Query 016078
Match_columns 395
No_of_seqs 294 out of 1798
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 03:35:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016078.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016078hhsearch_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 9E-53 2E-57 426.2 25.9 283 104-391 92-381 (391)
2 COG5024 Cyclin [Cell division 100.0 9.2E-49 2E-53 395.2 17.0 261 123-387 162-424 (440)
3 KOG0654 G2/Mitotic-specific cy 100.0 4.8E-45 1E-49 359.6 13.4 262 125-390 87-351 (359)
4 KOG0655 G1/S-specific cyclin E 100.0 3.1E-40 6.8E-45 315.7 18.4 233 142-384 113-360 (408)
5 KOG0656 G1/S-specific cyclin D 100.0 1E-32 2.2E-37 270.0 21.9 215 139-355 42-268 (335)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 1.4E-26 3.1E-31 197.8 12.4 126 144-269 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 1.1E-22 2.4E-27 199.5 18.9 159 171-331 54-222 (305)
8 PF02984 Cyclin_C: Cyclin, C-t 99.9 7.9E-23 1.7E-27 171.8 10.4 118 271-390 1-118 (118)
9 KOG0834 CDK9 kinase-activating 99.8 7E-21 1.5E-25 186.9 13.8 198 164-364 30-248 (323)
10 KOG0835 Cyclin L [General func 99.8 2.9E-18 6.4E-23 165.1 19.1 189 169-363 19-231 (367)
11 KOG0794 CDK8 kinase-activating 99.8 3.7E-18 8E-23 157.5 13.8 188 173-363 41-240 (264)
12 COG5333 CCL1 Cdk activating ki 99.7 5.3E-17 1.2E-21 156.3 14.3 165 169-336 41-212 (297)
13 PRK00423 tfb transcription ini 99.6 2.8E-13 6E-18 134.0 22.7 182 174-361 123-304 (310)
14 cd00043 CYCLIN Cyclin box fold 99.5 1.8E-14 4E-19 113.2 8.6 88 172-261 1-88 (88)
15 smart00385 CYCLIN domain prese 99.5 9.1E-14 2E-18 108.2 7.8 83 178-262 1-83 (83)
16 KOG2496 Cdk activating kinase 99.3 3.3E-11 7.2E-16 115.8 16.3 148 175-325 58-218 (325)
17 KOG1597 Transcription initiati 99.2 1.3E-09 2.8E-14 104.7 17.5 181 177-363 108-290 (308)
18 COG1405 SUA7 Transcription ini 99.1 1.2E-08 2.6E-13 99.6 20.2 183 173-361 97-279 (285)
19 smart00385 CYCLIN domain prese 98.8 3.7E-08 8E-13 76.3 9.1 81 275-358 1-82 (83)
20 cd00043 CYCLIN Cyclin box fold 98.8 6.4E-08 1.4E-12 75.6 9.8 85 270-357 2-87 (88)
21 PF08613 Cyclin: Cyclin; Inte 98.5 7.1E-07 1.5E-11 79.2 9.8 92 175-268 53-149 (149)
22 KOG4164 Cyclin ik3-1/CABLES [C 98.0 3.9E-06 8.6E-11 83.5 3.2 146 126-272 322-483 (497)
23 KOG1598 Transcription initiati 97.2 0.0034 7.5E-08 65.4 12.0 173 179-357 73-250 (521)
24 PF00382 TFIIB: Transcription 96.7 0.0086 1.9E-07 46.2 7.2 65 180-245 1-65 (71)
25 PF00382 TFIIB: Transcription 96.1 0.055 1.2E-06 41.6 8.8 71 277-350 1-71 (71)
26 KOG1674 Cyclin [General functi 95.4 0.058 1.3E-06 51.0 7.6 95 175-271 77-181 (218)
27 PRK00423 tfb transcription ini 94.7 0.22 4.9E-06 49.5 10.1 90 176-268 219-308 (310)
28 KOG1675 Predicted cyclin [Gene 93.3 0.11 2.4E-06 51.0 4.5 88 184-272 201-290 (343)
29 PF00134 Cyclin_N: Cyclin, N-t 91.4 2.3 5E-05 35.5 9.9 75 285-360 45-121 (127)
30 PF02984 Cyclin_C: Cyclin, C-t 89.9 1.1 2.4E-05 36.7 6.6 87 177-265 4-90 (118)
31 KOG0834 CDK9 kinase-activating 84.6 1.1 2.4E-05 44.9 4.0 94 174-267 153-248 (323)
32 COG1405 SUA7 Transcription ini 80.2 9.7 0.00021 37.6 8.7 128 98-245 135-262 (285)
33 PF08613 Cyclin: Cyclin; Inte 70.0 65 0.0014 28.2 10.6 88 271-359 52-143 (149)
34 KOG0835 Cyclin L [General func 65.6 61 0.0013 32.7 10.1 74 181-256 146-221 (367)
35 PF01857 RB_B: Retinoblastoma- 58.7 29 0.00063 30.3 6.0 64 178-242 16-81 (135)
36 TIGR00569 ccl1 cyclin ccl1. Un 52.4 94 0.002 31.0 9.2 43 288-331 75-117 (305)
37 KOG1597 Transcription initiati 39.6 95 0.0021 30.8 6.7 69 176-245 203-271 (308)
38 PF03261 CDK5_activator: Cycli 25.3 1.5E+02 0.0032 30.1 5.5 66 174-240 222-298 (346)
39 PF14376 Haem_bd: Haem-binding 22.7 1.3E+02 0.0029 26.1 4.2 34 149-182 99-135 (137)
No 1
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=9e-53 Score=426.20 Aligned_cols=283 Identities=46% Similarity=0.670 Sum_probs=260.4
Q ss_pred hhhhhhhhhhhcccCCCCCCccCCCCCCCCCcccccccHHHHHHHHHHHHhccCCCCccccCCcCCHHhHHHHHHHHHHH
Q 016078 104 SVLTARSKAACGLINKPKDLISDIDVTDIDNELAVVEYVDDIYKFYKLTEDEGRVHDYMDAQPEINAKMRSILVDWLTEV 183 (395)
Q Consensus 104 s~l~~~s~~~~~~~~~~~~~~~diD~~d~~n~~~~~eY~~dI~~~l~~~E~~~~~~~yl~~q~~i~~~mR~~lvdWL~ev 183 (395)
++....+...|+.... .+.|+|..|..|+++++||++|||.||+..|.+..|..|+..|++++.+||.++||||++|
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 6677777888887644 5789999999999999999999999999999877787888999999999999999999999
Q ss_pred HHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHH-HhhccccccCCChhhHHHhccccccHHHHHHHHHHHHH
Q 016078 184 HRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAML-IACKYEEIWAPEVNDFVRISDSAYLREQVLAAEKAILR 262 (395)
Q Consensus 184 ~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~-IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~ 262 (395)
|.+|+|.+|||||||+++||||+...|++.++||||++||| |||||||+++|.+.||++++|++||.+||++||+.||+
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 99999999999999999999999999999999999999977 99999999999999999999999999999999999999
Q ss_pred hcCccccccChHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHh
Q 016078 263 KLEWHLTVPTPYVFLVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHH 342 (395)
Q Consensus 263 ~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~ 342 (395)
+|+|++++|||+.||++|+++.. .+.+.+.+++|++|++++|++++. ++||.+|+|++++++.+......|+.++.+|
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 99999999999999999999954 688999999999999999999999 9999999999999999998876799999999
Q ss_pred hCCCHHHHHHHHHHHHHHHhhcccc-chHH-HHHhhCCCCCCcee----ecCCCC
Q 016078 343 TGYSEDQLRNCAKLLVKFHSAAAES-KLKA-VYKKFSSLDCGAVS----LLKPAK 391 (395)
Q Consensus 343 tg~s~~~L~~c~~~L~~~~~~~~~~-~~~~-v~~KYs~~~~~~Va----~~~~~~ 391 (395)
+||++.++.+|.+.+..++...... ..+. +++||+++.|+.++ ..+.+.
