Query 046440
Match_columns 284
No_of_seqs 218 out of 1677
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 12:07:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046440.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046440hhsearch_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 8.7E-44 1.9E-48 324.1 22.9 268 8-280 9-330 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 3.2E-35 6.8E-40 262.3 16.8 200 29-239 111-339 (408)
3 KOG0653 Cyclin B and related k 100.0 1.8E-30 3.9E-35 245.9 17.9 202 28-239 124-349 (391)
4 COG5024 Cyclin [Cell division 100.0 1.9E-30 4E-35 244.7 13.9 204 27-240 177-404 (440)
5 KOG0654 G2/Mitotic-specific cy 99.9 1.1E-25 2.3E-30 207.3 7.2 201 30-239 102-326 (359)
6 TIGR00569 ccl1 cyclin ccl1. Un 99.9 5E-24 1.1E-28 194.7 15.9 208 64-275 54-301 (305)
7 PF00134 Cyclin_N: Cyclin, N-t 99.8 3.2E-20 7E-25 148.5 12.3 107 33-145 1-127 (127)
8 KOG0834 CDK9 kinase-activating 99.8 3.5E-19 7.6E-24 163.0 14.8 178 62-242 35-252 (323)
9 KOG0835 Cyclin L [General func 99.8 3E-18 6.4E-23 153.8 17.1 172 61-237 18-231 (367)
10 KOG0794 CDK8 kinase-activating 99.7 7.7E-16 1.7E-20 132.4 12.6 170 64-239 39-242 (264)
11 COG5333 CCL1 Cdk activating ki 99.7 3.9E-16 8.5E-21 140.0 10.1 140 62-205 41-205 (297)
12 PF02984 Cyclin_C: Cyclin, C-t 99.4 8.1E-13 1.8E-17 103.8 6.5 90 147-239 1-93 (118)
13 PRK00423 tfb transcription ini 99.3 1.2E-10 2.6E-15 107.5 18.6 163 67-235 123-304 (310)
14 KOG2496 Cdk activating kinase 99.3 1.4E-10 3E-15 103.9 15.0 131 69-203 59-219 (325)
15 cd00043 CYCLIN Cyclin box fold 99.3 4E-11 8.6E-16 88.3 9.4 73 66-142 2-74 (88)
16 smart00385 CYCLIN domain prese 99.1 3.7E-10 8E-15 82.2 6.0 57 71-130 1-57 (83)
17 COG1405 SUA7 Transcription ini 98.4 3.5E-05 7.5E-10 70.3 17.3 161 66-232 97-276 (285)
18 KOG1597 Transcription initiati 98.1 0.00011 2.5E-09 66.1 13.9 161 69-236 107-289 (308)
19 smart00385 CYCLIN domain prese 97.9 4.6E-05 9.9E-10 54.9 7.5 78 151-232 1-82 (83)
20 cd00043 CYCLIN Cyclin box fold 97.9 9.3E-05 2E-09 53.8 8.6 82 146-231 2-87 (88)
21 PF08613 Cyclin: Cyclin; Inte 97.5 0.00064 1.4E-08 56.2 8.5 74 68-144 53-149 (149)
22 KOG1598 Transcription initiati 97.4 0.001 2.2E-08 64.5 10.0 130 72-205 73-222 (521)
23 KOG4164 Cyclin ik3-1/CABLES [C 97.1 0.00039 8.5E-09 64.8 3.6 77 68-147 384-482 (497)
24 PF00382 TFIIB: Transcription 96.2 0.026 5.7E-07 40.3 6.9 55 73-130 1-55 (71)
25 PF00382 TFIIB: Transcription 92.8 0.62 1.3E-05 33.1 6.9 50 154-206 2-51 (71)
26 PRK00423 tfb transcription ini 92.8 0.58 1.2E-05 43.3 8.4 57 70-129 220-276 (310)
27 KOG1674 Cyclin [General functi 89.4 1.1 2.3E-05 39.5 6.3 79 69-147 78-181 (218)
28 COG1405 SUA7 Transcription ini 84.0 3.5 7.5E-05 37.8 6.7 57 68-127 193-249 (285)
29 PF02984 Cyclin_C: Cyclin, C-t 79.9 2.5 5.4E-05 32.2 3.7 55 70-127 4-58 (118)
30 KOG0834 CDK9 kinase-activating 73.8 1.9 4E-05 40.2 1.6 57 66-125 152-208 (323)
31 PF00134 Cyclin_N: Cyclin, N-t 55.1 38 0.00083 26.0 5.7 40 167-206 49-88 (127)
32 PF09080 K-cyclin_vir_C: K cyc 50.6 1.1E+02 0.0023 23.1 9.0 85 149-233 4-97 (106)
33 KOG0835 Cyclin L [General func 50.4 35 0.00076 31.9 5.3 42 87-131 161-202 (367)
34 TIGR00569 ccl1 cyclin ccl1. Un 43.9 1E+02 0.0022 28.5 7.4 38 169-206 78-115 (305)
35 KOG0794 CDK8 kinase-activating 34.1 97 0.0021 27.7 5.2 48 83-133 168-215 (264)
36 KOG1597 Transcription initiati 31.7 2.3E+02 0.005 26.1 7.4 14 91-104 204-217 (308)
37 cd04441 DEP_2_DEP6 DEP (Dishev 29.6 48 0.001 24.6 2.3 29 67-96 36-64 (85)
38 PF01857 RB_B: Retinoblastoma- 29.3 1.6E+02 0.0035 23.8 5.5 69 69-141 14-84 (135)
39 cd04439 DEP_1_P-Rex DEP (Dishe 26.6 50 0.0011 24.2 2.0 30 66-96 31-60 (81)
40 cd04443 DEP_GPR155 DEP (Dishev 24.9 64 0.0014 23.8 2.3 30 66-96 33-62 (83)
41 cd04449 DEP_DEPDC5-like DEP (D 24.5 69 0.0015 23.4 2.4 32 66-97 32-63 (83)
42 cd04442 DEP_1_DEP6 DEP (Dishev 23.6 65 0.0014 23.7 2.1 29 67-96 32-60 (82)
43 KOG0656 G1/S-specific cyclin D 23.0 1.7E+02 0.0037 27.5 5.2 38 168-205 97-137 (335)
44 cd04438 DEP_dishevelled DEP (D 22.0 83 0.0018 23.2 2.4 33 66-98 32-64 (84)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=8.7e-44 Score=324.07 Aligned_cols=268 Identities=26% Similarity=0.349 Sum_probs=204.6
Q ss_pred CcccccCCCccccc---cccCC--C--------CCChHHHHHHHHHHhhccCCCCCCCCcccc-CCcChHHHHHHHHHHH
Q 046440 8 SGLLCPESKTCLDE---DSAVL--D--------VEDEDEYVNTLGDKEISFGFKRGETDKSVM-LSDDIKCARLEAIAWI 73 (284)
Q Consensus 8 ~~l~c~e~~~~~~~---~~~~~--~--------~~~~~e~l~~L~~~E~~~~~~~~~~~~~~~-~~~~~~~~R~~lvdWl 73 (284)
++|+|+|....... ..|.. . -.++||++..|+++|.++.| ..+|... +..+++.||.++++||
T Consensus 9 ~~l~c~E~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~e~~i~~ll~kEe~~~p---~~~~~~~~~~~~~~~~R~~A~~WI 85 (335)
T KOG0656|consen 9 SQLLCHEESTSDEQDRADNDESSTESSIPQLGFLLWDERVLANLLEKEEQHNP---SLDYFLCVQKLILSSMRKQALDWI 85 (335)
T ss_pred cccccCCCCcccccccccCCcccccccccccccccccHHHHHHHHHHHHHhCC---CCchhhhcccccccHHHHHHHHHH
Confidence 56999998865432 11111 1 24889999999999999755 3444443 4458999999999999
Q ss_pred HHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH--------------------
Q 046440 74 LNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG-------------------- 133 (284)
Q Consensus 74 ~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~-------------------- 133 (284)
.+||.++++.++|+++|+|||||||+.+.+++.+.|++||+|+|||+||||+||+.+|.+
T Consensus 86 l~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rm 165 (335)
T KOG0656|consen 86 LKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRM 165 (335)
T ss_pred HHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999998877
Q ss_pred -HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCC-cchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchh
Q 046440 134 -AHVINNNGLENGINHSISFLHHFIRKFCKDSSP-SNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQA 211 (284)
Q Consensus 134 -~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~-~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~ 211 (284)
+.||++|+|+|+.+||++|+++|+.+++..+.. ..+..++..++.....|..|+.|+||.||+|++..+.....+...
