Query 038028
Match_columns 337
No_of_seqs 265 out of 1267
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 06:48:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038028.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038028hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00569 ccl1 cyclin ccl1. Un 100.0 3.2E-66 6.9E-71 491.2 28.2 280 4-318 1-287 (305)
2 KOG2496 Cdk activating kinase 100.0 7E-58 1.5E-62 420.9 24.8 301 3-336 1-309 (325)
3 KOG0794 CDK8 kinase-activating 100.0 2.3E-49 4.9E-54 352.0 15.1 240 2-306 3-258 (264)
4 KOG0834 CDK9 kinase-activating 100.0 4.7E-37 1E-41 291.7 17.2 204 68-288 25-247 (323)
5 COG5333 CCL1 Cdk activating ki 100.0 4.8E-36 1E-40 278.7 15.4 164 73-251 36-207 (297)
6 KOG0835 Cyclin L [General func 100.0 2E-30 4.2E-35 241.3 18.5 170 67-251 8-198 (367)
7 KOG0656 G1/S-specific cyclin D 99.8 9.5E-19 2E-23 166.8 15.2 158 80-251 76-241 (335)
8 PRK00423 tfb transcription ini 99.8 7.6E-18 1.6E-22 161.5 15.6 156 78-251 119-274 (310)
9 PF00134 Cyclin_N: Cyclin, N-t 99.6 5.1E-15 1.1E-19 122.7 10.4 97 79-175 28-127 (127)
10 KOG0655 G1/S-specific cyclin E 99.6 8.1E-15 1.8E-19 137.4 11.2 162 78-248 141-309 (408)
11 KOG0653 Cyclin B and related k 99.6 1.2E-14 2.6E-19 143.6 12.9 155 80-251 156-314 (391)
12 cd00043 CYCLIN Cyclin box fold 99.5 3.4E-13 7.3E-18 103.1 8.8 85 83-167 3-88 (88)
13 COG5024 Cyclin [Cell division 99.4 6.7E-13 1.4E-17 131.2 10.2 158 78-252 209-369 (440)
14 COG1405 SUA7 Transcription ini 99.4 2E-11 4.3E-16 115.4 16.7 151 84-251 99-249 (285)
15 smart00385 CYCLIN domain prese 99.4 1.8E-12 3.9E-17 98.1 7.7 82 87-168 1-83 (83)
16 KOG1597 Transcription initiati 99.0 1.7E-08 3.6E-13 94.2 14.1 148 85-249 107-256 (308)
17 KOG0654 G2/Mitotic-specific cy 98.8 2E-08 4.3E-13 97.2 8.1 156 80-251 135-293 (359)
18 PF00382 TFIIB: Transcription 98.7 8.4E-08 1.8E-12 72.2 8.1 69 89-157 1-69 (71)
19 KOG1598 Transcription initiati 98.4 7.4E-06 1.6E-10 82.3 15.9 158 79-251 64-224 (521)
20 PF08613 Cyclin: Cyclin; Inte 98.0 5.3E-05 1.1E-09 65.2 9.8 90 85-174 54-149 (149)
21 PRK00423 tfb transcription ini 98.0 5E-05 1.1E-09 73.1 10.4 89 86-174 220-308 (310)
22 KOG4164 Cyclin ik3-1/CABLES [C 97.9 1.4E-05 3.1E-10 77.2 5.5 92 85-176 385-481 (497)
23 PF02984 Cyclin_C: Cyclin, C-t 97.6 9.3E-05 2E-09 59.8 4.9 58 177-251 1-58 (118)
24 COG1405 SUA7 Transcription ini 96.9 0.0049 1.1E-07 58.7 8.6 87 86-172 195-281 (285)
25 cd00043 CYCLIN Cyclin box fold 95.8 0.013 2.7E-07 43.9 4.0 58 177-251 3-60 (88)
26 KOG1597 Transcription initiati 94.8 0.17 3.6E-06 48.0 8.7 70 85-154 203-272 (308)
27 smart00385 CYCLIN domain prese 94.7 0.03 6.5E-07 41.4 3.1 41 205-251 14-54 (83)
28 PF01857 RB_B: Retinoblastoma- 94.0 0.2 4.3E-06 42.6 6.8 71 83-153 12-84 (135)
29 KOG0835 Cyclin L [General func 92.6 0.41 8.8E-06 46.1 7.1 72 88-159 144-218 (367)
30 PF02984 Cyclin_C: Cyclin, C-t 90.5 0.64 1.4E-05 37.0 5.5 53 88-140 6-58 (118)
31 PF00382 TFIIB: Transcription 90.4 0.25 5.4E-06 36.7 2.6 43 203-251 10-52 (71)
32 KOG1674 Cyclin [General functi 88.9 1.5 3.3E-05 40.2 7.2 89 89-177 82-181 (218)
33 TIGR00569 ccl1 cyclin ccl1. Un 86.1 2.3 4.9E-05 41.0 6.9 57 85-141 163-222 (305)
34 KOG0834 CDK9 kinase-activating 85.9 0.43 9.3E-06 46.3 1.8 59 88-146 154-216 (323)
35 KOG1010 Rb (Retinoblastoma tum 58.2 23 0.00051 38.5 6.2 70 86-155 681-752 (920)
36 KOG0794 CDK8 kinase-activating 54.9 43 0.00093 31.1 6.6 45 100-144 169-213 (264)
37 KOG1598 Transcription initiati 51.6 25 0.00055 36.2 5.0 53 100-152 184-236 (521)
38 PF11131 PhrC_PhrF: Rap-phr ex 48.4 12 0.00027 24.2 1.5 17 233-249 5-21 (37)
39 PF00134 Cyclin_N: Cyclin, N-t 47.6 36 0.00077 27.2 4.6 40 206-251 50-89 (127)
40 KOG1675 Predicted cyclin [Gene 39.7 34 0.00073 33.1 3.6 71 107-177 215-289 (343)
41 KOG2496 Cdk activating kinase 34.9 47 0.001 32.0 3.7 52 203-260 74-126 (325)
42 KOG2422 Uncharacterized conser 31.2 24 0.00053 36.9 1.3 21 310-330 86-106 (665)
43 PF11357 Spy1: Cell cycle regu 29.8 1.9E+02 0.0042 24.4 6.2 79 96-177 25-110 (131)
44 KOG3543 Ca2+-dependent activat 24.5 7.8E+02 0.017 26.5 10.6 57 80-136 715-776 (1218)
45 KOG4557 Origin recognition com 24.4 1.6E+02 0.0034 27.2 5.0 72 71-143 70-154 (262)
46 KOG0654 G2/Mitotic-specific cy 23.3 1.3E+02 0.0028 29.8 4.7 20 118-137 271-290 (359)
47 PF10731 Anophelin: Thrombin i 22.9 43 0.00093 24.3 0.9 17 232-248 7-23 (65)
No 1
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=3.2e-66 Score=491.17 Aligned_cols=280 Identities=36% Similarity=0.597 Sum_probs=251.3
Q ss_pred CCcccccccccCC-hHHHHHHHHHHHHHHHHHHHHhccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q 038028 4 FQTSTHRANWIFT-PQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSMR 82 (337)
Q Consensus 4 y~~STQ~r~W~Ft-~e~L~~~r~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~eeE~~l~ 82 (337)
||+|||+|+|+|| +++|.++|.++|++++++++..+. + .+....+||+|||..++
T Consensus 1 y~~StQ~r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~---------~---------------~~~~~~~Lt~eeE~~l~ 56 (305)
T TIGR00569 1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEK---------V---------------LEAKPIFLTPEEELDLV 56 (305)
T ss_pred CCCCcccccCcCCCHHHHHHHHHHHHHHHHHHHhhhcc---------c---------------cccccCCCCHHHHHHHH
Confidence 8999999999999 999999999999998877632110 0 01245699999999999
Q ss_pred HHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccc----cH
Q 038028 83 VFYENKLREVCSAFY--FPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQ----DH 156 (337)
Q Consensus 83 ~~~~~~I~~~~~~l~--lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~----~~ 156 (337)
.||+.+|+++|.+|+ ||+.|++||++||||||+++|+++|||++|++||||||||+||+++++++|+..+.. ++
T Consensus 57 ~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~~~~~~~ 136 (305)
T TIGR00569 57 KYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKAL 136 (305)
T ss_pred HHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccCCchhhH
Confidence 999999999999999 999999999999999999999999999999999999999999999999999986654 46
Q ss_pred HHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcchH
Q 038028 157 QMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVI 236 (337)
Q Consensus 157 ~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~ 236 (337)
+.|+++|+.||++|+|+|.|+|||++|.+|+.+++..+.. ....+.+.+.||.++||+++||+||.|+|++
T Consensus 137 ~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~----~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~----- 207 (305)
T TIGR00569 137 EQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPG----LENPEYLRKHADKFLNRTLLTDAYLLYTPSQ----- 207 (305)
T ss_pred HHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhcc----ccchHHHHHHHHHHHHHHHcCCceecCCHHH-----
Confidence 9999999999999999999999999999999999865421 1223568899999999999999999999999
Q ss_pred HHHHHHHHHHhccccccchHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCCChh
Q 038028 237 QLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWGHGSHDVS 316 (337)
Q Consensus 237 ~IAlAal~~A~~~~~~~~~e~y~~~~~~~~~~~~~~~~l~~~l~~i~~~~~~~~~~~~~~~~~i~~kL~~c~np~~~~~~ 316 (337)
||+||+++|++.++ +++.+|..++++.+++++.++.|.+.|++|..+++++..|+.++|++|++||+.|+||++.+.|
T Consensus 208 -IAlAAI~lA~~~~~-~~l~~~~~e~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~kl~~c~~~~~~~~~ 285 (305)
T TIGR00569 208 -IALAAILHTASRAG-LNMESYLTEQLSVPGNREELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSS 285 (305)
T ss_pred -HHHHHHHHHHHHhC-CCCcccchhhhcccccHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhChhhCcch
Confidence 99999999999775 5667777788888778889999999999999999999999999999999999999999999999
Q ss_pred hh
Q 038028 317 KK 318 (337)
Q Consensus 317 ~~ 318 (337)
.+
T Consensus 286 ~~ 287 (305)
T TIGR00569 286 VK 287 (305)
T ss_pred HH
Confidence 53
No 2
>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=100.00 E-value=7e-58 Score=420.88 Aligned_cols=301 Identities=37% Similarity=0.555 Sum_probs=241.9
Q ss_pred CCCcccccccccCChHHHHHHHHHHHHHHHHHHHHhccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q 038028 3 DFQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSMR 82 (337)
Q Consensus 3 ~y~~STQ~r~W~Ft~e~L~~~r~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~eeE~~l~ 82 (337)
.|++|||||+|+||++||++.|.++|++|++.+++.+....+ ..-. -.++..-.|+.++|..++
T Consensus 1 ~y~~Ssq~r~W~fte~qL~e~r~~~N~k~i~~~ee~~~~~~~-----~e~~-----------v~~~ee~tl~k~~E~~l~ 64 (325)
T KOG2496|consen 1 MYRTSSQYRKWIFTEEQLAERRVDANQKAIQMLEEEAHNLDE-----NEVF-----------VLEAEELTLTKEEELSLV 64 (325)
T ss_pred CCCcchhhhcccccHHHHHHHHHHHHHHHHHHHHHhccCCCc-----cchh-----------ccccccccccHHHHHHHH
Confidence 599999999999999999999999999999998763321100 0000 001233356666666666
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhcccc----ccHHH
Q 038028 83 VFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGIS----QDHQM 158 (337)
Q Consensus 83 ~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~----~~~~~ 158 (337)
.||..+.. .+|..|++||+.||+|||+.||+|+|+|+.|++||+|||||+||++||+++|++.+. .+.+.
