Query 019748
Match_columns 336
No_of_seqs 300 out of 1673
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 04:14:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019748.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019748hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0656 G1/S-specific cyclin D 100.0 3.1E-51 6.7E-56 383.7 23.4 222 22-245 43-268 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 3.1E-37 6.6E-42 282.6 17.0 215 23-252 112-336 (408)
3 KOG0653 Cyclin B and related k 100.0 2.9E-35 6.3E-40 287.3 18.9 222 18-252 121-346 (391)
4 COG5024 Cyclin [Cell division 100.0 2.7E-34 5.8E-39 278.6 17.1 225 15-252 172-400 (440)
5 KOG0654 G2/Mitotic-specific cy 100.0 6.7E-31 1.5E-35 248.7 8.0 238 21-281 100-341 (359)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 1.7E-24 3.6E-29 178.8 13.0 124 26-154 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 5.4E-22 1.2E-26 186.8 17.4 161 56-219 54-222 (305)
8 KOG0834 CDK9 kinase-activating 99.8 8.7E-19 1.9E-23 165.1 14.6 193 55-252 36-246 (323)
9 KOG0835 Cyclin L [General func 99.8 1.2E-17 2.6E-22 154.1 20.9 187 54-251 19-229 (367)
10 KOG0794 CDK8 kinase-activating 99.7 1.3E-16 2.8E-21 140.8 12.9 179 63-252 46-239 (264)
11 COG5333 CCL1 Cdk activating ki 99.6 1.5E-15 3.2E-20 140.2 12.8 158 56-219 43-208 (297)
12 PF02984 Cyclin_C: Cyclin, C-t 99.5 1E-14 2.3E-19 118.2 6.5 108 156-281 1-108 (118)
13 KOG2496 Cdk activating kinase 99.5 1.1E-12 2.4E-17 120.4 15.5 159 57-219 59-224 (325)
14 PRK00423 tfb transcription ini 99.5 1E-11 2.3E-16 118.1 21.2 178 61-251 125-304 (310)
15 cd00043 CYCLIN Cyclin box fold 99.4 8.1E-13 1.8E-17 100.4 8.4 84 58-146 2-88 (88)
16 smart00385 CYCLIN domain prese 99.4 2.2E-12 4.8E-17 97.0 8.3 81 63-147 1-83 (83)
17 COG1405 SUA7 Transcription ini 98.7 1.8E-06 4E-11 80.9 19.6 169 69-250 110-278 (285)
18 KOG1597 Transcription initiati 98.3 4.4E-05 9.5E-10 70.7 17.0 170 69-252 117-289 (308)
19 cd00043 CYCLIN Cyclin box fold 98.3 4.6E-06 1E-10 62.8 8.6 85 155-247 2-87 (88)
20 smart00385 CYCLIN domain prese 98.3 3.6E-06 7.8E-11 62.8 7.2 81 160-248 1-82 (83)
21 PF08613 Cyclin: Cyclin; Inte 98.2 8.9E-06 1.9E-10 69.3 9.9 91 60-153 53-149 (149)
22 KOG4164 Cyclin ik3-1/CABLES [C 98.0 9.2E-06 2E-10 77.5 4.8 85 69-156 395-482 (497)
23 KOG1598 Transcription initiati 97.4 0.0014 3.1E-08 65.3 11.2 166 69-245 80-248 (521)
24 PF00382 TFIIB: Transcription 95.5 0.061 1.3E-06 39.5 6.7 71 162-240 1-71 (71)
25 PF00382 TFIIB: Transcription 94.9 0.23 5E-06 36.4 8.1 56 69-127 7-62 (71)
26 KOG1674 Cyclin [General functi 93.5 0.29 6.2E-06 44.4 7.4 86 69-156 88-181 (218)
27 PRK00423 tfb transcription ini 93.3 0.54 1.2E-05 44.9 9.3 87 157-251 124-210 (310)
28 PF09080 K-cyclin_vir_C: K cyc 90.1 2.6 5.5E-05 32.4 7.8 91 158-249 4-97 (106)
29 PF02984 Cyclin_C: Cyclin, C-t 83.8 7.8 0.00017 30.4 8.1 72 73-149 17-89 (118)
30 COG1405 SUA7 Transcription ini 80.9 13 0.00029 35.1 9.5 101 142-251 76-185 (285)
31 KOG1597 Transcription initiati 77.3 17 0.00038 34.2 8.9 84 159-251 108-192 (308)
32 KOG0834 CDK9 kinase-activating 75.1 3.5 7.6E-05 39.6 3.9 87 58-147 152-243 (323)
33 KOG0835 Cyclin L [General func 74.5 17 0.00036 34.9 8.1 62 76-142 160-222 (367)
34 PF00134 Cyclin_N: Cyclin, N-t 66.2 52 0.0011 26.0 8.6 66 182-249 53-120 (127)
35 PF09241 Herp-Cyclin: Herpesvi 65.0 60 0.0013 24.7 8.3 91 158-249 4-96 (106)
36 KOG1675 Predicted cyclin [Gene 60.5 13 0.00029 35.3 4.3 92 72-167 206-299 (343)
37 PF03261 CDK5_activator: Cycli 49.8 52 0.0011 31.8 6.5 30 100-129 271-302 (346)
38 TIGR00569 ccl1 cyclin ccl1. Un 47.0 1.4E+02 0.003 28.5 9.0 37 182-218 80-116 (305)
39 cd04443 DEP_GPR155 DEP (Dishev 31.7 58 0.0013 24.8 3.1 29 58-86 33-62 (83)
40 KOG3932 CDK5 kinase activator 29.0 1E+02 0.0022 29.0 4.8 108 59-170 223-343 (357)
41 cd04447 DEP_BRCC3 DEP (Disheve 26.9 83 0.0018 24.5 3.3 38 57-94 31-72 (92)
42 cd04439 DEP_1_P-Rex DEP (Dishe 25.9 84 0.0018 23.7 3.1 29 58-86 31-60 (81)
43 cd04441 DEP_2_DEP6 DEP (Dishev 23.9 94 0.002 23.8 3.1 29 58-86 35-64 (85)
44 cd04448 DEP_PIKfyve DEP (Dishe 22.9 1E+02 0.0022 23.2 3.1 30 57-86 30-60 (81)
45 PF08613 Cyclin: Cyclin; Inte 22.6 4.5E+02 0.0098 21.8 9.3 93 154-249 50-143 (149)
46 cd04442 DEP_1_DEP6 DEP (Dishev 21.4 1.1E+02 0.0025 23.1 3.1 29 58-86 31-60 (82)
47 PF07226 DUF1422: Protein of u 20.4 1.6E+02 0.0035 23.9 3.9 38 72-113 39-76 (117)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.1e-51 Score=383.69 Aligned_cols=222 Identities=38% Similarity=0.666 Sum_probs=205.4
Q ss_pred ccHHHHHHHHHHHhhccCCCcchhhhccCCCCCHHHHHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcc
Q 019748 22 DSTETILESLFLVESDHMPSKSYIKTLKGRDLDNSLRSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPW 99 (336)
Q Consensus 22 ~y~~ei~~~l~~~E~~~~p~~~yl~~~~~~~i~~~~R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~ 99 (336)
.++++++..|+++|.++.|..+|..+++. .+.+.||.++++||++| +++|++++++||+|||||||+.+.+++++||
T Consensus 43 ~~~e~~i~~ll~kEe~~~p~~~~~~~~~~-~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W 121 (335)
T KOG0656|consen 43 LWDERVLANLLEKEEQHNPSLDYFLCVQK-LILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPW 121 (335)
T ss_pred cccHHHHHHHHHHHHHhCCCCchhhhccc-ccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchH
Confidence 57899999999999999999997777664 58888999999999999 7999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhccCcc-hhhhhhhc-CCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCChHHH
Q 019748 100 KLRLLAVSCFSLAAKMRQIEFS-YTQFQADG-GLIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLKDLTVQ 177 (336)
Q Consensus 100 ~lqLlavaCL~lAsK~eE~~~p-l~dl~~~~-~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~~~~~ 177 (336)
++||+|+|||+||||+||+.+| +.|+++++ .+.|.+++|++||++||++|+|||+++||++|+++|+++++..+.. .
T Consensus 122 ~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~-~ 200 (335)
T KOG0656|consen 122 MLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHN-K 200 (335)
T ss_pred HHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccch-H
Confidence 9999999999999999999988 78998887 6999999999999999999999999999999999999999987543 4
Q ss_pred HHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCCCHhhHHHHHH
Q 019748 178 RALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPYVNKENLLRCYN 245 (336)
Q Consensus 178 ~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~~~~~l~~C~~ 245 (336)
+.+..++..++..+..|.+|++|+||+||+|++.++...+.+.....+...+..+.+++++.+..|+.
T Consensus 201 ~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 201 HLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred HHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 67889999999999999999999999999999999999988776666667788888999999999998
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.1e-37 Score=282.56 Aligned_cols=215 Identities=23% Similarity=0.369 Sum_probs=185.1
Q ss_pred cHHHHHHHHHHHhhccCCCcchhhhccCCCCCHHHHHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhcc-ccCCCCcc
Q 019748 23 STETILESLFLVESDHMPSKSYIKTLKGRDLDNSLRSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQ-EMPQPKPW 99 (336)
Q Consensus 23 y~~ei~~~l~~~E~~~~p~~~yl~~~~~~~i~~~~R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~-~v~~~~~~ 99 (336)
-.++++..|+.+|+.+.....++. +++++.++||++++|||+|| .+++++||+|||+.||||||... .+.+..
T Consensus 112 n~~eVW~lM~kkee~~l~~~~~l~--qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~-- 187 (408)
T KOG0655|consen 112 NSKEVWLLMLKKEERYLRDKHFLE--QHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTN-- 187 (408)
T ss_pred CHHHHHHHHHccchhhhhhhHHHh--hCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhh--
Confidence 357999999999999888777776 68899999999999999999 79999999999999999999766 477777
Q ss_pred hhHHHHHHHHHHHHHhhccCcc-hhhhhhhcCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCChH---
Q 019748 100 KLRLLAVSCFSLAAKMRQIEFS-YTQFQADGGLIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLKDLT--- 175 (336)
Q Consensus 100 ~lqLlavaCL~lAsK~eE~~~p-l~dl~~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~~~--- 175 (336)
|||+|+||||||||+||++|| +.+|.......|+.++|+.||+.||++|+|++.++|...+|..|++....++.+
T Consensus 188 -lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l 266 (408)
T KOG0655|consen 188 -LQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVL 266 (408)
T ss_pred -HHHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCcee
Confidence 999999999999999999999 889843333389999999999999999999999999999999999987765432
Q ss_pred ---HHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCCCHhhHHHHHHHHHHhhc
Q 019748 176 ---VQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPYVNKENLLRCYNAMQDTSM 252 (336)
Q Consensus 176 ---~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~~~~~l~~C~~~l~~l~~ 252 (336)
+.+...-...+++++|+.+.+.+.|.-++||||||+.-.. ...+...+|+.+++|.+|++.|.-+.+
T Consensus 267 ~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s----------~e~v~kaSG~~w~~ie~cv~wm~Pf~r 336 (408)
T KOG0655|consen 267 LPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTS----------IEVVKKASGLEWDSIEECVDWMVPFVR 336 (408)
T ss_pred ccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhH----------HHHHHHcccccHHHHHHHHHHHHHHHH
Confidence 2223334556789999999999999999999999986543 234567799999999999999998765
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-35 Score=287.26 Aligned_cols=222 Identities=23% Similarity=0.337 Sum_probs=191.1
Q ss_pred CCccccHHHHHHHHHHHhhccCCCcchhhhccCCCCCHHHHHHHHHHHHhhh--cccChhHHHHHHHHHHHhhhccccCC
Q 019748 18 DDDEDSTETILESLFLVESDHMPSKSYIKTLKGRDLDNSLRSRAVSSILQFS--CKFDPFLSYLAVNYMDRYLSSQEMPQ 95 (336)
Q Consensus 18 d~~~~y~~ei~~~l~~~E~~~~p~~~yl~~~~~~~i~~~~R~~~vdWi~~v~--~~~~~~T~~lAv~~lDRfLs~~~v~~ 95 (336)
..+.+|.++|+.+++.+|..+.|...+ .++.+++.+||.++|||+++|| |++.+||+|||||++||||+...++.
