Query 027173
Match_columns 227
No_of_seqs 161 out of 1379
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 06:03:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027173.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027173hhsearch_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 4.4E-45 9.5E-50 315.8 19.4 216 11-227 10-231 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 3.5E-36 7.5E-41 255.3 12.3 182 40-227 113-302 (408)
3 KOG0653 Cyclin B and related k 100.0 4.7E-34 1E-38 256.4 14.0 179 38-227 125-304 (391)
4 COG5024 Cyclin [Cell division 100.0 1.4E-32 3.1E-37 245.8 10.6 180 38-227 179-358 (440)
5 PF00134 Cyclin_N: Cyclin, N-t 100.0 2.1E-27 4.6E-32 181.0 13.8 127 42-174 1-127 (127)
6 KOG0654 G2/Mitotic-specific cy 99.9 1.5E-26 3.3E-31 202.2 5.2 179 41-227 104-283 (359)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 1.1E-21 2.4E-26 170.3 13.8 152 72-227 54-211 (305)
8 KOG0834 CDK9 kinase-activating 99.8 2.8E-18 6E-23 149.1 11.7 154 70-227 35-200 (323)
9 COG5333 CCL1 Cdk activating ki 99.7 2E-16 4.3E-21 134.7 10.9 153 70-227 41-197 (297)
10 KOG0835 Cyclin L [General func 99.7 1.2E-15 2.6E-20 130.4 12.6 154 68-227 17-188 (367)
11 cd00043 CYCLIN Cyclin box fold 99.6 2.3E-14 4.9E-19 100.8 9.2 88 73-166 1-88 (88)
12 KOG0794 CDK8 kinase-activating 99.5 1E-14 2.2E-19 119.3 6.4 149 73-227 40-199 (264)
13 smart00385 CYCLIN domain prese 99.5 2.1E-13 4.6E-18 94.9 8.4 83 79-167 1-83 (83)
14 KOG2496 Cdk activating kinase 99.4 5.5E-12 1.2E-16 107.2 11.6 148 75-227 57-213 (325)
15 PRK00423 tfb transcription ini 99.1 2.1E-09 4.6E-14 94.2 15.4 142 75-227 123-264 (310)
16 PF08613 Cyclin: Cyclin; Inte 98.9 2.1E-08 4.5E-13 78.8 10.2 92 76-173 53-149 (149)
17 KOG4164 Cyclin ik3-1/CABLES [C 98.3 3.5E-07 7.6E-12 80.5 3.6 105 69-176 377-482 (497)
18 PF02984 Cyclin_C: Cyclin, C-t 98.3 3.1E-07 6.7E-12 68.3 1.6 48 176-227 1-48 (118)
19 COG1405 SUA7 Transcription ini 98.3 4.3E-05 9.4E-10 66.1 14.8 145 72-227 95-239 (285)
20 KOG1597 Transcription initiati 97.7 0.00054 1.2E-08 58.8 11.6 137 78-226 108-248 (308)
21 KOG1674 Cyclin [General functi 97.4 0.00077 1.7E-08 56.3 8.1 98 76-176 77-181 (218)
22 PF00382 TFIIB: Transcription 96.5 0.021 4.6E-07 38.7 7.6 61 81-145 1-61 (71)
23 KOG1675 Predicted cyclin [Gene 94.7 0.083 1.8E-06 45.9 5.9 98 82-185 198-297 (343)
24 KOG1598 Transcription initiati 94.4 0.19 4.2E-06 46.7 7.9 162 56-227 44-214 (521)
25 PRK00423 tfb transcription ini 94.2 0.68 1.5E-05 40.7 10.8 88 78-172 220-307 (310)
26 cd00043 CYCLIN Cyclin box fold 93.5 0.074 1.6E-06 36.2 2.8 49 175-227 2-50 (88)
27 smart00385 CYCLIN domain prese 91.2 0.13 2.9E-06 34.5 1.8 43 181-227 2-44 (83)
28 PF02984 Cyclin_C: Cyclin, C-t 89.9 1.4 3E-05 32.0 6.3 86 79-170 5-90 (118)
29 KOG0834 CDK9 kinase-activating 84.3 1.3 2.8E-05 39.2 3.8 96 74-172 152-248 (323)
30 COG1405 SUA7 Transcription ini 83.8 4 8.6E-05 35.5 6.6 57 76-135 193-249 (285)
31 PF09080 K-cyclin_vir_C: K cyc 80.4 3.1 6.7E-05 29.5 3.8 50 178-227 4-53 (106)
32 KOG1925 Rac1 GTPase effector F 67.9 6 0.00013 37.0 3.4 73 39-111 547-619 (817)
33 PF01857 RB_B: Retinoblastoma- 65.1 39 0.00085 25.9 7.1 66 77-145 14-80 (135)
34 KOG0835 Cyclin L [General func 42.7 1.7E+02 0.0036 26.2 8.0 67 95-167 161-227 (367)
35 KOG1597 Transcription initiati 37.5 1.5E+02 0.0032 26.1 6.8 65 77-145 203-267 (308)
36 PF11357 Spy1: Cell cycle regu 33.7 1.8E+02 0.004 22.2 6.1 55 121-175 53-109 (131)
37 TIGR00569 ccl1 cyclin ccl1. Un 33.6 1.9E+02 0.0042 25.3 7.1 43 94-139 183-225 (305)
38 KOG0794 CDK8 kinase-activating 32.3 2.5E+02 0.0055 23.9 7.1 51 86-139 162-213 (264)
39 cd04441 DEP_2_DEP6 DEP (Dishev 30.1 44 0.00096 23.6 2.1 29 75-108 36-64 (85)
40 cd04439 DEP_1_P-Rex DEP (Dishe 27.8 44 0.00095 23.2 1.7 29 75-104 32-60 (81)
41 cd04438 DEP_dishevelled DEP (D 26.6 56 0.0012 22.9 2.1 30 75-104 33-62 (84)
42 cd04449 DEP_DEPDC5-like DEP (D 25.7 59 0.0013 22.5 2.1 30 75-108 33-62 (83)
43 cd04443 DEP_GPR155 DEP (Dishev 25.6 61 0.0013 22.7 2.2 28 75-103 34-61 (83)
44 PF12550 GCR1_C: Transcription 25.2 1.4E+02 0.003 20.5 3.9 34 69-105 47-80 (81)
45 TIGR01446 DnaD_dom DnaD and ph 24.5 1.6E+02 0.0034 19.4 4.0 30 68-101 12-41 (73)
46 PF07226 DUF1422: Protein of u 23.1 1.8E+02 0.004 21.8 4.3 39 91-133 40-78 (117)
47 cd04442 DEP_1_DEP6 DEP (Dishev 23.0 66 0.0014 22.5 1.9 29 75-108 32-60 (82)
48 cd04440 DEP_2_P-Rex DEP (Dishe 22.7 68 0.0015 23.0 2.0 28 75-107 41-68 (93)
49 cd04447 DEP_BRCC3 DEP (Disheve 22.7 2E+02 0.0042 20.7 4.3 38 75-112 33-72 (92)
50 PF05164 ZapA: Cell division p 22.4 2.1E+02 0.0046 19.4 4.5 45 91-135 19-63 (89)
51 PF14502 HTH_41: Helix-turn-he 20.5 1.6E+02 0.0034 18.5 3.0 23 81-103 9-31 (48)
52 cd04437 DEP_Epac DEP (Dishevel 20.5 76 0.0016 24.1 1.9 32 75-110 34-65 (125)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=4.4e-45 Score=315.79 Aligned_cols=216 Identities=43% Similarity=0.651 Sum_probs=192.2
Q ss_pred ccccccccccccC---CCCCCCCCCCCC---CCcchHHHHHHHHHHHHhcCCCCcccccccCCCCCHHHHHHHHHHHHHH
Q 027173 11 DLLCGEDSGIFAG---ESSPACSSSDLE---SSASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKV 84 (227)
Q Consensus 11 ~l~c~e~~~~~~~---~~~p~~~~~d~~---~~~~~~e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lv~wm~~v 84 (227)
.|+|+|.+..... .+++...-.++. ..-+++|.+.+|+++|..+.|..+|...+|. .+++.+|.++++||.+|
T Consensus 10 ~l~c~E~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~-~~~~~~R~~A~~WIl~V 88 (335)
T KOG0656|consen 10 QLLCHEESTSDEQDRADNDESSTESSIPQLGFLLWDERVLANLLEKEEQHNPSLDYFLCVQK-LILSSMRKQALDWILKV 88 (335)
T ss_pred ccccCCCCcccccccccCCcccccccccccccccccHHHHHHHHHHHHHhCCCCchhhhccc-ccccHHHHHHHHHHHHH
Confidence 4899997664432 111111111111 1357899999999999999999997777654 59999999999999999
Q ss_pred HHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHHHHHHHH
Q 027173 85 QAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELL 164 (227)
Q Consensus 85 ~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i~~~E~~ 164 (227)
|.++++.++|+++|+||||||++.+++++.++|.+||+|++||+||+|+||..+|.+.++....+++.|..+.|.+||+.