T Consensus 166 ELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~ 245 (335)
T KOG0656|consen 166 ELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDF 245 (335)
T ss_pred HHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhh
Confidence 999999999999999999999999999876443 567788899999999999999999999999999888765544322
Q ss_pred -----hhHhhcCCChhhHHHHHHHHHHHHHhhcCCC-------------CCCCCccccCCCCCCCCCCCCccccccCCCC
Q 046440 212 -----LESCCGFLEVGDVSTCYSIMQKLEMEKYKTP-------------DPSATHFGTANVSSSAVSSKRKRLTFNDSDQ 273 (284)
Q Consensus 212 -----~~~~~~~~~~~~l~~C~~~m~~l~~~~~~~~-------------~p~~~~~~~~~~~~~~~~~kr~~~~~~~~~~ 273 (284)
....+..++++.+..|+.. .+....+... .+..+.......++.++..|++|..++++..
T Consensus 246 ~~~~~~~~~~~~l~~e~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~rr~~~~~~~~ 323 (335)
T KOG0656|consen 246 REYENNLLSLLSLSKEKVNRCYDH--FLSKILNSESDCLRGEASNESGEASLRDSSSSSSQSPNSPSLKKRRVSSDKERK 323 (335)
T ss_pred hhhhHHHHHHHHhhHHhhhcchhh--hhhhccCCccccccHHHHhhhhcccccccchhccCCCCcccccccccccccccc
Confidence 1245667788888888881 1111111111 1111111222222335556667788887666
Q ss_pred CCCCCCC
Q 046440 274 RSDGPNE 280 (284)
Q Consensus 274 ~~~~~~~ 280 (284)
.+.+|++
T Consensus 324 ~s~~~~~ 330 (335)
T KOG0656|consen 324 QSSPPTE 330 (335)
T ss_pred cCCCCcc
Confidence 6666643
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.2e-35 Score=262.29 Aligned_cols=200 Identities=19% Similarity=0.211 Sum_probs=170.5
Q ss_pred CChHHHHHHHHHHhhccCCCCCCCCccccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcC-CccCCCc
Q 046440 29 EDEDEYVNTLGDKEISFGFKRGETDKSVMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLST-RFIDSDK 107 (284)
Q Consensus 29 ~~~~e~l~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~-~~i~~~~ 107 (284)
.-..|++..|++||..|.- ......+++++.++||++++|||++||+.++|++||||||+.||||||.. ..+.+..
T Consensus 111 gn~~eVW~lM~kkee~~l~---~~~~l~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~ 187 (408)
T KOG0655|consen 111 GNSKEVWLLMLKKEERYLR---DKHFLEQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTN 187 (408)
T ss_pred cCHHHHHHHHHccchhhhh---hhHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhh
Confidence 4678999999999998632 23344567789999999999999999999999999999999999999944 6789999
Q ss_pred hhhHHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCC-
Q 046440 108 LWAIKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSP- 166 (284)
Q Consensus 108 l~~~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~- 166 (284)
+ ||||+||||||+|+||+++|++ ..||+.|+|+|++.|...||..|+.....++.+
T Consensus 188 l---QLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k 264 (408)
T KOG0655|consen 188 L---QLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPK 264 (408)
T ss_pred H---HHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCc
Confidence 9 9999999999999999999998 899999999999999999999999987655433
Q ss_pred ---c----chHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhhHhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 167 ---S----NVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALESCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 167 ---~----~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
. ...-....++..++.+...+.|.-++||||||+.-.. ......++|+.+.+|.+|+++|.-+..--.
T Consensus 265 ~l~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s-----~e~v~kaSG~~w~~ie~cv~wm~Pf~rvi~ 339 (408)
T KOG0655|consen 265 VLLPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTS-----IEVVKKASGLEWDSIEECVDWMVPFVRVIK 339 (408)
T ss_pred eeccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhH-----HHHHHHcccccHHHHHHHHHHHHHHHHHHh
Confidence 1 1123345688889999999999999999999997753 223347899999999999999999876544
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.97 E-value=1.8e-30 Score=245.86 Aligned_cols=202 Identities=21% Similarity=0.275 Sum_probs=171.3
Q ss_pred CCChHHHHHHHHHHhhccCCCCCCCCccccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCc
Q 046440 28 VEDEDEYVNTLGDKEISFGFKRGETDKSVMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDK 107 (284)
Q Consensus 28 ~~~~~e~l~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~ 107 (284)
.+|.++++.++.++|..+.+ .. +...+.+++..||.++|||+++||.+|++.+||+++||+++||||+...++..+
T Consensus 124 ~ey~~di~~~l~~~e~~~~p---~~-~~~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~ 199 (391)
T KOG0653|consen 124 VEYVQDIFEYLRQLELEFLP---LS-YDISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKK 199 (391)
T ss_pred HHHHHHHHHHHHHHHHhhCc---hh-hhcccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHH
Confidence 47999999999999964433 22 235567889999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHH-HHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCC
Q 046440 108 LWAIKLLSVACVS-VAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSP 166 (284)
Q Consensus 108 l~~~qLla~acL~-IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~ 166 (284)
+ ||+|++||| ||+|+||..+|.+ +.||++|+|+++.|||+.||++|++....+
T Consensus 200 l---qLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d--- 273 (391)
T KOG0653|consen 200 L---QLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYD--- 273 (391)
T ss_pred h---hHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcc---
Confidence 9 999999976 9999999999977 889999999999999999999999887622
Q ss_pred cchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh---HhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 167 SNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE---SCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 167 ~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~---~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
........++++.+++++.++.++||.+|+|++++++........|. ..++|+...++..|...+..+.....
T Consensus 274 ~~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~~w~~~~~~~sg~~~~~~~~~~~~~~~~~~~~~ 349 (391)
T KOG0653|consen 274 IKTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGDVWSPTLEHYSGYSESYLFECARSLSALSLSSL 349 (391)
T ss_pred hhHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCCccCCCCeeccCCCcHHHHHHHHHHHHHHHHhc
Confidence 23334456688889999999999999999999999987554333344 46788888899999999888555543
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.97 E-value=1.9e-30 Score=244.65 Aligned_cols=204 Identities=17% Similarity=0.136 Sum_probs=173.4
Q ss_pred CCCChHHHHHHHHHHhhccCCCCCCCCccccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCC
Q 046440 27 DVEDEDEYVNTLGDKEISFGFKRGETDKSVMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSD 106 (284)
Q Consensus 27 ~~~~~~e~l~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~ 106 (284)
..||..+++.+|+++|..+.+ ..+|+.++......||..+++|+++||.+|++.++|+++||+++||||+.+.+.-+
T Consensus 177 v~Ey~~~Ife~l~k~e~~~lp---~~~yl~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~ 253 (440)
T COG5024 177 VPEYASDIFEYLLKLELIDLP---NPNYLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLE 253 (440)
T ss_pred hHHHHHHHHHHHHHHHHHhcC---cHHHHhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHH
Confidence 468999999999999999754 46677777777779999999999999999999999999999999999999999999
Q ss_pred chhhHHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCC
Q 046440 107 KLWAIKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSP 166 (284)
Q Consensus 107 ~l~~~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~ 166 (284)
++ ||+|++|||||||+||++.|.+ +.+|.+|+|++..|+|..||+++.+.-..+.
T Consensus 254 k~---QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd~-- 328 (440)
T COG5024 254 KY---QLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYDI-- 328 (440)
T ss_pred HH---HHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccch--
Confidence 99 9999999999999999999988 8999999999999999999888866543221
Q ss_pred cchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh---HhhcC-CChhhHHHHHHHHHHHHHhhcC
Q 046440 167 SNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE---SCCGF-LEVGDVSTCYSIMQKLEMEKYK 240 (284)
Q Consensus 167 ~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~---~~~~~-~~~~~l~~C~~~m~~l~~~~~~ 240 (284)
.....+.+++..+..++.|++++||.+|+||.+.++......+ |. ..++| |+.+++..+...+.+.......