T Consensus 121 ~~~~ey~~di~~~l~~~e~~~~p~~~~---~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~ 197 (391)
T KOG0653|consen 121 SMIVEYVQDIFEYLRQLELEFLPLSYD---ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPL 197 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCchhhh---cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccH
Confidence 346899999999999999766666444 3466899999999999999995 67799999999999999999998988
Q ss_pred CCcchhHHHHHHHHH-HHHHhhccCcc-hhhhhhhcCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCC
Q 019748 96 PKPWKLRLLAVSCFS-LAAKMRQIEFS-YTQFQADGGLIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLKD 173 (336)
Q Consensus 96 ~~~~~lqLlavaCL~-lAsK~eE~~~p-l~dl~~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~ 173 (336)
.+ +||+|++||+ ||+|+||..+| +.||+......|++++|++||+.||++|+|++..|||+.|+++|++....+.
T Consensus 198 ~~---lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d~ 274 (391)
T KOG0653|consen 198 KK---LQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYDI 274 (391)
T ss_pred HH---hhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcch
Confidence 88 9999999966 99999999999 8898766666899999999999999999999999999999999999877432
Q ss_pred hHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCCCHhhHHHHHHHHHHhhc
Q 019748 174 LTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPYVNKENLLRCYNAMQDTSM 252 (336)
Q Consensus 174 ~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~~~~~l~~C~~~l~~l~~ 252 (336)
. ...+.++ +++.+++|++++.++||.+|+|++++++....... .|...+..++|+...++.+|.+.+..+..
T Consensus 275 ~--~~~~~k~---~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~--~w~~~~~~~sg~~~~~~~~~~~~~~~~~~ 346 (391)
T KOG0653|consen 275 K--TRTLVKY---LLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGD--VWSPTLEHYSGYSESYLFECARSLSALSL 346 (391)
T ss_pred h--HHHHHHH---HHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCC--ccCCCCeeccCCCcHHHHHHHHHHHHHHH
Confidence 1 2344444 45556699999999999999999999999887432 68899999999998899999999998554
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=2.7e-34 Score=278.61 Aligned_cols=225 Identities=20% Similarity=0.243 Sum_probs=195.8
Q ss_pred ccCCCccccHHHHHHHHHHHhhccCCCcchhhhccCCCCCHHHHHHHHHHHHhhh--cccChhHHHHHHHHHHHhhhccc
Q 019748 15 LFNDDDEDSTETILESLFLVESDHMPSKSYIKTLKGRDLDNSLRSRAVSSILQFS--CKFDPFLSYLAVNYMDRYLSSQE 92 (336)
Q Consensus 15 ~~~d~~~~y~~ei~~~l~~~E~~~~p~~~yl~~~~~~~i~~~~R~~~vdWi~~v~--~~~~~~T~~lAv~~lDRfLs~~~ 92 (336)
...-.+.+|+.+|+.+|+.+|..+.|.+.|+.+ +..+...||.++|+||.+|| |++.|+|+++|||++||||+...
T Consensus 172 ~d~~mv~Ey~~~Ife~l~k~e~~~lp~~~yl~k--q~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~ 249 (440)
T COG5024 172 EDPLMVPEYASDIFEYLLKLELIDLPNPNYLIK--QSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRV 249 (440)
T ss_pred cCccchHHHHHHHHHHHHHHHHHhcCcHHHHhh--cchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCc
Confidence 334456899999999999999999999999775 45677899999999999995 56699999999999999999999
Q ss_pred cCCCCcchhHHHHHHHHHHHHHhhccCcc-hhhhhhhcCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccC
Q 019748 93 MPQPKPWKLRLLAVSCFSLAAKMRQIEFS-YTQFQADGGLIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKL 171 (336)
Q Consensus 93 v~~~~~~~lqLlavaCL~lAsK~eE~~~p-l~dl~~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~ 171 (336)
++-.+ +||+|++|||||+|+||.+.| +.+|+......|+.++|+++|+.+|.+|+|++..|+|..|++++...-..
T Consensus 250 v~l~k---~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dy 326 (440)
T COG5024 250 VSLEK---YQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDY 326 (440)
T ss_pred ccHHH---HHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhccc
Confidence 99999 999999999999999999999 88987666558999999999999999999999999999998888776443
Q ss_pred CChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCC-CCHhhHHHHHHHHHHh
Q 019748 172 KDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPY-VNKENLLRCYNAMQDT 250 (336)
Q Consensus 172 ~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~-~~~~~l~~C~~~l~~l 250 (336)
+- ..+.+.++ ++..+..++.|..++||.+|+||.+.+++.++..+ |...+..++| |+.+++.++...+.+.
T Consensus 327 d~--~srt~~k~---~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~---w~~~l~~ySg~y~~~~l~~~~~~~~~~ 398 (440)
T COG5024 327 DI--FSRTPAKF---SSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ---WDRTLIHYSGNYTNPDLKPLNESNKEN 398 (440)
T ss_pred ch--hhhhhHhh---hCCchHhhhhhccCCchHHHHHHHHHHHhhhccCC---CCccccccCCCCCchhHHHHHHHHHHH
Confidence 21 12334444 44455689999999999999999999999998644 8889999988 9999999999999997
Q ss_pred hc
Q 019748 251 SM 252 (336)
Q Consensus 251 ~~ 252 (336)
..
T Consensus 399 l~ 400 (440)
T COG5024 399 LQ 400 (440)
T ss_pred hc
Confidence 65
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.97 E-value=6.7e-31 Score=248.73 Aligned_cols=238 Identities=24% Similarity=0.326 Sum_probs=210.1
Q ss_pred cccHHHHHHHHHHHhhc-cCCCcchhhhccCCCCCHHHHHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCC
Q 019748 21 EDSTETILESLFLVESD-HMPSKSYIKTLKGRDLDNSLRSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPK 97 (336)
Q Consensus 21 ~~y~~ei~~~l~~~E~~-~~p~~~yl~~~~~~~i~~~~R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~ 97 (336)
..|+.+|+++++..|.. ++|.++|++.+|. ++++.||.++|+|.++| .+++..+++++++++.|||+....+.+.+
T Consensus 100 ~~~~~~I~~~~r~~ei~~~rp~~~~~e~vq~-d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k 178 (359)
T KOG0654|consen 100 LKIAAKIYNTLRVSDIKSERPLPSKFEFVQA-DITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQK 178 (359)
T ss_pred HHHHHHHhhcccccchhhccCcccceeeeec-CCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHH
Confidence 77999999999999999 9999999999875 69999999999999999 48999999999999999999999999999
Q ss_pred cchhHHHHHHHHHHHHHhhccCcc-hhhhhhhcCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCChHH
Q 019748 98 PWKLRLLAVSCFSLAAKMRQIEFS-YTQFQADGGLIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLKDLTV 176 (336)
Q Consensus 98 ~~~lqLlavaCL~lAsK~eE~~~p-l~dl~~~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~~~~ 176 (336)
+|++|++|++||+|+||..+| +.+|+....+.|...++.+||..||+.|.|.+..||.-.|+..|+......
T Consensus 179 ---~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~---- 251 (359)
T KOG0654|consen 179 ---LQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTP---- 251 (359)
T ss_pred ---HHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcch----
Confidence 999999999999999999999 788876666689999999999999999999999999999999998876542
Q ss_pred HHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCCCHhhHHHHHHHHHHhhccccc
Q 019748 177 QRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPYVNKENLLRCYNAMQDTSMDDEY 256 (336)
Q Consensus 177 ~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~~~~~l~~C~~~l~~l~~~~~~ 256 (336)
...+...+.++.+.++.++.|+.|.||.|||||+++|+-.++ ...|.+.|..++||+.+++..|+..|+ +..
T Consensus 252 ~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~---~~pW~~~L~~~T~y~~edl~~~v~~L~-~~l---- 323 (359)
T KOG0654|consen 252 ELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD---FHPWNQTLEDYTGYKAEDLKPCVLDLH-LYL---- 323 (359)
T ss_pred hHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc---CCCCchhhHHhhcccHHHHHHHHHHHh-ccc----
Confidence 234556677777888899999999999999999999999987 345999999999999999999999999 554
Q ss_pred ccccccCCCCCCcccccccccccCC
Q 019748 257 ESEIDLVSSSYTPVNVLDCRVSSSG 281 (336)
Q Consensus 257 ~~~~~~~~~p~sp~~vld~~~~s~~ 281 (336)
..++++...+..+|.-++
T Consensus 324 -------~~~~~~l~air~ky~~~k 341 (359)
T KOG0654|consen 324 -------NASGTDLPAIREKYKQSK 341 (359)
T ss_pred -------CCCCCchHHHHHHhhhhh
Confidence 345556666666665433
No 6
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.92 E-value=1.7e-24 Score=178.79 Aligned_cols=124 Identities=26% Similarity=0.409 Sum_probs=108.5
Q ss_pred HHHHHHHHHhhccCCCcchhhhccCCCCCHHHHHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHH
Q 019748 26 TILESLFLVESDHMPSKSYIKTLKGRDLDNSLRSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRL 103 (336)
Q Consensus 26 ei~~~l~~~E~~~~p~~~yl~~~~~~~i~~~~R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqL 103 (336)
||+.+|+++|.++.+.+.|++. +++++...|..+++||.++ ++++++.|+++|+.|||||+....+.+.+ +++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~--~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~---~~l 75 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQ--QPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSK---LQL 75 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTG--TSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCG---HHH
T ss_pred CHHHHHHHHHHHHCcCcccccc--ChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccch---hhh
Confidence 6899999999999999999984 3378899999999999999 78999999999999999999999988887 999
Q ss_pred HHHHHHHHHHHhhccCcc-hhhhhhhcCCccCHHHHHHHHHHHHHHcCCccc
Q 019748 104 LAVSCFSLAAKMRQIEFS-YTQFQADGGLIFDTQTIQRMECLILGALKWRMR 154 (336)
Q Consensus 104 lavaCL~lAsK~eE~~~p-l~dl~~~~~~~~~~~~I~~mE~~IL~~L~w~l~ 154 (336)
+|+|||+||+|++|..+| +.+++....+.|+.++|.+||+.||++|+|+++
T Consensus 76 i~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 76 IALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 999999999999999877 888876666689999999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.89 E-value=5.4e-22 Score=186.84 Aligned_cols=161 Identities=19% Similarity=0.281 Sum_probs=134.8
Q ss_pred HHHHHHHHHHHhh--hcc--cChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhcC-
Q 019748 56 SLRSRAVSSILQF--SCK--FDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADGG- 130 (336)
Q Consensus 56 ~~R~~~vdWi~~v--~~~--~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~~- 130 (336)
..|.--+.+|.++ .++ +++.|+++|+.||+||+....+.... .+++|+|||+||+|+||..+++.+|+..-.