T Consensus 89 ~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELL 168 (335)
T KOG0656|consen 89 CEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELL 168 (335)
T ss_pred HHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHH
Confidence 99999999999999999999999999999989999999999999999999999999999998889999999999999999
Q ss_pred HHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 165 VLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 165 IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
||++|+|+++.+||++|+++|+++++..+...+.+..++..++.+..+|+.|+.|+||+||+|
T Consensus 169 VLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa 231 (335)
T KOG0656|consen 169 VLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLEYPPSVIAAA 231 (335)
T ss_pred HHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHH
Confidence 999999999999999999999999999988889999999999999999999999999999986
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.5e-36 Score=255.33 Aligned_cols=182 Identities=21% Similarity=0.336 Sum_probs=165.3
Q ss_pred hHHHHHHHHHHHHhcCCCCcccccccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhc-CccCCCCCch
Q 027173 40 IEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYS-RRLPDNNGWP 118 (227)
Q Consensus 40 ~~e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~-~~i~~~~~~~ 118 (227)
..+++..|+.+|+.+.....++.. ++.+.++||++++|||.|||+.++|.+||+|+|+-||||||.. ..+.+. .
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 568999999999998877777765 8899999999999999999999999999999999999999976 457777 7
Q ss_pred hHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCC------
Q 027173 119 WQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPT------ 192 (227)
Q Consensus 119 lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~------ 192 (227)
|||||++|||||+|+||++||++.+|.+ .+++.+|.++|+.||..||++|+|+|++.|...||..|+.....+
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 9999999999999999999999999996 789999999999999999999999999999999999999765444
Q ss_pred -CChHHHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 193 -GTFMGFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 193 -~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
+++.+..+-+...+++.++.|.+.+.|+.+++|||
T Consensus 267 ~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAA 302 (408)
T KOG0655|consen 267 LPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAA 302 (408)
T ss_pred ccccchHHHHHHHHHHHHHHhccccccchHHHHHHH
Confidence 25566666677789999999999999999999987
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=4.7e-34 Score=256.43 Aligned_cols=179 Identities=26% Similarity=0.356 Sum_probs=157.7
Q ss_pred cchHHHHHHHHHHHHhcCCCCcccccccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCc
Q 027173 38 ASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGW 117 (227)
Q Consensus 38 ~~~~e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~ 117 (227)
+|.+++...+.++|..+.|...+ .. +.+++.+||.+++||+++||.+|++.+||+++||+++||||+..++++.
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 34556777777777666676544 33 6789999999999999999999999999999999999999999998888
Q ss_pred hhHHHHHHHHH-HHhhcccccCCChhhHHHhhcCCCccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChH
Q 027173 118 PWQLLSVACLS-LAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFM 196 (227)
Q Consensus 118 ~lql~~~~cl~-IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~ 196 (227)
++||+|++||+ ||+|+||..+|.+.++.. .+++.||++||++||+.||++|+|++..|||+.||++|+......
T Consensus 199 ~lqLvgvsalf~IA~K~EE~~~P~v~dlv~-isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d---- 273 (391)
T KOG0653|consen 199 KLQLVGVSALLSIACKYEEISLPSVEDLVL-ITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYD---- 273 (391)
T ss_pred HhhHHhHHHHHHHHHhhhhccCCccceeEe-eeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcc----
Confidence 89999999966 999999999999999985 789999999999999999999999999999999999999887622
Q ss_pred HHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 197 GFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 197 ~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
......+.++++.+++|+.++.++||.+|+|
T Consensus 274 ~~~~~~~k~~~El~l~d~~~~~~~~s~~aaa 304 (391)
T KOG0653|consen 274 IKTRTLVKYLLELSLCDYSMLSIPPSSSAAA 304 (391)
T ss_pred hhHHHHHHHHHHHHHhhhHHhccCcHHHHHH
Confidence 3355567888889999999999999998876
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.98 E-value=1.4e-32 Score=245.82 Aligned_cols=180 Identities=26% Similarity=0.334 Sum_probs=162.2
Q ss_pred cchHHHHHHHHHHHHhcCCCCcccccccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCc
Q 027173 38 ASIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGW 117 (227)
Q Consensus 38 ~~~~e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~ 117 (227)
+|..+++..++++|..+.|.+.|+.+ ++.+...||.++++|+++||.+|++.++|+++||+++||||+...+.-.
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 46668999999999999999999766 7788889999999999999999999999999999999999999999988
Q ss_pred hhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHH
Q 027173 118 PWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMG 197 (227)
Q Consensus 118 ~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~ 197 (227)
++||+|++|||||+|+||...|.+.++.. .+++.|+.++|+++|+.+|.+|+|++..|+|..||+++...-+.. .+.+
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-ATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYD-IFSR 331 (440)
T ss_pred HHHHHHHHHHHHHHhHhHhcCHHHHHHHH-HHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccc-hhhh
Confidence 89999999999999999999999999986 688899999999999999999999999999999988887554333 2233
Q ss_pred HHHHHHHHHHHHhhccccccccccchhccC
Q 027173 198 FLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 198 ~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
..+.+++..+..++.|++++||..|+|
T Consensus 332 ---t~~k~~~e~s~~~~~f~~~~~S~~~aa 358 (440)
T COG5024 332 ---TPAKFSSEISPVDYKFIQISPSWCAAA 358 (440)
T ss_pred ---hhHhhhCCchHhhhhhccCCchHHHHH
Confidence 346677777999999999999999986
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=2.1e-27 Score=180.99 Aligned_cols=127 Identities=32% Similarity=0.497 Sum_probs=112.9
Q ss_pred HHHHHHHHHHHhcCCCCcccccccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHH
Q 027173 42 ESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQL 121 (227)
Q Consensus 42 e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql 121 (227)
|+++.++++|.++.|+++|++. +++++...|..+++||.+++..++++++|+++|+.|||||+...++.+. ++++
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 6889999999999999999985 5579999999999999999999999999999999999999999988887 8999
Q ss_pred HHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHHHHHHHHHHHHcCCccc
Q 027173 122 LSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLR 174 (227)
Q Consensus 122 ~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~~~l~ 174 (227)
+|++|++||+|++|..+|.+.+++. .+++.|++++|.+||+.||++|+|+++
T Consensus 76 i~~~cl~lA~K~~e~~~~~~~~~~~-~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 76 IALACLFLASKMEEDNPPSISDLIR-ISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHTSS--HHHHHHH-HTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhHHHHhhhhhccccchHHHHHH-HHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 9999999999999999999999986 457899999999999999999999985
No 6
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.93 E-value=1.5e-26 Score=202.20 Aligned_cols=179 Identities=20% Similarity=0.198 Sum_probs=164.2
Q ss_pred HHHHHHHHHHHHh-cCCCCcccccccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchh
Q 027173 41 EESIAGFIEDERN-FVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPW 119 (227)
Q Consensus 41 ~e~l~~ll~~E~~-~~~~~~y~~~~q~~~i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~l 119 (227)
.++.++....|.+ +.|.++|+..+|. ++++.||.++++|.+++++.+++..+++|+++++.|||+....+.+. ++
T Consensus 104 ~~I~~~~r~~ei~~~rp~~~~~e~vq~-d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~---k~ 179 (359)
T KOG0654|consen 104 AKIYNTLRVSDIKSERPLPSKFEFVQA-DITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQ---KL 179 (359)
T ss_pred HHHhhcccccchhhccCcccceeeeec-CCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHH---HH
Confidence 3567777888888 9999999999886 59999999999999999999999999999999999999999999988 89
Q ss_pred HHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHH
Q 027173 120 QLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFL 199 (227)
Q Consensus 120 ql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~~i 199 (227)
|++|.+|++||+|+||..+|.+++|+. ..++.|+..++..||..||+.|.|.+..||.-.|++.|++.... ....+
T Consensus 180 ql~g~s~m~I~sk~ee~~~~~~~ef~~-itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~---~~~~~ 255 (359)
T KOG0654|consen 180 QLVGISAMLIASKYEEIKEPRVEEFCY-ITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQT---PELQV 255 (359)
T ss_pred HHhCcccceeeccchhhcchHHHHHHh-hhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcc---hhHHH
Confidence 999999999999999999999999985 79999999999999999999999999999999999999877554 33456
Q ss_pred HHHHHHHHHHhhccccccccccchhccC
Q 027173 200 ISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 200 ~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
-..+.++.+.++.++.|+.|.||++|+|
T Consensus 256 e~~~~yl~elsll~~~~l~y~PSliAas 283 (359)
T KOG0654|consen 256 EPLANYLTELSLLDYIFLKYLPSLIAAS 283 (359)
T ss_pred HHHHHHHHHhhhhhHHHhccChHHHHHH
Confidence 6678888889999999999999999986
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.87 E-value=1.1e-21 Score=170.26 Aligned_cols=152 Identities=15% Similarity=0.168 Sum_probs=129.3
Q ss_pred HHHHHHHHHHHHHHHHhC--CChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhc
Q 027173 72 SAREESVAWILKVQAYYN--FLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGA 149 (227)
Q Consensus 72 ~~R~~lv~wm~~v~~~~~--l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~ 149 (227)
..|.--.+.|.++|.+++ ++.+|+.+|+.||+||+...++... +.+++++||+|+|+|+||.. .++.+++....
