Query 023010
Match_columns 288
No_of_seqs 158 out of 716
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 07:47:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023010.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023010hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0834 CDK9 kinase-activating 100.0 3.5E-30 7.6E-35 244.7 11.0 133 145-282 8-140 (323)
2 TIGR00569 ccl1 cyclin ccl1. Un 99.9 4.4E-24 9.6E-29 201.5 13.1 126 144-270 5-166 (305)
3 KOG0835 Cyclin L [General func 99.9 5E-22 1.1E-26 188.9 9.4 126 158-283 5-131 (367)
4 KOG0794 CDK8 kinase-activating 99.9 7.1E-22 1.5E-26 181.0 7.8 105 145-249 10-115 (264)
5 COG5333 CCL1 Cdk activating ki 99.6 5.7E-16 1.2E-20 146.2 10.0 105 152-260 25-148 (297)
6 KOG2496 Cdk activating kinase 99.6 1.6E-14 3.5E-19 136.8 10.3 133 144-276 6-176 (325)
7 cd00043 CYCLIN Cyclin box fold 99.4 2.2E-12 4.8E-17 94.2 8.1 73 176-248 2-74 (88)
8 PF00134 Cyclin_N: Cyclin, N-t 99.3 8.8E-12 1.9E-16 99.6 9.8 77 170-246 25-102 (127)
9 smart00385 CYCLIN domain prese 99.2 8.4E-11 1.8E-15 85.2 6.7 67 181-247 1-67 (83)
10 PRK00423 tfb transcription ini 99.1 6.8E-10 1.5E-14 104.9 9.9 77 169-246 116-192 (310)
11 PF00382 TFIIB: Transcription 98.8 2.8E-08 6.1E-13 74.4 7.7 64 183-246 1-64 (71)
12 KOG0656 G1/S-specific cyclin D 98.7 9E-08 2E-12 92.4 11.0 97 175-272 77-191 (335)
13 COG1405 SUA7 Transcription ini 98.1 2.2E-05 4.7E-10 74.5 11.1 103 167-270 89-201 (285)
14 KOG1597 Transcription initiati 98.0 2.9E-05 6.2E-10 74.3 8.2 72 176-247 104-175 (308)
15 PRK00423 tfb transcription ini 97.8 6.1E-05 1.3E-09 71.4 8.4 68 179-246 219-286 (310)
16 COG5024 Cyclin [Cell division 97.5 0.0003 6.6E-09 70.5 8.6 84 174-257 211-308 (440)
17 KOG0655 G1/S-specific cyclin E 97.4 0.00043 9.3E-09 67.6 7.1 102 171-273 140-256 (408)
18 KOG0653 Cyclin B and related k 97.3 0.00085 1.8E-08 65.7 8.8 85 174-258 156-255 (391)
19 KOG4164 Cyclin ik3-1/CABLES [C 97.0 0.00092 2E-08 66.6 5.3 83 181-263 387-470 (497)
20 COG1405 SUA7 Transcription ini 96.5 0.0079 1.7E-07 57.3 7.5 70 178-247 193-262 (285)
21 KOG1597 Transcription initiati 96.3 0.015 3.3E-07 56.0 7.9 81 178-258 202-292 (308)
22 PF08613 Cyclin: Cyclin; Inte 94.9 0.33 7.3E-06 41.3 10.1 67 179-245 54-126 (149)
23 KOG1598 Transcription initiati 93.7 0.36 7.8E-06 49.8 9.1 59 178-237 69-127 (521)
24 PF02984 Cyclin_C: Cyclin, C-t 93.5 0.1 2.2E-06 40.6 4.0 55 180-234 4-58 (118)
