Query 028177
Match_columns 212
No_of_seqs 26 out of 28
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 07:27:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028177.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028177hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0653 Cyclin B and related k 99.9 8.6E-26 1.9E-30 203.3 8.8 162 7-199 157-320 (391)
2 COG5024 Cyclin [Cell division 99.8 3.6E-21 7.8E-26 179.3 6.6 157 7-196 212-371 (440)
3 KOG0655 G1/S-specific cyclin E 99.8 3.1E-21 6.7E-26 177.4 5.6 162 7-193 144-312 (408)
4 PF00134 Cyclin_N: Cyclin, N-t 99.8 9.8E-21 2.1E-25 139.2 6.2 98 7-126 30-127 (127)
5 KOG0654 G2/Mitotic-specific cy 99.8 7.6E-20 1.6E-24 167.1 5.6 155 8-192 137-293 (359)
6 KOG0656 G1/S-specific cyclin D 99.8 3.1E-18 6.8E-23 155.4 10.4 154 8-188 78-236 (335)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.5 2.8E-13 6.2E-18 120.7 10.1 169 7-199 55-230 (305)
8 cd00043 CYCLIN Cyclin box fold 99.3 2.2E-12 4.8E-17 86.3 4.7 87 8-118 2-88 (88)
9 smart00385 CYCLIN domain prese 99.1 5.7E-11 1.2E-15 79.0 3.7 83 13-119 1-83 (83)
10 KOG0834 CDK9 kinase-activating 98.6 3.9E-07 8.4E-12 83.0 9.7 173 6-208 37-224 (323)
11 PF08613 Cyclin: Cyclin; Inte 98.2 1.4E-06 3E-11 69.3 4.4 94 11-125 54-149 (149)
12 COG5333 CCL1 Cdk activating ki 98.0 1.6E-05 3.4E-10 72.4 7.5 156 12-192 49-207 (297)
13 PRK00423 tfb transcription ini 97.4 0.002 4.4E-08 57.2 11.5 151 12-195 126-277 (310)
14 KOG0794 CDK8 kinase-activating 96.8 0.00039 8.5E-09 62.7 0.7 153 15-192 48-209 (264)
15 KOG2496 Cdk activating kinase 94.8 0.022 4.7E-07 53.0 2.7 147 32-187 63-218 (325)
16 KOG0835 Cyclin L [General func 88.4 0.58 1.2E-05 44.4 4.0 107 12-138 27-148 (367)
17 KOG1674 Cyclin [General functi 81.9 4 8.7E-05 35.4 5.9 113 12-139 79-192 (218)
18 KOG1675 Predicted cyclin [Gene 81.2 1.2 2.7E-05 42.0 2.7 58 64-127 231-288 (343)
19 COG1405 SUA7 Transcription ini 74.1 33 0.00072 31.2 9.6 116 66-197 138-254 (285)
20 PF02984 Cyclin_C: Cyclin, C-t 73.5 3.3 7.2E-05 29.7 2.5 55 129-191 1-56 (118)
21 cd08203 SAM_PNT Sterile alpha 58.6 7.8 0.00017 27.8 2.0 23 4-26 3-25 (66)
22 cd08757 SAM_PNT_ESE Sterile al 56.9 8.3 0.00018 28.0 1.9 23 4-26 3-25 (68)
23 cd08536 SAM_PNT-Mae Sterile al 56.4 8.4 0.00018 28.1 1.9 24 4-27 3-26 (66)
24 cd08535 SAM_PNT-Tel_Yan Steril 55.5 9.3 0.0002 28.1 2.0 26 3-28 3-28 (68)
25 smart00251 SAM_PNT SAM / Point 53.9 10 0.00022 28.5 2.0 24 4-27 18-41 (82)
26 cd08531 SAM_PNT-ERG_FLI-1 Ster 53.0 11 0.00023 28.3 2.0 23 4-26 6-28 (75)
27 KOG1597 Transcription initiati 52.6 1.3E+02 0.0028 28.5 9.3 107 62-184 141-249 (308)
28 cd08534 SAM_PNT-GABP-alpha Ste 51.6 11 0.00024 29.1 2.0 24 4-27 20-43 (89)
29 KOG4164 Cyclin ik3-1/CABLES [C 51.1 14 0.00031 36.3 3.1 62 62-126 419-480 (497)
30 PF02198 SAM_PNT: Sterile alph 50.6 13 0.00028 27.4 2.1 23 4-26 18-40 (84)
31 cd08532 SAM_PNT-PDEF-like Ster 46.5 15 0.00032 27.6 1.9 23 4-26 11-33 (76)
32 cd08533 SAM_PNT-ETS-1,2 Steril 46.3 16 0.00034 27.2 2.0 24 4-27 5-28 (71)
33 cd08540 SAM_PNT-ERG Sterile al 45.6 16 0.00035 27.4 1.9 25 4-28 6-30 (75)
34 cd08543 SAM_PNT-ETS-2 Sterile 41.4 20 0.00043 28.0 2.0 25 4-28 20-44 (89)
35 PF04719 TAFII28: hTAFII28-lik 40.7 18 0.00038 28.2 1.6 27 140-171 48-76 (90)
36 cd08542 SAM_PNT-ETS-1 Sterile 37.5 25 0.00054 27.3 2.0 24 4-27 20-43 (88)
37 cd08541 SAM_PNT-FLI-1 Sterile 36.3 27 0.00059 27.3 2.0 23 4-26 18-40 (91)
38 cd08539 SAM_PNT-ESE-3-like Ste 32.7 33 0.00072 26.1 1.9 22 5-26 7-28 (74)
39 cd08538 SAM_PNT-ESE-2-like Ste 25.6 51 0.0011 25.1 1.8 23 4-26 8-30 (78)
40 PF00382 TFIIB: Transcription 23.9 70 0.0015 22.2 2.2 61 17-95 3-63 (71)
41 cd05495 Bromo_cbp_like Bromodo 23.0 59 0.0013 25.0 1.8 26 155-180 6-31 (108)
42 PF02847 MA3: MA3 domain; Int 22.9 1.3E+02 0.0029 21.9 3.6 69 71-141 36-105 (113)
43 PF15294 Leu_zip: Leucine zipp 21.7 63 0.0014 29.9 2.0 69 92-161 17-96 (278)
44 cd05505 Bromo_WSTF_like Bromod 21.6 75 0.0016 24.2 2.1 26 154-180 2-27 (97)
45 PF10436 BCDHK_Adom3: Mitochon 21.3 59 0.0013 26.9 1.6 47 85-131 1-55 (164)
No 1
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.92 E-value=8.6e-26 Score=203.26 Aligned_cols=162 Identities=22% Similarity=0.363 Sum_probs=135.8
Q ss_pred hHHHHHHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHH-HHhhhccCC
Q 028177 7 SWSRLMEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALW-ISSKIHDSR 85 (212)
Q Consensus 7 ~r~~LVdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislw-IAsK~hE~~ 85 (212)
.|++|+|||||+..++++.|+|+|+||++ +||||+.. ++....|||+|+.|++ |||||+|..
T Consensus 157 mR~iLvdwlvevh~~F~L~~ETL~LaVnl-iDRfL~~~----------------~v~~~~lqLvgvsalf~IA~K~EE~~ 219 (391)
T KOG0653|consen 157 MRAILVDWLVEVHEKFGLSPETLYLAVNL-IDRFLSKV----------------KVPLKKLQLVGVSALLSIACKYEEIS 219 (391)
T ss_pred HHHHHHHHHHHhhhhcCcCHHHHHHHHHH-HHHHHHHh----------------cccHHHhhHHhHHHHHHHHHhhhhcc
Confidence 79999999999999999999999999999 89999993 3889999999999966 999999999
Q ss_pred CcchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhh-hhhhhhHHHHHHHHHhh
Q 028177 86 PVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAK-VGELLRFEACMDIMDLL 164 (212)
Q Consensus 86 PlsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vak-vg~l~~~e~cm~imdll 164 (212)
+|++++|. +|||..||.+|+++||..+|++|+|+++ .|+.+.||+++ .+....++ .=.+..+.+++-++|
T Consensus 220 ~P~v~dlv-----~isd~~~s~~~il~mE~~il~~L~f~l~-~p~~~~FLrr~-~ka~~~d~~~~~~~k~~~El~l~d-- 290 (391)
T KOG0653|consen 220 LPSVEDLV-----LITDGAYSREEILRMEKYILNVLEFDLS-VPTPLSFLRRF-LKAADYDIKTRTLVKYLLELSLCD-- 290 (391)
T ss_pred CCccceeE-----eeeCCccchHHHHHHHHHHHhccCeeec-CCchHHHHHHH-HHhhhcchhHHHHHHHHHHHHHhh--
Confidence 99999999 5999999999999999999999999999 59999999999 55444222 334455555555555
Q ss_pred hhcccceeeecCccchhhhhhhhhhheeccccccc
Q 028177 165 YEKEETSTLYRSPRSLAASTLIASYLITVPKQRWE 199 (212)
Q Consensus 165 ye~e~ts~l~~sp~slaas~lv~~y~~tvpkq~we 199 (212)
-..+-+.+|.+.||+...+..+-...+ .|.