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 678888899999999999 9999999999999999999999888 89999999999999999985 57888874332
Q ss_pred C-CCccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCC---CCChHHHHHHHHHHHHHHhhccccccccccchhc
Q 027173 150 K-YIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDP---TGTFMGFLISRATKIILSNIQGENHQLLPVNATT 225 (227)
Q Consensus 150 ~-~~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~---~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A 225 (227)
+ .....++|+++|..||++|+|++.+++|+.++..|+..+.. .......+.+.|+.++..++...-++.|+||+||
T Consensus 130 ~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IA 209 (305)
T TIGR00569 130 ETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIA 209 (305)
T ss_pred CCchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHH
Confidence 2 12356999999999999999999999999999999864431 1112346788899999888888889999999999
Q ss_pred cC
Q 027173 226 RA 227 (227)
Q Consensus 226 ~A 227 (227)
+|
T Consensus 210 lA 211 (305)
T TIGR00569 210 LA 211 (305)
T ss_pred HH
Confidence 86
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.77 E-value=2.8e-18 Score=149.14 Aligned_cols=154 Identities=19% Similarity=0.252 Sum_probs=135.5
Q ss_pred CHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhc
Q 027173 70 DASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGA 149 (227)
Q Consensus 70 ~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~ 149 (227)
-...|...+.||.+++..++++..|+..|+.|+.||....+.... ....+|++|+++|+|+||. |.++++++...-
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 356799999999999999999999999999999999999999988 7899999999999999997 678888773211
Q ss_pred CCCc------------cHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhcccccc
Q 027173 150 KYIF------------ETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQ 217 (227)
Q Consensus 150 ~~~~------------t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl 217 (227)
.... -++.|+..|+.||++|+|++++-.|+.||-.++..++......+.+...|+.++..++...-+|
T Consensus 111 ~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL 190 (323)
T KOG0834|consen 111 RYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCL 190 (323)
T ss_pred HHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeE
Confidence 1111 1689999999999999999999999999999999988776555578899999999999999999
Q ss_pred ccccchhccC
Q 027173 218 LLPVNATTRA 227 (227)
Q Consensus 218 ~~~PS~~A~A 227 (227)
+|+|.+||.|
T Consensus 191 ~y~p~~IAva 200 (323)
T KOG0834|consen 191 QYSPHSIAVA 200 (323)
T ss_pred eecCcEEEee
Confidence 9999999986
No 9
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.68 E-value=2e-16 Score=134.75 Aligned_cols=153 Identities=18% Similarity=0.218 Sum_probs=128.5
Q ss_pred CHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccc-cCCChhhHHHhh
Q 027173 70 DASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEET-VVPSLLDLQVEG 148 (227)
Q Consensus 70 ~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~-~~~~~~~l~~~~ 148 (227)
..+.|..-..|+..+|.+++++..++.+||.+|+||..+..+... .++-++.||+++|+|+||. +-..+..+....
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 456677777999999999999999999999999999999998888 7999999999999999994 112333332210
Q ss_pred ---cCCCccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhccccccccccchhc
Q 027173 149 ---AKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPVNATT 225 (227)
Q Consensus 149 ---~~~~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A 225 (227)
.-..-+++.|..+|..+|+.|+|++.++.|+.++..|+..+...+. ..+.+.|+.++..++...-++.|+|..||
T Consensus 118 ~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~--~~~~~~aw~~inDa~~t~~~llypphiIA 195 (297)
T COG5333 118 LWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK--YKLLQIAWKIINDALRTDLCLLYPPHIIA 195 (297)
T ss_pred cccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH--HHHHHHHHHHHHhhhhceeeeecChHHHH
Confidence 0122358999999999999999999999999999999987655543 56888999999999999999999999999
Q ss_pred cC
Q 027173 226 RA 227 (227)
Q Consensus 226 ~A 227 (227)
.|
T Consensus 196 ~a 197 (297)
T COG5333 196 LA 197 (297)
T ss_pred HH
Confidence 86
No 10
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.66 E-value=1.2e-15 Score=130.35 Aligned_cols=154 Identities=18% Similarity=0.226 Sum_probs=133.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHh
Q 027173 68 SLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVE 147 (227)
Q Consensus 68 ~i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~ 147 (227)
+-....|..-++||.+-+.-++|+..+.+.+..+|-||+..++..+. ++..++++|++||||+||. |-++++.+..
T Consensus 17 e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~---~~e~vv~ACv~LASKiEE~-Prr~rdVinV 92 (367)
T KOG0835|consen 17 ETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRH---DFEIVVMACVLLASKIEEE-PRRIRDVINV 92 (367)
T ss_pred chHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccc---cHHHHHHHHHHHHhhhccc-cccHhHHHHH
Confidence 34567789999999999999999999999999999999999998888 7999999999999999986 5566664410
Q ss_pred ------------------hcCCCccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHH
Q 027173 148 ------------------GAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILS 209 (227)
Q Consensus 148 ------------------~~~~~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~ 209 (227)
.-.+.-.+.+++++|+.||+.|+|++++-.|+.++-.|+..++..+. ..|.+.++.++..
T Consensus 93 Fh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~--~~l~Q~~wNfmND 170 (367)
T KOG0835|consen 93 FHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPN--LKLLQAAWNFMND 170 (367)
T ss_pred HHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCc--hhHHHHHHHhhhh
Confidence 00011125788999999999999999999999999999999998876 3789999999999
Q ss_pred hhccccccccccchhccC
Q 027173 210 NIQGENHQLLPVNATTRA 227 (227)
Q Consensus 210 ~l~d~~fl~~~PS~~A~A 227 (227)
++...-|..|+|++||+|
T Consensus 171 slRT~v~vry~pe~iACa 188 (367)
T KOG0835|consen 171 SLRTDVFVRYSPESIACA 188 (367)
T ss_pred ccccceeeecCHHHHHHH
Confidence 999999999999999986
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=99.56 E-value=2.3e-14 Score=100.83 Aligned_cols=88 Identities=35% Similarity=0.432 Sum_probs=78.7
Q ss_pred HHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCC
Q 027173 73 AREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYI 152 (227)
Q Consensus 73 ~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~ 152 (227)
+|...++||.+++..+++++++.++|+.++|||+....+.+. +++++|++|++||+|+++. ++..+++.. .+++.
