHPDYLHRFRDCSVFVTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSH-FLPL 132 (352)
Q Consensus 54 ~~~~~e~l~~ll~rE~E~~~~p~~~yl~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~-~i~~ 132 (352)
|....++...|+. +|+.|+....++. +++++.+++|++++|||.+||+.|+|.++|+|||+.||||||... .+.+
T Consensus 110 wgn~~eVW~lM~k--kee~~l~~~~~l~--qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~k 185 (408)
T KOG0655|consen 110 WGNSKEVWLLMLK--KEERYLRDKHFLE--QHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSK 185 (408)
T ss_pred ccCHHHHHHHHHc--cchhhhhhhHHHh--hCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhh
Confidence 5568899999999 6667776666665 568899999999999999999999999999999999999999764 4666
Q ss_pred CCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCC
Q 018657 133 ANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASS 212 (352)
Q Consensus 133 ~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~ 212 (352)
. ++||+|++|||||||+||+++|.+.+|.++ ++..|+.++|++||+.||+.|+|++.++|..++|.-|+......+
T Consensus 186 t---~lQLIGitsLFIAAK~EEIYpPKl~eFAyv-TDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~ 261 (408)
T KOG0655|consen 186 T---NLQLIGITSLFIAAKLEEIYPPKLIEFAYV-TDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALND 261 (408)
T ss_pred h---hHHHhhHHHHHHHHHHhhccCccccceeee-ccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCC
Confidence 5 999999999999999999999999999887 788999999999999999999999999999999999999766554
Q ss_pred CCcch----HHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhccCCCCCccccCCCHHHHHHHHHHHHHHHHh
Q 018657 213 SEPGS----FTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPAICHQRLNEEMVRSCHQLMEEYLID 287 (352)
Q Consensus 213 ~~~~~----~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~~~~~~~~~e~l~~C~~~i~~~~~~ 287 (352)
..... .....-..++++..++.+++.+.|+-+.|||||++.-...- -.-..+|+.+..|.+|++.|.-+.+-
T Consensus 262 ~~k~l~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s~e---~v~kaSG~~w~~ie~cv~wm~Pf~rv 337 (408)
T KOG0655|consen 262 APKVLLPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTSIE---VVKKASGLEWDSIEECVDWMVPFVRV 337 (408)
T ss_pred CCceeccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhHHH---HHHHcccccHHHHHHHHHHHHHHHHH
Confidence 32211 12223345677777888999999999999999987653200 01126899999999999999998654
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.9e-32 Score=266.68 Aligned_cols=218 Identities=23% Similarity=0.338 Sum_probs=181.0
Q ss_pred CChHHHHHHHHHHhhhhccCCCccccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCC
Q 018657 55 ADADDVVSRLIDRESETHHMLHPDYLHRFRDCSVFVTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLAN 134 (352)
Q Consensus 55 ~~~~e~l~~ll~rE~E~~~~p~~~yl~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~ 134 (352)
+|.++++.+|.. .|..+.|...+ ..+.+++..+|.++|||+++||..|++.++|+|||||++||||++..++..
T Consensus 125 ey~~di~~~l~~--~e~~~~p~~~~---~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~- 198 (391)
T KOG0653|consen 125 EYVQDIFEYLRQ--LELEFLPLSYD---ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLK- 198 (391)
T ss_pred HHHHHHHHHHHH--HHHhhCchhhh---cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHH-
Confidence 467788888877 44355666544 345789999999999999999999999999999999999999999888887
Q ss_pred CCchHHHHHHHHH-HHhhhhccCCCcchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCC
Q 018657 135 GWPLQLLSVACLS-LAAKMEETQVPLLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSS 213 (352)
Q Consensus 135 ~~~lqLlavaCL~-LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~ 213 (352)
++||+|++||+ ||+|+||..+|.+.|+..+ +++.|+.++|++||+.||++|+|+++.|||+.||++|+.....+
T Consensus 199 --~lqLvgvsalf~IA~K~EE~~~P~v~dlv~i-sd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d-- 273 (391)
T KOG0653|consen 199 --KLQLVGVSALLSIACKYEEISLPSVEDLVLI-TDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYD-- 273 (391)
T ss_pred --HhhHHhHHHHHHHHHhhhhccCCccceeEee-eCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcc--
Confidence 99999999966 9999999999999999776 78889999999999999999999999999999999999877632
Q ss_pred CcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhccCCCCCc-----cccCCCHHHHHHHHHHHHHHHHhh
Q 018657 214 EPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPAI-----CHQRLNEEMVRSCHQLMEEYLIDT 288 (352)
Q Consensus 214 ~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~~-----~~~~~~~e~l~~C~~~i~~~~~~~ 288 (352)
.....+.++..++.+ .+++++.++||.+|||+++++.+....-..| .++|+...++..|.+.+..+....
T Consensus 274 --~~~~~~~k~~~El~l---~d~~~~~~~~s~~aaa~~~~~~~~~~~~~~w~~~~~~~sg~~~~~~~~~~~~~~~~~~~~ 348 (391)
T KOG0653|consen 274 --IKTRTLVKYLLELSL---CDYSMLSIPPSSSAAASFTLALRMLSKGDVWSPTLEHYSGYSESYLFECARSLSALSLSS 348 (391)
T ss_pred --hhHHHHHHHHHHHHH---hhhHHhccCcHHHHHHHHHHHHHHhccCCccCCCCeeccCCCcHHHHHHHHHHHHHHHHh
Confidence 223344555555544 5788999999999999999997543322223 378888889999999999966554
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.97 E-value=9.4e-32 Score=260.83 Aligned_cols=219 Identities=23% Similarity=0.317 Sum_probs=183.0
Q ss_pred CCChHHHHHHHHHHhhhhccCCCccccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCC
Q 018657 54 DADADDVVSRLIDRESETHHMLHPDYLHRFRDCSVFVTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLA 133 (352)
Q Consensus 54 ~~~~~e~l~~ll~rE~E~~~~p~~~yl~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~ 133 (352)
++|..+++.+|++ +|..+.|..+|+.++ ..+...+|..+++||.+||..|++-++|+++|||++||||+...++-+
T Consensus 178 ~Ey~~~Ife~l~k--~e~~~lp~~~yl~kq--~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~ 253 (440)
T COG5024 178 PEYASDIFEYLLK--LELIDLPNPNYLIKQ--SLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLE 253 (440)
T ss_pred HHHHHHHHHHHHH--HHHHhcCcHHHHhhc--chhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHH
Confidence 4688999999999 788999999997644 567779999999999999999999999999999999999999999887
Q ss_pred CCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCC
Q 018657 134 NGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSS 213 (352)
Q Consensus 134 ~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~ 213 (352)
++||+|++|||||||+||.+.|.+.+|+.+ +++.|+.++|.++|+-+|.+|+|++..|+|..||+++...-..+ .
T Consensus 254 ---k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~-t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd-~ 328 (440)
T COG5024 254 ---KYQLVGISALFIASKYEEVNCPSIKDLVYA-TDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYD-I 328 (440)
T ss_pred ---HHHHHHHHHHHHHHhHhHhcCHHHHHHHHH-HcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccc-h
Confidence 999999999999999999999999999876 78899999999999999999999999999999999875443322 1
Q ss_pred CcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhccCCCCCc-----cccC-CCHHHHHHHHHHHHHHHHh
Q 018657 214 EPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPAI-----CHQR-LNEEMVRSCHQLMEEYLID 287 (352)
Q Consensus 214 ~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~~-----~~~~-~~~e~l~~C~~~i~~~~~~ 287 (352)
. .....++..++ +..+++|+.++||.+||||++.++. +++...| .++| |+++++..+.+.+.+.+..
T Consensus 329 ~---srt~~k~~~e~---s~~~~~f~~~~~S~~~aaa~~~s~~-~~~~~~w~~~l~~ySg~y~~~~l~~~~~~~~~~l~~ 401 (440)
T COG5024 329 F---SRTPAKFSSEI---SPVDYKFIQISPSWCAAAAMYLSRK-ILSQNQWDRTLIHYSGNYTNPDLKPLNESNKENLQN 401 (440)
T ss_pred h---hhhhHhhhCCc---hHhhhhhccCCchHHHHHHHHHHHh-hhccCCCCccccccCCCCCchhHHHHHHHHHHHhcc
Confidence 1 11122222222 3457889999999999999999964 4332223 2666 9999999999999998754
Q ss_pred h
Q 018657 288 T 288 (352)
Q Consensus 288 ~ 288 (352)
.
T Consensus 402 ~ 402 (440)
T COG5024 402 P 402 (440)
T ss_pred c
Confidence 3
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.93 E-value=1.8e-26 Score=218.56 Aligned_cols=214 Identities=24% Similarity=0.310 Sum_probs=182.9
Q ss_pred hHHHHHHHHHHhhhhc-cCCCccccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCC
Q 018657 57 ADDVVSRLIDRESETH-HMLHPDYLHRFRDCSVFVTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANG 135 (352)
Q Consensus 57 ~~e~l~~ll~rE~E~~-~~p~~~yl~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~ 135 (352)
..++..++-. .|.. ++|.++|+..++ .++++.||.++|+|.+++.+.+++..+++|+++++.|||+....+.+.
