Query 013740
Match_columns 437
No_of_seqs 324 out of 1772
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 06:55:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013740.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013740hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0653 Cyclin B and related k 100.0 5E-51 1.1E-55 420.6 21.5 285 145-434 92-382 (391)
2 COG5024 Cyclin [Cell division 100.0 3.3E-47 7.3E-52 390.9 16.4 260 164-428 162-423 (440)
3 KOG0654 G2/Mitotic-specific cy 100.0 1.7E-43 3.6E-48 355.1 12.4 262 166-432 87-351 (359)
4 KOG0655 G1/S-specific cyclin E 100.0 1.8E-39 4E-44 316.4 18.1 235 183-427 113-361 (408)
5 KOG0656 G1/S-specific cyclin D 100.0 3.5E-32 7.7E-37 271.2 21.6 215 181-396 43-268 (335)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 6E-26 1.3E-30 197.0 12.5 126 185-310 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 1.9E-21 4.1E-26 194.3 19.0 159 212-372 54-222 (305)
8 PF02984 Cyclin_C: Cyclin, C-t 99.9 3.1E-22 6.8E-27 170.8 11.1 118 312-432 1-118 (118)
9 KOG0834 CDK9 kinase-activating 99.8 1.2E-19 2.6E-24 181.5 13.9 205 199-406 24-249 (323)
10 KOG0835 Cyclin L [General func 99.7 9.4E-17 2E-21 157.8 18.6 193 210-404 19-231 (367)
11 KOG0794 CDK8 kinase-activating 99.7 5.4E-17 1.2E-21 152.8 13.8 185 217-404 44-240 (264)
12 COG5333 CCL1 Cdk activating ki 99.6 2E-15 4.4E-20 148.2 13.8 164 211-377 42-212 (297)
13 PRK00423 tfb transcription ini 99.5 9.1E-13 2E-17 132.7 22.5 181 215-401 123-303 (310)
14 cd00043 CYCLIN Cyclin box fold 99.5 3.5E-14 7.7E-19 113.3 8.1 88 213-302 1-88 (88)
15 smart00385 CYCLIN domain prese 99.4 2.1E-13 4.7E-18 107.7 7.6 83 219-303 1-83 (83)
16 KOG2496 Cdk activating kinase 99.3 6.5E-11 1.4E-15 116.0 15.4 148 216-366 58-218 (325)
17 KOG1597 Transcription initiati 99.2 1.1E-09 2.4E-14 107.2 17.5 179 219-403 109-289 (308)
18 COG1405 SUA7 Transcription ini 99.0 5.1E-08 1.1E-12 97.0 20.0 182 214-401 97-278 (285)
19 smart00385 CYCLIN domain prese 98.7 7.4E-08 1.6E-12 75.8 9.7 81 316-399 1-82 (83)
20 cd00043 CYCLIN Cyclin box fold 98.7 1.3E-07 2.8E-12 75.1 10.0 85 311-398 2-87 (88)
21 PF08613 Cyclin: Cyclin; Inte 98.5 4.1E-07 8.8E-12 82.3 9.4 92 216-309 53-149 (149)
22 KOG4164 Cyclin ik3-1/CABLES [C 97.6 3.8E-05 8.3E-10 78.1 3.0 136 176-312 341-482 (497)
23 KOG1598 Transcription initiati 97.2 0.003 6.4E-08 67.2 12.0 168 220-393 73-245 (521)
24 PF00382 TFIIB: Transcription 96.3 0.016 3.4E-07 45.6 6.9 65 221-286 1-65 (71)
25 KOG1674 Cyclin [General functi 95.5 0.036 7.9E-07 53.4 7.0 95 216-312 77-181 (218)
26 PF00382 TFIIB: Transcription 95.5 0.13 2.8E-06 40.3 8.9 70 319-391 2-71 (71)
27 PRK00423 tfb transcription ini 94.3 0.29 6.2E-06 49.6 9.8 89 218-309 220-308 (310)
28 KOG1675 Predicted cyclin [Gene 92.2 0.19 4.1E-06 50.4 4.7 88 226-314 202-291 (343)
29 PF02984 Cyclin_C: Cyclin, C-t 88.7 1.7 3.7E-05 36.3 6.9 87 218-306 4-90 (118)
30 PF00134 Cyclin_N: Cyclin, N-t 88.5 5 0.00011 34.1 9.9 72 328-400 47-120 (127)
31 KOG0834 CDK9 kinase-activating 84.6 1.4 2.9E-05 45.1 4.7 93 216-308 154-248 (323)
32 COG1405 SUA7 Transcription ini 80.5 9.4 0.0002 38.4 8.9 145 140-306 136-280 (285)
33 PF08613 Cyclin: Cyclin; Inte 70.5 60 0.0013 29.1 10.6 87 312-399 52-142 (149)
34 KOG0835 Cyclin L [General func 61.6 62 0.0013 33.3 9.6 71 225-297 149-221 (367)
35 PF01857 RB_B: Retinoblastoma- 51.4 40 0.00088 30.1 5.8 65 219-284 16-82 (135)
36 KOG1597 Transcription initiati 42.9 79 0.0017 32.0 6.9 69 217-286 203-271 (308)
37 TIGR00569 ccl1 cyclin ccl1. Un 40.6 1.6E+02 0.0036 29.9 9.0 40 332-372 78-117 (305)
38 PF11737 DUF3300: Protein of u 21.0 5.2E+02 0.011 25.4 8.3 50 352-401 60-109 (237)
No 1
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=5e-51 Score=420.62 Aligned_cols=285 Identities=44% Similarity=0.660 Sum_probs=261.8
Q ss_pred hhHHhhhhhhcCCCCCCCCcccCCCCCCCCCccchhccHHHHHHHHHHHHHhcCCCcccccCccCcHHHHHHHHHHHHHH
Q 013740 145 SVLTARSKAACGITDKPKDLIVNIDAPDVNDDLAVVEYVDDIYMFYKLTEEEGRVHDYMVSQANINAKMRTILVDWLIEV 224 (437)
Q Consensus 145 s~l~~~s~~~c~~~~~~~~~i~did~~d~~n~~~~~eY~~dI~~~l~~~E~~~~~~~yl~~Q~eIt~~mR~~LVdWLieV 224 (437)
++....+...|+..+. .+.|+|..|..|++++.||++|||.||+..|.++.|..|+..|++++++||.++||||++|
T Consensus 92 ~~~~~~~~~~~~~~~~---~~~dl~~~d~~~~~~~~ey~~di~~~l~~~e~~~~p~~~~~~~~e~~~~mR~iLvdwlvev 168 (391)
T KOG0653|consen 92 SVLESTSKLASGLSDL---SILDLDSEDKSDPSMIVEYVQDIFEYLRQLELEFLPLSYDISQSEIRAKMRAILVDWLVEV 168 (391)
T ss_pred ccchhhhhhhcccccc---CccCcchhcccCcHHHHHHHHHHHHHHHHHHHhhCchhhhcccccccHHHHHHHHHHHHHh
Confidence 5666667778887654 4789999999999999999999999999999877788888999999999999999999999
Q ss_pred HHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHH-hhhcccccCCCChhhHHHhhccccchHHHHHHHHHHHH
Q 013740 225 HNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSML-IACKYEEIWAPQVNDFICISDYAYIGSQVLVMEKAILE 303 (437)
Q Consensus 225 ~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~-IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~ 303 (437)
|.+|+|.+|||||||+|+||||+...|++.++||+|++||| |||||||.++|.++||+++++++||++||++||+.||+
T Consensus 169 h~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~ 248 (391)
T KOG0653|consen 169 HEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILN 248 (391)
T ss_pred hhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999976 99999999999999999999999999999999999999
Q ss_pred HhCCcccCCchhhHHHHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHh
Q 013740 304 KLGWYLTVPTPYVFLVRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHH 383 (437)
Q Consensus 304 ~L~f~L~~pTp~~FL~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~ 383 (437)
+|+|++++|||+.||++|+++.. .+.+.+.+++|++|++++||.++. ++||.+|+|++++++.++.....|+.++.++
T Consensus 249 ~L~f~l~~p~~~~FLrr~~ka~~-~d~~~~~~~k~~~El~l~d~~~~~-~~~s~~aaa~~~~~~~~~~~~~~w~~~~~~~ 326 (391)
T KOG0653|consen 249 VLEFDLSVPTPLSFLRRFLKAAD-YDIKTRTLVKYLLELSLCDYSMLS-IPPSSSAAASFTLALRMLSKGDVWSPTLEHY 326 (391)
T ss_pred ccCeeecCCchHHHHHHHHHhhh-cchhHHHHHHHHHHHHHhhhHHhc-cCcHHHHHHHHHHHHHHhccCCccCCCCeec
Confidence 99999999999999999999976 888999999999999999999999 9999999999999999998876799999999
Q ss_pred hCCCHHHHHHHHHHHHHHHHhcccCchhHH-HHhhcCCCccCccc----ccCCCCC
Q 013740 384 TGYSEEQLKDCAKLLVSFHLAAAESEQKLG-VYKKFSSHKRGAVA----LLNPAEY 434 (437)
Q Consensus 384 tgys~~eL~~c~~~L~~l~~~~~~~~l~~a-V~kKYs~~~~~~Va----~~pp~~~ 434 (437)
+||+..++.+|.+.+..++........... +++||+++.++.++ ..+....