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~---p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~ 130 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYH---PKIIMLTCVFLACKVEEFNVSIDQFVGNLKE 130 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcC---HHHHHHHHHHHHHhccccCcCHHHHHhhccC
Confidence 5677778888888 688 99999999999999999999988877 999999999999999999888888864321
Q ss_pred -CccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCC--ChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHH
Q 019748 131 -LIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLK--DLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAA 207 (336)
Q Consensus 131 -~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~--~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAa 207 (336)
.....++|++||..||++|+|++.+++|+.++..|+..+... .......+.+.++.++..++...-++.|+||.||+
T Consensus 131 ~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAl 210 (305)
T TIGR00569 131 TPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIAL 210 (305)
T ss_pred CchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHH
Confidence 224679999999999999999999999999999887543211 00012357788888888888777789999999999
Q ss_pred HHHHHHHHHhCC
Q 019748 208 SALLFASRELFP 219 (336)
Q Consensus 208 Aal~~a~~~l~~ 219 (336)
|||++|.+.++.
T Consensus 211 AAI~lA~~~~~~ 222 (305)
T TIGR00569 211 AAILHTASRAGL 222 (305)
T ss_pred HHHHHHHHHhCC
Confidence 999999998874
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.80 E-value=8.7e-19 Score=165.11 Aligned_cols=193 Identities=16% Similarity=0.171 Sum_probs=159.2
Q ss_pred HHHHHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhcC-C
Q 019748 55 NSLRSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADGG-L 131 (336)
Q Consensus 55 ~~~R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~~-~ 131 (336)
...|.....||.++ .+++.+.|+..|+.||+||.....+.... .+.+|++||+||+|+||+..++.|++.... +
T Consensus 36 ~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~---~~~vA~sclfLAgKvEetp~kl~dIi~~s~~~ 112 (323)
T KOG0834|consen 36 LRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFD---PYTVAASCLFLAGKVEETPRKLEDIIKVSYRY 112 (323)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCc---HHHHHHHHHHHHhhcccCcccHHHHHHHHHHH
Confidence 35899999999999 68999999999999999999999998888 899999999999999999888888743221 1
Q ss_pred ----------cc--CHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhC
Q 019748 132 ----------IF--DTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIE 199 (336)
Q Consensus 132 ----------~~--~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~ 199 (336)
.| .++.|+..|+.||++|+|++++-.|+.||..|+..++.+... ...++..++.++..++...-+++
T Consensus 113 ~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~-~~~~a~~Aw~~~nD~~~t~~cL~ 191 (323)
T KOG0834|consen 113 LNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENL-KQPLAQAAWNFVNDSLRTTLCLQ 191 (323)
T ss_pred cCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhc-cccHHHHHHHHhchhheeeeeEe
Confidence 11 267899999999999999999999999999999998876432 13578899999999998888899
Q ss_pred ccHHHHHHHHHHHHHHHhCCCchhhhHHh-chhcCC--CCHhhHHHHHHHHHHhhc
Q 019748 200 FKPSIIAASALLFASRELFPLQFHCFRKA-ISNCPY--VNKENLLRCYNAMQDTSM 252 (336)
Q Consensus 200 ~~PS~iAaAal~~a~~~l~~~~~~~~~~~-L~~~~~--~~~~~l~~C~~~l~~l~~ 252 (336)
|+|..||+|||.+|.+..+. ..+.+... .....+ ++.+++.+.+..+..+..
T Consensus 192 y~p~~IAva~i~lA~~~~~~-~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~ 246 (323)
T KOG0834|consen 192 YSPHSIAVACIHLAAKLLGV-ELPSDTDKRWWREFDETVTNELLDDICHEFLDLYE 246 (323)
T ss_pred ecCcEEEeehhhHHHHHcCC-CCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHh
Confidence 99999999999999998764 22222222 111244 889999999988888764
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.79 E-value=1.2e-17 Score=154.06 Aligned_cols=187 Identities=16% Similarity=0.182 Sum_probs=151.1
Q ss_pred CHHHHHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhh-----
Q 019748 54 DNSLRSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQ----- 126 (336)
Q Consensus 54 ~~~~R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~----- 126 (336)
....|.--++||.+. -++++..+.+.+..+|-||+....+-+.+ +..+++||++||+|+||....+.|++
T Consensus 19 e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~---~e~vv~ACv~LASKiEE~Prr~rdVinVFh~ 95 (367)
T KOG0835|consen 19 EEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHD---FEIVVMACVLLASKIEEEPRRIRDVINVFHY 95 (367)
T ss_pred HHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhcccccccc---HHHHHHHHHHHHhhhccccccHhHHHHHHHH
Confidence 346788889999998 67999999999999999999999988888 99999999999999999865454431
Q ss_pred ---h-----------hcCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHh
Q 019748 127 ---A-----------DGGLIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQ 192 (336)
Q Consensus 127 ---~-----------~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l 192 (336)
. ...+.-.+..+.++|..||..|+|++++..|+-++-.|++.++..+.. .|.+.++.+...++
T Consensus 96 L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~---~l~Q~~wNfmNDsl 172 (367)
T KOG0835|consen 96 LEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNL---KLLQAAWNFMNDSL 172 (367)
T ss_pred HHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCch---hHHHHHHHhhhhcc
Confidence 0 000111356789999999999999999999999999999999987642 57788999999999
Q ss_pred cchhhhCccHHHHHHHHHHHHHHHhC---CCchhhhHHhchhcCCCCHhhHHHHHHHHHHhh
Q 019748 193 IDIKLIEFKPSIIAASALLFASRELF---PLQFHCFRKAISNCPYVNKENLLRCYNAMQDTS 251 (336)
Q Consensus 193 ~d~~~l~~~PS~iAaAal~~a~~~l~---~~~~~~~~~~L~~~~~~~~~~l~~C~~~l~~l~ 251 (336)
...-|+.|+|+.||||||++|.+.++ |.+ |.|.. +.+.++++|.+.+-.+..++
T Consensus 173 RT~v~vry~pe~iACaciyLaAR~~eIpLp~~-P~Wf~----~Fd~~k~eid~ic~~l~~lY 229 (367)
T KOG0835|consen 173 RTDVFVRYSPESIACACIYLAARNLEIPLPFQ-PHWFK----AFDTTKREIDEICYRLIPLY 229 (367)
T ss_pred ccceeeecCHHHHHHHHHHHHHhhhcCCCCCC-ccHHH----HcCCcHHHHHHHHHHHHHHH
Confidence 99999999999999999999999887 322 34433 36777777766544444444
No 10
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.71 E-value=1.3e-16 Score=140.81 Aligned_cols=179 Identities=18% Similarity=0.174 Sum_probs=147.6
Q ss_pred HHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcc-hhh-------h-----hh
Q 019748 63 SSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFS-YTQ-------F-----QA 127 (336)
Q Consensus 63 dWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~p-l~d-------l-----~~ 127 (336)
+.|.++ +.++.+.++++|+.||-||+.+.++..-. +.|+|.||++||+|+||-.+. ++- | .-
T Consensus 46 n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~---p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~ 122 (264)
T KOG0794|consen 46 NVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIE---PRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYW 122 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC---HHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccc
Confidence 335555 78999999999999999999999987777 999999999999999998622 222 2 12
Q ss_pred hcCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHH
Q 019748 128 DGGLIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAA 207 (336)
Q Consensus 128 ~~~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAa 207 (336)
...+.|+.+.|.+||..+|+.|+..+-+..|+.-|..+++..+..+. .+...++.++..+....-.+-|+|-.||.
T Consensus 123 ~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~----~~l~~~W~ivNDSyr~Dl~Ll~PPh~Ial 198 (264)
T KOG0794|consen 123 PEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQ----KLLQLAWSIVNDSYRMDLCLLYPPHQIAL 198 (264)
T ss_pred hhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccch----hhhhhhHhhhcchhhcceeeecCHHHHHH
Confidence 22356788999999999999999999999999999999998877543 45577888999988888889999999999
Q ss_pred HHHHHHHHHhCCCchhhhHHhchhcCCCCHhhHHHHHHHHHHhhc
Q 019748 208 SALLFASRELFPLQFHCFRKAISNCPYVNKENLLRCYNAMQDTSM 252 (336)
Q Consensus 208 Aal~~a~~~l~~~~~~~~~~~L~~~~~~~~~~l~~C~~~l~~l~~ 252 (336)
|||+.|....+......|... ..++.+.|.+|++.+..+..
T Consensus 199 Acl~Ia~~~~~k~~~~~w~~e----l~vD~ekV~~~v~~I~~lYe 239 (264)
T KOG0794|consen 199 ACLYIACVIDEKDIPKAWFAE----LSVDMEKVKDIVQEILKLYE 239 (264)
T ss_pred HHHHHHHhhcCCChHHHHHHH----HhccHHHHHHHHHHHHHHHH
Confidence 999999998876543444433 57899999999999988764
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=99.65 E-value=1.5e-15 Score=140.16 Aligned_cols=158 Identities=22% Similarity=0.271 Sum_probs=134.6
Q ss_pred HHHHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhcc--Ccchhhhhhh---
Q 019748 56 SLRSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQI--EFSYTQFQAD--- 128 (336)
Q Consensus 56 ~~R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~--~~pl~dl~~~--- 128 (336)
..|..-.-|+..+ .++|...++.+||.+|+||.....+..-. ++-++.||++||+|+||. +.-+..+...
T Consensus 43 ~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~---~~~vv~tcv~LA~K~ed~~~~I~i~~~~~~~~~ 119 (297)
T COG5333 43 NLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEIS---LYSVVTTCVYLACKVEDTPRDISIESFEARDLW 119 (297)
T ss_pred hHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhccccccc---HHHHHHhheeeeeecccccchhhHHHHHhhccc
Confidence 4566667788888 78999999999999999999999988777 999999999999999995 3333344221
Q ss_pred c-CCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHH
Q 019748 129 G-GLIFDTQTIQRMECLILGALKWRMRSITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAA 207 (336)
Q Consensus 129 ~-~~~~~~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAa 207 (336)
. ...-+++.|..+|..||+.|+|++.++.|+..+..|+..+...+. ..+.+.++.++..+....-++.|+|..||+
T Consensus 120 se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~---~~~~~~aw~~inDa~~t~~~llypphiIA~ 196 (297)
T COG5333 120 SEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK---YKLLQIAWKIINDALRTDLCLLYPPHIIAL 196 (297)
T ss_pred cccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH---HHHHHHHHHHHHhhhhceeeeecChHHHHH
Confidence 1 134578999999999999999999999999999999998776654 367789999999999999999999999999
Q ss_pred HHHHHHHHHhCC
Q 019748 208 SALLFASRELFP 219 (336)
Q Consensus 208 Aal~~a~~~l~~ 219 (336)
||++.|...++.