T Consensus 103 ~~~I~~~~r~--~ei~~~rp~~~~~e~vq-~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~-- 177 (359)
T KOG0654|consen 103 AAKIYNTLRV--SDIKSERPLPSKFEFVQ-ADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQ-- 177 (359)
T ss_pred HHHHhhcccc--cchhhccCcccceeeee-cCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHH--
Confidence 4445555533 6777 899999998764 789999999999999999999999999999999999999999999887
Q ss_pred CchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCCCc
Q 018657 136 WPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSSEP 215 (352)
Q Consensus 136 ~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~ 215 (352)
++|++|.+|++||+|+||..+|.+.+|..+ .++.|+..++.+||..||+.|.|.+..||...|++.|+...... .
T Consensus 178 -k~ql~g~s~m~I~sk~ee~~~~~~~ef~~i-td~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~---~ 252 (359)
T KOG0654|consen 178 -KLQLVGISAMLIASKYEEIKEPRVEEFCYI-TDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTP---E 252 (359)
T ss_pred -HHHHhCcccceeeccchhhcchHHHHHHhh-hhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcch---h
Confidence 999999999999999999999999999876 78899999999999999999999999999999999998775542 2
Q ss_pred chHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhccCCCCCc-----cccCCCHHHHHHHHHHHHHHH
Q 018657 216 GSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPAI-----CHQRLNEEMVRSCHQLMEEYL 285 (352)
Q Consensus 216 ~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~~-----~~~~~~~e~l~~C~~~i~~~~ 285 (352)
..+..+..++.++.+ .++.|+.|.||.|||||+++| +.+++..+| .+++|+.+++..|+..|+ +.
T Consensus 253 ~~~e~~~~yl~elsl---l~~~~l~y~PSliAasAv~lA-~~~~~~~pW~~~L~~~T~y~~edl~~~v~~L~-~~ 322 (359)
T KOG0654|consen 253 LQVEPLANYLTELSL---LDYIFLKYLPSLIAASAVFLA-RLTLDFHPWNQTLEDYTGYKAEDLKPCVLDLH-LY 322 (359)
T ss_pred HHHHHHHHHHHHhhh---hhHHHhccChHHHHHHHHHHH-HhhccCCCCchhhHHhhcccHHHHHHHHHHHh-cc
Confidence 224445555555544 577799999999999999999 566554444 389999999999999999 43
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=99.91 E-value=3.4e-24 Score=177.51 Aligned_cols=127 Identities=36% Similarity=0.556 Sum_probs=110.2
Q ss_pred HHHHHHHHHhhhhccCCCccccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCch
Q 018657 59 DVVSRLIDRESETHHMLHPDYLHRFRDCSVFVTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPL 138 (352)
Q Consensus 59 e~l~~ll~rE~E~~~~p~~~yl~~~~~~~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~l 138 (352)
|++.+|++ +|.++.|+.+|+++. ++++...|..+++||.+++..+++++.|+++|+.|||||+....+.+. ++
T Consensus 1 ~i~~~~~~--~e~~~~~~~~~~~~~--~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~---~~ 73 (127)
T PF00134_consen 1 DIFRYLLE--KELKYKPNPDYLEQQ--PEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRS---KL 73 (127)
T ss_dssp HHHHHHHH--HHHHTTCCTTHGTGT--SSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCC---GH
T ss_pred CHHHHHHH--HHHHHCcCccccccC--hhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccc---hh
Confidence 57888988 778888888999743 478889999999999999999999999999999999999999987775 99
Q ss_pred HHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccc
Q 018657 139 QLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLN 193 (352)
Q Consensus 139 qLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~ 193 (352)
+++|+|||+||+|++|..+|.+.++.... ++.|+.++|.+||+.||++|+|+++
T Consensus 74 ~li~~~cl~lA~K~~e~~~~~~~~~~~~~-~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 74 QLIALACLFLASKMEEDNPPSISDLIRIS-DNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHHHTSS--HHHHHHHHT-TTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhhhHHHHhhhhhccccchHHHHHHHH-cCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999999999998764 7799999999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.89 E-value=6e-22 Score=186.63 Aligned_cols=190 Identities=19% Similarity=0.219 Sum_probs=139.1
Q ss_pred HHHHHHHHHHHHHHHHcC--CChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCC
Q 018657 91 TARQDSINWILNVHANYK--FRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDP 168 (352)
Q Consensus 91 ~~R~~~v~Wi~~v~~~~~--l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~ 168 (352)
..|.--+.+|.+++.+++ +++.|+++|+.||+||+..+++..- +.+++++||||||+|+||.. ..+.+++....
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~---~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~ 129 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEY---HPKIIMLTCVFLACKVEEFN-VSIDQFVGNLK 129 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhc---CHHHHHHHHHHHHHhccccC-cCHHHHHhhcc
Confidence 457777999999999999 9999999999999999999998874 99999999999999999994 56777764322
Q ss_pred C-CccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccHHHHH
Q 018657 169 R-FVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIA 247 (352)
Q Consensus 169 ~-~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iA 247 (352)
+ .....++|++||..||++|+|++.+++|+.+|..|+..+...-....+...+...+..++-..+...-++.|+||.||
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 2 223569999999999999999999999999999998654321000111223444455555544333337889999999
Q ss_pred HHHHHHHHhcc-CCCCC--ccccCC--CHHHHHHHHHHHHHH
Q 018657 248 AAAVLCAAGES-LDSPA--ICHQRL--NEEMVRSCHQLMEEY 284 (352)
Q Consensus 248 aAai~~a~~~~-~~~~~--~~~~~~--~~e~l~~C~~~i~~~ 284 (352)
+|||++|.+.. .+++. |..... +.+.+..-++.|+++
T Consensus 210 lAAI~lA~~~~~~~l~~~~~e~~~~~~~~~~~~~l~~~~~~~ 251 (305)
T TIGR00569 210 LAAILHTASRAGLNMESYLTEQLSVPGNREELPQLIDIMREL 251 (305)
T ss_pred HHHHHHHHHHhCCCCcccchhhhcccccHHHHHHHHHHHHHH
Confidence 99999998543 23332 323333 455555555555554
No 8
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.86 E-value=3.1e-20 Score=176.72 Aligned_cols=261 Identities=16% Similarity=0.146 Sum_probs=189.5
Q ss_pred CCCCCCCcceeccCCcccc---cCCCCCCccCCCCCcccccCCCCCcCCCCCCChHHHHHHHHHHhhhhcc---CCCc--
Q 018657 6 LDNSHSSSLYCGEEDAAAA---ADGGSDMVSCDTTDTWIFHNQSPAFDVVDDADADDVVSRLIDRESETHH---MLHP-- 77 (352)
Q Consensus 6 ~d~~~~~~l~C~e~~~~~~---~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~ll~rE~E~~~---~p~~-- 77 (352)
.|++ .|.++|++||.++. +|.+.||++|++++. .+++++|.+.++...+..+.+.+....-..+ .+..
T Consensus 24 ~d~~-~Ge~vC~~CG~Vl~e~~iD~g~EWR~f~~~~~---~~~~RvG~~~~~~~~~~gl~T~I~~~~~~~~g~~l~~~~~ 99 (310)
T PRK00423 24 YDYE-RGEIVCADCGLVIEENIIDQGPEWRAFDPEQR---EKRSRVGAPMTYTIHDKGLSTDIDWRNKDSYGKSISGKNR 99 (310)
T ss_pred EECC-CCeEeecccCCcccccccccCCCccCCCcccc---CCccccCCCCCccccCCCCceEeecCCcccccccccHHHH
Confidence 4765 79999999999998 678899999987543 3677888877666655555555531100000 0000
Q ss_pred -c--ccccccC--CCCCHHHH--HHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHh
Q 018657 78 -D--YLHRFRD--CSVFVTAR--QDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAA 150 (352)
Q Consensus 78 -~--yl~~~~~--~~i~~~~R--~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAa 150 (352)
. -|.+++. ...+...| ..+..-|.+++..++++..+.-.|..++.+++....+.+. ....+++||||+||
T Consensus 100 ~~~~rl~~~~~~~~~~~~~er~l~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgr---s~~~i~AAclYiAC 176 (310)
T PRK00423 100 AQLYRLRKWQRRIRVSNAAERNLAFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGR---SIEGVVAAALYAAC 176 (310)
T ss_pred HHHHHHHHHhhhcccCChHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCC---CHHHHHHHHHHHHH
Confidence 0 0111111 01122233 4467889999999999999999999999999998777775 88999999999999
Q ss_pred hhhccCCCcchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHH
Q 018657 151 KMEETQVPLLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLII 230 (352)
Q Consensus 151 K~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l 230 (352)
|.++. |.++.++.... ..+.++|.+.++.|++.|+.++.+.+|.+|+.+|...|+... .+...+.+++-
T Consensus 177 R~~~~-prtl~eI~~~~---~v~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~-------~v~~~A~~i~~ 245 (310)
T PRK00423 177 RRCKV-PRTLDEIAEVS---RVSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG-------EVQKKAIEILQ 245 (310)
T ss_pred HHcCC-CcCHHHHHHHh---CCCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH-------HHHHHHHHHHH
Confidence 99988 68888887552 368999999999999999999999999999999999998863 22333333332
Q ss_pred HhcchhhhcCccHHHHHHHHHHHHHhccCCCCCc-----cccCCCHHHHHHHHHHHHHHH
Q 018657 231 RTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPAI-----CHQRLNEEMVRSCHQLMEEYL 285 (352)
Q Consensus 231 ~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~~-----~~~~~~~e~l~~C~~~i~~~~ 285 (352)
.....--..+.+|..|||||||+|.+. .+.+.. ..+++++..|...|+.|.+.+
T Consensus 246 ~a~~~~l~~Gr~P~sIAAAaIYlA~~~-~g~~~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 246 KAKEKGLTSGKGPTGLAAAAIYIASLL-LGERRTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred HHHhcCcccCCCHHHHHHHHHHHHHHH-hCCCCCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 222111235899999999999999753 333322 278999999999999998764
No 9
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.85 E-value=2.9e-20 Score=175.01 Aligned_cols=192 Identities=22% Similarity=0.324 Sum_probs=150.6
Q ss_pred HHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCC
Q 018657 90 VTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPR 169 (352)
Q Consensus 90 ~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~ 169 (352)
...|...+.||.+++..+++++.|+..|+.||+||+...++.+. ..+.+|++|||||+|+||+ +..+.|++...-.
