Query 037972
Match_columns 480
No_of_seqs 213 out of 1459
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 06:15:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037972.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037972hhsearch_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 3.2E-44 7E-49 364.3 17.0 215 5-230 44-268 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 2E-34 4.3E-39 289.1 15.8 211 3-237 110-336 (408)
3 KOG0653 Cyclin B and related k 100.0 1.7E-31 3.6E-36 277.7 17.5 229 7-253 127-366 (391)
4 COG5024 Cyclin [Cell division 100.0 4.5E-31 9.8E-36 276.7 13.1 229 7-253 182-417 (440)
5 KOG0654 G2/Mitotic-specific cy 99.9 1.5E-26 3.3E-31 237.4 7.7 212 7-237 103-323 (359)
6 TIGR00569 ccl1 cyclin ccl1. Un 99.9 7.5E-22 1.6E-26 200.0 17.4 156 34-197 54-221 (305)
7 PF00134 Cyclin_N: Cyclin, N-t 99.9 3.5E-21 7.7E-26 166.9 10.8 122 8-138 1-127 (127)
8 KOG0834 CDK9 kinase-activating 99.8 2.6E-19 5.6E-24 182.5 12.5 193 34-240 37-249 (323)
9 KOG0835 Cyclin L [General func 99.8 6.2E-18 1.4E-22 170.7 14.8 192 33-238 20-231 (367)
10 KOG0794 CDK8 kinase-activating 99.7 1.8E-17 3.9E-22 160.9 8.5 191 35-243 40-245 (264)
11 COG5333 CCL1 Cdk activating ki 99.7 7.6E-16 1.6E-20 154.8 12.5 158 32-197 41-207 (297)
12 PF02984 Cyclin_C: Cyclin, C-t 99.5 4.5E-14 9.8E-19 120.2 8.4 105 140-252 1-107 (118)
13 PRK00423 tfb transcription ini 99.4 7.5E-12 1.6E-16 127.3 18.5 181 37-236 123-304 (310)
14 cd00043 CYCLIN Cyclin box fold 99.3 5E-12 1.1E-16 100.4 6.5 88 35-130 1-88 (88)
15 smart00385 CYCLIN domain prese 99.2 1.3E-11 2.8E-16 97.3 5.7 82 41-131 1-83 (83)
16 KOG2496 Cdk activating kinase 99.2 1.7E-10 3.7E-15 116.4 12.9 156 35-197 55-223 (325)
17 COG1405 SUA7 Transcription ini 98.6 1.4E-06 2.9E-11 88.6 16.8 181 37-235 98-278 (285)
18 smart00385 CYCLIN domain prese 98.4 1.9E-06 4.1E-11 67.7 8.2 81 144-233 1-82 (83)
19 cd00043 CYCLIN Cyclin box fold 98.3 4.4E-06 9.6E-11 66.1 8.9 85 139-232 2-87 (88)
20 KOG1597 Transcription initiati 98.3 1.4E-05 3E-10 81.1 13.4 178 40-236 108-288 (308)
21 PF08613 Cyclin: Cyclin; Inte 97.9 2.6E-05 5.6E-10 71.6 6.8 92 38-137 53-149 (149)
22 KOG4164 Cyclin ik3-1/CABLES [C 97.3 0.00013 2.7E-09 76.7 2.4 94 39-140 385-482 (497)
23 KOG1598 Transcription initiati 96.6 0.015 3.2E-07 63.5 10.9 169 42-232 73-250 (521)
24 PF00382 TFIIB: Transcription 95.9 0.044 9.6E-07 44.0 7.7 71 146-225 1-71 (71)
25 PF00382 TFIIB: Transcription 94.3 0.075 1.6E-06 42.7 4.6 60 43-108 1-60 (71)
26 PRK00423 tfb transcription ini 93.5 0.45 9.8E-06 49.0 9.8 89 141-238 124-212 (310)
27 KOG1674 Cyclin [General functi 92.2 0.3 6.5E-06 48.2 6.0 101 38-140 77-181 (218)
28 PF00134 Cyclin_N: Cyclin, N-t 85.6 7.2 0.00016 33.5 9.2 85 144-236 36-122 (127)
29 COG1405 SUA7 Transcription ini 83.4 8.4 0.00018 39.7 9.9 103 126-237 76-186 (285)
30 KOG0834 CDK9 kinase-activating 78.9 3.7 7.9E-05 43.1 5.5 88 36-132 152-244 (323)
31 KOG1597 Transcription initiati 69.5 25 0.00055 36.6 8.7 83 145-237 110-193 (308)
32 TIGR00569 ccl1 cyclin ccl1. Un 60.7 19 0.0004 37.5 6.0 78 151-237 68-151 (305)
33 PF08613 Cyclin: Cyclin; Inte 56.1 1.1E+02 0.0024 28.0 9.6 89 138-234 50-143 (149)
34 PF02984 Cyclin_C: Cyclin, C-t 50.3 11 0.00025 31.6 2.0 56 40-101 4-59 (118)
35 KOG1675 Predicted cyclin [Gene 46.9 16 0.00035 38.3 2.9 97 47-151 201-299 (343)
36 PF09080 K-cyclin_vir_C: K cyc 45.7 1.3E+02 0.0028 26.4 7.7 69 161-235 27-98 (106)
37 PF03261 CDK5_activator: Cycli 42.6 30 0.00065 36.7 4.1 89 37-131 222-324 (346)
38 KOG0947 Cytoplasmic exosomal R 24.7 1.2E+02 0.0027 36.7 5.5 40 300-359 111-150 (1248)
39 KOG0835 Cyclin L [General func 24.7 1E+02 0.0022 33.0 4.4 43 57-105 161-203 (367)
40 KOG0656 G1/S-specific cyclin D 22.0 2.3E+02 0.0051 30.1 6.5 43 153-195 92-137 (335)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.2e-44 Score=364.29 Aligned_cols=215 Identities=26% Similarity=0.392 Sum_probs=196.0
Q ss_pred chHHHHHHHHHHHhhcCCCCCccc-cCCccc--cHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcc
Q 037972 5 NVAPDFVKYFDVEEKSMPAAGYAY-INEANF--LRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVE 81 (480)
Q Consensus 5 ~vaE~L~nLl~kEe~~~P~~~yl~-lQ~~~~--mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK 81 (480)
..++.|.+|+++|+.+.|..+|.. +|+... ||..+++||++||+++++.++|++||||||||||+...++.++|||
T Consensus 44 ~~e~~i~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~- 122 (335)
T KOG0656|consen 44 WDERVLANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWM- 122 (335)
T ss_pred ccHHHHHHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHH-
Confidence 347889999999999999988665 777664 8999999999999999999999999999999999999999999999
Q ss_pred cccchhhhhHHHHhhhhhccCCCc-ccccccCCCCCCcHH-HHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccc--
Q 037972 82 DDLVLAANCCLIIAWKLRDQSFSF-SDFMAGNNLPRNYSK-HALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKG-- 157 (480)
Q Consensus 82 ~~LQLLAvACLfIAAK~EE~~vPL-~dL~v~~sK~Y~f~~-dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~-- 157 (480)
+||||+|||+||||+||+.+|+ .|+++.+.+ |+|++ +|++||+.||++|+|+|+.+||++|++||+++++..+
T Consensus 123 --lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~-~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~ 199 (335)
T KOG0656|consen 123 --LQLLAVACLSLASKMEETDVPLLADLQVEYTD-NVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHN 199 (335)
T ss_pred --HHHHHHHHHHHHHhhcCcCCchhhhhhhcccc-ccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccch
Confidence 9999999999999999999997 899988877 99999 9999999999999999999999999999999999854
Q ss_pred --hHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccc-hhhhhhccCCCHHHHHHHHH
Q 037972 158 --IKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRC-RESLIDSTYVDEDSLDSFCT 230 (480)
Q Consensus 158 --~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~-~~~L~~~tg~d~edL~~C~~ 230 (480)
.++.++..++..+..|.+|+.|+||+||+|+++++...+. +..... .+.+..+++++++.+..|+.
T Consensus 200 ~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~-------~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 200 KHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVD-------GLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhc-------chhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 4578899999999999999999999999999999888777 333333 46777889999999999999
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2e-34 Score=289.15 Aligned_cols=211 Identities=18% Similarity=0.294 Sum_probs=178.4
Q ss_pred ccchHHHHHHHHHHHhhcCCCCCccccCCcc--ccHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCC-CCCCccCC
Q 037972 3 FHNVAPDFVKYFDVEEKSMPAAGYAYINEAN--FLRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKH-TLPEVLGN 79 (480)
Q Consensus 3 ~~~vaE~L~nLl~kEe~~~P~~~yl~lQ~~~--~mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~-~i~~dkp~ 79 (480)
|.+-++....|+++|+.+..+..++...++. .||++|+|||++||+.|+|..|||||||.||||||... .+.
T Consensus 110 wgn~~eVW~lM~kkee~~l~~~~~l~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~----- 184 (408)
T KOG0655|consen 110 WGNSKEVWLLMLKKEERYLRDKHFLEQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVS----- 184 (408)
T ss_pred ccCHHHHHHHHHccchhhhhhhHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhh-----
Confidence 5567899999999999988877666544443 49999999999999999999999999999999999654 333
Q ss_pred cccccchhhhhHHHHhhhhhccCCC-cccc-cccCCCCCCcHHHHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccc
Q 037972 80 VEDDLVLAANCCLIIAWKLRDQSFS-FSDF-MAGNNLPRNYSKHALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKG 157 (480)
Q Consensus 80 mK~~LQLLAvACLfIAAK~EE~~vP-L~dL-~v~~sK~Y~f~~dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~ 157 (480)
|++|||||+||||||||+||+++| +.+| ++.++- +...+|+.||+.||++|+|+|.+.|...+|..|+.....++
T Consensus 185 -kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgA--cs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~ 261 (408)
T KOG0655|consen 185 -KTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGA--CSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALND 261 (408)
T ss_pred -hhhHHHhhHHHHHHHHHHhhccCccccceeeeccCc--cchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCC
Confidence 578999999999999999999987 5888 655551 44459999999999999999999999999999998776653
Q ss_pred h-----------HHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCCCHHHHH
Q 037972 158 I-----------KRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYVDEDSLD 226 (480)
Q Consensus 158 ~-----------l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~d~edL~ 226 (480)
. ..-+...+|++|+++..++.|..++||||||+.-.. ...+.+++|+..++|.