T Consensus 65 ~f~~k~~p------~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~~~~~k~~e~ 138 (325)
T KOG2496|consen 65 NFYSKFKP------NLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMNGRKWKTHEI 138 (325)
T ss_pred HHHHHhcC------CCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhccCcccccHHH
Confidence 66555444 789999999999999999999999999999999999999999999999999999887 78999
Q ss_pred HHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHH--HHHHHHHHHhcCcceecCCCCCcchH
Q 038028 159 ILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHET--AKLEVDKIMLTDAPLLFPPGQVLSVI 236 (337)
Q Consensus 159 Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~--A~~~l~ds~~Td~~l~y~Ps~~~~~~ 236 (337)
||..|+.+|+.|+|+|.||+|||+++||+.|+++++..-. ....+.+. ...+++.+++||++++|||||
T Consensus 139 vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~----n~d~~~~~~d~~~fl~~~lltDa~lLytPsQ----- 209 (325)
T KOG2496|consen 139 VLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALE----NPDILRKHDDSKKFLDRALLTDAYLLYTPSQ----- 209 (325)
T ss_pred HHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhcc----CHHHHhhhhhHHHHHHHHHHhccceecChHH-----
Confidence 9999999999999999999999999999999998854321 11222222 358999999999999999999
Q ss_pred HHHHHHHHHHhccccccchHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCCChh
Q 038028 237 QLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWGHGSHDVS 316 (337)
Q Consensus 237 ~IAlAal~~A~~~~~~~~~e~y~~~~~~~~~~~~~~~~l~~~l~~i~~~~~~~~~~~~~~~~~i~~kL~~c~np~~~~~~ 316 (337)
||||||..|... .++.++.|+.+.+..+.+++..+.+..+|+.+..++++|..|+.++|+.|++||+.|+|+-.+..+
T Consensus 210 -IALaAil~a~~~-~~~~l~s~~~e~l~~~enr~~~s~l~d~~~~~~nlvk~~~~~~~~~va~~~~kl~~C~~~~~~~~~ 287 (325)
T KOG2496|consen 210 -IALAAILHAAGR-TGETLESYLLESLGSQENREKLSELLDILKKIRNLVKQYKEPDRKDVAVIERKLESCKSQLENHDS 287 (325)
T ss_pred -HHHHHHHHHhcc-ccchHHHHHHHHhcCccccccchhhHHHHHHHHHHHHhccCccHHHHHHHHHHHHHHhhHhhcccc
Confidence 999999766553 345567777766665666888999999999999999999999999999999999999998776555
Q ss_pred hh-HhhhhccccCC-CCCCCCC
Q 038028 317 KK-REKKSKHKSKS-SHGMQNG 336 (337)
Q Consensus 317 ~~-~~~~~~~~~~~-~~~~~~~ 336 (337)
.+ ++|.+||+.-+ +.+.++|
T Consensus 288 ~~~~e~~rk~~~~~~~~~~~~~ 309 (325)
T KOG2496|consen 288 SLYKEKRRKHYEDRDSNDTPKG 309 (325)
T ss_pred hhhHHHHHhhhhccCCCCcccC
Confidence 54 44556666664 4444444
No 3
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=100.00 E-value=2.3e-49 Score=352.00 Aligned_cols=240 Identities=28% Similarity=0.453 Sum_probs=207.5
Q ss_pred CCCCcccccccccCChHHHHHHHHHHHHHHHHHHHHhccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHH
Q 038028 2 ADFQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSM 81 (337)
Q Consensus 2 ~~y~~STQ~r~W~Ft~e~L~~~r~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~eeE~~l 81 (337)
+|||+|||+.+|+|++++|...|. -+..+++.||..++
T Consensus 3 ~NFW~SSh~~qwl~dk~el~k~r~------------------------------------------~D~r~l~~d~~~~l 40 (264)
T KOG0794|consen 3 GNFWTSSHYQQWLLDKTELLKERQ------------------------------------------LDLRGLSEDEYSKL 40 (264)
T ss_pred cchhhhhhhhhHhcCHHHHhhhcc------------------------------------------chhhcccHHHHHhH
Confidence 699999999999999999976432 12357899999999
Q ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCC-HHHhh-----------
Q 038028 82 RVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVS-AEELG----------- 149 (337)
Q Consensus 82 ~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~s-l~~~~----------- 149 (337)
..|..+.|+.+|++++++|.|+|||++||+|||.++|+.+++|++++.||+|||||+||++++ ++-++
T Consensus 41 ~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~ 120 (264)
T KOG0794|consen 41 KIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFS 120 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcc
Confidence 999999999999999999999999999999999999999999999999999999999999843 33332
Q ss_pred ---ccccccHHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCccee
Q 038028 150 ---KGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLL 226 (337)
Q Consensus 150 ---~~~~~~~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~ 226 (337)
+.++.....|+++|+.||+.|++.|.||||||+|.+++++++. ...++.+.+|.++||++++|+||.
T Consensus 121 ~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi----------~d~~~l~~~W~ivNDSyr~Dl~Ll 190 (264)
T KOG0794|consen 121 YWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGI----------NDQKLLQLAWSIVNDSYRMDLCLL 190 (264)
T ss_pred cchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcc----------cchhhhhhhHhhhcchhhcceeee
Confidence 1234567899999999999999999999999999999998742 124567889999999999999999
Q ss_pred cCCCCCcchHHHHHHHHHHHhccccccch-HHHHHHHhccCCCcchHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 038028 227 FPPGQVLSVIQLALAALRNSNKVQRVVNY-ESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLK 305 (337)
Q Consensus 227 y~Ps~~~~~~~IAlAal~~A~~~~~~~~~-e~y~~~~~~~~~~~~~~~~l~~~l~~i~~~~~~~~~~~~~~~~~i~~kL~ 305 (337)
|||++ ||+||+++|+...+. |. +.|..++ ...+++..+.+.+|.+++..++.-+.+.|+.+-.||.