T Consensus 291 ----~~~~~~~~s~~aaa~~~~~~~~~~~~~-~w~ 320 (391)
T KOG0653|consen 291 ----YSMLSIPPSSSAAASFTLALRMLSKGD-VWS 320 (391)
T ss_pred ----hHHhccCcHHHHHHHHHHHHHHhccCC-ccC
Confidence 233446677777888888887777666 454
No 2
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.83 E-value=3.6e-21 Score=179.33 Aligned_cols=157 Identities=24% Similarity=0.329 Sum_probs=125.3
Q ss_pred hHHHHHHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCC
Q 028177 7 SWSRLMEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRP 86 (212)
Q Consensus 7 ~r~~LVdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~P 86 (212)
-|++|++||+|+-..+.+.|+|+|+|+++ +||||++ | .+.=+++||+|++|+||||||||..+
T Consensus 212 mR~~Lv~wlvevH~~F~llpeTL~laini-iDrfLs~--~--------------~v~l~k~QLvg~s~LfIa~K~EE~~~ 274 (440)
T COG5024 212 MRSILVDWLVEVHGKFGLLPETLFLAINI-IDRFLSS--R--------------VVSLEKYQLVGISALFIASKYEEVNC 274 (440)
T ss_pred HHHHHHHHHHHhcccccccchHHHHHHHH-HHHHhcc--C--------------cccHHHHHHHHHHHHHHHHhHhHhcC
Confidence 39999999999999999999999999997 9999999 5 38889999999999999999999999
Q ss_pred cchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhhhhhhhhHHHHHH-HHHhhh
Q 028177 87 VSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAKVGELLRFEACMD-IMDLLY 165 (212)
Q Consensus 87 lsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vakvg~l~~~e~cm~-imdlly 165 (212)
|++++|+ ++||+.||.+|+.+||.-+|.+|+|+|| .|....|||++ ++.. +-+.|+. +++-+-
T Consensus 275 p~i~~l~-----~~t~g~~t~~~i~~aE~~ml~~l~f~is-~P~P~sFLRri-Ska~---------dyd~~srt~~k~~~ 338 (440)
T COG5024 275 PSIKDLV-----YATDGAFTRDDIIRAERYMLEVLDFNIS-WPSPMSFLRRI-SKAS---------DYDIFSRTPAKFSS 338 (440)
T ss_pred HHHHHHH-----HHHcccccHHHHHHHHHHHhhhcccccC-CCChHHHHHHH-Hhhc---------ccchhhhhhHhhhC
Confidence 9999999 5999999999999999999999999999 69999998887 4422 3455554 222221
Q ss_pred hc--ccceeeecCccchhhhhhhhhhheecccc
Q 028177 166 EK--EETSTLYRSPRSLAASTLIASYLITVPKQ 196 (212)
Q Consensus 166 e~--e~ts~l~~sp~slaas~lv~~y~~tvpkq 196 (212)
|- =+..++=-+|.-+||..-+.|=.|+--.|
T Consensus 339 e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~ 371 (440)
T COG5024 339 EISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ 371 (440)
T ss_pred CchHhhhhhccCCchHHHHHHHHHHHhhhccCC
Confidence 10 01112112255567777677766665555
No 3
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=99.83 E-value=3.1e-21 Score=177.43 Aligned_cols=162 Identities=22% Similarity=0.375 Sum_probs=127.4
Q ss_pred hHHHHHHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCC
Q 028177 7 SWSRLMEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRP 86 (212)
Q Consensus 7 ~r~~LVdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~P 86 (212)
-|++|+|||+||++-|+|+-+|-|+|+-| +|||+-.-.. +...||||.|++|++||||+||++|
T Consensus 144 mRaILlDWlmEVCEvykLHRETFyLAvDy-~DRyl~t~~~---------------v~kt~lQLIGitsLFIAAK~EEIYp 207 (408)
T KOG0655|consen 144 MRAILLDWLMEVCEVYKLHRETFYLAVDY-FDRYLETQVE---------------VSKTNLQLIGITSLFIAAKLEEIYP 207 (408)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHH-HHHHHHHHHH---------------hhhhhHHHhhHHHHHHHHHHhhccC
Confidence 59999999999999999999999999999 9999988533 8899999999999999999999999
Q ss_pred cchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhhhhhhh-----hHH--HHHH
Q 028177 87 VSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAKVGELL-----RFE--ACMD 159 (212)
Q Consensus 87 lsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vakvg~l~-----~~e--~cm~ 159 (212)
|...+|. |.||-.+|.+|.+.||+.+||-|+.++| ||+.+---..+.|..+-.|.-+.+ ..| .--.
T Consensus 208 PKl~eFA-----yvTDgAcs~ddIltmE~iilkal~W~l~--PiTii~WL~vylQv~~~n~~~k~l~Pq~~~~efiqiaq 280 (408)
T KOG0655|consen 208 PKLIEFA-----YVTDGACSEDDILTMELIILKALKWELS--PITIISWLNVYLQVDALNDAPKVLLPQYSQEEFIQIAQ 280 (408)
T ss_pred cccccee-----eeccCccchHHHHHHHHHHHHHhccccc--ceehHHHHHHHHHHHhcCCCCceeccccchHHHHHHHH
Confidence 9999999 6999999999999999999999999999 777665556668877766643322 211 1125
Q ss_pred HHHhhhhcccceeeecCccchhhhhhhhhhheec
Q 028177 160 IMDLLYEKEETSTLYRSPRSLAASTLIASYLITV 193 (212)
Q Consensus 160 imdllye~e~ts~l~~sp~slaas~lv~~y~~tv 193 (212)
++||+-=.=| |+=|. =+-|||+.|---|-+.+
T Consensus 281 lLDlc~ldid-s~~fs-YrilaAAal~h~~s~e~ 312 (408)
T KOG0655|consen 281 LLDLCILDID-SLEFS-YRILAAAALCHFTSIEV 312 (408)
T ss_pred HHHHHHhccc-cccch-HHHHHHHHHHHHhHHHH
Confidence 6666543222 33232 23468887766555443
No 4
>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=99.82 E-value=9.8e-21 Score=139.19 Aligned_cols=98 Identities=32% Similarity=0.575 Sum_probs=87.4
Q ss_pred hHHHHHHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCC
Q 028177 7 SWSRLMEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRP 86 (212)
Q Consensus 7 ~r~~LVdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~P 86 (212)
.|+++++|+.++++.++++|.|.|.|+.| +|||+... +++++++|+++++|+++|||++|..+
T Consensus 30 ~r~~~~~~i~~~~~~~~l~~~~~~~A~~~-~dr~~~~~----------------~~~~~~~~li~~~cl~lA~K~~e~~~ 92 (127)
T PF00134_consen 30 MRQIIIDWIIELCQRLKLSPETLHLAIYL-FDRFLSKR----------------PVNRSKLQLIALACLFLASKMEEDNP 92 (127)
T ss_dssp HHHHHHHHHHHHHHHTT-BHHHHHHHHHH-HHHHHTTS-----------------TTCCGHHHHHHHHHHHHHHHHTSS-
T ss_pred HHHHHHHHHHHHHHhcccchhHHHHHHHH-HHHHHhhc----------------ccccchhhhhhhhHHHHhhhhhcccc
Confidence 59999999999999999999999999999 89999983 48999999999999999999999999
Q ss_pred cchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccC
Q 028177 87 VSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIG 126 (212)
Q Consensus 87 lsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIg 126 (212)
++++++.. ++++.||.+|+++||..+|+.|||+++
T Consensus 93 ~~~~~~~~-----~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 93 PSISDLIR-----ISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp -HHHHHHH-----HTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred chHHHHHH-----HHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999996 668899999999999999999999974
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.79 E-value=7.6e-20 Score=167.08 Aligned_cols=155 Identities=22% Similarity=0.311 Sum_probs=129.6
Q ss_pred HHHHHHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCCc
Q 028177 8 WSRLMEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPV 87 (212)
Q Consensus 8 r~~LVdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~Pl 87 (212)
|++|+||++|+++++++.++++|+++++ +|||++.. ++.+.++|+.|..+++|++|++|++|+
T Consensus 137 rgilvdwlvevsee~r~~~e~l~ls~~~-~drfl~~~----------------~~~~~k~ql~g~s~m~I~sk~ee~~~~ 199 (359)
T KOG0654|consen 137 RGILVDWLVEVSEEYRLTFETLYLSVNY-RDRFLSYK----------------EVNKQKLQLVGISAMLIASKYEEIKEP 199 (359)
T ss_pred hhhhhhhhhHHHHHHHhhhhheeecHHH-HHHHhccC----------------ccHHHHHHHhCcccceeeccchhhcch
Confidence 7999999999999999999999999999 99999993 589999999999999999999999999
Q ss_pred chhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhhhhhhhhHH-HHHHHHHhhhh
Q 028177 88 SVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAKVGELLRFE-ACMDIMDLLYE 166 (212)
Q Consensus 88 sV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vakvg~l~~~e-~cm~imdllye 166 (212)
-|++|+. |||++|+..|++.||..+++.|.|++++ |+..+||++++.-..+ -.++.| .|.-+.+|=+-
T Consensus 200 ~~~ef~~-----itd~ty~~~qv~~~~~~il~~l~~~~~~-pt~~~~l~~~~~~~~~-----~~~~~e~~~~yl~elsll 268 (359)
T KOG0654|consen 200 RVEEFCY-----ITDNTYTYWQVLRMEIDILNALTFELVR-PTSKTFLRRFLRVAQT-----PELQVEPLANYLTELSLL 268 (359)
T ss_pred HHHHHHh-----hhhhhhHHHHHHHHHHHHHHHhHHHHhC-chHHHHHHHHHHhhcc-----hhHHHHHHHHHHHHhhhh
Confidence 9999995 9999999999999999999999999996 9999999999665444 233333 34444444222
Q ss_pred cccceeeecCccchhhhhh-hhhhhee
Q 028177 167 KEETSTLYRSPRSLAASTL-IASYLIT 192 (212)
Q Consensus 167 ~e~ts~l~~sp~slaas~l-v~~y~~t 192 (212)
|.+.|.-+|-=+|||.+ .|=|.+.
T Consensus 269 --~~~~l~y~PSliAasAv~lA~~~~~ 293 (359)
T KOG0654|consen 269 --DYIFLKYLPSLIAASAVFLARLTLD 293 (359)
T ss_pred --hHHHhccChHHHHHHHHHHHHhhcc
Confidence 23377889988866654 4445554
No 6
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.76 E-value=3.1e-18 Score=155.41 Aligned_cols=154 Identities=18% Similarity=0.335 Sum_probs=125.8
Q ss_pred HHHHHHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccc---hhHHHHHHHHHHhhhccC
Q 028177 8 WSRLMEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESN---LQLFALIALWISSKIHDS 84 (212)
Q Consensus 8 r~~LVdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~sn---LQLf~lislwIAsK~hE~ 84 (212)
|.+.++|+.+|++++...|.|-++|++| +|||+++ + ++.+++ +||+|++|+.+|||++|+
T Consensus 78 R~~A~~WIl~V~~~~~~~~~~~~LA~NY-lDRFls~--~--------------~l~k~k~W~lQLlAvaCLsLAsKmeE~ 140 (335)
T KOG0656|consen 78 RKQALDWILKVCEEYNFEPLVFLLAMNY-LDRFLSS--Q--------------KLPKDKPWMLQLLAVACLSLASKMEET 140 (335)
T ss_pred HHHHHHHHHHHHHHhCCchHHHHHHHHH-HHHhhcc--c--------------ccCCCchHHHHHHHHHHHHHHHhhcCc
Confidence 9999999999999999999999999999 9999999 3 588899 999999999999999999
Q ss_pred C-CcchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhh-hhhhhhHHHHHHHHH
Q 028177 85 R-PVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAK-VGELLRFEACMDIMD 162 (212)
Q Consensus 85 ~-PlsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vak-vg~l~~~e~cm~imd 162 (212)
. |+.++-.+ .=||+-|-.+.+.+||+.+|..|+.++.. .|+|+|++.+..++.++.- .+..++ -|-+ =
T Consensus 141 ~vPll~dl~v-----~~~~~~feaktI~rmELLVLstL~Wrl~a-VTP~sF~~~fl~ki~~~~~~~~~~~~--~~s~--~ 210 (335)
T KOG0656|consen 141 DVPLLADLQV-----EYTDNVFEAKTIQRMELLVLSTLKWRLRA-VTPFSFIDHFLSKISQKDHNKHLFLK--HASL--F 210 (335)
T ss_pred CCchhhhhhh-----ccccccccHHHHHHHHHHHHhhccccccC-CCchHHHHHHHHHcCcccchHHHHHH--HHHH--H
Confidence 6 66666666 47899999999999999999999999995 9999999999777776522 122211 1211 1
Q ss_pred hhhhcccceeeecCccchhhhhhhhh
Q 028177 163 LLYEKEETSTLYRSPRSLAASTLIAS 188 (212)
Q Consensus 163 llye~e~ts~l~~sp~slaas~lv~~ 188 (212)
+|--.-|.+++=-.|-.+||++.+..