T Consensus 262 ~~k~l~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s----------------~e~v~kaSG~~w~~ie 325 (408)
T KOG0655|consen 262 APKVLLPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTS----------------IEVVKKASGLEWDSIE 325 (408)
T ss_pred CCceeccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhH----------------HHHHHHcccccHHHHH
Confidence 1 112366899999999999999999999999987543 2256779999999999
Q ss_pred HHHHHHHHHHh
Q 037972 227 SFCTMLDHMCC 237 (480)
Q Consensus 227 ~C~~lL~el~~ 237 (480)
+|++.|.-++.
T Consensus 326 ~cv~wm~Pf~r 336 (408)
T KOG0655|consen 326 ECVDWMVPFVR 336 (408)
T ss_pred HHHHHHHHHHH
Confidence 99999998774
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.97 E-value=1.7e-31 Score=277.75 Aligned_cols=229 Identities=23% Similarity=0.274 Sum_probs=184.5
Q ss_pred HHHHHHHHHH-HhhcCCCCCccccCCcc--ccHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccc
Q 037972 7 APDFVKYFDV-EEKSMPAAGYAYINEAN--FLRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDD 83 (480)
Q Consensus 7 aE~L~nLl~k-Ee~~~P~~~yl~lQ~~~--~mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~ 83 (480)
..++...+.. |..+.|...+ ..|... .||.++||||++||.+|++..||++||||++||||++..++ +++
T Consensus 127 ~~di~~~l~~~e~~~~p~~~~-~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~------~~~ 199 (391)
T KOG0653|consen 127 VQDIFEYLRQLELEFLPLSYD-ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVP------LKK 199 (391)
T ss_pred HHHHHHHHHHHHHhhCchhhh-cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhccc------HHH
Confidence 3455554444 4366666543 334444 49999999999999999999999999999999999998877 356
Q ss_pred cchhhhhHHH-HhhhhhccCCCc-ccc-cccCCCCCCcHH-HHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccchH
Q 037972 84 LVLAANCCLI-IAWKLRDQSFSF-SDF-MAGNNLPRNYSK-HALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKGIK 159 (480)
Q Consensus 84 LQLLAvACLf-IAAK~EE~~vPL-~dL-~v~~sK~Y~f~~-dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~~l 159 (480)
+||+|++||| ||+||||..+|. .|| ++.++ .|+. +|++||+.||.+|+|++..|||+.||+.|+.....+...
T Consensus 200 lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~---~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d~~~ 276 (391)
T KOG0653|consen 200 LQLVGVSALLSIACKYEEISLPSVEDLVLITDG---AYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYDIKT 276 (391)
T ss_pred hhHHhHHHHHHHHHhhhhccCCccceeEeeeCC---ccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcchhH
Confidence 9999999966 999999998895 888 56665 4667 999999999999999999999999999999988855555
Q ss_pred HHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCCCHHHHHHHHHHHHHHHhcc
Q 037972 160 RRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYVDEDSLDSFCTMLDHMCCRK 239 (480)
Q Consensus 160 ~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~d~edL~~C~~lL~el~~~k 239 (480)
...+.++++++++|+.++.++||.+|+|++++++..... .. .|...+..++|+...++.+|...+..+....
T Consensus 277 ~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~------~~--~w~~~~~~~sg~~~~~~~~~~~~~~~~~~~~ 348 (391)
T KOG0653|consen 277 RTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSK------GD--VWSPTLEHYSGYSESYLFECARSLSALSLSS 348 (391)
T ss_pred HHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhcc------CC--ccCCCCeeccCCCcHHHHHHHHHHHHHHHHh
Confidence 666889999999999999999999999999999998772 11 3466788899999889999999998854311
Q ss_pred ----cccccccccccCCC
Q 037972 240 ----KMFQEINEEFLSDV 253 (480)
Q Consensus 240 ----k~~~si~~k~~Sp~ 253 (480)
.+..++..||.++.
T Consensus 349 ~~~~~~~~~~~~ky~~~~ 366 (391)
T KOG0653|consen 349 LQNPSLRASVLNKYNSSK 366 (391)
T ss_pred cccchhHHHHHHHhcccc
Confidence 11113566665544
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.97 E-value=4.5e-31 Score=276.67 Aligned_cols=229 Identities=17% Similarity=0.177 Sum_probs=194.0
Q ss_pred HHHHHHHHHHHhhcCCCCCccccCCcc--ccHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCccccc
Q 037972 7 APDFVKYFDVEEKSMPAAGYAYINEAN--FLRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDL 84 (480)
Q Consensus 7 aE~L~nLl~kEe~~~P~~~yl~lQ~~~--~mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~L 84 (480)
.+.+..|+++|-.++|...|+.-|... .||.+||+||++||.+|++.++|++||||++||||+...+.-.| +
T Consensus 182 ~~Ife~l~k~e~~~lp~~~yl~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k------~ 255 (440)
T COG5024 182 SDIFEYLLKLELIDLPNPNYLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEK------Y 255 (440)
T ss_pred HHHHHHHHHHHHHhcCcHHHHhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHH------H
Confidence 355667889999999999996544443 39999999999999999999999999999999999999998655 9
Q ss_pred chhhhhHHHHhhhhhccCCCc-ccc-cccCCCCCCcHH-HHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccchHHH
Q 037972 85 VLAANCCLIIAWKLRDQSFSF-SDF-MAGNNLPRNYSK-HALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKGIKRR 161 (480)
Q Consensus 85 QLLAvACLfIAAK~EE~~vPL-~dL-~v~~sK~Y~f~~-dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~~l~~ 161 (480)
||+|++|||||+||||.+.|. .+| ++.++ .|+. +|++||+.||.+|+|++..|+|+.||+.+...-..+-..+.
T Consensus 256 QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g---~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd~~srt 332 (440)
T COG5024 256 QLVGISALFIASKYEEVNCPSIKDLVYATDG---AFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYDIFSRT 332 (440)
T ss_pred HHHHHHHHHHHHhHhHhcCHHHHHHHHHHcc---cccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccchhhhh
Confidence 999999999999999999886 788 34444 3555 99999999999999999999999998888776555544555
Q ss_pred HHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccC-CCHHHHHHHHHHHHHHHhccc
Q 037972 162 HVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTY-VDEDSLDSFCTMLDHMCCRKK 240 (480)
Q Consensus 162 ~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg-~d~edL~~C~~lL~el~~~kk 240 (480)
.+.+++..+..++.|+.++||.+||||++.++..+++ .+ |...|..++| |+.+++..|+..+.+.+....
T Consensus 333 ~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~-------~~--w~~~l~~ySg~y~~~~l~~~~~~~~~~l~~~~ 403 (440)
T COG5024 333 PAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQ-------NQ--WDRTLIHYSGNYTNPDLKPLNESNKENLQNPS 403 (440)
T ss_pred hHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhcc-------CC--CCccccccCCCCCchhHHHHHHHHHHHhcccc
Confidence 6889999999999999999999999999999998883 11 4557888888 999999999999999886443
Q ss_pred cc-ccccccccCCC
Q 037972 241 MF-QEINEEFLSDV 253 (480)
Q Consensus 241 ~~-~si~~k~~Sp~ 253 (480)
.+ ..+..||.++-
T Consensus 404 ~~~~~i~~Ky~~~~ 417 (440)
T COG5024 404 VHHDAIFPKYPSPT 417 (440)
T ss_pred hhhhhhhhcccccc
Confidence 33 67777876554
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.93 E-value=1.5e-26 Score=237.36 Aligned_cols=212 Identities=22% Similarity=0.241 Sum_probs=181.5
Q ss_pred HHHHHH-HHHHHhh-cCCCCCccc-cCCccc--cHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcc
Q 037972 7 APDFVK-YFDVEEK-SMPAAGYAY-INEANF--LRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVE 81 (480)
Q Consensus 7 aE~L~n-Ll~kEe~-~~P~~~yl~-lQ~~~~--mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK 81 (480)
+..|.+ +...|-. ..|..+|+. +|.++. ||.++|||+++|.+.+++..+||++++++.||||....+..
T Consensus 103 ~~~I~~~~r~~ei~~~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~------ 176 (359)
T KOG0654|consen 103 AAKIYNTLRVSDIKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNK------ 176 (359)
T ss_pred HHHHhhcccccchhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHH------
Confidence 344444 4666766 788889998 798875 99999999999999999999999999999999999998874
Q ss_pred cccchhhhhHHHHhhhhhccCCCc-ccc-cccCCCCCCcHH-HHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcc-cc
Q 037972 82 DDLVLAANCCLIIAWKLRDQSFSF-SDF-MAGNNLPRNYSK-HALNMELQILNGLEWRSRAVVAVNFVPFFLNISSA-KG 157 (480)
Q Consensus 82 ~~LQLLAvACLfIAAK~EE~~vPL-~dL-~v~~sK~Y~f~~-dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~-~~ 157 (480)
.++|++|++|++||+|+||...|. .+| ++.++ .|.. ++.+||..||+.|.|.+..||.-.|+..|+..... .-
T Consensus 177 ~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~---ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~~~ 253 (359)
T KOG0654|consen 177 QKLQLVGISAMLIASKYEEIKEPRVEEFCYITDN---TYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTPEL 253 (359)
T ss_pred HHHHHhCcccceeeccchhhcchHHHHHHhhhhh---hhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcchhH
Confidence 459999999999999999999885 777 33333 2455 99999999999999999999999999988776543 22
Q ss_pred hHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCCCHHHHHHHHHHHHHHHh
Q 037972 158 IKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYVDEDSLDSFCTMLDHMCC 237 (480)
Q Consensus 158 ~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~d~edL~~C~~lL~el~~ 237 (480)
.+...|.++.++++.++.|+.|.||+|||||+++|..+++. -+|+..|..++||.-++++.|+..|+ ++.