T Consensus 197 a~l~ia~~~~~~ 208 (297)
T COG5333 197 AALLIACEVLGM 208 (297)
T ss_pred HHHHHHHHhcCC
Confidence 999999998874
No 12
>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=99.54 E-value=1e-14 Score=118.20 Aligned_cols=108 Identities=22% Similarity=0.365 Sum_probs=83.7
Q ss_pred CChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCC
Q 019748 156 ITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPYV 235 (336)
Q Consensus 156 ~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~ 235 (336)
|||++||++|++..+. ...+...+.++++.++.++.|++|+||+||+||+++|+..++. .+.|...+..++|+
T Consensus 1 PTp~~Fl~~~~~~~~~-----~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~--~~~~~~~l~~~t~~ 73 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA-----DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK--EPPWPESLEKLTGY 73 (118)
T ss_dssp --HHHHHHHHHTSSSH-----HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS--STCSHHHHHHHHTS
T ss_pred CcHHHHHHHHHHHcCC-----cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc--cccCCccchhhcCC
Confidence 8999999999654222 1346667777888889999999999999999999999999862 24688889999999
Q ss_pred CHhhHHHHHHHHHHhhcccccccccccCCCCCCcccccccccccCC
Q 019748 236 NKENLLRCYNAMQDTSMDDEYESEIDLVSSSYTPVNVLDCRVSSSG 281 (336)
Q Consensus 236 ~~~~l~~C~~~l~~l~~~~~~~~~~~~~~~p~sp~~vld~~~~s~~ 281 (336)
++++|.+|++.|.++.. ..+.+....+..+|++.+
T Consensus 74 ~~~~l~~c~~~i~~~~~-----------~~~~~~~~ai~~Kys~~~ 108 (118)
T PF02984_consen 74 DKEDLKECIELIQELLS-----------KASNSKLQAIRKKYSSQK 108 (118)
T ss_dssp -HHHHHHHHHHHHHHHH-----------HCCGSSCTHHHHHTTSGG
T ss_pred CHHHHHHHHHHHHHHHH-----------hcCCccchHHHHHhCccc
Confidence 99999999999999876 123556677777887655
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=99.48 E-value=1.1e-12 Score=120.37 Aligned_cols=159 Identities=19% Similarity=0.281 Sum_probs=120.7
Q ss_pred HHHHHHHHHHhhhcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhc--CCccC
Q 019748 57 LRSRAVSSILQFSCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADG--GLIFD 134 (336)
Q Consensus 57 ~R~~~vdWi~~v~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~--~~~~~ 134 (336)
.-..++++.-+..-.+.+.++.+|+.+|-||+....+.... ...|..||+++|+|++|.++.+.+|+..- .-.-+
T Consensus 59 ~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~---pk~I~~tc~flA~Kieef~ISieqFvkn~~~~~~k~ 135 (325)
T KOG2496|consen 59 EELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYS---PKIIMATCFFLACKIEEFYISIEQFVKNMNGRKWKT 135 (325)
T ss_pred HHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcC---hHHHHHHHHHHHhhhHhheecHHHHHhhccCccccc
Confidence 33445555554455789999999999999999999988887 88999999999999999999999985432 23467
Q ss_pred HHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHHcc-----CCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHH
Q 019748 135 TQTIQRMECLILGALKWRMRSITPFTFLSFFISLFK-----LKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASA 209 (336)
Q Consensus 135 ~~~I~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~-----~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAa 209 (336)
.+.|+..|..+|+.|+|++.+.+|+.-++-|+--+. ..++......... ..++..++....++-|+||+||.||
T Consensus 136 ~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~-~~fl~~~lltDa~lLytPsQIALaA 214 (325)
T KOG2496|consen 136 HEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDS-KKFLDRALLTDAYLLYTPSQIALAA 214 (325)
T ss_pred HHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhH-HHHHHHHHHhccceecChHHHHHHH
Confidence 899999999999999999999999998886654332 1232221111111 3666777777778889999999999
Q ss_pred HHHHHHHhCC
Q 019748 210 LLFASRELFP 219 (336)
Q Consensus 210 l~~a~~~l~~ 219 (336)
|+.|....+.
T Consensus 215 il~a~~~~~~ 224 (325)
T KOG2496|consen 215 ILHAAGRTGE 224 (325)
T ss_pred HHHHhccccc
Confidence 9766554544
No 14
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.46 E-value=1e-11 Score=118.13 Aligned_cols=178 Identities=13% Similarity=0.142 Sum_probs=147.9
Q ss_pred HHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhcCCccCHHHH
Q 019748 61 AVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADGGLIFDTQTI 138 (336)
Q Consensus 61 ~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~~~~~~~~~I 138 (336)
...-|-++ .++++..+.-.|..++.++.....+.... ...+++||+++|+|.++....+.++.... ..+.++|
T Consensus 125 a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs---~~~i~AAclYiACR~~~~prtl~eI~~~~--~v~~k~i 199 (310)
T PRK00423 125 ALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRS---IEGVVAAALYAACRRCKVPRTLDEIAEVS--RVSRKEI 199 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCC---HHHHHHHHHHHHHHHcCCCcCHHHHHHHh--CCCHHHH
Confidence 34445555 67999999999999999999987777777 99999999999999998877788885544 4689999
Q ss_pred HHHHHHHHHHcCCcccCCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhC
Q 019748 139 QRMECLILGALKWRMRSITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELF 218 (336)
Q Consensus 139 ~~mE~~IL~~L~w~l~~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~ 218 (336)
-+.++.|++.|+.++..+.|.+|+..|...++... .+...+.+++..+....-....+|..|||||||+|....+
T Consensus 200 ~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~-----~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g 274 (310)
T PRK00423 200 GRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG-----EVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLG 274 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH-----HHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhC
Confidence 99999999999999999999999999999998863 3556677777665544445689999999999999998776
Q ss_pred CCchhhhHHhchhcCCCCHhhHHHHHHHHHHhh
Q 019748 219 PLQFHCFRKAISNCPYVNKENLLRCYNAMQDTS 251 (336)
Q Consensus 219 ~~~~~~~~~~L~~~~~~~~~~l~~C~~~l~~l~ 251 (336)
.. .-.+.+...+|+++..|...++.|.+..
T Consensus 275 ~~---~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 275 ER---RTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred CC---CCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 32 2356788889999999999999998754
No 15
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=99.41 E-value=8.1e-13 Score=100.44 Aligned_cols=84 Identities=26% Similarity=0.307 Sum_probs=74.2
Q ss_pred HHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhcCCcc-C
Q 019748 58 RSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADGGLIF-D 134 (336)
Q Consensus 58 R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~~~~~-~ 134 (336)
|..+++||.++ .+++++++.++|+.|+|||+....+.+.+ ++++|+||++||+|+++..+.+.++.... .+ +
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~ia~a~l~lA~k~~~~~~~~~~~~~~~--~~~~ 76 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRS---PSLVAAAALYLAAKVEEIPPWLKDLVHVT--GYAT 76 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCC---hHHHHHHHHHHHHHHcCCCCCHHHHhHHh--CCCC
Confidence 67889999999 68999999999999999999998887666 99999999999999999944478886665 45 9
Q ss_pred HHHHHHHHHHHH
Q 019748 135 TQTIQRMECLIL 146 (336)
Q Consensus 135 ~~~I~~mE~~IL 146 (336)
.++|.+||..|+
T Consensus 77 ~~~i~~~e~~il 88 (88)
T cd00043 77 EEEILRMEKLLL 88 (88)
T ss_pred HHHHHHHHHHhC
Confidence 999999999875
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=99.37 E-value=2.2e-12 Score=97.05 Aligned_cols=81 Identities=31% Similarity=0.381 Sum_probs=70.2
Q ss_pred HHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhcCCccCHHHHHH
Q 019748 63 SSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADGGLIFDTQTIQR 140 (336)
Q Consensus 63 dWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~~~~~~~~~I~~ 140 (336)
+||.++ .+++++++.++|+.++|||+....+.+.. .+++|++|++||+|++|..++..++....++ |+.++|.+
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~---~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~-~~~~~i~~ 76 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYS---PSLIAAAALYLAAKTEEIPPWTKELVHYTGY-FTEEEILR 76 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCC---HHHHHHHHHHHHHHHhcCCCCchhHhHhhCC-CCHHHHHH
Confidence 588888 68999999999999999999977777666 9999999999999999998667777554433 79999999
Q ss_pred HHHHHHH
Q 019748 141 MECLILG 147 (336)
Q Consensus 141 mE~~IL~ 147 (336)
||+.||.
T Consensus 77 ~~~~il~ 83 (83)
T smart00385 77 MEKLLLE 83 (83)
T ss_pred HHHHHhC
Confidence 9999873
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.72 E-value=1.8e-06 Score=80.92 Aligned_cols=169 Identities=17% Similarity=0.213 Sum_probs=141.8
Q ss_pred hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhcCCccCHHHHHHHHHHHHHH
Q 019748 69 SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADGGLIFDTQTIQRMECLILGA 148 (336)
Q Consensus 69 ~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~~~~~~~~~I~~mE~~IL~~ 148 (336)
..+++..+.-.|..++=+.+...-+.... .+-++++|+++|++.......+.++.... .-++++|.++.+.+...
T Consensus 110 ~l~LP~~v~e~A~~iyr~a~~~~l~rGRs---ie~v~AA~iY~acR~~~~prtl~eIa~a~--~V~~kei~rtyr~~~~~ 184 (285)
T COG1405 110 ALGLPESVRETAARIYRKAVDKGLLRGRS---IESVAAACIYAACRINGVPRTLDEIAKAL--GVSKKEIGRTYRLLVRE 184 (285)
T ss_pred HhCCCchHHHHHHHHHHHHhhcCCCcCCc---HHHHHHHHHHHHHHHcCCCccHHHHHHHH--CCCHHHHHHHHHHHHHh
Confidence 46788888888888888888888777777 99999999999999998876677776554 36789999999999999
Q ss_pred cCCcccCCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHh
Q 019748 149 LKWRMRSITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKA 228 (336)
Q Consensus 149 L~w~l~~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~ 228 (336)
|+=.+.+..|.+|+..|...|+.++ .....+.+++..+...-.-..-.|+-||+||||+|....+. ..-...
T Consensus 185 L~l~~~~~~p~~yi~rf~s~L~l~~-----~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~---~~tq~e 256 (285)
T COG1405 185 LKLKIPPVDPSDYIPRFASKLGLSD-----EVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGE---RRTQKE 256 (285)
T ss_pred cCCCCCCCCHHHHHHHHHHHcCCCH-----HHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCC---chHHHH
Confidence 9999999999999999999999873 34466777777776666667899999999999999988872 233567
Q ss_pred chhcCCCCHhhHHHHHHHHHHh
Q 019748 229 ISNCPYVNKENLLRCYNAMQDT 250 (336)
Q Consensus 229 L~~~~~~~~~~l~~C~~~l~~l 250 (336)
+..++|+++..|..=++.|.+.