T Consensus 211 ll~~~~d~~Fl~y~pSviAaa~~~~v 236 (335)
T KOG0656|consen 211 LLSVITDIKFLEYPPSVIAAAAILSV 236 (335)
T ss_pred HHHHhhhhhhhcCChHHHHHHHHHHH
Confidence 34445566777777888888866544
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.46 E-value=2.8e-13 Score=120.73 Aligned_cols=169 Identities=15% Similarity=0.170 Sum_probs=125.5
Q ss_pred hHHHHHHHHHHhhhcce--eccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccC
Q 028177 7 SWSRLMEFMIQSAHQLE--VSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDS 84 (212)
Q Consensus 7 ~r~~LVdfLve~a~~le--l~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~ 84 (212)
.|+...+++.+++.+++ +++.|.++|+.| ++||+.. ++ +.+-+.++++++|+++|||++|.
T Consensus 55 l~~~y~~~i~~~~~~lkp~Lpq~viaTAivy-f~RFy~~--~S--------------v~~~~p~~Ia~tclfLA~KvEE~ 117 (305)
T TIGR00569 55 LVKYYEKRLLDFCSAFKPTMPTSVVGTAIMY-FKRFYLN--NS--------------VMEYHPKIIMLTCVFLACKVEEF 117 (305)
T ss_pred HHHHHHHHHHHHHHHhcCCCCchHHHHHHHH-HhHHhcc--Cc--------------hhhcCHHHHHHHHHHHHHhcccc
Confidence 57778899999999999 999999999999 9999986 44 77889999999999999999998
Q ss_pred CCcchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchh-hhhhhhh-HHHHHHHHH
Q 028177 85 RPVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVA-KVGELLR-FEACMDIMD 162 (212)
Q Consensus 85 ~PlsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~va-kvg~l~~-~e~cm~imd 162 (212)
. .++++|..-. ..+..++..++++||..+|+.|+|++. .+..|.+|+.++..++... ..++.=. -..+..+++
T Consensus 118 ~-~si~~fv~~~---~~~~~~~~~~Il~~E~~lL~~L~F~L~-V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~ln 192 (305)
T TIGR00569 118 N-VSIDQFVGNL---KETPLKALEQVLEYELLLIQQLNFHLI-VHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLN 192 (305)
T ss_pred C-cCHHHHHhhc---cCCchhhHHHHHHHHHHHHHHCCCcEE-eeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Confidence 5 6899998622 223345789999999999999999999 6999999999987654322 1110000 123445544
Q ss_pred hhhhcccceeeecCccchh-hhhhhhhhheec--cccccc
Q 028177 163 LLYEKEETSTLYRSPRSLA-ASTLIASYLITV--PKQRWE 199 (212)
Q Consensus 163 llye~e~ts~l~~sp~sla-as~lv~~y~~tv--pkq~we 199 (212)
=.|-++- .+ .-.|..+| |++..|+-..++ |.+-||
T Consensus 193 dsl~Td~-~L-~y~Ps~IAlAAI~lA~~~~~~~l~~~~~e 230 (305)
T TIGR00569 193 RTLLTDA-YL-LYTPSQIALAAILHTASRAGLNMESYLTE 230 (305)
T ss_pred HHHcCCc-ee-cCCHHHHHHHHHHHHHHHhCCCCcccchh
Confidence 3444333 33 45677884 777777765554 666665
No 8
>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=99.32 E-value=2.2e-12 Score=86.30 Aligned_cols=87 Identities=23% Similarity=0.364 Sum_probs=77.2
Q ss_pred HHHHHHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCCc
Q 028177 8 WSRLMEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPV 87 (212)
Q Consensus 8 r~~LVdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~Pl 87 (212)
|....+||.+.+..+++++.+.++|.++ +|||+..- ++.+.|.|+++.+|+++|||+++. |+
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~-~~~~~~~~----------------~~~~~~~~~ia~a~l~lA~k~~~~-~~ 63 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNL-LDRFLLDY----------------SVLGRSPSLVAAAALYLAAKVEEI-PP 63 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHH-HHHHHHhc----------------ccccCChHHHHHHHHHHHHHHcCC-CC
Confidence 6788999999999999999999999999 99999982 366899999999999999999999 99
Q ss_pred chhhhhhcccccccCCccchHHHHHHHHHHH
Q 028177 88 SVKSFKSLGDKIIKDEHFTTRDFLEAEIVFM 118 (212)
Q Consensus 88 sV~slk~~~d~~ItDq~yT~rdfleaE~~fL 118 (212)
+.+++... ++.. |.+++.++|..++
T Consensus 64 ~~~~~~~~-----~~~~-~~~~i~~~e~~il 88 (88)
T cd00043 64 WLKDLVHV-----TGYA-TEEEILRMEKLLL 88 (88)
T ss_pred CHHHHhHH-----hCCC-CHHHHHHHHHHhC
Confidence 99999873 3322 9999999998764
No 9
>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=99.12 E-value=5.7e-11 Score=78.97 Aligned_cols=83 Identities=22% Similarity=0.346 Sum_probs=70.9
Q ss_pred HHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCCcchhhh
Q 028177 13 EFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPVSVKSF 92 (212)
Q Consensus 13 dfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~PlsV~sl 92 (212)
+||.+.+..+++++.+.++|..+ +|||+.. + ++.+.+.|++|..|+++|||+++.. +..+++
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~-~~~~l~~--~--------------~~~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~ 62 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNL-LDRFLSD--Y--------------KFLKYSPSLIAAAALYLAAKTEEIP-PWTKEL 62 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHH-HHHHHHH--h--------------hcccCCHHHHHHHHHHHHHHHhcCC-CCchhH
Confidence 58999999999999999999999 9999986 2 2455899999999999999999987 466777
Q ss_pred hhcccccccCCccchHHHHHHHHHHHH
Q 028177 93 KSLGDKIIKDEHFTTRDFLEAEIVFMQ 119 (212)
Q Consensus 93 k~~~d~~ItDq~yT~rdfleaE~~fLk 119 (212)
.. .+.. |+.+|+.++|..+++
T Consensus 63 ~~-----~~~~-~~~~~i~~~~~~il~ 83 (83)
T smart00385 63 VH-----YTGY-FTEEEILRMEKLLLE 83 (83)
T ss_pred hH-----hhCC-CCHHHHHHHHHHHhC
Confidence 76 3333 899999999998874
No 10
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=98.56 E-value=3.9e-07 Score=83.05 Aligned_cols=173 Identities=16% Similarity=0.254 Sum_probs=127.1
Q ss_pred hhHHHHHHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCC
Q 028177 6 WSWSRLMEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSR 85 (212)
Q Consensus 6 ~~r~~LVdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~ 85 (212)
-.|.....|+.+.+.+|++++.|..+|+-| ..||+.-- + .+....+..+.+|+++|+|.||.
T Consensus 37 ~~r~~~~~fI~elg~~L~~~~~ti~tA~~~-~hRFy~~~--s--------------~~~~~~~~vA~sclfLAgKvEet- 98 (323)
T KOG0834|consen 37 RLRQEGAKFIQELGVRLKMPQKTIATAIVI-FHRFYMFH--S--------------FKKFDPYTVAASCLFLAGKVEET- 98 (323)
T ss_pred HHHHHHHHHHHHHHHHcCCCccchhhhhhh-hhhhhhhc--c--------------cccCcHHHHHHHHHHHHhhcccC-
Confidence 357888999999999999999999999999 78998762 3 66677789999999999999996
Q ss_pred CcchhhhhhcccccccC------Ccc--chHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhhhhhhhhHH--
Q 028177 86 PVSVKSFKSLGDKIIKD------EHF--TTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAKVGELLRFE-- 155 (212)
Q Consensus 86 PlsV~slk~~~d~~ItD------q~y--T~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vakvg~l~~~e-- 155 (212)
|...++....+-+++.. +.| .+++++.-|..+|++|+||+. ..-+|.||.++...++. -.|..
T Consensus 99 p~kl~dIi~~s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~-v~hPy~~ll~~~k~l~~------~~~~~~~ 171 (323)
T KOG0834|consen 99 PRKLEDIIKVSYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLN-VEHPYKYLLKYLKKLKA------DENLKQP 171 (323)
T ss_pred cccHHHHHHHHHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCcee-ccCchHHHHHHHHHhhh------hhhcccc
Confidence 67778877777777665 333 256777789999999999999 79999999999655542 22211
Q ss_pred HHHH----HHHhhhhcccceeeecCccchhhh-hhhhhhheecccccccccccccccc
Q 028177 156 ACMD----IMDLLYEKEETSTLYRSPRSLAAS-TLIASYLITVPKQRWEFPILPWGKY 208 (212)
Q Consensus 156 ~cm~----imdllye~e~ts~l~~sp~slaas-~lv~~y~~tvpkq~wefpil~w~~~ 208 (212)
.|-. +=|.++-+ .++-| +|.++|++ |-+|.-+-.++-|.|.+. +|-..
T Consensus 172 ~a~~Aw~~~nD~~~t~--~cL~y-~p~~IAva~i~lA~~~~~~~~~~~~~~--~w~~~ 224 (323)
T KOG0834|consen 172 LAQAAWNFVNDSLRTT--LCLQY-SPHSIAVACIHLAAKLLGVELPSDTDK--RWWRE 224 (323)
T ss_pred HHHHHHHHhchhheee--eeEee-cCcEEEeehhhHHHHHcCCCCCCCccc--chhhh
Confidence 2222 24666655 55544 67778554 455555555666666665 66543
No 11
>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=98.22 E-value=1.4e-06 Score=69.34 Aligned_cols=94 Identities=26% Similarity=0.386 Sum_probs=72.4
Q ss_pred HHHHHHHhhhcceeccceeeehhhhhhhhhcC--CcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCCcc
Q 028177 11 LMEFMIQSAHQLEVSPIVKYSALSLFADRFFP--SLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPVS 88 (212)
Q Consensus 11 LVdfLve~a~~lel~p~tkYlAvS~f~DRFLp--sl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~Pls 88 (212)
+.+|+.+....-.++|.+.-.|+=| +||+.. .-+.. +++..|-.=+.++|+.+|+|+.+-...+
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliY-l~Rl~~~~~~~~~-------------~~~~~~~~Rl~l~alilA~K~~~D~~~~ 119 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIY-LDRLRQRSRKPNI-------------PLNSSNIHRLFLTALILASKFLDDNTYS 119 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHH-HHHHHH--H-TT----------------STTTHHHHHHHHHHHHHHHH-SS---
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHH-HHHHHHhhccccc-------------ccccchhHHHHHHHHHHHHhhccccccc
Confidence 6788888888889999999999999 999998 22333 6888899999999999999999999999
Q ss_pred hhhhhhcccccccCCccchHHHHHHHHHHHHHhhccc
Q 028177 89 VKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEI 125 (212)
Q Consensus 89 V~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeI 125 (212)
-+++.. |+. .+.+|+-+||..||+.|||++
T Consensus 120 n~~~a~-----v~g--is~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 120 NKSWAK-----VGG--ISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHH-----HHT--S-HHHHHHHHHHHHHHTTT--
T ss_pred HHHHHh-----hcC--CCHHHHHHHHHHHHHHCCCcC
Confidence 999997 443 789999999999999999985
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=98.02 E-value=1.6e-05 Score=72.42 Aligned_cols=156 Identities=22% Similarity=0.388 Sum_probs=114.7
Q ss_pred HHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccC-CCcchh
Q 028177 12 MEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDS-RPVSVK 90 (212)
Q Consensus 12 VdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~-~PlsV~ 90 (212)
--|+...+.+|+++-.++=+|+.| .+||.-.. ++++-+++-++.++++.|||.+|. +..++.
