Query 029598
Match_columns 191
No_of_seqs 176 out of 1483
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 15:29:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029598.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029598hhsearch_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 3.7E-31 8.1E-36 220.0 13.4 149 1-154 115-268 (335)
2 KOG0655 G1/S-specific cyclin E 100.0 4E-28 8.6E-33 198.4 13.7 154 4-165 183-340 (408)
3 KOG0653 Cyclin B and related k 99.9 6.7E-23 1.5E-27 176.6 10.8 148 4-162 195-347 (391)
4 COG5024 Cyclin [Cell division 99.9 2.4E-22 5.3E-27 172.8 9.0 151 4-166 250-405 (440)
5 KOG0654 G2/Mitotic-specific cy 99.8 5.5E-21 1.2E-25 160.6 6.5 164 5-185 175-341 (359)
6 TIGR00569 ccl1 cyclin ccl1. Un 99.8 2E-19 4.3E-24 149.8 14.5 124 6-131 97-220 (305)
7 KOG0835 Cyclin L [General func 99.8 1E-17 2.2E-22 137.4 12.9 151 6-162 62-231 (367)
8 KOG0834 CDK9 kinase-activating 99.7 1.4E-16 3E-21 133.0 10.5 158 5-166 77-251 (323)
9 KOG0794 CDK8 kinase-activating 99.7 3.9E-16 8.5E-21 122.7 9.8 151 5-162 79-240 (264)
10 PF02984 Cyclin_C: Cyclin, C-t 99.6 3.5E-15 7.7E-20 107.2 6.5 109 68-189 1-112 (118)
11 COG5333 CCL1 Cdk activating ki 99.5 3.4E-13 7.3E-18 110.6 8.9 120 4-130 82-205 (297)
12 PF00134 Cyclin_N: Cyclin, N-t 99.4 3E-13 6.6E-18 98.6 5.5 60 4-66 68-127 (127)
13 PRK00423 tfb transcription ini 99.3 9E-11 1.9E-15 98.6 16.1 143 5-160 160-304 (310)
14 KOG2496 Cdk activating kinase 99.2 5.7E-11 1.2E-15 97.1 8.5 118 8-127 99-218 (325)
15 KOG1597 Transcription initiati 98.6 1.9E-06 4.2E-11 70.6 13.2 147 5-165 142-293 (308)
16 COG1405 SUA7 Transcription ini 98.6 3E-06 6.5E-11 70.3 14.6 141 6-160 136-279 (285)
17 smart00385 CYCLIN domain prese 98.4 4E-07 8.6E-12 60.3 5.1 49 6-59 35-83 (83)
18 cd00043 CYCLIN Cyclin box fold 98.4 5.4E-07 1.2E-11 60.3 5.0 49 5-58 40-88 (88)
19 smart00385 CYCLIN domain prese 98.3 4.8E-06 1.1E-10 55.0 7.5 79 72-157 1-82 (83)
20 cd00043 CYCLIN Cyclin box fold 98.2 1.3E-05 2.9E-10 53.4 8.8 83 67-156 2-87 (88)
21 PF08613 Cyclin: Cyclin; Inte 97.2 0.00089 1.9E-08 50.4 5.7 55 6-65 95-149 (149)
22 KOG4164 Cyclin ik3-1/CABLES [C 96.2 0.0038 8.3E-08 53.5 2.8 62 6-68 421-482 (497)
23 KOG1598 Transcription initiati 95.3 0.035 7.7E-07 49.4 5.4 116 5-130 104-222 (521)
24 PF00382 TFIIB: Transcription 95.1 0.15 3.2E-06 33.2 6.7 50 75-131 2-51 (71)
25 PRK00423 tfb transcription ini 92.8 1.4 3.1E-05 37.1 10.0 85 70-161 125-211 (310)
26 KOG1675 Predicted cyclin [Gene 87.3 0.56 1.2E-05 39.3 2.9 68 8-80 233-300 (343)
27 PF09080 K-cyclin_vir_C: K cyc 79.6 17 0.00037 24.9 10.1 70 94-163 25-102 (106)
28 KOG1674 Cyclin [General functi 79.1 3.1 6.7E-05 33.3 4.0 55 9-68 127-181 (218)
29 PF00382 TFIIB: Transcription 78.3 6.7 0.00015 25.1 4.8 32 5-37 32-63 (71)
30 COG1405 SUA7 Transcription ini 75.4 45 0.00099 27.9 10.0 99 54-160 76-185 (285)
31 TIGR00569 ccl1 cyclin ccl1. Un 66.8 19 0.00041 30.4 6.0 37 93-129 77-113 (305)
32 PF00134 Cyclin_N: Cyclin, N-t 66.6 23 0.00051 24.8 5.8 38 94-131 51-88 (127)
33 KOG1597 Transcription initiati 62.1 21 0.00046 29.9 5.3 49 116-164 146-196 (308)
34 KOG0835 Cyclin L [General func 55.9 28 0.00061 29.7 5.1 40 9-53 182-221 (367)
35 KOG0834 CDK9 kinase-activating 46.9 37 0.0008 29.0 4.5 51 72-129 44-94 (323)
36 PF02984 Cyclin_C: Cyclin, C-t 46.3 47 0.001 22.7 4.5 47 9-60 42-88 (118)
37 KOG0794 CDK8 kinase-activating 26.1 1.1E+02 0.0025 24.9 4.0 37 93-129 60-96 (264)
38 PF11357 Spy1: Cell cycle regu 24.4 1.2E+02 0.0025 22.4 3.5 53 14-67 56-109 (131)
39 PF08373 RAP: RAP domain; Int 23.1 99 0.0022 18.5 2.6 28 49-76 18-45 (58)
40 PF01466 Skp1: Skp1 family, di 22.1 1.6E+02 0.0035 19.1 3.6 41 10-54 30-70 (78)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.97 E-value=3.7e-31 Score=219.98 Aligned_cols=149 Identities=44% Similarity=0.641 Sum_probs=130.0
Q ss_pred CCCCCCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHH
Q 029598 1 MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISK 80 (191)
Q Consensus 1 ~~~~~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~ 80 (191)
+|++|+|-+||+|++||+||||+||+.+|.+.|+++.++ ++.|.+++|.+||+.||.+|+|+++.+||++|+++|+..
T Consensus 115 l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~--~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~k 192 (335)
T KOG0656|consen 115 LPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYT--DNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSK 192 (335)
T ss_pred cCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccc--cccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHH
Confidence 689999999999999999999999999999999999988 899999999999999999999999999999999999999
Q ss_pred hcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCCchh-----hhHHhhcCCHhhHHHHHH
Q 029598 81 ISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQN-----LGCFHKRLNKDMVRRCYN 154 (191)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~~~~-----~~~~~~~~~~~~l~~C~~ 154 (191)
++..+. ....++.++..+++.+..|..|+.|+||+||+|++..+...+.+.+. ......+++++.++.|++
T Consensus 193 i~~~~~---~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 193 ISQKDH---NKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred cCcccc---hHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 987642 34568889999999999999999999999999999888665533321 122446677888888887
No 2
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=99.96 E-value=4e-28 Score=198.41 Aligned_cols=154 Identities=19% Similarity=0.248 Sum_probs=133.9
Q ss_pred CCCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhcC
Q 029598 4 GKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISC 83 (191)
Q Consensus 4 ~~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~ 83 (191)
..+.+|||+|+||||||||+||+++|++.+|.++. ++.++.++|++||..||++|+|+|++.|...||..|+.....