T Consensus 257 va~v~~vtevTIrnrykel~~~ 278 (285)
T COG1405 257 VAKVAGVTEVTIRNRYKELADA 278 (285)
T ss_pred HHHHhCCeeeHHHHHHHHHHHh
Confidence 8888999999999999777663
No 18
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.32 E-value=4.4e-05 Score=70.65 Aligned_cols=170 Identities=18% Similarity=0.176 Sum_probs=130.2
Q ss_pred hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhcCCccCHHHHHHHHHHHHHH
Q 019748 69 SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADGGLIFDTQTIQRMECLILGA 148 (336)
Q Consensus 69 ~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~~~~~~~~~I~~mE~~IL~~ 148 (336)
..++.....-.|-.+|-++-..+...... ..-++.|||+||++-++..-.+.++.... ..++++|-+.=+.|+..
T Consensus 117 ~~~Lp~~I~d~A~~ifk~v~~~k~lrGks---~eai~AAclyiACRq~~~pRT~kEI~~~a--nv~kKEIgr~~K~i~~~ 191 (308)
T KOG1597|consen 117 RLSLPATIKDRANEIFKLVEDSKLLRGKS---VEALAAACLYIACRQEDVPRTFKEISAVA--NVSKKEIGRCVKLIGEA 191 (308)
T ss_pred HhCCchHHHHHHHHHHHHHHHhhhhcCcc---HHHHHHHHHHHHHHhcCCCchHHHHHHHH--cCCHHHHHHHHHHHHHH
Confidence 46778888888889999988776666666 99999999999999887654577776554 38899999999999999
Q ss_pred cCCcccCCC--hHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhh-CccHHHHHHHHHHHHHHHhCCCchhhh
Q 019748 149 LKWRMRSIT--PFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLI-EFKPSIIAASALLFASRELFPLQFHCF 225 (336)
Q Consensus 149 L~w~l~~~T--p~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l-~~~PS~iAaAal~~a~~~l~~~~~~~~ 225 (336)
|+=.+...| .-+|+.+|...+..+.. ....+.++...+ .+..+. .-.|=.||||+||++...... ..-
T Consensus 192 l~~s~~~~s~~t~~~m~RFCs~L~L~~~-----~q~aA~e~a~ka-~~~~~~~gRsPiSIAAa~IYmisqls~~---kkt 262 (308)
T KOG1597|consen 192 LETSVDLISISTGDFMPRFCSNLGLPKS-----AQEAATEIAEKA-EEMDIRAGRSPISIAAAAIYMISQLSDE---KKT 262 (308)
T ss_pred HhccchhhhhhHHHHHHHHHHhcCCCHH-----HHHHHHHHHHHH-HHhccccCCCchhHHHHHHHHHHHhccC---ccc
Confidence 998877766 88999999999988643 222333333322 233333 366888999999999987652 223
Q ss_pred HHhchhcCCCCHhhHHHHHHHHHHhhc
Q 019748 226 RKAISNCPYVNKENLLRCYNAMQDTSM 252 (336)
Q Consensus 226 ~~~L~~~~~~~~~~l~~C~~~l~~l~~ 252 (336)
.+.+..++|+.+.-|+.-|+.|-....
T Consensus 263 ~keI~~vtgVaE~TIr~sYK~Lyp~~~ 289 (308)
T KOG1597|consen 263 QKEIGEVTGVAEVTIRNSYKDLYPHAD 289 (308)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHhhchh
Confidence 567888899999999999999987553
No 19
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=98.30 E-value=4.6e-06 Score=62.79 Aligned_cols=85 Identities=22% Similarity=0.251 Sum_probs=71.3
Q ss_pred CCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCC
Q 019748 155 SITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPY 234 (336)
Q Consensus 155 ~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~ 234 (336)
.+++.+|+..+...++.+. .....+..+++..+....+..+.|+.||+|||++|.+..+. +.|.+.+..+++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~-----~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~---~~~~~~~~~~~~ 73 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP-----ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI---PPWLKDLVHVTG 73 (88)
T ss_pred cchHHHHHHHHHHHcCCCH-----HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC---CCCHHHHhHHhC
Confidence 5789999999999987653 34466777777777888888999999999999999998874 567888888899
Q ss_pred C-CHhhHHHHHHHH
Q 019748 235 V-NKENLLRCYNAM 247 (336)
Q Consensus 235 ~-~~~~l~~C~~~l 247 (336)
+ +.++|.+|.+.+
T Consensus 74 ~~~~~~i~~~e~~i 87 (88)
T cd00043 74 YATEEEILRMEKLL 87 (88)
T ss_pred CCCHHHHHHHHHHh
Confidence 9 999999998765
No 20
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=98.26 E-value=3.6e-06 Score=62.76 Aligned_cols=81 Identities=22% Similarity=0.269 Sum_probs=66.1
Q ss_pred HHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCC-CHh
Q 019748 160 TFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPYV-NKE 238 (336)
Q Consensus 160 ~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~-~~~ 238 (336)
+|+..+...++.+. .+...+..+++..+.+..+..++|+.||+||+++|.+..+.. .|.+.+..++|+ +++
T Consensus 1 ~~l~~~~~~~~~~~-----~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~---~~~~~~~~~~~~~~~~ 72 (83)
T smart00385 1 DFLRRVCKALNLDP-----ETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP---PWTKELVHYTGYFTEE 72 (83)
T ss_pred CHHHHHHHHcCCCH-----HHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC---CCchhHhHhhCCCCHH
Confidence 37778888877642 455677778888878888999999999999999999988742 477888888898 999
Q ss_pred hHHHHHHHHH
Q 019748 239 NLLRCYNAMQ 248 (336)
Q Consensus 239 ~l~~C~~~l~ 248 (336)
++.+|.+.|.
T Consensus 73 ~i~~~~~~il 82 (83)
T smart00385 73 EILRMEKLLL 82 (83)
T ss_pred HHHHHHHHHh
Confidence 9999998774
No 21
>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=98.24 E-value=8.9e-06 Score=69.33 Aligned_cols=91 Identities=16% Similarity=0.224 Sum_probs=64.1
Q ss_pred HHHHHHHhh--hcccChhHHHHHHHHHHHhhh---ccccCCCCcchhHHHHHHHHHHHHHhhccCcc-hhhhhhhcCCcc
Q 019748 60 RAVSSILQF--SCKFDPFLSYLAVNYMDRYLS---SQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFS-YTQFQADGGLIF 133 (336)
Q Consensus 60 ~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs---~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~p-l~dl~~~~~~~~ 133 (336)
.+.+|+.++ ..+++++++.+|..|+||+.. ...+.- .+....-+-++|+.+|+|+-+.... -..+...+ .+
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~-~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~--gi 129 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPL-NSSNIHRLFLTALILASKFLDDNTYSNKSWAKVG--GI 129 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT----STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHH--TS
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhccccccc-ccchhHHHHHHHHHHHHhhcccccccHHHHHhhc--CC
Confidence 377888888 458899999999999999998 222221 2333778899999999999776543 55565444 37
Q ss_pred CHHHHHHHHHHHHHHcCCcc
Q 019748 134 DTQTIQRMECLILGALKWRM 153 (336)
Q Consensus 134 ~~~~I~~mE~~IL~~L~w~l 153 (336)
+.+++-+||+..|..|+|+|
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 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.95 E-value=9.2e-06 Score=77.51 Aligned_cols=85 Identities=20% Similarity=0.330 Sum_probs=75.6
Q ss_pred hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcc-hhhhh--hhcCCccCHHHHHHHHHHH
Q 019748 69 SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFS-YTQFQ--ADGGLIFDTQTIQRMECLI 145 (336)
Q Consensus 69 ~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~p-l~dl~--~~~~~~~~~~~I~~mE~~I 145 (336)
.++++.-|+.+|-.||.....+..+.+.+ -.|.|.|||.||+||.+..-. +..|+ .++.+.+.+.+++..|.-|
T Consensus 395 d~~id~~TVa~AyVYFEKliLkglisK~N---RKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia~Ef~V 471 (497)
T KOG4164|consen 395 DCGIDVVTVAMAYVYFEKLILKGLISKQN---RKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIAFEFPV 471 (497)
T ss_pred ccCccceeehhHHHHHHHHHHhhhhhhhh---hhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhhhhhhH
Confidence 68899999999999999999999898888 999999999999999976654 77774 3446889999999999999
Q ss_pred HHHcCCcccCC
Q 019748 146 LGALKWRMRSI 156 (336)
Q Consensus 146 L~~L~w~l~~~ 156 (336)
|.+|+|.|+.|
T Consensus 472 lvaLefaL~~~ 482 (497)
T KOG4164|consen 472 LVALEFALHLP 482 (497)
T ss_pred HHhhhhhccCC
Confidence 99999999875
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.40 E-value=0.0014 Score=65.35 Aligned_cols=166 Identities=13% Similarity=0.108 Sum_probs=122.4
Q ss_pred hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhhhcCCccCHHHHHHHHHHHHHH
Q 019748 69 SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQADGGLIFDTQTIQRMECLILGA 148 (336)
Q Consensus 69 ~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~~~~~~~~~~~I~~mE~~IL~~ 148 (336)
.++++. .+-.|.++|---+...-.+... .+++-.+||+|++..|-+..-+-||...- ..+.-++-.+=+.|...
T Consensus 80 ~l~l~~-~~~~a~~~~k~a~~~nftkGr~---~~~vvasClY~vcR~e~t~hlliDfS~~L--qv~Vy~LG~~~l~l~~~ 153 (521)
T KOG1598|consen 80 RLNLGN-KTEVAFNFFKLAPDRNFTKGRR---STEVVAACLYLVCRLEKTDHLLIDFSSYL--QVSVYDLGSNFLEVTDS 153 (521)
T ss_pred hcCcch-HHHHHHHHHHHHhhCCCCCCcc---hHHHHHHHHHHHHHhhCCceEEEEeccce--EEehhhhhHHHHHHHHH
Confidence 457777 8899999999888888777777 99999999999999998876555552221 23344455555566666
Q ss_pred cCCc---ccCCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhh
Q 019748 149 LKWR---MRSITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCF 225 (336)
Q Consensus 149 L~w~---l~~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~ 225 (336)
|.=. +..+-|.-|+.+|...+...+.. +.++..+..++.....|.-...-+|+-|+-|||+.|.+..+- ..-
T Consensus 154 L~i~en~~plvDpsL~i~Rfa~~L~~g~~~--~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~---~rs 228 (521)
T KOG1598|consen 154 LSIGENVSPLVDPSLYIVRFSCRLLFGDKT--EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGF---RRT 228 (521)
T ss_pred hccccccccccCcceeeechhHhhhcCCch--HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCc---ccc
Confidence 7666 77889999999999998877654 578888899999888888889999999999999999998862 222
Q ss_pred HHhchhcCCCCHhhHHHHHH
Q 019748 226 RKAISNCPYVNKENLLRCYN 245 (336)
Q Consensus 226 ~~~L~~~~~~~~~~l~~C~~ 245 (336)
...|..+..+.+.-+..=+.