T Consensus 191 ~PPh~------IalAcl~Ia~~~~~k-~~~~~w~~el------~vD~ekV~~~v~~I~~lYe~wk~~~E~~v~~ll~kl~ 257 (264)
T KOG0794|consen 191 YPPHQ------IALACLYIACVIDEK-DIPKAWFAEL------SVDMEKVKDIVQEILKLYELWKIFDEKKVKKLLSKLP 257 (264)
T ss_pred cCHHH------HHHHHHHHHHhhcCC-ChHHHHHHHH------hccHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhcc
Confidence 99999 999999999986653 44 6777653 3456777888888989998888888888999999997
Q ss_pred h
Q 038028 306 S 306 (337)
Q Consensus 306 ~ 306 (337)
+
T Consensus 258 ~ 258 (264)
T KOG0794|consen 258 K 258 (264)
T ss_pred c
Confidence 7
No 4
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=4.7e-37 Score=291.74 Aligned_cols=204 Identities=22% Similarity=0.312 Sum_probs=170.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHH
Q 038028 68 SRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEE 147 (337)
Q Consensus 68 ~~~~~ls~eeE~~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~ 147 (337)
|+.++++.++|...|..++.+|+++|.+|++|+.+++||++||||||+.+|+..|+++.|+++|||||+|+||.+++++|
T Consensus 25 Sr~~g~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEetp~kl~d 104 (323)
T KOG0834|consen 25 SRRDGIDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEETPRKLED 104 (323)
T ss_pred hhccCCchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccCcccHHH
Confidence 56778899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcc---------------ccccHHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHH
Q 038028 148 LGKG---------------ISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAK 212 (337)
Q Consensus 148 ~~~~---------------~~~~~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~ 212 (337)
++.. ++..++.|+..|.+||++|+|||.|.|||.+|..|+..++.+.+ ....+.+.||
T Consensus 105 Ii~~s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~-------~~~~~a~~Aw 177 (323)
T KOG0834|consen 105 IIKVSYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADEN-------LKQPLAQAAW 177 (323)
T ss_pred HHHHHHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhh-------ccccHHHHHH
Confidence 9742 23458999999999999999999999999999999999875321 1135889999
Q ss_pred HHHHHHHhcCcceecCCCCCcchHHHHHHHHHHHhccccc---cchHH-HHHHHhccCCCcchHHHHHHHHHHHHHHHHh
Q 038028 213 LEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQRV---VNYES-YLSSILSRQNSGHIISDLTENLDTIDSWVMK 288 (337)
Q Consensus 213 ~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal~~A~~~~~~---~~~e~-y~~~~~~~~~~~~~~~~l~~~l~~i~~~~~~ 288 (337)
.|+||+++|.+||.|+|+. ||+||+++|+...+. .+.+. |+.. +. .....+.|.++++.+.+++..
T Consensus 178 ~~~nD~~~t~~cL~y~p~~------IAva~i~lA~~~~~~~~~~~~~~~w~~~-~d---~~vt~e~l~~i~~~~l~~y~~ 247 (323)
T KOG0834|consen 178 NFVNDSLRTTLCLQYSPHS------IAVACIHLAAKLLGVELPSDTDKRWWRE-FD---ETVTNELLDDICHEFLDLYEQ 247 (323)
T ss_pred HHhchhheeeeeEeecCcE------EEeehhhHHHHHcCCCCCCCcccchhhh-hc---ccCCHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999 888888888876542 12222 4432 21 123345566666777666654
No 5
>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=100.00 E-value=4.8e-36 Score=278.72 Aligned_cols=164 Identities=36% Similarity=0.612 Sum_probs=152.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccC--CCCCHHHhhc
Q 038028 73 LNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEE--NHVSAEELGK 150 (337)
Q Consensus 73 ls~eeE~~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE--~~~sl~~~~~ 150 (337)
|+.++|..++.||+.+|+.+|.+|++|+.|.+||+.||+|||+++++++++++.|+.||||||||+|| .+++++.+..
T Consensus 36 l~~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~~~~I~i~~~~~ 115 (297)
T COG5333 36 LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEA 115 (297)
T ss_pred cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccchhhHHHHHh
Confidence 88899999999999999999999999999999999999999999999999999999999999999999 4567777765
Q ss_pred ------cccccHHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcc
Q 038028 151 ------GISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAP 224 (337)
Q Consensus 151 ------~~~~~~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~ 224 (337)
..+.++++|+++|+.||++|+|||+|+|||+++.||+.+++.. ...++.+.||.++||++.||+|
T Consensus 116 ~~~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~---------~~~~~~~~aw~~inDa~~t~~~ 186 (297)
T COG5333 116 RDLWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEK---------DKYKLLQIAWKIINDALRTDLC 186 (297)
T ss_pred hccccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhc---------cHHHHHHHHHHHHHhhhhceee
Confidence 4567899999999999999999999999999999999998741 1156788999999999999999
Q ss_pred eecCCCCCcchHHHHHHHHHHHhcccc
Q 038028 225 LLFPPGQVLSVIQLALAALRNSNKVQR 251 (337)
Q Consensus 225 l~y~Ps~~~~~~~IAlAal~~A~~~~~ 251 (337)
+.|||++ ||+||+.+|+..++
T Consensus 187 llypphi------IA~a~l~ia~~~~~ 207 (297)
T COG5333 187 LLYPPHI------IALAALLIACEVLG 207 (297)
T ss_pred eecChHH------HHHHHHHHHHHhcC
Confidence 9999999 99999999999876
No 6
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.97 E-value=2e-30 Score=241.31 Aligned_cols=170 Identities=20% Similarity=0.260 Sum_probs=154.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHH
Q 038028 67 HSRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAE 146 (337)
Q Consensus 67 ~~~~~~ls~eeE~~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~ 146 (337)
++..++++.+.|..++..+|.||++.|..|+||+.+++|+.++|+|||-..|+..||...+++||+.||+|+||.|.+++
T Consensus 8 ~s~qd~l~~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~Prr~r 87 (367)
T KOG0835|consen 8 PSLQDGLSLETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEEPRRIR 87 (367)
T ss_pred hhhhcccccchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccccccHh
Confidence 46778999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhhccc---------------------cccHHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHH
Q 038028 147 ELGKGI---------------------SQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLK 205 (337)
Q Consensus 147 ~~~~~~---------------------~~~~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~ 205 (337)
+++.++ -..+..++.+|..||.+|||+.+|.|||+.+.+|++.|+- .+ ..
T Consensus 88 dVinVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~----~~-----~~ 158 (367)
T KOG0835|consen 88 DVINVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQL----PP-----NL 158 (367)
T ss_pred HHHHHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcC----CC-----ch
Confidence 987532 1235688899999999999999999999999999998852 11 13
Q ss_pred HHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHHHHHHhcccc
Q 038028 206 DLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQR 251 (337)
Q Consensus 206 ~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal~~A~~~~~ 251 (337)
.|.|.+|.|+||++.||+|..|+|.. ||+||+|+|++.++
T Consensus 159 ~l~Q~~wNfmNDslRT~v~vry~pe~------iACaciyLaAR~~e 198 (367)
T KOG0835|consen 159 KLLQAAWNFMNDSLRTDVFVRYSPES------IACACIYLAARNLE 198 (367)
T ss_pred hHHHHHHHhhhhccccceeeecCHHH------HHHHHHHHHHhhhc
Confidence 68899999999999999999999999 99999999998765
No 7
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.80 E-value=9.5e-19 Score=166.82 Aligned_cols=158 Identities=22% Similarity=0.307 Sum_probs=130.9
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccC---hHHHHHHHHHHHhhccCCCC-CHHHh-hcc--c
Q 038028 80 SMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHH---PKNIMLTCVYAACKIEENHV-SAEEL-GKG--I 152 (337)
Q Consensus 80 ~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~---p~lv~~tcLfLA~K~EE~~~-sl~~~-~~~--~ 152 (337)
.+|....+||.++|.+.++...|...|++||+||.....+.+.. .+++++|||+||+|+||..+ .+.|+ +.. +
T Consensus 76 ~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~ 155 (335)
T KOG0656|consen 76 SMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDN 155 (335)
T ss_pred HHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccc
Confidence 35888999999999999999999999999999999999999998 89999999999999999964 34444 443 3
Q ss_pred cccHHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCc-ceecCCCC
Q 038028 153 SQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDA-PLLFPPGQ 231 (337)
Q Consensus 153 ~~~~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~-~l~y~Ps~ 231 (337)
-..++.|.+||++||.+|+|++...+||.|+..|+..+... ......+...|..++-.. .+|. .+.|+||.
T Consensus 156 ~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~-------~~~~~~~~~~~s~~ll~~-~~d~~Fl~y~pSv 227 (335)
T KOG0656|consen 156 VFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQK-------DHNKHLFLKHASLFLLSV-ITDIKFLEYPPSV 227 (335)
T ss_pred cccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcc-------cchHHHHHHHHHHHHHHH-hhhhhhhcCChHH
Confidence 35789999999999999999999999999999999877421 112356677787777654 4565 56999999
Q ss_pred CcchHHHHHHHHHHHhcccc
Q 038028 232 VLSVIQLALAALRNSNKVQR 251 (337)
Q Consensus 232 ~~~~~~IAlAal~~A~~~~~ 251 (337)
||+|++..+.....
T Consensus 228 ------iAaa~~~~v~~~~~ 241 (335)
T KOG0656|consen 228 ------IAAAAILSVSASVD 241 (335)
T ss_pred ------HHHHHHHHHHHhhc
Confidence 99999877765443
No 8
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.77 E-value=7.6e-18 Score=161.53 Aligned_cols=156 Identities=15% Similarity=0.188 Sum_probs=141.7
Q ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccccHH
Q 038028 78 EQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQ 157 (337)
Q Consensus 78 E~~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~~~~ 157 (337)
|+.|. .+...|.++|..|+||..|+.+|..+|++++..+.+...++..+++||||+||+.|+.|+++++|+.....+..