T Consensus 1 ~~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~ia~a~l~lA~k~~~~-~~~~~~~~~-~~~~~ 75 (88)
T cd00043 1 MRPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGR---SPSLVAAAALYLAAKVEEI-PPWLKDLVH-VTGYA 75 (88)
T ss_pred CcchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccC---ChHHHHHHHHHHHHHHcCC-CCCHHHHhH-HhCCC
Confidence 367899999999999999999999999999999999888777 7999999999999999999 888999874 44422
Q ss_pred ccHHHHHHHHHHHH
Q 027173 153 FETKTIRRMELLVL 166 (227)
Q Consensus 153 ~t~~~i~~~E~~IL 166 (227)
+.++|.++|+.|+
T Consensus 76 -~~~~i~~~e~~il 88 (88)
T cd00043 76 -TEEEILRMEKLLL 88 (88)
T ss_pred -CHHHHHHHHHHhC
Confidence 8999999999875
No 12
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.54 E-value=1e-14 Score=119.33 Aligned_cols=149 Identities=23% Similarity=0.243 Sum_probs=124.9
Q ss_pred HHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHH------
Q 027173 73 AREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQV------ 146 (227)
Q Consensus 73 ~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~------ 146 (227)
.+--..+.+..+++++++...++.+|+.||-||+.+.+...- .+.+++.||+++|||+||.....++.+..
T Consensus 40 l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~---~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~ 116 (264)
T KOG0794|consen 40 LKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEI---EPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLK 116 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc---CHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHh
Confidence 344556778889999999999999999999999999998777 79999999999999999974223333221
Q ss_pred -----hhcCCCccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhcccccccccc
Q 027173 147 -----EGAKYIFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPV 221 (227)
Q Consensus 147 -----~~~~~~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~P 221 (227)
......+...+|.+||..+|+.|++-|-+-.|+.-|..++...+..+ +.+.+.++.++..++...-++-|||
T Consensus 117 ~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d---~~~l~~~W~ivNDSyr~Dl~Ll~PP 193 (264)
T KOG0794|consen 117 TRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGIND---QKLLQLAWSIVNDSYRMDLCLLYPP 193 (264)
T ss_pred hhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccc---hhhhhhhHhhhcchhhcceeeecCH
Confidence 11234566899999999999999999999999999999998877644 4577889999999999999999999
Q ss_pred chhccC
Q 027173 222 NATTRA 227 (227)
Q Consensus 222 S~~A~A 227 (227)
=+||.|
T Consensus 194 h~IalA 199 (264)
T KOG0794|consen 194 HQIALA 199 (264)
T ss_pred HHHHHH
Confidence 999976
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=99.48 E-value=2.1e-13 Score=94.87 Aligned_cols=83 Identities=36% Similarity=0.430 Sum_probs=72.3
Q ss_pred HHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHH
Q 027173 79 AWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTI 158 (227)
Q Consensus 79 ~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i 158 (227)
+||.+++..+++++++.++|+.++||++....+.+. ..+++|++|+++|+|+++.. +...++.. .+++ ++.++|
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 599999999999999999999999999997666665 79999999999999999985 56677764 4543 799999
Q ss_pred HHHHHHHHH
Q 027173 159 RRMELLVLS 167 (227)
Q Consensus 159 ~~~E~~IL~ 167 (227)
.++|+.||+
T Consensus 75 ~~~~~~il~ 83 (83)
T smart00385 75 LRMEKLLLE 83 (83)
T ss_pred HHHHHHHhC
Confidence 999999874
No 14
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair]
Probab=99.37 E-value=5.5e-12 Score=107.18 Aligned_cols=148 Identities=14% Similarity=0.207 Sum_probs=117.3
Q ss_pred HHHHHHHHHHHHHhC--CChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhc-CC
Q 027173 75 EESVAWILKVQAYYN--FLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGA-KY 151 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~--l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~-~~ 151 (227)
.....-+++.+.+|+ +++.++-.|+.+|-||+-..++... ..+.|.+||+|+|+|++|.++ ++.+|+.... +.
T Consensus 57 k~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~---~pk~I~~tc~flA~Kieef~I-SieqFvkn~~~~~ 132 (325)
T KOG2496|consen 57 KEEELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEY---SPKIIMATCFFLACKIEEFYI-SIEQFVKNMNGRK 132 (325)
T ss_pred HHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhc---ChHHHHHHHHHHHhhhHhhee-cHHHHHhhccCcc
Confidence 444555667777775 7999999999999999999998888 799999999999999998754 8999885333 22
Q ss_pred CccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcC----C--CCChHHHHHHHHHHHHHHhhccccccccccchhc
Q 027173 152 IFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLD----P--TGTFMGFLISRATKIILSNIQGENHQLLPVNATT 225 (227)
Q Consensus 152 ~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~----~--~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A 225 (227)
.-+.+.|+..|..+++.|+|+|.+-+|+.=++-|+..+. . +.......... ..++..+++..-.+-|+||+||
T Consensus 133 ~k~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~-~~fl~~~lltDa~lLytPsQIA 211 (325)
T KOG2496|consen 133 WKTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDS-KKFLDRALLTDAYLLYTPSQIA 211 (325)
T ss_pred cccHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhH-HHHHHHHHHhccceecChHHHH
Confidence 347899999999999999999999999998888874432 1 11111222222 5888889999999999999999
Q ss_pred cC
Q 027173 226 RA 227 (227)
Q Consensus 226 ~A 227 (227)
.|
T Consensus 212 La 213 (325)
T KOG2496|consen 212 LA 213 (325)
T ss_pred HH
Confidence 76
No 15
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.13 E-value=2.1e-09 Score=94.17 Aligned_cols=142 Identities=13% Similarity=0.098 Sum_probs=120.9
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCcc
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFE 154 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t 154 (227)
.....-|-+++..++++..+.-.|..++.++.....+... ....++++|+++|+|.++. |..+.++.. ..+ .+
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 4455678889999999999999999999999988777666 6899999999999999876 678889874 333 58
Q ss_pred HHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 155 TKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 155 ~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
+++|-+.++.|++.|+.++....|.+|+..|...++.++ .+.+.|..++..+....-...-.|..+|+|
T Consensus 196 ~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~----~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAA 264 (310)
T PRK00423 196 RKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG----EVQKKAIEILQKAKEKGLTSGKGPTGLAAA 264 (310)
T ss_pred HHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHhcCcccCCCHHHHHHH
Confidence 999999999999999999999999999999999998764 366778888877766555678889888876
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=98.87 E-value=2.1e-08 Score=78.85 Aligned_cols=92 Identities=21% Similarity=0.245 Sum_probs=70.7
Q ss_pred HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHh---cCc--cCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcC
Q 027173 76 ESVAWILKVQAYYNFLPLTSYLSVNYMDRFLY---SRR--LPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAK 150 (227)
Q Consensus 76 ~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls---~~~--i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~ 150 (227)
.+.+|+.++....+++++++..|..|+||+.. ... +... ..+.+-++|+.+|+|+-+......+.+.. .++
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 48899999999999999999999999999999 222 3334 68899999999999998887777777775 444
Q ss_pred CCccHHHHHHHHHHHHHHcCCcc
Q 027173 151 YIFETKTIRRMELLVLSVLDWRL 173 (227)
Q Consensus 151 ~~~t~~~i~~~E~~IL~~L~~~l 173 (227)
++.+|+.+||+..|..|+|+|
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 699999999999999999986
No 17
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.34 E-value=3.5e-07 Score=80.54 Aligned_cols=105 Identities=18% Similarity=0.229 Sum_probs=89.9
Q ss_pred CCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHH-Hh
Q 027173 69 LDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ-VE 147 (227)
Q Consensus 69 i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~-~~ 147 (227)
+|-..-+.+-.=|.++....++..-|+.+|..||.....+..+.+. .-+|.|.+|+++|+|+.|..--.+..++ ..