T Consensus 183 v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvT---DgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~ 259 (408)
T KOG0655|consen 183 VSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVT---DGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDAL 259 (408)
T ss_pred hhhhhHHHhhHHHHHHHHHHhhccCccccceeeec---cCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhc
Confidence 45789999999999999999999999999999988 899999999999999999999999999999999999998766
Q ss_pred CCCCC----CCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCCchhhhHHhhcCCHhhHHHHHHHHHHH
Q 029598 84 FNPQR----DGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMVRRCYNLIRKN 159 (191)
Q Consensus 84 ~~~~~----~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~~~~~~~~~~~~~~~~l~~C~~~m~~~ 159 (191)
.+.+. ...+..+-+.++++..++.+...+.|+.+++||||++.-.. ..+..-.+|+.++.|.+|++||..+
T Consensus 260 n~~~k~l~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s-----~e~v~kaSG~~w~~ie~cv~wm~Pf 334 (408)
T KOG0655|consen 260 NDAPKVLLPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTS-----IEVVKKASGLEWDSIEECVDWMVPF 334 (408)
T ss_pred CCCCceeccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhH-----HHHHHHcccccHHHHHHHHHHHHHH
Confidence 55332 23344555677888889999999999999999999998743 2344456999999999999999999
Q ss_pred Hhhhcc
Q 029598 160 RSQLLH 165 (191)
Q Consensus 160 ~~~~~~ 165 (191)
.+....
T Consensus 335 ~rvi~~ 340 (408)
T KOG0655|consen 335 VRVIKS 340 (408)
T ss_pred HHHHhh
Confidence 988753
No 3
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.89 E-value=6.7e-23 Score=176.63 Aligned_cols=148 Identities=22% Similarity=0.253 Sum_probs=122.0
Q ss_pred CCCchHHHHHHHHHH-HHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhc
Q 029598 4 GKGWQWHLLSVACLA-VAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKIS 82 (191)
Q Consensus 4 ~~~~~lqLva~tcL~-IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~ 82 (191)
.++.++||||++||| ||+|+||..+|.+.|+..++ ++.|++++|++||+.||.+|+|+++.|||+.||++|++...
T Consensus 195 v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~is---d~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~ 271 (391)
T KOG0653|consen 195 VPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLIT---DGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAAD 271 (391)
T ss_pred ccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeee---CCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhh
Confidence 567899999999977 99999999999999999988 79999999999999999999999999999999999999987
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCCchhhh----HHhhcCCHhhHHHHHHHHHH
Q 029598 83 CFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLG----CFHKRLNKDMVRRCYNLIRK 158 (191)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~~~~~~----~~~~~~~~~~l~~C~~~m~~ 158 (191)
.+. ........++..++.|+.++.++||.+|+|+++++.+.. ..+..| ..++|+...++.+|.+.+..
T Consensus 272 ~d~-------~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~-~~~~~w~~~~~~~sg~~~~~~~~~~~~~~~ 343 (391)
T KOG0653|consen 272 YDI-------KTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRML-SKGDVWSPTLEHYSGYSESYLFECARSLSA 343 (391)
T ss_pred cch-------hHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHh-ccCCccCCCCeeccCCCcHHHHHHHHHHHH
Confidence 432 122223344455777999999999999999999996543 222223 36788888899999999988
Q ss_pred HHhh
Q 029598 159 NRSQ 162 (191)
Q Consensus 159 ~~~~ 162 (191)
....
T Consensus 344 ~~~~ 347 (391)
T KOG0653|consen 344 LSLS 347 (391)
T ss_pred HHHH
Confidence 5533
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.87 E-value=2.4e-22 Score=172.85 Aligned_cols=151 Identities=15% Similarity=0.161 Sum_probs=121.9
Q ss_pred CCCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhcC
Q 029598 4 GKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISC 83 (191)
Q Consensus 4 ~~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~ 83 (191)
..-.++||||++|||||+|+||.+.|.+.+|..++ ++.|+.++|+++|+.+|..|+|+++.|+|+.|++++.+....
T Consensus 250 v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t---~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dy 326 (440)
T COG5024 250 VSLEKYQLVGISALFIASKYEEVNCPSIKDLVYAT---DGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDY 326 (440)
T ss_pred ccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHH---cccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhccc
Confidence 34568999999999999999999999999999988 799999999999999999999999999999998888876554
Q ss_pred CCCCCCCHHHHHHHHHHHH-HHHhccccccccChHHHHHHHHHHHhcccCCchhhh---HHhhc-CCHhhHHHHHHHHHH
Q 029598 84 FNPQRDGFGSVFSHAAALI-ISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLG---CFHKR-LNKDMVRRCYNLIRK 158 (191)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~-~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~~~~~~---~~~~~-~~~~~l~~C~~~m~~ 158 (191)
.- +.+....++ .-+..++.|++++||.+|+||.+.+. .....+.+. ..++| |+.++++++.+.+.+
T Consensus 327 d~--------~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~-~~~~~~~w~~~l~~ySg~y~~~~l~~~~~~~~~ 397 (440)
T COG5024 327 DI--------FSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSR-KILSQNQWDRTLIHYSGNYTNPDLKPLNESNKE 397 (440)
T ss_pred ch--------hhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHH-hhhccCCCCccccccCCCCCchhHHHHHHHHHH
Confidence 32 222223333 33667899999999999999999994 454444421 24455 999999999999999
Q ss_pred HHhhhccc
Q 029598 159 NRSQLLHI 166 (191)
Q Consensus 159 ~~~~~~~~ 166 (191)
.+.....+
T Consensus 398 ~l~~~~~~ 405 (440)
T COG5024 398 NLQNPSVH 405 (440)
T ss_pred Hhcccchh
Confidence 88666533
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.83 E-value=5.5e-21 Score=160.63 Aligned_cols=164 Identities=20% Similarity=0.184 Sum_probs=130.3
Q ss_pred CCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhcCC
Q 029598 5 KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCF 84 (191)
Q Consensus 5 ~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~ 84 (191)
.+.++|++|.+|++||+|+||...|.+.+|+.+. ++.|+..++.+||..||..|.|.+..||.-.|+..|+......
T Consensus 175 ~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~it---d~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~ 251 (359)
T KOG0654|consen 175 NKQKLQLVGISAMLIASKYEEIKEPRVEEFCYIT---DNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTP 251 (359)
T ss_pred HHHHHHHhCcccceeeccchhhcchHHHHHHhhh---hhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcch
Confidence 4578999999999999999999999999999988 8999999999999999999999999999999999999876542
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCC---chhhhHHhhcCCHhhHHHHHHHHHHHHh
Q 029598 85 NPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVD---EQNLGCFHKRLNKDMVRRCYNLIRKNRS 161 (191)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~---~~~~~~~~~~~~~~~l~~C~~~m~~~~~ 161 (191)
. ..+...+.++...++.++.|+.|.||+|||||+++| +.+.+ |++.....+||+.++++.|+..|. +..
