Query 024567
Match_columns 265
No_of_seqs 195 out of 1306
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 05:37:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024567.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024567hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0794 CDK8 kinase-activating 100.0 3.6E-42 7.9E-47 283.8 12.5 212 53-264 1-228 (264)
2 KOG0834 CDK9 kinase-activating 100.0 1.9E-38 4.1E-43 280.4 12.3 203 61-263 10-234 (323)
3 TIGR00569 ccl1 cyclin ccl1. Un 100.0 6.1E-35 1.3E-39 258.4 18.3 170 83-258 55-234 (305)
4 KOG0835 Cyclin L [General func 100.0 3.1E-34 6.6E-39 247.7 16.6 189 76-264 15-219 (367)
5 COG5333 CCL1 Cdk activating ki 100.0 4.5E-30 9.7E-35 222.0 15.6 167 81-248 42-209 (297)
6 KOG0656 G1/S-specific cyclin D 99.9 8.8E-26 1.9E-30 199.8 15.1 165 75-245 69-240 (335)
7 KOG0653 Cyclin B and related k 99.9 1.1E-25 2.4E-30 207.2 11.2 173 74-255 148-322 (391)
8 KOG0655 G1/S-specific cyclin E 99.9 3.8E-24 8.2E-29 185.4 11.0 159 74-240 135-306 (408)
9 COG5024 Cyclin [Cell division 99.9 5.3E-23 1.1E-27 188.3 11.2 167 80-256 209-376 (440)
10 PRK00423 tfb transcription ini 99.9 8.4E-21 1.8E-25 169.9 18.1 154 85-248 123-276 (310)
11 KOG2496 Cdk activating kinase 99.9 3E-21 6.6E-26 166.0 14.5 158 88-250 60-227 (325)
12 PF00134 Cyclin_N: Cyclin, N-t 99.8 2.2E-19 4.7E-24 140.0 9.2 102 78-186 25-127 (127)
13 KOG0654 G2/Mitotic-specific cy 99.8 9.3E-19 2E-23 156.5 7.1 173 75-256 128-301 (359)
14 COG1405 SUA7 Transcription ini 99.7 5.8E-15 1.3E-19 129.7 17.3 155 84-248 97-251 (285)
15 KOG1597 Transcription initiati 99.6 2.6E-14 5.7E-19 123.0 18.8 152 85-246 105-258 (308)
16 cd00043 CYCLIN Cyclin box fold 99.5 5.4E-14 1.2E-18 101.4 8.4 86 84-178 2-88 (88)
17 smart00385 CYCLIN domain prese 99.4 3.6E-13 7.9E-18 96.0 7.2 83 89-179 1-83 (83)
18 PF00382 TFIIB: Transcription 98.6 1.4E-07 3E-12 66.1 7.1 64 91-154 1-64 (71)
19 KOG1598 Transcription initiati 98.5 3.3E-07 7.2E-12 85.5 7.7 151 88-248 71-226 (521)
20 PF02984 Cyclin_C: Cyclin, C-t 98.4 1.2E-07 2.5E-12 72.4 2.4 59 188-247 1-59 (118)
21 PF08613 Cyclin: Cyclin; Inte 98.4 4E-06 8.7E-11 67.4 10.2 91 86-185 53-149 (149)
22 KOG4164 Cyclin ik3-1/CABLES [C 98.3 9.2E-07 2E-11 79.4 6.0 95 89-188 387-482 (497)
23 cd00043 CYCLIN Cyclin box fold 98.2 5.7E-06 1.2E-10 58.9 6.2 60 187-247 2-61 (88)
24 smart00385 CYCLIN domain prese 98.1 9.2E-06 2E-10 57.2 5.5 56 192-248 1-56 (83)
25 PRK00423 tfb transcription ini 98.0 3.6E-05 7.7E-10 69.2 9.6 89 88-185 220-308 (310)
26 PF00382 TFIIB: Transcription 97.9 3.7E-05 8.1E-10 53.6 5.7 68 194-262 1-70 (71)
27 COG1405 SUA7 Transcription ini 96.7 0.011 2.4E-07 52.3 9.1 68 88-155 195-262 (285)
28 KOG1597 Transcription initiati 95.9 0.034 7.3E-07 48.9 7.3 68 88-155 204-271 (308)
29 KOG1674 Cyclin [General functi 94.3 0.23 4.9E-06 42.4 7.9 92 88-188 79-181 (218)
30 PF01857 RB_B: Retinoblastoma- 93.1 0.31 6.8E-06 38.4 6.0 69 87-155 14-84 (135)
31 PF02984 Cyclin_C: Cyclin, C-t 92.8 0.31 6.8E-06 36.4 5.6 56 88-143 4-59 (118)
32 TIGR00569 ccl1 cyclin ccl1. Un 90.1 0.83 1.8E-05 41.0 6.2 55 192-247 61-117 (305)
33 PF00134 Cyclin_N: Cyclin, N-t 88.4 1.5 3.3E-05 33.2 5.9 57 191-248 35-91 (127)
34 KOG0835 Cyclin L [General func 87.7 0.74 1.6E-05 41.3 4.1 58 89-146 143-202 (367)
35 KOG0834 CDK9 kinase-activating 87.1 0.71 1.5E-05 41.7 3.7 93 89-185 153-249 (323)
36 KOG1675 Predicted cyclin [Gene 85.4 2.3 5E-05 37.9 5.9 91 99-198 205-298 (343)
37 KOG1598 Transcription initiati 79.7 3 6.5E-05 39.8 4.7 53 103-155 185-237 (521)
38 COG5333 CCL1 Cdk activating ki 65.4 7.7 0.00017 34.6 3.6 55 191-246 49-103 (297)
39 KOG0794 CDK8 kinase-activating 63.3 41 0.00088 29.0 7.3 46 101-146 168-213 (264)
40 PF01857 RB_B: Retinoblastoma- 62.0 37 0.00079 26.7 6.5 55 192-247 16-72 (135)
41 KOG0656 G1/S-specific cyclin D 44.5 53 0.0012 29.9 5.4 57 191-248 82-141 (335)
42 PF08613 Cyclin: Cyclin; Inte 39.2 1E+02 0.0022 24.3 5.9 73 190-263 54-134 (149)
43 PF11357 Spy1: Cell cycle regu 36.4 1.8E+02 0.0039 22.7 6.5 87 95-188 22-110 (131)
44 KOG1010 Rb (Retinoblastoma tum 35.7 63 0.0014 33.0 4.8 68 88-155 681-750 (920)
45 KOG2496 Cdk activating kinase 31.4 1.2E+02 0.0025 27.3 5.3 40 207-246 77-116 (325)
46 KOG0654 G2/Mitotic-specific cy 29.4 87 0.0019 28.9 4.4 39 104-142 255-293 (359)
47 PF09241 Herp-Cyclin: Herpesvi 26.6 2.4E+02 0.0053 20.1 6.4 67 190-256 4-73 (106)
No 1
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=100.00 E-value=3.6e-42 Score=283.85 Aligned_cols=212 Identities=53% Similarity=0.909 Sum_probs=189.4
Q ss_pred ccccccccC---cccch-hhH-HHHhhhhhccCHH----HHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCc
Q 024567 53 TTNSFWTKK---TWMWR-NLL-TEKRASLLKITSS----LRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTE 123 (265)
Q Consensus 53 ~~~~~~~~~---~w~~~-~~~-~~~r~~~~~~~~~----~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~ 123 (265)
||+|||+|+ ||+++ .++ .++..+...++.+ .+..+.+.|..+++++++++++++||++||+|||.++|+++
T Consensus 1 MA~NFW~SSh~~qwl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~ 80 (264)
T KOG0794|consen 1 MAGNFWTSSHYQQWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKE 80 (264)
T ss_pred CCcchhhhhhhhhHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 789999995 89994 333 4444455555553 24567899999999999999999999999999999999999
Q ss_pred CCchhhhHHHHHHhhccccch-hhHHHHHHHHHHh-----cCcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHH
Q 024567 124 YDPHLVAPTCLYLASKAEEST-VQARLLVFYIKKI-----YSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQF 197 (265)
Q Consensus 124 ~~~~lva~acLflA~K~ee~~-~~i~~iv~~~~~~-----~~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~ 197 (265)
.++.+++.||+|||||+||++ ..++.++..+..+ ..++.++++.++|.++|+.+|+.|++-|.|.|||+.|.++
T Consensus 81 ~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~ 160 (264)
T KOG0794|consen 81 IEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQF 160 (264)
T ss_pred cCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHH
Confidence 999999999999999999998 5688888887766 2466778889999999999999999999999999999999
Q ss_pred HHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCCCc-hhhhhhhccCccccC
Q 024567 198 LQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDN-TAWFEELRVDMNVVS 264 (265)
Q Consensus 198 ~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~~~-~~W~~~~~~~~~~~~ 264 (265)
+++.|..+.++.+.+|.++||++++++||.|+|..||.|||++|+...|.+. +.|+.++++|+++|.