T Consensus 329 -~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~-w~~~l~~ySg~y~~~~l~~~~~~~~~~l~~~~~ 404 (440)
T COG5024 329 -FSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ-WDRTLIHYSGNYTNPDLKPLNESNKENLQNPSV 404 (440)
T ss_pred -hhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccCC-CCccccccCCCCCchhHHHHHHHHHHHhcccch
Confidence 1123456677889999999999999999999999986544333 55 34555 9988999999998887665443
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.92 E-value=1.1e-25 Score=207.33 Aligned_cols=201 Identities=23% Similarity=0.251 Sum_probs=169.6
Q ss_pred ChHHHHHHHHHHhhccCCCCCCCCcccc-CCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCch
Q 046440 30 DEDEYVNTLGDKEISFGFKRGETDKSVM-LSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKL 108 (284)
Q Consensus 30 ~~~e~l~~L~~~E~~~~~~~~~~~~~~~-~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l 108 (284)
+..++.+++..-|..- .+|..+++.. +.++++.||.++|+|+++|++.+++..+++|+++++.|||++...+.+.++
T Consensus 102 ~~~~I~~~~r~~ei~~--~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ 179 (359)
T KOG0654|consen 102 IAAKIYNTLRVSDIKS--ERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKL 179 (359)
T ss_pred HHHHHhhcccccchhh--ccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHH
Confidence 4556666666666551 2455667655 678999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcc
Q 046440 109 WAIKLLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSN 168 (284)
Q Consensus 109 ~~~qLla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~ 168 (284)
|++|.+|++||+|+||..+|.+ ..||+.|.|.+..||.-.|++.|+..... ...+
T Consensus 180 ---ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~--~~~~ 254 (359)
T KOG0654|consen 180 ---QLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQT--PELQ 254 (359)
T ss_pred ---HHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcc--hhHH
Confidence 9999999999999999999855 89999999999999999999999877553 1133
Q ss_pred hHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh---HhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 169 VLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE---SCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 169 ~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~---~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
+...+.++.+.++.++.|+.|.||.|||||+++|..... ..+|. ..+++|+.++++.|+..|+ ++.+..
T Consensus 255 ~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~-~~pW~~~L~~~T~y~~edl~~~v~~L~-~~l~~~ 326 (359)
T KOG0654|consen 255 VEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD-FHPWNQTLEDYTGYKAEDLKPCVLDLH-LYLNAS 326 (359)
T ss_pred HHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc-CCCCchhhHHhhcccHHHHHHHHHHHh-cccCCC
Confidence 344566778889999999999999999999999987655 55554 5789999999999999999 555443
No 6
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.92 E-value=5e-24 Score=194.72 Aligned_cols=208 Identities=16% Similarity=0.145 Sum_probs=156.5
Q ss_pred HHHHHHHHHHHHHHHHcC--CChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH--------
Q 046440 64 CARLEAIAWILNTRAVFG--FRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG-------- 133 (284)
Q Consensus 64 ~~R~~lvdWl~~v~~~~~--l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~-------- 133 (284)
..|..-++.|.++|..++ ++++|+++|++||+||+..+++...++ +++|+||+|||+|+||..+...
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p---~~Ia~tclfLA~KvEE~~~si~~fv~~~~~ 130 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHP---KIIMLTCVFLACKVEEFNVSIDQFVGNLKE 130 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCH---HHHHHHHHHHHHhccccCcCHHHHHhhccC
Confidence 789999999999999999 999999999999999999999999999 9999999999999999754211
Q ss_pred -------------HHHHHHcCCcccCCChHHHHHHHHHHhcCC----CCCcchHHHHHHHHHHHHchhhhcCCCHHHHHH
Q 046440 134 -------------AHVINNNGLENGINHSISFLHHFIRKFCKD----SSPSNVLPRTVALILAIMREINLMEHRPSAIAV 196 (284)
Q Consensus 134 -------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~----~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAa 196 (284)
..||+.|+|++.+++|+.||..|+..+... .....+...++.++..++....++.|+||+||+
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 799999999999999999999998654321 112346677899999888777788899999999
Q ss_pred HHHHHHHhhhc---cchhhhHhhcCCChhhHHHHHHHHHHHHHhhcCCCCCCCCcc----------ccCCCCCCCCCCCC
Q 046440 197 AATLVAFDQKL---TRQALESCCGFLEVGDVSTCYSIMQKLEMEKYKTPDPSATHF----------GTANVSSSAVSSKR 263 (284)
Q Consensus 197 Aai~~A~~~~~---~~~~~~~~~~~~~~~~l~~C~~~m~~l~~~~~~~~~p~~~~~----------~~~~~~~~~~~~kr 263 (284)
|||++|..... +...|+..-..-+.+.+..-+..|+++..-....+.|+.+.+ .+|...+.+...++
T Consensus 211 AAI~lA~~~~~~~l~~~~~e~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~kl~~c~~~~~~~~~~~~~~ 290 (305)
T TIGR00569 211 AAILHTASRAGLNMESYLTEQLSVPGNREELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSSVKIRK 290 (305)
T ss_pred HHHHHHHHHhCCCCcccchhhhcccccHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhChhhCcchHHHHH
Confidence 99999986542 222333211112456666666677776655555556655554 55655544434455
Q ss_pred ccccccCCCCCC
Q 046440 264 KRLTFNDSDQRS 275 (284)
Q Consensus 264 ~~~~~~~~~~~~ 275 (284)
|+..+++ +..+
T Consensus 291 ~~~~~~~-~~~~ 301 (305)
T TIGR00569 291 RKGYEDD-TYIS 301 (305)
T ss_pred Hhccccc-cccc
Confidence 5554444 6555
No 7
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.84 E-value=3.2e-20 Score=148.50 Aligned_cols=107 Identities=26% Similarity=0.393 Sum_probs=91.1
Q ss_pred HHHHHHHHHhhccCCCCCCCCccccCCcChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHH
Q 046440 33 EYVNTLGDKEISFGFKRGETDKSVMLSDDIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIK 112 (284)
Q Consensus 33 e~l~~L~~~E~~~~~~~~~~~~~~~~~~~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~q 112 (284)
|++++|+++|.++.+ ...+..++++++..+|..+++||.+++..++++++|+++|++|||||+.+..+.+.++ +
T Consensus 1 ~i~~~~~~~e~~~~~---~~~~~~~~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~---~ 74 (127)
T PF00134_consen 1 DIFRYLLEKELKYKP---NPDYLEQQPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKL---Q 74 (127)
T ss_dssp HHHHHHHHHHHHTTC---CTTHGTGTSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGH---H
T ss_pred CHHHHHHHHHHHHCc---CccccccChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchh---h
Confidence 689999999999743 3455555667899999999999999999999999999999999999999999999999 9
Q ss_pred HHHHHHHHHHHhhhhcCCccH--------------------HHHHHHcCCccc
Q 046440 113 LLSVACVSVAAKMEECNSENG--------------------AHVINNNGLENG 145 (284)
Q Consensus 113 Lla~acL~IAsK~eE~~~p~~--------------------~~IL~~L~w~l~ 145 (284)
++|+|||+||+|++|..+|.+ +.||++|+|+++
T Consensus 75 li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 75 LIALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 999999999999999987766 889999999875
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.81 E-value=3.5e-19 Score=162.98 Aligned_cols=178 Identities=14% Similarity=0.135 Sum_probs=150.4
Q ss_pred hHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH--------
Q 046440 62 IKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG-------- 133 (284)
Q Consensus 62 ~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~-------- 133 (284)
....|...+.||.+++..+++.+.|+..|+.||+||+..+++..... +.+|++|||||+|+||.....-
T Consensus 35 E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~---~~vA~sclfLAgKvEetp~kl~dIi~~s~~ 111 (323)
T KOG0834|consen 35 ELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDP---YTVAASCLFLAGKVEETPRKLEDIIKVSYR 111 (323)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcH---HHHHHHHHHHHhhcccCcccHHHHHHHHHH
Confidence 34689999999999999999999999999999999999999999999 9999999999999999532211
Q ss_pred ------------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCC-cchHHHHHHHHHHHHchhhhcC
Q 046440 134 ------------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSP-SNVLPRTVALILAIMREINLME 188 (284)
Q Consensus 134 ------------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~-~~~~~~~~~~l~~~l~d~~~l~ 188 (284)
+.||++|+|++++-.|+.||-.|+..++.+... ..+...|+.++..++...-+++
T Consensus 112 ~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~ 191 (323)
T KOG0834|consen 112 YLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQ 191 (323)
T ss_pred HcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEe
Confidence 899999999999999999999999998866443 3567789999999999999999
Q ss_pred CCHHHHHHHHHHHHHhhhc---cc---hhhh-HhhcCCChhhHHHHHHHHHHHHHhhcCCC
Q 046440 189 HRPSAIAVAATLVAFDQKL---TR---QALE-SCCGFLEVGDVSTCYSIMQKLEMEKYKTP 242 (284)
Q Consensus 189 ~~PS~iAaAai~~A~~~~~---~~---~~~~-~~~~~~~~~~l~~C~~~m~~l~~~~~~~~ 242 (284)
|+|..||+|||.+|..... +. ..|+ ..-..++.++|.+.+..+.++|......+
T Consensus 192 y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~~~~ 252 (323)
T KOG0834|consen 192 YSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQTPQRN 252 (323)
T ss_pred ecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhccccc
Confidence 9999999999999985331 11 1233 22223889999999999999998765544
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.80 E-value=3e-18 Score=153.76 Aligned_cols=172 Identities=12% Similarity=0.139 Sum_probs=146.8
Q ss_pred ChHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCc--cH-----
Q 046440 61 DIKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSE--NG----- 133 (284)
Q Consensus 61 ~~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p--~~----- 133 (284)
.....|---++||.+.+.-++|.+.+.+.+..+|-||+...++-+.++ ..+++||++||+|+||...- .+
T Consensus 18 ~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~---e~vv~ACv~LASKiEE~Prr~rdVinVFh 94 (367)
T KOG0835|consen 18 TEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDF---EIVVMACVLLASKIEEEPRRIRDVINVFH 94 (367)
T ss_pred hHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccH---HHHHHHHHHHHhhhccccccHhHHHHHHH
Confidence 456789999999999999999999999999999999999999999999 99999999999999985311 11
Q ss_pred -------------------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHc
Q 046440 134 -------------------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMR 182 (284)
Q Consensus 134 -------------------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~ 182 (284)
..||..|+|++++..|+.++-.|+..++.... ..+.+.+|+|+..++.