T Consensus 327 sg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ky~~~~~~~~~~~~~~~~~~~~ 382 (391)
T KOG0653|consen 327 SGYSESYLFECARSLSALSLSSLQNPSLRASVLNKYNSSKFLPASPHVWILEKITS 382 (391)
T ss_pred cCCCcHHHHHHHHHHHHHHHHhcccchhHHHHHHHhcccccchhhhhcceeccccc
Confidence 999999999999999987766655533325 99999999999999 5665443
No 2
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=3.3e-47 Score=390.91 Aligned_cols=260 Identities=34% Similarity=0.543 Sum_probs=246.9
Q ss_pred cccCCCCCCCCCccchhccHHHHHHHHHHHHHhcCC-CcccccCccCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 013740 164 LIVNIDAPDVNDDLAVVEYVDDIYMFYKLTEEEGRV-HDYMVSQANINAKMRTILVDWLIEVHNKFKLMPETLYLTVNIL 242 (437)
Q Consensus 164 ~i~did~~d~~n~~~~~eY~~dI~~~l~~~E~~~~~-~~yl~~Q~eIt~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~l 242 (437)
...|+|+.+.+|++++.||..|||.|+..+|....| .+||..|+++.+.||.+|+|||++||.+|++.++|||+||+++
T Consensus 162 ~~~dld~~~~~d~~mv~Ey~~~Ife~l~k~e~~~lp~~~yl~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainii 241 (440)
T COG5024 162 SWQDLDATDQEDPLMVPEYASDIFEYLLKLELIDLPNPNYLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINII 241 (440)
T ss_pred CccccccccccCccchHHHHHHHHHHHHHHHHHhcCcHHHHhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHH
Confidence 457999999999999999999999999999999988 5899999999999999999999999999999999999999999
Q ss_pred HHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHHHHHHHHHhCCcccCCchhhHHHHHH
Q 013740 243 DRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVMEKAILEKLGWYLTVPTPYVFLVRYV 322 (437)
Q Consensus 243 DRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl 322 (437)
||||+...+.-.++||+|++||||||||||++.|.+.+|+++++++|+.++|+++|+.||..|+|++..|+|+.||+++.
T Consensus 242 DrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriS 321 (440)
T COG5024 242 DRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRIS 321 (440)
T ss_pred HHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhC-CCHHHHHHHHHHHHHH
Q 013740 323 KASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTG-YSEEQLKDCAKLLVSF 401 (437)
Q Consensus 323 ~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tg-ys~~eL~~c~~~L~~l 401 (437)
++.. .+...+.++.|++|.+++++.|+. ++||.+|+||.|+++.+++..+ |...|.+++| |+..++.+++..+.+.
T Consensus 322 ka~d-yd~~srt~~k~~~e~s~~~~~f~~-~~~S~~~aaa~~~s~~~~~~~~-w~~~l~~ySg~y~~~~l~~~~~~~~~~ 398 (440)
T COG5024 322 KASD-YDIFSRTPAKFSSEISPVDYKFIQ-ISPSWCAAAAMYLSRKILSQNQ-WDRTLIHYSGNYTNPDLKPLNESNKEN 398 (440)
T ss_pred hhcc-cchhhhhhHhhhCCchHhhhhhcc-CCchHHHHHHHHHHHhhhccCC-CCccccccCCCCCchhHHHHHHHHHHH
Confidence 9965 888999999999999999999999 9999999999999999999876 9999999999 9999999999999987
Q ss_pred HHhcccCchhHHHHhhcCCCccCcccc
Q 013740 402 HLAAAESEQKLGVYKKFSSHKRGAVAL 428 (437)
Q Consensus 402 ~~~~~~~~l~~aV~kKYs~~~~~~Va~ 428 (437)
+..+.. .+. ++++||+.+.|+.++.
T Consensus 399 l~~~~~-~~~-~i~~Ky~~~~~~~~s~ 423 (440)
T COG5024 399 LQNPSV-HHD-AIFPKYPSPTFGKASS 423 (440)
T ss_pred hcccch-hhh-hhhhccccccccccch
Confidence 665443 336 9999999999998874
No 3
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.7e-43 Score=355.08 Aligned_cols=262 Identities=40% Similarity=0.609 Sum_probs=249.1
Q ss_pred cCCCCCCCCCccchhccHHHHHHHHHHHHHh-cCC-Cccccc-CccCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 013740 166 VNIDAPDVNDDLAVVEYVDDIYMFYKLTEEE-GRV-HDYMVS-QANINAKMRTILVDWLIEVHNKFKLMPETLYLTVNIL 242 (437)
Q Consensus 166 ~did~~d~~n~~~~~eY~~dI~~~l~~~E~~-~~~-~~yl~~-Q~eIt~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~l 242 (437)
.|+|.. ..++++|..|..+||+|++..|.. .+| ++||.. |.++++.||.+||||++++.+.+.+..+|||++++++
T Consensus 87 ~~~ds~-~~dp~~c~~~~~~I~~~~r~~ei~~~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~ 165 (359)
T KOG0654|consen 87 MRIDSV-GEDPQMCLKIAAKIYNTLRVSDIKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYR 165 (359)
T ss_pred cchhhc-ccchHHHHHHHHHHhhcccccchhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHH
Confidence 466654 557899999999999999999988 777 589976 9999999999999999999999999999999999999
Q ss_pred HHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHHHHHHHHHhCCcccCCchhhHHHHHH
Q 013740 243 DRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVMEKAILEKLGWYLTVPTPYVFLVRYV 322 (437)
Q Consensus 243 DRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl 322 (437)
||||....+.+.++|++|.+|++||+|+||+.+|.+.+|++++|+.|+..++..||..||..|.|.+..||...||++|+
T Consensus 166 drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~ 245 (359)
T KOG0654|consen 166 DRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFL 245 (359)
T ss_pred HHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHHHHHHHHHHHHH
Q 013740 323 KASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGYSEEQLKDCAKLLVSFH 402 (437)
Q Consensus 323 ~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgys~~eL~~c~~~L~~l~ 402 (437)
.++..+..+++.++.||+|++++||.|+. |.||.|||||+++|+.+++ ...|+++|+++|||+.+++.+|+..|. ++
T Consensus 246 ~~~~~~~~~~e~~~~yl~elsll~~~~l~-y~PSliAasAv~lA~~~~~-~~pW~~~L~~~T~y~~edl~~~v~~L~-~~ 322 (359)
T KOG0654|consen 246 RVAQTPELQVEPLANYLTELSLLDYIFLK-YLPSLIAASAVFLARLTLD-FHPWNQTLEDYTGYKAEDLKPCVLDLH-LY 322 (359)
T ss_pred HhhcchhHHHHHHHHHHHHhhhhhHHHhc-cChHHHHHHHHHHHHhhcc-CCCCchhhHHhhcccHHHHHHHHHHHh-cc
Confidence 99776778899999999999999999999 9999999999999999999 557999999999999999999999999 88
Q ss_pred HhcccCchhHHHHhhcCCCccCcccccCCC
Q 013740 403 LAAAESEQKLGVYKKFSSHKRGAVALLNPA 432 (437)
Q Consensus 403 ~~~~~~~l~~aV~kKYs~~~~~~Va~~pp~ 432 (437)
.+.+...++ +|+.||+.++|..||.+|++
T Consensus 323 l~~~~~~l~-air~ky~~~k~~~Va~~~~p 351 (359)
T KOG0654|consen 323 LNASGTDLP-AIREKYKQSKFKEVALLPVP 351 (359)
T ss_pred cCCCCCchH-HHHHHhhhhhhhhhhccCCC
Confidence 899999999 99999999999999988876
No 4
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.8e-39 Score=316.37 Aligned_cols=235 Identities=30% Similarity=0.521 Sum_probs=200.2
Q ss_pred HHHHHHHHHHHHHhcCC-CcccccCccCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhcc-ccccccchhhH
Q 013740 183 VDDIYMFYKLTEEEGRV-HDYMVSQANINAKMRTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMK-TVNRRELQLVG 260 (437)
Q Consensus 183 ~~dI~~~l~~~E~~~~~-~~yl~~Q~eIt~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~-~V~~~~LQLvg 260 (437)
..+++..|...|..+.. ..|+..||++.++||++|+|||+|||+.++|.+||||||+.||||||... .|.+.+|||||
T Consensus 113 ~~eVW~lM~kkee~~l~~~~~l~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIG 192 (408)
T KOG0655|consen 113 SKEVWLLMLKKEERYLRDKHFLEQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIG 192 (408)
T ss_pred HHHHHHHHHccchhhhhhhHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhh
Confidence 68899888877775544 57789999999999999999999999999999999999999999999765 89999999999
Q ss_pred hHHHHhhhcccccCCCChhhHHHhhccccchHHHHHHHHHHHHHhCCcccCCchhhHHHHHHHhcCCCC-----------
Q 013740 261 ISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVMEKAILEKLGWYLTVPTPYVFLVRYVKASVSPD----------- 329 (437)
Q Consensus 261 itcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~----------- 329 (437)
+||||||+|+||++||.+.+|.+++|++||.++|+.||..||+.|+|+|+..|...||..|+......+
T Consensus 193 itsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~ 272 (408)
T KOG0655|consen 193 ITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQ 272 (408)
T ss_pred HHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccch
Confidence 999999999999999999999999999999999999999999999999999999999999998743221
Q ss_pred hHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHHHHHHHHHHHHHHh-cccC
Q 013740 330 QEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGYSEEQLKDCAKLLVSFHLA-AAES 408 (437)
Q Consensus 330 ~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgys~~eL~~c~~~L~~l~~~-~~~~ 408 (437)
.+.-.++ .|++++++|...+. |+.+.|||||||.-.. .+.+++.||+.+.+|.+|+++|..|... ...+
T Consensus 273 ~efiqia-qlLDlc~ldids~~-fsYrilaAAal~h~~s--------~e~v~kaSG~~w~~ie~cv~wm~Pf~rvi~~~~ 342 (408)
T KOG0655|consen 273 EEFIQIA-QLLDLCILDIDSLE-FSYRILAAAALCHFTS--------IEVVKKASGLEWDSIEECVDWMVPFVRVIKSTS 342 (408)
T ss_pred HHHHHHH-HHHHHHHhcccccc-chHHHHHHHHHHHHhH--------HHHHHHcccccHHHHHHHHHHHHHHHHHHhhcc
Confidence 1223333 48899999999999 9999999999987632 5677899999999999999999987653 2333
Q ss_pred chhHHHHhhcCCCccCccc
Q 013740 409 EQKLGVYKKFSSHKRGAVA 427 (437)
Q Consensus 409 ~l~~aV~kKYs~~~~~~Va 427 (437)
++..-.++|-.+.+.+.+-
T Consensus 343 ~~~~~~~~kI~~eDsHnIQ 361 (408)
T KOG0655|consen 343 PVKLKTFKKIPMEDSHNIQ 361 (408)
T ss_pred chHhhhccCCCcccccchh
Confidence 4433567776666655543
No 5