T Consensus 252 ~------~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA-~~~~~~~pW~~~L~~~T~y~~edl~~~v~~L~-~~l 323 (359)
T KOG0654|consen 252 E------LQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLA-RLTLDFHPWNQTLEDYTGYKAEDLKPCVLDLH-LYL 323 (359)
T ss_pred h------HHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHH-HhhccCCCCchhhHHhhcccHHHHHHHHHHHh-ccc
Confidence 1 122222334445588899999999999999999999 55544 334444679999999999999998 432
Q ss_pred hhcccCCCCCCccccccccccccc
Q 029598 162 QLLHINSVQKPEHVAVNDKLKVVF 185 (191)
Q Consensus 162 ~~~~~~~~~~p~~~~~~~~~~~~~ 185 (191)
+ .+.-...++.+||+...
T Consensus 324 ~------~~~~~l~air~ky~~~k 341 (359)
T KOG0654|consen 324 N------ASGTDLPAIREKYKQSK 341 (359)
T ss_pred C------CCCCchHHHHHHhhhhh
Confidence 2 22333445666665443
No 6
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.82 E-value=2e-19 Score=149.83 Aligned_cols=124 Identities=21% Similarity=0.263 Sum_probs=99.0
Q ss_pred CchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhcCCC
Q 029598 6 GWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFN 85 (191)
Q Consensus 6 ~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~ 85 (191)
..+.++||+||||||+|+||.. .++.+++.... ......+++|++||..||+.|+|++.+++|+.++..|+..+...-
T Consensus 97 ~~~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~-~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l 174 (305)
T TIGR00569 97 EYHPKIIMLTCVFLACKVEEFN-VSIDQFVGNLK-ETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRL 174 (305)
T ss_pred hcCHHHHHHHHHHHHHhccccC-cCHHHHHhhcc-CCchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhh
Confidence 4578999999999999999995 56788875432 122346799999999999999999999999999999987553211
Q ss_pred CCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhccc
Q 029598 86 PQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHS 131 (191)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~ 131 (191)
+.......+.+.++.++.++++...++.|+||+||+|||++|.+..
T Consensus 175 ~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~ 220 (305)
T TIGR00569 175 PGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRA 220 (305)
T ss_pred ccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHh
Confidence 1111233577889999999888777999999999999999998754
No 7
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.76 E-value=1e-17 Score=137.38 Aligned_cols=151 Identities=14% Similarity=0.160 Sum_probs=116.9
Q ss_pred CchHHHHHHHHHHHHhhhcCCCCCChhhhhhhcc------------C----CCCccCHHHHHHHHHHHHHHcCceeccCC
Q 029598 6 GWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEP------------S----SRFLFKPKTVHRMELLVMSSLKWRLCTVT 69 (191)
Q Consensus 6 ~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~------------~----~~~~~~~~~i~~mE~~IL~~L~w~l~~pT 69 (191)
+.++..++++|++||+|+||. |-.+.+.+.+.- + ....-.+..+.++|..||.+|+|++++.+
T Consensus 62 ~~~~e~vv~ACv~LASKiEE~-Prr~rdVinVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~h 140 (367)
T KOG0835|consen 62 RHDFEIVVMACVLLASKIEEE-PRRIRDVINVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEH 140 (367)
T ss_pred cccHHHHHHHHHHHHhhhccc-cccHhHHHHHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeec
Confidence 356889999999999999998 455566543210 0 01111246789999999999999999999
Q ss_pred hHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhccc---CCchhhhHHhhcCCH
Q 029598 70 PFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHS---VDEQNLGCFHKRLNK 146 (191)
Q Consensus 70 p~~Fl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~---~~~~~~~~~~~~~~~ 146 (191)
|+.++-.|++.++..+.. .+.+.+|+|+++++...-|..|+|+.||+|||++|.|.+ ++..|-|..+.+.++
T Consensus 141 Phklii~YLqtL~~~~~~-----~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k 215 (367)
T KOG0835|consen 141 PHKLIIMYLQTLQLPPNL-----KLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTK 215 (367)
T ss_pred cHHHHHHHHHHhcCCCch-----hHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcH
Confidence 999999999999876532 478899999999999999999999999999999998876 355566666677777
Q ss_pred hhHHHHHHHHHHHHhh
Q 029598 147 DMVRRCYNLIRKNRSQ 162 (191)
Q Consensus 147 ~~l~~C~~~m~~~~~~ 162 (191)
++|.+-.-.+..++..
T Consensus 216 ~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 216 REIDEICYRLIPLYKR 231 (367)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 7777544444455544
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.69 E-value=1.4e-16 Score=132.96 Aligned_cols=158 Identities=16% Similarity=0.235 Sum_probs=120.5
Q ss_pred CCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhcc---C-------CCCccCHHHHHHHHHHHHHHcCceeccCChHHHH
Q 029598 5 KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEP---S-------SRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFV 74 (191)
Q Consensus 5 ~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~---~-------~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl 74 (191)
+....+.+|++|||+|+|+||. +-++.|.+...- + ..+.=.+++|+..|..||++|+|++++-+|+.||
T Consensus 77 ~~~~~~~vA~sclfLAgKvEet-p~kl~dIi~~s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~l 155 (323)
T KOG0834|consen 77 KKFDPYTVAASCLFLAGKVEET-PRKLEDIIKVSYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYL 155 (323)
T ss_pred ccCcHHHHHHHHHHHHhhcccC-cccHHHHHHHHHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHH
Confidence 4455689999999999999999 466788764431 0 0111226889999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhccc---CCc--hh-hhH-HhhcCCHh
Q 029598 75 HYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHS---VDE--QN-LGC-FHKRLNKD 147 (191)
Q Consensus 75 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~---~~~--~~-~~~-~~~~~~~~ 147 (191)
-.|+..+....... ..+...||.++.+++....+++|+|..||+|||.+|.... .+. +. ||. +...++.+
T Consensus 156 l~~~k~l~~~~~~~---~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e 232 (323)
T KOG0834|consen 156 LKYLKKLKADENLK---QPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNE 232 (323)
T ss_pred HHHHHHhhhhhhcc---ccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHH
Confidence 99999987765321 2467789999999988889999999999999999996532 121 22 332 22348899
Q ss_pred hHHHHHHHHHHHHhhhccc
Q 029598 148 MVRRCYNLIRKNRSQLLHI 166 (191)
Q Consensus 148 ~l~~C~~~m~~~~~~~~~~ 166 (191)
.+.+-...+.+++......