T Consensus 229 i~dIv~vvhV~e~Tl~kRl~ 248 (521)
T KOG1598|consen 229 IGDIAKVVHVCESTLSKRLK 248 (521)
T ss_pred HHHHHHHHHHhHHHHHHHHH
Confidence 23344444444444443333
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=95.53 E-value=0.061 Score=39.54 Aligned_cols=71 Identities=24% Similarity=0.184 Sum_probs=47.5
Q ss_pred HHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCCCHhhH
Q 019748 162 LSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPYVNKENL 240 (336)
Q Consensus 162 l~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~~~~~l 240 (336)
|..|...++.++ .+.+.+.++...+....-.-+-+|..|||||||+|.+..+.. .-...+...+|+++.+|
T Consensus 1 I~r~~~~L~L~~-----~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~---~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSKLGLPE-----DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVP---RTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHTT--H-----HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSS---SSHHHHHHHCTSSHHHH
T ss_pred ChHHHhHcCCCH-----HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCC---cCHHHHHHHhCCCCCcC
Confidence 345666666642 566777777776655444556789999999999999988642 23456777788877654
No 25
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=94.89 E-value=0.23 Score=36.42 Aligned_cols=56 Identities=9% Similarity=0.094 Sum_probs=44.8
Q ss_pred hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchhhhhh
Q 019748 69 SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYTQFQA 127 (336)
Q Consensus 69 ~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~dl~~ 127 (336)
.++++..+.-.|..++++-....-....+ ..-++++|+++|++......++.++..
T Consensus 7 ~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~---~~~iaAA~iY~acr~~~~~~t~~eIa~ 62 (71)
T PF00382_consen 7 KLGLPEDVRERAKEIYKKAQERGLLKGRS---PESIAAACIYLACRLNGVPRTLKEIAE 62 (71)
T ss_dssp HTT--HHHHHHHHHHHHHHHHTTTSTTS----HHHHHHHHHHHHHHHTTSSSSHHHHHH
T ss_pred HcCCCHHHHHHHHHHHHHHHHcCCcccCC---HHHHHHHHHHHHHHHcCCCcCHHHHHH
Confidence 56888899999999999888777666666 899999999999999988877777743
No 26
>KOG1674 consensus Cyclin [General function prediction only]
Probab=93.50 E-value=0.29 Score=44.40 Aligned_cols=86 Identities=20% Similarity=0.301 Sum_probs=61.9
Q ss_pred hcccChhHHHHHHHHHHHhhhccccCCCCcc------h-hHHHHHHHHHHHHHhhccCcc-hhhhhhhcCCccCHHHHHH
Q 019748 69 SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPW------K-LRLLAVSCFSLAAKMRQIEFS-YTQFQADGGLIFDTQTIQR 140 (336)
Q Consensus 69 ~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~------~-lqLlavaCL~lAsK~eE~~~p-l~dl~~~~~~~~~~~~I~~ 140 (336)
+.+.+++++.+|..|||||....+....+|| + ..-+-++|+.+|+|+.+...- -.-+...+ ..+.+++-.
T Consensus 88 ~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vg--gl~~~eln~ 165 (218)
T KOG1674|consen 88 YSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVG--GLTTDELNK 165 (218)
T ss_pred HhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhC--CCChHhhhh
Confidence 3467999999999999999997431111111 1 334678999999999876422 12223333 468888999
Q ss_pred HHHHHHHHcCCcccCC
Q 019748 141 MECLILGALKWRMRSI 156 (336)
Q Consensus 141 mE~~IL~~L~w~l~~~ 156 (336)
+|...|..++|++.+.
T Consensus 166 lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 166 LELDLLFLLDFRLIIS 181 (218)
T ss_pred hhHHHHhhCCeEEEec
Confidence 9999999999999985
No 27
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=93.28 E-value=0.54 Score=44.87 Aligned_cols=87 Identities=17% Similarity=0.121 Sum_probs=65.1
Q ss_pred ChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCCC
Q 019748 157 TPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCPYVN 236 (336)
Q Consensus 157 Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~~ 236 (336)
..+..|..+...++.++ .+...+..+...+.....+-....-.+||||||+|.+..+. |.-...+..+++++
T Consensus 124 ~a~~~I~~~~~~L~Lp~-----~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~---prtl~eI~~~~~v~ 195 (310)
T PRK00423 124 FALSELDRIASQLGLPR-----SVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKV---PRTLDEIAEVSRVS 195 (310)
T ss_pred HHHHHHHHHHHHcCCCH-----HHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCC---CcCHHHHHHHhCCC
Confidence 34556777777777753 45566777766655444456788899999999999998763 33456678889999
Q ss_pred HhhHHHHHHHHHHhh
Q 019748 237 KENLLRCYNAMQDTS 251 (336)
Q Consensus 237 ~~~l~~C~~~l~~l~ 251 (336)
+.+|..+++.|.+..
T Consensus 196 ~k~i~~~~~~l~k~L 210 (310)
T PRK00423 196 RKEIGRCYRFLLREL 210 (310)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999998854
No 28
>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=90.10 E-value=2.6 Score=32.36 Aligned_cols=91 Identities=15% Similarity=0.146 Sum_probs=57.8
Q ss_pred hHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHH-HHHHHHHHhCCC--chhhhHHhchhcCC
Q 019748 158 PFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAAS-ALLFASRELFPL--QFHCFRKAISNCPY 234 (336)
Q Consensus 158 p~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaA-al~~a~~~l~~~--~~~~~~~~L~~~~~ 234 (336)
|.+-+...+-+.....+.+ ..+.....+++..++.|..--..+||.||+| |-+++....-|. +.....++|....|
T Consensus 4 ~TD~~~~~L~K~~~~~e~L-~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~~~~~~~~~LA~~~G 82 (106)
T PF09080_consen 4 PTDAIGPLLFKSGFTKEQL-FAWHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDTHSGGVVPQLAEALG 82 (106)
T ss_dssp CHHHHHHHHHHHS-SSTTH-HHHHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------HHHHHHHHHT
T ss_pred ccccccHHHHHHcccHHHH-HHHHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCccccccchHHHHHHhC
Confidence 4455555555555444333 4677888899999999999999999999998 777666555432 12234567888889
Q ss_pred CCHhhHHHHHHHHHH
Q 019748 235 VNKENLLRCYNAMQD 249 (336)
Q Consensus 235 ~~~~~l~~C~~~l~~ 249 (336)
.+..-+....+.+..
T Consensus 83 ~~~a~L~AA~E~v~T 97 (106)
T PF09080_consen 83 VSAATLQAAAESVAT 97 (106)
T ss_dssp --HHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHH
Confidence 988887777766654
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=83.84 E-value=7.8 Score=30.37 Aligned_cols=72 Identities=21% Similarity=0.165 Sum_probs=47.7
Q ss_pred ChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcch-hhhhhhcCCccCHHHHHHHHHHHHHHc
Q 019748 73 DPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSY-TQFQADGGLIFDTQTIQRMECLILGAL 149 (336)
Q Consensus 73 ~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl-~dl~~~~~~~~~~~~I~~mE~~IL~~L 149 (336)
+.++..+|-.+++-.+....+-.-+ .-++|++|+++|.++-....+. ..+.... .++.++|..+=..|.+.+
T Consensus 17 ~~~~~~~a~~l~el~l~~~~fl~~~---PS~iAaAai~lA~~~~~~~~~~~~~l~~~t--~~~~~~l~~c~~~i~~~~ 89 (118)
T PF02984_consen 17 DQEVRNLARYLLELSLLDYEFLQYP---PSVIAAAAILLARKILGKEPPWPESLEKLT--GYDKEDLKECIELIQELL 89 (118)
T ss_dssp HHHHHHHHHHHHHHHHHSHHHTTS----HHHHHHHHHHHHHHHHHSSTCSHHHHHHHH--TS-HHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHhhccccCCC---HHHHHHHHHHHHHHHhCccccCCccchhhc--CCCHHHHHHHHHHHHHHH
Confidence 5567788888888777766666666 8899999999999997643343 2343333 357777776655544443
No 30
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=80.92 E-value=13 Score=35.08 Aligned_cols=101 Identities=20% Similarity=0.169 Sum_probs=66.9
Q ss_pred HHHHHHHcCCcccCC--------ChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhC-ccHHHHHHHHHHH
Q 019748 142 ECLILGALKWRMRSI--------TPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIE-FKPSIIAASALLF 212 (336)
Q Consensus 142 E~~IL~~L~w~l~~~--------Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~-~~PS~iAaAal~~ 212 (336)
+..-|+..+.+.... +....|..+...++.+. .+...+..+...+ .+..++. -+...++|||++.
T Consensus 76 ~~~rlr~~~~~~~v~~~~ernl~~a~~~l~~~~~~l~LP~-----~v~e~A~~iyr~a-~~~~l~rGRsie~v~AA~iY~ 149 (285)
T COG1405 76 KMYRLRKWQIRIRVSSAKERNLITALEELERIASALGLPE-----SVRETAARIYRKA-VDKGLLRGRSIESVAAACIYA 149 (285)
T ss_pred HHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHhCCCc-----hHHHHHHHHHHHH-hhcCCCcCCcHHHHHHHHHHH
Confidence 444555555445554 55566777777776653 2334444444433 4666655 4477889999999
Q ss_pred HHHHhCCCchhhhHHhchhcCCCCHhhHHHHHHHHHHhh
Q 019748 213 ASRELFPLQFHCFRKAISNCPYVNKENLLRCYNAMQDTS 251 (336)
Q Consensus 213 a~~~l~~~~~~~~~~~L~~~~~~~~~~l~~C~~~l~~l~ 251 (336)
|.+..+. |.-.+.+...+++++.++..+++.|.+..
T Consensus 150 acR~~~~---prtl~eIa~a~~V~~kei~rtyr~~~~~L 185 (285)
T COG1405 150 ACRINGV---PRTLDEIAKALGVSKKEIGRTYRLLVREL 185 (285)
T ss_pred HHHHcCC---CccHHHHHHHHCCCHHHHHHHHHHHHHhc
Confidence 9988763 33456677788999999999999887744
No 31
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=77.34 E-value=17 Score=34.23 Aligned_cols=84 Identities=25% Similarity=0.280 Sum_probs=54.8
Q ss_pred HHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhC-ccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcCCCCH
Q 019748 159 FTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIE-FKPSIIAASALLFASRELFPLQFHCFRKAISNCPYVNK 237 (336)
Q Consensus 159 ~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~-~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~~~~~ 237 (336)
+.-+..+...++.. ..+..++.++.... .+...+. -.--.||||||+.|.+..+. |.-.+.+..+.++++
T Consensus 108 ~~~I~~m~d~~~Lp-----~~I~d~A~~ifk~v-~~~k~lrGks~eai~AAclyiACRq~~~---pRT~kEI~~~anv~k 178 (308)
T KOG1597|consen 108 FKEITAMCDRLSLP-----ATIKDRANEIFKLV-EDSKLLRGKSVEALAAACLYIACRQEDV---PRTFKEISAVANVSK 178 (308)
T ss_pred HHHHHHHHHHhCCc-----hHHHHHHHHHHHHH-HHhhhhcCccHHHHHHHHHHHHHHhcCC---CchHHHHHHHHcCCH
Confidence 33444555555543 23445555554432 3555554 34456899999999998763 333566778889999
Q ss_pred hhHHHHHHHHHHhh
Q 019748 238 ENLLRCYNAMQDTS 251 (336)
Q Consensus 238 ~~l~~C~~~l~~l~ 251 (336)
.+|.+|++.|.+-.