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 45689999999999999999999999999999999999999885 7799999999999999999 7788887543211
Q ss_pred Cc----------c--CHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhh
Q 018657 170 FV----------F--EPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVN 237 (352)
Q Consensus 170 ~~----------f--~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~ 237 (352)
+. | .++.|...|+.||++|+|++++-.|+.||..|+..+.........+...+ ..++-.++...-
T Consensus 112 ~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~A---w~~~nD~~~t~~ 188 (323)
T KOG0834|consen 112 YLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAA---WNFVNDSLRTTL 188 (323)
T ss_pred HcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHH---HHHhchhheeee
Confidence 11 1 27899999999999999999999999999999999987754222233333 333333333345
Q ss_pred hcCccHHHHHHHHHHHHHhcc-CCCC-----Ccc-ccC--CCHHHHHHHHHHHHHHHHhh
Q 018657 238 FLGFAPSTIAAAAVLCAAGES-LDSP-----AIC-HQR--LNEEMVRSCHQLMEEYLIDT 288 (352)
Q Consensus 238 fl~~~PS~iAaAai~~a~~~~-~~~~-----~~~-~~~--~~~e~l~~C~~~i~~~~~~~ 288 (352)
+++|+|..||+|+|.+|.... ..++ .|| ..+ ++.+.|.+-...+.+++...
T Consensus 189 cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 189 CLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQT 248 (323)
T ss_pred eEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhc
Confidence 789999999999999997322 1221 233 444 89999999888888887554
No 10
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=99.81 E-value=6.9e-19 Score=160.07 Aligned_cols=264 Identities=17% Similarity=0.171 Sum_probs=200.2
Q ss_pred CCCCCCCCcceeccCCcccc---cCCCCCCccCCCCCcccccCCCCCcCCCCCCChHHHHHHHHHHhhhhccCCCccccc
Q 018657 5 SLDNSHSSSLYCGEEDAAAA---ADGGSDMVSCDTTDTWIFHNQSPAFDVVDDADADDVVSRLIDRESETHHMLHPDYLH 81 (352)
Q Consensus 5 ~~d~~~~~~l~C~e~~~~~~---~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~ll~rE~E~~~~p~~~yl~ 81 (352)
..||+ .|+.+|.|||+++. +|+++||++|.++++ +.+|++++...+|..+...|.+++.+..+. ...+..
T Consensus 14 V~d~~-~gdtvC~~CGlVl~~r~Id~~sEwrtfsnd~~--~~DPsrvG~~sNPlL~~g~L~T~I~~g~g~----~s~~~s 86 (308)
T KOG1597|consen 14 VEDHS-AGDTVCSECGLVLEDRIIDEGSEWRTFSNDDS--DADPSRVGASSNPLLDGGDLSTFISKGTGT----SSSFAS 86 (308)
T ss_pred eeecc-CCceecccCCeeeccccccccccccccccCCC--CCCccccCCCCCCCCCCCCcceeeecCCCC----CHHHHH
Confidence 46888 79999999999999 688899999987763 468999999999999888888888743222 222222
Q ss_pred ---cccC-CCCCHHHH--HHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhcc
Q 018657 82 ---RFRD-CSVFVTAR--QDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEET 155 (352)
Q Consensus 82 ---~~~~-~~i~~~~R--~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~ 155 (352)
+.|. .......| ..++.-|..++...+|+....-.|-.+|.++-..+...++ ..+-+++|||+||++-++.
T Consensus 87 ~l~~~Q~~~sm~~~d~~~~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGk---s~eai~AAclyiACRq~~~ 163 (308)
T KOG1597|consen 87 SLGKAQNRNSMSNSDRVLKAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGK---SVEALAAACLYIACRQEDV 163 (308)
T ss_pred HHHHHhcccccCCccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCc---cHHHHHHHHHHHHHHhcCC
Confidence 2221 11222233 3457778899999999999999999999999987777776 9999999999999999888
Q ss_pred CCCcchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccccCC--hHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhc
Q 018657 156 QVPLLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLNSIT--PFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTT 233 (352)
Q Consensus 156 ~~p~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~T--p~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~ 233 (352)
+.+++++..+. . .+++||-+.=..|+..|+=.....| ..+|+.+|++.|+.... +..++..+....
T Consensus 164 -pRT~kEI~~~a-n--v~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~--------~q~aA~e~a~ka 231 (308)
T KOG1597|consen 164 -PRTFKEISAVA-N--VSKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKS--------AQEAATEIAEKA 231 (308)
T ss_pred -CchHHHHHHHH-c--CCHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHH--------HHHHHHHHHHHH
Confidence 88999988763 2 7999999999999999976655555 99999999999998732 122223333333
Q ss_pred chhhhc-CccHHHHHHHHHHHHHhccCCCCC----ccccCCCHHHHHHHHHHHHHHHHhhCC
Q 018657 234 RVVNFL-GFAPSTIAAAAVLCAAGESLDSPA----ICHQRLNEEMVRSCHQLMEEYLIDTCP 290 (352)
Q Consensus 234 ~~~~fl-~~~PS~iAaAai~~a~~~~~~~~~----~~~~~~~~e~l~~C~~~i~~~~~~~~~ 290 (352)
.+..+. +-.|=.||||+||.+.+....... ...+|+.+..|+.-|+.|.....+..|
T Consensus 232 ~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vtgVaE~TIr~sYK~Lyp~~~~liP 293 (308)
T KOG1597|consen 232 EEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVTGVAEVTIRNSYKDLYPHADKLIP 293 (308)
T ss_pred HHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHhhhhHHHHHHHHHHHhhchhhhCh
Confidence 333444 588999999999999754432221 138899999999999999987666544
No 11
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.78 E-value=1.9e-17 Score=152.37 Aligned_cols=186 Identities=18% Similarity=0.257 Sum_probs=143.3
Q ss_pred HHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhh---
Q 018657 90 VTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIF--- 166 (352)
Q Consensus 90 ~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~--- 166 (352)
...|-.-++||.+.+.-++|++.+.+.+..+|-||+..+++-+. ++..+++||++||+|+||. |..+.|.+.+
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 EELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRH---DFEIVVMACVLLASKIEEE-PRRIRDVINVFHY 95 (367)
T ss_pred HHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccc---cHHHHHHHHHHHHhhhccc-cccHhHHHHHHHH
Confidence 34577779999999999999999999999999999999998775 9999999999999999998 5666664311
Q ss_pred -C--------------CCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHH
Q 018657 167 -D--------------PRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIR 231 (352)
Q Consensus 167 -~--------------~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~ 231 (352)
. -.+.-.+..+.++|+.||+.|+|++++.+|+-++-.|+..++..+.. .+.+.. +.++-.
T Consensus 96 L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~--~l~Q~~---wNfmND 170 (367)
T KOG0835|consen 96 LEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNL--KLLQAA---WNFMND 170 (367)
T ss_pred HHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCch--hHHHHH---HHhhhh
Confidence 0 00111356788999999999999999999999999999999887432 233333 444433
Q ss_pred hcchhhhcCccHHHHHHHHHHHHHhccC---C-CCCcc-ccCCCHHHHHH-HHHHHHHH
Q 018657 232 TTRVVNFLGFAPSTIAAAAVLCAAGESL---D-SPAIC-HQRLNEEMVRS-CHQLMEEY 284 (352)
Q Consensus 232 ~~~~~~fl~~~PS~iAaAai~~a~~~~~---~-~~~~~-~~~~~~e~l~~-C~~~i~~~ 284 (352)
.+..--|..|+|+.||+|||++|.+... + .|.|+ +.+.++++|.+ |+.+|.-+
T Consensus 171 slRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k~eid~ic~~l~~lY 229 (367)
T KOG0835|consen 171 SLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTKREIDEICYRLIPLY 229 (367)
T ss_pred ccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcHHHHHHHHHHHHHHH
Confidence 3333348899999999999999986553 2 23454 67788888876 66555443
No 12
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.68 E-value=2.7e-16 Score=144.88 Aligned_cols=165 Identities=21% Similarity=0.341 Sum_probs=130.8
Q ss_pred HHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhcc--CCCcchhhhh--
Q 018657 90 VTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEET--QVPLLLDLQI-- 165 (352)
Q Consensus 90 ~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~--~~p~~~dl~~-- 165 (352)
...|.....||..+|.+++++..++.+||.||+||+.+.++..- .++-++.||++||+|+||+ ++. +..+..