T Consensus 233 ~l~~i~~~~l~~y~~~~~~ 251 (323)
T KOG0834|consen 233 LLDDICHEFLDLYEQTPQR 251 (323)
T ss_pred HHHHHHHHHHHHHhhcccc
Confidence 9999888888888665543
No 9
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.67 E-value=3.9e-16 Score=122.69 Aligned_cols=151 Identities=20% Similarity=0.218 Sum_probs=119.9
Q ss_pred CCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhc----------cCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHH
Q 029598 5 KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIE----------PSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFV 74 (191)
Q Consensus 5 ~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~----------~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl 74 (191)
+.-.+.|+|.||+++|||+||.. -....+++.. .+..+.|...+|.+||..+|+.|+.-|-+-+|++-|
T Consensus 79 k~~~p~lla~TClyLAcKvEE~~-i~~~r~l~~~a~~L~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL 157 (264)
T KOG0794|consen 79 KEIEPRLLAPTCLYLACKVEECP-IVHIRLLVNEAKVLKTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSL 157 (264)
T ss_pred hccCHHHHHHHHHHHHhhhhhcc-hHHHHHHHHHHHHHhhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccH
Confidence 34567899999999999999993 1323333211 123567778899999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCC-chhhhHHhhcCCHhhHHHHH
Q 029598 75 HYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVD-EQNLGCFHKRLNKDMVRRCY 153 (191)
Q Consensus 75 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~-~~~~~~~~~~~~~~~l~~C~ 153 (191)
..+++..+..+. ...+.+|.+++++....-.+-|+|-+||.|||+.|+-.... ....|......|.+.+.+|+
T Consensus 158 ~q~~qd~gi~d~------~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~~~w~~el~vD~ekV~~~v 231 (264)
T KOG0794|consen 158 LQFVQDMGINDQ------KLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIPKAWFAELSVDMEKVKDIV 231 (264)
T ss_pred HHHHHHhcccch------hhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChHHHHHHHHhccHHHHHHHH
Confidence 999998877442 36677899999998888899999999999999999643322 22456666789999999999
Q ss_pred HHHHHHHhh
Q 029598 154 NLIRKNRSQ 162 (191)
Q Consensus 154 ~~m~~~~~~ 162 (191)
+.|.+++..
T Consensus 232 ~~I~~lYe~ 240 (264)
T KOG0794|consen 232 QEILKLYEL 240 (264)
T ss_pred HHHHHHHHH
Confidence 999988854
No 10
>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=99.58 E-value=3.5e-15 Score=107.25 Aligned_cols=109 Identities=25% Similarity=0.228 Sum_probs=77.4
Q ss_pred CChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccC---CchhhhHHhhcC
Q 029598 68 VTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSV---DEQNLGCFHKRL 144 (191)
Q Consensus 68 pTp~~Fl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~---~~~~~~~~~~~~ 144 (191)
|||++||++|++..+.. ..+...+..++..++.++.|++|+||+||+||+++|...+. .+.......+|+
T Consensus 1 PTp~~Fl~~~~~~~~~~-------~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~ 73 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNAD-------QEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPESLEKLTGY 73 (118)
T ss_dssp --HHHHHHHHHTSSSHH-------HHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS
T ss_pred CcHHHHHHHHHHHcCCc-------HHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccCCccchhhcCC
Confidence 89999999996643321 23555666777778999999999999999999999965532 333434467899
Q ss_pred CHhhHHHHHHHHHHHHhhhcccCCCCCCcccccccccccccCCcC
Q 029598 145 NKDMVRRCYNLIRKNRSQLLHINSVQKPEHVAVNDKLKVVFGGSC 189 (191)
Q Consensus 145 ~~~~l~~C~~~m~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~ 189 (191)
+.+++++|++.|.+++.... .....++.+||++...+.+
T Consensus 74 ~~~~l~~c~~~i~~~~~~~~------~~~~~ai~~Kys~~~~~~v 112 (118)
T PF02984_consen 74 DKEDLKECIELIQELLSKAS------NSKLQAIRKKYSSQKFSSV 112 (118)
T ss_dssp -HHHHHHHHHHHHHHHHHCC------GSSCTHHHHHTTSGGGTTG
T ss_pred CHHHHHHHHHHHHHHHHhcC------CccchHHHHHhCccccCCc
Confidence 99999999999999996432 3444567777777666543
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=99.45 E-value=3.4e-13 Score=110.56 Aligned_cols=120 Identities=17% Similarity=0.223 Sum_probs=96.6
Q ss_pred CCCchHHHHHHHHHHHHhhhcCC--CCCChhhhhhh--ccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHH
Q 029598 4 GKGWQWHLLSVACLAVAAKMEET--SVPNLLDLQLI--EPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFIS 79 (191)
Q Consensus 4 ~~~~~lqLva~tcL~IAsK~eE~--~~P~~~~l~~~--~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~ 79 (191)
++.-.++-|+.||+++|+|+||. ++ .+..+..- .+ ..-.-+++.|..+|..||++|+|++.+++|+..+..|+.
T Consensus 82 v~e~~~~~vv~tcv~LA~K~ed~~~~I-~i~~~~~~~~~s-e~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~ 159 (297)
T COG5333 82 VEEISLYSVVTTCVYLACKVEDTPRDI-SIESFEARDLWS-EEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLK 159 (297)
T ss_pred cccccHHHHHHhheeeeeecccccchh-hHHHHHhhcccc-ccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHH
Confidence 44567899999999999999996 21 12222211 00 023446899999999999999999999999999999999
Q ss_pred HhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcc
Q 029598 80 KISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDH 130 (191)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~ 130 (191)
.+..... ....+.+|.++.++.....++.|+|..||+||+..|.+.
T Consensus 160 ~~q~~~~-----~~~~~~aw~~inDa~~t~~~llypphiIA~a~l~ia~~~ 205 (297)
T COG5333 160 DLQEKDK-----YKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEV 205 (297)
T ss_pred HHHhccH-----HHHHHHHHHHHHhhhhceeeeecChHHHHHHHHHHHHHh
Confidence 8866542 357888999999999999999999999999999999764
No 12
>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=99.41 E-value=3e-13 Score=98.58 Aligned_cols=60 Identities=33% Similarity=0.482 Sum_probs=51.5
Q ss_pred CCCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceec
Q 029598 4 GKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLC 66 (191)
Q Consensus 4 ~~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~ 66 (191)
..+.+++++|+|||+||+|+||..+|.+.+++... ++.|++++|.+||+.||++|+|+++
T Consensus 68 ~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~---~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 68 VNRSKLQLIALACLFLASKMEEDNPPSISDLIRIS---DNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHT---TTSSHHHHHHHHHHHHHHHTTT---
T ss_pred cccchhhhhhhhHHHHhhhhhccccchHHHHHHHH---cCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 46788999999999999999999889999998877 6899999999999999999999985
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.33 E-value=9e-11 Score=98.61 Aligned_cols=143 Identities=17% Similarity=0.153 Sum_probs=115.1
Q ss_pred CCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhcCC
Q 029598 5 KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCF 84 (191)
Q Consensus 5 ~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~ 84 (191)
+......++++|+|+|+|.|+. +-++.++..+. ..++++|.+.++.|++.|++++.+.+|.+|+..|...++..
T Consensus 160 rgrs~~~i~AAclYiACR~~~~-prtl~eI~~~~-----~v~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~ 233 (310)
T PRK00423 160 RGRSIEGVVAAALYAACRRCKV-PRTLDEIAEVS-----RVSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLS 233 (310)
T ss_pred cCCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHh-----CCCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCC
Confidence 4456789999999999999988 46778887654 35889999999999999999999999999999999999876
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccC-Cc-hhhhHHhhcCCHhhHHHHHHHHHHHH
Q 029598 85 NPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSV-DE-QNLGCFHKRLNKDMVRRCYNLIRKNR 160 (191)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~-~~-~~~~~~~~~~~~~~l~~C~~~m~~~~ 160 (191)
. .+.+.+.+++..+........-+|..|||||||+|.+..- +. ..-....++++...|+..++.|.+.+
T Consensus 234 ~-------~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 234 G-------EVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred H-------HHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 4 4667777777666545566799999999999999976432 11 11123458999999999999888765
No 14
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair]
Probab=99.21 E-value=5.7e-11 Score=97.12 Aligned_cols=118 Identities=21% Similarity=0.264 Sum_probs=89.5
Q ss_pred hHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhcCCCCC
Q 029598 8 QWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFNPQ 87 (191)
Q Consensus 8 ~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~~~ 87 (191)
+.+.|.+||+|+|+|+||.+ -++.+|+.... .+..-+.+.|+..|..+++.|+|++..-+|++-++-|+..+...-+.