T Consensus 327 sg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ky~~~~~~~~~~~~~~~~~~~ 381 (391)
T KOG0653|consen 327 SGYSESYLFECARSLSALSLSSLQNPSLRASVLNKYNSSKFLPASPHVWILEKIT 381 (391)
T ss_pred cCCCcHHHHHHHHHHHHHHHHhcccchhHHHHHHHhcccccchhhhhcceecccc
Confidence 9999999999999999866554433 4554 99999999999999 555543
No 2
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=9.2e-49 Score=395.23 Aligned_cols=261 Identities=37% Similarity=0.578 Sum_probs=248.4
Q ss_pred CccCCCCCCCCCcccccccHHHHHHHHHHHHhccCC-CCccccCCcCCHHhHHHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 016078 123 LISDIDVTDIDNELAVVEYVDDIYKFYKLTEDEGRV-HDYMDAQPEINAKMRSILVDWLTEVHRKFELMPETLYLTVHIV 201 (395)
Q Consensus 123 ~~~diD~~d~~n~~~~~eY~~dI~~~l~~~E~~~~~-~~yl~~q~~i~~~mR~~lvdWL~ev~~~f~L~~eTl~lAV~ll 201 (395)
...|+|+.+.+|++++.||..|||.|+..+|....| .+||..|+.+...||.+|+|||++||.+|++.++|||+|++++
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 457999999999999999999999999999999999 8899999999999999999999999999999999999999999
Q ss_pred HHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHHHHHHHHHhcCccccccChHHHHHHHH
Q 016078 202 DRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAAEKAILRKLEWHLTVPTPYVFLVRYI 281 (395)
Q Consensus 202 DRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl 281 (395)
||||+...+.-.++||||++||||||||||++.|.+.+|++++++.||.++|+.+|+.||..|+|+++.|+|+.|||++.
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 HHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhC-CCHHHHHHHHHHHHHH
Q 016078 282 KASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHTG-YSEDQLRNCAKLLVKF 360 (395)
Q Consensus 282 ~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~tg-~s~~~L~~c~~~L~~~ 360 (395)
++. ..+...+.+++|++|.+++++.|++ ++||.+|+||.|+++.+++..+ |...|.+++| |+..++.++...+.+.
T Consensus 322 ka~-dyd~~srt~~k~~~e~s~~~~~f~~-~~~S~~~aaa~~~s~~~~~~~~-w~~~l~~ySg~y~~~~l~~~~~~~~~~ 398 (440)
T COG5024 322 KAS-DYDIFSRTPAKFSSEISPVDYKFIQ-ISPSWCAAAAMYLSRKILSQNQ-WDRTLIHYSGNYTNPDLKPLNESNKEN 398 (440)
T ss_pred hhc-ccchhhhhhHhhhCCchHhhhhhcc-CCchHHHHHHHHHHHhhhccCC-CCccccccCCCCCchhHHHHHHHHHHH
Confidence 995 4588899999999999999999999 9999999999999999999886 9999999999 9999999999999998
Q ss_pred HhhccccchHHHHHhhCCCCCCceeec
Q 016078 361 HSAAAESKLKAVYKKFSSLDCGAVSLL 387 (395)
Q Consensus 361 ~~~~~~~~~~~v~~KYs~~~~~~Va~~ 387 (395)
+..+ ..++.++++||+++.||.++..
T Consensus 399 l~~~-~~~~~~i~~Ky~~~~~~~~s~~ 424 (440)
T COG5024 399 LQNP-SVHHDAIFPKYPSPTFGKASSP 424 (440)
T ss_pred hccc-chhhhhhhhccccccccccchH
Confidence 7654 4445899999999999998753
No 3
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=4.8e-45 Score=359.57 Aligned_cols=262 Identities=38% Similarity=0.588 Sum_probs=250.9
Q ss_pred cCCCCCCCCCcccccccHHHHHHHHHHHHhc-cCC-CCcccc-CCcCCHHhHHHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 016078 125 SDIDVTDIDNELAVVEYVDDIYKFYKLTEDE-GRV-HDYMDA-QPEINAKMRSILVDWLTEVHRKFELMPETLYLTVHIV 201 (395)
Q Consensus 125 ~diD~~d~~n~~~~~eY~~dI~~~l~~~E~~-~~~-~~yl~~-q~~i~~~mR~~lvdWL~ev~~~f~L~~eTl~lAV~ll 201 (395)
.|||. +..++++|..|..+||+|++..|.. .+| ++||.. |.++++.||.++|||+++|.+.+++..+|||++++++
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 MRIDS-VGEDPQMCLKIAAKIYNTLRVSDIKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYR 165 (359)
T ss_pred cchhh-cccchHHHHHHHHHHhhcccccchhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHH
Confidence 57775 5678999999999999999999999 888 889977 9999999999999999999999999999999999999
Q ss_pred HHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHHHHHHHHHhcCccccccChHHHHHHHH
Q 016078 202 DRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAAEKAILRKLEWHLTVPTPYVFLVRYI 281 (395)
Q Consensus 202 DRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl 281 (395)
|||+....+.+.++|++|++|++||+|+||+.+|.+.+|++++|+.|+..++..||..||+.|.|.+..||.-.|+++|+
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 HHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHHHHHHHHHHHHH
Q 016078 282 KASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHTGYSEDQLRNCAKLLVKFH 361 (395)
Q Consensus 282 ~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~tg~s~~~L~~c~~~L~~~~ 361 (395)
.++.....+++.++.||+|++++||.|+. |.||.|||||+++|+.+++ ...|+++|+++|||+.+++..|+..|. ++
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 99776677899999999999999999999 9999999999999999999 557999999999999999999999999 88
Q ss_pred hhccccchHHHHHhhCCCCCCceeecCCC
Q 016078 362 SAAAESKLKAVYKKFSSLDCGAVSLLKPA 390 (395)
Q Consensus 362 ~~~~~~~~~~v~~KYs~~~~~~Va~~~~~ 390 (395)
.++++..+++|+.||+.++|+.||.+|.+
T Consensus 323 l~~~~~~l~air~ky~~~k~~~Va~~~~p 351 (359)
T KOG0654|consen 323 LNASGTDLPAIREKYKQSKFKEVALLPVP 351 (359)
T ss_pred cCCCCCchHHHHHHhhhhhhhhhhccCCC
Confidence 89999999999999999999999998876
No 4
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.1e-40 Score=315.73 Aligned_cols=233 Identities=27% Similarity=0.511 Sum_probs=197.9
Q ss_pred HHHHHHHHHHHHhccCC-CCccccCCcCCHHhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcc-cccchhhHHHH
Q 016078 142 VDDIYKFYKLTEDEGRV-HDYMDAQPEINAKMRSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKE-TIQRKELQLVG 219 (395)
Q Consensus 142 ~~dI~~~l~~~E~~~~~-~~yl~~q~~i~~~mR~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~-~v~~~~lqLvg 219 (395)
..+.|..|...|..+.. ..|+..||++.++||++|+|||+|||+.++|.+||+|||+.||||||... .|.+.+|||||
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 68899998888876665 66779999999999999999999999999999999999999999999755 89999999999
Q ss_pred HHHHHHhhccccccCCChhhHHHhccccccHHHHHHHHHHHHHhcCccccccChHHHHHHHHHHhcCCcH----------
Q 016078 220 ISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAAEKAILRKLEWHLTVPTPYVFLVRYIKASVTSDK---------- 289 (395)
Q Consensus 220 itcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~---------- 289 (395)
+||||||+|+||++||++.+|.+++|++||.++|+.||+.||+.|+|+|+..|...||..|+......+.
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 9999999999999999999999999999999999999999999999999999999999999988432221
Q ss_pred -HHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHHHHHHHHHHHHHhhcc--c
Q 016078 290 -EMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHTGYSEDQLRNCAKLLVKFHSAAA--E 366 (395)
Q Consensus 290 -~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~tg~s~~~L~~c~~~L~~~~~~~~--~ 366 (395)
+.-++ ..|++++++|..++. |+.+.||||||+.-.. .+.+++.||+.+.+|.+|+++|..+..... .
T Consensus 273 ~efiqi-aqlLDlc~ldids~~-fsYrilaAAal~h~~s--------~e~v~kaSG~~w~~ie~cv~wm~Pf~rvi~~~~ 342 (408)
T KOG0655|consen 273 EEFIQI-AQLLDLCILDIDSLE-FSYRILAAAALCHFTS--------IEVVKKASGLEWDSIEECVDWMVPFVRVIKSTS 342 (408)
T ss_pred HHHHHH-HHHHHHHHhcccccc-chHHHHHHHHHHHHhH--------HHHHHHcccccHHHHHHHHHHHHHHHHHHhhcc
Confidence 22223 348899999999999 9999999999986532 567889999999999999999998765322 1
Q ss_pred cchHHHHHhhCCCCCCce
Q 016078 367 SKLKAVYKKFSSLDCGAV 384 (395)
Q Consensus 367 ~~~~~v~~KYs~~~~~~V 384 (395)
+-+.-.++|-.+.+.+.|
T Consensus 343 ~~~~~~~~kI~~eDsHnI 360 (408)
T KOG0655|consen 343 PVKLKTFKKIPMEDSHNI 360 (408)
T ss_pred chHhhhccCCCcccccch
Confidence 112335555555554444
No 5
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1e-32 Score=270.05 Aligned_cols=215 Identities=21% Similarity=0.395 Sum_probs=177.9
Q ss_pred cccHHHHHHHHHHHHhccCC-CC-ccccCCcCCHHhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchh--
Q 016078 139 VEYVDDIYKFYKLTEDEGRV-HD-YMDAQPEINAKMRSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKE-- 214 (395)
Q Consensus 139 ~eY~~dI~~~l~~~E~~~~~-~~-yl~~q~~i~~~mR~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~-- 214 (395)
.-+.+|+...+...|.++.| .+ ++..|..+++.||...++||.+||.++++.++|++||+|||||||+.+.+++.+
T Consensus 42 ~~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W 121 (335)
T KOG0656|consen 42 LLWDERVLANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPW 121 (335)
T ss_pred ccccHHHHHHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchH
Confidence 34667777777788888888 44 457788999999999999999999999999999999999999999999999999
Q ss_pred -hHHHHHHHHHHhhccccccCCChhhH-HHhccccccHHHHHHHHHHHHHhcCccccccChHHHHHHHHHHhcCCc----
Q 016078 215 -LQLVGISAMLIACKYEEIWAPEVNDF-VRISDSAYLREQVLAAEKAILRKLEWHLTVPTPYVFLVRYIKASVTSD---- 288 (395)
Q Consensus 215 -lqLvgitcL~IAsK~EE~~~p~v~dl-v~is~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~---- 288 (395)
+||+|++||+||||+||+..|.+.|+ +..+++.|..+.|.+||+.||.+|+|++..+||++|+++|+.. ++..