T Consensus 42 ~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~---~~~~vv~tcv~LA~K~ed~~~~I~-i~~~~~~~ 117 (297)
T COG5333 42 LNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEI---SLYSVVTTCVYLACKVEDTPRDIS-IESFEARD 117 (297)
T ss_pred hhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccc---cHHHHHHhheeeeeecccccchhh-HHHHHhhc
Confidence 34566778999999999999999999999999999999998775 9999999999999999995 211 111111
Q ss_pred -hCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccHH
Q 018657 166 -FDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPS 244 (352)
Q Consensus 166 -~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS 244 (352)
......-+++.|..+|..||+.|+|++.+.+|+.++..|+..+...+. .+....++.++-......-++.|+|.
T Consensus 118 ~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~-----~~~~~~aw~~inDa~~t~~~llypph 192 (297)
T COG5333 118 LWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK-----YKLLQIAWKIINDALRTDLCLLYPPH 192 (297)
T ss_pred cccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH-----HHHHHHHHHHHHhhhhceeeeecChH
Confidence 001233479999999999999999999999999999999988766532 34555566666666666668899999
Q ss_pred HHHHHHHHHHHhccCCCCCc
Q 018657 245 TIAAAAVLCAAGESLDSPAI 264 (352)
Q Consensus 245 ~iAaAai~~a~~~~~~~~~~ 264 (352)
.||+||++.|. ...+.+.|
T Consensus 193 iIA~a~l~ia~-~~~~~~~~ 211 (297)
T COG5333 193 IIALAALLIAC-EVLGMPII 211 (297)
T ss_pred HHHHHHHHHHH-HhcCCccc
Confidence 99999999995 45555443
No 13
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.65 E-value=3.8e-16 Score=137.49 Aligned_cols=183 Identities=22% Similarity=0.295 Sum_probs=139.3
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhh----------
Q 018657 95 DSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQ---------- 164 (352)
Q Consensus 95 ~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~---------- 164 (352)
-.-+.|.+++.++++.+.++.+|+.||-||+.+.++..- .+.|+|.||++||||+||..+....-+.
T Consensus 43 ~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~---~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f 119 (264)
T KOG0794|consen 43 FMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEI---EPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRF 119 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc---CHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhc
Confidence 346789999999999999999999999999999997664 9999999999999999997311111111
Q ss_pred -hhCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccH
Q 018657 165 -IFDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAP 243 (352)
Q Consensus 165 -~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~P 243 (352)
+....+.++.++|..||..+|+.|+.-|-+-+|+.-|..|+...+..+. ++.++.. .++-.+....-++-|+|
T Consensus 120 ~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~---~~l~~~W---~ivNDSyr~Dl~Ll~PP 193 (264)
T KOG0794|consen 120 SYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQ---KLLQLAW---SIVNDSYRMDLCLLYPP 193 (264)
T ss_pred ccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccch---hhhhhhH---hhhcchhhcceeeecCH
Confidence 1123455778999999999999999999999999999999988777422 2223333 33333333333678999
Q ss_pred HHHHHHHHHHHHhccCCCC---Ccc-ccCCCHHHHHHHHHHHHHHHHh
Q 018657 244 STIAAAAVLCAAGESLDSP---AIC-HQRLNEEMVRSCHQLMEEYLID 287 (352)
Q Consensus 244 S~iAaAai~~a~~~~~~~~---~~~-~~~~~~e~l~~C~~~i~~~~~~ 287 (352)
-.||.||++.|.. +.+.. .|. ...+|-+.|.+|++.|..++..
T Consensus 194 h~IalAcl~Ia~~-~~~k~~~~~w~~el~vD~ekV~~~v~~I~~lYe~ 240 (264)
T KOG0794|consen 194 HQIALACLYIACV-IDEKDIPKAWFAELSVDMEKVKDIVQEILKLYEL 240 (264)
T ss_pred HHHHHHHHHHHHh-hcCCChHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence 9999999999963 33322 232 5688999999999999887643
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=99.47 E-value=2.3e-13 Score=103.93 Aligned_cols=87 Identities=31% Similarity=0.408 Sum_probs=77.3
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCcc
Q 018657 93 RQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVF 172 (352)
Q Consensus 93 R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f 172 (352)
|..+++||.+++..++++++|.++|+.|+|||+....+.+ +.++++|+|||+||+|+++. ++...++... +++.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~-~~~~- 75 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLG---RSPSLVAAAALYLAAKVEEI-PPWLKDLVHV-TGYA- 75 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccccc---CChHHHHHHHHHHHHHHcCC-CCCHHHHhHH-hCCC-
Confidence 6778999999999999999999999999999999888775 49999999999999999999 7888888654 2322
Q ss_pred CHHHHHHHHHHHH
Q 018657 173 EPKTVQRMELRVM 185 (352)
Q Consensus 173 ~~~~I~~mE~~IL 185 (352)
+.++|.+||+.||
T Consensus 76 ~~~~i~~~e~~il 88 (88)
T cd00043 76 TEEEILRMEKLLL 88 (88)
T ss_pred CHHHHHHHHHHhC
Confidence 9999999999875
No 15
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.44 E-value=1.5e-11 Score=114.98 Aligned_cols=253 Identities=15% Similarity=0.187 Sum_probs=176.2
Q ss_pred CCCCCCCcceeccCCcccc---cCCCCCCccCCCCCcccccCCCCCcCCCCCCChHHHHHHHHHHhhhhccCCCcccccc
Q 018657 6 LDNSHSSSLYCGEEDAAAA---ADGGSDMVSCDTTDTWIFHNQSPAFDVVDDADADDVVSRLIDRESETHHMLHPDYLHR 82 (352)
Q Consensus 6 ~d~~~~~~l~C~e~~~~~~---~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~ll~rE~E~~~~p~~~yl~~ 82 (352)
.|+. .|.++|..||.++. +|.+.||+.|+ +.. .. +++.+..+...+..+.+.+... ..- ...-+.+
T Consensus 14 ~d~~-~ge~VC~~CG~Vi~~~~id~gpewr~f~-e~~----~~-r~g~P~t~~~~d~~l~t~i~~~--~~~--~~~rlr~ 82 (285)
T COG1405 14 TDYE-RGEIVCADCGLVLEDSLIDPGPEWRAFD-ERH----ER-RVGAPLTPSIHDKGLSTIIGWG--DKD--KMYRLRK 82 (285)
T ss_pred eecc-CCeEEeccCCEEeccccccCCCCccccc-ccc----cc-cccCCCccccCccchhhhcccc--hhH--HHHHHHH
Confidence 4554 58899999999998 46777899883 211 11 3443333333334444444311 000 0000001
Q ss_pred cc-CCCC-CHHHH--HHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCC
Q 018657 83 FR-DCSV-FVTAR--QDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVP 158 (352)
Q Consensus 83 ~~-~~~i-~~~~R--~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p 158 (352)
.+ ...+ +...| ..+...|-.++..++++..+.-.|..++-+.+...-+.+. ..+-+++||+|+|++.... +.
T Consensus 83 ~~~~~~v~~~~ernl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGR---sie~v~AA~iY~acR~~~~-pr 158 (285)
T COG1405 83 WQIRIRVSSAKERNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGR---SIESVAAACIYAACRINGV-PR 158 (285)
T ss_pred HHhccccccchhhHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCC---cHHHHHHHHHHHHHHHcCC-Cc
Confidence 10 0011 12223 4568888999999999999999999999999998888776 8999999999999999988 67
Q ss_pred cchhhhhhCCCCccCHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhh
Q 018657 159 LLLDLQIFDPRFVFEPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNF 238 (352)
Q Consensus 159 ~~~dl~~~~~~~~f~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~f 238 (352)
++.++.... + .++++|.++.+.+.+.|+=.+.+..|..|+.+|.+.|+.+. .+...+.+++-.....-.-
T Consensus 159 tl~eIa~a~-~--V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~-------~v~~~a~ei~~~~~~~g~~ 228 (285)
T COG1405 159 TLDEIAKAL-G--VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSD-------EVRRKAIEIVKKAKRAGLT 228 (285)
T ss_pred cHHHHHHHH-C--CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCH-------HHHHHHHHHHHHHHHhCcc
Confidence 777776552 2 67899999999999999999999999999999999999873 2344445555443333334
Q ss_pred cCccHHHHHHHHHHHHHhccCCCCCc-----cccCCCHHHHHHHHHHHHHH
Q 018657 239 LGFAPSTIAAAAVLCAAGESLDSPAI-----CHQRLNEEMVRSCHQLMEEY 284 (352)
Q Consensus 239 l~~~PS~iAaAai~~a~~~~~~~~~~-----~~~~~~~e~l~~C~~~i~~~ 284 (352)
.+-.|+-|||||+|+|.. ..+.... ..+++++..|+.=|+.|.+.