T Consensus 99 ~pk~I~~tc~flA~Kieef~-ISieqFvkn~~-~~~~k~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~ 176 (325)
T KOG2496|consen 99 SPKIIMATCFFLACKIEEFY-ISIEQFVKNMN-GRKWKTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPA 176 (325)
T ss_pred ChHHHHHHHHHHHhhhHhhe-ecHHHHHhhcc-CcccccHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHh
Confidence 45688999999999999996 46788875432 24456889999999999999999999999999999888765433111
Q ss_pred CCCHHHHHHHHH--HHHHHHhccccccccChHHHHHHHHHHH
Q 029598 88 RDGFGSVFSHAA--ALIISTRTVIDFLACPPSTIAAAVVLWA 127 (191)
Q Consensus 88 ~~~~~~~~~~~~--~~~~~~l~~~~f~~~~PS~iAaa~i~~a 127 (191)
..+......+.. .++...++.-.++-|+||+||.|||+.|
T Consensus 177 ~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a 218 (325)
T KOG2496|consen 177 LENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHA 218 (325)
T ss_pred ccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHH
Confidence 111222333333 6777777778899999999999999666
No 15
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.58 E-value=1.9e-06 Score=70.61 Aligned_cols=147 Identities=20% Similarity=0.247 Sum_probs=109.9
Q ss_pred CCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCC--hHHHHHHHHHHhc
Q 029598 5 KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVT--PFDFVHYFISKIS 82 (191)
Q Consensus 5 ~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pT--p~~Fl~~~l~~~~ 82 (191)
+....+-++++|++||+.-++. +..+.+.+.+. + .+++||-+.=..|+..|+=.+...| ..+|+.+|...+.
T Consensus 142 rGks~eai~AAclyiACRq~~~-pRT~kEI~~~a----n-v~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~ 215 (308)
T KOG1597|consen 142 RGKSVEALAAACLYIACRQEDV-PRTFKEISAVA----N-VSKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLG 215 (308)
T ss_pred cCccHHHHHHHHHHHHHHhcCC-CchHHHHHHHH----c-CCHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcC
Confidence 3456788999999999999888 56778888775 4 8999999999999999988877766 8999999999998
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHhcccccc-ccChHHHHHHHHHHHhcccCCchhhh--HHhhcCCHhhHHHHHHHHHHH
Q 029598 83 CFNPQRDGFGSVFSHAAALIISTRTVIDFL-ACPPSTIAAAVVLWATDHSVDEQNLG--CFHKRLNKDMVRRCYNLIRKN 159 (191)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~-~~~PS~iAaa~i~~a~~~~~~~~~~~--~~~~~~~~~~l~~C~~~m~~~ 159 (191)
... .... ++.-+.+...+..+. .=.|=.||||+||++.+......... ...+|+.+--|+.-|+.|...
T Consensus 216 L~~-------~~q~-aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vtgVaE~TIr~sYK~Lyp~ 287 (308)
T KOG1597|consen 216 LPK-------SAQE-AATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVTGVAEVTIRNSYKDLYPH 287 (308)
T ss_pred CCH-------HHHH-HHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHhhhhHHHHHHHHHHHhhc
Confidence 875 2333 333333333333444 46799999999999965333222232 256899999999999999888
Q ss_pred Hhhhcc
Q 029598 160 RSQLLH 165 (191)
Q Consensus 160 ~~~~~~ 165 (191)
...+.|
T Consensus 288 ~~~liP 293 (308)
T KOG1597|consen 288 ADKLIP 293 (308)
T ss_pred hhhhCh
Confidence 777654
No 16
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.57 E-value=3e-06 Score=70.30 Aligned_cols=141 Identities=19% Similarity=0.222 Sum_probs=111.6
Q ss_pred CchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHHhcCCC
Q 029598 6 GWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISKISCFN 85 (191)
Q Consensus 6 ~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~~~~~~ 85 (191)
+...+-++++|+++|++.+.. +-++.++..+. + .++++|.++.+.+.+.|+=.+.+..|.+|+.+|...++..+
T Consensus 136 GRsie~v~AA~iY~acR~~~~-prtl~eIa~a~---~--V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~ 209 (285)
T COG1405 136 GRSIESVAAACIYAACRINGV-PRTLDEIAKAL---G--VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSD 209 (285)
T ss_pred CCcHHHHHHHHHHHHHHHcCC-CccHHHHHHHH---C--CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCH
Confidence 455788999999999999988 45567776654 2 67899999999999999999999999999999999999875
Q ss_pred CCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCCc---hhhhHHhhcCCHhhHHHHHHHHHHHH
Q 029598 86 PQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDE---QNLGCFHKRLNKDMVRRCYNLIRKNR 160 (191)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~~---~~~~~~~~~~~~~~l~~C~~~m~~~~ 160 (191)
.+...+.+++..+........=.|+-+|+||+++|.... +. ++-....+++++.-|+.=++.|.+..
T Consensus 210 -------~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~-~~~~tq~eva~v~~vtevTIrnrykel~~~~ 279 (285)
T COG1405 210 -------EVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLL-GERRTQKEVAKVAGVTEVTIRNRYKELADAL 279 (285)
T ss_pred -------HHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHh-CCchHHHHHHHHhCCeeeHHHHHHHHHHHhh
Confidence 467778888877766667779999999999999996533 22 22234568888888877776555443
No 17
>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=98.44 E-value=4e-07 Score=60.35 Aligned_cols=49 Identities=31% Similarity=0.425 Sum_probs=40.9
Q ss_pred CchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHH
Q 029598 6 GWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMS 59 (191)
Q Consensus 6 ~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~ 59 (191)
+.+++++|++|++||+|++|.. |...++.... +. ++.++|.+||+.||.
T Consensus 35 ~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~---~~-~~~~~i~~~~~~il~ 83 (83)
T smart00385 35 KYSPSLIAAAALYLAAKTEEIP-PWTKELVHYT---GY-FTEEEILRMEKLLLE 83 (83)
T ss_pred cCCHHHHHHHHHHHHHHHhcCC-CCchhHhHhh---CC-CCHHHHHHHHHHHhC
Confidence 3679999999999999999986 5667776655 33 799999999999874
No 18
>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=98.40 E-value=5.4e-07 Score=60.27 Aligned_cols=49 Identities=35% Similarity=0.436 Sum_probs=41.3
Q ss_pred CCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHH
Q 029598 5 KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVM 58 (191)
Q Consensus 5 ~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL 58 (191)
.+.+++++|++|++||+|++|. ++...++.... +.. +.++|.+||..|+
T Consensus 40 ~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~---~~~-~~~~i~~~e~~il 88 (88)
T cd00043 40 LGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVT---GYA-TEEEILRMEKLLL 88 (88)
T ss_pred ccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHh---CCC-CHHHHHHHHHHhC
Confidence 4678999999999999999999 68888887654 222 8999999999874
No 19
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=98.28 E-value=4.8e-06 Score=55.00 Aligned_cols=79 Identities=19% Similarity=0.154 Sum_probs=57.7
Q ss_pred HHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccC--CchhhhHHhhcC-CHhh
Q 029598 72 DFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSV--DEQNLGCFHKRL-NKDM 148 (191)
Q Consensus 72 ~Fl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~--~~~~~~~~~~~~-~~~~ 148 (191)
+|+..+...++... .+...+..++...+.++.+..++|+.||+||+++|.+..- ++.+.+...+++ +.++
T Consensus 1 ~~l~~~~~~~~~~~-------~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~~~~~ 73 (83)
T smart00385 1 DFLRRVCKALNLDP-------ETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGYFTEEE 73 (83)
T ss_pred CHHHHHHHHcCCCH-------HHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCCCCHHH
Confidence 36777777776643 4666777888877777889999999999999999976432 122223345666 9999
Q ss_pred HHHHHHHHH
Q 029598 149 VRRCYNLIR 157 (191)
Q Consensus 149 l~~C~~~m~ 157 (191)
+.+|...|.