T Consensus 161 ~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~~~w~~el~vD~ekV~ 228 (264)
T KOG0794|consen 161 VQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIPKAWFAELSVDMEKVK 228 (264)
T ss_pred HHHhcccchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChHHHHHHHHhccHHHHH
Confidence 9999998777999999999999999999999999999999999999999997 899999999999874
No 2
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.9e-38 Score=280.39 Aligned_cols=203 Identities=27% Similarity=0.521 Sum_probs=177.4
Q ss_pred Ccccc-hhhHH---HHhhhhhccCHHH--HhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHH
Q 024567 61 KTWMW-RNLLT---EKRASLLKITSSL--RCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCL 134 (265)
Q Consensus 61 ~~w~~-~~~~~---~~r~~~~~~~~~~--R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acL 134 (265)
..|++ ++++. +.|..+.....+. |...+.||.+++.+||+++.|+++|++||||||+.+++++++++.+|++||
T Consensus 10 ~~w~~s~e~~~~~tpSr~~g~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~scl 89 (323)
T KOG0834|consen 10 SRWYFSKEQLEENTPSRRDGIDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCL 89 (323)
T ss_pred cccccCHHHHccCChhhccCCchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHH
Confidence 57898 45554 4566666666655 678899999999999999999999999999999999999999999999999
Q ss_pred HHhhccccchhhHHHHHHHHHHhcCc------chhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCCH--
Q 024567 135 YLASKAEESTVQARLLVFYIKKIYSD------EKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDI-- 206 (265)
Q Consensus 135 flA~K~ee~~~~i~~iv~~~~~~~~d------~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~~-- 206 (265)
|||+|+||+++++++|+.++++.++. +.+...++.|+.+|..||++|+|||++.|||.||.+|+++++....
T Consensus 90 fLAgKvEetp~kl~dIi~~s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~ 169 (323)
T KOG0834|consen 90 FLAGKVEETPRKLEDIIKVSYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLK 169 (323)
T ss_pred HHHhhcccCcccHHHHHHHHHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhcc
Confidence 99999999999999999999988764 2223347889999999999999999999999999999999976532
Q ss_pred -HHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCCC-----chhhhhhhc--cCcccc
Q 024567 207 -NMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKD-----NTAWFEELR--VDMNVV 263 (265)
Q Consensus 207 -~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~~-----~~~W~~~~~--~~~~~~ 263 (265)
.+.+.||.+++|++.+.+||.|+|.+||+|||++|+.+.|.. ...||..++ +..+.|
T Consensus 170 ~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l 234 (323)
T KOG0834|consen 170 QPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELL 234 (323)
T ss_pred ccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHH
Confidence 489999999999999999999999999999999999999864 236999999 655544
No 3
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=6.1e-35 Score=258.44 Aligned_cols=170 Identities=31% Similarity=0.432 Sum_probs=149.7
Q ss_pred HHhHHHHHHHHHHHHcC--CChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCc
Q 024567 83 LRCRCPTIYRNLAQHVK--VRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSD 160 (265)
Q Consensus 83 ~R~~~v~~i~~v~~~l~--L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d 160 (265)
+|...+..|.++|.+|+ ||+.|++||++||||||..+++..++++++++||||||||+||.++++++++..... +
T Consensus 55 l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~---~ 131 (305)
T TIGR00569 55 LVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKE---T 131 (305)
T ss_pred HHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccC---C
Confidence 46788999999999999 999999999999999999999999999999999999999999999999988875422 1
Q ss_pred chhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcC-----C-CCHHHHHHHHHHHHHhcCCccccccCHHHHH
Q 024567 161 EKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAG-----M-NDINMTHLSWGILNDTYKMDLILVHPPHLIA 234 (265)
Q Consensus 161 ~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~-----~-~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA 234 (265)
.....++|+++|+.||+.|+|+|.++|||++|..|+.+++ . +...+.+.||.+++|++++++|+.|+|+.||
T Consensus 132 --~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IA 209 (305)
T TIGR00569 132 --PLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIA 209 (305)
T ss_pred --chhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHH
Confidence 1234688999999999999999999999999999987653 1 2234789999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCchh--hhhhhcc
Q 024567 235 LACIYIASVYREKDNTA--WFEELRV 258 (265)
Q Consensus 235 ~Aai~lA~~~~~~~~~~--W~~~~~~ 258 (265)
+||||+|+..+|.+.+. | +.+++
T Consensus 210 lAAI~lA~~~~~~~l~~~~~-e~~~~ 234 (305)
T TIGR00569 210 LAAILHTASRAGLNMESYLT-EQLSV 234 (305)
T ss_pred HHHHHHHHHHhCCCCcccch-hhhcc
Confidence 99999999999986543 5 77766
No 4
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=100.00 E-value=3.1e-34 Score=247.68 Aligned_cols=189 Identities=23% Similarity=0.375 Sum_probs=169.8
Q ss_pred hhccCHHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHH
Q 024567 76 LLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIK 155 (265)
Q Consensus 76 ~~~~~~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~ 155 (265)
+.+..++.|...+.||.+-|-.|+||+.+.+|+.++|+||+..+++..+++..+++||++||+|+||.|+++++++++++
T Consensus 15 ~~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~Prr~rdVinVFh 94 (367)
T KOG0835|consen 15 SLETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEEPRRIRDVINVFH 94 (367)
T ss_pred ccchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccccccHhHHHHHHH
Confidence 34455678999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred Hhc------------CcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCC-HHHHHHHHHHHHHhcCC
Q 024567 156 KIY------------SDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMND-INMTHLSWGILNDTYKM 222 (265)
Q Consensus 156 ~~~------------~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~-~~i~~~A~~i~~d~~~~ 222 (265)
.+. .+..+...+..++.+|+.||++|||+.++.|||+++..|++.+++++ ..+.|.+|.++||++.+
T Consensus 95 ~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~wNfmNDslRT 174 (367)
T KOG0835|consen 95 YLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRT 174 (367)
T ss_pred HHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHHHHhhhhcccc
Confidence 653 12222334677999999999999999999999999999999999964 34899999999999999
Q ss_pred ccccccCHHHHHHHHHHHHHhhcCCC---chhhhhhhccCccccC
Q 024567 223 DLILVHPPHLIALACIYIASVYREKD---NTAWFEELRVDMNVVS 264 (265)
Q Consensus 223 ~~~l~~~ps~iA~Aai~lA~~~~~~~---~~~W~~~~~~~~~~~~ 264 (265)
++|+.|+|..||+||||+|++.+++. .++||..|+.++++|.
T Consensus 175 ~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k~eid 219 (367)
T KOG0835|consen 175 DVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTKREID 219 (367)
T ss_pred ceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcHHHHH
Confidence 99999999999999999999999953 4699999999988763
No 5
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.97 E-value=4.5e-30 Score=222.00 Aligned_cols=167 Identities=34% Similarity=0.554 Sum_probs=149.0
Q ss_pred HHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCc
Q 024567 81 SSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSD 160 (265)
Q Consensus 81 ~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d 160 (265)
.+.|..+..||..+|.+|++|+.+++||+.+|+||+.+.++.+.+++.++.||+|||||+||+++.+.-.....+.++++
T Consensus 42 ~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~~~~I~i~~~~~~~~~se 121 (297)
T COG5333 42 LNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEARDLWSE 121 (297)
T ss_pred hhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccchhhHHHHHhhccccc
Confidence 35577889999999999999999999999999999999999999999999999999999999977766555555544443
Q ss_pred chhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCCH-HHHHHHHHHHHHhcCCccccccCHHHHHHHHHH
Q 024567 161 EKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDI-NMTHLSWGILNDTYKMDLILVHPPHLIALACIY 239 (265)
Q Consensus 161 ~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~~-~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~ 239 (265)
. ..-+++.|.++|+.+|++|+||+.++|||.++..|++.+...+. ++.+.||.+++|++.+++|+.|+|+.||+||++
T Consensus 122 ~-~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~~t~~~llypphiIA~a~l~ 200 (297)
T COG5333 122 E-PKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLLYPPHIIALAALL 200 (297)
T ss_pred c-ccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhceeeeecChHHHHHHHHH
Confidence 2 34457889999999999999999999999999999998866543 689999999999999999999999999999999
Q ss_pred HHHhhcCCC
Q 024567 240 IASVYREKD 248 (265)
Q Consensus 240 lA~~~~~~~ 248 (265)
+|+..+|..