T Consensus 254 ~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~~---------~pW~~~L~~~T~y~~edl~~~v~~L~-~~l 323 (359)
T KOG0654|consen 254 QVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLDF---------HPWNQTLEDYTGYKAEDLKPCVLDLH-LYL 323 (359)
T ss_pred HHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhccC---------CCCchhhHHhhcccHHHHHHHHHHHh-ccc
Confidence 34456889999999999999999999999999999988871 24688999999999999999999999 774
No 6
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.88 E-value=7.5e-22 Score=200.01 Aligned_cols=156 Identities=19% Similarity=0.202 Sum_probs=134.1
Q ss_pred ccHHHHHHHHHHHhhhCC--CCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCccccc--
Q 037972 34 FLRPRAIKVILQNSKSNK--RNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDFM-- 109 (480)
Q Consensus 34 ~mR~~LVDWMieV~~~lk--Ls~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL~-- 109 (480)
.+|.--+..|.++|.+++ ++..|+++|+.||+||+..+++. +.+.++||+||||||+|+||..+++.++.
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~------~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~ 127 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVM------EYHPKIIMLTCVFLACKVEEFNVSIDQFVGN 127 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchh------hcCHHHHHHHHHHHHHhccccCcCHHHHHhh
Confidence 499999999999999999 99999999999999999998876 35589999999999999999998887772
Q ss_pred ccCCCCCCcH-HHHHHHHHHHHHhcCCccccCChhhHHHHHHHHhc-------ccchHHHHHHHHHHHHhccccccCccH
Q 037972 110 AGNNLPRNYS-KHALNMELQILNGLEWRSRAVVAVNFVPFFLNISS-------AKGIKRRHVNRIIIEAQADLSFASCKP 181 (480)
Q Consensus 110 v~~sK~Y~f~-~dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~-------~~~~l~~~A~~lL~lsLlD~~fl~Y~P 181 (480)
+... +... .+|++||..||++|+|+|..++|+.+|..|+..+. ..+.+.++|+.++..++...-++.|+|
T Consensus 128 ~~~~--~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~P 205 (305)
T TIGR00569 128 LKET--PLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTP 205 (305)
T ss_pred ccCC--chhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCH
Confidence 2222 1223 39999999999999999999999999998875432 113466789999998888777999999
Q ss_pred HHHHHHHHHHHHHHhc
Q 037972 182 SVIAAAALVHVCKLLL 197 (480)
Q Consensus 182 SvIAAAALllAl~~L~ 197 (480)
|+||+|||++|...++
T Consensus 206 s~IAlAAI~lA~~~~~ 221 (305)
T TIGR00569 206 SQIALAAILHTASRAG 221 (305)
T ss_pred HHHHHHHHHHHHHHhC
Confidence 9999999999999887
No 7
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.85 E-value=3.5e-21 Score=166.92 Aligned_cols=122 Identities=27% Similarity=0.361 Sum_probs=100.4
Q ss_pred HHHHHHHHHHhhcCCCCCccccCCcc--ccHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccc
Q 037972 8 PDFVKYFDVEEKSMPAAGYAYINEAN--FLRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLV 85 (480)
Q Consensus 8 E~L~nLl~kEe~~~P~~~yl~lQ~~~--~mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQ 85 (480)
+.+..|+++|.++.|+..|++.+.+. .+|..+++||.+++..++++..|+++|+.|||||+....+.. .+++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~------~~~~ 74 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQQPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNR------SKLQ 74 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTGTSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTC------CGHH
T ss_pred CHHHHHHHHHHHHCcCccccccChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhccccc------chhh
Confidence 45788999999999888999855544 499999999999999999999999999999999999998764 4599
Q ss_pred hhhhhHHHHhhhhhccCCC-cccc-cccCCCCCCcHH-HHHHHHHHHHHhcCCccc
Q 037972 86 LAANCCLIIAWKLRDQSFS-FSDF-MAGNNLPRNYSK-HALNMELQILNGLEWRSR 138 (480)
Q Consensus 86 LLAvACLfIAAK~EE~~vP-L~dL-~v~~sK~Y~f~~-dIlrMEl~IL~tL~W~L~ 138 (480)
++|+|||+||+|++|..+| +.++ ...+ +.|+. +|.+||+.||++|+|+++
T Consensus 75 li~~~cl~lA~K~~e~~~~~~~~~~~~~~---~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 75 LIALACLFLASKMEEDNPPSISDLIRISD---NTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHHTSS--HHHHHHHHTT---TSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhhHHHHhhhhhccccchHHHHHHHHc---CCCCHHHHHHHHHHHHHHCCCCcC
Confidence 9999999999999999766 4676 3333 35777 999999999999999985
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.80 E-value=2.6e-19 Score=182.48 Aligned_cols=193 Identities=19% Similarity=0.178 Sum_probs=160.7
Q ss_pred ccHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCcccc-----
Q 037972 34 FLRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDF----- 108 (480)
Q Consensus 34 ~mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL----- 108 (480)
..|...+.||.+++..++++..|+.+|+.||+||+....+.. .+.+.+|++|||||+|+||+..++.|+
T Consensus 37 ~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~------~~~~~vA~sclfLAgKvEetp~kl~dIi~~s~ 110 (323)
T KOG0834|consen 37 RLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKK------FDPYTVAASCLFLAGKVEETPRKLEDIIKVSY 110 (323)
T ss_pred HHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhccccc------CcHHHHHHHHHHHHhhcccCcccHHHHHHHHH
Confidence 499999999999999999999999999999999999998874 347899999999999999998887666
Q ss_pred -ccc-----CCCCCCcHH---HHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccch----HHHHHHHHHHHHhcccc
Q 037972 109 -MAG-----NNLPRNYSK---HALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKGI----KRRHVNRIIIEAQADLS 175 (480)
Q Consensus 109 -~v~-----~sK~Y~f~~---dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~~----l~~~A~~lL~lsLlD~~ 175 (480)
+.. ... .|.. .|...|+.||++|+|++++-+|+.||..|+..+..... +.+.|+.++..++...-
T Consensus 111 ~~~~~~~~~~~~--~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~ 188 (323)
T KOG0834|consen 111 RYLNPKDLELEE--VYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTL 188 (323)
T ss_pred HHcCcccccHHH--HHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeee
Confidence 111 111 2332 89999999999999999999999999999999887653 56779999999999999
Q ss_pred ccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccC--CCHHHHHHHHHHHHHHHhccc
Q 037972 176 FASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTY--VDEDSLDSFCTMLDHMCCRKK 240 (480)
Q Consensus 176 fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg--~d~edL~~C~~lL~el~~~kk 240 (480)
+++|+|.+||+|||.+|....+- +-+..+ ...+....+ +..+.|.+-+..+.++|....
T Consensus 189 cL~y~p~~IAva~i~lA~~~~~~-~~~~~~-----~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~ 249 (323)
T KOG0834|consen 189 CLQYSPHSIAVACIHLAAKLLGV-ELPSDT-----DKRWWREFDETVTNELLDDICHEFLDLYEQTP 249 (323)
T ss_pred eEeecCcEEEeehhhHHHHHcCC-CCCCCc-----ccchhhhhcccCCHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999987762 111111 123455566 999999999999999996443
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.76 E-value=6.2e-18 Score=170.67 Aligned_cols=192 Identities=15% Similarity=0.151 Sum_probs=160.4
Q ss_pred cccHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCcccc----
Q 037972 33 NFLRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDF---- 108 (480)
Q Consensus 33 ~~mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL---- 108 (480)
...|..-++||.+.+.-++|+..+.+.+..+|-||+....+. +.++..++.||++||+|+||..-.+.++
T Consensus 20 ~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v------~~~~e~vv~ACv~LASKiEE~Prr~rdVinVF 93 (367)
T KOG0835|consen 20 EELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFV------RHDFEIVVMACVLLASKIEEEPRRIRDVINVF 93 (367)
T ss_pred HHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccc------cccHHHHHHHHHHHHhhhccccccHhHHHHHH
Confidence 349999999999999999999999999999999999888876 4669999999999999999986433332
Q ss_pred ----------ccc---CCCCCCcHH-HHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccch--HHHHHHHHHHHHhc
Q 037972 109 ----------MAG---NNLPRNYSK-HALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKGI--KRRHVNRIIIEAQA 172 (480)
Q Consensus 109 ----------~v~---~sK~Y~f~~-dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~~--l~~~A~~lL~lsLl 172 (480)
... .++-|.-.+ .+.++|..||..|||+++..+|+.++-.|+.-+++.++ +.+.++.|+++++.
T Consensus 94 h~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~wNfmNDslR 173 (367)
T KOG0835|consen 94 HYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAAWNFMNDSLR 173 (367)
T ss_pred HHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHHHHhhhhccc
Confidence 000 111021123 88999999999999999999999999999999998765 47889999999999
Q ss_pred cccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCCCHHHHHHHHHHHHHHHhc
Q 037972 173 DLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYVDEDSLDSFCTMLDHMCCR 238 (480)
Q Consensus 173 D~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~d~edL~~C~~lL~el~~~ 238 (480)
.-.|+.|+|+.||+||+++|...++. |. +..+.+..+.+.++.+|.+-+-.+..+|..