T Consensus 74 i~~~~~~il 82 (83)
T smart00385 74 ILRMEKLLL 82 (83)
T ss_pred HHHHHHHHh
Confidence 999887764
No 20
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=98.23 E-value=1.3e-05 Score=53.35 Aligned_cols=83 Identities=18% Similarity=0.129 Sum_probs=62.9
Q ss_pred cCChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCC--chhhhHHhhcC
Q 029598 67 TVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVD--EQNLGCFHKRL 144 (191)
Q Consensus 67 ~pTp~~Fl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~--~~~~~~~~~~~ 144 (191)
.|++.+|+..+...++... .....+..++...+....+..+.|+.||+||+++|.+..-. +.+-....+++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~-------~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP-------ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCCCH-------HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCC
Confidence 5899999999999986653 46666778888777778889999999999999999764322 11222345778
Q ss_pred -CHhhHHHHHHHH
Q 029598 145 -NKDMVRRCYNLI 156 (191)
Q Consensus 145 -~~~~l~~C~~~m 156 (191)
+.+++..+...+
T Consensus 75 ~~~~~i~~~e~~i 87 (88)
T cd00043 75 ATEEEILRMEKLL 87 (88)
T ss_pred CCHHHHHHHHHHh
Confidence 899998887654
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=97.21 E-value=0.00089 Score=50.40 Aligned_cols=55 Identities=16% Similarity=0.163 Sum_probs=40.4
Q ss_pred CchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCcee
Q 029598 6 GWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRL 65 (191)
Q Consensus 6 ~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l 65 (191)
+...+-+-++|+.+|+|+-+........+..++ .++.+++-+||+..|..|+|+|
T Consensus 95 ~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~-----gis~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 95 SSNIHRLFLTALILASKFLDDNTYSNKSWAKVG-----GISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp TTTHHHHHHHHHHHHHHHH-SS---HHHHHHHH-----TS-HHHHHHHHHHHHHHTTT--
T ss_pred cchhHHHHHHHHHHHHhhcccccccHHHHHhhc-----CCCHHHHHHHHHHHHHHCCCcC
Confidence 345667889999999999666556667777664 4799999999999999999986
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=96.17 E-value=0.0038 Score=53.46 Aligned_cols=62 Identities=23% Similarity=0.284 Sum_probs=47.7
Q ss_pred CchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccC
Q 029598 6 GWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTV 68 (191)
Q Consensus 6 ~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~p 68 (191)
|++=.|.|-+||++|+|+.+..--.+..++--. ...+.++++|++..|.-||.+|+|.|+.|
T Consensus 421 K~NRKlcAGAclLlaaKmnD~Kks~vKslIek~-Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 421 KQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKL-EEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred hhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHH-HHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 455679999999999999977433344444211 12678899999999999999999999865
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=95.29 E-value=0.035 Score=49.39 Aligned_cols=116 Identities=21% Similarity=0.160 Sum_probs=83.2
Q ss_pred CCchHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCce---eccCChHHHHHHHHHHh
Q 029598 5 KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWR---LCTVTPFDFVHYFISKI 81 (191)
Q Consensus 5 ~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~---l~~pTp~~Fl~~~l~~~ 81 (191)
|+...+.|-.+||+|++..|-.. -.+.||..+. ..+--++-.+=+.|...|.=. +-..-|.-|+.+|...+
T Consensus 104 kGr~~~~vvasClY~vcR~e~t~-hlliDfS~~L-----qv~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L 177 (521)
T KOG1598|consen 104 KGRRSTEVVAACLYLVCRLEKTD-HLLIDFSSYL-----QVSVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRL 177 (521)
T ss_pred CCcchHHHHHHHHHHHHHhhCCc-eEEEEeccce-----EEehhhhhHHHHHHHHHhccccccccccCcceeeechhHhh
Confidence 45668899999999999998873 2334443222 122333444445555666666 66678888999999888
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcc
Q 029598 82 SCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDH 130 (191)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~ 130 (191)
...+.. ..+...+..++.....|.-...-+||-|..|||+.|+|.
T Consensus 178 ~~g~~~----~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~ 222 (521)
T KOG1598|consen 178 LFGDKT----EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARM 222 (521)
T ss_pred hcCCch----HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHH
Confidence 665432 357777778887777788889999999999999999875
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=95.09 E-value=0.15 Score=33.16 Aligned_cols=50 Identities=20% Similarity=0.125 Sum_probs=33.7
Q ss_pred HHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhccc
Q 029598 75 HYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHS 131 (191)
Q Consensus 75 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~ 131 (191)
..|...++..+ .+.+.+.++............=+|..+|+||+|+|.+..
T Consensus 2 ~r~~~~L~L~~-------~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~ 51 (71)
T PF00382_consen 2 PRICSKLGLPE-------DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLN 51 (71)
T ss_dssp HHHHHHTT--H-------HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHT
T ss_pred hHHHhHcCCCH-------HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHc
Confidence 44555555543 467777777766554555667889999999999998765
No 25
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=92.77 E-value=1.4 Score=37.11 Aligned_cols=85 Identities=15% Similarity=0.128 Sum_probs=58.7
Q ss_pred hHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhcccCCchhhhH--HhhcCCHh
Q 029598 70 PFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGC--FHKRLNKD 147 (191)
Q Consensus 70 p~~Fl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~~~~~~~~~--~~~~~~~~ 147 (191)
.+..|+.+...++... .+...+..+.........+-....-.+||||||+|.|.---.-.+.+ ..++++..
T Consensus 125 a~~~I~~~~~~L~Lp~-------~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~v~~k 197 (310)
T PRK00423 125 ALSELDRIASQLGLPR-------SVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSRVSRK 197 (310)
T ss_pred HHHHHHHHHHHcCCCH-------HHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCCCHH
Confidence 3445555555555543 57777777776655445567888999999999999886422212222 34788999
Q ss_pred hHHHHHHHHHHHHh
Q 029598 148 MVRRCYNLIRKNRS 161 (191)
Q Consensus 148 ~l~~C~~~m~~~~~ 161 (191)
+|..+++.|.+.+.