T Consensus 201 ia~~~~~~~ 209 (297)
T COG5333 201 IACEVLGMP 209 (297)
T ss_pred HHHHhcCCc
Confidence 999998864
No 6
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.94 E-value=8.8e-26 Score=199.78 Aligned_cols=165 Identities=25% Similarity=0.275 Sum_probs=139.6
Q ss_pred hhhccCHHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCC---chhhhHHHHHHhhccccchhh-HHHH
Q 024567 75 SLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYD---PHLVAPTCLYLASKAEESTVQ-ARLL 150 (265)
Q Consensus 75 ~~~~~~~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~---~~lva~acLflA~K~ee~~~~-i~~i 150 (265)
.+..+.+-+|.++++||.+||+++++...|+.+|++|+|||++.+++.+.+ .|++|+|||+||+|+||+..| +-++
T Consensus 69 ~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl 148 (335)
T KOG0656|consen 69 VQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADL 148 (335)
T ss_pred cccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhh
Confidence 466688899999999999999999999999999999999999999999999 999999999999999999755 3332
Q ss_pred HHHHHHhcCcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCC---HHHHHHHHHHHHHhcCCccccc
Q 024567 151 VFYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMND---INMTHLSWGILNDTYKMDLILV 227 (265)
Q Consensus 151 v~~~~~~~~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~---~~i~~~A~~i~~d~~~~~~~l~ 227 (265)
.... + .+.+..+.|.+||..||.+|+|+++..||+.|+..|+.+++..+ ..+...+..++-....+.-++.
T Consensus 149 ~v~~----~--~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl~ 222 (335)
T KOG0656|consen 149 QVEY----T--DNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFLE 222 (335)
T ss_pred hhcc----c--cccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhhc
Confidence 2221 1 24677899999999999999999999999999999999998743 2355667777777767778999
Q ss_pred cCHHHHHHHHHHHHHhhc
Q 024567 228 HPPHLIALACIYIASVYR 245 (265)
Q Consensus 228 ~~ps~iA~Aai~lA~~~~ 245 (265)
|+||+||+|++..+..-.
T Consensus 223 y~pSviAaa~~~~v~~~~ 240 (335)
T KOG0656|consen 223 YPPSVIAAAAILSVSASV 240 (335)
T ss_pred CChHHHHHHHHHHHHHhh
Confidence 999999999887655443
No 7
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.93 E-value=1.1e-25 Score=207.21 Aligned_cols=173 Identities=24% Similarity=0.275 Sum_probs=156.1
Q ss_pred hhhhccCHHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHH-Hhhccccchhh-HHHHH
Q 024567 74 ASLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLY-LASKAEESTVQ-ARLLV 151 (265)
Q Consensus 74 ~~~~~~~~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLf-lA~K~ee~~~~-i~~iv 151 (265)
....+++.+||.++++|+.+|+.+|+|..+|+++|++++|||+....+...++|++|++||| ||||+||...| +++++
T Consensus 148 ~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv 227 (391)
T KOG0653|consen 148 ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLV 227 (391)
T ss_pred cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeE
Confidence 46777888999999999999999999999999999999999999988999999999999977 99999998877 67777
Q ss_pred HHHHHhcCcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHH
Q 024567 152 FYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPH 231 (265)
Q Consensus 152 ~~~~~~~~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps 231 (265)
.++.+ .++.++|+.||+.||.+|+|++.+|+|+.||.++.+..+. +.+....+.++++.++.+.-++.++|+
T Consensus 228 ~isd~-------~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~-d~~~~~~~k~~~El~l~d~~~~~~~~s 299 (391)
T KOG0653|consen 228 LITDG-------AYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADY-DIKTRTLVKYLLELSLCDYSMLSIPPS 299 (391)
T ss_pred eeeCC-------ccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhc-chhHHHHHHHHHHHHHhhhHHhccCcH
Confidence 66433 6889999999999999999999999999999999998875 445788999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCCCchhhhhh
Q 024567 232 LIALACIYIASVYREKDNTAWFEE 255 (265)
Q Consensus 232 ~iA~Aai~lA~~~~~~~~~~W~~~ 255 (265)
.+|+|+.+++..+.+.+. .|...
T Consensus 300 ~~aaa~~~~~~~~~~~~~-~w~~~ 322 (391)
T KOG0653|consen 300 SSAAASFTLALRMLSKGD-VWSPT 322 (391)
T ss_pred HHHHHHHHHHHHHhccCC-ccCCC
Confidence 999999999999998753 56553
No 8
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=99.91 E-value=3.8e-24 Score=185.36 Aligned_cols=159 Identities=20% Similarity=0.224 Sum_probs=134.6
Q ss_pred hhhhccCHHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHh-ccCCCcCCchhhhHHHHHHhhccccchhh-HHHHH
Q 024567 74 ASLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYT-RKSMTEYDPHLVAPTCLYLASKAEESTVQ-ARLLV 151 (265)
Q Consensus 74 ~~~~~~~~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~-~~~~~~~~~~lva~acLflA~K~ee~~~~-i~~iv 151 (265)
+..+...++||++++||+++||+.++|..+|+++|+-|||||+. .+.+.+.++|++|.||||+|+|+||++.| +-++.
T Consensus 135 ~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFA 214 (408)
T KOG0655|consen 135 EQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFA 214 (408)
T ss_pred hhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCcccccee
Confidence 35677889999999999999999999999999999999999995 56788999999999999999999999664 77776
Q ss_pred HHHHHhcCcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCC-----------HHHHHHHHHHHHHhc
Q 024567 152 FYIKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMND-----------INMTHLSWGILNDTY 220 (265)
Q Consensus 152 ~~~~~~~~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~-----------~~i~~~A~~i~~d~~ 220 (265)
.++.. ..+-++|+.||..||++|+|+|...+...+|.-|++..+.++ ....+.| .++....
T Consensus 215 yvTDg-------Acs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~~efiqia-qlLDlc~ 286 (408)
T KOG0655|consen 215 YVTDG-------ACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQEEFIQIA-QLLDLCI 286 (408)
T ss_pred eeccC-------ccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccchHHHHHHH-HHHHHHH
Confidence 66432 567799999999999999999999999999999998765432 2345555 3555556
Q ss_pred CCccccccCHHHHHHHHHHH
Q 024567 221 KMDLILVHPPHLIALACIYI 240 (265)
Q Consensus 221 ~~~~~l~~~ps~iA~Aai~l 240 (265)
..-.++.|+...+|+||++-
T Consensus 287 ldids~~fsYrilaAAal~h 306 (408)
T KOG0655|consen 287 LDIDSLEFSYRILAAAALCH 306 (408)
T ss_pred hccccccchHHHHHHHHHHH
Confidence 66679999999999999984
No 9
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.89 E-value=5.3e-23 Score=188.34 Aligned_cols=167 Identities=17% Similarity=0.174 Sum_probs=148.6
Q ss_pred CHHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhh-HHHHHHHHHHhc
Q 024567 80 TSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQ-ARLLVFYIKKIY 158 (265)
Q Consensus 80 ~~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~-i~~iv~~~~~~~ 158 (265)
.=.||..+++||.+++.+|++-++|+++|+.++|||+....+.-..+|++|++|||||||+||...+ +++++.++..
T Consensus 209 ~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g-- 286 (440)
T COG5024 209 EWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDG-- 286 (440)
T ss_pred HHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcc--
Confidence 3389999999999999999999999999999999999999999899999999999999999999876 7887777654
Q ss_pred CcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHH
Q 024567 159 SDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACI 238 (265)
Q Consensus 159 ~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai 238 (265)
.++.++|+++|+.+|..|+|++..|.|..||+++.+.-+.+. .....+.++++.+....-++.+.|+.+|+||.