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.5e-32 Score=271.22 Aligned_cols=215 Identities=23% Similarity=0.399 Sum_probs=178.3
Q ss_pred ccHHHHHHHHHHHHHhcCCC-c-ccccCccCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhcccccccc---
Q 013740 181 EYVDDIYMFYKLTEEEGRVH-D-YMVSQANINAKMRTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRE--- 255 (437)
Q Consensus 181 eY~~dI~~~l~~~E~~~~~~-~-yl~~Q~eIt~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~--- 255 (437)
-+.++++..+...|.++.|. + ++..|..+++.||.+.++||.+||.++++.++|++||+|||||||+.+.+++.+
T Consensus 43 ~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~ 122 (335)
T KOG0656|consen 43 LWDERVLANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWM 122 (335)
T ss_pred cccHHHHHHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHH
Confidence 36677778888888888774 4 567888999999999999999999999999999999999999999999999999
Q ss_pred chhhHhHHHHhhhcccccCCCChhhH-HHhhccccchHHHHHHHHHHHHHhCCcccCCchhhHHHHHHHhcCCCC---hH
Q 013740 256 LQLVGISSMLIACKYEEIWAPQVNDF-ICISDYAYIGSQVLVMEKAILEKLGWYLTVPTPYVFLVRYVKASVSPD---QE 331 (437)
Q Consensus 256 LQLvgitcL~IAsK~EE~~~p~v~dl-v~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~---~~ 331 (437)
+||+|++||+||||+||+..|.+-|+ +..+++.|..+.|.+||..||.+|+|++..+||++|+++|+......+ ..
T Consensus 123 lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~ 202 (335)
T KOG0656|consen 123 LQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHL 202 (335)
T ss_pred HHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHH
Confidence 99999999999999999988888887 567899999999999999999999999999999999999998743222 23
Q ss_pred HHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCC--CchHHHHHhhCCCHHHHHHHHH
Q 013740 332 MENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSP--LWTETLKHHTGYSEEQLKDCAK 396 (437)
Q Consensus 332 l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~--~W~~~L~~~tgys~~eL~~c~~ 396 (437)
+...+.-++-....|..|+. |+||+||+|++.++...+.... .....+..+.+.+.+.+..|..
T Consensus 203 ~~~~~s~~ll~~~~d~~Fl~-y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 203 FLKHASLFLLSVITDIKFLE-YPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred HHHHHHHHHHHHhhhhhhhc-CChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 34444445546778999999 9999999998766654444211 1224555666777777777776
No 6
>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=99.93 E-value=6e-26 Score=196.99 Aligned_cols=126 Identities=38% Similarity=0.674 Sum_probs=115.2
Q ss_pred HHHHHHHHHHHhcCC-CcccccCccCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHH
Q 013740 185 DIYMFYKLTEEEGRV-HDYMVSQANINAKMRTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISS 263 (437)
Q Consensus 185 dI~~~l~~~E~~~~~-~~yl~~Q~eIt~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitc 263 (437)
|||.++.+.|....+ ++|++.|++++..+|..+++||++++..++++++|+|+|+.|||||+....+.+.+++++|++|
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~c 80 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQQPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALAC 80 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTGTSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHH
T ss_pred CHHHHHHHHHHHHCcCccccccChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhH
Confidence 799999999998765 6899989899999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhcccccCCCChhhHHHhhccccchHHHHHHHHHHHHHhCCccc
Q 013740 264 MLIACKYEEIWAPQVNDFICISDYAYIGSQVLVMEKAILEKLGWYLT 310 (437)
Q Consensus 264 L~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~~L~f~L~ 310 (437)
|+||+|+||..+|.+.+++.++++.|+.++|.+||+.||..|+|+|+
T Consensus 81 l~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 81 LFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred HHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 99999999999999999999999999999999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.88 E-value=1.9e-21 Score=194.25 Aligned_cols=159 Identities=16% Similarity=0.243 Sum_probs=133.2
Q ss_pred HHHHHHHHHHHHHHHHcC--CChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccc-
Q 013740 212 KMRTILVDWLIEVHNKFK--LMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYA- 288 (437)
Q Consensus 212 ~mR~~LVdWLieV~~~f~--L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~- 288 (437)
.+|..-+++|.+++.+|+ |+++|+++|+.||+||+...++...+.++|++||||||||+||.. .++.+|+......
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~~~~ 132 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFN-VSIDQFVGNLKETP 132 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccC-cCHHHHHhhccCCc
Confidence 577788899999999999 999999999999999999999999999999999999999999974 5789998765543
Q ss_pred -cchHHHHHHHHHHHHHhCCcccCCchhhHHHHHHHhc------CCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHH
Q 013740 289 -YIGSQVLVMEKAILEKLGWYLTVPTPYVFLVRYVKAS------VSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAA 361 (437)
Q Consensus 289 -yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~------~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaA 361 (437)
...++|+.||..||+.|+|+|.+++||.||..|+... ......+...+..++.-+++..-++. |.||.||+|
T Consensus 133 ~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~-y~Ps~IAlA 211 (305)
T TIGR00569 133 LKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLL-YTPSQIALA 211 (305)
T ss_pred hhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceec-CCHHHHHHH
Confidence 3679999999999999999999999999999888531 11223455555555544554444677 999999999
Q ss_pred HHHHHHHHhCC
Q 013740 362 SVYAAHCTLNK 372 (437)
Q Consensus 362 al~lA~~~l~~ 372 (437)
|||+|...++.
T Consensus 212 AI~lA~~~~~~ 222 (305)
T TIGR00569 212 AILHTASRAGL 222 (305)
T ss_pred HHHHHHHHhCC
Confidence 99999988874
No 8
>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=99.88 E-value=3.1e-22 Score=170.80 Aligned_cols=118 Identities=41% Similarity=0.677 Sum_probs=104.3
Q ss_pred CchhhHHHHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHH
Q 013740 312 PTPYVFLVRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGYSEEQL 391 (437)
Q Consensus 312 pTp~~FL~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgys~~eL 391 (437)
|||++||++|++... .+.++..++.||+|++++|+.|+. |+||+||+||+++|+..++..+.|++.+..++|+++++|
T Consensus 1 PTp~~Fl~~~~~~~~-~~~~~~~~a~~l~el~l~~~~fl~-~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~~~~~l 78 (118)
T PF02984_consen 1 PTPYDFLRRFLKISN-ADQEVRNLARYLLELSLLDYEFLQ-YPPSVIAAAAILLARKILGKEPPWPESLEKLTGYDKEDL 78 (118)
T ss_dssp --HHHHHHHHHTSSS-HHHHHHHHHHHHHHHHHHSHHHTT-S-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS-HHHH
T ss_pred CcHHHHHHHHHHHcC-CcHHHHHHHHHHHHHHHhhccccC-CCHHHHHHHHHHHHHHHhCccccCCccchhhcCCCHHHH
Confidence 899999999976533 577899999999999999999999 999999999999999999876789999999999999999
Q ss_pred HHHHHHHHHHHHhcccCchhHHHHhhcCCCccCcccccCCC
Q 013740 392 KDCAKLLVSFHLAAAESEQKLGVYKKFSSHKRGAVALLNPA 432 (437)
Q Consensus 392 ~~c~~~L~~l~~~~~~~~l~~aV~kKYs~~~~~~Va~~pp~ 432 (437)
.+|++.|..++......++. +|++||++.+|+.||.++|+
T Consensus 79 ~~c~~~i~~~~~~~~~~~~~-ai~~Kys~~~~~~vs~~~~~ 118 (118)
T PF02984_consen 79 KECIELIQELLSKASNSKLQ-AIRKKYSSQKFSSVSQIPPP 118 (118)
T ss_dssp HHHHHHHHHHHHHCCGSSCT-HHHHHTTSGGGTTGGGSS--
T ss_pred HHHHHHHHHHHHhcCCccch-HHHHHhCccccCCccCCCCC
Confidence 99999999999887777888 99999999999999988875
No 9
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.82 E-value=1.2e-19 Score=181.52 Aligned_cols=205 Identities=19% Similarity=0.266 Sum_probs=170.5
Q ss_pred CCcccccCccCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCCh
Q 013740 199 VHDYMVSQANINAKMRTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQV 278 (437)
Q Consensus 199 ~~~yl~~Q~eIt~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v 278 (437)
|..-.....+--...|.....||.+++.++++++-|+..|+.|++||+....+.....+.+|++|||+|+|.||. +..+
T Consensus 24 pSr~~g~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEet-p~kl 102 (323)
T KOG0834|consen 24 PSRRDGIDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEET-PRKL 102 (323)
T ss_pred hhhccCCchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccC-cccH
Confidence 333333333444578999999999999999999999999999999999999999999999999999999999995 7788
Q ss_pred hhHHHhhccccc-------------hHHHHHHHHHHHHHhCCcccCCchhhHHHHHHHhcCCCCh----HHHHHHHHHHH
Q 013740 279 NDFICISDYAYI-------------GSQVLVMEKAILEKLGWYLTVPTPYVFLVRYVKASVSPDQ----EMENLVFFLAE 341 (437)
Q Consensus 279 ~dlv~is~~~yt-------------~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~----~l~~la~yl~E 341 (437)
+|++..+...+. ++.|+..|+.||++|.|++++-+||.||..|++... .+. .+..+|+.++.