T Consensus 198 ~i~~~~~~l~k~L~ 211 (310)
T PRK00423 198 EIGRCYRFLLRELN 211 (310)
T ss_pred HHHHHHHHHHHHhC
Confidence 99999999988774
No 26
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=87.30 E-value=0.56 Score=39.32 Aligned_cols=68 Identities=10% Similarity=0.195 Sum_probs=47.9
Q ss_pred hHHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccCChHHHHHHHHHH
Q 029598 8 QWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVTPFDFVHYFISK 80 (191)
Q Consensus 8 ~lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~pTp~~Fl~~~l~~ 80 (191)
....+.....++|+|+=....-...|.+-+. ...+.+|+.+||+.+|+.|+|+++.|.. -|-.+|...
T Consensus 233 ~w~r~~~g~il~sskv~~dqs~wnvdycqIl----Kd~tveDmNe~ERqfLelLqfNinvp~s-vYAKyYfdl 300 (343)
T KOG1675|consen 233 NWSRAVLGEILLSSKVYDDQSVWNVDYCEIL----KDQSVDDMNALERQFLELLQFNINVPSS-EYAKYYFDL 300 (343)
T ss_pred hhhhhhhhhheehhhhhhhhhcccHHHHHHH----hhccHhhHHHHHHHHHHHHhhccCccHH-HHHHHHHHH
Confidence 3444555578889998555322335666555 3457899999999999999999999865 455666554
No 27
>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=79.64 E-value=17 Score=24.86 Aligned_cols=70 Identities=11% Similarity=0.060 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHhccccccccChHHHHHH-HHHHHhcccCCchh-------hhHHhhcCCHhhHHHHHHHHHHHHhhh
Q 029598 94 VFSHAAALIISTRTVIDFLACPPSTIAAA-VVLWATDHSVDEQN-------LGCFHKRLNKDMVRRCYNLIRKNRSQL 163 (191)
Q Consensus 94 ~~~~~~~~~~~~l~~~~f~~~~PS~iAaa-~i~~a~~~~~~~~~-------~~~~~~~~~~~~l~~C~~~m~~~~~~~ 163 (191)
+-.+..+.+...+.+...-..+||.||+| |-++......+.+. -.....|.+..-+..-.+.+..-++++
T Consensus 25 ~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~~~~~~~~~LA~~~G~~~a~L~AA~E~v~Tt~~ef 102 (106)
T PF09080_consen 25 WHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDTHSGGVVPQLAEALGVSAATLQAAAESVATTLREF 102 (106)
T ss_dssp HHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------HHHHHHHHHT--HHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCccccccchHHHHHHhCccHHHHHHHHHHHHHHHHHh
Confidence 33345567778888999999999999998 66665444443321 122346889999998888887766654
No 28
>KOG1674 consensus Cyclin [General function prediction only]
Probab=79.11 E-value=3.1 Score=33.33 Aligned_cols=55 Identities=16% Similarity=0.134 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceeccC
Q 029598 9 WHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTV 68 (191)
Q Consensus 9 lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~p 68 (191)
..-+-++|+.+|+|+++...=...-+.. -+..+.+++-.+|...|..++|++.++
T Consensus 127 vhR~lit~v~vs~kf~~d~~y~n~~~a~-----vggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 127 VHRLLITTVTVSTKFLDDVYYSNAYYAK-----VGGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred HHHHHHHHHHHHHhhccchhhhHHHHHH-----hCCCChHhhhhhhHHHHhhCCeEEEec
Confidence 3446789999999999773222233333 267889999999999999999999985
No 29
>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=78.34 E-value=6.7 Score=25.14 Aligned_cols=32 Identities=19% Similarity=0.357 Sum_probs=23.6
Q ss_pred CCchHHHHHHHHHHHHhhhcCCCCCChhhhhhh
Q 029598 5 KGWQWHLLSVACLAVAAKMEETSVPNLLDLQLI 37 (191)
Q Consensus 5 ~~~~lqLva~tcL~IAsK~eE~~~P~~~~l~~~ 37 (191)
++....-++++|+++|++.+... -+..++...
T Consensus 32 ~Gr~~~~iaAA~iY~acr~~~~~-~t~~eIa~~ 63 (71)
T PF00382_consen 32 KGRSPESIAAACIYLACRLNGVP-RTLKEIAEA 63 (71)
T ss_dssp TTS-HHHHHHHHHHHHHHHTTSS-SSHHHHHHH
T ss_pred ccCCHHHHHHHHHHHHHHHcCCC-cCHHHHHHH
Confidence 34567889999999999998773 456666544
No 30
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=75.36 E-value=45 Score=27.85 Aligned_cols=99 Identities=17% Similarity=0.158 Sum_probs=59.1
Q ss_pred HHHHHHHcCceeccC--------ChHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhcccccc-ccChHHHHHHHH
Q 029598 54 ELLVMSSLKWRLCTV--------TPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFL-ACPPSTIAAAVV 124 (191)
Q Consensus 54 E~~IL~~L~w~l~~p--------Tp~~Fl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~-~~~PS~iAaa~i 124 (191)
++.-|+..+.+.... +....+..+...++... .+...+..+.... .+..++ .=+...++|||+
T Consensus 76 ~~~rlr~~~~~~~v~~~~ernl~~a~~~l~~~~~~l~LP~-------~v~e~A~~iyr~a-~~~~l~rGRsie~v~AA~i 147 (285)
T COG1405 76 KMYRLRKWQIRIRVSSAKERNLITALEELERIASALGLPE-------SVRETAARIYRKA-VDKGLLRGRSIESVAAACI 147 (285)
T ss_pred HHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHhCCCc-------hHHHHHHHHHHHH-hhcCCCcCCcHHHHHHHHH
Confidence 455555555555555 44555666666665543 3455555554443 455555 555889999999
Q ss_pred HHHhcccCCchhhh--HHhhcCCHhhHHHHHHHHHHHH
Q 029598 125 LWATDHSVDEQNLG--CFHKRLNKDMVRRCYNLIRKNR 160 (191)
Q Consensus 125 ~~a~~~~~~~~~~~--~~~~~~~~~~l~~C~~~m~~~~ 160 (191)
+.|.+..--.-.+. ....+++..++..+++.+...+
T Consensus 148 Y~acR~~~~prtl~eIa~a~~V~~kei~rtyr~~~~~L 185 (285)
T COG1405 148 YAACRINGVPRTLDEIAKALGVSKKEIGRTYRLLVREL 185 (285)
T ss_pred HHHHHHcCCCccHHHHHHHHCCCHHHHHHHHHHHHHhc
Confidence 99987642211121 2346688889888888665544
No 31
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=66.81 E-value=19 Score=30.39 Aligned_cols=37 Identities=19% Similarity=0.126 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhc
Q 029598 93 SVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATD 129 (191)
Q Consensus 93 ~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~ 129 (191)
.+...|..|+..-.....+..|.|-.||++|+++|..
T Consensus 77 ~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~K 113 (305)
T TIGR00569 77 SVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACK 113 (305)
T ss_pred hHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHh
Confidence 3556666666655556678899999999999999954
No 32
>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=66.58 E-value=23 Score=24.76 Aligned_cols=38 Identities=16% Similarity=-0.005 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHhccccccccChHHHHHHHHHHHhccc
Q 029598 94 VFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATDHS 131 (191)
Q Consensus 94 ~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~~~ 131 (191)
....+..++...+.........+..+|++|+++|.+..