T Consensus 287 -----~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd~-~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~ 360 (440)
T COG5024 287 -----AFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYDI-FSRTPAKFSSEISPVDYKFIQISPSWCAAAAM 360 (440)
T ss_pred -----cccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccch-hhhhhHhhhCCchHhhhhhccCCchHHHHHHH
Confidence 678999999999999999999999999999999998776643 35668889999988888888888999999999
Q ss_pred HHHHhhcCCCchhhhhhh
Q 024567 239 YIASVYREKDNTAWFEEL 256 (265)
Q Consensus 239 ~lA~~~~~~~~~~W~~~~ 256 (265)
|+|..+++.+. |-..+
T Consensus 361 ~~s~~~~~~~~--w~~~l 376 (440)
T COG5024 361 YLSRKILSQNQ--WDRTL 376 (440)
T ss_pred HHHHhhhccCC--CCccc
Confidence 99999998754 54433
No 10
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.87 E-value=8.4e-21 Score=169.91 Aligned_cols=154 Identities=19% Similarity=0.180 Sum_probs=143.7
Q ss_pred hHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchhc
Q 024567 85 CRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYR 164 (265)
Q Consensus 85 ~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~~ 164 (265)
......|.+++..|+||..+..+|..+|++++..+.+++.+...+++||||+|||.|+.|+++++|..++ .
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~---------~ 193 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVS---------R 193 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHh---------C
Confidence 5678899999999999999999999999999999999999999999999999999999999999998874 3
Q ss_pred ccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhh
Q 024567 165 YEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVY 244 (265)
Q Consensus 165 ~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~ 244 (265)
.+.++|.+.++.|++.|++++...+|.+|+.+|+..++++. .+.+.|+.+++++....+..+.+|..||+||||+|+++
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 VSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG-EVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLL 272 (310)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHH
Confidence 46789999999999999999999999999999999999986 48999999999998888888999999999999999999
Q ss_pred cCCC
Q 024567 245 REKD 248 (265)
Q Consensus 245 ~~~~ 248 (265)
.|.+
T Consensus 273 ~g~~ 276 (310)
T PRK00423 273 LGER 276 (310)
T ss_pred hCCC
Confidence 8864
No 11
>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=99.87 E-value=3e-21 Score=165.95 Aligned_cols=158 Identities=27% Similarity=0.407 Sum_probs=129.7
Q ss_pred HHHHHHHHHHcC--CChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchhcc
Q 024567 88 PTIYRNLAQHVK--VRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRY 165 (265)
Q Consensus 88 v~~i~~v~~~l~--L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~~~ 165 (265)
..-+.+.+++++ +|..+..||+.+|+|||..+++.++++..|.+||+|+|||+||..++++++++.+.. + -.-
T Consensus 60 E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~~---~--~~k 134 (325)
T KOG2496|consen 60 ELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMNG---R--KWK 134 (325)
T ss_pred HHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhccC---c--ccc
Confidence 345556666664 899999999999999999999999999999999999999999999999999987541 1 023
Q ss_pred cHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcC-----CCCHHH---HHHHHHHHHHhcCCccccccCHHHHHHHH
Q 024567 166 EVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAG-----MNDINM---THLSWGILNDTYKMDLILVHPPHLIALAC 237 (265)
Q Consensus 166 ~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~-----~~~~~i---~~~A~~i~~d~~~~~~~l~~~ps~iA~Aa 237 (265)
+.+.|++.|..+|+.|+|+|.+.+|++.++.|+.++. ..+..+ ......+++.++.+++++.|+|+.||+||
T Consensus 135 ~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaA 214 (325)
T KOG2496|consen 135 THEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAA 214 (325)
T ss_pred cHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHH
Confidence 4788999999999999999999999999999987652 223222 22235789999999999999999999999
Q ss_pred HHHHHhhcCCCch
Q 024567 238 IYIASVYREKDNT 250 (265)
Q Consensus 238 i~lA~~~~~~~~~ 250 (265)
|..|.-..|....
T Consensus 215 il~a~~~~~~~l~ 227 (325)
T KOG2496|consen 215 ILHAAGRTGETLE 227 (325)
T ss_pred HHHHhccccchHH
Confidence 9766666665433
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=99.80 E-value=2.2e-19 Score=140.04 Aligned_cols=102 Identities=31% Similarity=0.417 Sum_probs=87.7
Q ss_pred ccCHHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccc-hhhHHHHHHHHHH
Q 024567 78 KITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEES-TVQARLLVFYIKK 156 (265)
Q Consensus 78 ~~~~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~-~~~i~~iv~~~~~ 156 (265)
+++.++|..+++||.+++..++++..|+++|+.|+|||+.+.++...+++++++||+++|||+||. +..+++++..+.
T Consensus 25 ~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~- 103 (127)
T PF00134_consen 25 EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISD- 103 (127)
T ss_dssp SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTT-
T ss_pred hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHc-
Confidence 566788999999999999999999999999999999999999999999999999999999999998 556888887742
Q ss_pred hcCcchhcccHHHHHHHHHHHHHHcCccee
Q 024567 157 IYSDEKYRYEVKDILEMEMKILEALNYYLV 186 (265)
Q Consensus 157 ~~~d~~~~~~~~~i~~~E~~IL~~L~F~l~ 186 (265)
..++.++|.+||+.||++|||+++
T Consensus 104 ------~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 104 ------NTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp ------TSSHHHHHHHHHHHHHHHTTT---
T ss_pred ------CCCCHHHHHHHHHHHHHHCCCCcC
Confidence 267799999999999999999985
No 13
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.76 E-value=9.3e-19 Score=156.55 Aligned_cols=173 Identities=22% Similarity=0.282 Sum_probs=157.3
Q ss_pred hhhccCHHHHhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhh-HHHHHHH
Q 024567 75 SLLKITSSLRCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQ-ARLLVFY 153 (265)
Q Consensus 75 ~~~~~~~~~R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~-i~~iv~~ 153 (265)
.+.++++.||.++++|+.++.+..++..++++.+.++.|||+....+.+...|+++.+|.++|+|.||...+ +++++..
T Consensus 128 vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~i 207 (359)
T KOG0654|consen 128 VQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYI 207 (359)
T ss_pred eecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhh
Confidence 467889999999999999999999999999999999999999999999999999999999999999998765 7888877
Q ss_pred HHHhcCcchhcccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHH
Q 024567 154 IKKIYSDEKYRYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLI 233 (265)
Q Consensus 154 ~~~~~~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~i 233 (265)
+.+ .++..++..||..+|..+.|++..++...|+.+++.....+..++..++.++.+.++..+.++.|.||.|
T Consensus 208 td~-------ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~~~~~e~~~~yl~elsll~~~~l~y~PSli 280 (359)
T KOG0654|consen 208 TDN-------TYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTPELQVEPLANYLTELSLLDYIFLKYLPSLI 280 (359)
T ss_pred hhh-------hhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhhhHHHhccChHHH
Confidence 654 6778999999999999999999999999999999887654555688899999999999988999999999
Q ss_pred HHHHHHHHHhhcCCCchhhhhhh
Q 024567 234 ALACIYIASVYREKDNTAWFEEL 256 (265)
Q Consensus 234 A~Aai~lA~~~~~~~~~~W~~~~ 256 (265)
|+||+++|...++ .++|-..+
T Consensus 281 AasAv~lA~~~~~--~~pW~~~L 301 (359)
T KOG0654|consen 281 AASAVFLARLTLD--FHPWNQTL 301 (359)
T ss_pred HHHHHHHHHhhcc--CCCCchhh
Confidence 9999999999998 67887665
No 14
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.66 E-value=5.8e-15 Score=129.68 Aligned_cols=155 Identities=17% Similarity=0.211 Sum_probs=144.0
Q ss_pred HhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchh
Q 024567 84 RCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKY 163 (265)
Q Consensus 84 R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~ 163 (265)
-....+.|..++..++||..+..+|+.+|.+.+...-.++.....+++||+|+||+.++.|+++++|.....
T Consensus 97 l~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~-------- 168 (285)
T COG1405 97 LITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALG-------- 168 (285)
T ss_pred HHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHC--------
Confidence 357789999999999999999999999999999999999999999999999999999999999999988753
Q ss_pred cccHHHHHHHHHHHHHHcCcceeecCcHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHh
Q 024567 164 RYEVKDILEMEMKILEALNYYLVVFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASV 243 (265)
Q Consensus 164 ~~~~~~i~~~E~~IL~~L~F~l~~~~P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~ 243 (265)
.+.++|.+..+.+.+.|+-.+....|..|+.+|+.+||+++ ++...|..++..+.......+..|..+|+||||+|..
T Consensus 169 -V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~-~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~ 246 (285)
T COG1405 169 -VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSD-EVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASL 246 (285)
T ss_pred -CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHH
Confidence 45689999999999999999998999999999999999986 5899999999999988888899999999999999999
Q ss_pred hcCCC
Q 024567 244 YREKD 248 (265)
Q Consensus 244 ~~~~~ 248 (265)
++|..