T Consensus 95 ~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~-~~l~Q~~wNfmNDslR 173 (367)
T KOG0835|consen 95 YLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPN-LKLLQAAWNFMNDSLR 173 (367)
T ss_pred HHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCc-hhHHHHHHHhhhhccc
Confidence 89999999999999999999999999987644 3678899999999999
Q ss_pred hhhhcCCCHHHHHHHHHHHHHhhhc---cc-hhhhHhhcCCChhhHHHHHHHHHHHHHh
Q 046440 183 EINLMEHRPSAIAVAATLVAFDQKL---TR-QALESCCGFLEVGDVSTCYSIMQKLEME 237 (284)
Q Consensus 183 d~~~l~~~PS~iAaAai~~A~~~~~---~~-~~~~~~~~~~~~~~l~~C~~~m~~l~~~ 237 (284)
.--|..|+|+.||+|||++|...+. |. +.|. ...+.++++|.+.+-.+..||..
T Consensus 174 T~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf-~~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 174 TDVFVRYSPESIACACIYLAARNLEIPLPFQPHWF-KAFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred cceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHH-HHcCCcHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999987653 33 3343 45566777777766666666666
No 10
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.67 E-value=7.7e-16 Score=132.37 Aligned_cols=170 Identities=16% Similarity=0.134 Sum_probs=140.9
Q ss_pred HHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH----------
Q 046440 64 CARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG---------- 133 (284)
Q Consensus 64 ~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~---------- 133 (284)
..+--..+.|..++.++++.+.+++.|+.||-||+.+.++..-.+ .++|.||+++|||+||..+...
T Consensus 39 ~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p---~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L 115 (264)
T KOG0794|consen 39 KLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEP---RLLAPTCLYLACKVEECPIVHIRLLVNEAKVL 115 (264)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCH---HHHHHHHHHHHhhhhhcchHHHHHHHHHHHHH
Confidence 345566778899999999999999999999999999999999999 9999999999999999852111
Q ss_pred ----------------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCH
Q 046440 134 ----------------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRP 191 (284)
Q Consensus 134 ----------------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~P 191 (284)
..+|+.|++-|-+-+|+.-|..|+...+..+ ......++.+.+.+....-.+-|+|
T Consensus 116 ~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d--~~~l~~~W~ivNDSyr~Dl~Ll~PP 193 (264)
T KOG0794|consen 116 KTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGIND--QKLLQLAWSIVNDSYRMDLCLLYPP 193 (264)
T ss_pred hhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccc--hhhhhhhHhhhcchhhcceeeecCH
Confidence 7899999999999999999999998877533 2345678889998888888899999
Q ss_pred HHHHHHHHHHHHhhhc-cc-hhhhHhhcCCChhhHHHHHHHHHHHHHhhc
Q 046440 192 SAIAVAATLVAFDQKL-TR-QALESCCGFLEVGDVSTCYSIMQKLEMEKY 239 (284)
Q Consensus 192 S~iAaAai~~A~~~~~-~~-~~~~~~~~~~~~~~l~~C~~~m~~l~~~~~ 239 (284)
-+||.|||+.|..... +. +.|- .-..++.+.+.+|++.|.++|..-.
T Consensus 194 h~IalAcl~Ia~~~~~k~~~~~w~-~el~vD~ekV~~~v~~I~~lYe~wk 242 (264)
T KOG0794|consen 194 HQIALACLYIACVIDEKDIPKAWF-AELSVDMEKVKDIVQEILKLYELWK 242 (264)
T ss_pred HHHHHHHHHHHHhhcCCChHHHHH-HHHhccHHHHHHHHHHHHHHHHHHh
Confidence 9999999999975332 12 3333 3345788999999999999988643
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=99.66 E-value=3.9e-16 Score=139.97 Aligned_cols=140 Identities=16% Similarity=0.239 Sum_probs=126.0
Q ss_pred hHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhc--CCccH------
Q 046440 62 IKCARLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEEC--NSENG------ 133 (284)
Q Consensus 62 ~~~~R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~--~~p~~------ 133 (284)
....|.....|+..+|..+++...++.+||.+|+||..+.++..-.+ +-++.||++||+|+||+ +....
T Consensus 41 e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~---~~vv~tcv~LA~K~ed~~~~I~i~~~~~~~ 117 (297)
T COG5333 41 ELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISL---YSVVTTCVYLACKVEDTPRDISIESFEARD 117 (297)
T ss_pred hhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccH---HHHHHhheeeeeecccccchhhHHHHHhhc
Confidence 34678888999999999999999999999999999999999999999 99999999999999993 22111
Q ss_pred -----------------HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHH
Q 046440 134 -----------------AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAV 196 (284)
Q Consensus 134 -----------------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAa 196 (284)
..+|+.|+|++.+++|+..+..|+..+...+. .+..+.+|.++..++...-++.|+|..||+
T Consensus 118 ~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~-~~~~~~aw~~inDa~~t~~~llypphiIA~ 196 (297)
T COG5333 118 LWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK-YKLLQIAWKIINDALRTDLCLLYPPHIIAL 196 (297)
T ss_pred cccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH-HHHHHHHHHHHHhhhhceeeeecChHHHHH
Confidence 89999999999999999999999988765543 567889999999999999999999999999
Q ss_pred HHHHHHHhh
Q 046440 197 AATLVAFDQ 205 (284)
Q Consensus 197 Aai~~A~~~ 205 (284)
||++.|...
T Consensus 197 a~l~ia~~~ 205 (297)
T COG5333 197 AALLIACEV 205 (297)
T ss_pred HHHHHHHHh
Confidence 999999864
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=99.38 E-value=8.1e-13 Score=103.82 Aligned_cols=90 Identities=19% Similarity=0.193 Sum_probs=68.7
Q ss_pred CChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh---HhhcCCChhh
Q 046440 147 NHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE---SCCGFLEVGD 223 (284)
Q Consensus 147 pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~---~~~~~~~~~~ 223 (284)
|||++||++|++..+. ...+...+.++++.++.++.|++|+||+||+||+++|+........|. ..++|+++++
T Consensus 1 PTp~~Fl~~~~~~~~~---~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~~~~~ 77 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA---DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPESLEKLTGYDKED 77 (118)
T ss_dssp --HHHHHHHHHTSSSH---HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS-HHH
T ss_pred CcHHHHHHHHHHHcCC---cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccCCccchhhcCCCHHH
Confidence 8999999999553221 134566788899999999999999999999999999997654323343 5678999999
Q ss_pred HHHHHHHHHHHHHhhc
Q 046440 224 VSTCYSIMQKLEMEKY 239 (284)
Q Consensus 224 l~~C~~~m~~l~~~~~ 239 (284)
|.+|++.|.+++....