T Consensus 229 ~Gk~P~glAaaaiy~as~-l~~~~~tq~eva~v~~vtevTIrnrykel~~~ 278 (285)
T COG1405 229 AGKSPAGLAAAAIYLASL-LLGERRTQKEVAKVAGVTEVTIRNRYKELADA 278 (285)
T ss_pred cCCCchhHHHHHHHHHHH-HhCCchHHHHHHHHhCCeeeHHHHHHHHHHHh
Confidence 589999999999999963 3444322 37899999998877665554
No 16
>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=99.42 E-value=6.4e-13 Score=100.38 Aligned_cols=83 Identities=31% Similarity=0.438 Sum_probs=72.5
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHH
Q 018657 98 NWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTV 177 (352)
Q Consensus 98 ~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I 177 (352)
+||.+++..+++++++.++|++++|||+....+.+. ..+++|+||++||+|++|.. |...++... +++ |+.++|
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 599999999999999999999999999997666654 99999999999999999985 666777654 344 799999
Q ss_pred HHHHHHHHH
Q 018657 178 QRMELRVMS 186 (352)
Q Consensus 178 ~~mE~~IL~ 186 (352)
.+||+.||.
T Consensus 75 ~~~~~~il~ 83 (83)
T smart00385 75 LRMEKLLLE 83 (83)
T ss_pred HHHHHHHhC
Confidence 999999873
No 17
>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=99.25 E-value=1.8e-11 Score=112.23 Aligned_cols=156 Identities=21% Similarity=0.246 Sum_probs=110.3
Q ss_pred HHHHHHHHHHHc--CCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhC-CCCcc
Q 018657 96 SINWILNVHANY--KFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFD-PRFVF 172 (352)
Q Consensus 96 ~v~Wi~~v~~~~--~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~-~~~~f 172 (352)
...-+.+.+..+ .+++.++..|+.||.||+...++..- ....|.+||+|+|+|++|.+ .++.+|+... ++..-
T Consensus 59 ~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~---~pk~I~~tc~flA~Kieef~-ISieqFvkn~~~~~~k 134 (325)
T KOG2496|consen 59 EELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEY---SPKIIMATCFFLACKIEEFY-ISIEQFVKNMNGRKWK 134 (325)
T ss_pred HHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhc---ChHHHHHHHHHHHhhhHhhe-ecHHHHHhhccCcccc
Confidence 344445555555 58999999999999999998888774 89999999999999999984 5667775432 22335
Q ss_pred CHHHHHHHHHHHHHHcCcccccCChHHHHHHHHHhCCCCC--CCcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHH
Q 018657 173 EPKTVQRMELRVMSVLNWRLNSITPFDYLHYFISKLPASS--SEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAA 250 (352)
Q Consensus 173 ~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~fl~~l~~~~--~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAa 250 (352)
+.+.|+..|..+|+.|+|++.+-+|+.-++-|+..+..-- ....+...-......++..++..--++-|.||.||.||
T Consensus 135 ~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaA 214 (325)
T KOG2496|consen 135 THEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAA 214 (325)
T ss_pred cHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHH
Confidence 7899999999999999999999999999999886432110 00111111000012333333333346679999999999
Q ss_pred HHHHH
Q 018657 251 VLCAA 255 (352)
Q Consensus 251 i~~a~ 255 (352)
|+.+.
T Consensus 215 il~a~ 219 (325)
T KOG2496|consen 215 ILHAA 219 (325)
T ss_pred HHHHh
Confidence 97774
No 18
>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=99.16 E-value=7.5e-11 Score=95.75 Aligned_cols=86 Identities=28% Similarity=0.377 Sum_probs=58.8
Q ss_pred CChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhccCCCCCc-----cccCC
Q 018657 195 ITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPAI-----CHQRL 269 (352)
Q Consensus 195 ~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~~-----~~~~~ 269 (352)
|||++||++|+...+. ......+..++.++ ++.++.|++|+||+|||||+++|+......+.| ..+|+
T Consensus 1 PTp~~Fl~~~~~~~~~----~~~~~~~a~~l~el---~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~ 73 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA----DQEVRNLARYLLEL---SLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPESLEKLTGY 73 (118)
T ss_dssp --HHHHHHHHHTSSSH----HHHHHHHHHHHHHH---HHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS
T ss_pred CcHHHHHHHHHHHcCC----cHHHHHHHHHHHHH---HHhhccccCCCHHHHHHHHHHHHHHHhCccccCCccchhhcCC
Confidence 7999999999543221 12233344444443 456788999999999999999997554322333 27899
Q ss_pred CHHHHHHHHHHHHHHHHh
Q 018657 270 NEEMVRSCHQLMEEYLID 287 (352)
Q Consensus 270 ~~e~l~~C~~~i~~~~~~ 287 (352)
++++|.+|++.|.+++.+
T Consensus 74 ~~~~l~~c~~~i~~~~~~ 91 (118)
T PF02984_consen 74 DKEDLKECIELIQELLSK 91 (118)
T ss_dssp -HHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHh
Confidence 999999999999999875
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=98.51 E-value=6.6e-07 Score=76.38 Aligned_cols=93 Identities=18% Similarity=0.264 Sum_probs=69.7
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHhhhh---cccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCcc
Q 018657 96 SINWILNVHANYKFRPVTALLSVNYFDRFLS---SHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVF 172 (352)
Q Consensus 96 ~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls---~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f 172 (352)
+.+|+.++...-+++++++.+|..|+||+.. ...+.. .+...+.+-++||.||+|+-+........+..+ + .+
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~-~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v-~--gi 129 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPL-NSSNIHRLFLTALILASKFLDDNTYSNKSWAKV-G--GI 129 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT----STTTHHHHHHHHHHHHHHHH-SS---HHHHHHH-H--TS
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhccccccc-ccchhHHHHHHHHHHHHhhcccccccHHHHHhh-c--CC
Confidence 7889999999999999999999999999998 222222 235788999999999999987766666777665 2 37
Q ss_pred CHHHHHHHHHHHHHHcCccc
Q 018657 173 EPKTVQRMELRVMSVLNWRL 192 (352)
Q Consensus 173 ~~~~I~~mE~~IL~~L~w~l 192 (352)
+.+++.+||+..|..|+|+|
T Consensus 130 s~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 130 SLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp -HHHHHHHHHHHHHHTTT--
T ss_pred CHHHHHHHHHHHHHHCCCcC
Confidence 99999999999999999986
No 20
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=98.48 E-value=2.5e-06 Score=84.59 Aligned_cols=147 Identities=21% Similarity=0.237 Sum_probs=117.6
Q ss_pred HHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHHH
Q 018657 99 WILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTVQ 178 (352)
Q Consensus 99 Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~ 178 (352)
-|-+++..++++. .+-.|.++|.--++..-.++. ..+++-.+||||+|..|-+. -.+.||.-. -..+.-++-
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr---~~~~vvasClY~vcR~e~t~-hlliDfS~~---Lqv~Vy~LG 144 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGR---RSTEVVAACLYLVCRLEKTD-HLLIDFSSY---LQVSVYDLG 144 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCc---chHHHHHHHHHHHHHhhCCc-eEEEEeccc---eEEehhhhh
Confidence 5788899999999 999999999999888777776 88999999999999999884 444555321 235667788
Q ss_pred HHHHHHHHHcCcc---cccCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHH
Q 018657 179 RMELRVMSVLNWR---LNSITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAA 255 (352)
Q Consensus 179 ~mE~~IL~~L~w~---l~~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~ 255 (352)
.+=+.|...|.-. +..+.|.-|+.+|..+|...++. ..++..+..++...-.|.=..+-+|+-|+.|||+.|.
T Consensus 145 ~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~----~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAa 220 (521)
T KOG1598|consen 145 SNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT----EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAA 220 (521)
T ss_pred HHHHHHHHHhccccccccccCcceeeechhHhhhcCCch----HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHH
Confidence 8888899999877 77889999999999998776443 4566666677776666655678999999999999997
Q ss_pred hc
Q 018657 256 GE 257 (352)
Q Consensus 256 ~~ 257 (352)
+.
T Consensus 221 r~ 222 (521)
T KOG1598|consen 221 RM 222 (521)
T ss_pred HH
Confidence 53
No 21
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.15 E-value=2.1e-06 Score=81.66 Aligned_cols=105 Identities=18% Similarity=0.293 Sum_probs=89.1
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhh-hh
Q 018657 88 VFVTARQDSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQ-IF 166 (352)
Q Consensus 88 i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~-~~ 166 (352)
++..--+.+-.-|.++....++..-|+.+|-.||.....+..+.+. +-.|.|.|||.||+||.+..--.++.++ ..