T Consensus 122 ~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~k-i~~~~~~~ 200 (335)
T KOG0656|consen 122 MLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSK-ISQKDHNK 200 (335)
T ss_pred HHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHH-cCcccchH
Confidence 99999999999999999998888888 4667999999999999999999999999999999999999987 3322
Q ss_pred HHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCC--CchHHHHHhhCCCHHHHHHHHH
Q 016078 289 KEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNP--FWTETLKHHTGYSEDQLRNCAK 355 (395)
Q Consensus 289 ~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~--~W~~~L~~~tg~s~~~L~~c~~ 355 (395)
..+...+.-++-.+..|..|+. |+||.||+|++.++...++... .....+..+.+.+.+.+..|..
T Consensus 201 ~~~~~~~s~~ll~~~~d~~Fl~-y~pSviAaa~~~~v~~~~~~l~~~~~~~~~~~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 201 HLFLKHASLFLLSVITDIKFLE-YPPSVIAAAAILSVSASVDGLDFREYENNLLSLLSLSKEKVNRCYD 268 (335)
T ss_pred HHHHHHHHHHHHHHhhhhhhhc-CChHHHHHHHHHHHHHhhcchhhhhhhHHHHHHHHhhHHhhhcchh
Confidence 2334445555556778999999 9999999998877665554321 1123455556667777676666
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=99.94 E-value=1.4e-26 Score=197.78 Aligned_cols=126 Identities=37% Similarity=0.736 Sum_probs=115.8
Q ss_pred HHHHHHHHHHhccCC-CCccccCCcCCHHhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHH
Q 016078 144 DIYKFYKLTEDEGRV-HDYMDAQPEINAKMRSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISA 222 (395)
Q Consensus 144 dI~~~l~~~E~~~~~-~~yl~~q~~i~~~mR~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitc 222 (395)
|||+++.+.|.+..+ ++|++.|++++..+|..+++||.+++..++++++|+++|+.|||||+....+.+.+++++|++|
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 799999999999876 8899988899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccccccCCChhhHHHhccccccHHHHHHHHHHHHHhcCcccc
Q 016078 223 MLIACKYEEIWAPEVNDFVRISDSAYLREQVLAAEKAILRKLEWHLT 269 (395)
Q Consensus 223 L~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL~~L~f~L~ 269 (395)
|+||+|+||..+|.+.+++.++++.|+.++|.+||+.||++|+|+++
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=99.90 E-value=1.1e-22 Score=199.46 Aligned_cols=159 Identities=18% Similarity=0.286 Sum_probs=137.6
Q ss_pred HhHHHHHHHHHHHHHHcC--CChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhcccc-
Q 016078 171 KMRSILVDWLTEVHRKFE--LMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSA- 247 (395)
Q Consensus 171 ~mR~~lvdWL~ev~~~f~--L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~- 247 (395)
.+|..-+++|.++|.+|+ |+++|+.+|+.||+||+...++...+.++|++||||||||+||.. .++.+|+......
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 567778899999999999 999999999999999999999999999999999999999999995 5789998765543
Q ss_pred -ccHHHHHHHHHHHHHhcCccccccChHHHHHHHHHHh------cCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHH
Q 016078 248 -YLREQVLAAEKAILRKLEWHLTVPTPYVFLVRYIKAS------VTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAAS 320 (395)
Q Consensus 248 -yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~------~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaa 320 (395)
.+.++|+.||..||+.|+|+|.+++||.||..|+... ....+.+...|+.++..+++..-++. |+||.||+|
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 3679999999999999999999999999999988531 12234577777777776776666788 999999999
Q ss_pred HHHHHHHHhCC
Q 016078 321 AVYAARCTLNK 331 (395)
Q Consensus 321 al~lA~~~l~~ 331 (395)
||++|...++.
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=7.9e-23 Score=171.81 Aligned_cols=118 Identities=42% Similarity=0.721 Sum_probs=104.9
Q ss_pred cChHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHH
Q 016078 271 PTPYVFLVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHTGYSEDQL 350 (395)
Q Consensus 271 pTp~~FL~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~tg~s~~~L 350 (395)
|||++||++|++. .+.+.++..+++||+|++++|+.|+. |+||.||+||+++|+.+++..+.|++.+..++|+++++|
T Consensus 1 PTp~~Fl~~~~~~-~~~~~~~~~~a~~l~el~l~~~~fl~-~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~~~~~l 78 (118)
T PF02984_consen 1 PTPYDFLRRFLKI-SNADQEVRNLARYLLELSLLDYEFLQ-YPPSVIAAAAILLARKILGKEPPWPESLEKLTGYDKEDL 78 (118)
T ss_dssp --HHHHHHHHHTS-SSHHHHHHHHHHHHHHHHHHSHHHTT-S-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS-HHHH
T ss_pred CcHHHHHHHHHHH-cCCcHHHHHHHHHHHHHHHhhccccC-CCHHHHHHHHHHHHHHHhCccccCCccchhhcCCCHHHH
Confidence 8999999999776 34467899999999999999999999 999999999999999999876789999999999999999
Q ss_pred HHHHHHHHHHHhhccccchHHHHHhhCCCCCCceeecCCC
Q 016078 351 RNCAKLLVKFHSAAAESKLKAVYKKFSSLDCGAVSLLKPA 390 (395)
Q Consensus 351 ~~c~~~L~~~~~~~~~~~~~~v~~KYs~~~~~~Va~~~~~ 390 (395)
.+|++.|..++......++++|++||++.+|+.||.++||
T Consensus 79 ~~c~~~i~~~~~~~~~~~~~ai~~Kys~~~~~~vs~~~~~ 118 (118)
T PF02984_consen 79 KECIELIQELLSKASNSKLQAIRKKYSSQKFSSVSQIPPP 118 (118)
T ss_dssp HHHHHHHHHHHHHCCGSSCTHHHHHTTSGGGTTGGGSS--
T ss_pred HHHHHHHHHHHHhcCCccchHHHHHhCccccCCccCCCCC
Confidence 9999999999988777889999999999999999999875
No 9
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.85 E-value=7e-21 Score=186.88 Aligned_cols=198 Identities=18% Similarity=0.295 Sum_probs=167.2
Q ss_pred cCCcCCHHhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHh
Q 016078 164 AQPEINAKMRSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRI 243 (395)
Q Consensus 164 ~q~~i~~~mR~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~i 243 (395)
...+-....|.....||.+++.++++++-|+..|+.|++||+...++.....+.+|++|||||+|+||. +.+++|++..
T Consensus 30 ~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEet-p~kl~dIi~~ 108 (323)
T KOG0834|consen 30 IDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEET-PRKLEDIIKV 108 (323)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccC-cccHHHHHHH
Confidence 333444567899999999999999999999999999999999999999999999999999999999998 7779998876
Q ss_pred cccccc-------------HHHHHHHHHHHHHhcCccccccChHHHHHHHHHHhcCCcH----HHHHHHHHHHHHhhcch
Q 016078 244 SDSAYL-------------REQVLAAEKAILRKLEWHLTVPTPYVFLVRYIKASVTSDK----EMENMVFFLAELGQMQY 306 (395)
Q Consensus 244 s~~~yt-------------~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~----~~~~la~~l~El~L~d~ 306 (395)
+...+. ++.|+..|+.||++|+|++++-.||.||..|++.. ..+. .+..+|+.++..++...