T Consensus 78 l~~c~~~i~~~~~~~~ 93 (118)
T PF02984_consen 78 LKECIELIQELLSKAS 93 (118)
T ss_dssp HHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHhcC
Confidence 9999999999988544
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.33 E-value=1.2e-10 Score=107.54 Aligned_cols=163 Identities=10% Similarity=0.075 Sum_probs=132.0
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-------------
Q 046440 67 LEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG------------- 133 (284)
Q Consensus 67 ~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------------- 133 (284)
.....-|.+++..++++..+.-.|..++.++.....+..... ..+++||+|+|||.++......
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~---~~i~AAclYiACR~~~~prtl~eI~~~~~v~~k~i 199 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSI---EGVVAAALYAACRRCKVPRTLDEIAEVSRVSRKEI 199 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCH---HHHHHHHHHHHHHHcCCCcCHHHHHHHhCCCHHHH
Confidence 445667889999999999999999999999999988888888 9999999999999987643211
Q ss_pred ----HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccc
Q 046440 134 ----AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTR 209 (284)
Q Consensus 134 ----~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~ 209 (284)
+.|++.|++++....|.+|+..|...++.. ..+...+.+++..+....-.....|..||||||++|.......
T Consensus 200 ~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~---~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~ 276 (310)
T PRK00423 200 GRCYRFLLRELNLKLPPTDPIDYVPRFASELGLS---GEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGER 276 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCC
Confidence 899999999999999999999999998764 3566777777776665444567999999999999997533222
Q ss_pred hhhh--HhhcCCChhhHHHHHHHHHHHH
Q 046440 210 QALE--SCCGFLEVGDVSTCYSIMQKLE 235 (284)
Q Consensus 210 ~~~~--~~~~~~~~~~l~~C~~~m~~l~ 235 (284)
.... ...+++++..|...++.|.+..
T Consensus 277 ~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 277 RTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred CCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 1121 4678999999999999888743
No 14
>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=99.27 E-value=1.4e-10 Score=103.87 Aligned_cols=131 Identities=17% Similarity=0.221 Sum_probs=104.3
Q ss_pred HHHHHHHHHHHc--CCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-------------
Q 046440 69 AIAWILNTRAVF--GFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG------------- 133 (284)
Q Consensus 69 lvdWl~~v~~~~--~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------------- 133 (284)
-..-+++.+.+| .+.++++..|+.+|-||+-.+++...+. ..|.+||+|+|+|+||.++..-
T Consensus 59 ~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~p---k~I~~tc~flA~Kieef~ISieqFvkn~~~~~~k~ 135 (325)
T KOG2496|consen 59 EELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSP---KIIMATCFFLACKIEEFYISIEQFVKNMNGRKWKT 135 (325)
T ss_pred HHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcCh---HHHHHHHHHHHhhhHhheecHHHHHhhccCccccc
Confidence 334455566655 5799999999999999999999999999 9999999999999999664221
Q ss_pred --------HHHHHHcCCcccCCChHHHHHHHHHHhcCC----CCCcchH---HHHHHHHHHHHchhhhcCCCHHHHHHHH
Q 046440 134 --------AHVINNNGLENGINHSISFLHHFIRKFCKD----SSPSNVL---PRTVALILAIMREINLMEHRPSAIAVAA 198 (284)
Q Consensus 134 --------~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~----~~~~~~~---~~~~~~l~~~l~d~~~l~~~PS~iAaAa 198 (284)
..+|+.|+|++.+-+|+.-++.|+..+..- .++ .+. .-...++..+++...++-|.||+||.||
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 HEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENP-DILRKHDDSKKFLDRALLTDAYLLYTPSQIALAA 214 (325)
T ss_pred HHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCH-HHHhhhhhHHHHHHHHHHhccceecChHHHHHHH
Confidence 889999999999999999999998654321 111 111 1125688888888899999999999999
Q ss_pred HHHHH
Q 046440 199 TLVAF 203 (284)
Q Consensus 199 i~~A~ 203 (284)
|+.|.
T Consensus 215 il~a~ 219 (325)
T KOG2496|consen 215 ILHAA 219 (325)
T ss_pred HHHHh
Confidence 96664
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=99.26 E-value=4e-11 Score=88.28 Aligned_cols=73 Identities=26% Similarity=0.372 Sum_probs=65.0
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccHHHHHHHcCC
Q 046440 66 RLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENGAHVINNNGL 142 (284)
Q Consensus 66 R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~~~IL~~L~w 142 (284)
|...++||.+++..++++++|.++|++++|||+....+.+.++ +++|+||++||+|++|. ++....+.+..+.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~---~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSP---SLVAAAALYLAAKVEEI-PPWLKDLVHVTGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCCh---HHHHHHHHHHHHHHcCC-CCCHHHHhHHhCC
Confidence 6789999999999999999999999999999999999999999 99999999999999998 5555555555544
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=99.05 E-value=3.7e-10 Score=82.23 Aligned_cols=57 Identities=30% Similarity=0.368 Sum_probs=53.2
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCC
Q 046440 71 AWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNS 130 (284)
Q Consensus 71 dWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~ 130 (284)
+||.+++..+++++++.++|++++|||+....+.+..+ +++|++|++||+|++|..+
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~---~~ia~a~l~lA~k~~~~~~ 57 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSP---SLIAAAALYLAAKTEEIPP 57 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCH---HHHHHHHHHHHHHHhcCCC
Confidence 59999999999999999999999999999777777888 9999999999999999864
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.36 E-value=3.5e-05 Score=70.27 Aligned_cols=161 Identities=11% Similarity=0.117 Sum_probs=128.7
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH------------
Q 046440 66 RLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG------------ 133 (284)
Q Consensus 66 R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~------------ 133 (284)
-.....-+-.++..+++...+.-.|..++=+.+....+..... +-++++|+++|++.........
T Consensus 97 l~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsi---e~v~AA~iY~acR~~~~prtl~eIa~a~~V~~ke 173 (285)
T COG1405 97 LITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSI---ESVAAACIYAACRINGVPRTLDEIAKALGVSKKE 173 (285)
T ss_pred HHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcH---HHHHHHHHHHHHHHcCCCccHHHHHHHHCCCHHH
Confidence 3456778888999999999999999999999999998988888 9999999999999876543222
Q ss_pred -----HHHHHHcCCcccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhcc
Q 046440 134 -----AHVINNNGLENGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLT 208 (284)
Q Consensus 134 -----~~IL~~L~w~l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~ 208 (284)
+.+...|+=.+....|.+|+.+|...++.+ .++...+.+++..+...-.-..=.|+-||+||+++|.....-
T Consensus 174 i~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~---~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~ 250 (285)
T COG1405 174 IGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLS---DEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGE 250 (285)
T ss_pred HHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCC
Confidence 888888888888899999999999999876 456677888888877776677889999999999999753321
Q ss_pred --chhhhHhhcCCChhhHHHHHHHHH
Q 046440 209 --RQALESCCGFLEVGDVSTCYSIMQ 232 (284)
Q Consensus 209 --~~~~~~~~~~~~~~~l~~C~~~m~ 232 (284)
.+.-....+++++.-|..=++.|.
T Consensus 251 ~~tq~eva~v~~vtevTIrnrykel~ 276 (285)
T COG1405 251 RRTQKEVAKVAGVTEVTIRNRYKELA 276 (285)
T ss_pred chHHHHHHHHhCCeeeHHHHHHHHHH
Confidence 122225778888888877654443
No 18
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.07 E-value=0.00011 Score=66.07 Aligned_cols=161 Identities=10% Similarity=0.079 Sum_probs=115.7
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCcc--H-------------
Q 046440 69 AIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSEN--G------------- 133 (284)
Q Consensus 69 lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~--~------------- 133 (284)
.+.-|..++...+|.....-.|-.+|-++-..+....... +-+++|||+||+.-++...-. +
T Consensus 107 a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~---eai~AAclyiACRq~~~pRT~kEI~~~anv~kKEIgr 183 (308)
T KOG1597|consen 107 AFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSV---EALAAACLYIACRQEDVPRTFKEISAVANVSKKEIGR 183 (308)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccH---HHHHHHHHHHHHHhcCCCchHHHHHHHHcCCHHHHHH
Confidence 3445678889999999999999999999998888888888 999999999999977642100 0
Q ss_pred --HHHHHHcCCcccCCC--hHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhc-CCCHHHHHHHHHHHHHhhhcc
Q 046440 134 --AHVINNNGLENGINH--SISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLM-EHRPSAIAVAATLVAFDQKLT 208 (284)
Q Consensus 134 --~~IL~~L~w~l~~pT--p~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l-~~~PS~iAaAai~~A~~~~~~ 208 (284)
+.|+..|+=.+...| ..+|+.+|-..++... .....+.+... ..-+..+. .=.|=.||||+||++......