T Consensus 377 LTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~---NRKlcAGAclLlaaKmnD~Kks~vKslIek~ 453 (497)
T KOG4164|consen 377 LTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQ---NRKLCAGACLLLAAKMNDLKKSTVKSLIEKL 453 (497)
T ss_pred EeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhh---hhhHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence 4555555567788999999999999999999999999999888886 8999999999999999987655566554 23
Q ss_pred CCCCccCHHHHHHHHHHHHHHcCcccccC
Q 018657 167 DPRFVFEPKTVQRMELRVMSVLNWRLNSI 195 (352)
Q Consensus 167 ~~~~~f~~~~I~~mE~~IL~~L~w~l~~~ 195 (352)
+..+.+.++|++..|.-||.+|+|.|+.+
T Consensus 454 Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 454 EEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 45788899999999999999999999875
No 22
>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=97.60 E-value=0.00031 Score=52.26 Aligned_cols=76 Identities=28% Similarity=0.308 Sum_probs=51.0
Q ss_pred HHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhccCCCCCc-----cccCC-CHH
Q 018657 199 DYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPAI-----CHQRL-NEE 272 (352)
Q Consensus 199 ~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~~-----~~~~~-~~e 272 (352)
+||..+...++.+. .....+..++.....++.++.++|+.||+||+++|.+.. +.+.| ..+++ +++
T Consensus 1 ~~l~~~~~~~~~~~-------~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~-~~~~~~~~~~~~~~~~~~~ 72 (83)
T smart00385 1 DFLRRVCKALNLDP-------ETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTE-EIPPWTKELVHYTGYFTEE 72 (83)
T ss_pred CHHHHHHHHcCCCH-------HHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHh-cCCCCchhHhHhhCCCCHH
Confidence 37788888887752 222333333333434467889999999999999997433 32222 26677 999
Q ss_pred HHHHHHHHHH
Q 018657 273 MVRSCHQLME 282 (352)
Q Consensus 273 ~l~~C~~~i~ 282 (352)
+|.+|...|.
T Consensus 73 ~i~~~~~~il 82 (83)
T smart00385 73 EILRMEKLLL 82 (83)
T ss_pred HHHHHHHHHh
Confidence 9999988774
No 23
>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=97.59 E-value=0.00056 Score=51.35 Aligned_cols=80 Identities=29% Similarity=0.291 Sum_probs=55.8
Q ss_pred cCChHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhccCCCCCc-----cccC
Q 018657 194 SITPFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGESLDSPAI-----CHQR 268 (352)
Q Consensus 194 ~~Tp~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~~~~~~~~-----~~~~ 268 (352)
.+++..|+..+...++... .....+..++........+..+.|+.||+||+++|.+ ..+.+.| ..++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~-------~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k-~~~~~~~~~~~~~~~~ 73 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP-------ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAK-VEEIPPWLKDLVHVTG 73 (88)
T ss_pred cchHHHHHHHHHHHcCCCH-------HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHH-HcCCCCCHHHHhHHhC
Confidence 5789999999999987652 2222333333333334567799999999999999975 3333433 2678
Q ss_pred C-CHHHHHHHHHHH
Q 018657 269 L-NEEMVRSCHQLM 281 (352)
Q Consensus 269 ~-~~e~l~~C~~~i 281 (352)
+ +.++|..+...|
T Consensus 74 ~~~~~~i~~~e~~i 87 (88)
T cd00043 74 YATEEEILRMEKLL 87 (88)
T ss_pred CCCHHHHHHHHHHh
Confidence 8 999999887765
No 24
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=97.13 E-value=0.0034 Score=46.37 Aligned_cols=63 Identities=11% Similarity=0.144 Sum_probs=50.4
Q ss_pred HHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhh
Q 018657 100 ILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIF 166 (352)
Q Consensus 100 i~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~ 166 (352)
|-+++..++|+..+.-.|..++++-....-..+. ...-++++|+|+|++.... +.++.++...
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr---~~~~iaAA~iY~acr~~~~-~~t~~eIa~~ 63 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGR---SPESIAAACIYLACRLNGV-PRTLKEIAEA 63 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS----HHHHHHHHHHHHHHHTTS-SSSHHHHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccC---CHHHHHHHHHHHHHHHcCC-CcCHHHHHHH
Confidence 4678999999999999999999998887666654 8899999999999999877 5677777543
No 25
>KOG1674 consensus Cyclin [General function prediction only]
Probab=95.97 E-value=0.047 Score=49.54 Aligned_cols=97 Identities=15% Similarity=0.222 Sum_probs=72.7
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHhhhhccc---ccCC---CCCc-hHHHHHHHHHHHhhhhccCCCcchhhhhhCC
Q 018657 96 SINWILNVHANYKFRPVTALLSVNYFDRFLSSHF---LPLA---NGWP-LQLLSVACLSLAAKMEETQVPLLLDLQIFDP 168 (352)
Q Consensus 96 ~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~---i~~~---~~~~-lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~ 168 (352)
+-+++.++..+.+.+++++.+|..|||||..... +... +..+ ..-+-++|+.+|+|+.+...-.-.-++..
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 4566777788889999999999999999998633 1111 1223 66688999999999987633233333333
Q ss_pred CCccCHHHHHHHHHHHHHHcCcccccC
Q 018657 169 RFVFEPKTVQRMELRVMSVLNWRLNSI 195 (352)
Q Consensus 169 ~~~f~~~~I~~mE~~IL~~L~w~l~~~ 195 (352)
...+.+++..+|+..|..++|++.+.
T Consensus 156 -ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 -GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 24688999999999999999999985
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=95.93 E-value=0.058 Score=51.60 Aligned_cols=89 Identities=8% Similarity=0.018 Sum_probs=72.2
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHH
Q 018657 97 INWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKT 176 (352)
Q Consensus 97 v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~ 176 (352)
-++|.+++..++++..+.-.|..++.+.....-..+ ....-+++||+|||++..+. +.+..++... ...+..+
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~G---r~P~sIAAAaIYlA~~~~g~-~~t~keIa~v---~~Vs~~t 292 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSG---KGPTGLAAAAIYIASLLLGE-RRTQREVAEV---AGVTEVT 292 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccC---CCHHHHHHHHHHHHHHHhCC-CCCHHHHHHH---cCCCHHH
Confidence 489999999999999999999999988876544444 48999999999999999876 4567777554 2468999
Q ss_pred HHHHHHHHHHHcCccc
Q 018657 177 VQRMELRVMSVLNWRL 192 (352)
Q Consensus 177 I~~mE~~IL~~L~w~l 192 (352)
|.+.-+.|++.|+..+
T Consensus 293 I~~~ykel~~~l~~~~ 308 (310)
T PRK00423 293 VRNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHHhCccc
Confidence 9999999999887544
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=92.59 E-value=0.68 Score=33.86 Aligned_cols=50 Identities=20% Similarity=0.172 Sum_probs=29.4
Q ss_pred HHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHHHHHHHHhc
Q 018657 201 LHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAAAVLCAAGE 257 (352)
Q Consensus 201 l~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaAai~~a~~~ 257 (352)
|..|...|+.+. .+...+.++.-......-.-+-+|..|||||+|+|.+.
T Consensus 1 I~r~~~~L~L~~-------~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~ 50 (71)
T PF00382_consen 1 IPRICSKLGLPE-------DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRL 50 (71)
T ss_dssp HHHHHHHTT--H-------HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHH
T ss_pred ChHHHhHcCCCH-------HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHH
Confidence 456777777762 34444444443332222234688999999999999754
No 28
>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=87.35 E-value=2.8 Score=33.04 Aligned_cols=87 Identities=11% Similarity=0.099 Sum_probs=54.2
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHH
Q 018657 97 INWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKT 176 (352)
Q Consensus 97 v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~ 176 (352)
.+||.......+.+..+..+|-.+++-.+....+-.- ..-++|+||+++|.++-....+....+... + .++.++
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~---~PS~iAaAai~lA~~~~~~~~~~~~~l~~~-t--~~~~~~ 77 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQY---PPSVIAAAAILLARKILGKEPPWPESLEKL-T--GYDKED 77 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS----HHHHHHHHHHHHHHHHHSSTCSHHHHHHH-H--TS-HHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCC---CHHHHHHHHHHHHHHHhCccccCCccchhh-c--CCCHHH
Confidence 4555555444445667888888888876666555443 788999999999999966422322333333 2 347888
Q ss_pred HHHHHHHHHHHcC
Q 018657 177 VQRMELRVMSVLN 189 (352)
Q Consensus 177 I~~mE~~IL~~L~ 189 (352)
|..+=..|.+.+.
T Consensus 78 l~~c~~~i~~~~~ 90 (118)
T PF02984_consen 78 LKECIELIQELLS 90 (118)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 8776666655543
No 29
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=87.24 E-value=1.7 Score=41.07 Aligned_cols=88 Identities=9% Similarity=0.050 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCH
Q 018657 95 DSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEP 174 (352)
Q Consensus 95 ~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~ 174 (352)
.-.++|-+.+..++|+.++--.|+.+++........-+. ...-+|+||++||+++... ..+-.+.... .+ .+.