T Consensus 103 ~dIi~~s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~-~~~~~~~~~a~~Aw~~~n 181 (323)
T KOG0834|consen 103 EDIIKVSYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLK-ADENLKQPLAQAAWNFVN 181 (323)
T ss_pred HHHHHHHHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhh-hhhhccccHHHHHHHHhc
Confidence 998876654444 367999999999999999999999999999998854 332 47889999998
Q ss_pred HHhcchhhhccCChHHHHHHHHHHHHHHhCC-CCCchHH-HHHhhC--CCHHHHHHHHHHHHHHHHhcc
Q 013740 342 LGISHYPTVICYCPSMLAAASVYAAHCTLNK-SPLWTET-LKHHTG--YSEEQLKDCAKLLVSFHLAAA 406 (437)
Q Consensus 342 LsL~d~~~l~~~~PS~IAaAal~lA~~~l~~-~~~W~~~-L~~~tg--ys~~eL~~c~~~L~~l~~~~~ 406 (437)
-++...-+++ |+|.+||+|||++|....+. .+.|.+. +...++ ++.++|.+++..++.++....
T Consensus 182 D~~~t~~cL~-y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~ 249 (323)
T KOG0834|consen 182 DSLRTTLCLQ-YSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQTP 249 (323)
T ss_pred hhheeeeeEe-ecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhcc
Confidence 8888776777 99999999999999988874 2334443 445566 899999999999999886543
No 10
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.74 E-value=9.4e-17 Score=157.80 Aligned_cols=193 Identities=19% Similarity=0.309 Sum_probs=161.9
Q ss_pred cHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhcc--
Q 013740 210 NAKMRTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDY-- 287 (437)
Q Consensus 210 t~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~-- 287 (437)
....|-.-++||.+.+--++|++.+.+.+..+|-||+...++-+.++..++.+|++||||+||. |-.+.|++.+.+.
T Consensus 19 e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~-Prr~rdVinVFh~L~ 97 (367)
T KOG0835|consen 19 EEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE-PRRIRDVINVFHYLE 97 (367)
T ss_pred HHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc-cccHhHHHHHHHHHH
Confidence 3467888899999999999999999999999999999999999999999999999999999995 5566666544321
Q ss_pred ------c---------c--chHHHHHHHHHHHHHhCCcccCCchhhHHHHHHHhcCCC-ChHHHHHHHHHHHHHhcchhh
Q 013740 288 ------A---------Y--IGSQVLVMEKAILEKLGWYLTVPTPYVFLVRYVKASVSP-DQEMENLVFFLAELGISHYPT 349 (437)
Q Consensus 288 ------~---------y--t~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~-~~~l~~la~yl~ELsL~d~~~ 349 (437)
. | ...+++++|..||..|+|++++-+|+-++-.|+...... ...+...++-|+..++..--|
T Consensus 98 ~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~ 177 (367)
T KOG0835|consen 98 QRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVF 177 (367)
T ss_pred HHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHHHHhhhhcccccee
Confidence 0 1 234789999999999999999999999999999885433 345788888888899987778
Q ss_pred hccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHHHHHHHHHHHHHHh
Q 013740 350 VICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGYSEEQLKDCAKLLVSFHLA 404 (437)
Q Consensus 350 l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgys~~eL~~c~~~L~~l~~~ 404 (437)
+. |+|+.|||||+|+|...++..-...+.+..+++.++.+|.+++..+..++..
T Consensus 178 vr-y~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 178 VR-YSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred ee-cCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcHHHHHHHHHHHHHHHHh
Confidence 88 9999999999999999998332233345567899999999998888888876
No 11
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.72 E-value=5.4e-17 Score=152.82 Aligned_cols=185 Identities=21% Similarity=0.300 Sum_probs=154.1
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhh-----------
Q 013740 217 LVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICIS----------- 285 (437)
Q Consensus 217 LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is----------- 285 (437)
.-+.+..+++++++.+.++.+|+.||-||+.++++..-++.|++.||+++|||.||.-...++.++..+
T Consensus 44 ~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~ 123 (264)
T KOG0794|consen 44 MANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWP 123 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccch
Confidence 346688899999999999999999999999999999999999999999999999996422233332211
Q ss_pred -ccccchHHHHHHHHHHHHHhCCcccCCchhhHHHHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHH
Q 013740 286 -DYAYIGSQVLVMEKAILEKLGWYLTVPTPYVFLVRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVY 364 (437)
Q Consensus 286 -~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~ 364 (437)
...|...+|+.||..+|..|++.|-+-+||.-|..|+..+...++++.++++.+..-++...-.+. |+|.+||.||++
T Consensus 124 e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll-~PPh~IalAcl~ 202 (264)
T KOG0794|consen 124 EKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDSYRMDLCLL-YPPHQIALACLY 202 (264)
T ss_pred hhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcchhhcceeee-cCHHHHHHHHHH
Confidence 135677899999999999999999999999999999988665688899999999999886555677 999999999999
Q ss_pred HHHHHhCCCCCchHHHHHhhCCCHHHHHHHHHHHHHHHHh
Q 013740 365 AAHCTLNKSPLWTETLKHHTGYSEEQLKDCAKLLVSFHLA 404 (437)
Q Consensus 365 lA~~~l~~~~~W~~~L~~~tgys~~eL~~c~~~L~~l~~~ 404 (437)
.|....++.. ...+-.-...+.+.+.+|++.++.++..
T Consensus 203 Ia~~~~~k~~--~~~w~~el~vD~ekV~~~v~~I~~lYe~ 240 (264)
T KOG0794|consen 203 IACVIDEKDI--PKAWFAELSVDMEKVKDIVQEILKLYEL 240 (264)
T ss_pred HHHhhcCCCh--HHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence 9998888742 2344445578999999999999987753
No 12
>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=99.64 E-value=2e-15 Score=148.22 Aligned_cols=164 Identities=18% Similarity=0.290 Sum_probs=137.9
Q ss_pred HHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhcc---
Q 013740 211 AKMRTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDY--- 287 (437)
Q Consensus 211 ~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~--- 287 (437)
...|..-.-|+..+|.+++++..++-+||.+|+||+.+..+....++-++.||+++|||.||. +..+.-.....++
T Consensus 42 ~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~-~~~I~i~~~~~~~~~s 120 (297)
T COG5333 42 LNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDT-PRDISIESFEARDLWS 120 (297)
T ss_pred hhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccc-cchhhHHHHHhhcccc
Confidence 345666678999999999999999999999999999999999999999999999999999995 2223322233322
Q ss_pred ---ccchHHHHHHHHHHHHHhCCcccCCchhhHHHHHHHhcCCCCh-HHHHHHHHHHHHHhcchhhhccCChHHHHHHHH
Q 013740 288 ---AYIGSQVLVMEKAILEKLGWYLTVPTPYVFLVRYVKASVSPDQ-EMENLVFFLAELGISHYPTVICYCPSMLAAASV 363 (437)
Q Consensus 288 ---~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~-~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal 363 (437)
.-+++.|+.+|..||+.|+|++.+++||..+..|++.....+. +...+++-++.-++...-++. |+|..||+||+
T Consensus 121 e~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~~t~~~ll-ypphiIA~a~l 199 (297)
T COG5333 121 EEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLL-YPPHIIALAAL 199 (297)
T ss_pred ccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhceeeee-cChHHHHHHHH
Confidence 3367899999999999999999999999999999988654444 678888888888888888888 99999999999
Q ss_pred HHHHHHhCCCCCch
Q 013740 364 YAAHCTLNKSPLWT 377 (437)
Q Consensus 364 ~lA~~~l~~~~~W~ 377 (437)
+.|...++. +.|.