T Consensus 119 er~l~-~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~v~~k 197 (310)
T PRK00423 119 ERNLA-FALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSRVSRK 197 (310)
T ss_pred hHHHH-HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCCCHH
Confidence 44554 45688999999999999999999999999999999999999999999999999999999999999998888999
Q ss_pred HHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcchHH
Q 038028 158 MILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQ 237 (337)
Q Consensus 158 ~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~ 237 (337)
+|...+..|++.|++++.+.+|+.++..|...|. ....+.+.|+.+++++..+++.-...|..
T Consensus 198 ~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~-----------L~~~v~~~A~~i~~~a~~~~l~~Gr~P~s------ 260 (310)
T PRK00423 198 EIGRCYRFLLRELNLKLPPTDPIDYVPRFASELG-----------LSGEVQKKAIEILQKAKEKGLTSGKGPTG------ 260 (310)
T ss_pred HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcC-----------CCHHHHHHHHHHHHHHHhcCcccCCCHHH------
Confidence 9999999999999999999999999999987763 23567889999999998888888999999
Q ss_pred HHHHHHHHHhcccc
Q 038028 238 LALAALRNSNKVQR 251 (337)
Q Consensus 238 IAlAal~~A~~~~~ 251 (337)
||+||+|+|+..++
T Consensus 261 IAAAaIYlA~~~~g 274 (310)
T PRK00423 261 LAAAAIYIASLLLG 274 (310)
T ss_pred HHHHHHHHHHHHhC
Confidence 99999999998654
No 9
>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=99.60 E-value=5.1e-15 Score=122.72 Aligned_cols=97 Identities=27% Similarity=0.373 Sum_probs=83.4
Q ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCC-CCCHHHhhcccc--cc
Q 038028 79 QSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEEN-HVSAEELGKGIS--QD 155 (337)
Q Consensus 79 ~~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~-~~sl~~~~~~~~--~~ 155 (337)
...|....+||.+++..++++..+.++|+.||+||+.+.++...+++++++||+++|||+||. +.++.+++.... .+
T Consensus 28 ~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~ 107 (127)
T PF00134_consen 28 PEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISDNTFT 107 (127)
T ss_dssp HHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSH
T ss_pred HHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHcCCCC
Confidence 467888899999999999999999999999999999999999999999999999999999999 567888876543 47
Q ss_pred HHHHHHHHHHHHHHcCCcce
Q 038028 156 HQMILNYEMIVYQALEFDLI 175 (337)
Q Consensus 156 ~~~Il~~E~~lL~~L~F~L~ 175 (337)
+++|+.+|+.||+.|+|+++
T Consensus 108 ~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 108 KKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHHTTT---
T ss_pred HHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999974
No 10
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=99.59 E-value=8.1e-15 Score=137.39 Aligned_cols=162 Identities=23% Similarity=0.224 Sum_probs=122.1
Q ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhcc-CcccccChHHHHHHHHHHHhhccCCC-CCHHHhhccccc-
Q 038028 78 EQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQ-WSVMEHHPKNIMLTCVYAACKIEENH-VSAEELGKGISQ- 154 (337)
Q Consensus 78 E~~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~-~S~~~~~p~lv~~tcLfLA~K~EE~~-~sl~~~~~~~~~- 154 (337)
+-.+|....+|++++|..++|..++.+.|+-||+||... +.+.+.+.++|+.||||+|+|+||.+ .++-+|+.....
T Consensus 141 qp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgA 220 (408)
T KOG0655|consen 141 QPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGA 220 (408)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCccccceeeeccCc
Confidence 346788999999999999999999999999999999975 45678899999999999999999985 689999887653
Q ss_pred -cHHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccch--hhhhH-HHHHHHHHHHHHHHHhcCcceecCCC
Q 038028 155 -DHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNG--ELQML-KDLHETAKLEVDKIMLTDAPLLFPPG 230 (337)
Q Consensus 155 -~~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~--~~~~~-~~l~~~A~~~l~ds~~Td~~l~y~Ps 230 (337)
+.++|+.||.+||+.|+|+|...+--..|.-|++... .+..+. -.+.+ ....+.| .+++-+.+.--++.|+-+
T Consensus 221 cs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~--~n~~~k~l~Pq~~~~efiqia-qlLDlc~ldids~~fsYr 297 (408)
T KOG0655|consen 221 CSEDDILTMELIILKALKWELSPITIISWLNVYLQVDA--LNDAPKVLLPQYSQEEFIQIA-QLLDLCILDIDSLEFSYR 297 (408)
T ss_pred cchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHh--cCCCCceeccccchHHHHHHH-HHHHHHHhccccccchHH
Confidence 6899999999999999999987776666666655432 111000 00111 1223333 344444443347789999
Q ss_pred CCcchHHHHHHHHHHHhc
Q 038028 231 QVLSVIQLALAALRNSNK 248 (337)
Q Consensus 231 ~~~~~~~IAlAal~~A~~ 248 (337)
. ||+||+++-..
T Consensus 298 i------laAAal~h~~s 309 (408)
T KOG0655|consen 298 I------LAAAALCHFTS 309 (408)
T ss_pred H------HHHHHHHHHhH
Confidence 9 99999997543
No 11
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.58 E-value=1.2e-14 Score=143.59 Aligned_cols=155 Identities=23% Similarity=0.255 Sum_probs=131.4
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHH-HHhhccCCCCC-HHHhhcccc--cc
Q 038028 80 SMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVY-AACKIEENHVS-AEELGKGIS--QD 155 (337)
Q Consensus 80 ~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLf-LA~K~EE~~~s-l~~~~~~~~--~~ 155 (337)
.+|...++|+.++...|+|..++...|+.+++||.....+..-+.++++++||| +|||.||...+ +++++.... .+
T Consensus 156 ~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s 235 (391)
T KOG0653|consen 156 KMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYS 235 (391)
T ss_pred HHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccc
Confidence 689999999999999999999999999999999999988989999999999977 99999998764 777765443 47
Q ss_pred HHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcch
Q 038028 156 HQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSV 235 (337)
Q Consensus 156 ~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~ 235 (337)
+++|+.||..||..|+|++.+++|+.+|..|...... + ......+..++..++...-.+.++|+.
T Consensus 236 ~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~-------d----~~~~~~~k~~~El~l~d~~~~~~~~s~---- 300 (391)
T KOG0653|consen 236 REEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADY-------D----IKTRTLVKYLLELSLCDYSMLSIPPSS---- 300 (391)
T ss_pred hHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhc-------c----hhHHHHHHHHHHHHHhhhHHhccCcHH----
Confidence 9999999999999999999999999999999865431 1 223445666666665555578999999
Q ss_pred HHHHHHHHHHHhcccc
Q 038028 236 IQLALAALRNSNKVQR 251 (337)
Q Consensus 236 ~~IAlAal~~A~~~~~ 251 (337)
+|+|+.+++.....
T Consensus 301 --~aaa~~~~~~~~~~ 314 (391)
T KOG0653|consen 301 --SAAASFTLALRMLS 314 (391)
T ss_pred --HHHHHHHHHHHHhc
Confidence 99999999988764
No 12
>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=99.45 E-value=3.4e-13 Score=103.07 Aligned_cols=85 Identities=24% Similarity=0.281 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccc-cHHHHHH
Q 038028 83 VFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQ-DHQMILN 161 (337)
Q Consensus 83 ~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~-~~~~Il~ 161 (337)
.....||.+++..+++|..+..+|..|++||+..+.+..++|+.+++||+|+|||++|.+.++++++..... +.++|..
T Consensus 3 ~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~~~~~i~~ 82 (88)
T cd00043 3 PTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGYATEEEILR 82 (88)
T ss_pred chHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCCCCHHHHHH
Confidence 346889999999999999999999999999999999999999999999999999999999999999988887 8999999
Q ss_pred HHHHHH
Q 038028 162 YEMIVY 167 (337)
Q Consensus 162 ~E~~lL 167 (337)
+|..++
T Consensus 83 ~e~~il 88 (88)
T cd00043 83 MEKLLL 88 (88)
T ss_pred HHHHhC
Confidence 998874
No 13
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.42 E-value=6.7e-13 Score=131.20 Aligned_cols=158 Identities=20% Similarity=0.169 Sum_probs=128.6
Q ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCC-CHHHhhcccc--c
Q 038028 78 EQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHV-SAEELGKGIS--Q 154 (337)
Q Consensus 78 E~~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~-sl~~~~~~~~--~ 154 (337)
+..+|....+||.++-..|++-+++..+|+.+++||...+.+.--..++++.+|||+|||+||.+. ++.+|+.... .
T Consensus 209 ~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~ 288 (440)
T COG5024 209 EWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAF 288 (440)
T ss_pred HHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccc
Confidence 357888999999999999999999999999999999999999888999999999999999999976 5778876654 4
Q ss_pred cHHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcc
Q 038028 155 DHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLS 234 (337)
Q Consensus 155 ~~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~ 234 (337)
+.++|+.+|+.+|..|+|++..+.|+-+|+.+-..- +.+. ..+..+..++.-+....-.+.++||+
T Consensus 289 t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~-------dyd~----~srt~~k~~~e~s~~~~~f~~~~~S~--- 354 (440)
T COG5024 289 TRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKAS-------DYDI----FSRTPAKFSSEISPVDYKFIQISPSW--- 354 (440)
T ss_pred cHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhc-------ccch----hhhhhHhhhCCchHhhhhhccCCchH---
Confidence 799999999999999999999999999977665431 1111 11223444444444444455788999
Q ss_pred hHHHHHHHHHHHhccccc
Q 038028 235 VIQLALAALRNSNKVQRV 252 (337)
Q Consensus 235 ~~~IAlAal~~A~~~~~~ 252 (337)
+|+||.++|.+.++.