25 PF01857 RB_B: Retinoblastoma- 93.0 0.77 1.7E-05 39.4 8.7 70 178-247 13-84 (135)
26 KOG0835 Cyclin L [General func 92.7 0.37 7.9E-06 47.5 7.1 71 181-251 143-227 (367)
27 KOG0834 CDK9 kinase-activating 88.7 0.47 1E-05 46.3 3.8 56 181-236 153-212 (323)
28 TIGR00569 ccl1 cyclin ccl1. Un 84.4 3 6.6E-05 40.2 6.8 54 180-233 164-220 (305)
29 KOG1598 Transcription initiati 76.3 3.5 7.7E-05 42.7 4.4 63 186-251 174-241 (521)
30 KOG1674 Cyclin [General functi 61.6 57 0.0012 30.0 8.7 99 181-282 80-200 (218)
31 KOG0794 CDK8 kinase-activating 45.1 32 0.00068 33.0 4.2 24 214-237 189-212 (264)
32 KOG4557 Origin recognition com 42.2 1.6E+02 0.0035 28.1 8.3 79 149-233 59-150 (262)
33 KOG0654 G2/Mitotic-specific cy 41.0 11 0.00025 37.4 0.7 81 175-255 136-230 (359)
34 KOG0654 G2/Mitotic-specific cy 39.3 31 0.00066 34.5 3.4 74 176-250 214-320 (359)
35 KOG1103 Predicted coiled-coil 27.1 98 0.0021 31.6 4.6 45 73-117 373-418 (561)
36 cd00171 Sec7 Sec7 domain; Doma 21.0 5.9E+02 0.013 22.5 8.6 86 183-275 85-182 (185)
37 PF13591 MerR_2: MerR HTH fami 20.4 3.4E+02 0.0074 21.0 5.6 43 144-207 30-72 (84)
38 PRK13298 tRNA CCA-pyrophosphor 20.2 5.3E+02 0.011 26.3 8.3 27 178-204 279-305 (417)
No 1
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.96 E-value=3.5e-30 Score=244.71 Aligned_cols=133 Identities=36% Similarity=0.572 Sum_probs=122.2
Q ss_pred CCCCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHH
Q 023010 145 DDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATA 224 (288)
Q Consensus 145 ~~~~WlFT~eELe~~tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaA 224 (288)
....|+|+++|+++.+||+.+|++.++|..+|..++.||+++|.+|++|+.+++||++||||||+.+++.+++++.||++
T Consensus 8 ~~~~w~~s~e~~~~~tpSr~~g~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~s 87 (323)
T KOG0834|consen 8 ETSRWYFSKEQLEENTPSRRDGIDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAAS 87 (323)
T ss_pred cccccccCHHHHccCChhhccCCchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHH
Confidence 35689999999998999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcCCCCCChHHHHHHHHhhhhccCcceeccccchhHHHHHHHHHHhhccccc
Q 023010 225 ALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSANNSVK 282 (288)
Q Consensus 225 CLFLAcKvEEtprkLRDII~va~~Il~k~~~~l~~y~~p~e~~~~~~~vlqa~n~~~~ 282 (288)
|||||||+||+|++++|||.+++.++++.+ ......+++..++||+.+.-.|.
