Query 026985
Match_columns 230
No_of_seqs 173 out of 1353
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 03:22:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026985.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026985hhsearch_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 6.8E-42 1.5E-46 296.5 21.2 219 10-229 9-236 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 4.7E-37 1E-41 261.0 15.1 183 40-228 113-306 (408)
3 KOG0653 Cyclin B and related k 100.0 3.8E-35 8.2E-40 264.0 16.8 184 38-229 125-309 (391)
4 COG5024 Cyclin [Cell division 100.0 2.7E-34 5.8E-39 257.4 13.3 185 38-229 179-363 (440)
5 PF00134 Cyclin_N: Cyclin, N-t 99.9 2.9E-27 6.2E-32 180.7 13.4 127 42-174 1-127 (127)
6 KOG0654 G2/Mitotic-specific cy 99.9 2.7E-28 5.8E-33 213.6 6.4 186 39-229 102-288 (359)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 3.4E-22 7.3E-27 173.8 14.4 153 72-229 54-216 (305)
8 KOG0834 CDK9 kinase-activating 99.8 1.8E-18 3.9E-23 150.6 9.6 155 70-229 35-205 (323)
9 KOG0835 Cyclin L [General func 99.7 3.1E-16 6.8E-21 134.1 13.5 156 69-229 18-193 (367)
10 COG5333 CCL1 Cdk activating ki 99.7 6.2E-16 1.3E-20 132.0 12.3 157 70-229 41-202 (297)
11 cd00043 CYCLIN Cyclin box fold 99.5 5.6E-14 1.2E-18 99.0 9.6 87 74-166 2-88 (88)
12 KOG0794 CDK8 kinase-activating 99.5 7.1E-14 1.5E-18 114.6 8.6 155 72-229 39-204 (264)
13 smart00385 CYCLIN domain prese 99.5 3.4E-13 7.3E-18 94.1 8.9 83 79-167 1-83 (83)
14 PRK00423 tfb transcription ini 99.3 1.2E-10 2.7E-15 102.2 18.0 147 75-229 123-269 (310)
15 KOG2496 Cdk activating kinase 99.2 2.4E-10 5.3E-15 97.4 14.5 147 76-227 58-216 (325)
16 PF08613 Cyclin: Cyclin; Inte 98.8 8.9E-08 1.9E-12 75.4 10.6 92 76-173 53-149 (149)
17 COG1405 SUA7 Transcription ini 98.7 1.9E-06 4.1E-11 74.6 18.2 151 71-229 94-244 (285)
18 PF02984 Cyclin_C: Cyclin, C-t 98.7 1.6E-08 3.4E-13 75.5 3.6 53 176-229 1-53 (118)
19 KOG1597 Transcription initiati 98.3 2.9E-05 6.4E-10 66.5 14.1 145 77-229 107-253 (308)
20 KOG4164 Cyclin ik3-1/CABLES [C 98.3 6.8E-07 1.5E-11 78.9 3.8 105 69-176 377-482 (497)
21 KOG1674 Cyclin [General functi 97.0 0.004 8.8E-08 52.1 8.2 96 78-176 79-181 (218)
22 cd00043 CYCLIN Cyclin box fold 96.9 0.0033 7.2E-08 43.3 5.7 54 175-229 2-55 (88)
23 PF00382 TFIIB: Transcription 96.3 0.054 1.2E-06 36.8 8.9 62 81-146 1-62 (71)
24 smart00385 CYCLIN domain prese 96.0 0.014 3.1E-07 39.6 4.8 49 180-229 1-49 (83)
25 KOG1598 Transcription initiati 95.5 0.18 3.8E-06 47.0 10.9 165 56-230 44-220 (521)
26 PRK00423 tfb transcription ini 93.8 0.86 1.9E-05 40.1 10.7 89 78-173 220-308 (310)
27 KOG1675 Predicted cyclin [Gene 91.9 0.31 6.8E-06 42.5 4.9 96 85-186 201-298 (343)
28 PF02984 Cyclin_C: Cyclin, C-t 89.1 2.3 5E-05 30.8 7.1 87 78-170 4-90 (118)
29 COG1405 SUA7 Transcription ini 84.1 4.1 9E-05 35.5 6.9 57 76-135 193-249 (285)
30 KOG0834 CDK9 kinase-activating 82.2 3.3 7.1E-05 36.8 5.5 96 74-172 152-248 (323)
31 PF00382 TFIIB: Transcription 80.5 6 0.00013 26.5 5.3 46 183-229 2-47 (71)
32 PF01857 RB_B: Retinoblastoma- 54.0 90 0.002 24.0 7.4 66 77-145 14-80 (135)
33 PF09080 K-cyclin_vir_C: K cyc 53.5 49 0.0011 23.6 5.2 47 178-224 4-53 (106)
34 KOG0835 Cyclin L [General func 48.7 1.1E+02 0.0023 27.4 7.7 67 95-167 161-227 (367)
35 KOG1925 Rac1 GTPase effector F 45.7 29 0.00063 32.7 4.0 73 39-111 547-619 (817)
36 PF11357 Spy1: Cell cycle regu 41.0 1.3E+02 0.0027 23.2 6.2 68 105-175 39-109 (131)
37 KOG1597 Transcription initiati 36.9 1.6E+02 0.0035 25.8 7.0 56 77-135 203-258 (308)
38 cd04441 DEP_2_DEP6 DEP (Dishev 32.5 41 0.00089 23.8 2.3 29 75-108 36-64 (85)
39 TIGR00569 ccl1 cyclin ccl1. Un 28.7 2.7E+02 0.0058 24.5 7.2 43 94-139 183-225 (305)
40 cd04449 DEP_DEPDC5-like DEP (D 28.5 53 0.0012 22.8 2.3 31 74-108 32-62 (83)
41 PF00134 Cyclin_N: Cyclin, N-t 27.4 1.2E+02 0.0026 21.9 4.3 40 155-194 31-71 (127)
42 cd04443 DEP_GPR155 DEP (Dishev 26.5 60 0.0013 22.7 2.3 29 74-103 33-61 (83)
43 cd04439 DEP_1_P-Rex DEP (Dishe 26.4 63 0.0014 22.5 2.4 28 75-103 32-59 (81)
44 cd04438 DEP_dishevelled DEP (D 26.0 62 0.0014 22.7 2.3 31 74-104 32-62 (84)
45 TIGR01446 DnaD_dom DnaD and ph 25.1 1.5E+02 0.0032 19.6 4.0 30 68-101 12-41 (73)
46 PF14502 HTH_41: Helix-turn-he 24.8 1.1E+02 0.0024 19.2 2.9 23 81-103 9-31 (48)
47 cd04440 DEP_2_P-Rex DEP (Dishe 23.9 64 0.0014 23.2 2.0 29 74-107 40-68 (93)
48 cd04442 DEP_1_DEP6 DEP (Dishev 23.8 67 0.0014 22.5 2.1 30 75-109 32-61 (82)
49 PF07226 DUF1422: Protein of u 23.8 1.8E+02 0.0038 21.9 4.3 38 91-132 40-77 (117)
50 PF13591 MerR_2: MerR HTH fami 22.7 1.6E+02 0.0036 20.3 3.9 30 78-107 45-74 (84)
51 cd04448 DEP_PIKfyve DEP (Dishe 22.1 81 0.0018 21.9 2.2 30 74-104 31-60 (81)
52 PF05164 ZapA: Cell division p 21.4 2.7E+02 0.0059 18.8 5.3 45 91-135 19-63 (89)
53 cd04437 DEP_Epac DEP (Dishevel 21.2 77 0.0017 24.1 2.1 33 75-111 34-66 (125)
54 cd03197 GST_C_mPGES2 GST_C fam 21.0 88 0.0019 24.5 2.5 61 72-134 10-70 (149)
55 PF12550 GCR1_C: Transcription 20.8 2.2E+02 0.0047 19.5 4.2 34 69-105 47-80 (81)
56 cd04444 DEP_PLEK2 DEP (Disheve 20.8 73 0.0016 23.7 1.8 29 75-104 35-63 (109)
57 cd04447 DEP_BRCC3 DEP (Disheve 20.2 2.4E+02 0.0052 20.3 4.3 37 75-112 33-72 (92)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=6.8e-42 Score=296.46 Aligned_cols=219 Identities=42% Similarity=0.644 Sum_probs=188.5
Q ss_pred cccccccccccccC---CCCCCCCCCCCC---CCcchHHHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHHHH
Q 026985 10 PDLLCGEDSGIFAG---ESSPACSSSDLE---SSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILK 83 (230)
Q Consensus 10 ~~l~~~~~~~~~~~---~~~~~~~~~d~~---~~~~~~e~l~~ll~~E~~~~~~~~~~~~~~~~~i~~~~R~~lv~Wm~~ 83 (230)
+.++|+|.+....+ .+|+.-.-.++. ...+++|.+.+|+++|+++.|..+|...++. .+++.+|.++++||.+
T Consensus 9 ~~l~c~E~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~-~~~~~~R~~A~~WIl~ 87 (335)
T KOG0656|consen 9 SQLLCHEESTSDEQDRADNDESSTESSIPQLGFLLWDERVLANLLEKEEQHNPSLDYFLCVQK-LILSSMRKQALDWILK 87 (335)
T ss_pred cccccCCCCcccccccccCCcccccccccccccccccHHHHHHHHHHHHHhCCCCchhhhccc-ccccHHHHHHHHHHHH
Confidence 44899998664432 221221112211 2358899999999999999999997766554 5999999999999999
Q ss_pred HHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHHHHHHHH
Q 026985 84 VQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMEL 163 (230)
Q Consensus 84 v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E~ 163 (230)
||.++++.++|+.+|+||||||++.+++++.++|.+||+|++||+||||+||+..|.+.++....+++.|.++.|.+||.