T Consensus 247 l~~~~ 251 (285)
T COG1405 247 LLGER 251 (285)
T ss_pred HhCCc
Confidence 99854
No 15
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=99.64 E-value=2.6e-14 Score=123.02 Aligned_cols=152 Identities=17% Similarity=0.172 Sum_probs=136.1
Q ss_pred hHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchhc
Q 024567 85 CRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYR 164 (265)
Q Consensus 85 ~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~~ 164 (265)
.....-|..+++.++||..+...|..+|+++...+..++.+...+++||||+||+-++.||.+++|..+++
T Consensus 105 ~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~an--------- 175 (308)
T KOG1597|consen 105 KAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVAN--------- 175 (308)
T ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHc---------
Confidence 45678889999999999999999999999999999999999999999999999999999999999999864
Q ss_pred ccHHHHHHHHHHHHHHcCcceeecC--cHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHH
Q 024567 165 YEVKDILEMEMKILEALNYYLVVFH--PYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIAS 242 (265)
Q Consensus 165 ~~~~~i~~~E~~IL~~L~F~l~~~~--P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~ 242 (265)
.++++|-++=+.|++.|+-+....+ .-+|+.+||..++++.. +...|..+++....-+..-+.+|-+||+|+||++.
T Consensus 176 v~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~-~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmis 254 (308)
T KOG1597|consen 176 VSKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKS-AQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMIS 254 (308)
T ss_pred CCHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHH-HHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHH
Confidence 4678999999999999887666554 78999999999999864 77888888888877777777899999999999999
Q ss_pred hhcC
Q 024567 243 VYRE 246 (265)
Q Consensus 243 ~~~~ 246 (265)
++..
T Consensus 255 qls~ 258 (308)
T KOG1597|consen 255 QLSD 258 (308)
T ss_pred Hhcc
Confidence 9886
No 16
>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=99.52 E-value=5.4e-14 Score=101.37 Aligned_cols=86 Identities=30% Similarity=0.364 Sum_probs=78.8
Q ss_pred HhHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchh
Q 024567 84 RCRCPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKY 163 (265)
Q Consensus 84 R~~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~ 163 (265)
|....+||.++++.++++..+..+|+.+++||+..+.+.+.+++.+++||+|+|||+++.+...+++...+
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~--------- 72 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVT--------- 72 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHh---------
Confidence 56789999999999999999999999999999999999999999999999999999999988899988774
Q ss_pred cc-cHHHHHHHHHHHH
Q 024567 164 RY-EVKDILEMEMKIL 178 (265)
Q Consensus 164 ~~-~~~~i~~~E~~IL 178 (265)
.. +.++|.++|..|+
T Consensus 73 ~~~~~~~i~~~e~~il 88 (88)
T cd00043 73 GYATEEEILRMEKLLL 88 (88)
T ss_pred CCCCHHHHHHHHHHhC
Confidence 33 7889999998874
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=99.43 E-value=3.6e-13 Score=96.00 Aligned_cols=83 Identities=29% Similarity=0.482 Sum_probs=73.8
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchhcccHH
Q 024567 89 TIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEVK 168 (265)
Q Consensus 89 ~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~~~~~~ 168 (265)
+||.++++.++++.++..+|..+++|++..+.+.+.+++.+|+||+|+|||++|.+++.+++...+. .++.+
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~--------~~~~~ 72 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTG--------YFTEE 72 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhC--------CCCHH
Confidence 5899999999999999999999999999877777899999999999999999999888888776642 14789
Q ss_pred HHHHHHHHHHH
Q 024567 169 DILEMEMKILE 179 (265)
Q Consensus 169 ~i~~~E~~IL~ 179 (265)
+|.++|+.||+
T Consensus 73 ~i~~~~~~il~ 83 (83)
T smart00385 73 EILRMEKLLLE 83 (83)
T ss_pred HHHHHHHHHhC
Confidence 99999999873
No 18
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=98.63 E-value=1.4e-07 Score=66.13 Aligned_cols=64 Identities=14% Similarity=0.249 Sum_probs=56.8
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHH
Q 024567 91 YRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYI 154 (265)
Q Consensus 91 i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~ 154 (265)
|.++|..|+||..+..+|..++++-....-.++.++..+++||+|+||+.++.++++++|...+
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~ 64 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAA 64 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHC
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHh
Confidence 4678999999999999999999999998888999999999999999999999999999988764
No 19
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=98.49 E-value=3.3e-07 Score=85.46 Aligned_cols=151 Identities=13% Similarity=0.140 Sum_probs=122.1
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchhcccH
Q 024567 88 PTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEV 167 (265)
Q Consensus 88 v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~~~~~ 167 (265)
-..|.+++..|+++. .+.+|..+|.--...+-.++...+.+.++|+|++|..|.++.-+=|+..+ ...+.
T Consensus 71 r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~---------Lqv~V 140 (521)
T KOG1598|consen 71 RRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSY---------LQVSV 140 (521)
T ss_pred HhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccc---------eEEeh
Confidence 458899999999999 99999999999999999999999999999999999998876543222222 12233
Q ss_pred HHHHHHHHHHHHHcCcc---eeecCcHHHHHHHHHHcCC--CCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHH
Q 024567 168 KDILEMEMKILEALNYY---LVVFHPYRSLVQFLQDAGM--NDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIAS 242 (265)
Q Consensus 168 ~~i~~~E~~IL~~L~F~---l~~~~P~~~l~~~~~~~~~--~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~ 242 (265)
-++-.+=..+...|.-+ +....|.-|+.+|...+.. .+.++...|..++.-+.++.+..+..|+.|+-|||++|+
T Consensus 141 y~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAa 220 (521)
T KOG1598|consen 141 YDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAA 220 (521)
T ss_pred hhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHH
Confidence 45555556777777777 5667899999999988744 345688899999988888888889999999999999999
Q ss_pred hhcCCC
Q 024567 243 VYREKD 248 (265)
Q Consensus 243 ~~~~~~ 248 (265)
+++|..
T Consensus 221 r~h~~~ 226 (521)
T KOG1598|consen 221 RMHGFR 226 (521)
T ss_pred HHcCcc
Confidence 999853
No 20
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=98.43 E-value=1.2e-07 Score=72.41 Aligned_cols=59 Identities=29% Similarity=0.309 Sum_probs=49.2
Q ss_pred cCcHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCC
Q 024567 188 FHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREK 247 (265)
Q Consensus 188 ~~P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~ 247 (265)
|+|+.||.+|++..+. +..+...|+++++.++.+..++.|+||.||+||+++|...++.
T Consensus 1 PTp~~Fl~~~~~~~~~-~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~ 59 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA-DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK 59 (118)
T ss_dssp --HHHHHHHHHTSSSH-HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS
T ss_pred CcHHHHHHHHHHHcCC-cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc
Confidence 6899999999664333 3458999999999999999999999999999999999999874
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=98.37 E-value=4e-06 Score=67.35 Aligned_cols=91 Identities=20% Similarity=0.242 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHh---c--cCCCcCCchhhhHHHHHHhhcccc-chhhHHHHHHHHHHhcC
Q 024567 86 RCPTIYRNLAQHVKVRQRVVATAVTYMRRCYT---R--KSMTEYDPHLVAPTCLYLASKAEE-STVQARLLVFYIKKIYS 159 (265)
Q Consensus 86 ~~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~---~--~~~~~~~~~lva~acLflA~K~ee-~~~~i~~iv~~~~~~~~ 159 (265)
.+.+|+.++.+..+++..++-.|.+|++|+.. . ..+...+.+.+.++|+.+|.|+-+ ....-+...+++
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~----- 127 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVG----- 127 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHH-----
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhc-----
Confidence 36788999999999999999999999999998 2 225567888999999999999544 444444444442
Q ss_pred cchhcccHHHHHHHHHHHHHHcCcce
Q 024567 160 DEKYRYEVKDILEMEMKILEALNYYL 185 (265)
Q Consensus 160 d~~~~~~~~~i~~~E~~IL~~L~F~l 185 (265)
..+.+++-.||+..|..|||+|
T Consensus 128 ----gis~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 128 ----GISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp ----TS-HHHHHHHHHHHHHHTTT--
T ss_pred ----CCCHHHHHHHHHHHHHHCCCcC
Confidence 3568999999999999999986
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.33 E-value=9.2e-07 Score=79.38 Aligned_cols=95 Identities=22% Similarity=0.389 Sum_probs=82.2
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhh-HHHHHHHHHHhcCcchhcccH
Q 024567 89 TIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQ-ARLLVFYIKKIYSDEKYRYEV 167 (265)
Q Consensus 89 ~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~-i~~iv~~~~~~~~d~~~~~~~ 167 (265)
.-|.+++...++..-|+++|-+||.+...+.-+.+.+..+.|-|||+||+|+.+.... ++.+++.+.. .+...+
T Consensus 387 REMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee-----~fR~nr 461 (497)
T KOG4164|consen 387 REMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEE-----QFRLNR 461 (497)
T ss_pred HHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH-----HhcccH
Confidence 4566788889999999999999999999999999999999999999999999976554 7777776443 346678
Q ss_pred HHHHHHHHHHHHHcCcceeec
Q 024567 168 KDILEMEMKILEALNYYLVVF 188 (265)
Q Consensus 168 ~~i~~~E~~IL~~L~F~l~~~ 188 (265)
++++..|+-||-+|.|.|.++
T Consensus 462 rdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 462 RDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HhhhhhhhhHHHhhhhhccCC
Confidence 999999999999999999865
No 23
>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=98.16 E-value=5.7e-06 Score=58.90 Aligned_cols=60 Identities=22% Similarity=0.268 Sum_probs=54.4
Q ss_pred ecCcHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCC
Q 024567 187 VFHPYRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREK 247 (265)
Q Consensus 187 ~~~P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~ 247 (265)
.++|..|+.+++..++.+. .+...|..+++..+.......++|+.||+||+++|+++.+.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~ 61 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP-ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI 61 (88)
T ss_pred cchHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC
Confidence 4688999999999999975 48899999999998877778999999999999999999987
No 24
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=98.06 E-value=9.2e-06 Score=57.21 Aligned_cols=56 Identities=21% Similarity=0.246 Sum_probs=49.4
Q ss_pred HHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCCC
Q 024567 192 RSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKD 248 (265)
Q Consensus 192 ~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~~ 248 (265)
+|+.++++.++++. ++...|.++++..+...-++.++|+.||+||+++|+++.+..