T Consensus 184 ~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~---~~q~aA~e~a~-ka~~~~~~~gRsPiSIAAa~IYmisqls~~ 259 (308)
T KOG1597|consen 184 CVKLIGEALETSVDLISISTGDFMPRFCSNLGLPK---SAQEAATEIAE-KAEEMDIRAGRSPISIAAAAIYMISQLSDE 259 (308)
T ss_pred HHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCH---HHHHHHHHHHH-HHHHhccccCCCchhHHHHHHHHHHHhccC
Confidence 778888887777666 8899999988877553 22222333333 23333444 367999999999999753332
Q ss_pred chhhh--HhhcCCChhhHHHHHHHHHHHHH
Q 046440 209 RQALE--SCCGFLEVGDVSTCYSIMQKLEM 236 (284)
Q Consensus 209 ~~~~~--~~~~~~~~~~l~~C~~~m~~l~~ 236 (284)
..... ...+|+.+.-|+.-|+.|...+.
T Consensus 260 kkt~keI~~vtgVaE~TIr~sYK~Lyp~~~ 289 (308)
T KOG1597|consen 260 KKTQKEIGEVTGVAEVTIRNSYKDLYPHAD 289 (308)
T ss_pred cccHHHHHHHhhhhHHHHHHHHHHHhhchh
Confidence 22222 47788999999998887765444
No 19
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=97.94 E-value=4.6e-05 Score=54.94 Aligned_cols=78 Identities=18% Similarity=0.217 Sum_probs=59.2
Q ss_pred HHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccc---hhhhHhhcCC-ChhhHHH
Q 046440 151 SFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTR---QALESCCGFL-EVGDVST 226 (284)
Q Consensus 151 ~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~---~~~~~~~~~~-~~~~l~~ 226 (284)
+|+..+...++.+ .++...+..+++.++.+..+..++|+.||+||+++|.+..... +.+ ...+++ +.++|.+
T Consensus 1 ~~l~~~~~~~~~~---~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~-~~~~~~~~~~~i~~ 76 (83)
T smart00385 1 DFLRRVCKALNLD---PETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKEL-VHYTGYFTEEEILR 76 (83)
T ss_pred CHHHHHHHHcCCC---HHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhH-hHhhCCCCHHHHHH
Confidence 3677777776643 4566778889999999899999999999999999998644322 222 345566 9999999
Q ss_pred HHHHHH
Q 046440 227 CYSIMQ 232 (284)
Q Consensus 227 C~~~m~ 232 (284)
|...|.
T Consensus 77 ~~~~il 82 (83)
T smart00385 77 MEKLLL 82 (83)
T ss_pred HHHHHh
Confidence 988764
No 20
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=97.90 E-value=9.3e-05 Score=53.83 Aligned_cols=82 Identities=13% Similarity=0.154 Sum_probs=64.3
Q ss_pred CCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhhccchhhh---HhhcCC-Ch
Q 046440 146 INHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQKLTRQALE---SCCGFL-EV 221 (284)
Q Consensus 146 ~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~~~~~~~~---~~~~~~-~~ 221 (284)
.+++.+|+..+...++.+ .++...+..+++.++....+..+.|+.||+||+++|.+.... ..|. ...+++ +.
T Consensus 2 ~~~~~~~l~~~~~~~~~~---~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~ 77 (88)
T cd00043 2 RPTPLDFLRRVAKALGLS---PETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYATE 77 (88)
T ss_pred cchHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCCCH
Confidence 588999999999888644 456677888999999999999999999999999999864433 2221 356677 88
Q ss_pred hhHHHHHHHH
Q 046440 222 GDVSTCYSIM 231 (284)
Q Consensus 222 ~~l~~C~~~m 231 (284)
++|..|...|
T Consensus 78 ~~i~~~e~~i 87 (88)
T cd00043 78 EEILRMEKLL 87 (88)
T ss_pred HHHHHHHHHh
Confidence 8998887654
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=97.49 E-value=0.00064 Score=56.16 Aligned_cols=74 Identities=16% Similarity=0.196 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHHhc---CC--ccCCCchhhHHHHHHHHHHHHHhhhhcC-CccH--------
Q 046440 68 EAIAWILNTRAVFGFRPKTAYLSVTYLDRFLS---TR--FIDSDKLWAIKLLSVACVSVAAKMEECN-SENG-------- 133 (284)
Q Consensus 68 ~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls---~~--~i~~~~l~~~qLla~acL~IAsK~eE~~-~p~~-------- 133 (284)
.+.+|+.++...-+++++++.+|..|+||+.. .. .+..... +-+-++|+.||+|+-+-. ....
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 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNI---HRLFLTALILASKFLDDNTYSNKSWAKVGGI 129 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTH---HHHHHHHHHHHHHHH-SS---HHHHHHHHTS
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchh---HHHHHHHHHHHHhhcccccccHHHHHhhcCC
Confidence 37889999999999999999999999999998 22 3445566 888899999999985432 2211
Q ss_pred ---------HHHHHHcCCcc
Q 046440 134 ---------AHVINNNGLEN 144 (284)
Q Consensus 134 ---------~~IL~~L~w~l 144 (284)
+..|..|+|+|
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 88888999886
No 22
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.41 E-value=0.001 Score=64.54 Aligned_cols=130 Identities=13% Similarity=0.180 Sum_probs=110.8
Q ss_pred HHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH-----------------H
Q 046440 72 WILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG-----------------A 134 (284)
Q Consensus 72 Wl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~-----------------~ 134 (284)
-|.+++..+++.. .+-.|.++|---++.+-.+.... +.+-.+||+|+|..|-+....+ +
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~---~~vvasClY~vcR~e~t~hlliDfS~~Lqv~Vy~LG~~~l 148 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRS---TEVVAACLYLVCRLEKTDHLLIDFSSYLQVSVYDLGSNFL 148 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcch---HHHHHHHHHHHHHhhCCceEEEEeccceEEehhhhhHHHH
Confidence 5778999999999 89999999999999888888888 9999999999999876543322 7
Q ss_pred HHHHHcCCc---ccCCChHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhh
Q 046440 135 HVINNNGLE---NGINHSISFLHHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQ 205 (284)
Q Consensus 135 ~IL~~L~w~---l~~pTp~~Fl~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~ 205 (284)
.+...|.=. +-..-|.-|+.+|...+...+...++...+.+++..+..|.-...-+|+-|..|||++|...
T Consensus 149 ~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~ 222 (521)
T KOG1598|consen 149 EVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARM 222 (521)
T ss_pred HHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHH
Confidence 778888777 67888999999999988766555667777888888888999999999999999999999854
No 23
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.13 E-value=0.00039 Score=64.84 Aligned_cols=77 Identities=17% Similarity=0.196 Sum_probs=64.2
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH--------------
Q 046440 68 EAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG-------------- 133 (284)
Q Consensus 68 ~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~-------------- 133 (284)
.+=.-|.+++...++..-|+..|..||....-+..+.+..- .|.|-|||.+|+||.+..-..+
T Consensus 384 SlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NR---KlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~n 460 (497)
T KOG4164|consen 384 SLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNR---KLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLN 460 (497)
T ss_pred HHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhh---hHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhccc
Confidence 35556788888999999999999999999999999999999 9999999999999986543333
Q ss_pred --------HHHHHHcCCcccCC
Q 046440 134 --------AHVINNNGLENGIN 147 (284)
Q Consensus 134 --------~~IL~~L~w~l~~p 147 (284)
.-||.+|+|.|+.|
T Consensus 461 rrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 461 RRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHhhhhhhhhHHHhhhhhccCC
Confidence 56777777777654
No 24
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=96.19 E-value=0.026 Score=40.33 Aligned_cols=55 Identities=9% Similarity=0.186 Sum_probs=45.5
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCC
Q 046440 73 ILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNS 130 (284)
Q Consensus 73 l~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~ 130 (284)
|-++|..++|+..+.-.|..++++-........... .-++++|+++|++.+....