T Consensus 88 V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmEL 167 (335)
T KOG0656|consen 88 VCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMEL 167 (335)
T ss_pred HHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHH
Confidence 99999999999999999999999999999998888999999999999999999999999999888899999999999999
Q ss_pred HHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHH---hccCCCCchhHHHHhHhHhh
Q 026985 164 LVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILS---NIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 164 ~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~~~~~~~~~~~el~l~---~~~~~~f~pS~iAaaal~l~ 229 (230)
.||++|+|+++.+||++|+++|+++++..+...+.+..+....++. +..+..|+||+|||||+.++
T Consensus 168 LVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v 236 (335)
T KOG0656|consen 168 LVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSV 236 (335)
T ss_pred HHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHH
Confidence 9999999999999999999999999999887778888888877764 55567889999999998655
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=4.7e-37 Score=260.98 Aligned_cols=183 Identities=22% Similarity=0.390 Sum_probs=163.1
Q ss_pred hHHHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhcc-ccCCCCCch
Q 026985 40 IEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSR-RLPDNNGWP 118 (230)
Q Consensus 40 ~~e~l~~ll~~E~~~~~~~~~~~~~~~~~i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~-~i~~~~~~~ 118 (230)
..|++..|+.+|+.+..+..++.. ++.+.++||++++|||.+||..++|.+||+|+|+.||||||... .+.+. .
T Consensus 113 ~~eVW~lM~kkee~~l~~~~~l~q--Hpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt---~ 187 (408)
T KOG0655|consen 113 SKEVWLLMLKKEERYLRDKHFLEQ--HPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKT---N 187 (408)
T ss_pred HHHHHHHHHccchhhhhhhHHHhh--CCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhh---h
Confidence 568999999999999988888876 89999999999999999999999999999999999999999765 57777 7
Q ss_pred hHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCC-----
Q 026985 119 WQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTG----- 193 (230)
Q Consensus 119 lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~----- 193 (230)
+||||++|||||+|+||++||++.+|.+ .+++.+|.++|+.||..||+.|+|++.+.|...||..|+......+
T Consensus 188 lQLIGitsLFIAAK~EEIYpPKl~eFAy-vTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l 266 (408)
T KOG0655|consen 188 LQLIGITSLFIAAKLEEIYPPKLIEFAY-VTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVL 266 (408)
T ss_pred HHHhhHHHHHHHHHHhhccCccccceee-eccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCcee
Confidence 9999999999999999999999999997 6899999999999999999999999999999999999997543322
Q ss_pred --ChHH-HH--HHHHHHHHHHhccCCCCchhHHHHhHhHh
Q 026985 194 --TFMG-FL--ISRATKIILSNIQGSTIYIIIIQAPTLYL 228 (230)
Q Consensus 194 --~~~~-~~--~~~~~el~l~~~~~~~f~pS~iAaaal~l 228 (230)
++.+ .+ .-.+.++.+.+.....|..++|||||||.
T Consensus 267 ~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h 306 (408)
T KOG0655|consen 267 LPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCH 306 (408)
T ss_pred ccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHH
Confidence 2222 22 23466788889999999999999999985
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.8e-35 Score=264.04 Aligned_cols=184 Identities=27% Similarity=0.355 Sum_probs=167.3
Q ss_pred cchHHHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCc
Q 026985 38 ASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGW 117 (230)
Q Consensus 38 ~~~~e~l~~ll~~E~~~~~~~~~~~~~~~~~i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~ 117 (230)
+|.+++...+.++|..+.|...+ .. +.+++..||.+++||+++|+.+|++.+||+++||+++||||++..+++.
T Consensus 125 ey~~di~~~l~~~e~~~~p~~~~-~~--~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~--- 198 (391)
T KOG0653|consen 125 EYVQDIFEYLRQLELEFLPLSYD-IS--QSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLK--- 198 (391)
T ss_pred HHHHHHHHHHHHHHHhhCchhhh-cc--cccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHH---
Confidence 46778888888888766677544 33 7789999999999999999999999999999999999999999998888
Q ss_pred hhHHHHHHHHH-HHHhhhhccCCChhhhHHhccCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChH
Q 026985 118 PWQLLSVACLS-LAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFM 196 (230)
Q Consensus 118 ~lqlv~~~cL~-IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~~~ 196 (230)
++||+|++||+ ||+|+||..+|.+.+++. ++++.||+++|++||+.||++|+|++..|||+.||++|.+... .+...
T Consensus 199 ~lqLvgvsalf~IA~K~EE~~~P~v~dlv~-isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~-~d~~~ 276 (391)
T KOG0653|consen 199 KLQLVGVSALLSIACKYEEISLPSVEDLVL-ITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAAD-YDIKT 276 (391)
T ss_pred HhhHHhHHHHHHHHHhhhhccCCccceeEe-eeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhh-cchhH
Confidence 89999999976 999999999999999996 7899999999999999999999999999999999999998776 33345
Q ss_pred HHHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 197 GFLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 197 ~~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
..+.++..|+.++++.+.+++||.+|||+++++
T Consensus 277 ~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~ 309 (391)
T KOG0653|consen 277 RTLVKYLLELSLCDYSMLSIPPSSSAAASFTLA 309 (391)
T ss_pred HHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHH
Confidence 789999999999999999999999999999875
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=2.7e-34 Score=257.37 Aligned_cols=185 Identities=26% Similarity=0.353 Sum_probs=172.7
Q ss_pred cchHHHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCc
Q 026985 38 ASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGW 117 (230)
Q Consensus 38 ~~~~e~l~~ll~~E~~~~~~~~~~~~~~~~~i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~ 117 (230)
+|..+++..++++|..+.|++.|+.+ ++.+...||..+++|+.+++.+|++.++|+++|++++|||++...+.-.
T Consensus 179 Ey~~~Ife~l~k~e~~~lp~~~yl~k--q~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~--- 253 (440)
T COG5024 179 EYASDIFEYLLKLELIDLPNPNYLIK--QSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLE--- 253 (440)
T ss_pred HHHHHHHHHHHHHHHHhcCcHHHHhh--cchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHH---
Confidence 56779999999999999999999876 8888899999999999999999999999999999999999999999988
Q ss_pred hhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHH
Q 026985 118 PWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMG 197 (230)
Q Consensus 118 ~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~~~~ 197 (230)
++||+|++|||||+|+||..+|.++++++ .+++.|++++|+++|+.+|.+|+|++..|+|..|++++-+. +.......
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~~sr 331 (440)
T COG5024 254 KYQLVGISALFIASKYEEVNCPSIKDLVY-ATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKA-SDYDIFSR 331 (440)
T ss_pred HHHHHHHHHHHHHHhHhHhcCHHHHHHHH-HHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhh-cccchhhh
Confidence 79999999999999999999999999997 68889999999999999999999999999999999888755 44444567
Q ss_pred HHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 198 FLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 198 ~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
..+.+..+++..+..+.++.||..||||.|+.
T Consensus 332 t~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s 363 (440)
T COG5024 332 TPAKFSSEISPVDYKFIQISPSWCAAAAMYLS 363 (440)
T ss_pred hhHhhhCCchHhhhhhccCCchHHHHHHHHHH
Confidence 89999999999999999999999999999975
No 5
>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=99.95 E-value=2.9e-27 Score=180.68 Aligned_cols=127 Identities=32% Similarity=0.502 Sum_probs=113.4
Q ss_pred HHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHH
Q 026985 42 ESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQL 121 (230)
Q Consensus 42 e~l~~ll~~E~~~~~~~~~~~~~~~~~i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lql 121 (230)
|++++|+++|.++.|++.|++. ++.++...|..+++||.+++..++++++|+++|+.|+|||+.+.++.+. ++++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~--~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~---~~~l 75 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQ--QPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRS---KLQL 75 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTG--TSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCC---GHHH
T ss_pred CHHHHHHHHHHHHCcCcccccc--ChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccc---hhhh
Confidence 6899999999999999999986 6679999999999999999999999999999999999999999988887 7999
Q ss_pred HHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHHHHHHHHHHHHHcCCccc
Q 026985 122 LSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLR 174 (230)
Q Consensus 122 v~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~f~l~ 174 (230)
+|++|++||+|++|..+|.+.+++.. +++.|+++++.+||+.||++|+|+++
T Consensus 76 i~~~cl~lA~K~~e~~~~~~~~~~~~-~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 76 IALACLFLASKMEEDNPPSISDLIRI-SDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHTSS--HHHHHHHH-TTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhHHHHhhhhhccccchHHHHHHH-HcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999999999874 57799999999999999999999985
No 6
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.95 E-value=2.7e-28 Score=213.58 Aligned_cols=186 Identities=22% Similarity=0.249 Sum_probs=173.9
Q ss_pred chHHHHHHHHHHHHh-hCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCc
Q 026985 39 SIEESIAGFIEDERN-FVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGW 117 (230)
Q Consensus 39 ~~~e~l~~ll~~E~~-~~~~~~~~~~~~~~~i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~ 117 (230)
+..++.+++...|.+ ..|.++|+..+|.. +++.||.++++|.++++..+++..+++++++++.|||+....+.+.
T Consensus 102 ~~~~I~~~~r~~ei~~~rp~~~~~e~vq~d-~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~--- 177 (359)
T KOG0654|consen 102 IAAKIYNTLRVSDIKSERPLPSKFEFVQAD-ITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQ--- 177 (359)
T ss_pred HHHHHhhcccccchhhccCcccceeeeecC-CCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHH---
Confidence 455788888888988 99999999988774 9999999999999999999999999999999999999999999888
Q ss_pred hhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHH
Q 026985 118 PWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMG 197 (230)
Q Consensus 118 ~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~~~~ 197 (230)
++|++|.+|++||+|++|..+|.+++|+. +.++.|+..++.+||..||+.|.|.+..||.-.|++.|+...........