T Consensus 1 ~~l~~~~~~~~~~~-~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~ 56 (83)
T smart00385 1 DFLRRVCKALNLDP-ETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP 56 (83)
T ss_pred CHHHHHHHHcCCCH-HHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC
Confidence 37889999999975 589999999999988666778999999999999999999874
No 25
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=98.01 E-value=3.6e-05 Score=69.22 Aligned_cols=89 Identities=12% Similarity=0.110 Sum_probs=76.4
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchhcccH
Q 024567 88 PTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYRYEV 167 (265)
Q Consensus 88 v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~~~~~ 167 (265)
.++|..++..|+|+..+..+|..++++.....-..+.++..+++||+|+||+..+.+++.++|..++ ..+.
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~---------~Vs~ 290 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVA---------GVTE 290 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHc---------CCCH
Confidence 4899999999999999999999999999877777899999999999999999999999999988774 3445
Q ss_pred HHHHHHHHHHHHHcCcce
Q 024567 168 KDILEMEMKILEALNYYL 185 (265)
Q Consensus 168 ~~i~~~E~~IL~~L~F~l 185 (265)
..|.+.-+.|++.|+..+
T Consensus 291 ~tI~~~ykel~~~l~~~~ 308 (310)
T PRK00423 291 VTVRNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHHHHhCccc
Confidence 667777777777776644
No 26
>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=97.87 E-value=3.7e-05 Score=53.65 Aligned_cols=68 Identities=19% Similarity=0.256 Sum_probs=53.7
Q ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCCC--chhhhhhhccCccc
Q 024567 194 LVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKD--NTAWFEELRVDMNV 262 (265)
Q Consensus 194 l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~~--~~~W~~~~~~~~~~ 262 (265)
+.+|+..+++++ .+.+.|..+........+.-+.+|..+|+||||+|++..|.. ..+--+..+++..+
T Consensus 1 I~r~~~~L~L~~-~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~~Vs~~t 70 (71)
T PF00382_consen 1 IPRICSKLGLPE-DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAAGVSEKT 70 (71)
T ss_dssp HHHHHHHTT--H-HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHCTSSHHH
T ss_pred ChHHHhHcCCCH-HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCCCCCc
Confidence 578999999987 489999999999888888888899999999999999999875 35666666666543
No 27
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=96.70 E-value=0.011 Score=52.34 Aligned_cols=68 Identities=13% Similarity=0.127 Sum_probs=62.9
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHH
Q 024567 88 PTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIK 155 (265)
Q Consensus 88 v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~ 155 (265)
.++|...++.|+|+.++...|..+++.........+..+.-+|+||+|+||+....++.-+++..++.
T Consensus 195 ~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~~ 262 (285)
T COG1405 195 SDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAG 262 (285)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHhC
Confidence 68999999999999999999999999999988888999999999999999999998888888877753
No 28
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=95.88 E-value=0.034 Score=48.87 Aligned_cols=68 Identities=7% Similarity=0.097 Sum_probs=61.4
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHH
Q 024567 88 PTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIK 155 (265)
Q Consensus 88 v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~ 155 (265)
.++|...|..|+||.++...|..+-++.-......+..+..|++|++|+++-.++.+++.++|..++.
T Consensus 204 ~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vtg 271 (308)
T KOG1597|consen 204 GDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVTG 271 (308)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHhh
Confidence 47888999999999999999999999998888888899999999999999999998888888877753
No 29
>KOG1674 consensus Cyclin [General function prediction only]
Probab=94.34 E-value=0.23 Score=42.42 Aligned_cols=92 Identities=12% Similarity=0.199 Sum_probs=68.2
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHhccC---------CCcCC-chhhhHHHHHHhhccccchh-hHHHHHHHHHH
Q 024567 88 PTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKS---------MTEYD-PHLVAPTCLYLASKAEESTV-QARLLVFYIKK 156 (265)
Q Consensus 88 v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~---------~~~~~-~~lva~acLflA~K~ee~~~-~i~~iv~~~~~ 156 (265)
-+++..+.+..+....++-.|.+|||||..+.. +...+ ..-..++|+-+|||..+..- .-.....+
T Consensus 79 ~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~v--- 155 (218)
T KOG1674|consen 79 RQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKV--- 155 (218)
T ss_pred HHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHh---
Confidence 567788899999999999999999999997511 12233 45578899999999885432 21111111
Q ss_pred hcCcchhcccHHHHHHHHHHHHHHcCcceeec
Q 024567 157 IYSDEKYRYEVKDILEMEMKILEALNYYLVVF 188 (265)
Q Consensus 157 ~~~d~~~~~~~~~i~~~E~~IL~~L~F~l~~~ 188 (265)
...+.+++-.+|...|..+||.+.+.
T Consensus 156 ------ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 ------GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred ------CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 13456888899999999999999986
No 30
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=93.06 E-value=0.31 Score=38.37 Aligned_cols=69 Identities=9% Similarity=0.141 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHhcc--CCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHH
Q 024567 87 CPTIYRNLAQHVKVRQRVVATAVTYMRRCYTRK--SMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIK 155 (265)
Q Consensus 87 ~v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~--~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~ 155 (265)
+..=|.++|++|+++.++.....+.|+.-+..+ -+...++.-+.+-|+|.-||+.....+.++|+....
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~sF~~Ii~~Yr 84 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEELSFKDIIKAYR 84 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S--HHHHHHHHT
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence 345577899999999998888888888888533 356778888999999999999998889999998653
No 31
>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=92.77 E-value=0.31 Score=36.40 Aligned_cols=56 Identities=18% Similarity=0.208 Sum_probs=41.9
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccc
Q 024567 88 PTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEES 143 (265)
Q Consensus 88 v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~ 143 (265)
.+||....+..+....+...|..+++-.+....+-.+.+-.+|+||+++|.+.-+.
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~ 59 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK 59 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc
Confidence 34555554444445668888888888888777788899999999999999998543
No 32
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=90.14 E-value=0.83 Score=41.02 Aligned_cols=55 Identities=18% Similarity=0.324 Sum_probs=43.8
Q ss_pred HHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCC
Q 024567 192 RSLVQFLQDAG--MNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREK 247 (265)
Q Consensus 192 ~~l~~~~~~~~--~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~ 247 (265)
.+|..++..++ ++.. +...|..+....+...-...|+|..||++|+|+|++..+.
T Consensus 61 ~~i~~~~~~lkp~Lpq~-viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~ 117 (305)
T TIGR00569 61 KRLLDFCSAFKPTMPTS-VVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEF 117 (305)
T ss_pred HHHHHHHHHhcCCCCch-HHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcccc
Confidence 35566677777 7754 7778888888877766677899999999999999998864
No 33
>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=88.42 E-value=1.5 Score=33.20 Aligned_cols=57 Identities=21% Similarity=0.331 Sum_probs=43.7
Q ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCCC
Q 024567 191 YRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKD 248 (265)
Q Consensus 191 ~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~~ 248 (265)
.+++......++++. .+...|..++...+.........+..+|+||+++|+++.+..