T Consensus 109 s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l-~~~~~~~~~~a~~Aw~~~nD~~~t~ 187 (323)
T KOG0834|consen 109 SYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKL-KADENLKQPLAQAAWNFVNDSLRTT 187 (323)
T ss_pred HHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHh-hhhhhccccHHHHHHHHhchhheee
Confidence 654443 46899999999999999999999999999999983 3233 48899999999999888
Q ss_pred hhhccCChHHHHHHHHHHHHHHhCCC-CCchHH-HHHhhC--CCHHHHHHHHHHHHHHHhhc
Q 016078 307 PTIVLYCPSMIAASAVYAARCTLNKN-PFWTET-LKHHTG--YSEDQLRNCAKLLVKFHSAA 364 (395)
Q Consensus 307 ~~~~~~~PS~IAaaal~lA~~~l~~~-~~W~~~-L~~~tg--~s~~~L~~c~~~L~~~~~~~ 364 (395)
-++. |.|..||+|||++|....+.. +.|... .-...+ .+.++|.++...++.++...
T Consensus 188 ~cL~-y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 188 LCLQ-YSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQT 248 (323)
T ss_pred eeEe-ecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhc
Confidence 6677 999999999999999887641 222222 334456 89999999999999998653
No 10
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.80 E-value=2.9e-18 Score=165.14 Aligned_cols=189 Identities=19% Similarity=0.337 Sum_probs=164.5
Q ss_pred CHHhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhcccc-
Q 016078 169 NAKMRSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSA- 247 (395)
Q Consensus 169 ~~~mR~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~- 247 (395)
....|..-+.||.+-+.-++|++.+.+.+..+|.||+...++.+.++..++++|++||||+||. |-.+.|++++....
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 4567888999999999999999999999999999999999999999999999999999999997 66677766554321
Q ss_pred ----------------c--cHHHHHHHHHHHHHhcCccccccChHHHHHHHHHHhc-CCcHHHHHHHHHHHHHhhcchhh
Q 016078 248 ----------------Y--LREQVLAAEKAILRKLEWHLTVPTPYVFLVRYIKASV-TSDKEMENMVFFLAELGQMQYPT 308 (395)
Q Consensus 248 ----------------y--t~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~-~~~~~~~~la~~l~El~L~d~~~ 308 (395)
| .+.++.++|..||+.|+|++++-.|+-++..|+.... +....+.+.+|-++..++-..-|
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 1 2357899999999999999999999999999998832 32345789999999999988888
Q ss_pred hccCChHHHHHHHHHHHHHHhC----CCCCchHHHHHhhCCCHHHHHHHHHHHHHHHhh
Q 016078 309 IVLYCPSMIAASAVYAARCTLN----KNPFWTETLKHHTGYSEDQLRNCAKLLVKFHSA 363 (395)
Q Consensus 309 ~~~~~PS~IAaaal~lA~~~l~----~~~~W~~~L~~~tg~s~~~L~~c~~~L~~~~~~ 363 (395)
+. |+|+.|||||+|+|-..++ ..|.|. .+.+.++++|.+++..++.++..
T Consensus 178 vr-y~pe~iACaciyLaAR~~eIpLp~~P~Wf----~~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 178 VR-YSPESIACACIYLAARNLEIPLPFQPHWF----KAFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred ee-cCHHHHHHHHHHHHHhhhcCCCCCCccHH----HHcCCcHHHHHHHHHHHHHHHHh
Confidence 88 9999999999999999998 455565 57899999999999999999876
No 11
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.77 E-value=3.7e-18 Score=157.52 Aligned_cols=188 Identities=16% Similarity=0.288 Sum_probs=156.4
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhc--------
Q 016078 173 RSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRIS-------- 244 (395)
Q Consensus 173 R~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is-------- 244 (395)
+-..-+.|..+++++++.+.++.+|+.||-||+.++++..-++.|++.||+++|||+||.-.-.++-++...
T Consensus 41 ~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~ 120 (264)
T KOG0794|consen 41 KIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFS 120 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcc
Confidence 344557799999999999999999999999999999999999999999999999999998412222222111
Q ss_pred ----cccccHHHHHHHHHHHHHhcCccccccChHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHH
Q 016078 245 ----DSAYLREQVLAAEKAILRKLEWHLTVPTPYVFLVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAAS 320 (395)
Q Consensus 245 ----~~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaa 320 (395)
...|...+|+.||..+|+.|++.|-+-+||.-|..|+......|+.+.++++.+...++...-++. |+|.+||.|
T Consensus 121 ~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll-~PPh~IalA 199 (264)
T KOG0794|consen 121 YWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDSYRMDLCLL-YPPHQIALA 199 (264)
T ss_pred cchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcchhhcceeee-cCHHHHHHH
Confidence 124567899999999999999999999999999999988655688899999999999887666677 999999999
Q ss_pred HHHHHHHHhCCCCCchHHHHHhhCCCHHHHHHHHHHHHHHHhh
Q 016078 321 AVYAARCTLNKNPFWTETLKHHTGYSEDQLRNCAKLLVKFHSA 363 (395)
Q Consensus 321 al~lA~~~l~~~~~W~~~L~~~tg~s~~~L~~c~~~L~~~~~~ 363 (395)
|++.|++..+++- +..+-.-...+.+.+.+|++.++.++..
T Consensus 200 cl~Ia~~~~~k~~--~~~w~~el~vD~ekV~~~v~~I~~lYe~ 240 (264)
T KOG0794|consen 200 CLYIACVIDEKDI--PKAWFAELSVDMEKVKDIVQEILKLYEL 240 (264)
T ss_pred HHHHHHhhcCCCh--HHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence 9999999888753 2333344578899999999999988754
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=99.73 E-value=5.3e-17 Score=156.32 Aligned_cols=165 Identities=20% Similarity=0.316 Sum_probs=140.3
Q ss_pred CHHhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhcc---
Q 016078 169 NAKMRSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISD--- 245 (395)
Q Consensus 169 ~~~mR~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~--- 245 (395)
..+.|..-..|+..+|.+++|+..++-+||.+|+||+.+.++....++-|+.||+++|||+||. +-.+.-......
T Consensus 41 e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~-~~~I~i~~~~~~~~~ 119 (297)
T COG5333 41 ELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDT-PRDISIESFEARDLW 119 (297)
T ss_pred hhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccc-cchhhHHHHHhhccc
Confidence 3456777779999999999999999999999999999999999999999999999999999996 222222222222
Q ss_pred ---ccccHHHHHHHHHHHHHhcCccccccChHHHHHHHHHHhcCCcH-HHHHHHHHHHHHhhcchhhhccCChHHHHHHH
Q 016078 246 ---SAYLREQVLAAEKAILRKLEWHLTVPTPYVFLVRYIKASVTSDK-EMENMVFFLAELGQMQYPTIVLYCPSMIAASA 321 (395)
Q Consensus 246 ---~~yt~~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~-~~~~la~~l~El~L~d~~~~~~~~PS~IAaaa 321 (395)
..-+++.|+.+|..||+.|+|++.+++||.++..|++.....+. +..++||-++..++...-++. |+|..||+||
T Consensus 120 se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~~t~~~ll-ypphiIA~a~ 198 (297)
T COG5333 120 SEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLCLL-YPPHIIALAA 198 (297)
T ss_pred cccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhceeeee-cChHHHHHHH
Confidence 23478999999999999999999999999999999998554344 689999999999999888899 9999999999
Q ss_pred HHHHHHHhCCCCCch
Q 016078 322 VYAARCTLNKNPFWT 336 (395)
Q Consensus 322 l~lA~~~l~~~~~W~ 336 (395)
++.|.+.++. +.|.
T Consensus 199 l~ia~~~~~~-~~~~ 212 (297)
T COG5333 199 LLIACEVLGM-PIIK 212 (297)
T ss_pred HHHHHHhcCC-ccch
Confidence 9999998875 3454
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.58 E-value=2.8e-13 Score=133.98 Aligned_cols=182 Identities=17% Similarity=0.216 Sum_probs=158.2
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHH
Q 016078 174 SILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQV 253 (395)
Q Consensus 174 ~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eI 253 (395)
.....-|-+++..++|+..+.-.|..|+.+++....+.......++++|||+|||.|+. |.++.|+..+++ .+..+|
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~-prtl~eI~~~~~--v~~k~i 199 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKV-PRTLDEIAEVSR--VSRKEI 199 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhC--CCHHHH
Confidence 44557789999999999999999999999999999999999999999999999997665 789999988765 588999
Q ss_pred HHHHHHHHHhcCccccccChHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCC
Q 016078 254 LAAEKAILRKLEWHLTVPTPYVFLVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNP 333 (395)
Q Consensus 254 l~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~ 333 (395)
.+.++.|++.|++++....|..|+.+|... +..+..+...|.++++.+.-. .++...+|..|||||||+|....+..