T Consensus 178 k~ql~g~s~m~I~sk~ee~~~~~~~ef~~-itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~~~~~e 256 (359)
T KOG0654|consen 178 KLQLVGISAMLIASKYEEIKEPRVEEFCY-ITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTPELQVE 256 (359)
T ss_pred HHHHhCcccceeeccchhhcchHHHHHHh-hhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcchhHHHH
Confidence 89999999999999999999999999996 78999999999999999999999999999999999999887766555567
Q ss_pred HHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 198 FLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 198 ~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
..+.++.|+++.++.+.+|+||.|||||++|+
T Consensus 257 ~~~~yl~elsll~~~~l~y~PSliAasAv~lA 288 (359)
T KOG0654|consen 257 PLANYLTELSLLDYIFLKYLPSLIAASAVFLA 288 (359)
T ss_pred HHHHHHHHhhhhhHHHhccChHHHHHHHHHHH
Confidence 89999999999999999999999999999986
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.88 E-value=3.4e-22 Score=173.78 Aligned_cols=153 Identities=13% Similarity=0.131 Sum_probs=127.3
Q ss_pred HHHHHHHHHHHHHHHHcC--CChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhcc
Q 026985 72 SAREESVAWILKVQAYYN--FLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGA 149 (230)
Q Consensus 72 ~~R~~lv~Wm~~v~~~~~--l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~ 149 (230)
..|..-++.|.++|..++ ++.+|+.+|+.||+||+..+++... +.+++++||+|+|+|+||.. .++.+++....
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~---~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~ 129 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEY---HPKIIMLTCVFLACKVEEFN-VSIDQFVGNLK 129 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhc---CHHHHHHHHHHHHHhccccC-cCHHHHHhhcc
Confidence 678888999999999999 9999999999999999999999887 79999999999999999985 47888885332
Q ss_pred CC-ccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCC-------CCChHHHHHHHHHHHHHHhccCCCCchhHH
Q 026985 150 KY-IFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDP-------TGTFMGFLISRATKIILSNIQGSTIYIIII 221 (230)
Q Consensus 150 ~~-~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~-------~~~~~~~~~~~~~el~l~~~~~~~f~pS~i 221 (230)
.. ...+++|+++|..||++|+|++.+++|+.++..|+..+.. .+...+..+.++.+..+.+. ...|.||+|
T Consensus 130 ~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~-~L~y~Ps~I 208 (305)
T TIGR00569 130 ETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDA-YLLYTPSQI 208 (305)
T ss_pred CCchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCc-eecCCHHHH
Confidence 21 2356999999999999999999999999999998864421 11223444566677666666 777999999
Q ss_pred HHhHhHhh
Q 026985 222 QAPTLYLL 229 (230)
Q Consensus 222 Aaaal~l~ 229 (230)
|+||+|++
T Consensus 209 AlAAI~lA 216 (305)
T TIGR00569 209 ALAAILHT 216 (305)
T ss_pred HHHHHHHH
Confidence 99999986
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.76 E-value=1.8e-18 Score=150.60 Aligned_cols=155 Identities=19% Similarity=0.225 Sum_probs=128.1
Q ss_pred CHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhcc
Q 026985 70 DASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGA 149 (230)
Q Consensus 70 ~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~ 149 (230)
....|...+.||.+++.+++++..|+..|+.|++||...++.... +.+.+|++|+|+|+|.||. |.++++.+...-
T Consensus 35 E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~---~~~~vA~sclfLAgKvEet-p~kl~dIi~~s~ 110 (323)
T KOG0834|consen 35 ELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKF---DPYTVAASCLFLAGKVEET-PRKLEDIIKVSY 110 (323)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccC---cHHHHHHHHHHHHhhcccC-cccHHHHHHHHH
Confidence 456799999999999999999999999999999999999999888 6899999999999999987 457777763211
Q ss_pred CCcc------------CHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCC----hHHHHHHHHHHHHHHhccC
Q 026985 150 KYIF------------ETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGT----FMGFLISRATKIILSNIQG 213 (230)
Q Consensus 150 ~~~~------------t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~----~~~~~~~~~~el~l~~~~~ 213 (230)
+... .++.|+..|+.||++|+|++++-.|+.||-.|++.++.... .....+.++.+.+.. .-+
T Consensus 111 ~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t-~~c 189 (323)
T KOG0834|consen 111 RYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRT-TLC 189 (323)
T ss_pred HHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhhee-eee
Confidence 1111 16899999999999999999999999999999999887765 233333444454443 368
Q ss_pred CCCchhHHHHhHhHhh
Q 026985 214 STIYIIIIQAPTLYLL 229 (230)
Q Consensus 214 ~~f~pS~iAaaal~l~ 229 (230)
++|.|..||+|+++|+
T Consensus 190 L~y~p~~IAva~i~lA 205 (323)
T KOG0834|consen 190 LQYSPHSIAVACIHLA 205 (323)
T ss_pred EeecCcEEEeehhhHH
Confidence 9999999999999997
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.70 E-value=3.1e-16 Score=134.11 Aligned_cols=156 Identities=18% Similarity=0.201 Sum_probs=127.0
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHh-
Q 026985 69 LDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVE- 147 (230)
Q Consensus 69 i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~- 147 (230)
-....|..-++||.+-+.-++|+..+.+.+..+|-||+..++..+. ++..++++|++||||+||. |-++++.+..
T Consensus 18 ~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~---~~e~vv~ACv~LASKiEE~-Prr~rdVinVF 93 (367)
T KOG0835|consen 18 TEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRH---DFEIVVMACVLLASKIEEE-PRRIRDVINVF 93 (367)
T ss_pred hHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccc---cHHHHHHHHHHHHhhhccc-cccHhHHHHHH
Confidence 5578899999999999999999999999999999999999998887 7999999999999999986 3345544310
Q ss_pred -----------------ccCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCCh--HHHHHHHHHHHHH
Q 026985 148 -----------------GAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTF--MGFLISRATKIIL 208 (230)
Q Consensus 148 -----------------~~~~~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~~--~~~~~~~~~el~l 208 (230)
.-...-.+.+++++|+.||+.|+|++++..|+-++-.|++-++..... .+..+++.+ -++
T Consensus 94 h~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~wNfmN-Dsl 172 (367)
T KOG0835|consen 94 HYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAAWNFMN-DSL 172 (367)
T ss_pred HHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHHHHhhh-hcc
Confidence 000111267899999999999999999999999999999998887654 444444444 345
Q ss_pred HhccCCCCchhHHHHhHhHhh
Q 026985 209 SNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 209 ~~~~~~~f~pS~iAaaal~l~ 229 (230)
-.--+-.|.|+.||||++||+
T Consensus 173 RT~v~vry~pe~iACaciyLa 193 (367)
T KOG0835|consen 173 RTDVFVRYSPESIACACIYLA 193 (367)
T ss_pred ccceeeecCHHHHHHHHHHHH
Confidence 555678899999999999997
No 10
>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=99.67 E-value=6.2e-16 Score=132.01 Aligned_cols=157 Identities=15% Similarity=0.153 Sum_probs=122.8
Q ss_pred CHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhc-cCCChhhhHHh-
Q 026985 70 DASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEET-VVPSLLDLQVE- 147 (230)
Q Consensus 70 ~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~-~~p~~~~l~~~- 147 (230)
+...|..-..|+..+|..++++..++.+|+.+|+||..+..+... .++-++.||+++|+|.||. +-..+..+...
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 ELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEI---SLYSVVTTCVYLACKVEDTPRDISIESFEARD 117 (297)
T ss_pred hhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccc---cHHHHHHhheeeeeecccccchhhHHHHHhhc
Confidence 456788888999999999999999999999999999999998877 7999999999999999994 11233333321
Q ss_pred --ccCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCC-hHHHHHHHHHHHHHHhccCCCCchhHHHHh
Q 026985 148 --GAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGT-FMGFLISRATKIILSNIQGSTIYIIIIQAP 224 (230)
Q Consensus 148 --~~~~~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~-~~~~~~~~~~el~l~~~~~~~f~pS~iAaa 224 (230)
.....-+++.|..+|..+|+.|+|++.+++|+..+..|++.+...+. ....++..+..=++......-|+|.+||+|
T Consensus 118 ~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~~t~~~llypphiIA~a 197 (297)
T COG5333 118 LWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPHIIALA 197 (297)
T ss_pred cccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhceeeeecChHHHHHH
Confidence 00123468999999999999999999999999999999987665554 123333333333344455778999999999
Q ss_pred HhHhh
Q 026985 225 TLYLL 229 (230)
Q Consensus 225 al~l~ 229 (230)
|++++
T Consensus 198 ~l~ia 202 (297)
T COG5333 198 ALLIA 202 (297)
T ss_pred HHHHH
Confidence 99875
No 11
>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=99.54 E-value=5.6e-14 Score=98.98 Aligned_cols=87 Identities=36% Similarity=0.440 Sum_probs=78.1
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCcc
Q 026985 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIF 153 (230)
Q Consensus 74 R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~ 153 (230)
|...++||.+++..+++++++.++|+.++|||+....+.+. .++++|++|+++|+|+++. ++..+++.. .+++.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~ia~a~l~lA~k~~~~-~~~~~~~~~-~~~~~- 75 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGR---SPSLVAAAALYLAAKVEEI-PPWLKDLVH-VTGYA- 75 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccC---ChHHHHHHHHHHHHHHcCC-CCCHHHHhH-HhCCC-
Confidence 67899999999999999999999999999999999888776 7999999999999999999 888899875 34422
Q ss_pred CHHHHHHHHHHHH
Q 026985 154 ETKTIRRMELLVL 166 (230)
Q Consensus 154 t~~~i~~~E~~IL 166 (230)
+.++|.++|+.|+
T Consensus 76 ~~~~i~~~e~~il 88 (88)
T cd00043 76 TEEEILRMEKLLL 88 (88)
T ss_pred CHHHHHHHHHHhC
Confidence 9999999999875
No 12
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.50 E-value=7.1e-14 Score=114.61 Aligned_cols=155 Identities=21% Similarity=0.167 Sum_probs=118.1
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHH-----
Q 026985 72 SAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQV----- 146 (230)
Q Consensus 72 ~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~----- 146 (230)
..+--..+.+..++.++++...++.+|+.||-||+.+++...- ...+++.||+++|||.||......+.++.