T Consensus 49 ~k~i~~l~~~L~lp~~~laTAi~~-f~Rf~Lk~----------------sv~e~~~~~vv~tcv~LA~K~ed~~~~I~i~ 111 (297)
T COG5333 49 LKLIMDLCTRLNLPQTVLATAILF-FSRFYLKN----------------SVEEISLYSVVTTCVYLACKVEDTPRDISIE 111 (297)
T ss_pred HHHHHHHHHhcCCCcchHHHHHHH-HHHHHhhc----------------ccccccHHHHHHhheeeeeecccccchhhHH
Confidence 367888999999999999999999 89998873 488999999999999999999995 344555
Q ss_pred hhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhhhhhhhhHHHHHHHHHhhhhcccc
Q 028177 91 SFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAKVGELLRFEACMDIMDLLYEKEET 170 (212)
Q Consensus 91 slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vakvg~l~~~e~cm~imdllye~e~t 170 (212)
+|+. .|..--...=+++.++++|..+|+.|+|+.- .+..|.+++.++...+.++| ++++++. -- +++..-.|
T Consensus 112 ~~~~-~~~~se~~~~sr~~Il~~E~~lLEaL~fd~~-V~hPy~~l~~f~~~~q~~~~-~~~~~~a--w~---~inDa~~t 183 (297)
T COG5333 112 SFEA-RDLWSEEPKSSRERILEYEFELLEALDFDLH-VHHPYKYLEGFLKDLQEKDK-YKLLQIA--WK---IINDALRT 183 (297)
T ss_pred HHHh-hccccccccccHHHHHHHHHHHHHHcccceE-eccccHHHHHHHHHHHhccH-HHHHHHH--HH---HHHhhhhc
Confidence 5553 1121112333567799999999999999999 69999999999888888888 5555442 22 23332222
Q ss_pred e-eeecCccchh-hhhhhhhhhee
Q 028177 171 S-TLYRSPRSLA-ASTLIASYLIT 192 (212)
Q Consensus 171 s-~l~~sp~sla-as~lv~~y~~t 192 (212)
. .|..+|+++| |+++++.=++-
T Consensus 184 ~~~llypphiIA~a~l~ia~~~~~ 207 (297)
T COG5333 184 DLCLLYPPHIIALAALLIACEVLG 207 (297)
T ss_pred eeeeecChHHHHHHHHHHHHHhcC
Confidence 2 3456899995 55666655543
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.44 E-value=0.002 Score=57.22 Aligned_cols=151 Identities=15% Similarity=0.192 Sum_probs=109.3
Q ss_pred HHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCCcchhh
Q 028177 12 MEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPVSVKS 91 (212)
Q Consensus 12 VdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~PlsV~s 91 (212)
..-+-+.+..|+|++.+.=.|..+ ..++... .. ++.-+.+.++..|+++||+.|..+ -+.++
T Consensus 126 ~~~I~~~~~~L~Lp~~v~e~A~~i-yk~~~~~--~~--------------~rgrs~~~i~AAclYiACR~~~~p-rtl~e 187 (310)
T PRK00423 126 LSELDRIASQLGLPRSVREEAAVI-YRKAVEK--GL--------------IRGRSIEGVVAAALYAACRRCKVP-RTLDE 187 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHH-HHHHHhc--Cc--------------ccCCCHHHHHHHHHHHHHHHcCCC-cCHHH
Confidence 345677899999999999899888 6676655 33 444566888999999999998765 78888
Q ss_pred hhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhhhhhhhhHHHHHHHHHhhhhcccce
Q 028177 92 FKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAKVGELLRFEACMDIMDLLYEKEETS 171 (212)
Q Consensus 92 lk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vakvg~l~~~e~cm~imdllye~e~ts 171 (212)
+..+ + .-.++++-+++..+++.|++++.. .-+..|+.++-..++ +++ -+. +.+.+|..-..+. ..
T Consensus 188 I~~~-----~--~v~~k~i~~~~~~l~k~L~~~~~~-~~p~~~i~r~~~~L~-L~~---~v~-~~A~~i~~~a~~~--~l 252 (310)
T PRK00423 188 IAEV-----S--RVSRKEIGRCYRFLLRELNLKLPP-TDPIDYVPRFASELG-LSG---EVQ-KKAIEILQKAKEK--GL 252 (310)
T ss_pred HHHH-----h--CCCHHHHHHHHHHHHHHhCCCCCC-CCHHHHHHHHHHHcC-CCH---HHH-HHHHHHHHHHHhc--Cc
Confidence 8863 3 358899999999999999999885 558899999955543 332 222 3344555444332 22
Q ss_pred eeecCccch-hhhhhhhhhheeccc
Q 028177 172 TLYRSPRSL-AASTLIASYLITVPK 195 (212)
Q Consensus 172 ~l~~sp~sl-aas~lv~~y~~tvpk 195 (212)
.-=++|.++ ||+|.+++....+|+
T Consensus 253 ~~Gr~P~sIAAAaIYlA~~~~g~~~ 277 (310)
T PRK00423 253 TSGKGPTGLAAAAIYIASLLLGERR 277 (310)
T ss_pred ccCCCHHHHHHHHHHHHHHHhCCCC
Confidence 234899999 777888888776664
No 14
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=96.80 E-value=0.00039 Score=62.72 Aligned_cols=153 Identities=19% Similarity=0.300 Sum_probs=98.0
Q ss_pred HHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCCcchhhhhh
Q 028177 15 MIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPVSVKSFKS 94 (212)
Q Consensus 15 Lve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~PlsV~slk~ 94 (212)
....+++++++--|.=+|+-| +-||+=. +.+++-++.|++.+|++.|||.||.. ++...+..
T Consensus 48 I~~lg~~lklRQ~ViATAivY-~rRfy~r----------------~S~k~~~p~lla~TClyLAcKvEE~~-i~~~r~l~ 109 (264)
T KOG0794|consen 48 IQKLGQHLKLRQRVIATAIVY-FRRFYLR----------------KSLKEIEPRLLAPTCLYLACKVEECP-IVHIRLLV 109 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHH----------------HhhhccCHHHHHHHHHHHHhhhhhcc-hHHHHHHH
Confidence 345577777888888888888 7777654 25889999999999999999999987 66555443
Q ss_pred cccccc------cCC--ccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccchhhhhhhhhHHHHHHHHHhhhh
Q 028177 95 LGDKII------KDE--HFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGVAKVGELLRFEACMDIMDLLYE 166 (212)
Q Consensus 95 ~~d~~I------tDq--~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~vakvg~l~~~e~cm~imdllye 166 (212)
..-+.+ .++ -|...+++|||-.+|+.||+=+- .--+|+=|.++ -|-.|+ -+-=-.+.|--|..==|.
T Consensus 110 ~~a~~L~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LI-VhHPYrsL~q~-~qd~gi---~d~~~l~~~W~ivNDSyr 184 (264)
T KOG0794|consen 110 NEAKVLKTRFSYWPEKFPYERKDILEMEFYLLEALDCYLI-VHHPYRSLLQF-VQDMGI---NDQKLLQLAWSIVNDSYR 184 (264)
T ss_pred HHHHHHhhhcccchhhcCCCcCcchhhhhhHHhhhceeEE-EecCCccHHHH-HHHhcc---cchhhhhhhHhhhcchhh
Confidence 333333 333 35678999999999999998765 34455556665 343333 111112233333332232
Q ss_pred cccceeeecCccchh-hhhhhhhhhee
Q 028177 167 KEETSTLYRSPRSLA-ASTLIASYLIT 192 (212)
Q Consensus 167 ~e~ts~l~~sp~sla-as~lv~~y~~t 192 (212)
+ |-+ |..-|+.+| |++.||+-...