T Consensus 174 T~v~vry~pe~iACaciyLaAR~~eI------pL--p~~P~Wf~~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 174 TDVFVRYSPESIACACIYLAARNLEI------PL--PFQPHWFKAFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred cceeeecCHHHHHHHHHHHHHhhhcC------CC--CCCccHHHHcCCcHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999998872 22 334577888999999999888888888854
No 10
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.71 E-value=1.8e-17 Score=160.94 Aligned_cols=191 Identities=19% Similarity=0.181 Sum_probs=158.5
Q ss_pred cHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCC-c-------c
Q 037972 35 LRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFS-F-------S 106 (480)
Q Consensus 35 mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vP-L-------~ 106 (480)
.+--.-+.|..++.++++.+.++++|+.||-||+.+.++..-. ..|+|.||++||+|+||..+. . .
T Consensus 40 l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~------p~lla~TClyLAcKvEE~~i~~~r~l~~~a~ 113 (264)
T KOG0794|consen 40 LKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIE------PRLLAPTCLYLACKVEECPIVHIRLLVNEAK 113 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC------HHHHHHHHHHHHhhhhhcchHHHHHHHHHHH
Confidence 5556677899999999999999999999999999998876444 789999999999999998521 1 1
Q ss_pred cc-----cccCCCCCCcHH-HHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccch-HHHHHHHHHHHHhccccccCc
Q 037972 107 DF-----MAGNNLPRNYSK-HALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKGI-KRRHVNRIIIEAQADLSFASC 179 (480)
Q Consensus 107 dL-----~v~~sK~Y~f~~-dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~~-l~~~A~~lL~lsLlD~~fl~Y 179 (480)
.| +-... +-|+. +|.+||..+|+.|++-|..-+|+.-|..++...+..+. ....++.+++.++....++-|
T Consensus 114 ~L~~~f~~~~e~--~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~ 191 (264)
T KOG0794|consen 114 VLKTRFSYWPEK--FPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDSYRMDLCLLY 191 (264)
T ss_pred HHhhhcccchhh--cCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcchhhcceeeec
Confidence 22 11222 34455 99999999999999999999999999999999888554 677899999999999999999
Q ss_pred cHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCCCHHHHHHHHHHHHHHHhcccccc
Q 037972 180 KPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYVDEDSLDSFCTMLDHMCCRKKMFQ 243 (480)
Q Consensus 180 ~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~d~edL~~C~~lL~el~~~kk~~~ 243 (480)
+|-+||.|||++|+...++++ .+.+..-+.+|.+.|.+|++.+..+|...+.+.
T Consensus 192 PPh~IalAcl~Ia~~~~~k~~----------~~~w~~el~vD~ekV~~~v~~I~~lYe~wk~~~ 245 (264)
T KOG0794|consen 192 PPHQIALACLYIACVIDEKDI----------PKAWFAELSVDMEKVKDIVQEILKLYELWKIFD 245 (264)
T ss_pred CHHHHHHHHHHHHHhhcCCCh----------HHHHHHHHhccHHHHHHHHHHHHHHHHHHhhhh
Confidence 999999999999998666211 246667789999999999999999998665554
No 11
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.65 E-value=7.6e-16 Score=154.83 Aligned_cols=158 Identities=22% Similarity=0.280 Sum_probs=136.1
Q ss_pred ccccHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhc--cCCCc----
Q 037972 32 ANFLRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRD--QSFSF---- 105 (480)
Q Consensus 32 ~~~mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE--~~vPL---- 105 (480)
+...|....-|+..+|.++++...|+.+||.+|+||+.+..+.... ++-|+.||++||+|+|| .++.+
T Consensus 41 e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~------~~~vv~tcv~LA~K~ed~~~~I~i~~~~ 114 (297)
T COG5333 41 ELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEIS------LYSVVTTCVYLACKVEDTPRDISIESFE 114 (297)
T ss_pred hhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhccccccc------HHHHHHhheeeeeecccccchhhHHHHH
Confidence 3348888889999999999999999999999999999999987433 89999999999999999 44433
Q ss_pred -ccccccCCCCCCcHHHHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccch--HHHHHHHHHHHHhccccccCccHH
Q 037972 106 -SDFMAGNNLPRNYSKHALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKGI--KRRHVNRIIIEAQADLSFASCKPS 182 (480)
Q Consensus 106 -~dL~v~~sK~Y~f~~dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~~--l~~~A~~lL~lsLlD~~fl~Y~PS 182 (480)
.++..+.- +.+...|..+|..||++|+|+++..+|+..+..|+..+...+. ..+.|+.++..++...-++.|+|.
T Consensus 115 ~~~~~se~~--~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~~t~~~llypph 192 (297)
T COG5333 115 ARDLWSEEP--KSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPH 192 (297)
T ss_pred hhccccccc--cccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhceeeeecChH
Confidence 23333332 2233499999999999999999999999999999988777665 778899999999999999999999
Q ss_pred HHHHHHHHHHHHHhc
Q 037972 183 VIAAAALVHVCKLLL 197 (480)
Q Consensus 183 vIAAAALllAl~~L~ 197 (480)
.||+||++.|...++
T Consensus 193 iIA~a~l~ia~~~~~ 207 (297)
T COG5333 193 IIALAALLIACEVLG 207 (297)
T ss_pred HHHHHHHHHHHHhcC
Confidence 999999999999877
No 12
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=99.51 E-value=4.5e-14 Score=120.22 Aligned_cols=105 Identities=29% Similarity=0.374 Sum_probs=84.4
Q ss_pred CChhhHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccC
Q 037972 140 VVAVNFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTY 219 (480)
Q Consensus 140 pTP~~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg 219 (480)
|||++||++|++..+.+..+...+.++++++++++.|++|+||+||+|||++|+..++. . + .|...+..++|
T Consensus 1 PTp~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~-~----~---~~~~~l~~~t~ 72 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK-E----P---PWPESLEKLTG 72 (118)
T ss_dssp --HHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS-S----T---CSHHHHHHHHT
T ss_pred CcHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc-c----c---cCCccchhhcC
Confidence 79999999997665555567788999999999999999999999999999999998872 0 1 34678889999
Q ss_pred CCHHHHHHHHHHHHHHHhc--ccccccccccccCC
Q 037972 220 VDEDSLDSFCTMLDHMCCR--KKMFQEINEEFLSD 252 (480)
Q Consensus 220 ~d~edL~~C~~lL~el~~~--kk~~~si~~k~~Sp 252 (480)
+++++|.+|++.|.+++.+ ..++..+.+||.+.
T Consensus 73 ~~~~~l~~c~~~i~~~~~~~~~~~~~ai~~Kys~~ 107 (118)
T PF02984_consen 73 YDKEDLKECIELIQELLSKASNSKLQAIRKKYSSQ 107 (118)
T ss_dssp S-HHHHHHHHHHHHHHHHHCCGSSCTHHHHHTTSG
T ss_pred CCHHHHHHHHHHHHHHHHhcCCccchHHHHHhCcc
Confidence 9999999999999999863 35667777777654
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.42 E-value=7.5e-12 Score=127.30 Aligned_cols=181 Identities=13% Similarity=0.071 Sum_probs=153.5
Q ss_pred HHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCccccc-ccCCCC
Q 037972 37 PRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDFM-AGNNLP 115 (480)
Q Consensus 37 ~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL~-v~~sK~ 115 (480)
.....-|.+++..++++..+.-.|..|+.+++....+... ....+++||||+|+|.++....+.++. +.+
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgr------s~~~i~AAclYiACR~~~~prtl~eI~~~~~--- 193 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGR------SIEGVVAAALYAACRRCKVPRTLDEIAEVSR--- 193 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCC------CHHHHHHHHHHHHHHHcCCCcCHHHHHHHhC---
Confidence 3445668889999999999999999999999988766532 378999999999999999987787772 222
Q ss_pred CCcHHHHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHH
Q 037972 116 RNYSKHALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKL 195 (480)
Q Consensus 116 Y~f~~dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~ 195 (480)
+-..+|-+.++.|++.|+.++....|.+|+..|...+++...+.+.|..++..+..........|..||||||++|...
T Consensus 194 -v~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~ 272 (310)
T PRK00423 194 -VSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLL 272 (310)
T ss_pred -CCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHH
Confidence 2234999999999999999999999999999999999999888888999998887666677999999999999999986
Q ss_pred hcccCCCCCCCcccchhhhhhccCCCHHHHHHHHHHHHHHH
Q 037972 196 LLRDENGERPDAKRCRESLIDSTYVDEDSLDSFCTMLDHMC 236 (480)
Q Consensus 196 L~~~e~~~~p~~~~~~~~L~~~tg~d~edL~~C~~lL~el~ 236 (480)
.+. +. ..+.+..++|+.+..|..+|+.|...+
T Consensus 273 ~g~------~~---t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 273 LGE------RR---TQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred hCC------CC---CHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 661 21 266888899999999999999998755
No 14
>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=99.29 E-value=5e-12 Score=100.45 Aligned_cols=88 Identities=22% Similarity=0.263 Sum_probs=72.0
Q ss_pred cHHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCcccccccCCC
Q 037972 35 LRPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDFMAGNNL 114 (480)
Q Consensus 35 mR~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL~v~~sK 114 (480)
+|..+++||.+++..++++.+|.++|+.|+|||+....+.. .+++++|+|||+||+|++|..+.+.++.....