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 KLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEI---EPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVL 115 (264)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc---CHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHH
Confidence 3455556778889999999999999999999999999997766 69999999999999999974222222221
Q ss_pred ------hccCCccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhccCCCCchhH
Q 026985 147 ------EGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGSTIYIII 220 (230)
Q Consensus 147 ------~~~~~~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~~~~~~~~~~~el~l~~~~~~~f~pS~ 220 (230)
......+...+|..||..+|+.|+.-+-+-+|+.-|..+++..+-.+.....++..+.+=+...--.+-|+|.+
T Consensus 116 ~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~ 195 (264)
T KOG0794|consen 116 KTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQ 195 (264)
T ss_pred hhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcchhhcceeeecCHHH
Confidence 11223466889999999999999999999999999999998876654433334433332222222355689999
Q ss_pred HHHhHhHhh
Q 026985 221 IQAPTLYLL 229 (230)
Q Consensus 221 iAaaal~l~ 229 (230)
||.|++|++
T Consensus 196 IalAcl~Ia 204 (264)
T KOG0794|consen 196 IALACLYIA 204 (264)
T ss_pred HHHHHHHHH
Confidence 999999986
No 13
>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=99.47 E-value=3.4e-13 Score=94.06 Aligned_cols=83 Identities=36% Similarity=0.430 Sum_probs=72.1
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHHH
Q 026985 79 AWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTI 158 (230)
Q Consensus 79 ~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i 158 (230)
+||.+++..+++++++.++|++++||++....+.+. ..+++|++|+++|+|+++.. |...++.. .+++ ++.+++
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~---~~~~ia~a~l~lA~k~~~~~-~~~~~~~~-~~~~-~~~~~i 74 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKY---SPSLIAAAALYLAAKTEEIP-PWTKELVH-YTGY-FTEEEI 74 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccC---CHHHHHHHHHHHHHHHhcCC-CCchhHhH-hhCC-CCHHHH
Confidence 599999999999999999999999999997776665 79999999999999999986 56667764 3443 799999
Q ss_pred HHHHHHHHH
Q 026985 159 RRMELLVLS 167 (230)
Q Consensus 159 ~~~E~~IL~ 167 (230)
.++|+.|++
T Consensus 75 ~~~~~~il~ 83 (83)
T smart00385 75 LRMEKLLLE 83 (83)
T ss_pred HHHHHHHhC
Confidence 999999974
No 14
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.33 E-value=1.2e-10 Score=102.21 Aligned_cols=147 Identities=12% Similarity=0.075 Sum_probs=120.6
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccC
Q 026985 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFE 154 (230)
Q Consensus 75 ~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t 154 (230)
.....-|-+++..++++..+.-.|..++.++.....+... ....++++|+++|+|.++. |..++++.. ..+ .+
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgr---s~~~i~AAclYiACR~~~~-prtl~eI~~-~~~--v~ 195 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGR---SIEGVVAAALYAACRRCKV-PRTLDEIAE-VSR--VS 195 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCC---CHHHHHHHHHHHHHHHcCC-CcCHHHHHH-HhC--CC
Confidence 4455668889999999999999999999999998777655 5899999999999998655 678888875 333 68
Q ss_pred HHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 155 TKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 155 ~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~~~~~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
+.+|.+.++.|++.|++++....|.+|+..|...++..++. ...+.++..-+...-...+-.|..|||||+|++
T Consensus 196 ~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~~v-~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA 269 (310)
T PRK00423 196 RKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGEV-QKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIA 269 (310)
T ss_pred HHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHH-HHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999887643 344444444443333345678999999999997
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=99.25 E-value=2.4e-10 Score=97.41 Aligned_cols=147 Identities=13% Similarity=0.188 Sum_probs=110.9
Q ss_pred HHHHHHHHHHHHcC--CChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhcc-CCc
Q 026985 76 ESVAWILKVQAYYN--FLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGA-KYI 152 (230)
Q Consensus 76 ~lv~Wm~~v~~~~~--l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~-~~~ 152 (230)
....-+.+.+.+++ ++++++..|+.+|-||+-..++... ..+.|.+||+|+|+|++|-++ ++.+|+..+. +..
T Consensus 58 ~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~---~pk~I~~tc~flA~Kieef~I-SieqFvkn~~~~~~ 133 (325)
T KOG2496|consen 58 EEELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEY---SPKIIMATCFFLACKIEEFYI-SIEQFVKNMNGRKW 133 (325)
T ss_pred HHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhc---ChHHHHHHHHHHHhhhHhhee-cHHHHHhhccCccc
Confidence 33444556666664 8999999999999999999999887 699999999999999998764 8999985433 223
Q ss_pred cCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCC----C--CChHHHH---HHHHHHHHHHhccCCCCchhHHHH
Q 026985 153 FETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDP----T--GTFMGFL---ISRATKIILSNIQGSTIYIIIIQA 223 (230)
Q Consensus 153 ~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~----~--~~~~~~~---~~~~~el~l~~~~~~~f~pS~iAa 223 (230)
-+.+.|+..|..+++.|+|++.+-+|+.-++-|+..+.. . .+..... ..++...++.+. ..=|.||+||.
T Consensus 134 k~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa-~lLytPsQIAL 212 (325)
T KOG2496|consen 134 KTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDA-YLLYTPSQIAL 212 (325)
T ss_pred ccHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhcc-ceecChHHHHH
Confidence 578999999999999999999999999988877643311 1 1111111 234445555444 55689999999
Q ss_pred hHhH
Q 026985 224 PTLY 227 (230)
Q Consensus 224 aal~ 227 (230)
||+.
T Consensus 213 aAil 216 (325)
T KOG2496|consen 213 AAIL 216 (325)
T ss_pred HHHH
Confidence 9994
No 16
>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=98.77 E-value=8.9e-08 Score=75.43 Aligned_cols=92 Identities=21% Similarity=0.245 Sum_probs=70.0
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHHHHh---ccc--cCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccC
Q 026985 76 ESVAWILKVQAYYNFLPLTSYLSVNYMDRFLY---SRR--LPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAK 150 (230)
Q Consensus 76 ~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~---~~~--i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~ 150 (230)
.+.+|+.++....+++++++..|..|+||+.. ... +... ..+.+-++|+.+|+|+-+......+.+.. .++
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~---~~~Rl~l~alilA~K~~~D~~~~n~~~a~-v~g 128 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSS---NIHRLFLTALILASKFLDDNTYSNKSWAK-VGG 128 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STT---THHHHHHHHHHHHHHHH-SS---HHHHHH-HHT
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccc---hhHHHHHHHHHHHHhhcccccccHHHHHh-hcC
Confidence 37889999999999999999999999999999 222 2333 58889999999999998877777777775 343
Q ss_pred CccCHHHHHHHHHHHHHHcCCcc
Q 026985 151 YIFETKTIRRMELLVLSVLDWRL 173 (230)
Q Consensus 151 ~~~t~~~i~~~E~~IL~~L~f~l 173 (230)
++.+|+.+||+..|..|+|+|
T Consensus 129 --is~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 129 --ISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp --S-HHHHHHHHHHHHHHTTT--
T ss_pred --CCHHHHHHHHHHHHHHCCCcC
Confidence 799999999999999999986
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.72 E-value=1.9e-06 Score=74.64 Aligned_cols=151 Identities=14% Similarity=0.116 Sum_probs=126.9
Q ss_pred HHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccC
Q 026985 71 ASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAK 150 (230)
Q Consensus 71 ~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~ 150 (230)
...-.....-+-.++..++++..+.-.|..++=+.+.+.-.... ..+-++++|+++|++.... |..+.++... .+
T Consensus 94 ernl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGR---sie~v~AA~iY~acR~~~~-prtl~eIa~a-~~ 168 (285)
T COG1405 94 ERNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGR---SIESVAAACIYAACRINGV-PRTLDEIAKA-LG 168 (285)
T ss_pred hhHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCC---cHHHHHHHHHHHHHHHcCC-CccHHHHHHH-HC
Confidence 34455677778889999999999999999999999998877666 5999999999999998765 5577777753 33
Q ss_pred CccCHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 151 YIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 151 ~~~t~~~i~~~E~~IL~~L~f~l~~ptp~~fl~~~l~~l~~~~~~~~~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
.++.+|.++.+.+.+.|+=.+.+..|.+|+..|...|+..++ .+..+..+...+.......+=.|+-+||||+|++
T Consensus 169 --V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~-v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~a 244 (285)
T COG1405 169 --VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDE-VRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLA 244 (285)
T ss_pred --CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHH-HHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHH
Confidence 678999999999999999999999999999999999999854 5666666666666666666778999999999986
No 18
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=98.68 E-value=1.6e-08 Score=75.53 Aligned_cols=53 Identities=17% Similarity=0.157 Sum_probs=43.8
Q ss_pred CChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 176 VTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 176 ptp~~fl~~~l~~l~~~~~~~~~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
|||++||++|++ +...+.....++.++.++.+.+..+++|+||+|||||++++
T Consensus 1 PTp~~Fl~~~~~-~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA 53 (118)
T PF02984_consen 1 PTPYDFLRRFLK-ISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLA 53 (118)
T ss_dssp --HHHHHHHHHT-SSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHH
T ss_pred CcHHHHHHHHHH-HcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHH
Confidence 899999999954 44434457899999999999999999999999999999986
No 19
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.30 E-value=2.9e-05 Score=66.47 Aligned_cols=145 Identities=15% Similarity=0.124 Sum_probs=111.4
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHH
Q 026985 77 SVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETK 156 (230)
Q Consensus 77 lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~ 156 (230)
...-+..++...+|+...--.|-.+|-++-..+..... ..+-++++|++||+.-++. |..+++... .++ .+++
T Consensus 107 a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGk---s~eai~AAclyiACRq~~~-pRT~kEI~~-~an--v~kK 179 (308)
T KOG1597|consen 107 AFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGK---SVEALAAACLYIACRQEDV-PRTFKEISA-VAN--VSKK 179 (308)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCc---cHHHHHHHHHHHHHHhcCC-CchHHHHHH-HHc--CCHH
Confidence 34446678889999999999999999999977666554 5999999999999996654 667788764 343 7899
Q ss_pred HHHHHHHHHHHHcCCcccCCC--hHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 157 TIRRMELLVLSVLDWRLRSVT--PFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 157 ~i~~~E~~IL~~L~f~l~~pt--p~~fl~~~l~~l~~~~~~~~~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
||-+.=+.|++.|+=.+...| ..+|+.+|...|....+ .+..+.++.+-.-..-..-+=.|--||||++|++
T Consensus 180 EIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~-~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmi 253 (308)
T KOG1597|consen 180 EIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKS-AQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMI 253 (308)
T ss_pred HHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHH-HHHHHHHHHHHHHHhccccCCCchhHHHHHHHHH
Confidence 999999999999988877666 88999999999888764 3445555444432222222346889999999986
No 20
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.27 E-value=6.8e-07 Score=78.90 Aligned_cols=105 Identities=18% Similarity=0.229 Sum_probs=88.9
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhH-Hh
Q 026985 69 LDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ-VE 147 (230)
Q Consensus 69 i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~-~~ 147 (230)
+|...-+.+=.=|.++....+++.-|+.+|-.||....-+..+.+. .-+|.|.+|+.+|+|+.+..-..++.++ ..