T Consensus 35 ~~~i~~~~~~~~l~~-~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~ 91 (127)
T PF00134_consen 35 IDWIIELCQRLKLSP-ETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDN 91 (127)
T ss_dssp HHHHHHHHHHTT-BH-HHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS
T ss_pred HHHHHHHHHhcccch-hHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccc
Confidence 466777778888875 477888888877766555667779999999999999998763
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=87.73 E-value=0.74 Score=41.28 Aligned_cols=58 Identities=19% Similarity=0.391 Sum_probs=45.6
Q ss_pred HHHHHHHHHcCCChHH--HHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhh
Q 024567 89 TIYRNLAQHVKVRQRV--VATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQ 146 (265)
Q Consensus 89 ~~i~~v~~~l~L~~~t--~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~ 146 (265)
.+|+.-..-|++++.- ...|-+|++--+-..-+..+.+..||+||+|+|+..+|+|.|
T Consensus 143 klii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp 202 (367)
T KOG0835|consen 143 KLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLP 202 (367)
T ss_pred HHHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCC
Confidence 4555556677887774 677777777777666778889999999999999999997765
No 35
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=87.08 E-value=0.71 Score=41.71 Aligned_cols=93 Identities=12% Similarity=0.162 Sum_probs=60.8
Q ss_pred HHHHHHHHHcCCCh----HHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHHHhcCcchhc
Q 024567 89 TIYRNLAQHVKVRQ----RVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIKKIYSDEKYR 164 (265)
Q Consensus 89 ~~i~~v~~~l~L~~----~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~~~~~d~~~~ 164 (265)
.++.+.++.++-.. ....+|-++.+..+...-.-.+.+..||+|||+||+|+-+...++..-- ..+..+.+ .
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~-~w~~~~d~---~ 228 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDK-RWWREFDE---T 228 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCccc-chhhhhcc---c
Confidence 45555555555444 4778899999998877767788999999999999999888755532111 12221111 2
Q ss_pred ccHHHHHHHHHHHHHHcCcce
Q 024567 165 YEVKDILEMEMKILEALNYYL 185 (265)
Q Consensus 165 ~~~~~i~~~E~~IL~~L~F~l 185 (265)
.+.+++-++.-.+|.....+-
T Consensus 229 vt~e~l~~i~~~~l~~y~~~~ 249 (323)
T KOG0834|consen 229 VTNELLDDICHEFLDLYEQTP 249 (323)
T ss_pred CCHHHHHHHHHHHHHHHhhcc
Confidence 456677777766666654433
No 36
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=85.44 E-value=2.3 Score=37.87 Aligned_cols=91 Identities=14% Similarity=0.110 Sum_probs=57.9
Q ss_pred CCChHHHHHHHHHHHHHHh--ccCCCcCCchhhhHHHHHHhhccccchhh-HHHHHHHHHHhcCcchhcccHHHHHHHHH
Q 024567 99 KVRQRVVATAVTYMRRCYT--RKSMTEYDPHLVAPTCLYLASKAEESTVQ-ARLLVFYIKKIYSDEKYRYEVKDILEMEM 175 (265)
Q Consensus 99 ~L~~~t~~tA~~~~~Rf~~--~~~~~~~~~~lva~acLflA~K~ee~~~~-i~~iv~~~~~~~~d~~~~~~~~~i~~~E~ 175 (265)
.|.-+.--....|+.|-.- .......++..+...++++|+|+-...-- --+.+.+++ ..+.+|+-++||
T Consensus 205 qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlK--------d~tveDmNe~ER 276 (343)
T KOG1675|consen 205 QLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILK--------DQSVDDMNALER 276 (343)
T ss_pred hhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHh--------hccHhhHHHHHH
Confidence 3333333344567777653 33345677778777789999997664321 112222222 245789999999
Q ss_pred HHHHHcCcceeecCcHHHHHHHH
Q 024567 176 KILEALNYYLVVFHPYRSLVQFL 198 (265)
Q Consensus 176 ~IL~~L~F~l~~~~P~~~l~~~~ 198 (265)
.+|+.|+|+++++. ..|-..|+
T Consensus 277 qfLelLqfNinvp~-svYAKyYf 298 (343)
T KOG1675|consen 277 QFLELLQFNINVPS-SEYAKYYF 298 (343)
T ss_pred HHHHHHhhccCccH-HHHHHHHH
Confidence 99999999999875 44555554
No 37
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=79.71 E-value=3 Score=39.82 Aligned_cols=53 Identities=15% Similarity=0.073 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhhHHHHHHHHH
Q 024567 103 RVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIK 155 (265)
Q Consensus 103 ~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~ 155 (265)
+|..+|..+..|--.---.....+--++.|||++||.+.+.++++.+|+.+.+
T Consensus 185 ~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvh 237 (521)
T KOG1598|consen 185 DVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVH 237 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccHHHHHHHHH
Confidence 37777777776653222234556778899999999999999999999998764
No 38
>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=65.36 E-value=7.7 Score=34.56 Aligned_cols=55 Identities=7% Similarity=0.165 Sum_probs=43.7
Q ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcC
Q 024567 191 YRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYRE 246 (265)
Q Consensus 191 ~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~ 246 (265)
..++..++..++++.. +...|..+....+.-.-.-.+++..||.+|||+|++.-+
T Consensus 49 ~k~i~~l~~~L~lp~~-~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed 103 (297)
T COG5333 49 LKLIMDLCTRLNLPQT-VLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVED 103 (297)
T ss_pred HHHHHHHHHhcCCCcc-hHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeeccc
Confidence 3677788888888764 677777777776654446678999999999999999887
No 39
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=63.27 E-value=41 Score=29.04 Aligned_cols=46 Identities=26% Similarity=0.487 Sum_probs=30.8
Q ss_pred ChHHHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhh
Q 024567 101 RQRVVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQ 146 (265)
Q Consensus 101 ~~~t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~ 146 (265)
.+.-...|-.+.+-=|...-.--+.+..+|.|||++||=..|...+
T Consensus 168 d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~ 213 (264)
T KOG0794|consen 168 DQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIP 213 (264)
T ss_pred chhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChH
Confidence 3334455555555444433344568899999999999998887664
No 40
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=62.04 E-value=37 Score=26.67 Aligned_cols=55 Identities=13% Similarity=0.200 Sum_probs=42.2
Q ss_pred HHHHHHHHHcCCCCHHHHHHHHHHHHHhc--CCccccccCHHHHHHHHHHHHHhhcCC
Q 024567 192 RSLVQFLQDAGMNDINMTHLSWGILNDTY--KMDLILVHPPHLIALACIYIASVYREK 247 (265)
Q Consensus 192 ~~l~~~~~~~~~~~~~i~~~A~~i~~d~~--~~~~~l~~~ps~iA~Aai~lA~~~~~~ 247 (265)
.=+..+++.+++++. +.+.+|.+.+.++ .+.++....-..|-++|||..+++.+.
T Consensus 16 ~Rl~~LC~~L~l~~~-~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~ 72 (135)
T PF01857_consen 16 VRLQDLCERLDLSSD-LREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKE 72 (135)
T ss_dssp HHHHHHHHHHTTSTT-HHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHcCCcHH-HHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcC
Confidence 345567778888764 7788888888877 466777777999999999999998874
No 41
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=44.46 E-value=53 Score=29.92 Aligned_cols=57 Identities=18% Similarity=0.251 Sum_probs=42.4
Q ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCccccccC---HHHHHHHHHHHHHhhcCCC
Q 024567 191 YRSLVQFLQDAGMNDINMTHLSWGILNDTYKMDLILVHP---PHLIALACIYIASVYREKD 248 (265)
Q Consensus 191 ~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~~~~~l~~~---ps~iA~Aai~lA~~~~~~~ 248 (265)
.++|.+.++..+... .+.-+|...+.-.+...-+-..+ -..+|+||+.||+++.+.+
T Consensus 82 ~~WIl~V~~~~~~~~-~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~ 141 (335)
T KOG0656|consen 82 LDWILKVCEEYNFEP-LVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETD 141 (335)
T ss_pred HHHHHHHHHHhCCch-HHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcC
Confidence 456777777777765 36777887777766555555556 5679999999999998865
No 42
>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=39.21 E-value=1e+02 Score=24.26 Aligned_cols=73 Identities=15% Similarity=0.171 Sum_probs=45.5
Q ss_pred cHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcC----Ccccc-ccCHHHHHHHHHHHHHhhcCC---CchhhhhhhccCcc
Q 024567 190 PYRSLVQFLQDAGMNDINMTHLSWGILNDTYK----MDLIL-VHPPHLIALACIYIASVYREK---DNTAWFEELRVDMN 261 (265)
Q Consensus 190 P~~~l~~~~~~~~~~~~~i~~~A~~i~~d~~~----~~~~l-~~~ps~iA~Aai~lA~~~~~~---~~~~W~~~~~~~~~ 261 (265)
-.+|+.++.+..+.+.. +.-.|-..+.-... ....+ ..+..-+-++|+.+|.+++.- ..+.|-...|++..