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 GRCYRFLLRELNLKLPPTDPIDYVPRFASE-LGLSGEVQKKAIEILQKAKEK-GLTSGKGPTGLAAAAIYIASLLLGER- 276 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHH-cCCCHHHHHHHHHHHHHHHhc-CcccCCCHHHHHHHHHHHHHHHhCCC-
Confidence 999999999999999999999999999998 556788999999999876543 34434999999999999998877643
Q ss_pred CchHHHHHhhCCCHHHHHHHHHHHHHHH
Q 016078 334 FWTETLKHHTGYSEDQLRNCAKLLVKFH 361 (395)
Q Consensus 334 ~W~~~L~~~tg~s~~~L~~c~~~L~~~~ 361 (395)
.-...+...+|.++..|...++.|...+
T Consensus 277 ~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 277 RTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred CCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 3456778899999999999999998754
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=99.55 E-value=1.8e-14 Score=113.18 Aligned_cols=88 Identities=38% Similarity=0.588 Sum_probs=82.2
Q ss_pred hHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHH
Q 016078 172 MRSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLRE 251 (395)
Q Consensus 172 mR~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~ 251 (395)
+|...++||.+++..++++++|+++|+.++|||+....+.+.+++++|++||+||+|++|. ++...++..+++.. +.+
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 3678999999999999999999999999999999999999999999999999999999999 88999998887654 899
Q ss_pred HHHHHHHHHH
Q 016078 252 QVLAAEKAIL 261 (395)
Q Consensus 252 eIl~mE~~IL 261 (395)
+|..||+.||
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=99.49 E-value=9.1e-14 Score=108.18 Aligned_cols=83 Identities=35% Similarity=0.546 Sum_probs=76.4
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHHHH
Q 016078 178 DWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAAE 257 (395)
Q Consensus 178 dWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE 257 (395)
+||.+++..++++++|.++|++++|||+....+.+...+++|++||+||+|++|.. |...++...++. |+.++|..||
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 59999999999999999999999999999887888999999999999999999985 667888887776 8999999999
Q ss_pred HHHHH
Q 016078 258 KAILR 262 (395)
Q Consensus 258 ~~IL~ 262 (395)
+.||+
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 99974
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=99.34 E-value=3.3e-11 Score=115.81 Aligned_cols=148 Identities=23% Similarity=0.329 Sum_probs=113.9
Q ss_pred HHHHHHHHHHHHc--CCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhcc--ccccH
Q 016078 175 ILVDWLTEVHRKF--ELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISD--SAYLR 250 (395)
Q Consensus 175 ~lvdWL~ev~~~f--~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~--~~yt~ 250 (395)
.-..-+++.+.+| .|+.+++..|+.+|-||+-..+|..-....|.+||+|+|||+||.+ .++.+|+.-.. ..-+.
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 3445566667766 5899999999999999999999999999999999999999999985 45899986543 23478
Q ss_pred HHHHHHHHHHHHhcCccccccChHHHHHHHHHHh------cCCcHHHH-HH--HHHHHHHhhcchhhhccCChHHHHHHH
Q 016078 251 EQVLAAEKAILRKLEWHLTVPTPYVFLVRYIKAS------VTSDKEME-NM--VFFLAELGQMQYPTIVLYCPSMIAASA 321 (395)
Q Consensus 251 ~eIl~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~------~~~~~~~~-~l--a~~l~El~L~d~~~~~~~~PS~IAaaa 321 (395)
+.|+..|..+|+.|+|+|.+.+||.=|+-|+... ....+.+. +. -.|+-...++| .++. |+||+||.||
T Consensus 137 e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltD-a~lL-ytPsQIALaA 214 (325)
T KOG2496|consen 137 EIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTD-AYLL-YTPSQIALAA 214 (325)
T ss_pred HHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhc-ccee-cChHHHHHHH
Confidence 9999999999999999999999999998887541 11111111 11 13444444444 4566 9999999999
Q ss_pred HHHH
Q 016078 322 VYAA 325 (395)
Q Consensus 322 l~lA 325 (395)
|..|
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=1.3e-09 Score=104.71 Aligned_cols=181 Identities=17% Similarity=0.179 Sum_probs=153.7
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHHH
Q 016078 177 VDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAA 256 (395)
Q Consensus 177 vdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~m 256 (395)
..-|..+++..+|+.-..-.|-.+|.++...+....+..+-++++||+|||.-|+. |.+++++..+++ .+++||-+.
T Consensus 108 ~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~-pRT~kEI~~~an--v~kKEIgr~ 184 (308)
T KOG1597|consen 108 FKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDV-PRTFKEISAVAN--VSKKEIGRC 184 (308)
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCC-CchHHHHHHHHc--CCHHHHHHH
Confidence 34578899999999999999999999999888999999999999999999996665 889999988776 799999999
Q ss_pred HHHHHHhcCccccccC--hHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCC
Q 016078 257 EKAILRKLEWHLTVPT--PYVFLVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPF 334 (395)
Q Consensus 257 E~~IL~~L~f~L~~pT--p~~FL~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~ 334 (395)
=+.|++.|+=....-+ .-+|+.||+.. +..+......|.++.+-+---...-. -+|-.||||+||++....+. +.
T Consensus 185 ~K~i~~~l~~s~~~~s~~t~~~m~RFCs~-L~L~~~~q~aA~e~a~ka~~~~~~~g-RsPiSIAAa~IYmisqls~~-kk 261 (308)
T KOG1597|consen 185 VKLIGEALETSVDLISISTGDFMPRFCSN-LGLPKSAQEAATEIAEKAEEMDIRAG-RSPISIAAAAIYMISQLSDE-KK 261 (308)
T ss_pred HHHHHHHHhccchhhhhhHHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHHhccccC-CCchhHHHHHHHHHHHhccC-cc
Confidence 9999999987766555 89999999998 56788889999998887653222233 68999999999999887763 34
Q ss_pred chHHHHHhhCCCHHHHHHHHHHHHHHHhh
Q 016078 335 WTETLKHHTGYSEDQLRNCAKLLVKFHSA 363 (395)
Q Consensus 335 W~~~L~~~tg~s~~~L~~c~~~L~~~~~~ 363 (395)
-...+...||..|..|+..++.|+.+...
T Consensus 262 t~keI~~vtgVaE~TIr~sYK~Lyp~~~~ 290 (308)
T KOG1597|consen 262 TQKEIGEVTGVAEVTIRNSYKDLYPHADK 290 (308)
T ss_pred cHHHHHHHhhhhHHHHHHHHHHHhhchhh
Confidence 56778899999999999999999976543
No 18
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.09 E-value=1.2e-08 Score=99.56 Aligned_cols=183 Identities=14% Similarity=0.206 Sum_probs=161.6
Q ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHH
Q 016078 173 RSILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQ 252 (395)
Q Consensus 173 R~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~e 252 (395)
-......|-.++..++|+..+.-.|..++-+.+...-+.....+-+.++|+|+||+.+.. |.++.++..+.. -++.+
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 LITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGV-PRTLDEIAKALG--VSKKE 173 (285)
T ss_pred HHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCC-CccHHHHHHHHC--CCHHH
Confidence 456678889999999999999999999999999999999999999999999999998776 778889988776 57899
Q ss_pred HHHHHHHHHHhcCccccccChHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCC
Q 016078 253 VLAAEKAILRKLEWHLTVPTPYVFLVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKN 332 (395)
Q Consensus 253 Il~mE~~IL~~L~f~L~~pTp~~FL~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~ 332 (395)
|.++.+.+.+.|+=.+....|..|+.+|... ++.+.++...|..|+..+.-.-.... -.|+-||+||+|+|....+.
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 IGRTYRLLVRELKLKIPPVDPSDYIPRFASK-LGLSDEVRRKAIEIVKKAKRAGLTAG-KSPAGLAAAAIYLASLLLGE- 250 (285)
T ss_pred HHHHHHHHHHhcCCCCCCCCHHHHHHHHHHH-cCCCHHHHHHHHHHHHHHHHhCcccC-CCchhHHHHHHHHHHHHhCC-
Confidence 9999999999999998889999999999998 66789999999999988876665567 89999999999999988873
Q ss_pred CCchHHHHHhhCCCHHHHHHHHHHHHHHH
Q 016078 333 PFWTETLKHHTGYSEDQLRNCAKLLVKFH 361 (395)
Q Consensus 333 ~~W~~~L~~~tg~s~~~L~~c~~~L~~~~ 361 (395)
+.-...+.+++|.++..|+.-.+.|....