T Consensus 193 ~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk---~P~glAaaaiy~as~l~~~-~~tq~eva~v-~~--vte 265 (285)
T COG1405 193 DPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGK---SPAGLAAAAIYLASLLLGE-RRTQKEVAKV-AG--VTE 265 (285)
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCC---CchhHHHHHHHHHHHHhCC-chHHHHHHHH-hC--Cee
Confidence 347899999999999999999999999999887666655 7888999999999999773 2222333222 11 344
Q ss_pred HHHHHHHHHHHHHcC
Q 018657 175 KTVQRMELRVMSVLN 189 (352)
Q Consensus 175 ~~I~~mE~~IL~~L~ 189 (352)
.+|+.--..+...|+
T Consensus 266 vTIrnrykel~~~~~ 280 (285)
T COG1405 266 VTIRNRYKELADALD 280 (285)
T ss_pred eHHHHHHHHHHHhhc
Confidence 555555555544443
No 30
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=86.21 E-value=0.84 Score=43.79 Aligned_cols=91 Identities=14% Similarity=0.235 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhh-CCCCccC
Q 018657 95 DSINWILNVHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIF-DPRFVFE 173 (352)
Q Consensus 95 ~~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~-~~~~~f~ 173 (352)
-+++|+.++...-+........|-+++-..+...-.-+ +..+-+|++||+||+|+-....|...+-... ..+-..+
T Consensus 154 ~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~---y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt 230 (323)
T KOG0834|consen 154 YLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQ---YSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVT 230 (323)
T ss_pred HHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEe---ecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCC
Confidence 35666666666555555567777777766665543333 4788999999999999988766665554111 1122367
Q ss_pred HHHHHHHHHHHHHHc
Q 018657 174 PKTVQRMELRVMSVL 188 (352)
Q Consensus 174 ~~~I~~mE~~IL~~L 188 (352)
.++|..+...+|...
T Consensus 231 ~e~l~~i~~~~l~~y 245 (323)
T KOG0834|consen 231 NELLDDICHEFLDLY 245 (323)
T ss_pred HHHHHHHHHHHHHHH
Confidence 777777666655443
No 31
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=81.80 E-value=0.96 Score=29.78 Aligned_cols=27 Identities=19% Similarity=0.319 Sum_probs=17.6
Q ss_pred CCCCCCCcceeccCCccccc---CCCCCCcc
Q 018657 6 LDNSHSSSLYCGEEDAAAAA---DGGSDMVS 33 (352)
Q Consensus 6 ~d~~~~~~l~C~e~~~~~~~---~~~~e~~~ 33 (352)
+|.. .+.++|.+||.++.+ +.+.||+.
T Consensus 13 ~D~~-~g~~vC~~CG~Vl~e~~i~~~~e~r~ 42 (43)
T PF08271_consen 13 FDPE-RGELVCPNCGLVLEENIIDEGPEWRE 42 (43)
T ss_dssp EETT-TTEEEETTT-BBEE-TTBSCCCSCCH
T ss_pred EcCC-CCeEECCCCCCEeecccccCCccccc
Confidence 4654 689999999998873 34445553
No 32
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=80.89 E-value=2.3 Score=40.15 Aligned_cols=99 Identities=12% Similarity=0.179 Sum_probs=62.1
Q ss_pred HHHHcCCChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHHHHHHH
Q 018657 103 VHANYKFRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTVQRMEL 182 (352)
Q Consensus 103 v~~~~~l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~ 182 (352)
.+....+..+..-....|++|.+........ |.....+....+++|+|+-....-.-.|.+.+ .+ ..+.+|+..||+
T Consensus 200 l~~~~qlta~~aiitL~~~erl~~~~e~~~~-p~~w~r~~~g~il~sskv~~dqs~wnvdycqI-lK-d~tveDmNe~ER 276 (343)
T KOG1675|consen 200 LFSWAQLTAECDIITLVYAERLLWLAERDPC-PRNWSRAVLGEILLSSKVYDDQSVWNVDYCEI-LK-DQSVDDMNALER 276 (343)
T ss_pred HhhhhhhhhccchHHHHhhHhhhhHhhcCCC-cchhhhhhhhhheehhhhhhhhhcccHHHHHH-Hh-hccHhhHHHHHH
Confidence 3444556666666777889998765543311 12344444446999999865432222333222 11 247899999999
Q ss_pred HHHHHcCcccccCChHHHHHHHH
Q 018657 183 RVMSVLNWRLNSITPFDYLHYFI 205 (352)
Q Consensus 183 ~IL~~L~w~l~~~Tp~~Fl~~fl 205 (352)
.+|..|+|++++|-. -|-.+|.
T Consensus 277 qfLelLqfNinvp~s-vYAKyYf 298 (343)
T KOG1675|consen 277 QFLELLQFNINVPSS-EYAKYYF 298 (343)
T ss_pred HHHHHHhhccCccHH-HHHHHHH
Confidence 999999999998853 3444443
No 33
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=74.70 E-value=18 Score=34.69 Aligned_cols=45 Identities=20% Similarity=0.328 Sum_probs=31.3
Q ss_pred CchHHHHHHHHHHHhhhhccCCCcchhhhhhCCCCccCHHHHHHHHHH
Q 018657 136 WPLQLLSVACLSLAAKMEETQVPLLLDLQIFDPRFVFEPKTVQRMELR 183 (352)
Q Consensus 136 ~~lqLlavaCL~LAaK~eE~~~p~~~dl~~~~~~~~f~~~~I~~mE~~ 183 (352)
....+||+||++||+..+|+..|....+-. -+.+++++|...=..
T Consensus 180 y~pe~iACaciyLaAR~~eIpLp~~P~Wf~---~Fd~~k~eid~ic~~ 224 (367)
T KOG0835|consen 180 YSPESIACACIYLAARNLEIPLPFQPHWFK---AFDTTKREIDEICYR 224 (367)
T ss_pred cCHHHHHHHHHHHHHhhhcCCCCCCccHHH---HcCCcHHHHHHHHHH
Confidence 367899999999999999965555554432 245677777654333
No 34
>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=44.90 E-value=83 Score=26.22 Aligned_cols=67 Identities=10% Similarity=0.038 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHhhhhcc-cccCCCCCchHHHHHHHHHHHhhhhccCCCcchhhhh
Q 018657 96 SINWILNVHANYKFRPVTALLSVNYFDRFLSSH-FLPLANGWPLQLLSVACLSLAAKMEETQVPLLLDLQI 165 (352)
Q Consensus 96 ~v~Wi~~v~~~~~l~~~T~~lAv~~lDRfls~~-~i~~~~~~~lqLlavaCL~LAaK~eE~~~p~~~dl~~ 165 (352)
+..-|.++|..++++++.....-..|+..+... .+-++ .++--+-++|+++-+|+... .++..++..
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~d--RHLDQiilCaiY~i~Kv~~~-~~sF~~Ii~ 81 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKD--RHLDQIILCAIYGICKVSKE-ELSFKDIIK 81 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTT--S-HHHHHHHHHHHHHHHTT--S--HHHHHH
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhc--chHHHHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence 455678899999999988888888888888644 34333 49999999999999999863 455566543
No 35
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=43.61 E-value=1.5e+02 Score=28.12 Aligned_cols=27 Identities=4% Similarity=0.117 Sum_probs=15.3
Q ss_pred chHHHHHHHHHHHhhhhccCCCcchhhh
Q 018657 137 PLQLLSVACLSLAAKMEETQVPLLLDLQ 164 (352)
Q Consensus 137 ~lqLlavaCL~LAaK~eE~~~p~~~dl~ 164 (352)
..--+|++.+|+++..... ....+++.
T Consensus 241 sPiSIAAa~IYmisqls~~-kkt~keI~ 267 (308)
T KOG1597|consen 241 SPISIAAAAIYMISQLSDE-KKTQKEIG 267 (308)
T ss_pred CchhHHHHHHHHHHHhccC-cccHHHHH
Confidence 4445666777777766653 34445543
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=42.91 E-value=1.5e+02 Score=22.73 Aligned_cols=87 Identities=14% Similarity=0.128 Sum_probs=47.0
Q ss_pred hHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHhcchhhhcCccHHHHHHH-HHHHHHhccCCCCC---------ccc
Q 018657 197 PFDYLHYFISKLPASSSEPGSFTRFLWSSSDLIIRTTRVVNFLGFAPSTIAAA-AVLCAAGESLDSPA---------ICH 266 (352)
Q Consensus 197 p~~Fl~~fl~~l~~~~~~~~~~~~~~~~~~~l~l~~~~~~~fl~~~PS~iAaA-ai~~a~~~~~~~~~---------~~~ 266 (352)
|-+-+...+-++..... .+...-.+..+++-..+.+..--..+||.|||| |.+++.....+... ...
T Consensus 4 ~TD~~~~~L~K~~~~~e---~L~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~~~~~~~~~LA~~ 80 (106)
T PF09080_consen 4 PTDAIGPLLFKSGFTKE---QLFAWHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDTHSGGVVPQLAEA 80 (106)
T ss_dssp CHHHHHHHHHHHS-SST---THHHHHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------HHHHHHHH
T ss_pred ccccccHHHHHHcccHH---HHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCccccccchHHHHHH
Confidence 33444444445444422 123333455666766666777778999999998 66666554443221 126
Q ss_pred cCCCHHHHHHHHHHHHHHHH
Q 018657 267 QRLNEEMVRSCHQLMEEYLI 286 (352)
Q Consensus 267 ~~~~~e~l~~C~~~i~~~~~ 286 (352)
.|++..-+..-.+.+..-+.