T Consensus 377 LTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~---NRKlcAGAclLlaaKmnD~Kks~vKslIek~ 453 (497)
T KOG4164|consen 377 LTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQ---NRKLCAGACLLLAAKMNDLKKSTVKSLIEKL 453 (497)
T ss_pred EeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhh---hhhHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence 4544444556668889999999999999999999999999999988 5999999999999999987777777776 22
Q ss_pred ccCCccCHHHHHHHHHHHHHHcCCcccCC
Q 026985 148 GAKYIFETKTIRRMELLVLSVLDWRLRSV 176 (230)
Q Consensus 148 ~~~~~~t~~~i~~~E~~IL~~L~f~l~~p 176 (230)
.....+++.|++..|.-||-+|.|.|+.|
T Consensus 454 Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 454 EEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 34456889999999999999999999964
No 21
>KOG1674 consensus Cyclin [General function prediction only]
Probab=96.99 E-value=0.004 Score=52.07 Aligned_cols=96 Identities=21% Similarity=0.261 Sum_probs=73.4
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHHHHhccc---cC---CCCCch-hHHHHHHHHHHHHhhhhccCCChhhhHHhccC
Q 026985 78 VAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRR---LP---DNNGWP-WQLLSVACLSLAAKMEETVVPSLLDLQVEGAK 150 (230)
Q Consensus 78 v~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~---i~---~~~~~~-lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~ 150 (230)
-+++.++..+.+.+++++..|..|||||..+.+ +. .-+... ....-++|+.+|+|+.+...-.-.-+.. .+
T Consensus 79 ~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~-vg- 156 (218)
T KOG1674|consen 79 RQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAK-VG- 156 (218)
T ss_pred HHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHH-hC-
Confidence 345567777888999999999999999999733 11 111113 6668899999999999876545555554 23
Q ss_pred CccCHHHHHHHHHHHHHHcCCcccCC
Q 026985 151 YIFETKTIRRMELLVLSVLDWRLRSV 176 (230)
Q Consensus 151 ~~~t~~~i~~~E~~IL~~L~f~l~~p 176 (230)
..+.+++..+|...|..++|++.++
T Consensus 157 -gl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 157 -GLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -CCChHhhhhhhHHHHhhCCeEEEec
Confidence 4789999999999999999999975
No 22
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=96.86 E-value=0.0033 Score=43.29 Aligned_cols=54 Identities=20% Similarity=0.127 Sum_probs=46.7
Q ss_pred CCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 175 SVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 175 ~ptp~~fl~~~l~~l~~~~~~~~~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
.|++.+|+..+...++...+ ....+..+.+..+......++.|+.+|+||+|++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA 55 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPE-TLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLA 55 (88)
T ss_pred cchHHHHHHHHHHHcCCCHH-HHHHHHHHHHHHHHhcccccCChHHHHHHHHHHH
Confidence 58999999999999877664 4677888888888888888999999999999987
No 23
>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=96.34 E-value=0.054 Score=36.77 Aligned_cols=62 Identities=11% Similarity=0.117 Sum_probs=48.3
Q ss_pred HHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHH
Q 026985 81 ILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQV 146 (230)
Q Consensus 81 m~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~ 146 (230)
|-++|..++++.++.-.|..++++-....-.... ...-++++|+++|++..+. +.+++++..
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr---~~~~iaAA~iY~acr~~~~-~~t~~eIa~ 62 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGR---SPESIAAACIYLACRLNGV-PRTLKEIAE 62 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS----HHHHHHHHHHHHHHHTTS-SSSHHHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccC---CHHHHHHHHHHHHHHHcCC-CcCHHHHHH
Confidence 3578999999999999999999998887655554 5899999999999998754 456777653
No 24
>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=96.05 E-value=0.014 Score=39.60 Aligned_cols=49 Identities=20% Similarity=0.107 Sum_probs=40.2
Q ss_pred HHHHHHHHhcCCCCChHHHHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 180 SFIYFFACKLDPTGTFMGFLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 180 ~fl~~~l~~l~~~~~~~~~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
+|+..+...++...+ ....+.++.+..+......++.|+.+|+|++|++
T Consensus 1 ~~l~~~~~~~~~~~~-~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA 49 (83)
T smart00385 1 DFLRRVCKALNLDPE-TLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLA 49 (83)
T ss_pred CHHHHHHHHcCCCHH-HHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHH
Confidence 377788888777654 5678888888888878888899999999999986
No 25
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=95.53 E-value=0.18 Score=47.03 Aligned_cols=165 Identities=16% Similarity=0.101 Sum_probs=116.4
Q ss_pred CCCCccccccCCCCC--HHHHHHHHH----HHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHH
Q 026985 56 PGFDYLTRFQTHSLD--ASAREESVA----WILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSL 129 (230)
Q Consensus 56 ~~~~~~~~~~~~~i~--~~~R~~lv~----Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~I 129 (230)
+..+|...-|.+ .+ .+.|..-+. -|-+++..+++.. ..-.|.++|---+...-.+.. ..+.+-.+|+++
T Consensus 44 ~~G~~v~~~~~g-~~~s~e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr---~~~~vvasClY~ 118 (521)
T KOG1598|consen 44 AQGQFVRVGQSG-AGSSLESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGR---RSTEVVAACLYL 118 (521)
T ss_pred cceeEEeccccC-CccchHHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCc---chHHHHHHHHHH
Confidence 555666543333 33 334444443 4678889999999 999999999999998888777 689999999999
Q ss_pred HHhhhhccCCChhhhHHhccCCccCHHHHHHHHHHHHHHcCCc---ccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHH
Q 026985 130 AAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWR---LRSVTPFSFIYFFACKLDPTGTFMGFLISRATKI 206 (230)
Q Consensus 130 AsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~f~---l~~ptp~~fl~~~l~~l~~~~~~~~~~~~~~~el 206 (230)
++..+.... .+-+|.-.. ..+.-++-.+=+.+...|.=+ +...-|.-|+.+|..+|...++. ..++.....+
T Consensus 119 vcR~e~t~h-lliDfS~~L---qv~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~-~~Vv~~a~~L 193 (521)
T KOG1598|consen 119 VCRLEKTDH-LLIDFSSYL---QVSVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT-EDVAKTATRL 193 (521)
T ss_pred HHHhhCCce-EEEEeccce---EEehhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCch-HHHHHHHHHH
Confidence 999876644 334443222 245667777777888888877 66788999999999988777654 4455544444
Q ss_pred HH---HhccCCCCchhHHHHhHhHhhC
Q 026985 207 IL---SNIQGSTIYIIIIQAPTLYLLV 230 (230)
Q Consensus 207 ~l---~~~~~~~f~pS~iAaaal~l~~ 230 (230)
+- .+--...=.|+-|+.|||++++
T Consensus 194 ~~rMkrdwm~tGRRPsglcGAaLliAa 220 (521)
T KOG1598|consen 194 AQRMKRDWMQTGRRPSGLCGAALLIAA 220 (521)
T ss_pred HHHHHHHHHHhCCCccchhHHHHHHHH
Confidence 43 3333334579999999999873
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=93.80 E-value=0.86 Score=40.12 Aligned_cols=89 Identities=9% Similarity=0.035 Sum_probs=69.0
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHH
Q 026985 78 VAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKT 157 (230)
Q Consensus 78 v~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~ 157 (230)
-++|.+++..++++.++.-.|..++.+.....-.... ...-++++|+++|++..+. +...+++.. .++ .+...