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 4544445566667888889999999999999999999999999888 6899999999999999987777777776 33
Q ss_pred hcCCCccHHHHHHHHHHHHHHcCCcccCC
Q 027173 148 GAKYIFETKTIRRMELLVLSVLDWRLRSV 176 (227)
Q Consensus 148 ~~~~~~t~~~i~~~E~~IL~~L~~~l~~p 176 (227)
.....+++.|++..|.-||.+|+|.|+.|
T Consensus 454 Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 454 EEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 45567899999999999999999999965
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=98.28 E-value=3.1e-07 Score=68.31 Aligned_cols=48 Identities=15% Similarity=0.100 Sum_probs=38.4
Q ss_pred CChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 176 VTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 176 pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
|||++||++|++..+ ....+...+.++++.++.++.|+.|+||+||+|
T Consensus 1 PTp~~Fl~~~~~~~~----~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaA 48 (118)
T PF02984_consen 1 PTPYDFLRRFLKISN----ADQEVRNLARYLLELSLLDYEFLQYPPSVIAAA 48 (118)
T ss_dssp --HHHHHHHHHTSSS----HHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHH
T ss_pred CcHHHHHHHHHHHcC----CcHHHHHHHHHHHHHHHhhccccCCCHHHHHHH
Confidence 899999999965322 245688889999999999999999999999986
No 19
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.26 E-value=4.3e-05 Score=66.11 Aligned_cols=145 Identities=14% Similarity=0.141 Sum_probs=121.7
Q ss_pred HHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCC
Q 027173 72 SAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKY 151 (227)
Q Consensus 72 ~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~ 151 (227)
..-.....-+-.++..++++..+.-.|..++-+.+...-.... ..+-+.++|+++|++.... |..+.++... .+
T Consensus 95 rnl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGR---sie~v~AA~iY~acR~~~~-prtl~eIa~a-~~- 168 (285)
T COG1405 95 RNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGR---SIESVAAACIYAACRINGV-PRTLDEIAKA-LG- 168 (285)
T ss_pred hHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCC---cHHHHHHHHHHHHHHHcCC-CccHHHHHHH-HC-
Confidence 3445677788889999999999999999999999988777766 6999999999999999876 6677777643 33
Q ss_pred CccHHHHHHHHHHHHHHcCCcccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 152 IFETKTIRRMELLVLSVLDWRLRSVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 152 ~~t~~~i~~~E~~IL~~L~~~l~~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
.++++|.++.+.+.+.|+=.+.+..|.+|+..|...|+.+++ ....|.+++..+.....-..=.|+-+|+|
T Consensus 169 -V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~----v~~~a~ei~~~~~~~g~~~Gk~P~glAaa 239 (285)
T COG1405 169 -VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDE----VRRKAIEIVKKAKRAGLTAGKSPAGLAAA 239 (285)
T ss_pred -CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHH----HHHHHHHHHHHHHHhCcccCCCchhHHHH
Confidence 578999999999999999999999999999999999998854 55667788877777776667778877765
No 20
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=97.74 E-value=0.00054 Score=58.78 Aligned_cols=137 Identities=16% Similarity=0.144 Sum_probs=104.4
Q ss_pred HHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHH
Q 027173 78 VAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKT 157 (227)
Q Consensus 78 v~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~ 157 (227)
..-+...+...+|+....-.|-.+|.++-..+..... ..+-++++|++||+.-++. |..+.++.. .++ .+++|
T Consensus 108 ~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGk---s~eai~AAclyiACRq~~~-pRT~kEI~~-~an--v~kKE 180 (308)
T KOG1597|consen 108 FKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGK---SVEALAAACLYIACRQEDV-PRTFKEISA-VAN--VSKKE 180 (308)
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCc---cHHHHHHHHHHHHHHhcCC-CchHHHHHH-HHc--CCHHH
Confidence 3445678889999999999999999999976666555 6999999999999998876 678888774 343 68999
Q ss_pred HHHHHHHHHHHcCCcccCCC--hHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhcccccc--ccccchhcc
Q 027173 158 IRRMELLVLSVLDWRLRSVT--PFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQ--LLPVNATTR 226 (227)
Q Consensus 158 i~~~E~~IL~~L~~~l~~pT--p~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl--~~~PS~~A~ 226 (227)
|-+.=..|++.|+=.+...| ..+|+.+|-..|+.+.. .-..|.++...+. +..+. +-|=|+.|+
T Consensus 181 Igr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~----~q~aA~e~a~ka~-~~~~~~gRsPiSIAAa 248 (308)
T KOG1597|consen 181 IGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKS----AQEAATEIAEKAE-EMDIRAGRSPISIAAA 248 (308)
T ss_pred HHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHH----HHHHHHHHHHHHH-HhccccCCCchhHHHH
Confidence 99999999999998887776 88999999999987764 2233444444332 44444 455555544
No 21
>KOG1674 consensus Cyclin [General function prediction only]
Probab=97.41 E-value=0.00077 Score=56.26 Aligned_cols=98 Identities=20% Similarity=0.242 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCc------cCCCCCch-hHHHHHHHHHHHhhcccccCCChhhHHHhh
Q 027173 76 ESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRR------LPDNNGWP-WQLLSVACLSLAAKMEETVVPSLLDLQVEG 148 (227)
Q Consensus 76 ~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~------i~~~~~~~-lql~~~~cl~IAsK~ee~~~~~~~~l~~~~ 148 (227)
.+-+++.++..+.+.+++++..|..|||||....+ -..-+... .+-+-++|+.+|+|+.+...-....... .
T Consensus 77 si~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~-v 155 (218)
T KOG1674|consen 77 SIRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAK-V 155 (218)
T ss_pred chHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHH-h
Confidence 45677888888999999999999999999998732 11111113 6778999999999999876655555554 2
Q ss_pred cCCCccHHHHHHHHHHHHHHcCCcccCC
Q 027173 149 AKYIFETKTIRRMELLVLSVLDWRLRSV 176 (227)
Q Consensus 149 ~~~~~t~~~i~~~E~~IL~~L~~~l~~p 176 (227)
+ ..+.+|+..+|...|..++|++.++
T Consensus 156 g--gl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 G--GLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred C--CCChHhhhhhhHHHHhhCCeEEEec
Confidence 2 4789999999999999999999975
No 22
>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=96.51 E-value=0.021 Score=38.73 Aligned_cols=61 Identities=11% Similarity=0.129 Sum_probs=48.7
Q ss_pred HHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHH
Q 027173 81 ILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ 145 (227)
Q Consensus 81 m~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~ 145 (227)
|-+++..++|+..+.-.|..++++-....-.... ...-++++|+++|++..+. +.++.++.
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr---~~~~iaAA~iY~acr~~~~-~~t~~eIa 61 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGR---SPESIAAACIYLACRLNGV-PRTLKEIA 61 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS----HHHHHHHHHHHHHHHTTS-SSSHHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccC---CHHHHHHHHHHHHHHHcCC-CcCHHHHH
Confidence 4578999999999999999999999877665555 6899999999999999865 55777775
No 23
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=94.70 E-value=0.083 Score=45.89 Aligned_cols=98 Identities=11% Similarity=0.182 Sum_probs=66.7
Q ss_pred HHHHHHhCCChhHHHHHHHHHHHHHhcCccC--CCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHHH
Q 027173 82 LKVQAYYNFLPLTSYLSVNYMDRFLYSRRLP--DNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIR 159 (227)
Q Consensus 82 ~~v~~~~~l~~etl~lAv~~~Drfls~~~i~--~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i~ 159 (227)
...+....+..+.--....|++|-+...... +. ....++....++|+|+-....-.--+.+. +.. ..|.+|+.