T Consensus 185 ~-Dl~-Ll~PPh~IalAcl~Ia~~~~~ 209 (264)
T KOG0794|consen 185 M-DLC-LLYPPHQIALACLYIACVIDE 209 (264)
T ss_pred c-cee-eecCHHHHHHHHHHHHHhhcC
Confidence 2 223 355688885 66777665543
No 15
>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=94.75 E-value=0.022 Score=53.05 Aligned_cols=147 Identities=20% Similarity=0.263 Sum_probs=91.3
Q ss_pred hhhhhhhhhcCCcccccccC---CCCCccccccccccchhHHHHHHHHHHhhhccCCCcchhhhhhcccccccCCccchH
Q 028177 32 ALSLFADRFFPSLTRYTVGS---NGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPVSVKSFKSLGDKIIKDEHFTTR 108 (212)
Q Consensus 32 AvS~f~DRFLpsl~r~~~~~---~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~PlsV~slk~~~d~~ItDq~yT~r 108 (212)
++.| .++|.|+||+..++- .-.+-.|-..+-+-.-.-...+|++.|||++|- ..|+.+|+. .+--++-=|.+
T Consensus 63 l~~f-~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef-~ISieqFvk---n~~~~~~k~~e 137 (325)
T KOG2496|consen 63 LVNF-YSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEF-YISIEQFVK---NMNGRKWKTHE 137 (325)
T ss_pred HHHH-HHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhh-eecHHHHHh---hccCcccccHH
Confidence 4444 777777777652221 111223333455555566778899999999975 589999985 22246667889
Q ss_pred HHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccch-hhhhhhhhHHHH----HHHHHhhhhcccceeeecCccchh-h
Q 028177 109 DFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGV-AKVGELLRFEAC----MDIMDLLYEKEETSTLYRSPRSLA-A 182 (212)
Q Consensus 109 dfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~v-akvg~l~~~e~c----m~imdllye~e~ts~l~~sp~sla-a 182 (212)
.+++-|...|+.|+|++- .-..|.=+|-++...+.+ .++.+. ++.-| |+-+|=.+-+ ...++.+|-++| |
T Consensus 138 ~vLk~E~~llqsL~f~L~-vh~PyRPleGFl~D~kt~l~~~~n~-d~~~~~~d~~~fl~~~llt--Da~lLytPsQIALa 213 (325)
T KOG2496|consen 138 IVLKYEFLLLQSLKFSLT-VHNPYRPLEGFLLDMKTRLPALENP-DILRKHDDSKKFLDRALLT--DAYLLYTPSQIALA 213 (325)
T ss_pred HHHhchHHHHHhhhhhhe-ecCCCCchHHHHHHHHHHHHhccCH-HHHhhhhhHHHHHHHHHHh--ccceecChHHHHHH
Confidence 999999999999999998 467777777777666655 332211 11111 2222222211 235677899985 4
Q ss_pred hhhhh
Q 028177 183 STLIA 187 (212)
Q Consensus 183 s~lv~ 187 (212)
+||.+
T Consensus 214 Ail~a 218 (325)
T KOG2496|consen 214 AILHA 218 (325)
T ss_pred HHHHH
Confidence 55444
No 16
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=88.39 E-value=0.58 Score=44.44 Aligned_cols=107 Identities=15% Similarity=0.256 Sum_probs=79.0
Q ss_pred HHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCCcchhh
Q 028177 12 MEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPVSVKS 91 (212)
Q Consensus 12 VdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~PlsV~s 91 (212)
.+|.-|++-=|.|+-.+-+.+.=+ +-||.=. + |..+-+++-++..|+|+|||++|. |=++++
T Consensus 27 ~e~Iqea~ILL~L~q~a~atgqVL-FqRf~~~---k-------------s~v~~~~e~vv~ACv~LASKiEE~-Prr~rd 88 (367)
T KOG0835|consen 27 CELIQEAGILLNLPQVAMATGQVL-FQRFCYS---K-------------SFVRHDFEIVVMACVLLASKIEEE-PRRIRD 88 (367)
T ss_pred HHHHHhhhHhhcCcHHHHHHHHHH-HHHHHhc---c-------------ccccccHHHHHHHHHHHHhhhccc-cccHhH
Confidence 467778888889998899999888 6787665 2 466779999999999999999996 455555
Q ss_pred hhh-------------cccccccCCcc--chHHHHHHHHHHHHHhhcccCCcchHHHHHHHH
Q 028177 92 FKS-------------LGDKIIKDEHF--TTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEEL 138 (212)
Q Consensus 92 lk~-------------~~d~~ItDq~y--T~rdfleaE~~fLkVL~FeIgt~pia~tfLeel 138 (212)
..+ ++-. |-++.| .+-+...||..+|+-|+|++- .-..+-++-.+
T Consensus 89 VinVFh~L~~r~~~~~~~~~-~~~~~~~~lk~~~ir~e~~ILr~LGF~~H-v~hPhklii~Y 148 (367)
T KOG0835|consen 89 VINVFHYLEQRRESEAAEHL-ILARLYINLKMQVIRAERRILRELGFDVH-VEHPHKLIIMY 148 (367)
T ss_pred HHHHHHHHHHHHhccCcchh-hhhhHHhhhhhHHHHHHHHHHHHhCCeee-eeccHHHHHHH
Confidence 432 2333 333333 345788999999999999987 46666655555
No 17
>KOG1674 consensus Cyclin [General function prediction only]
Probab=81.95 E-value=4 Score=35.35 Aligned_cols=113 Identities=23% Similarity=0.270 Sum_probs=75.4
Q ss_pred HHHHHHhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccc-hhHHHHHHHHHHhhhccCCCcchh
Q 028177 12 MEFMIQSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESN-LQLFALIALWISSKIHDSRPVSVK 90 (212)
Q Consensus 12 VdfLve~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~sn-LQLf~lislwIAsK~hE~~PlsV~ 90 (212)
-++|....+.-+..|.+.-.|+.| +|||...= |.+.+..|. .++-.| .-=+-+.++-+|||+.+..-.+-.
T Consensus 79 ~~yleri~k~~~~s~~~lv~al~Y-ldr~~~~~-----~~~~~~~~~--~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~ 150 (218)
T KOG1674|consen 79 RQYLERIFKYSKCSPECLVLALVY-LDRFVKQP-----QARSVKPQS--LINSLNKVHRLLITTVTVSTKFLDDVYYSNA 150 (218)
T ss_pred HHHHHHHHHHhcCCchhhhhhhhh-hhhhhhhh-----cccccCccc--ccccchhHHHHHHHHHHHHHhhccchhhhHH
Confidence 466777777778999999999999 99999860 001111111 122222 222667799999999987766655
Q ss_pred hhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHH
Q 028177 91 SFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELL 139 (212)
Q Consensus 91 slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~ 139 (212)
=....|. =+.+|.-.+|..|+.-+||++.=....+.-.+.++
T Consensus 151 ~~a~vgg-------l~~~eln~lE~~~l~~~~~~l~i~~~~~~~~~~~~ 192 (218)
T KOG1674|consen 151 YYAKVGG-------LTTDELNKLELDLLFLLDFRLIISRSEFNLYEDLL 192 (218)
T ss_pred HHHHhCC-------CChHhhhhhhHHHHhhCCeEEEechhHHHHHHHHH
Confidence 5554333 25667779999999999999985455555555553
No 18
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=81.19 E-value=1.2 Score=41.97 Aligned_cols=58 Identities=28% Similarity=0.388 Sum_probs=44.2
Q ss_pred ccchhHHHHHHHHHHhhhccCCCcchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCC
Q 028177 64 ESNLQLFALIALWISSKIHDSRPVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGT 127 (212)
Q Consensus 64 ~snLQLf~lislwIAsK~hE~~PlsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt 127 (212)
..|--.+++=++|+|||+-+.--..=-|-|. +.+|+ |++|--+||+.||++|.||||-
T Consensus 231 p~~w~r~~~g~il~sskv~~dqs~wnvdycq----IlKd~--tveDmNe~ERqfLelLqfNinv 288 (343)
T KOG1675|consen 231 PRNWSRAVLGEILLSSKVYDDQSVWNVDYCE----ILKDQ--SVDDMNALERQFLELLQFNINV 288 (343)
T ss_pred cchhhhhhhhhheehhhhhhhhhcccHHHHH----HHhhc--cHhhHHHHHHHHHHHHhhccCc
Confidence 4566677777899999987766555455554 33333 7899999999999999999994
No 19
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=74.11 E-value=33 Score=31.22 Aligned_cols=116 Identities=15% Similarity=0.222 Sum_probs=77.1
Q ss_pred chhHHHHHHHHHHhhhccCCCcchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCCcchHHHHHHHHHHHccch
Q 028177 66 NLQLFALIALWISSKIHDSRPVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGTSNIAFLLLEELLLQFKGV 145 (212)
Q Consensus 66 nLQLf~lislwIAsK~hE~~PlsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt~pia~tfLeel~~qf~~v 145 (212)
..+=++..|+++||+.+.. |-+.+++..... =+++++..+.....+-|+=.+.. --...|+.++-...+
T Consensus 138 sie~v~AA~iY~acR~~~~-prtl~eIa~a~~-------V~~kei~rtyr~~~~~L~l~~~~-~~p~~yi~rf~s~L~-- 206 (285)
T COG1405 138 SIESVAAACIYAACRINGV-PRTLDEIAKALG-------VSKKEIGRTYRLLVRELKLKIPP-VDPSDYIPRFASKLG-- 206 (285)
T ss_pred cHHHHHHHHHHHHHHHcCC-CccHHHHHHHHC-------CCHHHHHHHHHHHHHhcCCCCCC-CCHHHHHHHHHHHcC--
Confidence 3788899999999998875 666777765222 34489999988777777666652 223444444411111
Q ss_pred hhhhhhhhHHHHHHHHHhhhhcccceeeecCccch-hhhhhhhhhheeccccc
Q 028177 146 AKVGELLRFEACMDIMDLLYEKEETSTLYRSPRSL-AASTLIASYLITVPKQR 197 (212)
Q Consensus 146 akvg~l~~~e~cm~imdllye~e~ts~l~~sp~sl-aas~lv~~y~~tvpkq~ 197 (212)
+++-++-++ .||.+..-++.-++ =++|.+| ||++.++|...-+++-|
T Consensus 207 --l~~~v~~~a-~ei~~~~~~~g~~~--Gk~P~glAaaaiy~as~l~~~~~tq 254 (285)
T COG1405 207 --LSDEVRRKA-IEIVKKAKRAGLTA--GKSPAGLAAAAIYLASLLLGERRTQ 254 (285)
T ss_pred --CCHHHHHHH-HHHHHHHHHhCccc--CCCchhHHHHHHHHHHHHhCCchHH
Confidence 223333332 57778888877777 6899999 67788888888776644
No 20
>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=73.47 E-value=3.3 Score=29.66 Aligned_cols=55 Identities=18% Similarity=0.281 Sum_probs=27.8
Q ss_pred chHHHHHHHHHHHccchhhhhhhhhHHHHHHHHHh-hhhcccceeeecCccchhhhhhhhhhhe
Q 028177 129 NIAFLLLEELLLQFKGVAKVGELLRFEACMDIMDL-LYEKEETSTLYRSPRSLAASTLIASYLI 191 (212)
Q Consensus 129 pia~tfLeel~~qf~~vakvg~l~~~e~cm~imdl-lye~e~ts~l~~sp~slaas~lv~~y~~ 191 (212)
||++.||+.+ .+..+.++- --..+.-++|+ |++.+ ++=-.|--+||+.+..+-.+
T Consensus 1 PTp~~Fl~~~-~~~~~~~~~----~~~~a~~l~el~l~~~~---fl~~~PS~iAaAai~lA~~~ 56 (118)
T PF02984_consen 1 PTPYDFLRRF-LKISNADQE----VRNLARYLLELSLLDYE---FLQYPPSVIAAAAILLARKI 56 (118)
T ss_dssp --HHHHHHHH-HTSSSHHHH----HHHHHHHHHHHHHHSHH---HTTS-HHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHH-HHHcCCcHH----HHHHHHHHHHHHHhhcc---ccCCCHHHHHHHHHHHHHHH
Confidence 7899999999 776554321 22334445554 33332 32334455565555554444
No 21
>cd08203 SAM_PNT Sterile alpha motif (SAM)/Pointed domain. Sterile alpha motif (SAM)/Pointed domain is found in about 40% of transcriptional regulators of ETS family (initially named for Erythroblastosis virus, E26-E Twenty Six). SAM Pointed domain containing proteins of this family additionally have C-terminal ETS DNA-binding domain. In a few cases, SAM Pointed domain appears as a single domain protein. Members of this group are mostly involved in regulation of embryonic development and growth control in eukaryotes. SAM Pointed domains mediate protein-protein interactions. Depending on the subgroup, they can interact with other SAM Pointed domains forming homo or hetero dimers/oligomers and/or they can recruit a protein kinase to its target which can be the SAM Pointed domain containing protein itself or another protein that has no kinase docking site. Thus, SAM Pointed domains participate in transcriptional regulation and signal transduction. Some genes coding ETS family transcripti
Probab=58.61 E-value=7.8 Score=27.76 Aligned_cols=23 Identities=9% Similarity=0.445 Sum_probs=21.6
Q ss_pred hhhhHHHHHHHHHHhhhcceecc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSP 26 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p 26 (212)
-+|++.+..+||..++.+++|.+
T Consensus 3 ~~Wt~~~V~~Wl~w~~~~f~L~~ 25 (66)
T cd08203 3 RLWTKEHVLQWLEWAVKEFSLPP 25 (66)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCC
Confidence 37999999999999999999998
No 22
>cd08757 SAM_PNT_ESE Sterile alpha motif (SAM)/Pointed domain of ESE-like ETS transcriptional regulators. SAM Pointed domain of ESE-like (Epithelium-Specific ETS) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. It can act as a major transactivator by providing a potential docking site for co-activators. ETS factors are important for cell differentiation. They can be involved in regulation of gene expression in different types of epithelial cells. They are expressed in salivary gland, intestine, stomach, pancreas, lungs, kidneys, colon, mammary gland, and prostate. Members of this group are proto-oncogenes. Expression profiles of these factors are altered in epithelial cancers, which makes them potential targets for cancer therapy.