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~---~~iaAA~iY~acr~~~~~~ 55 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSP---ESIAAACIYLACRLNGVPR 55 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-H---HHHHHHHHHHHHHHTTSSS
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCH---HHHHHHHHHHHHHHcCCCc
Confidence 457899999999999999999999988887777888 9999999999999876543
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=92.84 E-value=0.62 Score=33.08 Aligned_cols=50 Identities=18% Similarity=0.133 Sum_probs=32.2
Q ss_pred HHHHHHhcCCCCCcchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhh
Q 046440 154 HHFIRKFCKDSSPSNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQK 206 (284)
Q Consensus 154 ~~fl~~~~~~~~~~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~ 206 (284)
..|-..++.. ..+...+.+++..+....-.-.-.|..||||||++|....
T Consensus 2 ~r~~~~L~L~---~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~ 51 (71)
T PF00382_consen 2 PRICSKLGLP---EDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLN 51 (71)
T ss_dssp HHHHHHTT-----HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHT
T ss_pred hHHHhHcCCC---HHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHc
Confidence 3444455433 3566677777766655544556789999999999998644
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=92.81 E-value=0.58 Score=43.33 Aligned_cols=57 Identities=11% Similarity=0.132 Sum_probs=50.0
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcC
Q 046440 70 IAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECN 129 (284)
Q Consensus 70 vdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~ 129 (284)
.++|...+..++++..+.-.|..++.+...........+ .-+|+||++||+++....
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P---~sIAAAaIYlA~~~~g~~ 276 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGP---TGLAAAAIYIASLLLGER 276 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCH---HHHHHHHHHHHHHHhCCC
Confidence 588999999999999999999999998887666677888 999999999999986543
No 27
>KOG1674 consensus Cyclin [General function prediction only]
Probab=89.41 E-value=1.1 Score=39.51 Aligned_cols=79 Identities=15% Similarity=0.154 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCc---cCCCc---hhh-HHHHHHHHHHHHHhhhhcC-C--------cc
Q 046440 69 AIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRF---IDSDK---LWA-IKLLSVACVSVAAKMEECN-S--------EN 132 (284)
Q Consensus 69 lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~---i~~~~---l~~-~qLla~acL~IAsK~eE~~-~--------p~ 132 (284)
+-+++.++..+-+.+++++-.|..|||||..+.. +.... ... +.-+-++|+.+|+|+.+.. . ..
T Consensus 78 i~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vgg 157 (218)
T KOG1674|consen 78 IRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVGG 157 (218)
T ss_pred hHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhCC
Confidence 3456778888999999999999999999998632 11111 111 3667889999999998532 1 11
Q ss_pred H---------HHHHHHcCCcccCC
Q 046440 133 G---------AHVINNNGLENGIN 147 (284)
Q Consensus 133 ~---------~~IL~~L~w~l~~p 147 (284)
+ ...|..++|++.+.
T Consensus 158 l~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 158 LTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred CChHhhhhhhHHHHhhCCeEEEec
Confidence 1 78888889998875
No 28
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=83.96 E-value=3.5 Score=37.81 Aligned_cols=57 Identities=9% Similarity=0.120 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhh
Q 046440 68 EAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEE 127 (284)
Q Consensus 68 ~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE 127 (284)
.-.+++-..+..++|+.++--.|..+++............. .-+|++|+++|+++..
T Consensus 193 ~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P---~glAaaaiy~as~l~~ 249 (285)
T COG1405 193 DPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSP---AGLAAAAIYLASLLLG 249 (285)
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCc---hhHHHHHHHHHHHHhC
Confidence 34678889999999999999999999999998877777788 9999999999999855
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=79.87 E-value=2.5 Score=32.24 Aligned_cols=55 Identities=11% Similarity=0.014 Sum_probs=41.0
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhh
Q 046440 70 IAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEE 127 (284)
Q Consensus 70 vdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE 127 (284)
.+||.......+.+.++..+|-.+++..+....+-.... -++|++|+++|.++-.
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~P---S~iAaAai~lA~~~~~ 58 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPP---SVIAAAAILLARKILG 58 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-H---HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCH---HHHHHHHHHHHHHHhC
Confidence 455555544444566788889999998887777777888 9999999999988743
No 30
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=73.80 E-value=1.9 Score=40.22 Aligned_cols=57 Identities=18% Similarity=0.225 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhh
Q 046440 66 RLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKM 125 (284)
Q Consensus 66 R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~ 125 (284)
-.-+++|+..+-...+........|-+++-..+...-+-+.+. +-||++|++||+|+
T Consensus 152 y~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p---~~IAva~i~lA~~~ 208 (323)
T KOG0834|consen 152 YKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSP---HSIAVACIHLAAKL 208 (323)
T ss_pred hHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecC---cEEEeehhhHHHHH
Confidence 3567777777777776666678888888888887777777888 99999999999996
No 31
>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=55.05 E-value=38 Score=25.97 Aligned_cols=40 Identities=15% Similarity=0.156 Sum_probs=31.0
Q ss_pred cchHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhh
Q 046440 167 SNVLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQK 206 (284)
Q Consensus 167 ~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~ 206 (284)
......|..++...+.........+..||+||+++|.+..
T Consensus 49 ~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~ 88 (127)
T PF00134_consen 49 PETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKME 88 (127)
T ss_dssp HHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhh
Confidence 3455667777787777777888899999999999998654
No 32
>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=50.58 E-value=1.1e+02 Score=23.06 Aligned_cols=85 Identities=8% Similarity=-0.013 Sum_probs=45.9
Q ss_pred hHHHHHHHHHHhcCCCCC-cchHHHHHHHHHHHHchhhhcCCCHHHHHHH-HHHHHHhhhccchh-----h--hHhhcCC
Q 046440 149 SISFLHHFIRKFCKDSSP-SNVLPRTVALILAIMREINLMEHRPSAIAVA-ATLVAFDQKLTRQA-----L--ESCCGFL 219 (284)
Q Consensus 149 p~~Fl~~fl~~~~~~~~~-~~~~~~~~~~l~~~l~d~~~l~~~PS~iAaA-ai~~A~~~~~~~~~-----~--~~~~~~~ 219 (284)
|-+-+...+-+.+..... ..+..+....+..++.+..--..+||.||+| |-++......|... . -....|.
T Consensus 4 ~TD~~~~~L~K~~~~~e~L~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~~~~~~~~~LA~~~G~ 83 (106)
T PF09080_consen 4 PTDAIGPLLFKSGFTKEQLFAWHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDTHSGGVVPQLAEALGV 83 (106)
T ss_dssp CHHHHHHHHHHHS-SSTTHHHHHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------HHHHHHHHHT-
T ss_pred ccccccHHHHHHcccHHHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCccccccchHHHHHHhCc
Confidence 344455555555544322 2334455567777888988899999999998 66665543332211 0 1244567
Q ss_pred ChhhHHHHHHHHHH
Q 046440 220 EVGDVSTCYSIMQK 233 (284)
Q Consensus 220 ~~~~l~~C~~~m~~ 233 (284)
+..-+...++.+..
T Consensus 84 ~~a~L~AA~E~v~T 97 (106)
T PF09080_consen 84 SAATLQAAAESVAT 97 (106)
T ss_dssp -HHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHH
Confidence 77666666665544
No 33
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=50.36 E-value=35 Score=31.87 Aligned_cols=42 Identities=17% Similarity=0.179 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCc
Q 046440 87 AYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSE 131 (284)
Q Consensus 87 ~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p 131 (284)
+..|-||+.--+-...+..... ..||++|+++|+.-+|+..|
T Consensus 161 ~Q~~wNfmNDslRT~v~vry~p---e~iACaciyLaAR~~eIpLp 202 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVRYSP---ESIACACIYLAARNLEIPLP 202 (367)
T ss_pred HHHHHHhhhhccccceeeecCH---HHHHHHHHHHHHhhhcCCCC
Confidence 4555666665555555666777 99999999999998775444
No 34
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=43.94 E-value=1e+02 Score=28.50 Aligned_cols=38 Identities=16% Similarity=0.257 Sum_probs=28.0
Q ss_pred hHHHHHHHHHHHHchhhhcCCCHHHHHHHHHHHHHhhh
Q 046440 169 VLPRTVALILAIMREINLMEHRPSAIAVAATLVAFDQK 206 (284)
Q Consensus 169 ~~~~~~~~l~~~l~d~~~l~~~PS~iAaAai~~A~~~~ 206 (284)
+...|..++.......++..|.|-.||++|+++|.+..