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr---~P~sIAAAaIYlA~~~~g~-~~t~keIa~-v~~--Vs~~t 292 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGK---GPTGLAAAAIYIASLLLGE-RRTQREVAE-VAG--VTEVT 292 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCC---CHHHHHHHHHHHHHHHhCC-CCCHHHHHH-HcC--CCHHH
Confidence 4888999999999999999999999988765444444 6899999999999998764 346777664 333 67888
Q ss_pred HHHHHHHHHHHcCCcc
Q 026985 158 IRRMELLVLSVLDWRL 173 (230)
Q Consensus 158 i~~~E~~IL~~L~f~l 173 (230)
|.+.=+.|.+.|+..+
T Consensus 293 I~~~ykel~~~l~~~~ 308 (310)
T PRK00423 293 VRNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHHhCccc
Confidence 8887777777776543
No 27
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=91.86 E-value=0.31 Score=42.47 Aligned_cols=96 Identities=10% Similarity=0.182 Sum_probs=61.8
Q ss_pred HHHcCCChhHHHHHHHHHHHHHhccccC--CCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHHHHHHH
Q 026985 85 QAYYNFLPLTSYLSVNYMDRFLYSRRLP--DNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRME 162 (230)
Q Consensus 85 ~~~~~l~~et~~lAv~l~Drfl~~~~i~--~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E 162 (230)
+....+..+--.....|++|-+.-.... +. ....+.....++|+|+-...-----+.+- +. .-.|++|+..||
T Consensus 201 ~~~~qlta~~aiitL~~~erl~~~~e~~~~p~---~w~r~~~g~il~sskv~~dqs~wnvdycq-Il-Kd~tveDmNe~E 275 (343)
T KOG1675|consen 201 FSWAQLTAECDIITLVYAERLLWLAERDPCPR---NWSRAVLGEILLSSKVYDDQSVWNVDYCE-IL-KDQSVDDMNALE 275 (343)
T ss_pred hhhhhhhhccchHHHHhhHhhhhHhhcCCCcc---hhhhhhhhhheehhhhhhhhhcccHHHHH-HH-hhccHhhHHHHH
Confidence 3333444444444557788877665543 33 46666667899999995543222233332 22 236899999999
Q ss_pred HHHHHHcCCcccCCChHHHHHHHH
Q 026985 163 LLVLSVLDWRLRSVTPFSFIYFFA 186 (230)
Q Consensus 163 ~~IL~~L~f~l~~ptp~~fl~~~l 186 (230)
|.+|..|+|++++|.. .|-++|.
T Consensus 276 RqfLelLqfNinvp~s-vYAKyYf 298 (343)
T KOG1675|consen 276 RQFLELLQFNINVPSS-EYAKYYF 298 (343)
T ss_pred HHHHHHHhhccCccHH-HHHHHHH
Confidence 9999999999998864 4555554
No 28
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=89.07 E-value=2.3 Score=30.85 Aligned_cols=87 Identities=14% Similarity=0.133 Sum_probs=55.0
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHH
Q 026985 78 VAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKT 157 (230)
Q Consensus 78 v~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~ 157 (230)
.+|+.......+.+.++..+|-.+++..+.....-.. ..-.+|++|+++|.+.-+..++-...+.. .++ ++.++
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~---~PS~iAaAai~lA~~~~~~~~~~~~~l~~-~t~--~~~~~ 77 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQY---PPSVIAAAAILLARKILGKEPPWPESLEK-LTG--YDKED 77 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS----HHHHHHHHHHHHHHHHHSSTCSHHHHHH-HHT--S-HHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCC---CHHHHHHHHHHHHHHHhCccccCCccchh-hcC--CCHHH
Confidence 3445554333334567888888888887777666555 57899999999999996632322233332 343 57888
Q ss_pred HHHHHHHHHHHcC
Q 026985 158 IRRMELLVLSVLD 170 (230)
Q Consensus 158 i~~~E~~IL~~L~ 170 (230)
+...=..|.+.+.
T Consensus 78 l~~c~~~i~~~~~ 90 (118)
T PF02984_consen 78 LKECIELIQELLS 90 (118)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 8776666655543
No 29
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=84.14 E-value=4.1 Score=35.48 Aligned_cols=57 Identities=9% Similarity=0.044 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhh
Q 026985 76 ESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEE 135 (230)
Q Consensus 76 ~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee 135 (230)
.-.+++-..+..++++.++--.|+.+++........... ...-+|++|+++|+++..
T Consensus 193 ~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk---~P~glAaaaiy~as~l~~ 249 (285)
T COG1405 193 DPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGK---SPAGLAAAAIYLASLLLG 249 (285)
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCC---CchhHHHHHHHHHHHHhC
Confidence 446778899999999999999999999999988765544 588899999999999976
No 30
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=82.16 E-value=3.3 Score=36.75 Aligned_cols=96 Identities=17% Similarity=0.144 Sum_probs=65.7
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhH-HhccCCc
Q 026985 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ-VEGAKYI 152 (230)
Q Consensus 74 R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~-~~~~~~~ 152 (230)
-.-+++|+..+-..-+........|-+++...+...-+-.. ..+-||++|++||+|+.....|...+-. ....+..
T Consensus 152 y~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y---~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~ 228 (323)
T KOG0834|consen 152 YKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQY---SPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDET 228 (323)
T ss_pred hHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEee---cCcEEEeehhhHHHHHcCCCCCCCcccchhhhhccc
Confidence 44566666666655555555677777777777766555454 5788999999999999776544443331 1233445
Q ss_pred cCHHHHHHHHHHHHHHcCCc
Q 026985 153 FETKTIRRMELLVLSVLDWR 172 (230)
Q Consensus 153 ~t~~~i~~~E~~IL~~L~f~ 172 (230)
.|.+++-.+...++....-+
T Consensus 229 vt~e~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 229 VTNELLDDICHEFLDLYEQT 248 (323)
T ss_pred CCHHHHHHHHHHHHHHHhhc
Confidence 88999999999888877543
No 31
>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=80.51 E-value=6 Score=26.50 Aligned_cols=46 Identities=15% Similarity=-0.093 Sum_probs=24.5
Q ss_pred HHHHHhcCCCCChHHHHHHHHHHHHHHhccCCCCchhHHHHhHhHhh
Q 026985 183 YFFACKLDPTGTFMGFLISRATKIILSNIQGSTIYIIIIQAPTLYLL 229 (230)
Q Consensus 183 ~~~l~~l~~~~~~~~~~~~~~~el~l~~~~~~~f~pS~iAaaal~l~ 229 (230)
+.|...++-.+. ....+..+.......-..-+=.|..+|||++|++
T Consensus 2 ~r~~~~L~L~~~-v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~a 47 (71)
T PF00382_consen 2 PRICSKLGLPED-VRERAKEIYKKAQERGLLKGRSPESIAAACIYLA 47 (71)
T ss_dssp HHHHHHTT--HH-HHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHH
T ss_pred hHHHhHcCCCHH-HHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHH
Confidence 445556655552 2333444444333333333456999999999986
No 32
>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=54.00 E-value=90 Score=23.99 Aligned_cols=66 Identities=8% Similarity=0.008 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccc-cCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhH
Q 026985 77 SVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRR-LPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ 145 (230)
Q Consensus 77 lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~-i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~ 145 (230)
...-+.++|..++++++.....-..|+..+.... .-++- ++.-+-++|+++-+|+.. ..++..+++
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dR--HLDQiilCaiY~i~Kv~~-~~~sF~~Ii 80 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDR--HLDQIILCAIYGICKVSK-EELSFKDII 80 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS---HHHHHHHHHHHHHHHTT--S--HHHHH
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcc--hHHHHHHHHHHHHHHhhc-CCCCHHHHH
Confidence 3445678999999999998998999999998654 33443 799999999999999976 344555555
No 33
>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=53.46 E-value=49 Score=23.59 Aligned_cols=47 Identities=15% Similarity=0.002 Sum_probs=30.0
Q ss_pred hHHHHHHHHHhcCCCCChHHHHHHHHHHHH---HHhccCCCCchhHHHHh
Q 026985 178 PFSFIYFFACKLDPTGTFMGFLISRATKII---LSNIQGSTIYIIIIQAP 224 (230)
Q Consensus 178 p~~fl~~~l~~l~~~~~~~~~~~~~~~el~---l~~~~~~~f~pS~iAaa 224 (230)
|.+-+...+-++....+.+..+-+++.+++ +-+-...+.+||++|||
T Consensus 4 ~TD~~~~~L~K~~~~~e~L~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA 53 (106)
T PF09080_consen 4 PTDAIGPLLFKSGFTKEQLFAWHSEVVESVHKAIVNPKTGGLPPSLVAAA 53 (106)
T ss_dssp CHHHHHHHHHHHS-SSTTHHHHHHHHHHHHHHHHCSTTGGGS-HHHHHHH
T ss_pred ccccccHHHHHHcccHHHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHh
Confidence 444555555566666666666666666665 44455667899999998
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=48.75 E-value=1.1e+02 Score=27.41 Aligned_cols=67 Identities=16% Similarity=0.168 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCCChhhhHHhccCCccCHHHHHHHHHHHHH
Q 026985 95 SYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLS 167 (230)
Q Consensus 95 ~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p~~~~l~~~~~~~~~t~~~i~~~E~~IL~ 167 (230)
+..|-|++.--+...-.... .-..||++|+++|+...|+-.|....+... ..+++++|-..=..++.
T Consensus 161 ~Q~~wNfmNDslRT~v~vry---~pe~iACaciyLaAR~~eIpLp~~P~Wf~~---Fd~~k~eid~ic~~l~~ 227 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVRY---SPESIACACIYLAARNLEIPLPFQPHWFKA---FDTTKREIDEICYRLIP 227 (367)
T ss_pred HHHHHHhhhhccccceeeec---CHHHHHHHHHHHHHhhhcCCCCCCccHHHH---cCCcHHHHHHHHHHHHH
Confidence 34444555444444334444 578999999999999999655555554432 23677777665554444
No 35
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=45.71 E-value=29 Score=32.74 Aligned_cols=73 Identities=15% Similarity=0.185 Sum_probs=58.7
Q ss_pred chHHHHHHHHHHHHhhCCCCCccccccCCCCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhcccc
Q 026985 39 SIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRL 111 (230)
Q Consensus 39 ~~~e~l~~ll~~E~~~~~~~~~~~~~~~~~i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i 111 (230)
+.++...||.+.|++...+.+-+..|..+++.+..|.++.+++-+++...-+-.-+.-..+|=|+.||--...