Probab=56.87 E-value=8.3 Score=27.97 Aligned_cols=23 Identities=17% Similarity=0.344 Sum_probs=20.7
Q ss_pred hhhhHHHHHHHHHHhhhcceecc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSP 26 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p 26 (212)
.+|++.+..+||..+++++++.+
T Consensus 3 ~~Wt~~~V~~Wl~w~~~e~~l~~ 25 (68)
T cd08757 3 QYWTKNDVLEWLQFVAEQNKLDA 25 (68)
T ss_pred hhCCHHHHHHHHHHHHHHcCCCC
Confidence 47999999999999999988875
No 23
>cd08536 SAM_PNT-Mae Sterile alpha motif (SAM)/Pointed domain of Mae protein homolog. Mae (Modulator of the Activity of ETS) subfamily represents a group of SAM Pointed monodomain proteins. SAM Pointed domain is a protein-protein interaction domain. It can interact with other SAM pointed domains forming head-to-tail heterodimers and also provides a kinase docking site. For example, in Drosophila Mae is required for facilitating phosphorylation of the Yan factor and for blocking phosphorylation of the ETS-2 regulator. Mae interacts with the SAM Pointed domains of Yan and ETS-2. Binding enhances access of the kinase to the Yan phosphorylation site by providing a kinase docking site, or inhibits phosphorylation of ETS-2 by blocking its docking site. This type of factors participates in regulation of kinase signaling particularly during embryogenesis.
Probab=56.38 E-value=8.4 Score=28.12 Aligned_cols=24 Identities=8% Similarity=0.286 Sum_probs=22.3
Q ss_pred hhhhHHHHHHHHHHhhhcceeccc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSPI 27 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p~ 27 (212)
.+|++.+...||.-++.+++|.++
T Consensus 3 ~~Ws~~~V~~WL~w~~~ef~L~~~ 26 (66)
T cd08536 3 RSWSREHVRTWLRWVSARYQLEVV 26 (66)
T ss_pred ccCCHHHHHHHHHHHHHHhCCCCC
Confidence 479999999999999999999994
No 24
>cd08535 SAM_PNT-Tel_Yan Sterile alpha motif (SAM)/Pointed domain of Tel/Yan protein. SAM Pointed domain of Tel (Translocation, Ets, Leukemia)/Yan subfamily of ETS transcriptional repressors is a protein-protein interaction domain. SAM Pointed domains of this type of regulators can interact with each other, forming head-to-tail homodimers or homooligomers, and/or interact with SAM Pointed domains of another subfamily of ETS factors forming heterodimers. The oligomeric form is able to block transcription of target genesand is involved in MAPK signaling. They participate in regulation of different processes during embryo development including hematopoietic differentiation and eye development. Tel/Yan transcriptional factors are frequent targets of chromosomal translocations resulting in fusions of SAM domain with new neighboring genes. Such chimeric proteins were found in different tumors. Members of this subfamily are potential targets for cancer therapy.
Probab=55.48 E-value=9.3 Score=28.08 Aligned_cols=26 Identities=15% Similarity=0.449 Sum_probs=22.9
Q ss_pred hhhhhHHHHHHHHHHhhhcceeccce
Q 028177 3 AIEWSWSRLMEFMIQSAHQLEVSPIV 28 (212)
Q Consensus 3 ~~~~~r~~LVdfLve~a~~lel~p~t 28 (212)
-.+|++.+..+||.-+..+|+|.|+-
T Consensus 3 P~~Wt~~~V~~WL~wa~~ef~L~~i~ 28 (68)
T cd08535 3 PRYWSRDDVLQWLRWAENEFSLPPID 28 (68)
T ss_pred hhhCCHHHHHHHHHHHHHhcCCCCCC
Confidence 35899999999999999999998843
No 25
>smart00251 SAM_PNT SAM / Pointed domain. A subfamily of the SAM domain
Probab=53.95 E-value=10 Score=28.46 Aligned_cols=24 Identities=21% Similarity=0.533 Sum_probs=21.6
Q ss_pred hhhhHHHHHHHHHHhhhcceeccc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSPI 27 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p~ 27 (212)
.+|++.+..+||..++.++.|.++
T Consensus 18 ~~Wt~~~V~~Wl~w~~~ef~L~~~ 41 (82)
T smart00251 18 QLWTEDHVLEWLEWAVKEFSLSPI 41 (82)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCCC
Confidence 479999999999999999988764
No 26
>cd08531 SAM_PNT-ERG_FLI-1 Sterile alpha motif (SAM)/Pointed domain of ERG (Ets related gene) and FLI-1 (Friend leukemia integration 1) transcription factors. SAM Pointed domain of ERG/FLI-1 subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. The ERG and FLI regulators are involved in endothelial cell differentiation, bone morphogenesis and neural crest development. They are proto-oncogenes implicated in cancer development such as myeloid leukemia, Ewing's sarcoma and erythroleukemia. Members of this subfamily are potential targets for cancer therapy.
Probab=52.96 E-value=11 Score=28.26 Aligned_cols=23 Identities=4% Similarity=0.267 Sum_probs=21.2
Q ss_pred hhhhHHHHHHHHHHhhhcceecc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSP 26 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p 26 (212)
.+|++.+..+||.-++.+|.|.+
T Consensus 6 ~~Wt~~~V~~WL~Wa~~ef~L~~ 28 (75)
T cd08531 6 TLWTREHVRQWLEWAVKEYGLQD 28 (75)
T ss_pred hhcCHHHHHHHHHHHHHHcCCCC
Confidence 57999999999999999999955
No 27
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=52.57 E-value=1.3e+02 Score=28.52 Aligned_cols=107 Identities=18% Similarity=0.233 Sum_probs=66.8
Q ss_pred ccccchhHHHHHHHHHHhhhccCCCcchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccCC-cchHHHHHHHHHH
Q 028177 62 IRESNLQLFALIALWISSKIHDSRPVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIGT-SNIAFLLLEELLL 140 (212)
Q Consensus 62 v~~snLQLf~lislwIAsK~hE~~PlsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIgt-~pia~tfLeel~~ 140 (212)
++--|.+-++..|++|||.-++ -|=..++.+. ++. -++||+=+-=+.+++-|.=+... +.-+-.|..++-.
T Consensus 141 lrGks~eai~AAclyiACRq~~-~pRT~kEI~~-----~an--v~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs 212 (308)
T KOG1597|consen 141 LRGKSVEALAAACLYIACRQED-VPRTFKEISA-----VAN--VSKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCS 212 (308)
T ss_pred hcCccHHHHHHHHHHHHHHhcC-CCchHHHHHH-----HHc--CCHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHH
Confidence 4455788899999999998665 5778888886 333 57788877555555554332221 1225678888855
Q ss_pred HccchhhhhhhhhHHHHHHHHHhhhhcccceeee-cCccchhhhh
Q 028177 141 QFKGVAKVGELLRFEACMDIMDLLYEKEETSTLY-RSPRSLAAST 184 (212)
Q Consensus 141 qf~~vakvg~l~~~e~cm~imdllye~e~ts~l~-~sp~slaas~ 184 (212)
.++ |+.++=+..-.+-=..++.-.+= |||.|+||++
T Consensus 213 ~L~--------L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~ 249 (308)
T KOG1597|consen 213 NLG--------LPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAA 249 (308)
T ss_pred hcC--------CCHHHHHHHHHHHHHHHHhccccCCCchhHHHHH
Confidence 443 44444444444444444444543 9999996653
No 28
>cd08534 SAM_PNT-GABP-alpha Sterile alpha motif (SAM)/Pointed domain of GA-binding protein alpha chain. SAM Pointed domain of GABP-alpha subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. This type of transcriptional regulators forms heterotetramers containing two alpha and two beta subunits. It interacts with GA repeats (purine rich repeats). GABP transcriptional factors control gene expression in cell cycle control, apoptosis, and cellular respiration. GABP participates in regulation of transmembrane receptors and key hormones especially in myeloid cells and at the neuromuscular junction.
Probab=51.62 E-value=11 Score=29.11 Aligned_cols=24 Identities=13% Similarity=0.590 Sum_probs=22.0
Q ss_pred hhhhHHHHHHHHHHhhhcceeccc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSPI 27 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p~ 27 (212)
.+|++.+...||.-+..+|.|.++
T Consensus 20 ~~Wt~~~V~~WL~Wa~~ef~L~~v 43 (89)
T cd08534 20 MEWTEDQVLHWVVWAVKEFSLTDI 43 (89)
T ss_pred HHcCHHHHHHHHHHHHHHcCCCCC
Confidence 479999999999999999999765
No 29
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=51.11 E-value=14 Score=36.34 Aligned_cols=62 Identities=26% Similarity=0.413 Sum_probs=52.4
Q ss_pred ccccchhHHHHHHHHHHhhhccCCCcchhhhhhcccccccCCccchHHHHHHHHHHHHHhhcccC
Q 028177 62 IRESNLQLFALIALWISSKIHDSRPVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVLDFEIG 126 (212)
Q Consensus 62 v~~snLQLf~lislwIAsK~hE~~PlsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL~FeIg 126 (212)
++.+|=.|.+-+|+++|+||.|.+.=.|+++- ||.=.---+++||++.-|.-+|-+|.|-+-
T Consensus 419 isK~NRKlcAGAclLlaaKmnD~Kks~vKslI---ek~Ee~fR~nrrdLia~Ef~VlvaLefaL~ 480 (497)
T KOG4164|consen 419 ISKQNRKLCAGACLLLAAKMNDLKKSTVKSLI---EKLEEQFRLNRRDLIAFEFPVLVALEFALH 480 (497)
T ss_pred hhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHH---HHHHHHhcccHHhhhhhhhhHHHhhhhhcc
Confidence 78899999999999999999998887777765 333333357899999999999999999887
No 30
>PF02198 SAM_PNT: Sterile alpha motif (SAM)/Pointed domain; InterPro: IPR003118 Transcription factors are protein molecules that bind to specific DNA sequences in the genome, resulting in the induction or inhibition of gene transcription []. The ets oncogene is such a factor, possessing a region of 85-90 amino acids known as the ETS (erythroblast transformation specific) domain [, ]. This domain is rich in positively-charged and aromatic residues, and binds to purine-rich segments of DNA. The ETS domain IPR000418 from INTERPRO has been identified in other transcription factors such as PU.1, human erg, human elf-1, human elk-1, GA binding protein, and a number of others [, , ]. It is generally localized at the C terminus of the protein, with the exception of ELF-1, ELK-1, ELK-3, ELK-4 and ERF where it is found at the N terminus. This entry describes the highly conserved PNT (or Pointed) domain which is found within a subset of the ETs domain (IPR000418 from INTERPRO ), including mammalian Ets-1, Ets-2, Erg, Fli-1, GABPalpha, and Tel, as well as Drosophila Pnt-P2 and Yan. The PNT domain (IPR001660 from INTERPRO ) through a common tertiary arrangement of four alpha-helices. A role in protein-protein association has been established for the PNT domain [, ].; GO: 0043565 sequence-specific DNA binding, 0005634 nucleus; PDB: 1SXE_A 1SXD_A 2KMD_A 2JV3_A 2E8P_A 1SV4_B 1SV0_B 1LKY_F 1JI7_B 2DKX_A ....