T Consensus 355 ---~~aaa~~~s~~~~~~ 369 (440)
T COG5024 355 ---CAAAAMYLSRKILSQ 369 (440)
T ss_pred ---HHHHHHHHHHhhhcc
Confidence 999999999987763
No 14
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.37 E-value=2e-11 Score=115.40 Aligned_cols=151 Identities=17% Similarity=0.230 Sum_probs=138.1
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccccHHHHHHHH
Q 038028 84 FYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYE 163 (337)
Q Consensus 84 ~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~~~~~Il~~E 163 (337)
+....|..+|..+++|..|..+|+.+|++-+..+....-....++++|+|.||+.++.|+++.+++.....++.+|....
T Consensus 99 ~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~V~~kei~rty 178 (285)
T COG1405 99 TALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALGVSKKEIGRTY 178 (285)
T ss_pred HHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHCCCHHHHHHHH
Confidence 36788999999999999999999999999999999999999999999999999999999999999998888899999999
Q ss_pred HHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHHH
Q 038028 164 MIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAAL 243 (337)
Q Consensus 164 ~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal 243 (337)
+.+.+.|+-.+....|..|+..|..+|. ....+...|.+++..+..-.+...-.|.. ||+||+
T Consensus 179 r~~~~~L~l~~~~~~p~~yi~rf~s~L~-----------l~~~v~~~a~ei~~~~~~~g~~~Gk~P~g------lAaaai 241 (285)
T COG1405 179 RLLVRELKLKIPPVDPSDYIPRFASKLG-----------LSDEVRRKAIEIVKKAKRAGLTAGKSPAG------LAAAAI 241 (285)
T ss_pred HHHHHhcCCCCCCCCHHHHHHHHHHHcC-----------CCHHHHHHHHHHHHHHHHhCcccCCCchh------HHHHHH
Confidence 9999999999999999999999998873 22456778899998888777788999999 999999
Q ss_pred HHHhcccc
Q 038028 244 RNSNKVQR 251 (337)
Q Consensus 244 ~~A~~~~~ 251 (337)
|+|+...+
T Consensus 242 y~as~l~~ 249 (285)
T COG1405 242 YLASLLLG 249 (285)
T ss_pred HHHHHHhC
Confidence 99998765
No 15
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=99.37 E-value=1.8e-12 Score=98.05 Aligned_cols=82 Identities=24% Similarity=0.332 Sum_probs=75.6
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccc-cHHHHHHHHHH
Q 038028 87 NKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQ-DHQMILNYEMI 165 (337)
Q Consensus 87 ~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~-~~~~Il~~E~~ 165 (337)
+||.+++..+++|..+..+|..|++||+..+++..++|..+++||+|+|||++|.++...++...... +.++|..+|..
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 80 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGYFTEEEILRMEKL 80 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCCCCHHHHHHHHHH
Confidence 37899999999999999999999999999888888999999999999999999999888888877776 89999999999
Q ss_pred HHH
Q 038028 166 VYQ 168 (337)
Q Consensus 166 lL~ 168 (337)
|++
T Consensus 81 il~ 83 (83)
T smart00385 81 LLE 83 (83)
T ss_pred HhC
Confidence 873
No 16
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.95 E-value=1.7e-08 Score=94.21 Aligned_cols=148 Identities=18% Similarity=0.186 Sum_probs=121.3
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccccHHHHHHHHH
Q 038028 85 YENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEM 164 (337)
Q Consensus 85 ~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~~~~~Il~~E~ 164 (337)
....|..+|.+++||..+...|-..|+++........-+..-+++||||+||.-|+.|+++.+++.....++++|-..=.
T Consensus 107 a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~anv~kKEIgr~~K 186 (308)
T KOG1597|consen 107 AFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVANVSKKEIGRCVK 186 (308)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHcCCHHHHHHHHH
Confidence 45689999999999999999999999999988888889999999999999999999999999998877778888888888
Q ss_pred HHHHHcCCcceeC--CChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHH
Q 038028 165 IVYQALEFDLIVY--PPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAA 242 (337)
Q Consensus 165 ~lL~~L~F~L~v~--~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAa 242 (337)
.|+++|+-..... +--.++..|...|+ +...+...|..+...+-.-|.+=.-+|-. ||+|+
T Consensus 187 ~i~~~l~~s~~~~s~~t~~~m~RFCs~L~-----------L~~~~q~aA~e~a~ka~~~~~~~gRsPiS------IAAa~ 249 (308)
T KOG1597|consen 187 LIGEALETSVDLISISTGDFMPRFCSNLG-----------LPKSAQEAATEIAEKAEEMDIRAGRSPIS------IAAAA 249 (308)
T ss_pred HHHHHHhccchhhhhhHHHHHHHHHHhcC-----------CCHHHHHHHHHHHHHHHHhccccCCCchh------HHHHH
Confidence 8888877665543 34566666665542 33455566777776665556666789999 99999
Q ss_pred HHHHhcc
Q 038028 243 LRNSNKV 249 (337)
Q Consensus 243 l~~A~~~ 249 (337)
+|+++..
T Consensus 250 IYmisql 256 (308)
T KOG1597|consen 250 IYMISQL 256 (308)
T ss_pred HHHHHHh
Confidence 9999874
No 17
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=98.76 E-value=2e-08 Score=97.23 Aligned_cols=156 Identities=19% Similarity=0.158 Sum_probs=132.4
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCC-CCHHHhhccccc--cH
Q 038028 80 SMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENH-VSAEELGKGISQ--DH 156 (337)
Q Consensus 80 ~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~-~sl~~~~~~~~~--~~ 156 (337)
.+|...+.|+.++++.+++-.++.+.+..+.+||.....+.....+++..+|.++|+|.||.. ..+++|+..+.. ..
T Consensus 135 smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~ 214 (359)
T KOG0654|consen 135 SMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTY 214 (359)
T ss_pred chhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHH
Confidence 467778999999999999999999999999999999999988889999999999999999986 468899877654 57
Q ss_pred HHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcchH
Q 038028 157 QMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVI 236 (337)
Q Consensus 157 ~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~ 236 (337)
.+++.+|..+|..|.|++.++....++..|+...+. ...++...+..+.+-+++...++.|.||.
T Consensus 215 ~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~----------~~~~~e~~~~yl~elsll~~~~l~y~PSl----- 279 (359)
T KOG0654|consen 215 WQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQT----------PELQVEPLANYLTELSLLDYIFLKYLPSL----- 279 (359)
T ss_pred HHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcc----------hhHHHHHHHHHHHHhhhhhHHHhccChHH-----
Confidence 899999999999999999999999999999876542 11334455666666666666688999999
Q ss_pred HHHHHHHHHHhcccc
Q 038028 237 QLALAALRNSNKVQR 251 (337)
Q Consensus 237 ~IAlAal~~A~~~~~ 251 (337)
||+||+.+|.-.++
T Consensus 280 -iAasAv~lA~~~~~ 293 (359)
T KOG0654|consen 280 -IAASAVFLARLTLD 293 (359)
T ss_pred -HHHHHHHHHHhhcc
Confidence 99999999987543
No 18
>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=98.70 E-value=8.4e-08 Score=72.16 Aligned_cols=69 Identities=17% Similarity=0.421 Sum_probs=59.6
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccccHH
Q 038028 89 LREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQ 157 (337)
Q Consensus 89 I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~~~~ 157 (337)
|.++|..|+||..|..+|..++++-...+-...-+|..++++|||+||+.++.+++++++.+...-+..
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~~Vs~~ 69 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAAGVSEK 69 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHCTSSHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCCCCC
Confidence 568999999999999999999999999988888999999999999999999999999999876654433
No 19
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=98.43 E-value=7.4e-06 Score=82.29 Aligned_cols=158 Identities=13% Similarity=0.095 Sum_probs=122.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccccHHH
Q 038028 79 QSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQM 158 (337)
Q Consensus 79 ~~l~~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~~~~~ 158 (337)
..........|.+++..|+++. ++.+|..||+--..+|-...-.-..|.++|+|++|..|..+.-+=||......+.-+
T Consensus 64 ~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv~Vy~ 142 (521)
T KOG1598|consen 64 EKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQVSVYD 142 (521)
T ss_pred HHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccceEEehhh
Confidence 3334445679999999999999 999999999999999988888999999999999999998876555565555555556
Q ss_pred HHHHHHHHHHHcCCc---ceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcch
Q 038028 159 ILNYEMIVYQALEFD---LIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSV 235 (337)
Q Consensus 159 Il~~E~~lL~~L~F~---L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~ 235 (337)
+-..=+.|...|.-+ +....|.-++..|...|.. ++. .+++...|..+++..-+.-+.-+-.|+.