T Consensus 251 ~~tq~eva~v~~vtevTIrnrykel~~~~ 279 (285)
T COG1405 251 RRTQKEVAKVAGVTEVTIRNRYKELADAL 279 (285)
T ss_pred chHHHHHHHHhCCeeeHHHHHHHHHHHhh
Confidence 34456788999999999999998887654
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=98.79 E-value=3.7e-08 Score=76.25 Aligned_cols=81 Identities=38% Similarity=0.502 Sum_probs=72.9
Q ss_pred HHHHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCC-CHHHHHHH
Q 016078 275 VFLVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHTGY-SEDQLRNC 353 (395)
Q Consensus 275 ~FL~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~tg~-s~~~L~~c 353 (395)
.|+.++... ...+.++..+|.++++..+.++.+.. ++|+.||+||+++|.+..+.. .|...+..++|+ +.++|.++
T Consensus 1 ~~l~~~~~~-~~~~~~~~~~a~~~~~~~l~~~~~~~-~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~~~~~~i~~~ 77 (83)
T smart00385 1 DFLRRVCKA-LNLDPETLNLAVNLLDRFLSDYKFLK-YSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGYFTEEEILRM 77 (83)
T ss_pred CHHHHHHHH-cCCCHHHHHHHHHHHHHHHHHhhccc-CCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCCCCHHHHHHH
Confidence 378888887 45688999999999999999888888 999999999999999988875 699999999999 99999999
Q ss_pred HHHHH
Q 016078 354 AKLLV 358 (395)
Q Consensus 354 ~~~L~ 358 (395)
.+.|+
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=98.76 E-value=6.4e-08 Score=75.60 Aligned_cols=85 Identities=34% Similarity=0.490 Sum_probs=77.2
Q ss_pred ccChHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCC-CHH
Q 016078 270 VPTPYVFLVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHTGY-SED 348 (395)
Q Consensus 270 ~pTp~~FL~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~tg~-s~~ 348 (395)
.|++..|+.++... ...+.++..+|.+++|..+....+.. ++|+.||+||+++|.+..+. +.|...+..++++ +.+
T Consensus 2 ~~~~~~~l~~~~~~-~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~~ 78 (88)
T cd00043 2 RPTPLDFLRRVAKA-LGLSPETLTLAVNLLDRFLLDYSVLG-RSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYATEE 78 (88)
T ss_pred cchHHHHHHHHHHH-cCCCHHHHHHHHHHHHHHHHhccccc-CChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCCCHH
Confidence 58999999999998 46688999999999999999888877 99999999999999998887 7899999999999 999
Q ss_pred HHHHHHHHH
Q 016078 349 QLRNCAKLL 357 (395)
Q Consensus 349 ~L~~c~~~L 357 (395)
+|..+...+
T Consensus 79 ~i~~~e~~i 87 (88)
T cd00043 79 EILRMEKLL 87 (88)
T ss_pred HHHHHHHHh
Confidence 999887765
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=98.50 E-value=7.1e-07 Score=79.23 Aligned_cols=92 Identities=17% Similarity=0.343 Sum_probs=72.2
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHHhh---cc--cccchhhHHHHHHHHHHhhccccccCCChhhHHHhcccccc
Q 016078 175 ILVDWLTEVHRKFELMPETLYLTVHIVDRFLS---KE--TIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYL 249 (395)
Q Consensus 175 ~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs---~~--~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt 249 (395)
.+.+|+..+...-+++++++.+|..|+||+.. .. .+.....+-+-++||.+|+|+=+-....-..+..+++ ++
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 38899999999999999999999999999998 22 4667788999999999999997766777778888865 69
Q ss_pred HHHHHHHHHHHHHhcCccc
Q 016078 250 REQVLAAEKAILRKLEWHL 268 (395)
Q Consensus 250 ~~eIl~mE~~IL~~L~f~L 268 (395)
.+|+-.||+..|..|+|+|
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=97.99 E-value=3.9e-06 Score=83.52 Aligned_cols=146 Identities=18% Similarity=0.315 Sum_probs=108.4
Q ss_pred CCCCCCCCCccc----------ccccHHHHHHHHHHHHhccCC-CCccccCCcC--C-HHhHHHHHHHHHHHHHHcCCCh
Q 016078 126 DIDVTDIDNELA----------VVEYVDDIYKFYKLTEDEGRV-HDYMDAQPEI--N-AKMRSILVDWLTEVHRKFELMP 191 (395)
Q Consensus 126 diD~~d~~n~~~----------~~eY~~dI~~~l~~~E~~~~~-~~yl~~q~~i--~-~~mR~~lvdWL~ev~~~f~L~~ 191 (395)
|.|+.-.|||.+ .++|.-....|.+-...+... .+|-++-|.| | .++| .|-.-|.++....++..
T Consensus 322 dydasllDdPq~~~gkhk~~l~F~symttvidyVrpsdlKkdmNe~FreKfP~IkLTLSKir-SlKREMr~l~~d~~id~ 400 (497)
T KOG4164|consen 322 DYDASLLDDPQWPCGKHKRVLIFSSYMTTVIDYVRPSDLKKDMNETFREKFPHIKLTLSKIR-SLKREMRELGEDCGIDV 400 (497)
T ss_pred ccCcccccCcccccccccceeEeccccceeEEEechHHHHHHHhHHHHHhCCeeEEeHHHHH-HHHHHHHHhhhccCccc
Confidence 556655566544 445544444444433322222 2333343432 2 3444 46677888899999999
Q ss_pred HHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccc--cccHHHHHHHHHHHHHhcCcccc
Q 016078 192 ETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDS--AYLREQVLAAEKAILRKLEWHLT 269 (395)
Q Consensus 192 eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~--~yt~~eIl~mE~~IL~~L~f~L~ 269 (395)
-|+.+|..||.....+..+.+.+-.|++-+||++|+|+.+..--.++.++.-... .+.+.|++..|.-||-+|+|.|.
T Consensus 401 ~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia~Ef~VlvaLefaL~ 480 (497)
T KOG4164|consen 401 VTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIAFEFPVLVALEFALH 480 (497)
T ss_pred eeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhhhhhhHHHhhhhhcc
Confidence 9999999999999999999999999999999999999998888888888765543 46889999999999999999998
Q ss_pred ccC
Q 016078 270 VPT 272 (395)
Q Consensus 270 ~pT 272 (395)
.|-
T Consensus 481 ~~~ 483 (497)
T KOG4164|consen 481 LPE 483 (497)
T ss_pred CCh
Confidence 653
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.22 E-value=0.0034 Score=65.43 Aligned_cols=173 Identities=12% Similarity=0.097 Sum_probs=128.7
Q ss_pred HHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHHHHH
Q 016078 179 WLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAAEK 258 (395)
Q Consensus 179 WL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~ 258 (395)
-|-+++..+++.. .+-.|.++|--.++..-++....++|-.+||||+|..|-. +--+-||..+.. .+.-++-.+=+
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t-~hlliDfS~~Lq--v~Vy~LG~~~l 148 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKT-DHLLIDFSSYLQ--VSVYDLGSNFL 148 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCC-ceEEEEeccceE--EehhhhhHHHH
Confidence 6889999999999 9999999999999999999999999999999999997655 333445543332 46667777777
Q ss_pred HHHHhcCcc---ccccChHHHHHHHHHHhc--CCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCC
Q 016078 259 AILRKLEWH---LTVPTPYVFLVRYIKASV--TSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNP 333 (395)
Q Consensus 259 ~IL~~L~f~---L~~pTp~~FL~~fl~~~~--~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~ 333 (395)
.+-..|.-+ +-..-|.-|+.||..... ..+.++-..|.+|+.-..-|.-... -+|+-|+.|||++|..+.|..