Probab=50.60 E-value=13 Score=27.39 Aligned_cols=23 Identities=4% Similarity=0.336 Sum_probs=18.0
Q ss_pred hhhhHHHHHHHHHHhhhcceecc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSP 26 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p 26 (212)
-+|++.+..+||..+++++++.+
T Consensus 18 ~~Wt~~~V~~Wl~w~~~~f~l~~ 40 (84)
T PF02198_consen 18 RLWTKEDVLQWLRWVVREFDLPA 40 (84)
T ss_dssp GG--HHHHHHHHHHHHHHTT-SS
T ss_pred hhCCHHHHHHHHHHHHHhcCCCc
Confidence 37999999999999999988875
No 31
>cd08532 SAM_PNT-PDEF-like Sterile alpha motif (SAM)/Pointed domain of prostate-derived ETS factor. SAM Pointed domain of PDEF-like (Prostate-Derived ETS Factor) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. In human males this activator is highly expressed in the prostate gland and enhances androgen-mediated activation of the PSA promoter though interaction with the DNA binding domain of androgen receptor. PDEF may play a role in prostate cancer development as well as in goblet cell formation and mucus production in the epithelial lining of respiratory and intestinal tracts.
Probab=46.53 E-value=15 Score=27.61 Aligned_cols=23 Identities=22% Similarity=0.619 Sum_probs=21.7
Q ss_pred hhhhHHHHHHHHHHhhhcceecc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSP 26 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p 26 (212)
.+||+.+..+||..++.+++|.+
T Consensus 11 ~~Ws~~~V~~WL~w~~~ef~L~~ 33 (76)
T cd08532 11 YQWSPANVQKWLLWTEHQYRLPP 33 (76)
T ss_pred hhcCHHHHHHHHHHHHHHhCCCC
Confidence 47999999999999999999987
No 32
>cd08533 SAM_PNT-ETS-1,2 Sterile alpha motif (SAM)/Pointed domain of ETS-1,2 family. SAM Pointed domain of ETS-1,2 family of transcriptional activators is a protein-protein interaction domain. It carries a kinase docking site and mediates interaction between ETS transcriptional activators and protein kinases. This group of transcriptional factors is involved in the Ras/MAP kinase signaling pathway. MAP kinases phosphorylate the transcription factors. Phosphorylated factors then recruit coactivators and enhance transactivation. Members of this group play a role in regulation of different embryonic developmental processes. ETS-1,2 transcriptional activators are proto-oncogenes involved in malignant transformation and tumor progression. They are potential molecular targets for selective cancer therapy.
Probab=46.28 E-value=16 Score=27.21 Aligned_cols=24 Identities=4% Similarity=0.368 Sum_probs=21.9
Q ss_pred hhhhHHHHHHHHHHhhhcceeccc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSPI 27 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p~ 27 (212)
.+|++.+...||.-+.++|+|..+
T Consensus 5 ~~Wt~~~V~~WL~Wa~~ef~L~~v 28 (71)
T cd08533 5 RLWTETHVRQWLLWAVNEFSLEGV 28 (71)
T ss_pred hhCCHHHHHHHHHHHHHHcCCCCC
Confidence 579999999999999999999764
No 33
>cd08540 SAM_PNT-ERG Sterile alpha motif (SAM)/Pointed domain of ERG transcription factor. SAM Pointed domain of ERG subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. It may participate in formation of homodimers or heterodimers with ETS-2, Fli-1, ER81, and Pu-1. However, dimeric forms are inactive and SAM Pointed domain is not essential for dimerization, since ER81 and Pu-1 do not have it. In mouse, a regulator of this type binds the ESET histone H3-specific methyltransferase (human homolog is SETDB1), followed by modification of local chromatin structure through histone methylation. ERG regulators are involved in endothelial cell differentiation, bone morphogenesis and neural crest development. The Erg gene is a proto-oncogene. It is a target of chromosomal translocations resulting in fusions with new neighboring genes. Chimeric proteins were found in solid tumors such as myeloid leukemia or Ewing's sarcoma. Members of this subfamily are po
Probab=45.58 E-value=16 Score=27.43 Aligned_cols=25 Identities=8% Similarity=0.239 Sum_probs=22.5
Q ss_pred hhhhHHHHHHHHHHhhhcceeccce
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSPIV 28 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p~t 28 (212)
.+|++.+..+||.-+..+|.|.+.-
T Consensus 6 ~~Wt~~~V~~WL~Wa~~ef~L~~~~ 30 (75)
T cd08540 6 TLWSTDHVRQWLEWAVKEYGLPDVD 30 (75)
T ss_pred hhcCHHHHHHHHHHHHHHhCCCCCC
Confidence 5799999999999999999997743
No 34
>cd08543 SAM_PNT-ETS-2 Sterile alpha motif (SAM)/Pointed domain of ETS-2. SAM Pointed domain of ETS-2 subfamily of ETS transcriptional regulators is a protein-protein interaction domain. It contains a docking site for Cdk10 (cyclin-dependent kinase 10), a member of the Cdc2 kinase family. The interaction between ETS-2 and Cdk10 kinase inhibits ETS-2 transactivation activity in mammals. ETS-2 is also regulated by ERK2 MAP kinase. ETS-2, which is phosphorylated by ERK2, can interact with coactivators and enhance transactivation. ETS-2 transcriptional activators are involved in embryonic development and cell cycle control. The Ets-2 gene is a proto-oncogene. It is overexpressed in breast and prostate cancer cells and its overexpression is necessary for transformation of such cells. Members of ETS-2 subfamily are potential molecular targets for selective cancer therapy.
Probab=41.38 E-value=20 Score=27.97 Aligned_cols=25 Identities=4% Similarity=0.337 Sum_probs=22.5
Q ss_pred hhhhHHHHHHHHHHhhhcceeccce
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSPIV 28 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p~t 28 (212)
.+|++.+...||.-+.++|.|.++.
T Consensus 20 ~~Wt~~~V~~WL~Wa~~ef~L~~i~ 44 (89)
T cd08543 20 WLWTEQQVCQWLLWATNEFSLVNVN 44 (89)
T ss_pred hhCCHHHHHHHHHHHHHHcCCCCCC
Confidence 5899999999999999999998743
No 35
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=40.75 E-value=18 Score=28.16 Aligned_cols=27 Identities=41% Similarity=0.661 Sum_probs=20.1
Q ss_pred HHccchhh--hhhhhhHHHHHHHHHhhhhcccce
Q 028177 140 LQFKGVAK--VGELLRFEACMDIMDLLYEKEETS 171 (212)
Q Consensus 140 ~qf~~vak--vg~l~~~e~cm~imdllye~e~ts 171 (212)
+-.+|++| |||++ |.+.+++| |.+|+.
T Consensus 48 i~v~g~aKvFVGEiV--E~A~~Vq~---~~~~~~ 76 (90)
T PF04719_consen 48 IAVAGIAKVFVGEIV--EEARDVQE---EWGETG 76 (90)
T ss_dssp HHHHHHHHHHHHHHH--HHHHHHHH---HTT--S
T ss_pred HHHHHHHHHHHHHHH--HHHHHHHH---HhcCCC
Confidence 55699999 99997 67889998 666554
No 36
>cd08542 SAM_PNT-ETS-1 Sterile alpha motif (SAM)/Pointed domain of ETS-1. SAM Pointed domain of ETS-1 subfamily of ETS transcriptional activators is a protein-protein interaction domain. The ETS-1 activator is regulated by phosphorylation. It contains a docking site for the ERK2 MAP (Mitogen Activated Protein) kinase, while the ERK2 phosphorylation site is located in the N-terminal disordered region upstream of the SAM Pointed domain. Mutations of the kinase docking site residues inhibit phosphorylation. ETS-1 activators play role in a number of different physiological processes, and they are expressed during embryonic development, including blood vessel formation, hematopoietic, lymphoid, neuronal and osteogenic differentiation. The Ets-1 gene is a proto-oncogene involved in progression of different tumors (including breast cancer, meningioma, and prostate cancer). Members of this subfamily are potential molecular targets for selective cancer therapy.
Probab=37.54 E-value=25 Score=27.35 Aligned_cols=24 Identities=4% Similarity=0.422 Sum_probs=22.0
Q ss_pred hhhhHHHHHHHHHHhhhcceeccc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSPI 27 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p~ 27 (212)
.+|++.+..+||.-+.++|.|.++
T Consensus 20 ~~Wt~~~V~~WL~Wa~~ef~L~~i 43 (88)
T cd08542 20 RQWTETHVRDWVMWAVNEFSLKGV 43 (88)
T ss_pred hhCCHHHHHHHHHHHHHHcCCCCC
Confidence 579999999999999999999865
No 37
>cd08541 SAM_PNT-FLI-1 Sterile alpha motif (SAM)/Pointed domain of friend leukemia integration 1 transcription activator. SAM Pointed domain of FLI-1 (Friend Leukemia Integration) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. The FLI-1 protein participates in regulation of cellular differentiation, proliferation, and survival. The Fli-1 gene was initially described in Friend virus-induced erythroleukemias as a site for virus integration. It is highly expressed in hematopoietic tissues and at lower level in lungs, heart, and ovaries. Fli-1 is a proto-oncogene implicated in Ewing's sarcoma and erythroleukemia. Members of this subfamily are potential targets for cancer therapy.
Probab=36.28 E-value=27 Score=27.31 Aligned_cols=23 Identities=4% Similarity=0.218 Sum_probs=21.2
Q ss_pred hhhhHHHHHHHHHHhhhcceecc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSP 26 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p 26 (212)
.+|++.+..+||.-+..+++|.+
T Consensus 18 ~~Wt~~hV~~WL~Wa~~ef~L~~ 40 (91)
T cd08541 18 TLWTQEHVRQWLEWAIKEYGLME 40 (91)
T ss_pred hhcCHHHHHHHHHHHHHHcCCCC
Confidence 57999999999999999999964
No 38
>cd08539 SAM_PNT-ESE-3-like Sterile alpha motif (SAM)/Pointed domain of ESE-3 like ETS transcriptional regulators. SAM Pointed domain of ESE-3-like (Epithelium-Specific ETS) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. It can act as a major transactivator by providing a potential docking site for co-activators. The ESE-3 transcriptional activator is involved in regulation of glandular epithelium differentiation through the MAP kinase signaling cascade. It is found to be expressed in glandular epithelium of prostate, pancreas, salivary gland, and trachea. Additionally, ESE-3 is differentially expressed during monocyte-derived dendritic cells development. DNA binding consensus motif for ESE-3 consists of purine-rich GGAA/T core sequence. The expression profiles of these factors are altered in epithelial cancers. Members of this subfamily are potential targets for cancer therapy.