T Consensus 200 ~ia~~~~~~-~~~~ 212 (297)
T COG5333 200 LIACEVLGM-PIIK 212 (297)
T ss_pred HHHHHhcCC-ccch
Confidence 999998775 3344
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.54 E-value=9.1e-13 Score=132.65 Aligned_cols=181 Identities=14% Similarity=0.141 Sum_probs=156.9
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHH
Q 013740 215 TILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQV 294 (437)
Q Consensus 215 ~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eI 294 (437)
.....-|-+++..++|+..+.-.|..|+.+++....+.......++++|||+|||.|+ .|.++.|+..+++ .+..+|
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~-~prtl~eI~~~~~--v~~k~i 199 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCK-VPRTLDEIAEVSR--VSRKEI 199 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcC-CCcCHHHHHHHhC--CCHHHH
Confidence 3445678899999999999999999999999999999999999999999999999766 6789999988875 688999
Q ss_pred HHHHHHHHHHhCCcccCCchhhHHHHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCC
Q 013740 295 LVMEKAILEKLGWYLTVPTPYVFLVRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSP 374 (437)
Q Consensus 295 l~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~ 374 (437)
.+.++.|++.|++++....|.+|+.+|..... ....+...|.++++.+.-. .++...+|..|||||||+|....+..
T Consensus 200 ~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~-L~~~v~~~A~~i~~~a~~~-~l~~Gr~P~sIAAAaIYlA~~~~g~~- 276 (310)
T PRK00423 200 GRCYRFLLRELNLKLPPTDPIDYVPRFASELG-LSGEVQKKAIEILQKAKEK-GLTSGKGPTGLAAAAIYIASLLLGER- 276 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHhc-CcccCCCHHHHHHHHHHHHHHHhCCC-
Confidence 99999999999999999999999999999865 6678888999998876543 34334999999999999998877753
Q ss_pred CchHHHHHhhCCCHHHHHHHHHHHHHH
Q 013740 375 LWTETLKHHTGYSEEQLKDCAKLLVSF 401 (437)
Q Consensus 375 ~W~~~L~~~tgys~~eL~~c~~~L~~l 401 (437)
.-...+...+|.++..|...++.|...
T Consensus 277 ~t~keIa~v~~Vs~~tI~~~ykel~~~ 303 (310)
T PRK00423 277 RTQREVAEVAGVTEVTVRNRYKELAEK 303 (310)
T ss_pred CCHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 345678889999999999999999864
No 14
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=99.52 E-value=3.5e-14 Score=113.25 Aligned_cols=88 Identities=40% Similarity=0.602 Sum_probs=81.9
Q ss_pred HHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchH
Q 013740 213 MRTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGS 292 (437)
Q Consensus 213 mR~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~ 292 (437)
+|...++||.+++..++++++|+++|+.|+|||+....+.+.+++++|++||+||+|++|. ++...++..+++.. +.+
T Consensus 1 ~~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~-~~~ 78 (88)
T cd00043 1 MRPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYA-TEE 78 (88)
T ss_pred CcchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCC-CHH
Confidence 3678899999999999999999999999999999999999999999999999999999998 88999999887654 899
Q ss_pred HHHHHHHHHH
Q 013740 293 QVLVMEKAIL 302 (437)
Q Consensus 293 eIl~mE~~IL 302 (437)
+|.+||+.||
T Consensus 79 ~i~~~e~~il 88 (88)
T cd00043 79 EILRMEKLLL 88 (88)
T ss_pred HHHHHHHHhC
Confidence 9999999875
No 15
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=99.45 E-value=2.1e-13 Score=107.70 Aligned_cols=83 Identities=36% Similarity=0.564 Sum_probs=76.3
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHHH
Q 013740 219 DWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVME 298 (437)
Q Consensus 219 dWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE 298 (437)
+||.+++..++++++|.++|++++|||+....+.+..++++|++||+||+|++|.. |...++..+++. |+.++|.+||
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~-~~~~~i~~~~ 78 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGY-FTEEEILRME 78 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCC-CCHHHHHHHH
Confidence 59999999999999999999999999999887778999999999999999999975 677888888776 8999999999
Q ss_pred HHHHH
Q 013740 299 KAILE 303 (437)
Q Consensus 299 ~~IL~ 303 (437)
+.||.
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 99973
No 16
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair]
Probab=99.29 E-value=6.5e-11 Score=116.05 Aligned_cols=148 Identities=22% Similarity=0.298 Sum_probs=114.2
Q ss_pred HHHHHHHHHHHHc--CCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhc--cccch
Q 013740 216 ILVDWLIEVHNKF--KLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISD--YAYIG 291 (437)
Q Consensus 216 ~LVdWLieV~~~f--~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~--~~yt~ 291 (437)
.-...+++.+.+| .|.++++..|+.+|-||+-..+|..-....|.+||+|+|||+||.+ .++.+|+.-.. ..-+.
T Consensus 58 ~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~-ISieqFvkn~~~~~~k~~ 136 (325)
T KOG2496|consen 58 EEELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFY-ISIEQFVKNMNGRKWKTH 136 (325)
T ss_pred HHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhhe-ecHHHHHhhccCcccccH
Confidence 3344566667666 5799999999999999999999999999999999999999999964 58999986544 23477
Q ss_pred HHHHHHHHHHHHHhCCcccCCchhhHHHHHHHhcC-------CCChHHHHHH--HHHHHHHhcchhhhccCChHHHHHHH
Q 013740 292 SQVLVMEKAILEKLGWYLTVPTPYVFLVRYVKASV-------SPDQEMENLV--FFLAELGISHYPTVICYCPSMLAAAS 362 (437)
Q Consensus 292 ~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~-------~~~~~l~~la--~yl~ELsL~d~~~l~~~~PS~IAaAa 362 (437)
+.|+..|..+|+.|+|+|.+-+||.-|+-|+.... ..+....... .|+-...++|.- +. |+||.||.||
T Consensus 137 e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~-lL-ytPsQIALaA 214 (325)
T KOG2496|consen 137 EIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAY-LL-YTPSQIALAA 214 (325)
T ss_pred HHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccc-ee-cChHHHHHHH
Confidence 89999999999999999999999998877764311 1111112222 555555556554 55 9999999999
Q ss_pred HHHH
Q 013740 363 VYAA 366 (437)
Q Consensus 363 l~lA 366 (437)
|..|
T Consensus 215 il~a 218 (325)
T KOG2496|consen 215 ILHA 218 (325)
T ss_pred HHHH
Confidence 9555
No 17
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=99.18 E-value=1.1e-09 Score=107.19 Aligned_cols=179 Identities=14% Similarity=0.126 Sum_probs=152.9
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHHH
Q 013740 219 DWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVME 298 (437)
Q Consensus 219 dWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE 298 (437)
.-+..+++..+|+....-.|-.+|-++...+....+..+-++++||+|||+-|+ .|.+++++..+++ .+.+||-+.=
T Consensus 109 ~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~-~pRT~kEI~~~an--v~kKEIgr~~ 185 (308)
T KOG1597|consen 109 KEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQED-VPRTFKEISAVAN--VSKKEIGRCV 185 (308)
T ss_pred HHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcC-CCchHHHHHHHHc--CCHHHHHHHH
Confidence 446778999999999999999999999988899999999999999999999655 6889999998887 8999999999
Q ss_pred HHHHHHhCCcccCCc--hhhHHHHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCc
Q 013740 299 KAILEKLGWYLTVPT--PYVFLVRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLW 376 (437)
Q Consensus 299 ~~IL~~L~f~L~~pT--p~~FL~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W 376 (437)
+.|+..|+-.+..-| ..+|+.||+.... .+.+....|.++.+-+-- ..+...-+|=.||||+||++..... .+.-
T Consensus 186 K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~-L~~~~q~aA~e~a~ka~~-~~~~~gRsPiSIAAa~IYmisqls~-~kkt 262 (308)
T KOG1597|consen 186 KLIGEALETSVDLISISTGDFMPRFCSNLG-LPKSAQEAATEIAEKAEE-MDIRAGRSPISIAAAAIYMISQLSD-EKKT 262 (308)
T ss_pred HHHHHHHhccchhhhhhHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHH-hccccCCCchhHHHHHHHHHHHhcc-Cccc
Confidence 999999987776655 8899999999865 778888899998887653 2332227899999999999988776 3445
Q ss_pred hHHHHHhhCCCHHHHHHHHHHHHHHHH
Q 013740 377 TETLKHHTGYSEEQLKDCAKLLVSFHL 403 (437)
Q Consensus 377 ~~~L~~~tgys~~eL~~c~~~L~~l~~ 403 (437)
...+...||+.+..|+..++.|+.+..