T Consensus 54 i~~fl~ri~~~~~~s~~-~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~~ 132 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPE-CLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISLK 132 (149)
T ss_dssp HHHHHHHHHHHTT--HH-HHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-HH
T ss_pred HHHHHHHHHHHcCCChH-HHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCHH
Confidence 36688888887777643 44445444443333 22222 456888999999999999853 36889999998876
Q ss_pred cc
Q 024567 262 VV 263 (265)
Q Consensus 262 ~~ 263 (265)
++
T Consensus 133 el 134 (149)
T PF08613_consen 133 EL 134 (149)
T ss_dssp HH
T ss_pred HH
Confidence 64
No 43
>PF11357 Spy1: Cell cycle regulatory protein; InterPro: IPR020984 Speedy (Spy1) is a cell cycle regulatory protein which activates CDK2, the major kinase that allows progression through G1/S phase and further replication events. Spy1 expression overcomes a p27-induced cell cycle arrest to allow for DNA synthesis, so cell cycle progression occurs due to an interaction between Spy1 and p27 []. Spy1 is also known as Ringo protein A.
Probab=36.44 E-value=1.8e+02 Score=22.72 Aligned_cols=87 Identities=15% Similarity=0.251 Sum_probs=52.2
Q ss_pred HHHcCCChH-HHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhccccchhh-HHHHHHHHHHhcCcchhcccHHHHHH
Q 024567 95 AQHVKVRQR-VVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEESTVQ-ARLLVFYIKKIYSDEKYRYEVKDILE 172 (265)
Q Consensus 95 ~~~l~L~~~-t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee~~~~-i~~iv~~~~~~~~d~~~~~~~~~i~~ 172 (265)
-..+++++. .+++.+.||.|--. ....++... --.|||||+-+||.... -.+|..-+.. .+ .........+
T Consensus 22 D~~~~~sDKYLLAmV~~YF~Ragl--~~~~Y~ri~-FFlALYLAndmEED~~~~K~~If~f~~G---~~-w~~~~~~F~k 94 (131)
T PF11357_consen 22 DKCLRVSDKYLLAMVIAYFSRAGL--FSWQYQRIH-FFLALYLANDMEEDDEEPKYEIFPFLYG---KN-WRSQIPQFHK 94 (131)
T ss_pred CcchhhhhHHHHHHHHHHHHhccc--chhhcchHH-HHHHHHHhhHHHhccchHHHHHHHHHHC---cc-hHHHhHHHHH
Confidence 345566666 67888889988642 122233333 33589999999998553 3344443332 11 1112345667
Q ss_pred HHHHHHHHcCcceeec
Q 024567 173 MEMKILEALNYYLVVF 188 (265)
Q Consensus 173 ~E~~IL~~L~F~l~~~ 188 (265)
+=..+...+||+..|.
T Consensus 95 lr~~~~~~m~~Ra~Vs 110 (131)
T PF11357_consen 95 LRDQFWRRMDWRAWVS 110 (131)
T ss_pred HHHHHHHHcCCceeeC
Confidence 7777888888887764
No 44
>KOG1010 consensus Rb (Retinoblastoma tumor suppressor)-related protein [Cell cycle control, cell division, chromosome partitioning]
Probab=35.70 E-value=63 Score=33.04 Aligned_cols=68 Identities=9% Similarity=0.152 Sum_probs=54.0
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHhccC--CCcCCchhhhHHHHHHhhccccchhhHHHHHHHHH
Q 024567 88 PTIYRNLAQHVKVRQRVVATAVTYMRRCYTRKS--MTEYDPHLVAPTCLYLASKAEESTVQARLLVFYIK 155 (265)
Q Consensus 88 v~~i~~v~~~l~L~~~t~~tA~~~~~Rf~~~~~--~~~~~~~lva~acLflA~K~ee~~~~i~~iv~~~~ 155 (265)
.-=|..+|++|.+.+++...--.+|+.-+...+ +...++.-+.+-|+|+-+|+.+...+..+|+...+
T Consensus 681 avRL~~Lc~rL~l~~e~r~~IWtlFehsl~~et~Lm~dRHLDQillCaiy~i~KV~~~~ltF~eIm~~YR 750 (920)
T KOG1010|consen 681 AVRLNDLCERLSLSDELREQIWTLFEHSLTNETELMRDRHLDQILLCAIYGIAKVKKEDLTFSEIMRAYR 750 (920)
T ss_pred HHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccHHHHHhhhHHHHHHHHHHhheehhcccchHHHHHHHHh
Confidence 334678899999999888888888887765332 35567777888999999999999999999988754
No 45
>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=31.44 E-value=1.2e+02 Score=27.34 Aligned_cols=40 Identities=13% Similarity=0.354 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcC
Q 024567 207 NMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYRE 246 (265)
Q Consensus 207 ~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~ 246 (265)
.+...|..+.--.+...-...|+|..|-++|+++|++.-+
T Consensus 77 ~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kiee 116 (325)
T KOG2496|consen 77 SVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEE 116 (325)
T ss_pred HHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHh
Confidence 4677777777777777777889999999999999999764
No 46
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=29.43 E-value=87 Score=28.86 Aligned_cols=39 Identities=21% Similarity=0.232 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhccCCCcCCchhhhHHHHHHhhcccc
Q 024567 104 VVATAVTYMRRCYTRKSMTEYDPHLVAPTCLYLASKAEE 142 (265)
Q Consensus 104 t~~tA~~~~~Rf~~~~~~~~~~~~lva~acLflA~K~ee 142 (265)
+-.++..+..-.+....+-++-+-++|++|+|+|==.-+
T Consensus 255 ~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~ 293 (359)
T KOG0654|consen 255 VEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD 293 (359)
T ss_pred HHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc
Confidence 445555555555555557788899999999999954433
No 47
>PF09241 Herp-Cyclin: Herpesviridae viral cyclin; InterPro: IPR015322 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 represents a domain found in a family of viral cyclins that specifically activate CDK6 of host cells to a very high degree []. This domain adopts a helical structure consisting of five alpha-helices, with one helix surrounded by the others.; PDB: 1XO2_A 1JOW_A 2F2C_A 2EUF_A 1BU2_A.
Probab=26.55 E-value=2.4e+02 Score=20.12 Aligned_cols=67 Identities=12% Similarity=0.109 Sum_probs=46.1
Q ss_pred cHHHHHHHHHHcCCCC---HHHHHHHHHHHHHhcCCccccccCHHHHHHHHHHHHHhhcCCCchhhhhhh
Q 024567 190 PYRSLVQFLQDAGMND---INMTHLSWGILNDTYKMDLILVHPPHLIALACIYIASVYREKDNTAWFEEL 256 (265)
Q Consensus 190 P~~~l~~~~~~~~~~~---~~i~~~A~~i~~d~~~~~~~l~~~ps~iA~Aai~lA~~~~~~~~~~W~~~~ 256 (265)
.-+|+.-.++.+++++ +++.+.+..-+...+..+-.-.-+|..|.++.+.-....-+.+-.+|-..+
T Consensus 4 ~tdflip~c~alkipe~~wpql~e~~s~tickaliqpniall~p~licaggllttiet~ntn~~~wt~yl 73 (106)
T PF09241_consen 4 STDFLIPVCHALKIPEDFWPQLFEATSITICKALIQPNIALLPPCLICAGGLLTTIETDNTNCQPWTCYL 73 (106)
T ss_dssp GGGGHHHHHHHTT--GGGHHHHHHHHHHHHHHHTTSGGGGGS-HHHHHHHHHHHHHHTS-TSSSTCHHHH
T ss_pred hhhhHHHhhhhccCcHHHhHHHHHHHHHHHHHHHcCCCccccCcceeecccceEEEeccCCCCcchhhhH
Confidence 3568888899998875 246677766666677777666678999999988888877777667775443
Done!