T Consensus 143 LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~----g~~----~~~Vv~~a~~L~~rMkrdwm~tGRRPsg---- 210 (521)
T KOG1598|consen 143 LGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLF----GDK----TEDVAKTATRLAQRMKRDWMQTGRRPSG---- 210 (521)
T ss_pred hhHHHHHHHHHhccccccccccCcceeeechhHhhhc----CCc----hHHHHHHHHHHHHHHHHHHHHhCCCccc----
Confidence 666777888888888 6667898888888776632 221 2556677777776544444555889999
Q ss_pred HHHHHHHHHHHhcccc
Q 038028 236 IQLALAALRNSNKVQR 251 (337)
Q Consensus 236 ~~IAlAal~~A~~~~~ 251 (337)
|.-|||++|++.++
T Consensus 211 --lcGAaLliAar~h~ 224 (521)
T KOG1598|consen 211 --LCGAALLIAARMHG 224 (521)
T ss_pred --hhHHHHHHHHHHcC
Confidence 99999999999875
No 20
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=97.98 E-value=5.3e-05 Score=65.24 Aligned_cols=90 Identities=17% Similarity=0.184 Sum_probs=67.9
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhc---c--CcccccChHHHHHHHHHHHhhcc-CCCCCHHHhhccccccHHH
Q 038028 85 YENKLREVCSAFYFPNKIQATALLYFKRFYL---Q--WSVMEHHPKNIMLTCVYAACKIE-ENHVSAEELGKGISQDHQM 158 (337)
Q Consensus 85 ~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl---~--~S~~~~~p~lv~~tcLfLA~K~E-E~~~sl~~~~~~~~~~~~~ 158 (337)
...++.++....+++..+.-.|++|++|+.. . ..+.....+-+.++|+-+|.|+= +...+-+.+++..+...++
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~~e 133 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISLKE 133 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-HHH
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCHHH
Confidence 4556777888889999999999999999999 2 22446788899999999999964 4556777887776778899
Q ss_pred HHHHHHHHHHHcCCcc
Q 038028 159 ILNYEMIVYQALEFDL 174 (337)
Q Consensus 159 Il~~E~~lL~~L~F~L 174 (337)
+-.+|+..|..|+|+|
T Consensus 134 ln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 134 LNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHCCCcC
Confidence 9999999999999986
No 21
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.96 E-value=5e-05 Score=73.10 Aligned_cols=89 Identities=10% Similarity=0.119 Sum_probs=78.6
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccccHHHHHHHHHH
Q 038028 86 ENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMI 165 (337)
Q Consensus 86 ~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~~~~~Il~~E~~ 165 (337)
..+|.++|..|+||..|..+|..++++.....-....+|.-|++||||+||+..+.+++.++++.........|...-..
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~~Vs~~tI~~~yke 299 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVAGVTEVTVRNRYKE 299 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHH
Confidence 47899999999999999999999999888777677899999999999999999999999999988877777778877777
Q ss_pred HHHHcCCcc
Q 038028 166 VYQALEFDL 174 (337)
Q Consensus 166 lL~~L~F~L 174 (337)
|...|+..+
T Consensus 300 l~~~l~~~~ 308 (310)
T PRK00423 300 LAEKLDIKI 308 (310)
T ss_pred HHHHhCccc
Confidence 777777644
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.92 E-value=1.4e-05 Score=77.24 Aligned_cols=92 Identities=21% Similarity=0.313 Sum_probs=79.4
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCC-CHHHhh----ccccccHHHH
Q 038028 85 YENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHV-SAEELG----KGISQDHQMI 159 (337)
Q Consensus 85 ~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~-sl~~~~----~~~~~~~~~I 159 (337)
.-..+.+++...++...++++|-+||-...+++-+..-+.++++-|||.||+|+.+... .+..++ +.+...+.++
T Consensus 385 lKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdL 464 (497)
T KOG4164|consen 385 LKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDL 464 (497)
T ss_pred HHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhh
Confidence 44567778888899999999999999999999999999999999999999999997654 345554 3456689999
Q ss_pred HHHHHHHHHHcCCccee
Q 038028 160 LNYEMIVYQALEFDLIV 176 (337)
Q Consensus 160 l~~E~~lL~~L~F~L~v 176 (337)
+..|+-||-+|.|.|++
T Consensus 465 ia~Ef~VlvaLefaL~~ 481 (497)
T KOG4164|consen 465 IAFEFPVLVALEFALHL 481 (497)
T ss_pred hhhhhhHHHhhhhhccC
Confidence 99999999999999975
No 23
>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=97.60 E-value=9.3e-05 Score=59.84 Aligned_cols=58 Identities=24% Similarity=0.383 Sum_probs=43.6
Q ss_pred CCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHHHHHHhcccc
Q 038028 177 YPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQR 251 (337)
Q Consensus 177 ~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal~~A~~~~~ 251 (337)
++|+.+|..|.. +. + ....+...|+.+++.++.+.-++.|+||. ||+||+++|...++
T Consensus 1 PTp~~Fl~~~~~-~~------~----~~~~~~~~a~~l~el~l~~~~fl~~~PS~------iAaAai~lA~~~~~ 58 (118)
T PF02984_consen 1 PTPYDFLRRFLK-IS------N----ADQEVRNLARYLLELSLLDYEFLQYPPSV------IAAAAILLARKILG 58 (118)
T ss_dssp --HHHHHHHHHT-SS------S----HHHHHHHHHHHHHHHHHHSHHHTTS-HHH------HHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHH-Hc------C----CcHHHHHHHHHHHHHHHhhccccCCCHHH------HHHHHHHHHHHHhC
Confidence 468888888742 21 1 12457788999999998888899999999 99999999988754
No 24
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=96.86 E-value=0.0049 Score=58.66 Aligned_cols=87 Identities=14% Similarity=0.145 Sum_probs=74.7
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccccHHHHHHHHHH
Q 038028 86 ENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMI 165 (337)
Q Consensus 86 ~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~~~~~Il~~E~~ 165 (337)
.++|.++|..|+||.+|...|.-+++.....+....-+|--++++|+|+|+...+.+++-++++.....+...|.+.-..
T Consensus 195 ~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~~vtevTIrnryke 274 (285)
T COG1405 195 SDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAGVTEVTIRNRYKE 274 (285)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHhCCeeeHHHHHHHH
Confidence 45788999999999999999999999999999999999999999999999999999999888887666665666666566
Q ss_pred HHHHcCC
Q 038028 166 VYQALEF 172 (337)
Q Consensus 166 lL~~L~F 172 (337)
|.+.++.
T Consensus 275 l~~~~~i 281 (285)
T COG1405 275 LADALDI 281 (285)
T ss_pred HHHhhcc
Confidence 6665554
No 25
>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=95.79 E-value=0.013 Score=43.91 Aligned_cols=58 Identities=22% Similarity=0.186 Sum_probs=44.7
Q ss_pred CCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHHHHHHhcccc
Q 038028 177 YPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQR 251 (337)
Q Consensus 177 ~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal~~A~~~~~ 251 (337)
.+|+.++..+...++ ....+...|+.+++.++.......+.|+. ||+||+++|++..+
T Consensus 3 ~~~~~~l~~~~~~~~-----------~~~~~~~~A~~~~~~~~~~~~~~~~~~~~------ia~a~l~lA~k~~~ 60 (88)
T cd00043 3 PTPLDFLRRVAKALG-----------LSPETLTLAVNLLDRFLLDYSVLGRSPSL------VAAAALYLAAKVEE 60 (88)
T ss_pred chHHHHHHHHHHHcC-----------CCHHHHHHHHHHHHHHHHhcccccCChHH------HHHHHHHHHHHHcC
Confidence 456677766665442 22456778999999988877778999999 99999999998654
No 26
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=94.80 E-value=0.17 Score=48.03 Aligned_cols=70 Identities=14% Similarity=0.198 Sum_probs=60.8
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccc
Q 038028 85 YENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQ 154 (337)
Q Consensus 85 ~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~ 154 (337)
-.++|.++|..|+||..+...|...-++.-...-+..-+|..|+++++|+++-+++...+..+++.....
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vtgV 272 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVTGV 272 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHhhh
Confidence 5678999999999999999999888888777666667899999999999999999988899988765543
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=94.73 E-value=0.03 Score=41.38 Aligned_cols=41 Identities=22% Similarity=0.207 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHHHHHHhcccc
Q 038028 205 KDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQR 251 (337)
Q Consensus 205 ~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal~~A~~~~~ 251 (337)
..+...|+.+++..+...-++.++|+. ||+||+++|++..+
T Consensus 14 ~~~~~~a~~~~~~~l~~~~~~~~~~~~------ia~a~l~lA~k~~~ 54 (83)
T smart00385 14 PETLNLAVNLLDRFLSDYKFLKYSPSL------IAAAALYLAAKTEE 54 (83)
T ss_pred HHHHHHHHHHHHHHHHHhhcccCCHHH------HHHHHHHHHHHHhc
Confidence 567788999999887766677899999 99999999998654
No 28
>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=94.04 E-value=0.2 Score=42.55 Aligned_cols=71 Identities=15% Similarity=0.393 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccC--cccccChHHHHHHHHHHHhhccCCCCCHHHhhcccc
Q 038028 83 VFYENKLREVCSAFYFPNKIQATALLYFKRFYLQW--SVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGIS 153 (337)
Q Consensus 83 ~~~~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~--S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~ 153 (337)
......|.++|.+|+++..+..-..+.|..-...+ -+.+-|.--++++|+|.-||+....++..++.+.+.