T Consensus 149 ~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tG-RRPsglcGAaLliAar~h~~~- 226 (521)
T KOG1598|consen 149 EVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTG-RRPSGLCGAALLIAARMHGFR- 226 (521)
T ss_pred HHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhC-CCccchhHHHHHHHHHHcCcc-
Confidence 788888776 566778888888887632 2234577778888877777776667 899999999999998877642
Q ss_pred CchHHHHHhhCCCHHHHHHHHHHH
Q 016078 334 FWTETLKHHTGYSEDQLRNCAKLL 357 (395)
Q Consensus 334 ~W~~~L~~~tg~s~~~L~~c~~~L 357 (395)
.--..+......++..|..-...+
T Consensus 227 rsi~dIv~vvhV~e~Tl~kRl~Ef 250 (521)
T KOG1598|consen 227 RTIGDIAKVVHVCESTLSKRLKEF 250 (521)
T ss_pred ccHHHHHHHHHHhHHHHHHHHHHH
Confidence 123344555556666555444333
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=96.66 E-value=0.0086 Score=46.15 Aligned_cols=65 Identities=8% Similarity=0.247 Sum_probs=53.8
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhcc
Q 016078 180 LTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISD 245 (395)
Q Consensus 180 L~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~ 245 (395)
|-.++..++|+..+.-.|..++++-....-+......-++++|+|+||+.+.. +.++.|+...++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~-~~t~~eIa~~~~ 65 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGV-PRTLKEIAEAAG 65 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTS-SSSHHHHHHHCT
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhC
Confidence 45789999999999999999999999888888889999999999999997654 667888876654
No 25
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=96.08 E-value=0.055 Score=41.58 Aligned_cols=71 Identities=17% Similarity=0.147 Sum_probs=50.2
Q ss_pred HHHHHHHhcCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCCHHHH
Q 016078 277 LVRYIKASVTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHTGYSEDQL 350 (395)
Q Consensus 277 L~~fl~~~~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~tg~s~~~L 350 (395)
+.+|... ++.+..+...|..+.+.+.-. .+...-+|..+||||||+|+...+. +.-...+...+|.++.+|
T Consensus 1 I~r~~~~-L~L~~~v~~~A~~i~~~~~~~-~~~~Gr~~~~iaAA~iY~acr~~~~-~~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSK-LGLPEDVRERAKEIYKKAQER-GLLKGRSPESIAAACIYLACRLNGV-PRTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHH-TT--HHHHHHHHHHHHHHHHT-TTSTTS-HHHHHHHHHHHHHHHTTS-SSSHHHHHHHCTSSHHHH
T ss_pred ChHHHhH-cCCCHHHHHHHHHHHHHHHHc-CCcccCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhCCCCCcC
Confidence 3456666 455778899999998876554 3443388999999999999876664 445667778888887764
No 26
>KOG1674 consensus Cyclin [General function prediction only]
Probab=95.35 E-value=0.058 Score=51.02 Aligned_cols=95 Identities=16% Similarity=0.282 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcc---------cccchh-hHHHHHHHHHHhhccccccCCChhhHHHhc
Q 016078 175 ILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKE---------TIQRKE-LQLVGISAMLIACKYEEIWAPEVNDFVRIS 244 (395)
Q Consensus 175 ~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~---------~v~~~~-lqLvgitcL~IAsK~EE~~~p~v~dlv~is 244 (395)
.+-+++..+..+-..+++++.+|-.|||||.... .++--+ ..-.-++|+.+|+|+.+...-.-.-+..+
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 4557778888899999999999999999999862 223334 55578999999999987643322223333
Q ss_pred cccccHHHHHHHHHHHHHhcCcccccc
Q 016078 245 DSAYLREQVLAAEKAILRKLEWHLTVP 271 (395)
Q Consensus 245 ~~~yt~~eIl~mE~~IL~~L~f~L~~p 271 (395)
+..+.+++-.+|...|..++|.+.++
T Consensus 156 -ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 -GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 44688999999999999999999875
No 27
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=94.72 E-value=0.22 Score=49.45 Aligned_cols=90 Identities=14% Similarity=0.142 Sum_probs=75.7
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHH
Q 016078 176 LVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLA 255 (395)
Q Consensus 176 lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~ 255 (395)
.-++|..++..|+|+.++.-.|..++.+.....-+......-++++|+||||+.... +.+.+++..+++ .+...|..
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~-~~t~keIa~v~~--Vs~~tI~~ 295 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGE-RRTQREVAEVAG--VTEVTVRN 295 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCC-CCCHHHHHHHcC--CCHHHHHH
Confidence 358999999999999999999999999988777778899999999999999998764 567888877764 57778888
Q ss_pred HHHHHHHhcCccc
Q 016078 256 AEKAILRKLEWHL 268 (395)
Q Consensus 256 mE~~IL~~L~f~L 268 (395)
.=+.|++.|+..+
T Consensus 296 ~ykel~~~l~~~~ 308 (310)
T PRK00423 296 RYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHhCccc
Confidence 8888888776543
No 28
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=93.28 E-value=0.11 Score=51.05 Aligned_cols=88 Identities=17% Similarity=0.198 Sum_probs=61.6
Q ss_pred HHHcCCChHHHHHHHHHHHHHhhccccc--chhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHHHHHHHH
Q 016078 184 HRKFELMPETLYLTVHIVDRFLSKETIQ--RKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAAEKAIL 261 (395)
Q Consensus 184 ~~~f~L~~eTl~lAV~llDRfLs~~~v~--~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~mE~~IL 261 (395)
+....|.-+.--.+..|++|.+-...+. ..+...++..++++|+|+=....-.--|.+.|+.. -|.+|+-.||+.+|
T Consensus 201 ~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd-~tveDmNe~ERqfL 279 (343)
T KOG1675|consen 201 FSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKD-QSVDDMNALERQFL 279 (343)
T ss_pred hhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhh-ccHhhHHHHHHHHH
Confidence 3334444444455557888877655433 56677777778999999854433333566666654 48999999999999
Q ss_pred HhcCccccccC
Q 016078 262 RKLEWHLTVPT 272 (395)
Q Consensus 262 ~~L~f~L~~pT 272 (395)
+.|+||+++|.
T Consensus 280 elLqfNinvp~ 290 (343)
T KOG1675|consen 280 ELLQFNINVPS 290 (343)
T ss_pred HHHhhccCccH
Confidence 99999999874
No 29
>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=91.41 E-value=2.3 Score=35.51 Aligned_cols=75 Identities=12% Similarity=0.132 Sum_probs=52.7
Q ss_pred cCCcHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhh--CCCHHHHHHHHHHHHHH
Q 016078 285 VTSDKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHT--GYSEDQLRNCAKLLVKF 360 (395)
Q Consensus 285 ~~~~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~t--g~s~~~L~~c~~~L~~~ 360 (395)
...+.....+|.++++.-+....... ..+..+|++|+++|.+..+..+.+...+...+ .|+.++|...=..++..
T Consensus 45 ~~l~~~~~~~A~~~~dr~~~~~~~~~-~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~ 121 (127)
T PF00134_consen 45 LKLSPETLHLAIYLFDRFLSKRPVNR-SKLQLIALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSA 121 (127)
T ss_dssp TT-BHHHHHHHHHHHHHHHTTS-TTC-CGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHH
T ss_pred cccchhHHHHHHHHHHHHHhhccccc-chhhhhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence 34466777778888877666555445 88999999999999998887666777776666 46788877766655543
No 30
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=89.87 E-value=1.1 Score=36.71 Aligned_cols=87 Identities=16% Similarity=0.143 Sum_probs=58.7
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHHH
Q 016078 177 VDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAA 256 (395)
Q Consensus 177 vdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~m 256 (395)
.+||.......+...++.++|-++++..+....+-.-.--++|++|+++|.+.-...++--..+..++ .|+.++|..+
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 45666664444556778899999999888777777778889999999999998553222233344444 3578888777
Q ss_pred HHHHHHhcC
Q 016078 257 EKAILRKLE 265 (395)
Q Consensus 257 E~~IL~~L~ 265 (395)
=..|.+.+.
T Consensus 82 ~~~i~~~~~ 90 (118)
T PF02984_consen 82 IELIQELLS 90 (118)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 666666554
No 31
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=84.59 E-value=1.1 Score=44.85 Aligned_cols=94 Identities=15% Similarity=0.101 Sum_probs=72.9
Q ss_pred HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhH--HHhccccccHH
Q 016078 174 SILVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDF--VRISDSAYLRE 251 (395)
Q Consensus 174 ~~lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dl--v~is~~~yt~~ 251 (395)
..|++|+..+-..-+........|.+++...+...-+-+-..+-||++||+||+|+-....|...+- -...+...|.+
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e 232 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNE 232 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHH
Confidence 4677777777776666666778888888777777788888999999999999999977755544444 45566678999
Q ss_pred HHHHHHHHHHHhcCcc
Q 016078 252 QVLAAEKAILRKLEWH 267 (395)
Q Consensus 252 eIl~mE~~IL~~L~f~ 267 (395)
++..+...+|..+.-+
T Consensus 233 ~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 233 LLDDICHEFLDLYEQT 248 (323)
T ss_pred HHHHHHHHHHHHHhhc
Confidence 9999999888887543
No 32
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=80.15 E-value=9.7 Score=37.56 Aligned_cols=128 Identities=19% Similarity=0.203 Sum_probs=85.6
Q ss_pred CCcccchhhhhhhhhhhcccCCCCCCccCCCCCCCCCcccccccHHHHHHHHHHHHhccCCCCccccCCcCCHHhHHHHH
Q 016078 98 PNKSFTSVLTARSKAACGLINKPKDLISDIDVTDIDNELAVVEYVDDIYKFYKLTEDEGRVHDYMDAQPEINAKMRSILV 177 (395)
Q Consensus 98 ~~~~~~s~l~~~s~~~~~~~~~~~~~~~diD~~d~~n~~~~~eY~~dI~~~l~~~E~~~~~~~yl~~q~~i~~~mR~~lv 177 (395)
..++..+++.+.=.++|...+-|....+=.+... +.. .+|.+.|+..-.... +...+ ..-.