T Consensus 1 ~~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~- 73 (88)
T cd00043 1 MRPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLG------RSPSLVAAAALYLAAKVEEIPPWLKDLVHVTG- 73 (88)
T ss_pred CcchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccccc------CChHHHHHHHHHHHHHHcCCCCCHHHHhHHhC-
Confidence 47789999999999999999999999999999999887763 44899999999999999999545577721111
Q ss_pred CCCcHHHHHHHHHHHH
Q 037972 115 PRNYSKHALNMELQIL 130 (480)
Q Consensus 115 ~Y~f~~dIlrMEl~IL 130 (480)
+....+|.+||..||
T Consensus 74 -~~~~~~i~~~e~~il 88 (88)
T cd00043 74 -YATEEEILRMEKLLL 88 (88)
T ss_pred -CCCHHHHHHHHHHhC
Confidence 112349999999875
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=99.23 E-value=1.3e-11 Score=97.26 Aligned_cols=82 Identities=21% Similarity=0.205 Sum_probs=67.5
Q ss_pred HHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCcccccccCCCCCCcHH
Q 037972 41 KVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDFMAGNNLPRNYSK 120 (480)
Q Consensus 41 DWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL~v~~sK~Y~f~~ 120 (480)
+||.+++..++++.+|.++|++++|||+....+.. .+.+++|+|||+||+|++|..++..++... .+ + |+.
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~------~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~-~~-~-~~~ 71 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLK------YSPSLIAAAALYLAAKTEEIPPWTKELVHY-TG-Y-FTE 71 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhccc------CCHHHHHHHHHHHHHHHhcCCCCchhHhHh-hC-C-CCH
Confidence 59999999999999999999999999998666553 348999999999999999998666666221 22 2 344
Q ss_pred -HHHHHHHHHHH
Q 037972 121 -HALNMELQILN 131 (480)
Q Consensus 121 -dIlrMEl~IL~ 131 (480)
+|.+||+.||.
T Consensus 72 ~~i~~~~~~il~ 83 (83)
T smart00385 72 EEILRMEKLLLE 83 (83)
T ss_pred HHHHHHHHHHhC
Confidence 99999999974
No 16
>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=99.19 E-value=1.7e-10 Score=116.37 Aligned_cols=156 Identities=18% Similarity=0.214 Sum_probs=118.6
Q ss_pred cHHHHHHHHHHHhhhC--CCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCccccc--c
Q 037972 35 LRPRAIKVILQNSKSN--KRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDFM--A 110 (480)
Q Consensus 35 mR~~LVDWMieV~~~l--kLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL~--v 110 (480)
+=..-..-+++.+.++ .+...++.+|+.+|-||+....+.... ...|.+||+|+|+|++|.+|.+.+|. +
T Consensus 55 l~k~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~------pk~I~~tc~flA~Kieef~ISieqFvkn~ 128 (325)
T KOG2496|consen 55 LTKEEELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYS------PKIIMATCFFLACKIEEFYISIEQFVKNM 128 (325)
T ss_pred ccHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcC------hHHHHHHHHHHHhhhHhheecHHHHHhhc
Confidence 4444555566666655 468899999999999999988876433 68999999999999999999988772 2
Q ss_pred cCCCCCCcHHHHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcc-------cchHHHHH--HHHHHHHhccccccCccH
Q 037972 111 GNNLPRNYSKHALNMELQILNGLEWRSRAVVAVNFVPFFLNISSA-------KGIKRRHV--NRIIIEAQADLSFASCKP 181 (480)
Q Consensus 111 ~~sK~Y~f~~dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~-------~~~l~~~A--~~lL~lsLlD~~fl~Y~P 181 (480)
.+.+ ......|+..|..+|+.|+|+|..-+|+.-|+-|+..+.. .+..+.+. ..+++.+++...++-|.|
T Consensus 129 ~~~~-~k~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytP 207 (325)
T KOG2496|consen 129 NGRK-WKTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTP 207 (325)
T ss_pred cCcc-cccHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecCh
Confidence 2221 2222389999999999999999999999988877654321 12233333 478889999889999999
Q ss_pred HHHHHHHHHHHHHHhc
Q 037972 182 SVIAAAALVHVCKLLL 197 (480)
Q Consensus 182 SvIAAAALllAl~~L~ 197 (480)
|+||+|||+.|....+
T Consensus 208 sQIALaAil~a~~~~~ 223 (325)
T KOG2496|consen 208 SQIALAAILHAAGRTG 223 (325)
T ss_pred HHHHHHHHHHHhcccc
Confidence 9999999976654444
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.62 E-value=1.4e-06 Score=88.56 Aligned_cols=181 Identities=15% Similarity=0.135 Sum_probs=151.7
Q ss_pred HHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCcccccccCCCCC
Q 037972 37 PRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDFMAGNNLPR 116 (480)
Q Consensus 37 ~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL~v~~sK~Y 116 (480)
..+..-|-.++..++++..+.-.|..++=+.+...-+.... .+-++++|+++|++.......+.++...-.
T Consensus 98 ~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRs------ie~v~AA~iY~acR~~~~prtl~eIa~a~~--- 168 (285)
T COG1405 98 ITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRS------IESVAAACIYAACRINGVPRTLDEIAKALG--- 168 (285)
T ss_pred HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCc------HHHHHHHHHHHHHHHcCCCccHHHHHHHHC---
Confidence 45667788889999999999999999999999887776433 789999999999999998777776621111
Q ss_pred CcHHHHHHHHHHHHHhcCCccccCChhhHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHh
Q 037972 117 NYSKHALNMELQILNGLEWRSRAVVAVNFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLL 196 (480)
Q Consensus 117 ~f~~dIlrMEl~IL~tL~W~L~~pTP~~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L 196 (480)
+-..+|.++.+.+...|+=.+.+..|.+|+..|...|++.+.+...|..++..+...-....=.|+-||+|||++|....
T Consensus 169 V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~ 248 (285)
T COG1405 169 VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLL 248 (285)
T ss_pred CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHh
Confidence 22348999999999999999999999999999999999999898899999999988888889999999999999998866
Q ss_pred cccCCCCCCCcccchhhhhhccCCCHHHHHHHHHHHHHH
Q 037972 197 LRDENGERPDAKRCRESLIDSTYVDEDSLDSFCTMLDHM 235 (480)
Q Consensus 197 ~~~e~~~~p~~~~~~~~L~~~tg~d~edL~~C~~lL~el 235 (480)
+. ......+..++|+.+..|..=|+.|.+.
T Consensus 249 ~~---------~~tq~eva~v~~vtevTIrnrykel~~~ 278 (285)
T COG1405 249 GE---------RRTQKEVAKVAGVTEVTIRNRYKELADA 278 (285)
T ss_pred CC---------chHHHHHHHHhCCeeeHHHHHHHHHHHh
Confidence 61 1126688899999999999988666543
No 18
>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=98.37 E-value=1.9e-06 Score=67.70 Aligned_cols=81 Identities=21% Similarity=0.169 Sum_probs=69.6
Q ss_pred hHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCC-CH
Q 037972 144 NFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYV-DE 222 (480)
Q Consensus 144 ~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~-d~ 222 (480)
+||..+...++.+..+...|.++++.++.+..++.+.|+.||+|||++|.+..+. + +|...+..++++ +.
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~------~---~~~~~~~~~~~~~~~ 71 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEI------P---PWTKELVHYTGYFTE 71 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcC------C---CCchhHhHhhCCCCH
Confidence 4788888999988888888999999999989999999999999999999987762 1 235677888888 99
Q ss_pred HHHHHHHHHHH
Q 037972 223 DSLDSFCTMLD 233 (480)
Q Consensus 223 edL~~C~~lL~ 233 (480)
++|.+|...|.
T Consensus 72 ~~i~~~~~~il 82 (83)
T smart00385 72 EEILRMEKLLL 82 (83)
T ss_pred HHHHHHHHHHh
Confidence 99999998875
No 19
>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=98.30 E-value=4.4e-06 Score=66.11 Aligned_cols=85 Identities=18% Similarity=0.112 Sum_probs=74.4
Q ss_pred cCChhhHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhcc
Q 037972 139 AVVAVNFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDST 218 (480)
Q Consensus 139 ~pTP~~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~t 218 (480)
.+++.+|+..+...++.+......|..+++.++....+..+.|+.||+|||++|.+..+. ..+...+..++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~---------~~~~~~~~~~~ 72 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI---------PPWLKDLVHVT 72 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC---------CCCHHHHhHHh
Confidence 578999999999999998888888999999999999999999999999999999986661 13466888889
Q ss_pred CC-CHHHHHHHHHHH
Q 037972 219 YV-DEDSLDSFCTML 232 (480)
Q Consensus 219 g~-d~edL~~C~~lL 232 (480)
++ +.++|..|...|
T Consensus 73 ~~~~~~~i~~~e~~i 87 (88)
T cd00043 73 GYATEEEILRMEKLL 87 (88)
T ss_pred CCCCHHHHHHHHHHh
Confidence 99 999999998765
No 20
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.26 E-value=1.4e-05 Score=81.07 Aligned_cols=178 Identities=20% Similarity=0.118 Sum_probs=137.7
Q ss_pred HHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCccccc-ccCCCCCCc
Q 037972 40 IKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDFM-AGNNLPRNY 118 (480)
Q Consensus 40 VDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL~-v~~sK~Y~f 118 (480)
..=|..++..++|.....-.|-.+|-++-........ ..+-+++|||+||+.=++..-.+.++. +.+ +.
T Consensus 108 ~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGk------s~eai~AAclyiACRq~~~pRT~kEI~~~an----v~ 177 (308)
T KOG1597|consen 108 FKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGK------SVEALAAACLYIACRQEDVPRTFKEISAVAN----VS 177 (308)
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCc------cHHHHHHHHHHHHHHhcCCCchHHHHHHHHc----CC
Confidence 3446677889999999999999999999865555432 378999999999999877765667764 333 34
Q ss_pred HHHHHHHHHHHHHhcCCccccCC--hhhHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHh
Q 037972 119 SKHALNMELQILNGLEWRSRAVV--AVNFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLL 196 (480)
Q Consensus 119 ~~dIlrMEl~IL~tL~W~L~~pT--P~~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L 196 (480)
.++|-+.=..|+..|+=.+...| .-+|+..|...|++.......|.++.+.+..--....-.|=.||||+||++.+.-
T Consensus 178 kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls 257 (308)
T KOG1597|consen 178 KKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLS 257 (308)
T ss_pred HHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhc
Confidence 55999999999999988777666 8899999999999988776666666665543333345789999999999998754
Q ss_pred cccCCCCCCCcccchhhhhhccCCCHHHHHHHHHHHHHHH
Q 037972 197 LRDENGERPDAKRCRESLIDSTYVDEDSLDSFCTMLDHMC 236 (480)
Q Consensus 197 ~~~e~~~~p~~~~~~~~L~~~tg~d~edL~~C~~lL~el~ 236 (480)
+. + ...+.+..++|+.+..|+.-|+.|....