T Consensus 198 ~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~---~w~r~~~g~il~sskv~~dqs~wnvdycq-IlK-d~tveDmN 272 (343)
T KOG1675|consen 198 RILFSWAQLTAECDIITLVYAERLLWLAERDPCPR---NWSRAVLGEILLSSKVYDDQSVWNVDYCE-ILK-DQSVDDMN 272 (343)
T ss_pred hhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcc---hhhhhhhhhheehhhhhhhhhcccHHHHH-HHh-hccHhhHH
Confidence 3344445555555566668899988765544 44 46666677899999997654433344432 222 34799999
Q ss_pred HHHHHHHHHcCCcccCCChHHHHHHH
Q 027173 160 RMELLVLSVLDWRLRSVTPFSFIYFF 185 (227)
Q Consensus 160 ~~E~~IL~~L~~~l~~pTp~~fl~~~ 185 (227)
.||+.+|..|+|++++|..- |-++|
T Consensus 273 e~ERqfLelLqfNinvp~sv-YAKyY 297 (343)
T KOG1675|consen 273 ALERQFLELLQFNINVPSSE-YAKYY 297 (343)
T ss_pred HHHHHHHHHHhhccCccHHH-HHHHH
Confidence 99999999999999998754 33444
No 24
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=94.37 E-value=0.19 Score=46.69 Aligned_cols=162 Identities=15% Similarity=0.071 Sum_probs=117.9
Q ss_pred CCCcccccccCCCCC--HHHHHHHHH----HHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHH
Q 027173 56 PGFDYLTRFQTHSLD--ASAREESVA----WILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSL 129 (227)
Q Consensus 56 ~~~~y~~~~q~~~i~--~~~R~~lv~----wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~I 129 (227)
+...|+..-|.+ .+ -+.|..-+. -|-+++..+++.. ..-.|.++|---+...-.+.. ..+.+-.+|+++
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 444555544443 33 333443333 5788999999999 999999999999988777777 799999999999
Q ss_pred HhhcccccCCChhhHHHhhcCCCccHHHHHHHHHHHHHHcCCc---ccCCChHHHHHHHHHhcCCCCChHHHHHHHHHHH
Q 027173 130 AAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLSVLDWR---LRSVTPFSFIYFFACKLDPTGTFMGFLISRATKI 206 (227)
Q Consensus 130 AsK~ee~~~~~~~~l~~~~~~~~~t~~~i~~~E~~IL~~L~~~---l~~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~ 206 (227)
++..|......+ +|.-.. ..+.-++=.+=+.+...|.=+ +...-|.-|+-+|...|...++. ..+...|..+
T Consensus 119 vcR~e~t~hlli-DfS~~L---qv~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~-~~Vv~~a~~L 193 (521)
T KOG1598|consen 119 VCRLEKTDHLLI-DFSSYL---QVSVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT-EDVAKTATRL 193 (521)
T ss_pred HHHhhCCceEEE-Eeccce---EEehhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCch-HHHHHHHHHH
Confidence 999987654333 332111 245556666667777777766 56677999999999888766653 7788889999
Q ss_pred HHHhhccccccccccchhccC
Q 027173 207 ILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 207 l~~~l~d~~fl~~~PS~~A~A 227 (227)
+..+..|-..-.=+|+.|..|
T Consensus 194 ~~rMkrdwm~tGRRPsglcGA 214 (521)
T KOG1598|consen 194 AQRMKRDWMQTGRRPSGLCGA 214 (521)
T ss_pred HHHHHHHHHHhCCCccchhHH
Confidence 998888888888888877543
No 25
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=94.21 E-value=0.68 Score=40.65 Aligned_cols=88 Identities=9% Similarity=0.025 Sum_probs=68.7
Q ss_pred HHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHH
Q 027173 78 VAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKT 157 (227)
Q Consensus 78 v~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~ 157 (227)
-++|-..+..++++.++...|..++.+.....-.... ...-++++|+++|++..+. +...+++.. .++ .+...
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 4889999999999999999999999988765444444 6899999999999999764 456777763 333 57788
Q ss_pred HHHHHHHHHHHcCCc
Q 027173 158 IRRMELLVLSVLDWR 172 (227)
Q Consensus 158 i~~~E~~IL~~L~~~ 172 (227)
|.+.=+.+.+.|+..
T Consensus 293 I~~~ykel~~~l~~~ 307 (310)
T PRK00423 293 VRNRYKELAEKLDIK 307 (310)
T ss_pred HHHHHHHHHHHhCcc
Confidence 887777777776643
No 26
>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=93.51 E-value=0.074 Score=36.23 Aligned_cols=49 Identities=14% Similarity=0.035 Sum_probs=42.0
Q ss_pred CCChHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 175 SVTPFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 175 ~pTp~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
.|++.+|+..+...++.+ ......|..+++..+....+..+.|+.+|+|
T Consensus 2 ~~~~~~~l~~~~~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a 50 (88)
T cd00043 2 RPTPLDFLRRVAKALGLS----PETLTLAVNLLDRFLLDYSVLGRSPSLVAAA 50 (88)
T ss_pred cchHHHHHHHHHHHcCCC----HHHHHHHHHHHHHHHHhcccccCChHHHHHH
Confidence 589999999999988655 3467778999999999999999999999875
No 27
>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=91.23 E-value=0.13 Score=34.53 Aligned_cols=43 Identities=9% Similarity=0.001 Sum_probs=34.9
Q ss_pred HHHHHHHhcCCCCChHHHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 181 FIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 181 fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
|+..+...++.+ ..+...|..+++..+.+..+++++|+.+|+|
T Consensus 2 ~l~~~~~~~~~~----~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a 44 (83)
T smart00385 2 FLRRVCKALNLD----PETLNLAVNLLDRFLSDYKFLKYSPSLIAAA 44 (83)
T ss_pred HHHHHHHHcCCC----HHHHHHHHHHHHHHHHHhhcccCCHHHHHHH
Confidence 677777777654 4477789999999998899999999999976
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=89.85 E-value=1.4 Score=32.03 Aligned_cols=86 Identities=14% Similarity=0.150 Sum_probs=54.4
Q ss_pred HHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHH
Q 027173 79 AWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTI 158 (227)
Q Consensus 79 ~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i 158 (227)
+|+.......+.+.++..+|-.+++..+.....-.. .--++|++|+++|.+.-+..++....+. ..++ ++.+++
T Consensus 5 ~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~---~PS~iAaAai~lA~~~~~~~~~~~~~l~-~~t~--~~~~~l 78 (118)
T PF02984_consen 5 DFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQY---PPSVIAAAAILLARKILGKEPPWPESLE-KLTG--YDKEDL 78 (118)
T ss_dssp HHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS----HHHHHHHHHHHHHHHHHSSTCSHHHHH-HHHT--S-HHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCC---CHHHHHHHHHHHHHHHhCccccCCccch-hhcC--CCHHHH
Confidence 444444332334566888888888877776666666 6789999999999999663233333333 3443 578888
Q ss_pred HHHHHHHHHHcC
Q 027173 159 RRMELLVLSVLD 170 (227)
Q Consensus 159 ~~~E~~IL~~L~ 170 (227)
..+=..|.+.+.
T Consensus 79 ~~c~~~i~~~~~ 90 (118)
T PF02984_consen 79 KECIELIQELLS 90 (118)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 876666655544
No 29
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=84.26 E-value=1.3 Score=39.20 Aligned_cols=96 Identities=17% Similarity=0.144 Sum_probs=68.0
Q ss_pred HHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHH-HhhcCCC
Q 027173 74 REESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ-VEGAKYI 152 (227)
Q Consensus 74 R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~-~~~~~~~ 152 (227)
-.-+++|+..+-..-+........|.+++...+...-.-.. ..+-||++|++||+|+.....|...+-. ....+..
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 35677777777666665556778888888777765555555 6889999999999999776554444431 1233345
Q ss_pred ccHHHHHHHHHHHHHHcCCc
Q 027173 153 FETKTIRRMELLVLSVLDWR 172 (227)
Q Consensus 153 ~t~~~i~~~E~~IL~~L~~~ 172 (227)
.|.+++..+...+|....-+
T Consensus 229 vt~e~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 229 VTNELLDDICHEFLDLYEQT 248 (323)
T ss_pred CCHHHHHHHHHHHHHHHhhc
Confidence 78999999988888877433
No 30
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=83.75 E-value=4 Score=35.54 Aligned_cols=57 Identities=9% Similarity=0.044 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhccc
Q 027173 76 ESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEE 135 (227)
Q Consensus 76 ~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee 135 (227)
.-.+++-..+..++++.++--.|+.+++........... ...-++++|+++|+++..