T Consensus 12 ~la~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~sF~~Ii~~Yr 84 (135)
T PF01857_consen 12 KLAAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEELSFKDIIKAYR 84 (135)
T ss_dssp HHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S--HHHHHHHHT
T ss_pred HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence 34556889999999999877666666666555432 355789999999999999999998889888876553
No 29
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=92.57 E-value=0.41 Score=46.11 Aligned_cols=72 Identities=14% Similarity=0.181 Sum_probs=51.3
Q ss_pred HHHHHHHHcCCCHHH--HHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCC-HHHhhccccccHHHH
Q 038028 88 KLREVCSAFYFPNKI--QATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVS-AEELGKGISQDHQMI 159 (337)
Q Consensus 88 ~I~~~~~~l~lp~~V--~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~s-l~~~~~~~~~~~~~I 159 (337)
.|.-..+.|++|+.- .-+|-+|+.--.-..-++.|.|..||.+|+|||+..+|.|.. ...+-+.+..+.++|
T Consensus 144 lii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k~ei 218 (367)
T KOG0835|consen 144 LIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTKREI 218 (367)
T ss_pred HHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcHHHH
Confidence 455556777887544 667777777666667788999999999999999999997653 224445555554444
No 30
>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=90.54 E-value=0.64 Score=37.05 Aligned_cols=53 Identities=17% Similarity=0.157 Sum_probs=40.3
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccC
Q 038028 88 KLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEE 140 (337)
Q Consensus 88 ~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE 140 (337)
||..+.+..+....+...|..++.-..+...+.+|.|-.|++||+++|.++-+
T Consensus 6 Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~ 58 (118)
T PF02984_consen 6 FLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILG 58 (118)
T ss_dssp HHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhC
Confidence 44444333444567888888888877777888999999999999999999854
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=90.36 E-value=0.25 Score=36.70 Aligned_cols=43 Identities=19% Similarity=0.101 Sum_probs=34.1
Q ss_pred hHHHHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHHHHHHhcccc
Q 038028 203 MLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQR 251 (337)
Q Consensus 203 ~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal~~A~~~~~ 251 (337)
....+.+.|..+...+....+.-.-.|.. ||+||+|+|++..+
T Consensus 10 L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~------iaAA~iY~acr~~~ 52 (71)
T PF00382_consen 10 LPEDVRERAKEIYKKAQERGLLKGRSPES------IAAACIYLACRLNG 52 (71)
T ss_dssp --HHHHHHHHHHHHHHHHTTTSTTS-HHH------HHHHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHHHcCCcccCCHHH------HHHHHHHHHHHHcC
Confidence 44678888999998887777777889999 99999999998654
No 32
>KOG1674 consensus Cyclin [General function prediction only]
Probab=88.92 E-value=1.5 Score=40.15 Aligned_cols=89 Identities=19% Similarity=0.199 Sum_probs=63.5
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHhccCc---------ccccC-hHHHHHHHHHHHhhccCCC-CCHHHhhccccccHH
Q 038028 89 LREVCSAFYFPNKIQATALLYFKRFYLQWS---------VMEHH-PKNIMLTCVYAACKIEENH-VSAEELGKGISQDHQ 157 (337)
Q Consensus 89 I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S---------~~~~~-p~lv~~tcLfLA~K~EE~~-~sl~~~~~~~~~~~~ 157 (337)
+.++-+..+....+.-.|.+||+||-.... +..++ ..-..++|+-+|||..+.. -+-.-+.+.-.-..+
T Consensus 82 leri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vggl~~~ 161 (218)
T KOG1674|consen 82 LERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVGGLTTD 161 (218)
T ss_pred HHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhCCCChH
Confidence 344445567888999999999999998622 11223 3337899999999988553 344434443344567
Q ss_pred HHHHHHHHHHHHcCCcceeC
Q 038028 158 MILNYEMIVYQALEFDLIVY 177 (337)
Q Consensus 158 ~Il~~E~~lL~~L~F~L~v~ 177 (337)
++-.+|+.++..++|.+.|.
T Consensus 162 eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 162 ELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred hhhhhhHHHHhhCCeEEEec
Confidence 77799999999999999985
No 33
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=86.14 E-value=2.3 Score=41.03 Aligned_cols=57 Identities=16% Similarity=0.167 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHc-C--CCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCC
Q 038028 85 YENKLREVCSAF-Y--FPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEEN 141 (337)
Q Consensus 85 ~~~~I~~~~~~l-~--lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~ 141 (337)
...++.++...+ + -+..+...|..|+...++..-+..|.|..||+||||+|++....
T Consensus 163 L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~~ 222 (305)
T TIGR00569 163 LEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGL 222 (305)
T ss_pred HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhCC
Confidence 334555555444 2 24567788889999999888888999999999999999997643
No 34
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=85.94 E-value=0.43 Score=46.27 Aligned_cols=59 Identities=12% Similarity=0.168 Sum_probs=45.8
Q ss_pred HHHHHHHHcCCC----HHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHH
Q 038028 88 KLREVCSAFYFP----NKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAE 146 (337)
Q Consensus 88 ~I~~~~~~l~lp----~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~ 146 (337)
++.++++.++-- +.+.-+|.+|.+..+...-+..|.|..|+++||+||+|+-+..+++.
T Consensus 154 ~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~ 216 (323)
T KOG0834|consen 154 YLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSD 216 (323)
T ss_pred HHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCC
Confidence 344445555443 35778899999999988878899999999999999999988765443
No 35
>KOG1010 consensus Rb (Retinoblastoma tumor suppressor)-related protein [Cell cycle control, cell division, chromosome partitioning]
Probab=58.19 E-value=23 Score=38.46 Aligned_cols=70 Identities=13% Similarity=0.378 Sum_probs=55.4
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhccCc--ccccChHHHHHHHHHHHhhccCCCCCHHHhhcccccc
Q 038028 86 ENKLREVCSAFYFPNKIQATALLYFKRFYLQWS--VMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQD 155 (337)
Q Consensus 86 ~~~I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S--~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~~ 155 (337)
.-.|+.+|.+|.+.++....--++|..-+...+ +++-|..-++++|+|+-+|+++...+..++...|...
T Consensus 681 avRL~~Lc~rL~l~~e~r~~IWtlFehsl~~et~Lm~dRHLDQillCaiy~i~KV~~~~ltF~eIm~~YR~Q 752 (920)
T KOG1010|consen 681 AVRLNDLCERLSLSDELREQIWTLFEHSLTNETELMRDRHLDQILLCAIYGIAKVKKEDLTFSEIMRAYRRQ 752 (920)
T ss_pred HHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccHHHHHhhhHHHHHHHHHHhheehhcccchHHHHHHHHhcC
Confidence 347899999999988777776677765444332 4578888999999999999999999999998776543
No 36
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=54.91 E-value=43 Score=31.11 Aligned_cols=45 Identities=27% Similarity=0.435 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCC
Q 038028 100 NKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVS 144 (337)
Q Consensus 100 ~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~s 144 (337)
+.....|-.+.+--|...-..-|+|+.|+.||||+||=..|..++
T Consensus 169 ~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~ 213 (264)
T KOG0794|consen 169 QKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIP 213 (264)
T ss_pred hhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChH
Confidence 333444444444445444445699999999999999988877653
No 37
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=51.65 E-value=25 Score=36.19 Aligned_cols=53 Identities=13% Similarity=0.243 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccc
Q 038028 100 NKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGI 152 (337)
Q Consensus 100 ~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~ 152 (337)
..|+.||..+..|----+-...--|--++-|||++||.+.+..+++.++++..
T Consensus 184 ~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi~dIv~vv 236 (521)
T KOG1598|consen 184 EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTIGDIAKVV 236 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccHHHHHHHH
Confidence 35888888877663221112245788899999999999999999999997643
No 38
>PF11131 PhrC_PhrF: Rap-phr extracellular signalling
Probab=48.39 E-value=12 Score=24.20 Aligned_cols=17 Identities=41% Similarity=0.331 Sum_probs=14.5
Q ss_pred cchHHHHHHHHHHHhcc
Q 038028 233 LSVIQLALAALRNSNKV 249 (337)
Q Consensus 233 ~~~~~IAlAal~~A~~~ 249 (337)
++++|+|+|+++.+...
T Consensus 5 l~l~CLA~aavF~~a~v 21 (37)
T PF11131_consen 5 LFLICLAAAAVFTAAGV 21 (37)
T ss_pred HHHHHHHHHHHHHhhcc
Confidence 46899999999998765
No 39
>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=47.60 E-value=36 Score=27.25 Aligned_cols=40 Identities=18% Similarity=0.076 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHHHHHHhcccc
Q 038028 206 DLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQR 251 (337)
Q Consensus 206 ~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal~~A~~~~~ 251 (337)
.....|..+++..+.....-...+.. ||+||+++|++...