T Consensus 263 ~keI~~vtgVaE~TIr~sYK~Lyp~~~ 289 (308)
T KOG1597|consen 263 QKEIGEVTGVAEVTIRNSYKDLYPHAD 289 (308)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHhhchh
Confidence 678899999999999999999997654
No 18
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.98 E-value=5.1e-08 Score=96.98 Aligned_cols=182 Identities=13% Similarity=0.132 Sum_probs=159.1
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHH
Q 013740 214 RTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQ 293 (437)
Q Consensus 214 R~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~e 293 (437)
-......|-.++..++|+..+.-.|..++-..+...-+.....+-+.++|+++||+.+. .|.++.++..+.. .+..+
T Consensus 97 l~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~-~prtl~eIa~a~~--V~~ke 173 (285)
T COG1405 97 LITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRING-VPRTLDEIAKALG--VSKKE 173 (285)
T ss_pred HHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcC-CCccHHHHHHHHC--CCHHH
Confidence 34566778889999999999999999999999999999999999999999999999877 4778999988776 67899
Q ss_pred HHHHHHHHHHHhCCcccCCchhhHHHHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCC
Q 013740 294 VLVMEKAILEKLGWYLTVPTPYVFLVRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKS 373 (437)
Q Consensus 294 Il~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~ 373 (437)
|.++.+.+...|+=.+....|.+|+.+|..... .+.++...|..|+..+.-.-.... -.|+-||+||+|+|....+.
T Consensus 174 i~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~-l~~~v~~~a~ei~~~~~~~g~~~G-k~P~glAaaaiy~as~l~~~- 250 (285)
T COG1405 174 IGRTYRLLVRELKLKIPPVDPSDYIPRFASKLG-LSDEVRRKAIEIVKKAKRAGLTAG-KSPAGLAAAAIYLASLLLGE- 250 (285)
T ss_pred HHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHhCcccC-CCchhHHHHHHHHHHHHhCC-
Confidence 999999999999999888999999999999965 668889999999988776555566 89999999999999988884
Q ss_pred CCchHHHHHhhCCCHHHHHHHHHHHHHH
Q 013740 374 PLWTETLKHHTGYSEEQLKDCAKLLVSF 401 (437)
Q Consensus 374 ~~W~~~L~~~tgys~~eL~~c~~~L~~l 401 (437)
+.-...+..++|.++..|+.-++.|.+.
T Consensus 251 ~~tq~eva~v~~vtevTIrnrykel~~~ 278 (285)
T COG1405 251 RRTQKEVAKVAGVTEVTIRNRYKELADA 278 (285)
T ss_pred chHHHHHHHHhCCeeeHHHHHHHHHHHh
Confidence 3345678899999999999998888764
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=98.75 E-value=7.4e-08 Score=75.76 Aligned_cols=81 Identities=41% Similarity=0.518 Sum_probs=73.0
Q ss_pred hHHHHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCC-CHHHHHHH
Q 013740 316 VFLVRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGY-SEEQLKDC 394 (437)
Q Consensus 316 ~FL~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgy-s~~eL~~c 394 (437)
+||.++..... .+.++..+|.++++.++.++.++. ++|+.||+||+++|.+..+.. .|...+..++|+ +.++|.++
T Consensus 1 ~~l~~~~~~~~-~~~~~~~~a~~~~~~~l~~~~~~~-~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~~~~~~i~~~ 77 (83)
T smart00385 1 DFLRRVCKALN-LDPETLNLAVNLLDRFLSDYKFLK-YSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGYFTEEEILRM 77 (83)
T ss_pred CHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHhhccc-CCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCCCCHHHHHHH
Confidence 47888888855 688999999999999999888888 999999999999999999875 699999999999 99999999
Q ss_pred HHHHH
Q 013740 395 AKLLV 399 (437)
Q Consensus 395 ~~~L~ 399 (437)
.+.|+
T Consensus 78 ~~~il 82 (83)
T smart00385 78 EKLLL 82 (83)
T ss_pred HHHHh
Confidence 88775
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=98.71 E-value=1.3e-07 Score=75.05 Aligned_cols=85 Identities=36% Similarity=0.464 Sum_probs=77.1
Q ss_pred CCchhhHHHHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCC-CHH
Q 013740 311 VPTPYVFLVRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGY-SEE 389 (437)
Q Consensus 311 ~pTp~~FL~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgy-s~~ 389 (437)
.|++..|+.++..... .+.++..+|.++++.++....+.. +.|+.||+||+++|.+..+. +.|...+..++++ +.+
T Consensus 2 ~~~~~~~l~~~~~~~~-~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~~ 78 (88)
T cd00043 2 RPTPLDFLRRVAKALG-LSPETLTLAVNLLDRFLLDYSVLG-RSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYATEE 78 (88)
T ss_pred cchHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHhccccc-CChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCCCHH
Confidence 5899999999999864 788899999999999999888877 99999999999999998887 7899999999999 999
Q ss_pred HHHHHHHHH
Q 013740 390 QLKDCAKLL 398 (437)
Q Consensus 390 eL~~c~~~L 398 (437)
+|..+...|
T Consensus 79 ~i~~~e~~i 87 (88)
T cd00043 79 EILRMEKLL 87 (88)
T ss_pred HHHHHHHHh
Confidence 999887665
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=98.54 E-value=4.1e-07 Score=82.29 Aligned_cols=92 Identities=17% Similarity=0.257 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHhhh---cc--ccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccc
Q 013740 216 ILVDWLIEVHNKFKLMPETLYLTVNILDRYLS---MK--TVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYI 290 (437)
Q Consensus 216 ~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs---~~--~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt 290 (437)
.+.+|+..+....+++++++.+|..|+||+.. .. .+.....+-+-++||.+|+|+-+.....-..+..+++ ++
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~g--is 130 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG--IS 130 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT--S-
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcC--CC
Confidence 37889999999999999999999999999998 22 4667788899999999999997776767788888865 79
Q ss_pred hHHHHHHHHHHHHHhCCcc
Q 013740 291 GSQVLVMEKAILEKLGWYL 309 (437)
Q Consensus 291 ~~eIl~mE~~IL~~L~f~L 309 (437)
.+|+..||+..|..|+|+|
T Consensus 131 ~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 131 LKELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHHHHCCCcC
Confidence 9999999999999999986
No 22
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.59 E-value=3.8e-05 Score=78.14 Aligned_cols=136 Identities=13% Similarity=0.223 Sum_probs=102.1
Q ss_pred ccchhccHHHHHHHHHHHHHhcCC-CcccccCcc--Cc-HHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhcccc
Q 013740 176 DLAVVEYVDDIYMFYKLTEEEGRV-HDYMVSQAN--IN-AKMRTILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTV 251 (437)
Q Consensus 176 ~~~~~eY~~dI~~~l~~~E~~~~~-~~yl~~Q~e--It-~~mR~~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V 251 (437)
.+...+|.-....|.+-...+... .+|-+.-|. +| .++| .|-.-|.++....++..-|+..|-.||....-+..+
T Consensus 341 ~l~F~symttvidyVrpsdlKkdmNe~FreKfP~IkLTLSKir-SlKREMr~l~~d~~id~~TVa~AyVYFEKliLkgli 419 (497)
T KOG4164|consen 341 VLIFSSYMTTVIDYVRPSDLKKDMNETFREKFPHIKLTLSKIR-SLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLI 419 (497)
T ss_pred eeEeccccceeEEEechHHHHHHHhHHHHHhCCeeEEeHHHHH-HHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhh
Confidence 344555554444444333322211 233333332 22 3555 456678888888999999999999999999999999
Q ss_pred ccccchhhHhHHHHhhhcccccCCCChhhHHHhhcc--ccchHHHHHHHHHHHHHhCCcccCC
Q 013740 252 NRRELQLVGISSMLIACKYEEIWAPQVNDFICISDY--AYIGSQVLVMEKAILEKLGWYLTVP 312 (437)
Q Consensus 252 ~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~--~yt~~eIl~mE~~IL~~L~f~L~~p 312 (437)
.+.+-.|.|-+||++|+|+.+..--.++.++.-... .+.+.|++..|.-||..|+|.|..|
T Consensus 420 sK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 420 SKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred hhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 999999999999999999998877788888865544 5689999999999999999999865
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.24 E-value=0.003 Score=67.17 Aligned_cols=168 Identities=13% Similarity=0.079 Sum_probs=123.0
Q ss_pred HHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHHHH
Q 013740 220 WLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVMEK 299 (437)
Q Consensus 220 WLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~ 299 (437)
-|-+++..+++.. .+-.|.++|--.++..-.+....++|-.+||+|+|..|-... .+-||..+.. .+.-++-.+=+
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~h-lliDfS~~Lq--v~Vy~LG~~~l 148 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDH-LLIDFSSYLQ--VSVYDLGSNFL 148 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCce-EEEEeccceE--EehhhhhHHHH
Confidence 5788999999999 999999999999999999999999999999999999766532 3334433222 45566666667
Q ss_pred HHHHHhCCc---ccCCchhhHHHHHHHhcCC--CChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCC
Q 013740 300 AILEKLGWY---LTVPTPYVFLVRYVKASVS--PDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSP 374 (437)
Q Consensus 300 ~IL~~L~f~---L~~pTp~~FL~~fl~~~~~--~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~ 374 (437)
.+...|.-+ +-...|.-|+.+|...... .+.++-..+.+|+.-..-|+-... -+|+-|+.|||++|..+.+...