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 446788899999999999999999999999987665544 578899999999999977
No 31
>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=80.44 E-value=3.1 Score=29.52 Aligned_cols=50 Identities=18% Similarity=0.008 Sum_probs=41.1
Q ss_pred hHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHhhccccccccccchhccC
Q 027173 178 PFSFIYFFACKLDPTGTFMGFLISRATKIILSNIQGENHQLLPVNATTRA 227 (227)
Q Consensus 178 p~~fl~~~l~~l~~~~~~~~~i~~~a~~~l~~~l~d~~fl~~~PS~~A~A 227 (227)
|.+-+...+-+++..++....+..+..+.+-.++.|..--..|||.+|+|
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 45666677777788887788899999999999999999999999999876
No 32
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=67.85 E-value=6 Score=37.05 Aligned_cols=73 Identities=15% Similarity=0.185 Sum_probs=58.7
Q ss_pred chHHHHHHHHHHHHhcCCCCcccccccCCCCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCcc
Q 027173 39 SIEESIAGFIEDERNFVPGFDYLTRFQTHSLDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRL 111 (227)
Q Consensus 39 ~~~e~l~~ll~~E~~~~~~~~y~~~~q~~~i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i 111 (227)
+.++...|+.+.|++.....+.+..+..|++.+..|..+.+++-+++++..+-.-+.-..+|=|.-||.-...
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 4566778899999999999999999999999999999999999999988766555555556667777755443
No 33
>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=65.06 E-value=39 Score=25.94 Aligned_cols=66 Identities=8% Similarity=0.008 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCc-cCCCCCchhHHHHHHHHHHHhhcccccCCChhhHH
Q 027173 77 SVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRR-LPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ 145 (227)
Q Consensus 77 lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~-i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~ 145 (227)
...-+.++|..++++++.......+|+..+.... .-.+. ++-.+-++|+++-+|+.. ..++..+++
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 3445778999999999998999999999997543 33433 799999999999999976 345566655
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=42.70 E-value=1.7e+02 Score=26.18 Aligned_cols=67 Identities=16% Similarity=0.170 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHHHhhcCCCccHHHHHHHHHHHHH
Q 027173 95 SYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQVEGAKYIFETKTIRRMELLVLS 167 (227)
Q Consensus 95 l~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~~~~~~~~~t~~~i~~~E~~IL~ 167 (227)
+..|-+++.--+-..-.... .-..|+++|+++|+...|+--|....... . ..+++.+|-..=..++.
T Consensus 161 ~Q~~wNfmNDslRT~v~vry---~pe~iACaciyLaAR~~eIpLp~~P~Wf~-~--Fd~~k~eid~ic~~l~~ 227 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVRY---SPESIACACIYLAARNLEIPLPFQPHWFK-A--FDTTKREIDEICYRLIP 227 (367)
T ss_pred HHHHHHhhhhccccceeeec---CHHHHHHHHHHHHHhhhcCCCCCCccHHH-H--cCCcHHHHHHHHHHHHH
Confidence 56666777666654444555 67899999999999999964455554432 2 23567776655444443
No 35
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=37.53 E-value=1.5e+02 Score=26.05 Aligned_cols=65 Identities=2% Similarity=-0.007 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCCChhhHH
Q 027173 77 SVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVPSLLDLQ 145 (227)
Q Consensus 77 lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~~~~~l~ 145 (227)
.-++|.+.|..++|+.++.-.|..+-.++-...-.... ..-=|+++.+++++-..+. ....+++.
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gR---sPiSIAAa~IYmisqls~~-kkt~keI~ 267 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGR---SPISIAAAAIYMISQLSDE-KKTQKEIG 267 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCC---CchhHHHHHHHHHHHhccC-cccHHHHH
Confidence 34556666666666666666666666665554444333 2445677777777777663 33444443
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=33.71 E-value=1.8e+02 Score=22.24 Aligned_cols=55 Identities=18% Similarity=0.161 Sum_probs=36.5
Q ss_pred HHHHHHHHHHhhcccccCCChhhHH-HhhcCC-CccHHHHHHHHHHHHHHcCCcccC
Q 027173 121 LLSVACLSLAAKMEETVVPSLLDLQ-VEGAKY-IFETKTIRRMELLVLSVLDWRLRS 175 (227)
Q Consensus 121 l~~~~cl~IAsK~ee~~~~~~~~l~-~~~~~~-~~t~~~i~~~E~~IL~~L~~~l~~ 175 (227)
.--..+|++|.-+||.....-.++. -..+.+ .-...++.++--.+...++|+.-+
T Consensus 53 i~FFlALYLAndmEED~~~~K~~If~f~~G~~w~~~~~~F~klr~~~~~~m~~Ra~V 109 (131)
T PF11357_consen 53 IHFFLALYLANDMEEDDEEPKYEIFPFLYGKNWRSQIPQFHKLRDQFWRRMDWRAWV 109 (131)
T ss_pred HHHHHHHHHhhHHHhccchHHHHHHHHHHCcchHHHhHHHHHHHHHHHHHcCCceee
Confidence 3356799999999997654333333 223333 233567778888888888888764
No 37
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=33.56 E-value=1.9e+02 Score=25.34 Aligned_cols=43 Identities=9% Similarity=0.020 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCC
Q 027173 94 TSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVP 139 (227)
Q Consensus 94 tl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~ 139 (227)
....|..+++..+...-.-.. ....||++|+++|++......|
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 446677777655544333334 6789999999999998655433
No 38
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=32.26 E-value=2.5e+02 Score=23.87 Aligned_cols=51 Identities=16% Similarity=0.132 Sum_probs=31.4
Q ss_pred HHhCC-ChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhcccccCC
Q 027173 86 AYYNF-LPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEETVVP 139 (227)
Q Consensus 86 ~~~~l-~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee~~~~ 139 (227)
...|. +..-+.+|-.+..--+...-.--. ....+|++|++||+=..+...+
T Consensus 162 qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~---PPh~IalAcl~Ia~~~~~k~~~ 213 (264)
T KOG0794|consen 162 QDMGINDQKLLQLAWSIVNDSYRMDLCLLY---PPHQIALACLYIACVIDEKDIP 213 (264)
T ss_pred HHhcccchhhhhhhHhhhcchhhcceeeec---CHHHHHHHHHHHHHhhcCCChH
Confidence 33343 444566666666433322222233 5689999999999999887554
No 39
>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=30.12 E-value=44 Score=23.56 Aligned_cols=29 Identities=21% Similarity=0.307 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhc
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYS 108 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~ 108 (227)
..+|+||++.. .-.+-..|+.+--..+..
T Consensus 36 sElVdWL~~~~-----~~~sR~eAv~lgq~Ll~~ 64 (85)
T cd04441 36 SEFIDWLLQEG-----EAESRREAVQLCRRLLEH 64 (85)
T ss_pred hHHHHHHHHcC-----CCCCHHHHHHHHHHHHHC
Confidence 68999999954 233444455555544443
No 40
>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=27.77 E-value=44 Score=23.25 Aligned_cols=29 Identities=17% Similarity=0.308 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDR 104 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~Dr 104 (227)
..+|+||++... ..-..|++.++-.++|.
T Consensus 32 selVdWL~~~~~-~~~r~eAv~lg~~Ll~~ 60 (81)
T cd04439 32 NEFVSWLLEIGE-ISKPEEGVNLGQALLEN 60 (81)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 579999997532 11123566665555553
No 41
>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=26.64 E-value=56 Score=22.87 Aligned_cols=30 Identities=10% Similarity=0.091 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDR 104 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~Dr 104 (227)
..+|+||++-.....=..|++..|-.+++.