T Consensus 179 KEIgr~~K~i~~~l 192 (308)
T KOG1597|consen 179 KEIGRCVKLIGEAL 192 (308)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999998743
No 32
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=75.08 E-value=3.5 Score=39.57 Aligned_cols=87 Identities=16% Similarity=0.148 Sum_probs=53.0
Q ss_pred HHHHHHHHHhh--hcccChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcchh-hh--hhhcCCc
Q 019748 58 RSRAVSSILQF--SCKFDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFSYT-QF--QADGGLI 132 (336)
Q Consensus 58 R~~~vdWi~~v--~~~~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~pl~-dl--~~~~~~~ 132 (336)
-.-+++|+..+ ..++.......|.+++-..+...-.-+-+ .+-||++||+||+|+-....|+. +- -..-.-.
T Consensus 152 y~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~---p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~ 228 (323)
T KOG0834|consen 152 YKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYS---PHSIAVACIHLAAKLLGVELPSDTDKRWWREFDET 228 (323)
T ss_pred hHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeec---CcEEEeehhhHHHHHcCCCCCCCcccchhhhhccc
Confidence 34556666655 22333456667777776666555444455 77899999999999988876642 22 1111113
Q ss_pred cCHHHHHHHHHHHHH
Q 019748 133 FDTQTIQRMECLILG 147 (336)
Q Consensus 133 ~~~~~I~~mE~~IL~ 147 (336)
.+.+.+.++...+|.
T Consensus 229 vt~e~l~~i~~~~l~ 243 (323)
T KOG0834|consen 229 VTNELLDDICHEFLD 243 (323)
T ss_pred CCHHHHHHHHHHHHH
Confidence 667777776555443
No 33
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=74.49 E-value=17 Score=34.91 Aligned_cols=62 Identities=19% Similarity=0.240 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHHHhhccCcc-hhhhhhhcCCccCHHHHHHHH
Q 019748 76 LSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAAKMRQIEFS-YTQFQADGGLIFDTQTIQRME 142 (336)
Q Consensus 76 T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAsK~eE~~~p-l~dl~~~~~~~~~~~~I~~mE 142 (336)
.+..|-||+.--+-..-+-+.. .-+||++|.+|||..+|+..| ....-.. +.++..+|...=
T Consensus 160 l~Q~~wNfmNDslRT~v~vry~---pe~iACaciyLaAR~~eIpLp~~P~Wf~~--Fd~~k~eid~ic 222 (367)
T KOG0835|consen 160 LLQAAWNFMNDSLRTDVFVRYS---PESIACACIYLAARNLEIPLPFQPHWFKA--FDTTKREIDEIC 222 (367)
T ss_pred HHHHHHHhhhhccccceeeecC---HHHHHHHHHHHHHhhhcCCCCCCccHHHH--cCCcHHHHHHHH
Confidence 3555556665554444445555 779999999999999996555 3333222 246777776543
No 34
>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=66.21 E-value=52 Score=26.04 Aligned_cols=66 Identities=14% Similarity=-0.004 Sum_probs=40.2
Q ss_pred HHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhcC--CCCHhhHHHHHHHHHH
Q 019748 182 TRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNCP--YVNKENLLRCYNAMQD 249 (336)
Q Consensus 182 ~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~~--~~~~~~l~~C~~~l~~ 249 (336)
..+..+++.-+.........+..+|+||+++|.+..+. .+.+...+..+. .++.+++...-..+.+
T Consensus 53 ~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~--~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~ 120 (127)
T PF00134_consen 53 HLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEED--NPPSISDLIRISDNTFTKKDILEMEREILS 120 (127)
T ss_dssp HHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTS--S--HHHHHHHHTTTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcc--ccchHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 34444445444555577788899999999999998764 122233333333 4677777766555554
No 35
>PF09241 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: IPR015322 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry represents a domain found in a family of viral cyclins that specifically activate CDK6 of host cells to a very high degree []. This domain adopts a helical structure consisting of five alpha-helices, with one helix surrounded by the others.; PDB: 1XO2_A 1JOW_A 2F2C_A 2EUF_A 1BU2_A.
Probab=65.01 E-value=60 Score=24.72 Aligned_cols=91 Identities=16% Similarity=0.205 Sum_probs=65.3
Q ss_pred hHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhCC--CchhhhHHhchhcCCC
Q 019748 158 PFTFLSFFISLFKLKDLTVQRALKTRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELFP--LQFHCFRKAISNCPYV 235 (336)
Q Consensus 158 p~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~~--~~~~~~~~~L~~~~~~ 235 (336)
..+|+-...+.+.... +++.++.+.+..-+..++........+|..|.|+.++..++.-+. ..|..+.+.|..++++
T Consensus 4 ~tdflip~c~alkipe-~~wpql~e~~s~tickaliqpniall~p~licaggllttiet~ntn~~~wt~yledl~~ilnf 82 (106)
T PF09241_consen 4 STDFLIPVCHALKIPE-DFWPQLFEATSITICKALIQPNIALLPPCLICAGGLLTTIETDNTNCQPWTCYLEDLSCILNF 82 (106)
T ss_dssp GGGGHHHHHHHTT--G-GGHHHHHHHHHHHHHHHTTSGGGGGS-HHHHHHHHHHHHHHTS-TSSSTCHHHHHHHHHHHTC
T ss_pred hhhhHHHhhhhccCcH-HHhHHHHHHHHHHHHHHHcCCCccccCcceeecccceEEEeccCCCCcchhhhHHhhHHHhhc
Confidence 4567777777777653 456677777777777788888888899999999999998876543 2456677777777888
Q ss_pred CHhhHHHHHHHHHH
Q 019748 236 NKENLLRCYNAMQD 249 (336)
Q Consensus 236 ~~~~l~~C~~~l~~ 249 (336)
+...++-.-..+.+
T Consensus 83 stntirt~kdqv~e 96 (106)
T PF09241_consen 83 STNTIRTVKDQVSE 96 (106)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred ccchhhhHHHHHHH
Confidence 88777766666655
No 36
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=60.54 E-value=13 Score=35.27 Aligned_cols=92 Identities=11% Similarity=0.134 Sum_probs=57.1
Q ss_pred cChhHHHHHHHHHHHhhhccccC-CCCcchhHHHHHHHHHHHHHhhccCcc-hhhhhhhcCCccCHHHHHHHHHHHHHHc
Q 019748 72 FDPFLSYLAVNYMDRYLSSQEMP-QPKPWKLRLLAVSCFSLAAKMRQIEFS-YTQFQADGGLIFDTQTIQRMECLILGAL 149 (336)
Q Consensus 72 ~~~~T~~lAv~~lDRfLs~~~v~-~~~~~~lqLlavaCL~lAsK~eE~~~p-l~dl~~~~~~~~~~~~I~~mE~~IL~~L 149 (336)
+..+.......|++|-+...... ...+ ...+.....++|+|+-....- --|.+..- ..-+.+++..||+.+|..|
T Consensus 206 lta~~aiitL~~~erl~~~~e~~~~p~~--w~r~~~g~il~sskv~~dqs~wnvdycqIl-Kd~tveDmNe~ERqfLelL 282 (343)
T KOG1675|consen 206 LTAECDIITLVYAERLLWLAERDPCPRN--WSRAVLGEILLSSKVYDDQSVWNVDYCEIL-KDQSVDDMNALERQFLELL 282 (343)
T ss_pred hhhccchHHHHhhHhhhhHhhcCCCcch--hhhhhhhhheehhhhhhhhhcccHHHHHHH-hhccHhhHHHHHHHHHHHH
Confidence 33444445567888876655433 2333 344444468999998765422 11221111 1357899999999999999
Q ss_pred CCcccCCChHHHHHHHHH
Q 019748 150 KWRMRSITPFTFLSFFIS 167 (336)
Q Consensus 150 ~w~l~~~Tp~~Fl~~~l~ 167 (336)
+|++++|..- |..+|..
T Consensus 283 qfNinvp~sv-YAKyYfd 299 (343)
T KOG1675|consen 283 QFNINVPSSE-YAKYYFD 299 (343)
T ss_pred hhccCccHHH-HHHHHHH
Confidence 9999998654 4555544
No 37
>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=49.83 E-value=52 Score=31.80 Aligned_cols=30 Identities=17% Similarity=0.480 Sum_probs=20.7
Q ss_pred hhHHHHHHHHHHHHHhh--ccCcchhhhhhhc
Q 019748 100 KLRLLAVSCFSLAAKMR--QIEFSYTQFQADG 129 (336)
Q Consensus 100 ~lqLlavaCL~lAsK~e--E~~~pl~dl~~~~ 129 (336)
.+|-+.++||+||--|- |+-.|+.-|.++.
T Consensus 271 ~l~~~~l~cly~sysy~gneisyplkpflv~~ 302 (346)
T PF03261_consen 271 ELQAIVLTCLYLSYSYMGNEISYPLKPFLVEE 302 (346)
T ss_dssp HHHHHHHHHHHHHHHHH-SSS---SGGG--SS
T ss_pred HHHHHHHHHHHHHhhhcCcccccccCCeeecc
Confidence 39999999999998885 5556888886654
No 38
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=47.04 E-value=1.4e+02 Score=28.54 Aligned_cols=37 Identities=16% Similarity=0.231 Sum_probs=27.2
Q ss_pred HHHHHHHHHHhcchhhhCccHHHHHHHHHHHHHHHhC
Q 019748 182 TRASEVIFQAQIDIKLIEFKPSIIAASALLFASRELF 218 (336)
Q Consensus 182 ~~~~~l~~~~l~d~~~l~~~PS~iAaAal~~a~~~l~ 218 (336)
..+..+...-.....+..|.|-.||++||++|.+.-+
T Consensus 80 aTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE 116 (305)
T TIGR00569 80 GTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEE 116 (305)
T ss_pred HHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccc
Confidence 3344444444456677889999999999999998765
No 39
>cd04443 DEP_GPR155 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in GPR155-like proteins. GRP155-like proteins, also known as PGR22, contain an N-terminal permease domain, a central transmembrane region and a C-terminal DEP domain. They are orphan receptors of the class B G protein-coupled receptors. Their function is unknown.
Probab=31.66 E-value=58 Score=24.76 Aligned_cols=29 Identities=7% Similarity=-0.035 Sum_probs=20.1
Q ss_pred HHHHHHHHHhhhc-ccChhHHHHHHHHHHH
Q 019748 58 RSRAVSSILQFSC-KFDPFLSYLAVNYMDR 86 (336)
Q Consensus 58 R~~~vdWi~~v~~-~~~~~T~~lAv~~lDR 86 (336)
=.++||||++... .=..+.+.+|-.++|.