T Consensus 258 ~~------k---kt~keI~~vtgVaE~TIr~sYK~Lyp~~ 288 (308)
T KOG1597|consen 258 DE------K---KTQKEIGEVTGVAEVTIRNSYKDLYPHA 288 (308)
T ss_pred cC------c---ccHHHHHHHhhhhHHHHHHHHHHHhhch
Confidence 41 1 1266888999999999999999988644
No 21
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=97.90 E-value=2.6e-05 Score=71.62 Aligned_cols=92 Identities=22% Similarity=0.203 Sum_probs=64.8
Q ss_pred HHHHHHHHHhhhCCCCCchHHHHHHHHHHHhc---CCCCCCccCCcccccchhhhhHHHHhhhhhccCC-Ccccc-cccC
Q 037972 38 RAIKVILQNSKSNKRNAYIPYLALNYFDRFIS---KHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSF-SFSDF-MAGN 112 (480)
Q Consensus 38 ~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS---~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~v-PL~dL-~v~~ 112 (480)
.+.+++.++...-+++.+|+.+|..|+||+.. ...+... ....+-+-++||.||+|+-+... ....+ .+.+
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 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLN----SSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG 128 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---S----TTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccc----cchhHHHHHHHHHHHHhhcccccccHHHHHhhcC
Confidence 48899999999999999999999999999998 3333211 13477889999999999987653 33444 2332
Q ss_pred CCCCCcHHHHHHHHHHHHHhcCCcc
Q 037972 113 NLPRNYSKHALNMELQILNGLEWRS 137 (480)
Q Consensus 113 sK~Y~f~~dIlrMEl~IL~tL~W~L 137 (480)
+...++.+||+..|..|+|+|
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 333499999999999999986
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.28 E-value=0.00013 Score=76.74 Aligned_cols=94 Identities=18% Similarity=0.282 Sum_probs=75.9
Q ss_pred HHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCC-cccc--cccCCCC
Q 037972 39 AIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFS-FSDF--MAGNNLP 115 (480)
Q Consensus 39 LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vP-L~dL--~v~~sK~ 115 (480)
+-.=|.+++...++..-|+..|..||.....+..+. |.+-.|+|.|||.||+|+.+..-. +..| +.++.
T Consensus 385 lKREMr~l~~d~~id~~TVa~AyVYFEKliLkglis------K~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~-- 456 (497)
T KOG4164|consen 385 LKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLIS------KQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQ-- 456 (497)
T ss_pred HHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhh------hhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH--
Confidence 444588889999999999999999999999988887 566899999999999999965532 3333 23332
Q ss_pred CCcHH-HHHHHHHHHHHhcCCccccC
Q 037972 116 RNYSK-HALNMELQILNGLEWRSRAV 140 (480)
Q Consensus 116 Y~f~~-dIlrMEl~IL~tL~W~L~~p 140 (480)
+-+.. ++...|.-||.+|.|.|+.+
T Consensus 457 fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 457 FRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred hcccHHhhhhhhhhHHHhhhhhccCC
Confidence 44556 99999999999999999865
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=96.59 E-value=0.015 Score=63.55 Aligned_cols=169 Identities=15% Similarity=0.113 Sum_probs=122.1
Q ss_pred HHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCcccc--cccCCCCCCcH
Q 037972 42 VILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDF--MAGNNLPRNYS 119 (480)
Q Consensus 42 WMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL--~v~~sK~Y~f~ 119 (480)
-|-+++..+++.. .+-.|.++|---+...-.+... .++|-.+||+|++..|-+..=+.|| +.--+ +|+
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~------~~~vvasClY~vcR~e~t~hlliDfS~~Lqv~---Vy~ 142 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRR------STEVVAACLYLVCRLEKTDHLLIDFSSYLQVS---VYD 142 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcc------hHHHHHHHHHHHHHhhCCceEEEEeccceEEe---hhh
Confidence 6888999999988 9999999999998887776433 7999999999999998886434454 11122 333
Q ss_pred HHHHHHHHHHHHhcCCc---cccCChhhHHHHHHHHhcccc---hHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHH
Q 037972 120 KHALNMELQILNGLEWR---SRAVVAVNFVPFFLNISSAKG---IKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVC 193 (480)
Q Consensus 120 ~dIlrMEl~IL~tL~W~---L~~pTP~~FL~~fL~~L~~~~---~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl 193 (480)
+-.+=+.+...|.=. +-..-|.-|+..|...|...+ .+...|..++..+..|.-...-+|+-|+.|||++|.
T Consensus 143 --LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAa 220 (521)
T KOG1598|consen 143 --LGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAA 220 (521)
T ss_pred --hhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHH
Confidence 334444556666655 566778888889988776543 355667888888888999999999999999999999
Q ss_pred HHhcccCCCCCCCcccc-hhhhhhccCCCHHHHHHHHHHH
Q 037972 194 KLLLRDENGERPDAKRC-RESLIDSTYVDEDSLDSFCTML 232 (480)
Q Consensus 194 ~~L~~~e~~~~p~~~~~-~~~L~~~tg~d~edL~~C~~lL 232 (480)
...+ +.. ...+..+..+.+..+..-+..+
T Consensus 221 r~h~----------~~rsi~dIv~vvhV~e~Tl~kRl~Ef 250 (521)
T KOG1598|consen 221 RMHG----------FRRTIGDIAKVVHVCESTLSKRLKEF 250 (521)
T ss_pred HHcC----------ccccHHHHHHHHHHhHHHHHHHHHHH
Confidence 8666 121 4456666666666555444433
No 24
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=95.88 E-value=0.044 Score=44.01 Aligned_cols=71 Identities=21% Similarity=0.243 Sum_probs=53.8
Q ss_pred HHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCCCHHHH
Q 037972 146 VPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYVDEDSL 225 (480)
Q Consensus 146 L~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~d~edL 225 (480)
+..|...+++.+.+.+.|..+...+......-+-.|..||||||++|....+. |. ....+...+++++.+|
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~------~~---t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGV------PR---TLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTS------SS---SHHHHHHHCTSSHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCC------Cc---CHHHHHHHhCCCCCcC
Confidence 35677889998888889999998887776667789999999999999986661 22 2667888888887664
No 25
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=94.33 E-value=0.075 Score=42.68 Aligned_cols=60 Identities=12% Similarity=0.084 Sum_probs=48.4
Q ss_pred HHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCcccc
Q 037972 43 ILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSFSDF 108 (480)
Q Consensus 43 MieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL~dL 108 (480)
|-++|..++|+..+.-.|..++++-....-....+ ..-++++|+++|++.+....++.++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~------~~~iaAA~iY~acr~~~~~~t~~eI 60 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRS------PESIAAACIYLACRLNGVPRTLKEI 60 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-------HHHHHHHHHHHHHHHTTSSSSHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCC------HHHHHHHHHHHHHHHcCCCcCHHHH
Confidence 45789999999999999999999998776555333 5789999999999999888777766
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=93.55 E-value=0.45 Score=48.95 Aligned_cols=89 Identities=13% Similarity=0.059 Sum_probs=72.0
Q ss_pred ChhhHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCC
Q 037972 141 VAVNFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYV 220 (480)
Q Consensus 141 TP~~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~ 220 (480)
..+..|..+...+++...+...|..+...+.....+-....-.+|||||++|++.-+- |.. ...+..++++
T Consensus 124 ~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~------prt---l~eI~~~~~v 194 (310)
T PRK00423 124 FALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKV------PRT---LDEIAEVSRV 194 (310)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCC------CcC---HHHHHHHhCC
Confidence 3456677778888888888888999888887766667889999999999999986551 322 5688889999
Q ss_pred CHHHHHHHHHHHHHHHhc
Q 037972 221 DEDSLDSFCTMLDHMCCR 238 (480)
Q Consensus 221 d~edL~~C~~lL~el~~~ 238 (480)
++.+|..|++.|......
T Consensus 195 ~~k~i~~~~~~l~k~L~~ 212 (310)
T PRK00423 195 SRKEIGRCYRFLLRELNL 212 (310)
T ss_pred CHHHHHHHHHHHHHHhCC
Confidence 999999999999987743
No 27
>KOG1674 consensus Cyclin [General function prediction only]
Probab=92.19 E-value=0.3 Score=48.15 Aligned_cols=101 Identities=18% Similarity=0.143 Sum_probs=69.4
Q ss_pred HHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCc---ccc-cchhhhhHHHHhhhhhccCCCcccccccCC
Q 037972 38 RAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNV---EDD-LVLAANCCLIIAWKLRDQSFSFSDFMAGNN 113 (480)
Q Consensus 38 ~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~m---K~~-LQLLAvACLfIAAK~EE~~vPL~dL~v~~s 113 (480)
.+-+++.++....+.+++++.+|..|||||..+.+....+|+- -.. +.-+-++|+.+|+|+.+...=-..++..-+
T Consensus 77 si~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vg 156 (218)
T KOG1674|consen 77 SIRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVG 156 (218)
T ss_pred chHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhC
Confidence 3456778888999999999999999999999874411111110 011 344678999999999876421112211111
Q ss_pred CCCCcHHHHHHHHHHHHHhcCCccccC
Q 037972 114 LPRNYSKHALNMELQILNGLEWRSRAV 140 (480)
Q Consensus 114 K~Y~f~~dIlrMEl~IL~tL~W~L~~p 140 (480)
.+...++..+|...|..++|++...