T Consensus 135 rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~------V~~--kei~rtyr~~~~~L~----l~~~~-------~~p~ 195 (285)
T COG1405 135 RGRSIESVAAACIYAACRINGVPRTLDEIAKALG------VSK--KEIGRTYRLLVRELK----LKIPP-------VDPS 195 (285)
T ss_pred cCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHC------CCH--HHHHHHHHHHHHhcC----CCCCC-------CCHH
Confidence 3456678888888889987666653211111111 111 666666653222211 11111 3456
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhcc
Q 016078 178 DWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISD 245 (395)
Q Consensus 178 dWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~ 245 (395)
+++-..+..|+|+.++--.|..+++..............=++++|++|||..... ..+-.++..+++
T Consensus 196 ~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~-~~tq~eva~v~~ 262 (285)
T COG1405 196 DYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGE-RRTQKEVAKVAG 262 (285)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCC-chHHHHHHHHhC
Confidence 7888999999999999999999999999888888888999999999999998763 334445554444
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=69.98 E-value=65 Score=28.23 Aligned_cols=88 Identities=15% Similarity=0.101 Sum_probs=55.1
Q ss_pred cChHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhc---chh-hhccCChHHHHHHHHHHHHHHhCCCCCchHHHHHhhCCC
Q 016078 271 PTPYVFLVRYIKASVTSDKEMENMVFFLAELGQM---QYP-TIVLYCPSMIAASAVYAARCTLNKNPFWTETLKHHTGYS 346 (395)
Q Consensus 271 pTp~~FL~~fl~~~~~~~~~~~~la~~l~El~L~---d~~-~~~~~~PS~IAaaal~lA~~~l~~~~~W~~~L~~~tg~s 346 (395)
.+-..|+.++.+... .+...--+|.++++-... ... .+....+.-+=.+|+.+|.+.++....|+......+|++
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 456678888888743 355666666665554333 111 122366778888999999999988888899999999999
Q ss_pred HHHHHHHHHHHHH
Q 016078 347 EDQLRNCAKLLVK 359 (395)
Q Consensus 347 ~~~L~~c~~~L~~ 359 (395)
..+|...=..++.
T Consensus 131 ~~eln~lE~~fL~ 143 (149)
T PF08613_consen 131 LKELNELEREFLK 143 (149)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 9988776554443
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=65.62 E-value=61 Score=32.67 Aligned_cols=74 Identities=14% Similarity=0.173 Sum_probs=50.8
Q ss_pred HHHHHHcCCChHH--HHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhccccccHHHHHHH
Q 016078 181 TEVHRKFELMPET--LYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISDSAYLREQVLAA 256 (395)
Q Consensus 181 ~ev~~~f~L~~eT--l~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~~~yt~~eIl~m 256 (395)
+..-+.+++.+.- +..+-|++.--+-...+.+..-..|+++|+++|+..+|+-.|....+..+.+ +++.+|-..
T Consensus 146 i~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd--~~k~eid~i 221 (367)
T KOG0835|consen 146 IMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFD--TTKREIDEI 221 (367)
T ss_pred HHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcC--CcHHHHHHH
Confidence 3334455665554 6677777776666667777888999999999999999986666665544433 456555443
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=58.68 E-value=29 Score=30.33 Aligned_cols=64 Identities=13% Similarity=0.217 Sum_probs=49.5
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhhcc--cccchhhHHHHHHHHHHhhccccccCCChhhHHH
Q 016078 178 DWLTEVHRKFELMPETLYLTVHIVDRFLSKE--TIQRKELQLVGISAMLIACKYEEIWAPEVNDFVR 242 (395)
Q Consensus 178 dWL~ev~~~f~L~~eTl~lAV~llDRfLs~~--~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~ 242 (395)
.-|.++|.+++++++..-....+|+..+..+ -+...++--+-++|+++-||+.. ...+..+++.
T Consensus 16 ~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~-~~~sF~~Ii~ 81 (135)
T PF01857_consen 16 VRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK-EELSFKDIIK 81 (135)
T ss_dssp HHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT--S--HHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc-CCCCHHHHHH
Confidence 4578899999999998888889999988755 45667899999999999999876 4556666654
No 36
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=52.37 E-value=94 Score=30.95 Aligned_cols=43 Identities=12% Similarity=0.118 Sum_probs=30.2
Q ss_pred cHHHHHHHHHHHHHhhcchhhhccCChHHHHHHHHHHHHHHhCC
Q 016078 288 DKEMENMVFFLAELGQMQYPTIVLYCPSMIAASAVYAARCTLNK 331 (395)
Q Consensus 288 ~~~~~~la~~l~El~L~d~~~~~~~~PS~IAaaal~lA~~~l~~ 331 (395)
.+.+...|-.+..--++..++.. |.|-.||++|+|+|.+.-+.
T Consensus 75 pq~viaTAivyf~RFy~~~Sv~~-~~p~~Ia~tclfLA~KvEE~ 117 (305)
T TIGR00569 75 PTSVVGTAIMYFKRFYLNNSVME-YHPKIIMLTCVFLACKVEEF 117 (305)
T ss_pred CchHHHHHHHHHhHHhccCchhh-cCHHHHHHHHHHHHHhcccc
Confidence 34455555555555555556666 99999999999999876553
No 37
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=39.62 E-value=95 Score=30.81 Aligned_cols=69 Identities=6% Similarity=0.087 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHhhccccccCCChhhHHHhcc
Q 016078 176 LVDWLTEVHRKFELMPETLYLTVHIVDRFLSKETIQRKELQLVGISAMLIACKYEEIWAPEVNDFVRISD 245 (395)
Q Consensus 176 lvdWL~ev~~~f~L~~eTl~lAV~llDRfLs~~~v~~~~lqLvgitcL~IAsK~EE~~~p~v~dlv~is~ 245 (395)
.-|+|...|..|+|+.++.-.|-.+-..+--...+.++..--|+++++||++-... .....+++..+++
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 56889999999999999999999999888877888888888899999999999887 4555677766554
No 38
>PF03261 CDK5_activator: Cyclin-dependent kinase 5 activator protein; InterPro: IPR004944 These proteins are neuron specific activators of cyclin-dependent kinase 5 (CDK5) []. They form a heterodimer with the catalytic subunit (CDK5) [].; GO: 0016534 cyclin-dependent protein kinase 5 activator activity, 0016533 cyclin-dependent protein kinase 5 holoenzyme complex; PDB: 3O0G_D 1H4L_E 1UNH_D 1UNL_E 1UNG_E.
Probab=25.25 E-value=1.5e+02 Score=30.10 Aligned_cols=66 Identities=21% Similarity=0.397 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHc---CCChHHHHHHHHHHHHHhhcc------cccchhhHHHHHHHHHHhhcc--ccccCCChhhH
Q 016078 174 SILVDWLTEVHRKF---ELMPETLYLTVHIVDRFLSKE------TIQRKELQLVGISAMLIACKY--EEIWAPEVNDF 240 (395)
Q Consensus 174 ~~lvdWL~ev~~~f---~L~~eTl~lAV~llDRfLs~~------~v~~~~lqLvgitcL~IAsK~--EE~~~p~v~dl 240 (395)
..+|-||..|-+.+ |.....+..--+++=-||..+ .-...+||-+-+||||||--| .||..| ++-|
T Consensus 222 ~~~vmWlR~vDRsLLlqgwqd~~fi~pan~vf~yml~r~~~~~~~~~~~~l~~~~l~cly~sysy~gneisyp-lkpf 298 (346)
T PF03261_consen 222 GDVVMWLRAVDRSLLLQGWQDQAFINPANVVFVYMLCRDVVSGEVSSERELQAIVLTCLYLSYSYMGNEISYP-LKPF 298 (346)
T ss_dssp HHHHHHHHHHHHHHHHTTS-SS-S--HHHHHHHHHHHHHHS-TT--SHHHHHHHHHHHHHHHHHHH-SSS----SGGG
T ss_pred cceEeehhhcCHHHHhccccccceeccchhhhhHHHHHHhhccccCCHHHHHHHHHHHHHHHhhhcCcccccc-cCCe
Confidence 35666666666554 334443333333333344332 223457999999999999888 677555 4444
No 39
>PF14376 Haem_bd: Haem-binding domain
Probab=22.72 E-value=1.3e+02 Score=26.14 Aligned_cols=34 Identities=21% Similarity=0.372 Sum_probs=26.2
Q ss_pred HHHHHhccCC-CCccccCCc--CCHHhHHHHHHHHHH
Q 016078 149 YKLTEDEGRV-HDYMDAQPE--INAKMRSILVDWLTE 182 (395)
Q Consensus 149 l~~~E~~~~~-~~yl~~q~~--i~~~mR~~lvdWL~e 182 (395)
....+...+| ..|+--|++ ++++.|..|++|+-+
T Consensus 99 ~~~I~~g~MP~~~Y~~~H~~a~Ls~~ek~~Ll~Wi~~ 135 (137)
T PF14376_consen 99 EEVIEDGEMPPPSYTLLHWEAKLSEEEKQALLNWIKE 135 (137)
T ss_pred HHHHHcCCCChHHHhhhCCCCCCCHHHHHHHHHHHHH
Confidence 3456666777 778755554 999999999999865
Done!