T Consensus 547 Df~qL~DNL~qlErrCKaSWe~L~~Iakhe~~p~l~~r~~~fl~~cA~RI~~LKivhrr~~NRfHSFLLy~Gy 619 (817)
T KOG1925|consen 547 DFEQLTDNLGQLERRCKASWESLRSIAKHELAPALRARLTHFLDQCARRIAMLKIVHRRVCNRFHSFLLYLGY 619 (817)
T ss_pred cHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 6678889999999999988888888889999999999999999999887654444444456777777765544
No 36
>PF11357 Spy1: Cell cycle regulatory protein; InterPro: IPR020984 Speedy (Spy1) is a cell cycle regulatory protein which activates CDK2, the major kinase that allows progression through G1/S phase and further replication events. Spy1 expression overcomes a p27-induced cell cycle arrest to allow for DNA synthesis, so cell cycle progression occurs due to an interaction between Spy1 and p27 []. Spy1 is also known as Ringo protein A.
Probab=41.00 E-value=1.3e+02 Score=23.17 Aligned_cols=68 Identities=18% Similarity=0.164 Sum_probs=42.5
Q ss_pred HHhccccCCCCCchhHHH-HHHHHHHHHhhhhccCCChhhhH-HhccCC-ccCHHHHHHHHHHHHHHcCCcccC
Q 026985 105 FLYSRRLPDNNGWPWQLL-SVACLSLAAKMEETVVPSLLDLQ-VEGAKY-IFETKTIRRMELLVLSVLDWRLRS 175 (230)
Q Consensus 105 fl~~~~i~~~~~~~lqlv-~~~cL~IAsK~ee~~~p~~~~l~-~~~~~~-~~t~~~i~~~E~~IL~~L~f~l~~ 175 (230)
|+++-+.+.. +++.+ -..+|++|.-+||.......++. ...+.+ .-...++.+.=..+...++|+..+
T Consensus 39 YF~Ragl~~~---~Y~ri~FFlALYLAndmEED~~~~K~~If~f~~G~~w~~~~~~F~klr~~~~~~m~~Ra~V 109 (131)
T PF11357_consen 39 YFSRAGLFSW---QYQRIHFFLALYLANDMEEDDEEPKYEIFPFLYGKNWRSQIPQFHKLRDQFWRRMDWRAWV 109 (131)
T ss_pred HHHhcccchh---hcchHHHHHHHHHhhHHHhccchHHHHHHHHHHCcchHHHhHHHHHHHHHHHHHcCCceee
Confidence 3444455443 33333 56799999999998664333333 222332 334567888888899999998764
No 37
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=36.89 E-value=1.6e+02 Score=25.83 Aligned_cols=56 Identities=2% Similarity=-0.008 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhh
Q 026985 77 SVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEE 135 (230)
Q Consensus 77 lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee 135 (230)
..++|.+.|..++|+..+.-.|..+-.++-...-.... ..--|+++.+++++-..+
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gR---sPiSIAAa~IYmisqls~ 258 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGR---SPISIAAAAIYMISQLSD 258 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCC---CchhHHHHHHHHHHHhcc
Confidence 45666677777777777777777666666655555433 245567777777777765
No 38
>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=32.54 E-value=41 Score=23.75 Aligned_cols=29 Identities=21% Similarity=0.308 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhc
Q 026985 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYS 108 (230)
Q Consensus 75 ~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~ 108 (230)
..+||||++.. . ..+-..|+.+--..+..
T Consensus 36 sElVdWL~~~~-~----~~sR~eAv~lgq~Ll~~ 64 (85)
T cd04441 36 SEFIDWLLQEG-E----AESRREAVQLCRRLLEH 64 (85)
T ss_pred hHHHHHHHHcC-C----CCCHHHHHHHHHHHHHC
Confidence 57999999954 2 33444455554444443
No 39
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=28.65 E-value=2.7e+02 Score=24.53 Aligned_cols=43 Identities=9% Similarity=0.020 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhhccCC
Q 026985 94 TSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVP 139 (230)
Q Consensus 94 t~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee~~~p 139 (230)
....|-++++..+...-.-.. ....||++|+++|++......|
T Consensus 183 l~q~a~~~lndsl~Td~~L~y---~Ps~IAlAAI~lA~~~~~~~l~ 225 (305)
T TIGR00569 183 LRKHADKFLNRTLLTDAYLLY---TPSQIALAAILHTASRAGLNME 225 (305)
T ss_pred HHHHHHHHHHHHHcCCceecC---CHHHHHHHHHHHHHHHhCCCCc
Confidence 445667777665544443344 5789999999999998654433
No 40
>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=28.53 E-value=53 Score=22.80 Aligned_cols=31 Identities=16% Similarity=0.208 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhc
Q 026985 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYS 108 (230)
Q Consensus 74 R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~ 108 (230)
=..+|+||.+-... ..+..-|+.+.-+.+..
T Consensus 32 G~e~VdWL~~~~~~----~~~r~eAv~lgq~Ll~~ 62 (83)
T cd04449 32 GSEAVSWLINNFED----VDTREEAVELGQELMNE 62 (83)
T ss_pred hHHHHHHHHHhCCC----CCCHHHHHHHHHHHHHC
Confidence 46799999985432 23444455555444444
No 41
>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=27.38 E-value=1.2e+02 Score=21.90 Aligned_cols=40 Identities=10% Similarity=-0.040 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHcCCccc-CCChHHHHHHHHHhcCCCCC
Q 026985 155 TKTIRRMELLVLSVLDWRLR-SVTPFSFIYFFACKLDPTGT 194 (230)
Q Consensus 155 ~~~i~~~E~~IL~~L~f~l~-~ptp~~fl~~~l~~l~~~~~ 194 (230)
+..+.++=..+...++.... ..++..++++|+........
T Consensus 31 r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~ 71 (127)
T PF00134_consen 31 RQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRS 71 (127)
T ss_dssp HHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCC
T ss_pred HHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccc
Confidence 56677776677777766553 35566666666655443333
No 42
>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=26.54 E-value=60 Score=22.73 Aligned_cols=29 Identities=10% Similarity=0.148 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q 026985 74 REESVAWILKVQAYYNFLPLTSYLSVNYMD 103 (230)
Q Consensus 74 R~~lv~Wm~~v~~~~~l~~et~~lAv~l~D 103 (230)
=..+|+||.+... ..-..|++.+|-.++|
T Consensus 33 GselVdWL~~~~~-~~sR~eAv~lg~~Ll~ 61 (83)
T cd04443 33 GCDLVSWLIEVGL-AQDRGEAVLYGRRLLQ 61 (83)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHHHH
Confidence 3579999998521 1122345555554444
No 43
>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=26.40 E-value=63 Score=22.48 Aligned_cols=28 Identities=18% Similarity=0.316 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q 026985 75 EESVAWILKVQAYYNFLPLTSYLSVNYMD 103 (230)
Q Consensus 75 ~~lv~Wm~~v~~~~~l~~et~~lAv~l~D 103 (230)
..+|+||++... ..-..|++.++..++|
T Consensus 32 selVdWL~~~~~-~~~r~eAv~lg~~Ll~ 59 (81)
T cd04439 32 NEFVSWLLEIGE-ISKPEEGVNLGQALLE 59 (81)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHHHH
Confidence 569999997542 1112355555555554
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=26.03 E-value=62 Score=22.68 Aligned_cols=31 Identities=10% Similarity=0.078 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 026985 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDR 104 (230)
Q Consensus 74 R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Dr 104 (230)
=..+|+||.+-.....-..|++..|..+++.
T Consensus 32 GsdlVdWL~~~~~~~~~R~eAv~~g~~Ll~~ 62 (84)
T cd04438 32 GSDLVDWLLSHVEGLTDRREARKYASSLLKL 62 (84)
T ss_pred chHHHHHHHHhCCCCCCHHHHHHHHHHHHHC
Confidence 3569999998654334445666666666554
No 45
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=25.06 E-value=1.5e+02 Score=19.56 Aligned_cols=30 Identities=13% Similarity=0.128 Sum_probs=25.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHH
Q 026985 68 SLDASAREESVAWILKVQAYYNFLPLTSYLSVNY 101 (230)
Q Consensus 68 ~i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l 101 (230)
.+++.....+-+|+ ..++++.+++..|+.+
T Consensus 12 ~ls~~e~~~i~~~~----~~~~~~~evI~~ai~~ 41 (73)
T TIGR01446 12 MLSPFEMEDLKYWL----DEFGNSPELIKEALKE 41 (73)
T ss_pred CCCHHHHHHHHHHH----HHhCCCHHHHHHHHHH
Confidence 48889999999997 4567889999998876
No 46
>PF14502 HTH_41: Helix-turn-helix domain
Probab=24.76 E-value=1.1e+02 Score=19.22 Aligned_cols=23 Identities=9% Similarity=0.127 Sum_probs=19.5
Q ss_pred HHHHHHHcCCChhHHHHHHHHHH
Q 026985 81 ILKVQAYYNFLPLTSYLSVNYMD 103 (230)
Q Consensus 81 m~~v~~~~~l~~et~~lAv~l~D 103 (230)
+-+.+.+|+++.-|+..|+.++.
T Consensus 9 I~e~~~~~~vs~GtiQ~Alk~Le 31 (48)
T PF14502_consen 9 ISEYSEKFGVSRGTIQNALKFLE 31 (48)
T ss_pred HHHHHHHhCcchhHHHHHHHHHH
Confidence 34778899999999999998764
No 47
>cd04440 DEP_2_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 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 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=23.94 E-value=64 Score=23.23 Aligned_cols=29 Identities=17% Similarity=0.084 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHh
Q 026985 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDRFLY 107 (230)
Q Consensus 74 R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~ 107 (230)
=..+|+|+++.. ... |-.-||.+--+.+.
T Consensus 40 GsElVdWLi~~g-~~~----tR~eAv~~gq~Ll~ 68 (93)
T cd04440 40 ASKLVDWLLAQG-DCR----TREEAVILGVGLCN 68 (93)
T ss_pred hhHHHHHHHHcC-CCC----CHHHHHHHHHHHHh
Confidence 357999999973 222 44445555444443
No 48
>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=23.77 E-value=67 Score=22.49 Aligned_cols=30 Identities=13% Similarity=0.390 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhcc
Q 026985 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSR 109 (230)
Q Consensus 75 ~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~ 109 (230)
..+||||++... ..+-.-|+.+--..+...