T Consensus 157 --gl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 157 --GLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred --CCChHhhhhhhHHHHhhCCeEEEec
Confidence 1445588899999999999999985
No 28
>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=85.58 E-value=7.2 Score=33.49 Aligned_cols=85 Identities=9% Similarity=-0.030 Sum_probs=55.1
Q ss_pred hHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhcc--CCC
Q 037972 144 NFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDST--YVD 221 (480)
Q Consensus 144 ~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~t--g~d 221 (480)
+|+......++........|..+++..+.........+..||+||+++|.+.-+. ..+....+..+. .++
T Consensus 36 ~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~--------~~~~~~~~~~~~~~~~~ 107 (127)
T PF00134_consen 36 DWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEED--------NPPSISDLIRISDNTFT 107 (127)
T ss_dssp HHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTS--------S--HHHHHHHHTTTSSH
T ss_pred HHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcc--------ccchHHHHHHHHcCCCC
Confidence 4555555566666666667888888877777788899999999999999985551 112234444443 467
Q ss_pred HHHHHHHHHHHHHHH
Q 037972 222 EDSLDSFCTMLDHMC 236 (480)
Q Consensus 222 ~edL~~C~~lL~el~ 236 (480)
.++|..--..+...+
T Consensus 108 ~~~i~~~E~~iL~~L 122 (127)
T PF00134_consen 108 KKDILEMEREILSAL 122 (127)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHC
Confidence 777776666555543
No 29
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=83.40 E-value=8.4 Score=39.73 Aligned_cols=103 Identities=15% Similarity=0.105 Sum_probs=72.9
Q ss_pred HHHHHHhcCCccccC--------ChhhHHHHHHHHhcccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhc
Q 037972 126 ELQILNGLEWRSRAV--------VAVNFVPFFLNISSAKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLL 197 (480)
Q Consensus 126 El~IL~tL~W~L~~p--------TP~~FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~ 197 (480)
++.-|...+...... +.+..|..+...+++...+...|..+...++..--.-.=....++|||+++|+...+
T Consensus 76 ~~~rlr~~~~~~~v~~~~ernl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~ 155 (285)
T COG1405 76 KMYRLRKWQIRIRVSSAKERNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRING 155 (285)
T ss_pred HHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcC
Confidence 555566555555555 556677777778888777777666666555544444456688899999999988666
Q ss_pred ccCCCCCCCcccchhhhhhccCCCHHHHHHHHHHHHHHHh
Q 037972 198 RDENGERPDAKRCRESLIDSTYVDEDSLDSFCTMLDHMCC 237 (480)
Q Consensus 198 ~~e~~~~p~~~~~~~~L~~~tg~d~edL~~C~~lL~el~~ 237 (480)
. |. .+..+...++++..+|..|+.+|.....
T Consensus 156 ~------pr---tl~eIa~a~~V~~kei~rtyr~~~~~L~ 186 (285)
T COG1405 156 V------PR---TLDEIAKALGVSKKEIGRTYRLLVRELK 186 (285)
T ss_pred C------Cc---cHHHHHHHHCCCHHHHHHHHHHHHHhcC
Confidence 1 22 2667888899999999999998877664
No 30
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=78.86 E-value=3.7 Score=43.09 Aligned_cols=88 Identities=11% Similarity=0.032 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCc-ccc---c-c
Q 037972 36 RPRAIKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSF-SDF---M-A 110 (480)
Q Consensus 36 R~~LVDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL-~dL---~-v 110 (480)
-.-|+++|..+....+........|-+++-..+...-+-..+ .+-||++||+||+|+-...+|. .+- . .
T Consensus 152 y~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~------p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~ 225 (323)
T KOG0834|consen 152 YKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYS------PHSIAVACIHLAAKLLGVELPSDTDKRWWREF 225 (323)
T ss_pred hHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeec------CcEEEeehhhHHHHHcCCCCCCCcccchhhhh
Confidence 456778888777777776667778888887777655443333 6899999999999999887776 222 1 2
Q ss_pred cCCCCCCcHHHHHHHHHHHHHh
Q 037972 111 GNNLPRNYSKHALNMELQILNG 132 (480)
Q Consensus 111 ~~sK~Y~f~~dIlrMEl~IL~t 132 (480)
+.+ ++.+.|..+.-.+|..
T Consensus 226 d~~---vt~e~l~~i~~~~l~~ 244 (323)
T KOG0834|consen 226 DET---VTNELLDDICHEFLDL 244 (323)
T ss_pred ccc---CCHHHHHHHHHHHHHH
Confidence 222 4444666655555543
No 31
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=69.51 E-value=25 Score=36.65 Aligned_cols=83 Identities=13% Similarity=0.125 Sum_probs=57.1
Q ss_pred HHHHHHHHhcccchHHHHHHHHHHHHhcccccc-CccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCCCHH
Q 037972 145 FVPFFLNISSAKGIKRRHVNRIIIEAQADLSFA-SCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYVDED 223 (480)
Q Consensus 145 FL~~fL~~L~~~~~l~~~A~~lL~lsLlD~~fl-~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~d~e 223 (480)
=+..+...+++...+..+|.++...+- |...+ .-.--.||||||+.|++..+. |-. .+.+..+.++++.
T Consensus 110 ~I~~m~d~~~Lp~~I~d~A~~ifk~v~-~~k~lrGks~eai~AAclyiACRq~~~------pRT---~kEI~~~anv~kK 179 (308)
T KOG1597|consen 110 EITAMCDRLSLPATIKDRANEIFKLVE-DSKLLRGKSVEALAAACLYIACRQEDV------PRT---FKEISAVANVSKK 179 (308)
T ss_pred HHHHHHHHhCCchHHHHHHHHHHHHHH-HhhhhcCccHHHHHHHHHHHHHHhcCC------Cch---HHHHHHHHcCCHH
Confidence 334445566666666666776665544 44444 344567999999999986651 322 5577778899999
Q ss_pred HHHHHHHHHHHHHh
Q 037972 224 SLDSFCTMLDHMCC 237 (480)
Q Consensus 224 dL~~C~~lL~el~~ 237 (480)
+|-.|+++|.+-..
T Consensus 180 EIgr~~K~i~~~l~ 193 (308)
T KOG1597|consen 180 EIGRCVKLIGEALE 193 (308)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999988654
No 32
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=60.71 E-value=19 Score=37.51 Aligned_cols=78 Identities=8% Similarity=-0.009 Sum_probs=49.3
Q ss_pred HHhc--ccchHHHHHHHHHHHHhccccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchhhhhhccCC----CHHH
Q 037972 151 NISS--AKGIKRRHVNRIIIEAQADLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRESLIDSTYV----DEDS 224 (480)
Q Consensus 151 ~~L~--~~~~l~~~A~~lL~lsLlD~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~~L~~~tg~----d~ed 224 (480)
..++ +...+...|..|+........+..|.|-.||++||++|.+.=+. +.. ...+.....- ..++
T Consensus 68 ~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~------~~s---i~~fv~~~~~~~~~~~~~ 138 (305)
T TIGR00569 68 SAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEF------NVS---IDQFVGNLKETPLKALEQ 138 (305)
T ss_pred HHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcccc------CcC---HHHHHhhccCCchhhHHH
Confidence 3444 44455556777777777777888999999999999999973331 221 2233322222 2367
Q ss_pred HHHHHHHHHHHHh
Q 037972 225 LDSFCTMLDHMCC 237 (480)
Q Consensus 225 L~~C~~lL~el~~ 237 (480)
|.++=..|.+.+.
T Consensus 139 Il~~E~~lL~~L~ 151 (305)
T TIGR00569 139 VLEYELLLIQQLN 151 (305)
T ss_pred HHHHHHHHHHHCC
Confidence 7777777766553
No 33
>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=56.05 E-value=1.1e+02 Score=28.05 Aligned_cols=89 Identities=10% Similarity=0.044 Sum_probs=52.1
Q ss_pred ccCChhhHHHHHHHHhcccchHHHHHHHHHHHHhc-----cccccCccHHHHHHHHHHHHHHHhcccCCCCCCCcccchh
Q 037972 138 RAVVAVNFVPFFLNISSAKGIKRRHVNRIIIEAQA-----DLSFASCKPSVIAAAALVHVCKLLLRDENGERPDAKRCRE 212 (480)
Q Consensus 138 ~~pTP~~FL~~fL~~L~~~~~l~~~A~~lL~lsLl-----D~~fl~Y~PSvIAAAALllAl~~L~~~e~~~~p~~~~~~~ 212 (480)
-..+..+|+..+++.........-.|..|++.... ....-....--+-++||.+|.+.+++ ...+..
T Consensus 50 p~i~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D--------~~~~n~ 121 (149)
T PF08613_consen 50 PSISIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDD--------NTYSNK 121 (149)
T ss_dssp -SS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-S--------S---HH
T ss_pred CCCcHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhccc--------ccccHH
Confidence 33456678888887777766555555555554433 22233455667888889999998882 122367
Q ss_pred hhhhccCCCHHHHHHHHHHHHH
Q 037972 213 SLIDSTYVDEDSLDSFCTMLDH 234 (480)
Q Consensus 213 ~L~~~tg~d~edL~~C~~lL~e 234 (480)
.+..+.|++..++..--..+..