Probab=32.72 E-value=33 Score=26.10 Aligned_cols=22 Identities=9% Similarity=0.268 Sum_probs=17.4
Q ss_pred hhhHHHHHHHHHHhhhcceecc
Q 028177 5 EWSWSRLMEFMIQSAHQLEVSP 26 (212)
Q Consensus 5 ~~~r~~LVdfLve~a~~lel~p 26 (212)
.|++.+..+||..++++.++.+
T Consensus 7 ~Wtk~~V~~WL~~~~~~~~~~~ 28 (74)
T cd08539 7 YWTKYQVWEWLQHLLDTNQLDA 28 (74)
T ss_pred hCCHHHHHHHHHHHHHHcCCCc
Confidence 5999999999999955554443
No 39
>cd08538 SAM_PNT-ESE-2-like Sterile alpha motif (SAM)/Pointed domain of ESE-2 like ETS transcriptional regulators. SAM Pointed domain of ESE-2-like (Epithelium-Specific ETS) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. It can act as a major transactivator by providing a potential docking site for co-activators. ESE-2 factors are involved in regulation of gene expression in a variety of epithelial (glandular and secretory) cells. ESE-2 mRNA was found in skin keratinocytes, salivary gland, mammary gland, stomach, prostate, and kidneys. The DNA binding consensus motif for ESE-2 consists of a GGA core and AT-rich flanks. The expression profiles of these factors are altered in epithelial cancers. Members of this subfamily are potential targets for cancer therapy.
Probab=25.55 E-value=51 Score=25.14 Aligned_cols=23 Identities=13% Similarity=0.306 Sum_probs=21.4
Q ss_pred hhhhHHHHHHHHHHhhhcceecc
Q 028177 4 IEWSWSRLMEFMIQSAHQLEVSP 26 (212)
Q Consensus 4 ~~~~r~~LVdfLve~a~~lel~p 26 (212)
.+|+..+..+||.-+.+++.|.+
T Consensus 8 ~~Ws~~~V~~WL~Wav~ef~L~~ 30 (78)
T cd08538 8 EYWTKRHVWEWLQFCCDQYKLDA 30 (78)
T ss_pred cccCHHHHHHHHHHHHHHcCCCc
Confidence 57999999999999999999976
No 40
>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=23.89 E-value=70 Score=22.20 Aligned_cols=61 Identities=11% Similarity=0.219 Sum_probs=36.2
Q ss_pred HhhhcceeccceeeehhhhhhhhhcCCcccccccCCCCCccccccccccchhHHHHHHHHHHhhhccCCCcchhhhhhc
Q 028177 17 QSAHQLEVSPIVKYSALSLFADRFFPSLTRYTVGSNGKGNWLLQPIRESNLQLFALIALWISSKIHDSRPVSVKSFKSL 95 (212)
Q Consensus 17 e~a~~lel~p~tkYlAvS~f~DRFLpsl~r~~~~~~~~~~wll~pv~~snLQLf~lislwIAsK~hE~~PlsV~slk~~ 95 (212)
+.+.+|+|++.+.=.|..+ +++-... . + .+--+-.-++..++++||+.+. .|.+.+++...
T Consensus 3 r~~~~L~L~~~v~~~A~~i-~~~~~~~--~-----------~---~~Gr~~~~iaAA~iY~acr~~~-~~~t~~eIa~~ 63 (71)
T PF00382_consen 3 RICSKLGLPEDVRERAKEI-YKKAQER--G-----------L---LKGRSPESIAAACIYLACRLNG-VPRTLKEIAEA 63 (71)
T ss_dssp HHHHHTT--HHHHHHHHHH-HHHHHHT--T-----------T---STTS-HHHHHHHHHHHHHHHTT-SSSSHHHHHHH
T ss_pred HHHhHcCCCHHHHHHHHHH-HHHHHHc--C-----------C---cccCCHHHHHHHHHHHHHHHcC-CCcCHHHHHHH
Confidence 3466777777776667666 3333222 1 1 1222356778889999999885 45677777653
No 41
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=23.00 E-value=59 Score=25.04 Aligned_cols=26 Identities=27% Similarity=0.488 Sum_probs=22.8
Q ss_pred HHHHHHHHhhhhcccceeeecCccch
Q 028177 155 EACMDIMDLLYEKEETSTLYRSPRSL 180 (212)
Q Consensus 155 e~cm~imdllye~e~ts~l~~sp~sl 180 (212)
..|+.|+|=|+..++.|+.|+.|..-
T Consensus 6 ~~~~~il~~l~~~~~~s~~F~~PV~~ 31 (108)
T cd05495 6 QALMPTLEKLYKQDPESLPFRQPVDP 31 (108)
T ss_pred HHHHHHHHHHHHcCcccchhcCCCCc
Confidence 57999999999998888889999753
No 42
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=22.86 E-value=1.3e+02 Score=21.90 Aligned_cols=69 Identities=14% Similarity=0.236 Sum_probs=50.4
Q ss_pred HHHHHHHHhhhccCCCcchhhhhhcccccccCCccchHHHHHHHHHHHHHh-hcccCCcchHHHHHHHHHHH
Q 028177 71 ALIALWISSKIHDSRPVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVFMQVL-DFEIGTSNIAFLLLEELLLQ 141 (212)
Q Consensus 71 ~lislwIAsK~hE~~PlsV~slk~~~d~~ItDq~yT~rdfleaE~~fLkVL-~FeIgt~pia~tfLeel~~q 141 (212)
-++...+.+-+|+ .+..-+-...+....++.+..+..+|.++=..+++.+ |..+. .|-+..++-+++.+
T Consensus 36 ~vv~~~l~~~le~-~~~~r~~~~~Ll~~L~~~~~~~~~~~~~gf~~~l~~l~Dl~~D-~P~~~~~la~~~~~ 105 (113)
T PF02847_consen 36 EVVKVILECALEE-KKSYREYYSKLLSHLCKRKLISKEQFQEGFEDLLESLEDLELD-IPKAPEYLAKFLAR 105 (113)
T ss_dssp HHHHHHHHHHHTS-SHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHH-STTHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhc-cHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhHhhhcccc-chHHHHHHHHHHHH
Confidence 3556667777776 4455555556666778889999999999977888877 67777 59899888888554
No 43
>PF15294 Leu_zip: Leucine zipper
Probab=21.68 E-value=63 Score=29.90 Aligned_cols=69 Identities=26% Similarity=0.374 Sum_probs=41.3
Q ss_pred hhhcccccccCCccchHHHHHH----HHHHHHHhhcc-cCCcchHHHHHHHHHHHccchh------hhhhhhhHHHHHHH
Q 028177 92 FKSLGDKIIKDEHFTTRDFLEA----EIVFMQVLDFE-IGTSNIAFLLLEELLLQFKGVA------KVGELLRFEACMDI 160 (212)
Q Consensus 92 lk~~~d~~ItDq~yT~rdflea----E~~fLkVL~Fe-Igt~pia~tfLeel~~qf~~va------kvg~l~~~e~cm~i 160 (212)
|..+-+-..-|++||.++|-+| +.++=.-++-| |++..+.-..|+++|.|=. .. -++++-|-|.=-+|
T Consensus 17 F~Dlk~srL~e~t~T~~EV~~~ldgL~~~v~~~vesEL~N~~htn~lllrql~~qAe-k~~lkl~~diselEn~eLLe~i 95 (278)
T PF15294_consen 17 FQDLKSSRLREDTYTSDEVTEMLDGLQVVVKSEVESELINTSHTNVLLLRQLFSQAE-KWYLKLQTDISELENRELLEQI 95 (278)
T ss_pred hhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHhHHHHHHHHHHHHH-HHHHHhcccHHHHHHHHHHHHH
Confidence 4443345556899999998888 22222223334 3445667778999988722 22 26677776655444
Q ss_pred H
Q 028177 161 M 161 (212)
Q Consensus 161 m 161 (212)
-
T Consensus 96 ~ 96 (278)
T PF15294_consen 96 A 96 (278)
T ss_pred H
Confidence 4
No 44
>cd05505 Bromo_WSTF_like Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=21.57 E-value=75 Score=24.15 Aligned_cols=26 Identities=19% Similarity=0.404 Sum_probs=21.3
Q ss_pred HHHHHHHHHhhhhcccceeeecCccch
Q 028177 154 FEACMDIMDLLYEKEETSTLYRSPRSL 180 (212)
Q Consensus 154 ~e~cm~imdllye~e~ts~l~~sp~sl 180 (212)
.++|.+|+|-|...+. |..|..|..-
T Consensus 2 ~~~c~~il~~l~~~~~-s~~F~~pv~~ 27 (97)
T cd05505 2 LQKCEEILSKILKYRF-SWPFREPVTA 27 (97)
T ss_pred HHHHHHHHHHHHhCCC-cccccCCCCh
Confidence 5899999999998765 5669999863
No 45
>PF10436 BCDHK_Adom3: Mitochondrial branched-chain alpha-ketoacid dehydrogenase kinase; InterPro: IPR018955 Catabolism and synthesis of leucine, isoleucine and valine are finely balanced, allowing the body to make the most of dietary input but removing excesses to prevent toxic build-up of their corresponding keto-acids. Regulating the activity of the branched-chain alpha-ketoacid dehydrogenase (BCDH) complex is the primary means by which these processes are coordinated. BCDH kinase regulates BCDH by phosphorylation, thereby inactivating it when synthesis is required. Pyruvate dehydrogenase kinase inhibits the pyruvate dehydrogenase complex by phosphorylation of the E1 alpha subunit, thus contributing to the regulation of glucose metabolism. It is also involved in telomere maintenance. This entry is associated with IPR003594 from INTERPRO which is found towards the C terminus. ; PDB: 1GKX_A 1GJV_A 1GKZ_A 1JM6_B 3CRL_B 3CRK_B 1Y8O_A 2PNR_A 1Y8P_A 1Y8N_A ....
Probab=21.28 E-value=59 Score=26.88 Aligned_cols=47 Identities=19% Similarity=0.364 Sum_probs=36.0
Q ss_pred CCcchhhhhhcccccccCCccchHHHHHHHHHH--------HHHhhcccCCcchH
Q 028177 85 RPVSVKSFKSLGDKIIKDEHFTTRDFLEAEIVF--------MQVLDFEIGTSNIA 131 (212)
Q Consensus 85 ~PlsV~slk~~~d~~ItDq~yT~rdfleaE~~f--------LkVL~FeIgt~pia 131 (212)
.|+|.+.|..+|.+.-.++.++.-+|+..|+-+ |+-|=|.+++.|-.
T Consensus 1 tplSL~~L~~fg~~~~~~~l~~sa~fl~~ELpvRlA~ri~~l~~LP~~l~~~p~i 55 (164)
T PF10436_consen 1 TPLSLKQLLQFGRNPTEETLLQSAQFLRRELPVRLAHRIRELQNLPYILVSNPSI 55 (164)
T ss_dssp --EBHHHHHHHHCTCCHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-HHHHTSHHH
T ss_pred CCcCHHHHHHhCCCCCccchhhHHHHHHHHHHHHHHHHHHHHHhCChhhccChhH
Confidence 489999999999987777788899999998754 55688888876644
Done!