T Consensus 33 GselVdWL~~~~~~~sR~eAv~lg~~Ll~~ 62 (83)
T cd04443 33 GCDLVSWLIEVGLAQDRGEAVLYGRRLLQG 62 (83)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence 4689999998733 3345777777777764
No 40
>KOG3932 consensus CDK5 kinase activator p35/Nck5a [Cell cycle control, cell division, chromosome partitioning]
Probab=29.02 E-value=1e+02 Score=29.04 Aligned_cols=108 Identities=15% Similarity=0.194 Sum_probs=57.0
Q ss_pred HHHHHHHHhhh-----cccChhHHHHHHHHHHHhhhccccCCC----CcchhHHHHHHHHHHHHHhh--ccCcchhhhhh
Q 019748 59 SRAVSSILQFS-----CKFDPFLSYLAVNYMDRYLSSQEMPQP----KPWKLRLLAVSCFSLAAKMR--QIEFSYTQFQA 127 (336)
Q Consensus 59 ~~~vdWi~~v~-----~~~~~~T~~lAv~~lDRfLs~~~v~~~----~~~~lqLlavaCL~lAsK~e--E~~~pl~dl~~ 127 (336)
..+|-|+.-|. .+-....+..-.|++=-||....+-.+ +.-.||-.-++||+|+--|- |+..|+.-|.+
T Consensus 223 gd~V~WlRsVDRSLLLQGWQD~aFInPANlVFvylLvRdvlsg~e~~s~~eLqA~~LtCLYlsYSYMGNEISYPLKPFLV 302 (357)
T KOG3932|consen 223 GDLVTWLRSVDRSLLLQGWQDQAFINPANLVFVYLLVRDVLSGEEIHSLEELQAWILTCLYLSYSYMGNEISYPLKPFLV 302 (357)
T ss_pred cchhHHHHhhhHHHHhhhccccccccchheehhhhhHHhhcCchhhccHHHHHHHHHHHHHHHHHhhcccccccccceee
Confidence 45777887771 133333333333333334433332111 12239999999999998874 56678888766
Q ss_pred hcCCccCHHHHHHHHHHHHHHcCCccc--CCChHHHHHHHHHHcc
Q 019748 128 DGGLIFDTQTIQRMECLILGALKWRMR--SITPFTFLSFFISLFK 170 (336)
Q Consensus 128 ~~~~~~~~~~I~~mE~~IL~~L~w~l~--~~Tp~~Fl~~~l~~~~ 170 (336)
+.. ++.+-+-=+.|.+.|.=+|- -..|..|-+.|...-+
T Consensus 303 e~d----ke~FWdRCl~~vn~lS~qML~lNadp~fFteVFtdLK~ 343 (357)
T KOG3932|consen 303 END----KETFWDRCLAMVNSLSRQMLLLNADPHFFTEVFTDLKN 343 (357)
T ss_pred ccc----HHHHHHHHHHHHHHhhHHHhhhcCCCchHHHHHHHhhh
Confidence 542 33333333333333333332 2356666666655433
No 41
>cd04447 DEP_BRCC3 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in BBRC3-like proteins. BBRC3, also known as DEPDC1B, is a DEP containing protein of unknown function.
Probab=26.90 E-value=83 Score=24.53 Aligned_cols=38 Identities=16% Similarity=0.294 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhh---hccc-ChhHHHHHHHHHHHhhhccccC
Q 019748 57 LRSRAVSSILQF---SCKF-DPFLSYLAVNYMDRYLSSQEMP 94 (336)
Q Consensus 57 ~R~~~vdWi~~v---~~~~-~~~T~~lAv~~lDRfLs~~~v~ 94 (336)
.=.++||||.+. +-.| +.-|-..||.++.+|+...-+.
T Consensus 31 ~gsEAVDwL~~~l~~n~~fg~~vtR~~av~l~qkll~~hVie 72 (92)
T cd04447 31 TASEAVDWLHELLRSNSNFGPEVTRQQTVQLLKKFLKNHVIE 72 (92)
T ss_pred chHHHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHcCCch
Confidence 346899999988 3456 4458889999999999877654
No 42
>cd04439 DEP_1_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and by the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=25.90 E-value=84 Score=23.74 Aligned_cols=29 Identities=14% Similarity=0.009 Sum_probs=19.7
Q ss_pred HHHHHHHHHhhhc-ccChhHHHHHHHHHHH
Q 019748 58 RSRAVSSILQFSC-KFDPFLSYLAVNYMDR 86 (336)
Q Consensus 58 R~~~vdWi~~v~~-~~~~~T~~lAv~~lDR 86 (336)
=.++|+||++... .-..+.+.++-.++|.
T Consensus 31 GselVdWL~~~~~~~~r~eAv~lg~~Ll~~ 60 (81)
T cd04439 31 GNEFVSWLLEIGEISKPEEGVNLGQALLEN 60 (81)
T ss_pred hHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence 4689999998732 2234777777777664
No 43
>cd04441 DEP_2_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=23.94 E-value=94 Score=23.80 Aligned_cols=29 Identities=14% Similarity=0.053 Sum_probs=19.1
Q ss_pred HHHHHHHHHhhh-cccChhHHHHHHHHHHH
Q 019748 58 RSRAVSSILQFS-CKFDPFLSYLAVNYMDR 86 (336)
Q Consensus 58 R~~~vdWi~~v~-~~~~~~T~~lAv~~lDR 86 (336)
=.++||||++.. ..-..+++.++-.++|.
T Consensus 35 GsElVdWL~~~~~~~sR~eAv~lgq~Ll~~ 64 (85)
T cd04441 35 GSEFIDWLLQEGEAESRREAVQLCRRLLEH 64 (85)
T ss_pred chHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence 468999999873 23355566666666654
No 44
>cd04448 DEP_PIKfyve DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGEF (GDP/GTP exchange factor) PIKfyve-like proteins. PIKfyve contains N-terminal Fyve finger and DEP domains, a central chaperonin-like domain and a C-terminal PIPK (phosphatidylinositol phosphate kinase) domain. PIKfyve-like proteins are important phosphatidylinositol (3)-monophosphate (PtdIns(3)P)-5-kinases, producing PtdIns(3,5)P2, which plays a major role in multivesicular body (MVB) sorting and control of retrograde traffic from the vacuole back to the endosome and/or Golgi. PIKfyve itself has been shown to be play a role in regulating early-endosome-to-trans-Golgi network (TGN) retrograde trafficking.
Probab=22.87 E-value=1e+02 Score=23.18 Aligned_cols=30 Identities=10% Similarity=0.053 Sum_probs=20.8
Q ss_pred HHHHHHHHHHhhh-cccChhHHHHHHHHHHH
Q 019748 57 LRSRAVSSILQFS-CKFDPFLSYLAVNYMDR 86 (336)
Q Consensus 57 ~R~~~vdWi~~v~-~~~~~~T~~lAv~~lDR 86 (336)
.=.++||||++-. ..-..+.+.++-.++|.
T Consensus 30 ~GselVdWL~~~~~~~~R~eAv~~gq~Ll~~ 60 (81)
T cd04448 30 LGKELVNWLIRQGKAATRVQAIAIGQALLDA 60 (81)
T ss_pred ChHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence 3568999999873 23345777777777775
No 45
>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=22.63 E-value=4.5e+02 Score=21.83 Aligned_cols=93 Identities=16% Similarity=0.035 Sum_probs=46.2
Q ss_pred cCCChHHHHHHHHHHccCCChHHHHHHHHHHHHHHHH-HhcchhhhCccHHHHHHHHHHHHHHHhCCCchhhhHHhchhc
Q 019748 154 RSITPFTFLSFFISLFKLKDLTVQRALKTRASEVIFQ-AQIDIKLIEFKPSIIAASALLFASRELFPLQFHCFRKAISNC 232 (336)
Q Consensus 154 ~~~Tp~~Fl~~~l~~~~~~~~~~~~~l~~~~~~l~~~-~l~d~~~l~~~PS~iAaAal~~a~~~l~~~~~~~~~~~L~~~ 232 (336)
..++-.+|+..+++.......-..-. .-|...+... .......-....--+=++|+.+|.+.+... ..+......+
T Consensus 50 p~i~i~~fl~ri~~~~~~s~~~~i~a-liYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~--~~~n~~~a~v 126 (149)
T PF08613_consen 50 PSISIRDFLSRILKYTQCSPECLILA-LIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDN--TYSNKSWAKV 126 (149)
T ss_dssp -SS-HHHHHHHHHHHTT--HHHHHHH-HHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS-----HHHHHHH
T ss_pred CCCcHHHHHHHHHHHcCCChHHHHHH-HHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccc--cccHHHHHhh
Confidence 34556678888887766543221111 1122233220 111222334556678888999999998732 3345555667
Q ss_pred CCCCHhhHHHHHHHHHH
Q 019748 233 PYVNKENLLRCYNAMQD 249 (336)
Q Consensus 233 ~~~~~~~l~~C~~~l~~ 249 (336)
+|++..++..--.....
T Consensus 127 ~gis~~eln~lE~~fL~ 143 (149)
T PF08613_consen 127 GGISLKELNELEREFLK 143 (149)
T ss_dssp HTS-HHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHH
Confidence 89998888765444433
No 46
>cd04442 DEP_1_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=21.41 E-value=1.1e+02 Score=23.13 Aligned_cols=29 Identities=3% Similarity=0.001 Sum_probs=18.2
Q ss_pred HHHHHHHHHhhhc-ccChhHHHHHHHHHHH
Q 019748 58 RSRAVSSILQFSC-KFDPFLSYLAVNYMDR 86 (336)
Q Consensus 58 R~~~vdWi~~v~~-~~~~~T~~lAv~~lDR 86 (336)
=.++||||++... .-..+++.++-.++|.
T Consensus 31 GselVdWL~~~~~~~sR~eAv~lgq~Ll~~ 60 (82)
T cd04442 31 GKELIDWLIEHKEASDRETAIKIMQKLLDH 60 (82)
T ss_pred cHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence 4689999998732 2345555555555553
No 47
>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=20.41 E-value=1.6e+02 Score=23.91 Aligned_cols=38 Identities=29% Similarity=0.384 Sum_probs=29.6
Q ss_pred cChhHHHHHHHHHHHhhhccccCCCCcchhHHHHHHHHHHHH
Q 019748 72 FDPFLSYLAVNYMDRYLSSQEMPQPKPWKLRLLAVSCFSLAA 113 (336)
Q Consensus 72 ~~~~T~~lAv~~lDRfLs~~~v~~~~~~~lqLlavaCL~lAs 113 (336)
|.--++.+|++-+..-+..+..+.+ +-++|.+|+++-.
T Consensus 39 FPlIaLvLavy~LyQ~Yl~~~m~eg----~P~~a~acFflG~ 76 (117)
T PF07226_consen 39 FPLIALVLAVYCLYQRYLNHPMPEG----TPKLALACFFLGL 76 (117)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCC----ChHHHHHHHHHHH
Confidence 3777899999887776666666665 7789999999864
Done!