T Consensus 122 ~~a~v~gis~~eln~lE~~fL~ 143 (149)
T PF08613_consen 122 SWAKVGGISLKELNELEREFLK 143 (149)
T ss_dssp HHHHHHTS-HHHHHHHHHHHHH
T ss_pred HHHhhcCCCHHHHHHHHHHHHH
Confidence 7888999999988764444443
No 34
>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=50.26 E-value=11 Score=31.57 Aligned_cols=56 Identities=11% Similarity=0.087 Sum_probs=39.4
Q ss_pred HHHHHHHhhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhcc
Q 037972 40 IKVILQNSKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQ 101 (480)
Q Consensus 40 VDWMieV~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~ 101 (480)
.+||.......+.+.++-.+|-.+++-.+....+-..+ --+||++|+++|.++-..
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~------PS~iAaAai~lA~~~~~~ 59 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYP------PSVIAAAAILLARKILGK 59 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-------HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCC------HHHHHHHHHHHHHHHhCc
Confidence 45566554444455668888888888777665554433 479999999999999764
No 35
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=46.95 E-value=16 Score=38.33 Aligned_cols=97 Identities=12% Similarity=0.122 Sum_probs=58.5
Q ss_pred hhhCCCCCchHHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccC-CCcccc-cccCCCCCCcHHHHHH
Q 037972 47 SKSNKRNAYIPYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQS-FSFSDF-MAGNNLPRNYSKHALN 124 (480)
Q Consensus 47 ~~~lkLs~eTl~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~-vPL~dL-~v~~sK~Y~f~~dIlr 124 (480)
+....+..+.......|++|-+-....... | .+...+.....++|+|+-... +---|. ++... ....++.+
T Consensus 201 ~~~~qlta~~aiitL~~~erl~~~~e~~~~-p---~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd---~tveDmNe 273 (343)
T KOG1675|consen 201 FSWAQLTAECDIITLVYAERLLWLAERDPC-P---RNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKD---QSVDDMNA 273 (343)
T ss_pred hhhhhhhhccchHHHHhhHhhhhHhhcCCC-c---chhhhhhhhhheehhhhhhhhhcccHHHHHHHhh---ccHhhHHH
Confidence 334445555555667788888755444311 1 123344555689999987665 211122 33322 22348999
Q ss_pred HHHHHHHhcCCccccCChhhHHHHHHH
Q 037972 125 MELQILNGLEWRSRAVVAVNFVPFFLN 151 (480)
Q Consensus 125 MEl~IL~tL~W~L~~pTP~~FL~~fL~ 151 (480)
||+.+|..|+|+++.|... |-.+|..
T Consensus 274 ~ERqfLelLqfNinvp~sv-YAKyYfd 299 (343)
T KOG1675|consen 274 LERQFLELLQFNINVPSSE-YAKYYFD 299 (343)
T ss_pred HHHHHHHHHhhccCccHHH-HHHHHHH
Confidence 9999999999999988653 4444443
No 36
>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=45.71 E-value=1.3e+02 Score=26.43 Aligned_cols=69 Identities=17% Similarity=0.169 Sum_probs=44.8
Q ss_pred HHHHHHHHHHhccccccCccHHHHHHH-HHHHHHHHhcccCCCCCCCccc--chhhhhhccCCCHHHHHHHHHHHHHH
Q 037972 161 RHVNRIIIEAQADLSFASCKPSVIAAA-ALVHVCKLLLRDENGERPDAKR--CRESLIDSTYVDEDSLDSFCTMLDHM 235 (480)
Q Consensus 161 ~~A~~lL~lsLlD~~fl~Y~PSvIAAA-ALllAl~~L~~~e~~~~p~~~~--~~~~L~~~tg~d~edL~~C~~lL~el 235 (480)
.....++..++.|...-..+||.||+| |-++.....- + |.... ...+|...+|++-.-+...++.+..-
T Consensus 27 ~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~----P--~~~~~~~~~~~LA~~~G~~~a~L~AA~E~v~Tt 98 (106)
T PF09080_consen 27 SEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAA----P--PDTHSGGVVPQLAEALGVSAATLQAAAESVATT 98 (106)
T ss_dssp HHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------------HHHHHHHHHT--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccC----C--CccccccchHHHHHHhCccHHHHHHHHHHHHHH
Confidence 346678888999999999999999998 7666654333 1 11100 04478889999998888877766543
No 37
>PF03261 CDK5_activator: Cyclin-dependent kinase 5 activator protein; InterPro: IPR004944 These proteins are neuron specific activators of cyclin-dependent kinase 5 (CDK5) []. They form a heterodimer with the catalytic subunit (CDK5) [].; GO: 0016534 cyclin-dependent protein kinase 5 activator activity, 0016533 cyclin-dependent protein kinase 5 holoenzyme complex; PDB: 3O0G_D 1H4L_E 1UNH_D 1UNL_E 1UNG_E.
Probab=42.64 E-value=30 Score=36.74 Aligned_cols=89 Identities=9% Similarity=0.134 Sum_probs=46.8
Q ss_pred HHHHHHHHHHhhhC---CCCCchHHHHHHHHHHHhc-----CCCCCCccCCcccccchhhhhHHHHhhhhhccC--CCcc
Q 037972 37 PRAIKVILQNSKSN---KRNAYIPYLALNYFDRFIS-----KHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQS--FSFS 106 (480)
Q Consensus 37 ~~LVDWMieV~~~l---kLs~eTl~LAVnyLDRFLS-----~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~--vPL~ 106 (480)
..+|-||..|=..+ |.....|..-.|++=-||. ...+.. ..+||-+-.+||+||--|-... .||.
T Consensus 222 ~~~vmWlR~vDRsLLlqgwqd~~fi~pan~vf~yml~r~~~~~~~~~-----~~~l~~~~l~cly~sysy~gneisyplk 296 (346)
T PF03261_consen 222 GDVVMWLRAVDRSLLLQGWQDQAFINPANVVFVYMLCRDVVSGEVSS-----ERELQAIVLTCLYLSYSYMGNEISYPLK 296 (346)
T ss_dssp HHHHHHHHHHHHHHHHTTS-SS-S--HHHHHHHHHHHHHHS-TT--S-----HHHHHHHHHHHHHHHHHHH-SSS---SG
T ss_pred cceEeehhhcCHHHHhccccccceeccchhhhhHHHHHHhhccccCC-----HHHHHHHHHHHHHHHhhhcCcccccccC
Confidence 45778888777643 4444444444333333332 222321 4569999999999999887554 5898
Q ss_pred cccccCCCCCCcHH----HHHHHHHHHHH
Q 037972 107 DFMAGNNLPRNYSK----HALNMELQILN 131 (480)
Q Consensus 107 dL~v~~sK~Y~f~~----dIlrMEl~IL~ 131 (480)
-|.++.++ ..|-. -|.+|-..+|+
T Consensus 297 pflv~~~~-~~fw~~~~~~~~~~s~~ml~ 324 (346)
T PF03261_consen 297 PFLVEESK-EAFWDRCLSIINRLSAKMLR 324 (346)
T ss_dssp GG--SS-H-HHHHHHHHHHHHHHHHHHHH
T ss_pred CeeecccH-HHHHHHHHHHHHHhhHHHhh
Confidence 88777765 44433 33445555543
No 38
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=24.70 E-value=1.2e+02 Score=36.67 Aligned_cols=40 Identities=35% Similarity=0.499 Sum_probs=24.9
Q ss_pred cccCCCCCCCChhhhhhhhhcccCCCCCCccccccCCCCCCCCCCCCCCCCCCChHHHHh
Q 037972 300 AGESSFSFPRPPQLAQRSHAAESSSSSPWSHQVAPRSHAGGASSSSPFRPGEQPTEEIAE 359 (480)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 (480)
+..+|++|+|+| .|+..+. -|.++.-||+||--+...||+
T Consensus 111 ~a~~S~sf~r~p-----~~~~~~~---------------rgs~~n~pF~pg~i~~~~~~~ 150 (1248)
T KOG0947|consen 111 SASTSLSFFRFP-----GPALNSL---------------RGSPPNFPFTPGGIEEPNIAG 150 (1248)
T ss_pred ccccceeeecCC-----CCccccc---------------cCCCCCCCcCCCCCCCccccc
Confidence 346788899988 2222221 244566799999766555554
No 39
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=24.67 E-value=1e+02 Score=32.96 Aligned_cols=43 Identities=14% Similarity=0.194 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHhcCCCCCCccCCcccccchhhhhHHHHhhhhhccCCCc
Q 037972 57 PYLALNYFDRFISKHTLPEVLGNVEDDLVLAANCCLIIAWKLRDQSFSF 105 (480)
Q Consensus 57 l~LAVnyLDRFLS~~~i~~dkp~mK~~LQLLAvACLfIAAK~EE~~vPL 105 (480)
+..|-||+.--|-..-+.. ..-.+||++|.+|||...|+.+|.
T Consensus 161 ~Q~~wNfmNDslRT~v~vr------y~pe~iACaciyLaAR~~eIpLp~ 203 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVR------YSPESIACACIYLAARNLEIPLPF 203 (367)
T ss_pred HHHHHHhhhhccccceeee------cCHHHHHHHHHHHHHhhhcCCCCC
Confidence 4455555555443332323 335799999999999999976554
No 40
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=22.01 E-value=2.3e+02 Score=30.14 Aligned_cols=43 Identities=12% Similarity=0.009 Sum_probs=32.8
Q ss_pred hcccchHHHHHHHHHHHHhccccccCcc---HHHHHHHHHHHHHHH
Q 037972 153 SSAKGIKRRHVNRIIIEAQADLSFASCK---PSVIAAAALVHVCKL 195 (480)
Q Consensus 153 L~~~~~l~~~A~~lL~lsLlD~~fl~Y~---PSvIAAAALllAl~~ 195 (480)
.++.....-.|..|++..+..+.+-..+ =-.||+|||.+|.+.
T Consensus 92 ~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKm 137 (335)
T KOG0656|consen 92 YNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKM 137 (335)
T ss_pred hCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhh
Confidence 3444444455788888888888888888 678999999999883
Done!