T Consensus 78 viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvE 115 (305)
T TIGR00569 78 VVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVE 115 (305)
T ss_pred HHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcc
Confidence 34445555555556667888999999999999998643
No 35
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=34.07 E-value=97 Score=27.66 Aligned_cols=48 Identities=13% Similarity=0.146 Sum_probs=29.8
Q ss_pred ChHHHHHHHHHHHHHhcCCccCCCchhhHHHHHHHHHHHHHhhhhcCCccH
Q 046440 83 RPKTAYLSVTYLDRFLSTRFIDSDKLWAIKLLSVACVSVAAKMEECNSENG 133 (284)
Q Consensus 83 ~~eT~~lAv~~lDRfls~~~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~ 133 (284)
+..-+.+|-.+..--+...-+--... ..+|+|||+||+=..|...|..
T Consensus 168 d~~~l~~~W~ivNDSyr~Dl~Ll~PP---h~IalAcl~Ia~~~~~k~~~~~ 215 (264)
T KOG0794|consen 168 DQKLLQLAWSIVNDSYRMDLCLLYPP---HQIALACLYIACVIDEKDIPKA 215 (264)
T ss_pred chhhhhhhHhhhcchhhcceeeecCH---HHHHHHHHHHHHhhcCCChHHH
Confidence 33344555454433332223333456 8999999999999988877644
No 36
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=31.71 E-value=2.3e+02 Score=26.15 Aligned_cols=14 Identities=21% Similarity=0.275 Sum_probs=7.2
Q ss_pred HHHHHHHhcCCccC
Q 046440 91 VTYLDRFLSTRFID 104 (284)
Q Consensus 91 v~~lDRfls~~~i~ 104 (284)
-++|-||.+.-.++
T Consensus 204 ~~~m~RFCs~L~L~ 217 (308)
T KOG1597|consen 204 GDFMPRFCSNLGLP 217 (308)
T ss_pred HHHHHHHHHhcCCC
Confidence 34555555554443
No 37
>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=29.65 E-value=48 Score=24.63 Aligned_cols=29 Identities=24% Similarity=0.334 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 046440 67 LEAIAWILNTRAVFGFRPKTAYLSVTYLDR 96 (284)
Q Consensus 67 ~~lvdWl~~v~~~~~l~~eT~~lAv~~lDR 96 (284)
.++||||++.+ ...-..+++.++..++|.
T Consensus 36 sElVdWL~~~~-~~~sR~eAv~lgq~Ll~~ 64 (85)
T cd04441 36 SEFIDWLLQEG-EAESRREAVQLCRRLLEH 64 (85)
T ss_pred hHHHHHHHHcC-CCCCHHHHHHHHHHHHHC
Confidence 58999999965 233445566666666654
No 38
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=29.35 E-value=1.6e+02 Score=23.77 Aligned_cols=69 Identities=9% Similarity=0.087 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhcCC--ccCCCchhhHHHHHHHHHHHHHhhhhcCCccHHHHHHHcC
Q 046440 69 AIAWILNTRAVFGFRPKTAYLSVTYLDRFLSTR--FIDSDKLWAIKLLSVACVSVAAKMEECNSENGAHVINNNG 141 (284)
Q Consensus 69 lvdWl~~v~~~~~l~~eT~~lAv~~lDRfls~~--~i~~~~l~~~qLla~acL~IAsK~eE~~~p~~~~IL~~L~ 141 (284)
+..-+.++|..++++.+.....-..|+.-+... -+...++ --+-++|+++-+|+.. ...+-..|++.-.
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHL---DQiilCaiY~i~Kv~~-~~~sF~~Ii~~Yr 84 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHL---DQIILCAIYGICKVSK-EELSFKDIIKAYR 84 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-H---HHHHHHHHHHHHHHTT--S--HHHHHHHHT
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchH---HHHHHHHHHHHHHhhc-CCCCHHHHHHHHH
Confidence 445577899999999988888888888888543 3556677 8889999999999865 2222256665554
No 39
>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=26.59 E-value=50 Score=24.20 Aligned_cols=30 Identities=17% Similarity=0.323 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 046440 66 RLEAIAWILNTRAVFGFRPKTAYLSVTYLDR 96 (284)
Q Consensus 66 R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDR 96 (284)
=..+|+||++....-. ..|++.++-.++|.
T Consensus 31 GselVdWL~~~~~~~~-r~eAv~lg~~Ll~~ 60 (81)
T cd04439 31 GNEFVSWLLEIGEISK-PEEGVNLGQALLEN 60 (81)
T ss_pred hHHHHHHHHHcCCCCC-HHHHHHHHHHHHHC
Confidence 3579999998642211 34677777777664
No 40
>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=24.94 E-value=64 Score=23.79 Aligned_cols=30 Identities=10% Similarity=0.235 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 046440 66 RLEAIAWILNTRAVFGFRPKTAYLSVTYLDR 96 (284)
Q Consensus 66 R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDR 96 (284)
=..+|+||++... ..-..|++.++-.++|.
T Consensus 33 GselVdWL~~~~~-~~sR~eAv~lg~~Ll~~ 62 (83)
T cd04443 33 GCDLVSWLIEVGL-AQDRGEAVLYGRRLLQG 62 (83)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 3579999998532 22234666776666664
No 41
>cd04449 DEP_DEPDC5-like DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
Probab=24.50 E-value=69 Score=23.42 Aligned_cols=32 Identities=19% Similarity=0.309 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Q 046440 66 RLEAIAWILNTRAVFGFRPKTAYLSVTYLDRF 97 (284)
Q Consensus 66 R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRf 97 (284)
=..+|+||.+-.....-..+++.++-.++|.=
T Consensus 32 G~e~VdWL~~~~~~~~~r~eAv~lgq~Ll~~g 63 (83)
T cd04449 32 GSEAVSWLINNFEDVDTREEAVELGQELMNEG 63 (83)
T ss_pred hHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC
Confidence 46899999985443333455666666666643
No 42
>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=23.61 E-value=65 Score=23.73 Aligned_cols=29 Identities=21% Similarity=0.397 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 046440 67 LEAIAWILNTRAVFGFRPKTAYLSVTYLDR 96 (284)
Q Consensus 67 ~~lvdWl~~v~~~~~l~~eT~~lAv~~lDR 96 (284)
..+||||++.... .-..+++.++..++|.
T Consensus 32 selVdWL~~~~~~-~sR~eAv~lgq~Ll~~ 60 (82)
T cd04442 32 KELIDWLIEHKEA-SDRETAIKIMQKLLDH 60 (82)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHHHHC
Confidence 5799999975432 2244455555555553
No 43
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=23.00 E-value=1.7e+02 Score=27.50 Aligned_cols=38 Identities=16% Similarity=0.110 Sum_probs=28.4
Q ss_pred chHHHHHHHHHHHHchhhhcCCC---HHHHHHHHHHHHHhh
Q 046440 168 NVLPRTVALILAIMREINLMEHR---PSAIAVAATLVAFDQ 205 (284)
Q Consensus 168 ~~~~~~~~~l~~~l~d~~~l~~~---PS~iAaAai~~A~~~ 205 (284)
...-.|.++++..+.-..+-..+ ==.||+||+.+|.+.
T Consensus 97 ~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKm 137 (335)
T KOG0656|consen 97 LVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKM 137 (335)
T ss_pred HHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhh
Confidence 34556777777777777777777 567899999999854
No 44
>cd04438 DEP_dishevelled DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in dishevelled-like proteins. Dishevelled-like proteins play a key role in the transduction of the Wnt signal from the cell surface to the nucleus, which in turn is an important regulatory pathway for cellular development and growth. They contain an N-terminal DIX domain, a central PDZ domain, and a C-terminal DEP domain.
Probab=21.98 E-value=83 Score=23.22 Aligned_cols=33 Identities=12% Similarity=0.159 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHh
Q 046440 66 RLEAIAWILNTRAVFGFRPKTAYLSVTYLDRFL 98 (284)
Q Consensus 66 R~~lvdWl~~v~~~~~l~~eT~~lAv~~lDRfl 98 (284)
=..+|+||++-.....-..|++.++-.+++.=+
T Consensus 32 GsdlVdWL~~~~~~~~~R~eAv~~g~~Ll~~G~ 64 (84)
T cd04438 32 GSDLVDWLLSHVEGLTDRREARKYASSLLKLGY 64 (84)
T ss_pred chHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCc
Confidence 457999999965544445677777777777544
Done!