T Consensus 81 ~G~~~a~L~AA~E~v~Tt~~ 100 (106)
T PF09080_consen 81 LGVSAATLQAAAESVATTLR 100 (106)
T ss_dssp HT--HHHHHHHHHHHHHHHH
T ss_pred hCccHHHHHHHHHHHHHHHH
Confidence 67888777777777665443
No 37
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=30.80 E-value=1.1e+02 Score=29.17 Aligned_cols=20 Identities=20% Similarity=0.371 Sum_probs=16.7
Q ss_pred hhhcCccHHHHHHHHHHHHH
Q 018657 236 VNFLGFAPSTIAAAAVLCAA 255 (352)
Q Consensus 236 ~~fl~~~PS~iAaAai~~a~ 255 (352)
..+..|.|-.||++|+++|.
T Consensus 93 ~Sv~~~~p~~Ia~tclfLA~ 112 (305)
T TIGR00569 93 NSVMEYHPKIIMLTCVFLAC 112 (305)
T ss_pred CchhhcCHHHHHHHHHHHHH
Confidence 34667899999999999995
No 38
>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=29.08 E-value=2.3e+02 Score=22.17 Aligned_cols=23 Identities=22% Similarity=0.037 Sum_probs=17.5
Q ss_pred hcCccHHHHHHHHHHHHHhccCC
Q 018657 238 FLGFAPSTIAAAAVLCAAGESLD 260 (352)
Q Consensus 238 fl~~~PS~iAaAai~~a~~~~~~ 260 (352)
+....+..||+||+++|.+....
T Consensus 68 ~~~~~~~li~~~cl~lA~K~~e~ 90 (127)
T PF00134_consen 68 VNRSKLQLIALACLFLASKMEED 90 (127)
T ss_dssp TTCCGHHHHHHHHHHHHHHHHTS
T ss_pred cccchhhhhhhhHHHHhhhhhcc
Confidence 45677888999999999764444
No 39
>PF03261 CDK5_activator: Cyclin-dependent kinase 5 activator protein; InterPro: IPR004944 These proteins are neuron specific activators of cyclin-dependent kinase 5 (CDK5) []. They form a heterodimer with the catalytic subunit (CDK5) [].; GO: 0016534 cyclin-dependent protein kinase 5 activator activity, 0016533 cyclin-dependent protein kinase 5 holoenzyme complex; PDB: 3O0G_D 1H4L_E 1UNH_D 1UNL_E 1UNG_E.
Probab=26.68 E-value=1.5e+02 Score=28.74 Aligned_cols=66 Identities=18% Similarity=0.277 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHc---CCChhHHHHHHHHHHhhhhccc-ccCC--CCCchHHHHHHHHHHHhhhh--ccCCCc
Q 018657 94 QDSINWILNVHANY---KFRPVTALLSVNYFDRFLSSHF-LPLA--NGWPLQLLSVACLSLAAKME--ETQVPL 159 (352)
Q Consensus 94 ~~~v~Wi~~v~~~~---~l~~~T~~lAv~~lDRfls~~~-i~~~--~~~~lqLlavaCL~LAaK~e--E~~~p~ 159 (352)
.++|-|+..|-+.+ |.....+..-.|++=-||..+. +..+ ....+|-+.++|||||--|- |+..|.
T Consensus 222 ~~~vmWlR~vDRsLLlqgwqd~~fi~pan~vf~yml~r~~~~~~~~~~~~l~~~~l~cly~sysy~gneisypl 295 (346)
T PF03261_consen 222 GDVVMWLRAVDRSLLLQGWQDQAFINPANVVFVYMLCRDVVSGEVSSERELQAIVLTCLYLSYSYMGNEISYPL 295 (346)
T ss_dssp HHHHHHHHHHHHHHHHTTS-SS-S--HHHHHHHHHHHHHHS-TT--SHHHHHHHHHHHHHHHHHHH-SSS---S
T ss_pred cceEeehhhcCHHHHhccccccceeccchhhhhHHHHHHhhccccCCHHHHHHHHHHHHHHHhhhcCccccccc
Confidence 45777887777755 3444444444444444443332 2211 23589999999999999884 454454
No 40
>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=25.79 E-value=3.6e+02 Score=22.41 Aligned_cols=76 Identities=17% Similarity=0.138 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhhhhccCC-CcchhhhhhCCCC-ccCHHHHHHHHHHHHHHcCc
Q 018657 113 TALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAKMEETQV-PLLLDLQIFDPRF-VFEPKTVQRMELRVMSVLNW 190 (352)
Q Consensus 113 T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK~eE~~~-p~~~dl~~~~~~~-~f~~~~I~~mE~~IL~~L~w 190 (352)
.+.+.+.||-|- .++.. ..-..--..+|+||.-|||... |+..=+....+++ .-....+.++=..+...++|
T Consensus 32 LLAmV~~YF~Ra----gl~~~--~Y~ri~FFlALYLAndmEED~~~~K~~If~f~~G~~w~~~~~~F~klr~~~~~~m~~ 105 (131)
T PF11357_consen 32 LLAMVIAYFSRA----GLFSW--QYQRIHFFLALYLANDMEEDDEEPKYEIFPFLYGKNWRSQIPQFHKLRDQFWRRMDW 105 (131)
T ss_pred HHHHHHHHHHhc----ccchh--hcchHHHHHHHHHhhHHHhccchHHHHHHHHHHCcchHHHhHHHHHHHHHHHHHcCC
Confidence 344555666653 23221 0223345779999999999753 3322222222333 33456677777788888888
Q ss_pred cccc
Q 018657 191 RLNS 194 (352)
Q Consensus 191 ~l~~ 194 (352)
+..+
T Consensus 106 Ra~V 109 (131)
T PF11357_consen 106 RAWV 109 (131)
T ss_pred ceee
Confidence 7654
No 41
>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=24.00 E-value=1.1e+02 Score=24.83 Aligned_cols=39 Identities=23% Similarity=0.306 Sum_probs=30.1
Q ss_pred CChhHHHHHHHHHHhhhhcccccCCCCCchHHHHHHHHHHHhh
Q 018657 109 FRPVTALLSVNYFDRFLSSHFLPLANGWPLQLLSVACLSLAAK 151 (352)
Q Consensus 109 l~~~T~~lAv~~lDRfls~~~i~~~~~~~lqLlavaCL~LAaK 151 (352)
|+--++.+|+.-+..-+..+.++. .+-+++.+|++|-.=
T Consensus 39 FPlIaLvLavy~LyQ~Yl~~~m~e----g~P~~a~acFflG~f 77 (117)
T PF07226_consen 39 FPLIALVLAVYCLYQRYLNHPMPE----GTPKLALACFFLGLF 77 (117)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCC----CChHHHHHHHHHHHH
Confidence 355678889987776666677776 688999999999754
No 42
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=21.82 E-value=1.6e+02 Score=21.07 Aligned_cols=30 Identities=10% Similarity=0.121 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHH
Q 018657 87 SVFVTARQDSINWILNVHANYKFRPVTALLSVNY 120 (352)
Q Consensus 87 ~i~~~~R~~~v~Wi~~v~~~~~l~~~T~~lAv~~ 120 (352)
.+++.....+.+|+ ..++++++++..|+.+
T Consensus 12 ~ls~~e~~~i~~~~----~~~~~~~evI~~ai~~ 41 (73)
T TIGR01446 12 MLSPFEMEDLKYWL----DEFGNSPELIKEALKE 41 (73)
T ss_pred CCCHHHHHHHHHHH----HHhCCCHHHHHHHHHH
Confidence 46777788888887 5678899999999887
No 43
>PF14376 Haem_bd: Haem-binding domain
Probab=20.66 E-value=1.2e+02 Score=25.27 Aligned_cols=44 Identities=18% Similarity=0.339 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhhhhccCCCccccccccCCCCCHHHHHHHHHHHHH
Q 018657 58 DDVVSRLIDRESETHHMLHPDYLHRFRDCSVFVTARQDSINWILN 102 (352)
Q Consensus 58 ~e~l~~ll~rE~E~~~~p~~~yl~~~~~~~i~~~~R~~~v~Wi~~ 102 (352)
+..+..+.+ ..+.+-+|...|+--.....++.+.|..+++|+-+
T Consensus 92 ~~~l~~i~~-~I~~g~MP~~~Y~~~H~~a~Ls~~ek~~Ll~Wi~~ 135 (137)
T PF14376_consen 92 EAKLAKIEE-VIEDGEMPPPSYTLLHWEAKLSEEEKQALLNWIKE 135 (137)
T ss_pred HHHHHHHHH-HHHcCCCChHHHhhhCCCCCCCHHHHHHHHHHHHH
Confidence 334444442 34556799999986556667999999999999965
Done!