T Consensus 51 ~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~ 88 (127)
T PF00134_consen 51 TLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKME 88 (127)
T ss_dssp HHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhh
Confidence 34445556555554456778888999999999997643
No 33
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=62.07 E-value=21 Score=29.94 Aligned_cols=49 Identities=20% Similarity=0.222 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHHhccc-CCch-hhhHHhhcCCHhhHHHHHHHHHHHHhhhc
Q 029598 116 PSTIAAAVVLWATDHS-VDEQ-NLGCFHKRLNKDMVRRCYNLIRKNRSQLL 164 (191)
Q Consensus 116 PS~iAaa~i~~a~~~~-~~~~-~~~~~~~~~~~~~l~~C~~~m~~~~~~~~ 164 (191)
--.|+||||+.|.|+- .++. .-......++..++..|++.|.+-+....
T Consensus 146 ~eai~AAclyiACRq~~~pRT~kEI~~~anv~kKEIgr~~K~i~~~l~~s~ 196 (308)
T KOG1597|consen 146 VEALAAACLYIACRQEDVPRTFKEISAVANVSKKEIGRCVKLIGEALETSV 196 (308)
T ss_pred HHHHHHHHHHHHHHhcCCCchHHHHHHHHcCCHHHHHHHHHHHHHHHhccc
Confidence 4578999999998865 2321 11224466999999999999988765443
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=55.86 E-value=28 Score=29.74 Aligned_cols=40 Identities=18% Similarity=0.213 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHH
Q 029598 9 WHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRM 53 (191)
Q Consensus 9 lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~m 53 (191)
-..||++|.++|+..+|+..|.....-.+ +.+++++|-..
T Consensus 182 pe~iACaciyLaAR~~eIpLp~~P~Wf~~-----Fd~~k~eid~i 221 (367)
T KOG0835|consen 182 PESIACACIYLAARNLEIPLPFQPHWFKA-----FDTTKREIDEI 221 (367)
T ss_pred HHHHHHHHHHHHHhhhcCCCCCCccHHHH-----cCCcHHHHHHH
Confidence 45899999999999999877776654432 56677776554
No 35
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=46.92 E-value=37 Score=28.96 Aligned_cols=51 Identities=16% Similarity=0.200 Sum_probs=31.4
Q ss_pred HHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhc
Q 029598 72 DFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATD 129 (191)
Q Consensus 72 ~Fl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~ 129 (191)
.||...-..++....+ ...|..+.......+.|-.|.|-++|++||++|-.
T Consensus 44 ~fI~elg~~L~~~~~t-------i~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgK 94 (323)
T KOG0834|consen 44 KFIQELGVRLKMPQKT-------IATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGK 94 (323)
T ss_pred HHHHHHHHHcCCCccc-------hhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhh
Confidence 4566666666555432 22223332222334678899999999999999943
No 36
>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=46.28 E-value=47 Score=22.67 Aligned_cols=47 Identities=13% Similarity=0.126 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHHHHHHHH
Q 029598 9 WHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSS 60 (191)
Q Consensus 9 lqLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~ 60 (191)
.-++|++|+++|.+.-....+-...+.... .++.+++...=..|.+.
T Consensus 42 PS~iAaAai~lA~~~~~~~~~~~~~l~~~t-----~~~~~~l~~c~~~i~~~ 88 (118)
T PF02984_consen 42 PSVIAAAAILLARKILGKEPPWPESLEKLT-----GYDKEDLKECIELIQEL 88 (118)
T ss_dssp HHHHHHHHHHHHHHHHHSSTCSHHHHHHHH-----TS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCccccCCccchhhc-----CCCHHHHHHHHHHHHHH
Confidence 357999999999999553222223333322 44677766654444433
No 37
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=26.05 E-value=1.1e+02 Score=24.91 Aligned_cols=37 Identities=14% Similarity=0.094 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhccccccccChHHHHHHHHHHHhc
Q 029598 93 SVFSHAAALIISTRTVIDFLACPPSTIAAAVVLWATD 129 (191)
Q Consensus 93 ~~~~~~~~~~~~~l~~~~f~~~~PS~iAaa~i~~a~~ 129 (191)
++...|.-|+-.......+-.+.|-.+|.-|+++|..
T Consensus 60 ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcK 96 (264)
T KOG0794|consen 60 RVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACK 96 (264)
T ss_pred HHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhh
Confidence 3444454444443334568899999999999999954
No 38
>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=24.39 E-value=1.2e+02 Score=22.42 Aligned_cols=53 Identities=17% Similarity=0.267 Sum_probs=33.2
Q ss_pred HHHHHHHhhhcCCC-CCChhhhhhhccCCCCccCHHHHHHHHHHHHHHcCceecc
Q 029598 14 VACLAVAAKMEETS-VPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCT 67 (191)
Q Consensus 14 ~tcL~IAsK~eE~~-~P~~~~l~~~~~~~~~~~~~~~i~~mE~~IL~~L~w~l~~ 67 (191)
..+|++|.-+||.. .|+..-+--+.- .+..-....+.++-..+...++|+.-+
T Consensus 56 FlALYLAndmEED~~~~K~~If~f~~G-~~w~~~~~~F~klr~~~~~~m~~Ra~V 109 (131)
T PF11357_consen 56 FLALYLANDMEEDDEEPKYEIFPFLYG-KNWRSQIPQFHKLRDQFWRRMDWRAWV 109 (131)
T ss_pred HHHHHHhhHHHhccchHHHHHHHHHHC-cchHHHhHHHHHHHHHHHHHcCCceee
Confidence 35899999999984 344332322221 021334566778888888889998654
No 39
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=23.07 E-value=99 Score=18.52 Aligned_cols=28 Identities=4% Similarity=0.287 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHcCceeccCChHHHHHH
Q 029598 49 TVHRMELLVMSSLKWRLCTVTPFDFVHY 76 (191)
Q Consensus 49 ~i~~mE~~IL~~L~w~l~~pTp~~Fl~~ 76 (191)
.-..|-..+|++++|++-...-++|-..
T Consensus 18 g~t~lk~r~L~~~G~~Vi~Ip~~eW~~l 45 (58)
T PF08373_consen 18 GSTKLKHRHLKALGYKVISIPYYEWNKL 45 (58)
T ss_pred hHHHHHHHHHHHCCCEEEEecHHHHHhc
Confidence 4566777999999999988877776554
No 40
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=22.07 E-value=1.6e+02 Score=19.14 Aligned_cols=41 Identities=20% Similarity=0.257 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHhhhcCCCCCChhhhhhhccCCCCccCHHHHHHHH
Q 029598 10 HLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRME 54 (191)
Q Consensus 10 qLva~tcL~IAsK~eE~~~P~~~~l~~~~~~~~~~~~~~~i~~mE 54 (191)
.|+-.+|-.||.++....+--++.+..+. +.++.++-.+++
T Consensus 30 ~L~~~~~~~iA~~i~gks~eeir~~fgi~----~d~t~eee~~i~ 70 (78)
T PF01466_consen 30 GLLDLCCKYIANMIKGKSPEEIRKYFGIE----NDLTPEEEEEIR 70 (78)
T ss_dssp HHHHHHHHHHHHHHTTS-HHHHHHHHT-------TSSHHHHHHHH
T ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHcCCC----CCCCHHHHHHHH
Confidence 47778899999999987544456665554 457776654443
Done!