T Consensus 50 ~~~~~A~~~~dr~~~~~~~~~~~~~l------i~~~cl~lA~K~~e 89 (127)
T PF00134_consen 50 ETLHLAIYLFDRFLSKRPVNRSKLQL------IALACLFLASKMEE 89 (127)
T ss_dssp HHHHHHHHHHHHHHTTS-TTCCGHHH------HHHHHHHHHHHHHT
T ss_pred hHHHHHHHHHHHHHhhcccccchhhh------hhhhHHHHhhhhhc
Confidence 44556777777655444323444444 99999999998653
No 40
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=39.66 E-value=34 Score=33.06 Aligned_cols=71 Identities=15% Similarity=0.184 Sum_probs=48.1
Q ss_pred HHHHHHHhc--cCcccccChHHHHHHHHHHHhhccCCC-CCHHHhhcccc-ccHHHHHHHHHHHHHHcCCcceeC
Q 038028 107 LLYFKRFYL--QWSVMEHHPKNIMLTCVYAACKIEENH-VSAEELGKGIS-QDHQMILNYEMIVYQALEFDLIVY 177 (337)
Q Consensus 107 ~~yf~RFyl--~~S~~~~~p~lv~~tcLfLA~K~EE~~-~sl~~~~~~~~-~~~~~Il~~E~~lL~~L~F~L~v~ 177 (337)
++|+.|-.. ...+..+....+....+.+|+|+=..- +.--|.+..+. .+.+++-++|+..|+-|+|++.|+
T Consensus 215 L~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd~tveDmNe~ERqfLelLqfNinvp 289 (343)
T KOG1675|consen 215 LVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKDQSVDDMNALERQFLELLQFNINVP 289 (343)
T ss_pred HHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhhccHhhHHHHHHHHHHHHhhccCcc
Confidence 456666433 233446666777777899999975442 22234444443 358899999999999999999864
No 41
>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=34.87 E-value=47 Score=31.99 Aligned_cols=52 Identities=12% Similarity=0.239 Sum_probs=41.2
Q ss_pred hHHHHHHHHHHHHHHHHhcCcceecCCCCCcchHHHHHHHHHHHhcccc-ccchHHHHH
Q 038028 203 MLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQR-VVNYESYLS 260 (337)
Q Consensus 203 ~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~~IAlAal~~A~~~~~-~~~~e~y~~ 260 (337)
++..+.-+|..|....++-.....|.|-. |.++|+++|++... -+.+++|+.
T Consensus 74 lp~~Vv~TA~~fFkRffL~nsvme~~pk~------I~~tc~flA~Kieef~ISieqFvk 126 (325)
T KOG2496|consen 74 LPTSVVSTAIEFFKRFFLENSVMEYSPKI------IMATCFFLACKIEEFYISIEQFVK 126 (325)
T ss_pred CchHHHHHHHHHHHHHHHhcchhhcChHH------HHHHHHHHHhhhHhheecHHHHHh
Confidence 34567778888888889999999999999 99999999998643 334556654
No 42
>KOG2422 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.20 E-value=24 Score=36.86 Aligned_cols=21 Identities=33% Similarity=0.498 Sum_probs=12.2
Q ss_pred CCCCChhhhHhhhhccccCCC
Q 038028 310 HGSHDVSKKREKKSKHKSKSS 330 (337)
Q Consensus 310 p~~~~~~~~~~~~~~~~~~~~ 330 (337)
|..-..+|||+||+|||++.-
T Consensus 86 ~~sk~k~KKK~krkkKk~~~~ 106 (665)
T KOG2422|consen 86 KSSKNKKKKKKKRKKKKSTAE 106 (665)
T ss_pred hhhccccchhhhhccccccCc
Confidence 333455666666666666653
No 43
>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=29.85 E-value=1.9e+02 Score=24.38 Aligned_cols=79 Identities=15% Similarity=0.203 Sum_probs=49.2
Q ss_pred cCCC-HHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHH-H---hhcccc--ccHHHHHHHHHHHHH
Q 038028 96 FYFP-NKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAE-E---LGKGIS--QDHQMILNYEMIVYQ 168 (337)
Q Consensus 96 l~lp-~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~-~---~~~~~~--~~~~~Il~~E~~lL~ 168 (337)
+++. ....|..++||.|--+.. .+|.+.. ...|||||+-+||..-... + ++-+-. ...-..+..=..+..
T Consensus 25 ~~~sDKYLLAmV~~YF~Ragl~~--~~Y~ri~-FFlALYLAndmEED~~~~K~~If~f~~G~~w~~~~~~F~klr~~~~~ 101 (131)
T PF11357_consen 25 LRVSDKYLLAMVIAYFSRAGLFS--WQYQRIH-FFLALYLANDMEEDDEEPKYEIFPFLYGKNWRSQIPQFHKLRDQFWR 101 (131)
T ss_pred hhhhhHHHHHHHHHHHHhcccch--hhcchHH-HHHHHHHhhHHHhccchHHHHHHHHHHCcchHHHhHHHHHHHHHHHH
Confidence 3443 447899999999976532 2344433 4678999999999854322 2 222211 122345566667788
Q ss_pred HcCCcceeC
Q 038028 169 ALEFDLIVY 177 (337)
Q Consensus 169 ~L~F~L~v~ 177 (337)
.+||...|.
T Consensus 102 ~m~~Ra~Vs 110 (131)
T PF11357_consen 102 RMDWRAWVS 110 (131)
T ss_pred HcCCceeeC
Confidence 899988774
No 44
>KOG3543 consensus Ca2+-dependent activator protein [Signal transduction mechanisms]
Probab=24.47 E-value=7.8e+02 Score=26.53 Aligned_cols=57 Identities=23% Similarity=0.416 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHH--HHHHcCCCHHHHHHHHHHHHHHhccCcccccChHH---HHHHHHHHHh
Q 038028 80 SMRVFYENKLRE--VCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKN---IMLTCVYAAC 136 (337)
Q Consensus 80 ~l~~~~~~~I~~--~~~~l~lp~~V~aTA~~yf~RFyl~~S~~~~~p~l---v~~tcLfLA~ 136 (337)
.|+....+.|.. .|=-||-|.-..-..+.++-|.+++.-+....|.. |+--||==|+
T Consensus 715 rlrvllenqithfrycfpfgrpegalkatlsllervlmkdivtpvp~eevk~virkcle~aa 776 (1218)
T KOG3543|consen 715 RLRVLLENQITHFRYCFPFGRPEGALKATLSLLERVLMKDIVTPVPPEEVKAVIRKCLEDAA 776 (1218)
T ss_pred HHHHHHHhhhhceEeeccCCCcchHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence 345555555543 36667889888888889999999998877777754 5666766554
No 45
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair]
Probab=24.45 E-value=1.6e+02 Score=27.21 Aligned_cols=72 Identities=15% Similarity=0.148 Sum_probs=44.5
Q ss_pred CCCCHHHHHHHHHHHHHH--------HHHHHHHcCCCHHHHHHHHHHHHHHhccCc-----ccccChHHHHHHHHHHHhh
Q 038028 71 KPLNIEEEQSMRVFYENK--------LREVCSAFYFPNKIQATALLYFKRFYLQWS-----VMEHHPKNIMLTCVYAACK 137 (337)
Q Consensus 71 ~~ls~eeE~~l~~~~~~~--------I~~~~~~l~lp~~V~aTA~~yf~RFyl~~S-----~~~~~p~lv~~tcLfLA~K 137 (337)
.||+.+....-...+... +.++|..|++ .+|+-.|..++.-|=.+-. -.++..-...++++|+|||
T Consensus 70 SGl~k~~Y~~~~~sfe~llgln~~~~VrdlaVQfgc-~evi~~a~~vl~syk~~lpaT~~~~~D~SrP~ft~aA~~~ack 148 (262)
T KOG4557|consen 70 SGLSKKAYSRSFNSFENLLGLNIKLNVRDLAVQFGC-VEVIKSAQNVLSSYKERLPATRRANADFSRPVFTAAAFYLACK 148 (262)
T ss_pred ccccHHHHHHHHHHHHHHhcchhhcCHHHHHHHHhH-HHHHHHHHHHHHHHHhcCchhhhcCCcccchHHHHHHHHHHHH
Confidence 466665554444434332 4566776765 4566777777777665321 2256666778999999999
Q ss_pred ccCCCC
Q 038028 138 IEENHV 143 (337)
Q Consensus 138 ~EE~~~ 143 (337)
.----+
T Consensus 149 ~lKlKV 154 (262)
T KOG4557|consen 149 KLKLKV 154 (262)
T ss_pred HHHHhh
Confidence 764433
No 46
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=23.30 E-value=1.3e+02 Score=29.77 Aligned_cols=20 Identities=20% Similarity=0.208 Sum_probs=15.2
Q ss_pred cccccChHHHHHHHHHHHhh
Q 038028 118 SVMEHHPKNIMLTCVYAACK 137 (337)
Q Consensus 118 S~~~~~p~lv~~tcLfLA~K 137 (337)
++..|-|-+++++++|||==
T Consensus 271 ~~l~y~PSliAasAv~lA~~ 290 (359)
T KOG0654|consen 271 IFLKYLPSLIAASAVFLARL 290 (359)
T ss_pred HHhccChHHHHHHHHHHHHh
Confidence 35568888888888888843
No 47
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=22.93 E-value=43 Score=24.34 Aligned_cols=17 Identities=29% Similarity=0.452 Sum_probs=13.4
Q ss_pred CcchHHHHHHHHHHHhc
Q 038028 232 VLSVIQLALAALRNSNK 248 (337)
Q Consensus 232 ~~~~~~IAlAal~~A~~ 248 (337)
|||..|+||+|+.-++-
T Consensus 7 vialLC~aLva~vQ~AP 23 (65)
T PF10731_consen 7 VIALLCVALVAIVQSAP 23 (65)
T ss_pred HHHHHHHHHHHHHhcCc
Confidence 58888999999776654
Done!