T Consensus 33 sdlVdWL~~~~~~~~~R~eAv~~g~~Ll~~ 62 (84)
T cd04438 33 SDLVDWLLSHVEGLTDRREARKYASSLLKL 62 (84)
T ss_pred hHHHHHHHHhCCCCCCHHHHHHHHHHHHHC
Confidence 679999998554434445666666666654
No 42
>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=25.69 E-value=59 Score=22.52 Aligned_cols=30 Identities=17% Similarity=0.226 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhc
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYS 108 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~ 108 (227)
..+|+||.+-... ..+..-|+.+.-+.+..
T Consensus 33 ~e~VdWL~~~~~~----~~~r~eAv~lgq~Ll~~ 62 (83)
T cd04449 33 SEAVSWLINNFED----VDTREEAVELGQELMNE 62 (83)
T ss_pred HHHHHHHHHhCCC----CCCHHHHHHHHHHHHHC
Confidence 6899999984332 23334444444444443
No 43
>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=25.64 E-value=61 Score=22.66 Aligned_cols=28 Identities=11% Similarity=0.165 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMD 103 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~D 103 (227)
..+|+||++... ..=..|++.+|-.++|
T Consensus 34 selVdWL~~~~~-~~sR~eAv~lg~~Ll~ 61 (83)
T cd04443 34 CDLVSWLIEVGL-AQDRGEAVLYGRRLLQ 61 (83)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHHHH
Confidence 679999998521 1223355555555554
No 44
>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=25.15 E-value=1.4e+02 Score=20.53 Aligned_cols=34 Identities=9% Similarity=0.111 Sum_probs=25.8
Q ss_pred CCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHH
Q 027173 69 LDASAREESVAWILKVQAYYNFLPLTSYLSVNYMDRF 105 (227)
Q Consensus 69 i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~~Drf 105 (227)
-+-..|..+++++..++..-+++. ..|+.++|.+
T Consensus 47 ~~y~rRK~Ii~~I~~l~~~~g~~~---~~ai~~le~~ 80 (81)
T PF12550_consen 47 RTYSRRKVIIDFIERLANERGISE---EEAIEILEEI 80 (81)
T ss_pred hhHHHHHHHHHHHHHHHHHcCCCH---HHHHHHHHhc
Confidence 456779999999999988766654 4567777754
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=24.51 E-value=1.6e+02 Score=19.37 Aligned_cols=30 Identities=13% Similarity=0.128 Sum_probs=25.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHhCCChhHHHHHHHH
Q 027173 68 SLDASAREESVAWILKVQAYYNFLPLTSYLSVNY 101 (227)
Q Consensus 68 ~i~~~~R~~lv~wm~~v~~~~~l~~etl~lAv~~ 101 (227)
.+++.....+.+|+ ..++++++.+..|+.+
T Consensus 12 ~ls~~e~~~i~~~~----~~~~~~~evI~~ai~~ 41 (73)
T TIGR01446 12 MLSPFEMEDLKYWL----DEFGNSPELIKEALKE 41 (73)
T ss_pred CCCHHHHHHHHHHH----HHhCCCHHHHHHHHHH
Confidence 48888899999997 4568889999988876
No 46
>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=23.15 E-value=1.8e+02 Score=21.77 Aligned_cols=39 Identities=18% Similarity=0.218 Sum_probs=26.8
Q ss_pred ChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhc
Q 027173 91 LPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKM 133 (227)
Q Consensus 91 ~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ 133 (227)
+--++.+|++-+..-...++.+.. ...++.+|++|-.=.
T Consensus 40 PlIaLvLavy~LyQ~Yl~~~m~eg----~P~~a~acFflG~f~ 78 (117)
T PF07226_consen 40 PLIALVLAVYCLYQRYLNHPMPEG----TPKLALACFFLGLFG 78 (117)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCC----ChHHHHHHHHHHHHH
Confidence 455778888766544445566554 889999999987543
No 47
>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=23.03 E-value=66 Score=22.48 Aligned_cols=29 Identities=14% Similarity=0.406 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhc
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYS 108 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~ 108 (227)
..+|+||++... ..+-.-|+.|--..+..
T Consensus 32 selVdWL~~~~~-----~~sR~eAv~lgq~Ll~~ 60 (82)
T cd04442 32 KELIDWLIEHKE-----ASDRETAIKIMQKLLDH 60 (82)
T ss_pred HHHHHHHHHcCC-----CCCHHHHHHHHHHHHHC
Confidence 579999997532 24455555555555544
No 48
>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=22.71 E-value=68 Score=23.04 Aligned_cols=28 Identities=18% Similarity=0.094 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHh
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLY 107 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls 107 (227)
..+|+||++.. ... |-.-||.|--+.+.
T Consensus 41 sElVdWLi~~g-~~~----tR~eAv~~gq~Ll~ 68 (93)
T cd04440 41 SKLVDWLLAQG-DCR----TREEAVILGVGLCN 68 (93)
T ss_pred hHHHHHHHHcC-CCC----CHHHHHHHHHHHHh
Confidence 67999999973 222 44555555555543
No 49
>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=22.67 E-value=2e+02 Score=20.68 Aligned_cols=38 Identities=21% Similarity=0.429 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHhC-C-ChhHHHHHHHHHHHHHhcCccC
Q 027173 75 EESVAWILKVQAYYN-F-LPLTSYLSVNYMDRFLYSRRLP 112 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~-l-~~etl~lAv~~~Drfls~~~i~ 112 (227)
..+||||.+.-...+ + +.-|-..||.++.+++...-+.
T Consensus 33 sEAVDwL~~~l~~n~~fg~~vtR~~av~l~qkll~~hVie 72 (92)
T cd04447 33 SEAVDWLHELLRSNSNFGPEVTRQQTVQLLKKFLKNHVIE 72 (92)
T ss_pred HHHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHcCCch
Confidence 579999999754322 2 3558889999999999876654
No 50
>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=22.38 E-value=2.1e+02 Score=19.38 Aligned_cols=45 Identities=13% Similarity=0.017 Sum_probs=31.3
Q ss_pred ChhHHHHHHHHHHHHHhcCccCCCCCchhHHHHHHHHHHHhhccc
Q 027173 91 LPLTSYLSVNYMDRFLYSRRLPDNNGWPWQLLSVACLSLAAKMEE 135 (227)
Q Consensus 91 ~~etl~lAv~~~Drfls~~~i~~~~~~~lql~~~~cl~IAsK~ee 135 (227)
+.+.+..+..++|.-+....-.......-+++.++||.+|..+..
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 356677788888888765332211122788999999999998854
No 51
>PF14502 HTH_41: Helix-turn-helix domain
Probab=20.54 E-value=1.6e+02 Score=18.52 Aligned_cols=23 Identities=9% Similarity=0.127 Sum_probs=19.6
Q ss_pred HHHHHHHhCCChhHHHHHHHHHH
Q 027173 81 ILKVQAYYNFLPLTSYLSVNYMD 103 (227)
Q Consensus 81 m~~v~~~~~l~~etl~lAv~~~D 103 (227)
+-+.+..|+++.-|+..|+.++.
T Consensus 9 I~e~~~~~~vs~GtiQ~Alk~Le 31 (48)
T PF14502_consen 9 ISEYSEKFGVSRGTIQNALKFLE 31 (48)
T ss_pred HHHHHHHhCcchhHHHHHHHHHH
Confidence 45678899999999999998875
No 52
>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=20.46 E-value=76 Score=24.09 Aligned_cols=32 Identities=19% Similarity=0.249 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhcCc
Q 027173 75 EESVAWILKVQAYYNFLPLTSYLSVNYMDRFLYSRR 110 (227)
Q Consensus 75 ~~lv~wm~~v~~~~~l~~etl~lAv~~~Drfls~~~ 110 (227)
..+||||++..... .+-..||.+-.+.+...-
T Consensus 34 sElVdWLl~~~~~v----~sR~eAv~lgq~Ll~~gv 65 (125)
T cd04437 34 TELVDWLLQQSPCV----QSRSQAVGMWQVLLEEGV 65 (125)
T ss_pred HHHHHHHHHcCCCC----CCHHHHHHHHHHHHhCCC
Confidence 67999999975322 345566666666665543
Done!