T Consensus 32 selVdWL~~~~~-----~~sR~eAv~lgq~Ll~~g 61 (82)
T cd04442 32 KELIDWLIEHKE-----ASDRETAIKIMQKLLDHS 61 (82)
T ss_pred HHHHHHHHHcCC-----CCCHHHHHHHHHHHHHCC
Confidence 469999997533 244455555555555443
No 49
>PF07226 DUF1422: Protein of unknown function (DUF1422); InterPro: IPR009867 This family consists of several hypothetical bacterial proteins of around 120 residues in length. The function of this family is unknown.
Probab=23.77 E-value=1.8e+02 Score=21.90 Aligned_cols=38 Identities=18% Similarity=0.254 Sum_probs=27.3
Q ss_pred ChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHh
Q 026985 91 LPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAK 132 (230)
Q Consensus 91 ~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK 132 (230)
+--++.+|++-+..-...++.+.. ...++.+|+++-.=
T Consensus 40 PlIaLvLavy~LyQ~Yl~~~m~eg----~P~~a~acFflG~f 77 (117)
T PF07226_consen 40 PLIALVLAVYCLYQRYLNHPMPEG----TPKLALACFFLGLF 77 (117)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCC----ChHHHHHHHHHHHH
Confidence 445777888766655555566654 88999999998754
No 50
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=22.69 E-value=1.6e+02 Score=20.31 Aligned_cols=30 Identities=13% Similarity=0.078 Sum_probs=25.5
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHHHHh
Q 026985 78 VAWILKVQAYYNFLPLTSYLSVNYMDRFLY 107 (230)
Q Consensus 78 v~Wm~~v~~~~~l~~et~~lAv~l~Drfl~ 107 (230)
+.-+..++..++++.+.+.++..++||--.
T Consensus 45 l~~~~rL~~Dl~in~~gi~lil~LLd~i~~ 74 (84)
T PF13591_consen 45 LRRIRRLHRDLGINLEGIALILDLLDRIEQ 74 (84)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 344578999999999999999999998654
No 51
>cd04448 DEP_PIKfyve DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGEF (GDP/GTP exchange factor) PIKfyve-like proteins. PIKfyve contains N-terminal Fyve finger and DEP domains, a central chaperonin-like domain and a C-terminal PIPK (phosphatidylinositol phosphate kinase) domain. PIKfyve-like proteins are important phosphatidylinositol (3)-monophosphate (PtdIns(3)P)-5-kinases, producing PtdIns(3,5)P2, which plays a major role in multivesicular body (MVB) sorting and control of retrograde traffic from the vacuole back to the endosome and/or Golgi. PIKfyve itself has been shown to be play a role in regulating early-endosome-to-trans-Golgi network (TGN) retrograde trafficking.
Probab=22.06 E-value=81 Score=21.88 Aligned_cols=30 Identities=13% Similarity=0.213 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 026985 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDR 104 (230)
Q Consensus 74 R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Dr 104 (230)
=..+||||++-.. ..=..+++.+|..++|.
T Consensus 31 GselVdWL~~~~~-~~~R~eAv~~gq~Ll~~ 60 (81)
T cd04448 31 GKELVNWLIRQGK-AATRVQAIAIGQALLDA 60 (81)
T ss_pred hHHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 3569999997532 12223555555555543
No 52
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=21.38 E-value=2.7e+02 Score=18.85 Aligned_cols=45 Identities=13% Similarity=0.017 Sum_probs=31.6
Q ss_pred ChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhhh
Q 026985 91 LPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEE 135 (230)
Q Consensus 91 ~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~ee 135 (230)
+.+.+..|..++|.-+....-.......-+++.++||.+|.++..
T Consensus 19 ~ee~l~~~a~~i~~~i~~~~~~~~~~~~~~~~vlaaLnla~e~~~ 63 (89)
T PF05164_consen 19 DEEYLRKAAELINEKINEIKKKYPKLSPERLAVLAALNLADELLK 63 (89)
T ss_dssp GHHHHHHHHHHHHHHHHHHCTTCCTSSHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHH
Confidence 456677788888888876442211112788999999999998854
No 53
>cd04437 DEP_Epac DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by cyclic AMP, a second messenger that plays a role in the control of diverse cellular processes, such as cell adhesion and insulin secretion. Epac-like proteins share a common domain architecture, containing RasGEF, DEP and CAP-effector (cAMP binding) domains. The DEP domain is involved in membrane localization.
Probab=21.21 E-value=77 Score=24.09 Aligned_cols=33 Identities=21% Similarity=0.281 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhcccc
Q 026985 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRL 111 (230)
Q Consensus 75 ~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i 111 (230)
..+||||++..... .+-..|+.+-.+.+...-+
T Consensus 34 sElVdWLl~~~~~v----~sR~eAv~lgq~Ll~~gvi 66 (125)
T cd04437 34 TELVDWLLQQSPCV----QSRSQAVGMWQVLLEEGVL 66 (125)
T ss_pred HHHHHHHHHcCCCC----CCHHHHHHHHHHHHhCCCe
Confidence 56899999976322 3455666666666655443
No 54
>cd03197 GST_C_mPGES2 GST_C family; microsomal Prostaglandin E synthase Type 2 (mPGES2) subfamily; mPGES2 is a membrane-anchored dimeric protein containing a CXXC motif which catalyzes the isomerization of PGH2 to PGE2. Unlike cytosolic PGE synthase (cPGES) and microsomal PGES Type 1 (mPGES1), mPGES2 does not require glutathione (GSH) for its activity, although its catalytic rate is increased two- to four-fold in the presence of DTT, GSH, or other thiol compounds. PGE2 is widely distributed in various tissues and is implicated in the sleep/wake cycle, relaxation/contraction of smooth muscle, excretion of sodium ions, maintenance of body temperature, and mediation of inflammation. mPGES2 contains an N-terminal hydrophobic domain which is membrane associated and a C-terminal soluble domain with a GST-like structure. The C-terminus contains two structural domains a N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. The GST active site is located in a cleft between t
Probab=21.05 E-value=88 Score=24.54 Aligned_cols=61 Identities=11% Similarity=-0.040 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHhccccCCCCCchhHHHHHHHHHHHHhhh
Q 026985 72 SAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKME 134 (230)
Q Consensus 72 ~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drfl~~~~i~~~~~~~lqlv~~~cL~IAsK~e 134 (230)
+.|.=+=+++..+.... =..|+.-|..-||.+......+..+..-.+.+|+++|++.+|.-
T Consensus 10 kWr~W~d~~lv~~~~pn--iyrt~~ea~~~f~yi~~~~~f~~~er~~~~~~Ga~aM~~isk~l 70 (149)
T cd03197 10 KWRKWADDHLVHLISPN--IYRTWSEALASFDYITPSGYFGYWEKFFAKYVGAAAMYLISKYL 70 (149)
T ss_pred HHHHHHHhhhHhhccHH--HhCCHHHHHHhhhhHhcCCCccHHHHHHHHHhhHHHHHHHHHHh
Confidence 44554445554432211 12367778888998888777643222267899999999999983
No 55
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=20.84 E-value=2.2e+02 Score=19.51 Aligned_cols=34 Identities=9% Similarity=0.110 Sum_probs=25.9
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHH
Q 026985 69 LDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRF 105 (230)
Q Consensus 69 i~~~~R~~lv~Wm~~v~~~~~l~~et~~lAv~l~Drf 105 (230)
-+-..|..+++++..++..-+++.+ .|+..+|.+
T Consensus 47 ~~y~rRK~Ii~~I~~l~~~~g~~~~---~ai~~le~~ 80 (81)
T PF12550_consen 47 RTYSRRKVIIDFIERLANERGISEE---EAIEILEEI 80 (81)
T ss_pred hhHHHHHHHHHHHHHHHHHcCCCHH---HHHHHHHhc
Confidence 4567799999999999888776654 567777654
No 56
>cd04444 DEP_PLEK2 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in pleckstrin 2-like proteins. Pleckstrin 2 is found in a wide variety of cell types, which suggest a more general role in signaling than pleckstrin 1. Pleckstrin-like proteins contain a central DEP domain, flanked by 2 PH (pleckstrin homology) domains.
Probab=20.75 E-value=73 Score=23.66 Aligned_cols=29 Identities=14% Similarity=0.109 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 026985 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDR 104 (230)
Q Consensus 75 ~~lv~Wm~~v~~~~~l~~et~~lAv~l~Dr 104 (230)
..+||||++-+..- -..|++.+|-.++|.
T Consensus 35 se~VDWLv~~~~~i-~R~EAv~l~q~Lmd~ 63 (109)
T cd04444 35 SALVDWLISNSFAA-SRLEAVTLASMLMEE 63 (109)
T ss_pred hHHHHHHHHCCCCC-CHHHHHHHHHHHHhC
Confidence 57899999975533 455666666666653
No 57
>cd04447 DEP_BRCC3 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in BBRC3-like proteins. BBRC3, also known as DEPDC1B, is a DEP containing protein of unknown function.
Probab=20.24 E-value=2.4e+02 Score=20.28 Aligned_cols=37 Identities=19% Similarity=0.432 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHH---cCCChhHHHHHHHHHHHHHhccccC
Q 026985 75 EESVAWILKVQAY---YNFLPLTSYLSVNYMDRFLYSRRLP 112 (230)
Q Consensus 75 ~~lv~Wm~~v~~~---~~l~~et~~lAv~l~Drfl~~~~i~ 112 (230)
..+|||+.+.... || +.-|-..||.++.+++..+-+.
T Consensus 33 sEAVDwL~~~l~~n~~fg-~~vtR~~av~l~qkll~~hVie 72 (92)
T cd04447 33 SEAVDWLHELLRSNSNFG-PEVTRQQTVQLLKKFLKNHVIE 72 (92)
T ss_pred HHHHHHHHHHHHhccccC-CCCCHHHHHHHHHHHHHcCCch
Confidence 5789999997533 33 3568889999999999887664
Done!