T Consensus 149 ~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tG-RRPsglcGAaLliAar~h~~~r 227 (521)
T KOG1598|consen 149 EVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTG-RRPSGLCGAALLIAARMHGFRR 227 (521)
T ss_pred HHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhC-CCccchhHHHHHHHHHHcCccc
Confidence 777777766 5667788888888876332 345577778888876666776677 8999999999999988777432
Q ss_pred CchHHHHHhhCCCHHHHHH
Q 013740 375 LWTETLKHHTGYSEEQLKD 393 (437)
Q Consensus 375 ~W~~~L~~~tgys~~eL~~ 393 (437)
-...+.....+++..|..
T Consensus 228 -si~dIv~vvhV~e~Tl~k 245 (521)
T KOG1598|consen 228 -TIGDIAKVVHVCESTLSK 245 (521)
T ss_pred -cHHHHHHHHHHhHHHHHH
Confidence 223444444555554443
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=96.31 E-value=0.016 Score=45.56 Aligned_cols=65 Identities=9% Similarity=0.171 Sum_probs=53.9
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhc
Q 013740 221 LIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISD 286 (437)
Q Consensus 221 LieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~ 286 (437)
|-.++..++|+.++.-.|..++++.....-+......-++++|+++||+.+. .+.++.|+...++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~-~~~t~~eIa~~~~ 65 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNG-VPRTLKEIAEAAG 65 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTT-SSSSHHHHHHHCT
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcC-CCcCHHHHHHHhC
Confidence 3468999999999999999999999888888888999999999999999765 5778888877654
No 25
>KOG1674 consensus Cyclin [General function prediction only]
Probab=95.55 E-value=0.036 Score=53.41 Aligned_cols=95 Identities=17% Similarity=0.223 Sum_probs=72.7
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccc---------ccccc-chhhHhHHHHhhhcccccCCCChhhHHHhh
Q 013740 216 ILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKT---------VNRRE-LQLVGISSMLIACKYEEIWAPQVNDFICIS 285 (437)
Q Consensus 216 ~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~---------V~~~~-LQLvgitcL~IAsK~EE~~~p~v~dlv~is 285 (437)
.+-+++.++......+++++.+|..|||||..... ++--+ +.=.-++|+.+|+|+.+...-.-.-+..+
T Consensus 77 si~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~v- 155 (218)
T KOG1674|consen 77 SIRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKV- 155 (218)
T ss_pred chHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHh-
Confidence 34567777888889999999999999999998622 22233 55578999999999987643222222333
Q ss_pred ccccchHHHHHHHHHHHHHhCCcccCC
Q 013740 286 DYAYIGSQVLVMEKAILEKLGWYLTVP 312 (437)
Q Consensus 286 ~~~yt~~eIl~mE~~IL~~L~f~L~~p 312 (437)
+..+.+|+..+|...|..++|.+.++
T Consensus 156 -ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 -GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 45789999999999999999999875
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=95.51 E-value=0.13 Score=40.32 Aligned_cols=70 Identities=16% Similarity=0.111 Sum_probs=48.6
Q ss_pred HHHHHhcCCCChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHH
Q 013740 319 VRYVKASVSPDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGYSEEQL 391 (437)
Q Consensus 319 ~~fl~~~~~~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgys~~eL 391 (437)
.+|..... -...+...|..+...+.-. .+...-+|..+||||||+|.+..+. +.-...+...+|+++.+|
T Consensus 2 ~r~~~~L~-L~~~v~~~A~~i~~~~~~~-~~~~Gr~~~~iaAA~iY~acr~~~~-~~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 2 PRICSKLG-LPEDVRERAKEIYKKAQER-GLLKGRSPESIAAACIYLACRLNGV-PRTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHTT---HHHHHHHHHHHHHHHHT-TTSTTS-HHHHHHHHHHHHHHHTTS-SSSHHHHHHHCTSSHHHH
T ss_pred hHHHhHcC-CCHHHHHHHHHHHHHHHHc-CCcccCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhCCCCCcC
Confidence 45666643 5667888888888776543 4444388999999999999877764 344567778888887664
No 27
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=94.26 E-value=0.29 Score=49.62 Aligned_cols=89 Identities=13% Similarity=0.096 Sum_probs=75.6
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHH
Q 013740 218 VDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVM 297 (437)
Q Consensus 218 VdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~m 297 (437)
-++|..++..|+|+.++.-.|..++.+.....-.......-++++|+||||+... .+.+.+++..+++ .+...|...
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g-~~~t~keIa~v~~--Vs~~tI~~~ 296 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLG-ERRTQREVAEVAG--VTEVTVRNR 296 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhC-CCCCHHHHHHHcC--CCHHHHHHH
Confidence 4888999999999999999999999988877777889999999999999999876 4567888877764 677888888
Q ss_pred HHHHHHHhCCcc
Q 013740 298 EKAILEKLGWYL 309 (437)
Q Consensus 298 E~~IL~~L~f~L 309 (437)
=+.|+..|+..+
T Consensus 297 ykel~~~l~~~~ 308 (310)
T PRK00423 297 YKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHhCccc
Confidence 888888876543
No 28
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=92.25 E-value=0.19 Score=50.42 Aligned_cols=88 Identities=18% Similarity=0.184 Sum_probs=63.0
Q ss_pred HHcCCChHHHHHHHHHHHHhhhccccc--cccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHHHHHHHH
Q 013740 226 NKFKLMPETLYLTVNILDRYLSMKTVN--RRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVMEKAILE 303 (437)
Q Consensus 226 ~~f~L~~eTl~lAV~~lDRfLs~~~V~--~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~ 303 (437)
....|..+---.+..|++|.+.-..+. ..+...+...+.++|+|+-....-.--|.+.|+.. .|.+|+..||+.+|.
T Consensus 202 ~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd-~tveDmNe~ERqfLe 280 (343)
T KOG1675|consen 202 SWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKD-QSVDDMNALERQFLE 280 (343)
T ss_pred hhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhh-ccHhhHHHHHHHHHH
Confidence 334444444555667888877655443 66777777778999999855544333566666554 578999999999999
Q ss_pred HhCCcccCCch
Q 013740 304 KLGWYLTVPTP 314 (437)
Q Consensus 304 ~L~f~L~~pTp 314 (437)
.|+|++++|..
T Consensus 281 lLqfNinvp~s 291 (343)
T KOG1675|consen 281 LLQFNINVPSS 291 (343)
T ss_pred HHhhccCccHH
Confidence 99999998753
No 29
>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=88.70 E-value=1.7 Score=36.28 Aligned_cols=87 Identities=16% Similarity=0.074 Sum_probs=58.8
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHH
Q 013740 218 VDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVM 297 (437)
Q Consensus 218 VdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~m 297 (437)
.+||.....-.+...++.++|-++++..+....+-.-.--++|++|+++|.+.-...++--..+..++ .|+.++|..+
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t--~~~~~~l~~c 81 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPESLEKLT--GYDKEDLKEC 81 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHH--TS-HHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccCCccchhhc--CCCHHHHHHH
Confidence 45666664444456678889999999877777777778889999999999998553222233344444 3578887777
Q ss_pred HHHHHHHhC
Q 013740 298 EKAILEKLG 306 (437)
Q Consensus 298 E~~IL~~L~ 306 (437)
=..|.+.+.
T Consensus 82 ~~~i~~~~~ 90 (118)
T PF02984_consen 82 IELIQELLS 90 (118)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 666666654
No 30
>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=88.53 E-value=5 Score=34.05 Aligned_cols=72 Identities=15% Similarity=0.199 Sum_probs=49.7
Q ss_pred CChHHHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhC--CCHHHHHHHHHHHHH
Q 013740 328 PDQEMENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTG--YSEEQLKDCAKLLVS 400 (437)
Q Consensus 328 ~~~~l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tg--ys~~eL~~c~~~L~~ 400 (437)
.+.....+|-++.+.-+....... ..+..+|++|+++|.+.-+..+.+...+...++ |+.++|...=..++.
T Consensus 47 l~~~~~~~A~~~~dr~~~~~~~~~-~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~ 120 (127)
T PF00134_consen 47 LSPETLHLAIYLFDRFLSKRPVNR-SKLQLIALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILS 120 (127)
T ss_dssp -BHHHHHHHHHHHHHHHTTS-TTC-CGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHH
T ss_pred cchhHHHHHHHHHHHHHhhccccc-chhhhhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 456666777777777665555555 889999999999999988876667777777763 577777665444443
No 31
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=84.59 E-value=1.4 Score=45.12 Aligned_cols=93 Identities=12% Similarity=0.049 Sum_probs=70.1
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhH--HHhhccccchHH
Q 013740 216 ILVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDF--ICISDYAYIGSQ 293 (437)
Q Consensus 216 ~LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dl--v~is~~~yt~~e 293 (437)
-|++|+..+-..-+........|.+++...+...-+-+-..+-||++||+||+++-....|...+- ....+...|.++
T Consensus 154 ~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~ 233 (323)
T KOG0834|consen 154 YLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNEL 233 (323)
T ss_pred HHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHH
Confidence 566666666655555555777788888777777777888899999999999999976654544443 566677789999
Q ss_pred HHHHHHHHHHHhCCc
Q 013740 294 VLVMEKAILEKLGWY 308 (437)
Q Consensus 294 Il~mE~~IL~~L~f~ 308 (437)
+..+...+|..+.-+
T Consensus 234 l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 234 LDDICHEFLDLYEQT 248 (323)
T ss_pred HHHHHHHHHHHHhhc
Confidence 999999999887543
No 32
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=80.50 E-value=9.4 Score=38.40 Aligned_cols=145 Identities=17% Similarity=0.130 Sum_probs=91.7
Q ss_pred CcccchhHHhhhhhhcCCCCCCCCcccCCCCCCCCCccchhccHHHHHHHHHHHHHhcCCCcccccCccCcHHHHHHHHH
Q 013740 140 DRTFTSVLTARSKAACGITDKPKDLIVNIDAPDVNDDLAVVEYVDDIYMFYKLTEEEGRVHDYMVSQANINAKMRTILVD 219 (437)
Q Consensus 140 ~~~~~s~l~~~s~~~c~~~~~~~~~i~did~~d~~n~~~~~eY~~dI~~~l~~~E~~~~~~~yl~~Q~eIt~~mR~~LVd 219 (437)
+.+..+++.+.--++|...+.|....+=.+... +. ..+|-+.|+..-.... +... . ..-.+
T Consensus 136 GRsie~v~AA~iY~acR~~~~prtl~eIa~a~~------V~--~kei~rtyr~~~~~L~----l~~~-~------~~p~~ 196 (285)
T COG1405 136 GRSIESVAAACIYAACRINGVPRTLDEIAKALG------VS--KKEIGRTYRLLVRELK----LKIP-P------VDPSD 196 (285)
T ss_pred CCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHC------CC--HHHHHHHHHHHHHhcC----CCCC-C------CCHHH
Confidence 445677778777778988777754321111111 11 1566666652222111 1111 1 23467
Q ss_pred HHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHHHH
Q 013740 220 WLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVMEK 299 (437)
Q Consensus 220 WLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~ 299 (437)
++-..+..++|+.++--.|+.+++..............=++++|++|||.+.. ...+-.+...+++- |..-|..-=+
T Consensus 197 yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~-~~~tq~eva~v~~v--tevTIrnryk 273 (285)
T COG1405 197 YIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLG-ERRTQKEVAKVAGV--TEVTIRNRYK 273 (285)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhC-CchHHHHHHHHhCC--eeeHHHHHHH
Confidence 78899999999999999999999999988888899999999999999999876 23344555555442 3333444335
Q ss_pred HHHHHhC
Q 013740 300 AILEKLG 306 (437)
Q Consensus 300 ~IL~~L~ 306 (437)
+|...|+
T Consensus 274 el~~~~~ 280 (285)
T COG1405 274 ELADALD 280 (285)
T ss_pred HHHHhhc
Confidence 5555444
No 33
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=70.50 E-value=60 Score=29.08 Aligned_cols=87 Identities=14% Similarity=0.046 Sum_probs=53.7
Q ss_pred CchhhHHHHHHHhcCCCChHHHHHHHHHHHHHhc---chh-hhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCC
Q 013740 312 PTPYVFLVRYVKASVSPDQEMENLVFFLAELGIS---HYP-TVICYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGYS 387 (437)
Q Consensus 312 pTp~~FL~~fl~~~~~~~~~l~~la~yl~ELsL~---d~~-~l~~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgys 387 (437)
.+-.+|+.++.+... ......-+|.++++-... ... .+.....--+=++|+.+|.+.++....|+..+...+|++
T Consensus 52 i~i~~fl~ri~~~~~-~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis 130 (149)
T PF08613_consen 52 ISIRDFLSRILKYTQ-CSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGIS 130 (149)
T ss_dssp S-HHHHHHHHHHHTT---HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-
T ss_pred CcHHHHHHHHHHHcC-CChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCC
Confidence 445678888888765 555555566555544333 111 122366778888999999999988778899999999999
Q ss_pred HHHHHHHHHHHH
Q 013740 388 EEQLKDCAKLLV 399 (437)
Q Consensus 388 ~~eL~~c~~~L~ 399 (437)
..++...=..++
T Consensus 131 ~~eln~lE~~fL 142 (149)
T PF08613_consen 131 LKELNELEREFL 142 (149)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 998877544443
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=61.63 E-value=62 Score=33.27 Aligned_cols=71 Identities=14% Similarity=0.144 Sum_probs=50.0
Q ss_pred HHHcCCChHH--HHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhccccchHHHHHH
Q 013740 225 HNKFKLMPET--LYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISDYAYIGSQVLVM 297 (437)
Q Consensus 225 ~~~f~L~~eT--l~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~m 297 (437)
-+.+++.+.- +-.+-||+.--|-...+.+..-.+|+++|+++|+.-+|+-.|....+..+. .++..+|-..
T Consensus 149 LqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~F--d~~k~eid~i 221 (367)
T KOG0835|consen 149 LQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAF--DTTKREIDEI 221 (367)
T ss_pred HHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHc--CCcHHHHHHH
Confidence 3455665544 667777777777777778888999999999999999997666656554443 3455555444
No 35
>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=51.41 E-value=40 Score=30.09 Aligned_cols=65 Identities=14% Similarity=0.173 Sum_probs=50.1
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHhhhcc--ccccccchhhHhHHHHhhhcccccCCCChhhHHHh
Q 013740 219 DWLIEVHNKFKLMPETLYLTVNILDRYLSMK--TVNRRELQLVGISSMLIACKYEEIWAPQVNDFICI 284 (437)
Q Consensus 219 dWLieV~~~f~L~~eTl~lAV~~lDRfLs~~--~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~i 284 (437)
.-|.++|.+++++++..-..-.+|+..+... -+...+|--+-++|+++-||+.. ...+..+++..
T Consensus 16 ~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~-~~~sF~~Ii~~ 82 (135)
T PF01857_consen 16 VRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK-EELSFKDIIKA 82 (135)
T ss_dssp HHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT--S--HHHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc-CCCCHHHHHHH
Confidence 4577899999999998888889999988755 45677899999999999999876 45566776643
No 36
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=42.90 E-value=79 Score=32.02 Aligned_cols=69 Identities=7% Similarity=0.075 Sum_probs=59.2
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHhhhccccccccchhhHhHHHHhhhcccccCCCChhhHHHhhc
Q 013740 217 LVDWLIEVHNKFKLMPETLYLTVNILDRYLSMKTVNRRELQLVGISSMLIACKYEEIWAPQVNDFICISD 286 (437)
Q Consensus 217 LVdWLieV~~~f~L~~eTl~lAV~~lDRfLs~~~V~~~~LQLvgitcL~IAsK~EE~~~p~v~dlv~is~ 286 (437)
.-|+|...|..|+|+..+.-.|..+...+--...+.....--|+++++||++-..+ ..-+.+++..+++
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~-~kkt~keI~~vtg 271 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSD-EKKTQKEIGEVTG 271 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhcc-CcccHHHHHHHhh
Confidence 56899999999999999999999999998888888888899999999999999977 4556677766654
No 37
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=40.57 E-value=1.6e+02 Score=29.87 Aligned_cols=40 Identities=10% Similarity=0.069 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHhcchhhhccCChHHHHHHHHHHHHHHhCC
Q 013740 332 MENLVFFLAELGISHYPTVICYCPSMLAAASVYAAHCTLNK 372 (437)
Q Consensus 332 l~~la~yl~ELsL~d~~~l~~~~PS~IAaAal~lA~~~l~~ 372 (437)
+...|-.+..--++..++.. |.|-.||++|||+|.+.-+.
T Consensus 78 viaTAivyf~RFy~~~Sv~~-~~p~~Ia~tclfLA~KvEE~ 117 (305)
T TIGR00569 78 VVGTAIMYFKRFYLNNSVME-YHPKIIMLTCVFLACKVEEF 117 (305)
T ss_pred HHHHHHHHHhHHhccCchhh-cCHHHHHHHHHHHHHhcccc
Confidence 33444444444444555566 99999999999999876654
No 38
>PF11737 DUF3300: Protein of unknown function (DUF3300); InterPro: IPR021728 This hypothetical bacterial gene product has a long hydrophobic segment and is thus likely to be a membrane protein.
Probab=21.03 E-value=5.2e+02 Score=25.44 Aligned_cols=50 Identities=16% Similarity=0.117 Sum_probs=43.8
Q ss_pred cCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHHHHHHHHHHHH
Q 013740 352 CYCPSMLAAASVYAAHCTLNKSPLWTETLKHHTGYSEEQLKDCAKLLVSF 401 (437)
Q Consensus 352 ~~~PS~IAaAal~lA~~~l~~~~~W~~~L~~~tgys~~eL~~c~~~L~~l 401 (437)
...||+.|++++=-....+.....|+..|-.-.-..++++++-++.|..-
T Consensus 60 ~WDpSVkaL~~fP~VL~~Ms~~l~WTq~LGdAfl~q~~dVm~aIQ~LR~~ 109 (237)
T PF11737_consen 60 PWDPSVKALVAFPDVLQMMSDDLDWTQQLGDAFLAQPQDVMDAIQRLRQR 109 (237)
T ss_pred CCCHHHHHHHhhHHHHHHHccChHHHHHHHHHHHhCHHHHHHHHHHHHHH
Confidence 37899999999877778888888999999998888999999999988764
Done!