T Consensus 88 clfLAgKvEetp~kl~dIi~~s~~~~~~~~-----~~~~~~~~~~~~~Iv~~E~~lL~ 140 (323)
T KOG0834|consen 88 CLFLAGKVEETPRKLEDIIKVSYRYLNPKD-----LELEEVYWELKERIVQLELLLLE 140 (323)
T ss_pred HHHHHhhcccCcccHHHHHHHHHHHcCccc-----ccHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999977 23456677788888887765443
No 2
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.91 E-value=4.4e-24 Score=201.50 Aligned_cols=126 Identities=17% Similarity=0.227 Sum_probs=106.6
Q ss_pred CCCCCcccc-HHHHHHhC------------------CCccCCCCHHHHHHHHHHHHHHHHHHHHhcC--CChHHHHHHHH
Q 023010 144 EDDEPVFMS-RDEIERFS------------------PSRKDGIDALRETHLRYSYCAFIQNLGLRLE--LPQTTIGTAMV 202 (288)
Q Consensus 144 ~~~~~WlFT-~eELe~~t------------------PS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~--LPq~tiATAiV 202 (288)
.|.+.|.|| ++||.+.- +....+|++++|+.+|.++|.+|+++|.+|+ ||+.|+|||++
T Consensus 5 tQ~r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~~~~~~~~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~viaTAiv 84 (305)
T TIGR00569 5 SQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVGTAIM 84 (305)
T ss_pred cccccCcCCCHHHHHHHHHHHHHHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHH
Confidence 468899999 88885321 1235699999999999999999999999999 99999999999
Q ss_pred HHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHH---------------HHHhhhhccCcceeccccchhHH
Q 023010 203 LCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLR---------------ASSELYHKQNITLLSYLLPIVRV 267 (288)
Q Consensus 203 yfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~---------------va~~Il~k~~~~l~~y~~p~e~~ 267 (288)
||||||+++|++++++++|++||||||||+||.++++++++. ....|++..+|+|.+. .|...+
T Consensus 85 yf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~~~~~~~~~Il~~E~~lL~~L~F~L~V~-hPyr~L 163 (305)
T TIGR00569 85 YFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVH-NPYRPL 163 (305)
T ss_pred HHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccCCchhhHHHHHHHHHHHHHHCCCcEEee-CccHHH
Confidence 999999999999999999999999999999999998766554 4456778888888865 465544
Q ss_pred HHH
Q 023010 268 STT 270 (288)
Q Consensus 268 ~~~ 270 (288)
..+
T Consensus 164 ~~~ 166 (305)
T TIGR00569 164 EGF 166 (305)
T ss_pred HHH
Confidence 443
No 3
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.86 E-value=5e-22 Score=188.94 Aligned_cols=126 Identities=29% Similarity=0.457 Sum_probs=106.8
Q ss_pred HhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCC
Q 023010 158 RFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPR 237 (288)
Q Consensus 158 ~~tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtpr 237 (288)
..+|+..||++.+.|..||..||+|||++|++|+|||.++||++|+|||||..+|+..||...|++|||.||+|+||.|+
T Consensus 5 ~~~~s~qd~l~~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~Pr 84 (367)
T KOG0835|consen 5 DSTPSLQDGLSLETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEEPR 84 (367)
T ss_pred cCchhhhcccccchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccccc
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHHHHhhhhccCcceecc-ccchhHHHHHHHHHHhhcccccc
Q 023010 238 PLNDVLRASSELYHKQNITLLSY-LLPIVRVSTTISVLQSANNSVKS 283 (288)
Q Consensus 238 kLRDII~va~~Il~k~~~~l~~y-~~p~e~~~~~~~vlqa~n~~~~~ 283 (288)
+++||++|++++-+.-.-.-.+. ++..+++..-+.++.+...-||+
T Consensus 85 r~rdVinVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~ 131 (367)
T KOG0835|consen 85 RIRDVINVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRE 131 (367)
T ss_pred cHhHHHHHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHH
Confidence 99999999999876533222222 23455555556666665555543
No 4
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.85 E-value=7.1e-22 Score=181.01 Aligned_cols=105 Identities=26% Similarity=0.376 Sum_probs=97.0
Q ss_pred CCCCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHH
Q 023010 145 DDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATA 224 (288)
Q Consensus 145 ~~~~WlFT~eELe~~tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaA 224 (288)
+..+|+|+++||.+..|-...||+.++-..++....++|+.+|.+|+|.|.|+|||++||+|||.|+|+++++|++||.|
T Consensus 10 h~~qwl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~T 89 (264)
T KOG0794|consen 10 HYQQWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPT 89 (264)
T ss_pred hhhhHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHH
Confidence 46799999999998888888999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcCCCC-CChHHHHHHHHhh
Q 023010 225 ALFLAAKSEETP-RPLNDVLRASSEL 249 (288)
Q Consensus 225 CLFLAcKvEEtp-rkLRDII~va~~I 249 (288)
|||||||+||++ ..+|-|++.+..+
T Consensus 90 ClyLAcKvEE~~i~~~r~l~~~a~~L 115 (264)
T KOG0794|consen 90 CLYLACKVEECPIVHIRLLVNEAKVL 115 (264)
T ss_pred HHHHHhhhhhcchHHHHHHHHHHHHH
Confidence 999999999998 6667666655555
No 5
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.64 E-value=5.7e-16 Score=146.19 Aligned_cols=105 Identities=28% Similarity=0.450 Sum_probs=88.7
Q ss_pred cHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhh
Q 023010 152 SRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAK 231 (288)
Q Consensus 152 T~eELe~~tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcK 231 (288)
.+.+++...| . |+.++|..+|.+++.+|+++|.+|+||+.|.|||++||+||+++.+.++++++.|++||||||||
T Consensus 25 ~e~~l~~~~p---~-l~~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K 100 (297)
T COG5333 25 IELDLLVLEP---E-LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACK 100 (297)
T ss_pred HHhhHhcCCc---c-cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeee
Confidence 3445544556 2 88899999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCh-------------------HHHHHHHHhhhhccCcceecc
Q 023010 232 SEETPRPL-------------------NDVLRASSELYHKQNITLLSY 260 (288)
Q Consensus 232 vEEtprkL-------------------RDII~va~~Il~k~~~~l~~y 260 (288)
+||+++.| +.|......+++..+|++.+.
T Consensus 101 ~ed~~~~I~i~~~~~~~~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~ 148 (297)
T COG5333 101 VEDTPRDISIESFEARDLWSEEPKSSRERILEYEFELLEALDFDLHVH 148 (297)
T ss_pred cccccchhhHHHHHhhccccccccccHHHHHHHHHHHHHHcccceEec
Confidence 99976544 235556667777777777644
No 6
>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=99.56 E-value=1.6e-14 Score=136.75 Aligned_cols=133 Identities=17% Similarity=0.175 Sum_probs=95.4
Q ss_pred CCCCCccccHHHHHHh------------------CCCccCCCCHHHHHHHHHHHHHHHHHHHHhc--CCChHHHHHHHHH
Q 023010 144 EDDEPVFMSRDEIERF------------------SPSRKDGIDALRETHLRYSYCAFIQNLGLRL--ELPQTTIGTAMVL 203 (288)
Q Consensus 144 ~~~~~WlFT~eELe~~------------------tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L--~LPq~tiATAiVy 203 (288)
.|.+.|.||++||.+. .+-....+++++|..+-.....-+.+.+..+ .||..|++||+.|
T Consensus 6 sq~r~W~fte~qL~e~r~~~N~k~i~~~ee~~~~~~~~e~~v~~~ee~tl~k~~E~~l~~f~~k~~p~lp~~Vv~TA~~f 85 (325)
T KOG2496|consen 6 SQYRKWIFTEEQLAERRVDANQKAIQMLEEEAHNLDENEVFVLEAEELTLTKEEELSLVNFYSKFKPNLPTSVVSTAIEF 85 (325)
T ss_pred hhhhcccccHHHHHHHHHHHHHHHHHHHHHhccCCCccchhccccccccccHHHHHHHHHHHHHhcCCCchHHHHHHHHH
Confidence 4678899999998542 1112223344444444444444444444444 6999999999999
Q ss_pred HHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHHH---------------hhhhccCcceecccc--chhH
Q 023010 204 CHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS---------------ELYHKQNITLLSYLL--PIVR 266 (288)
Q Consensus 204 fHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va~---------------~Il~k~~~~l~~y~~--p~e~ 266 (288)
|+|||+.+|.++++|..|++||+|||||+||..+++.+++...- .+++...+.|+++.. |.|.
T Consensus 86 FkRffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~~~~~k~~e~vLk~E~~llqsL~f~L~vh~PyRPleG 165 (325)
T KOG2496|consen 86 FKRFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMNGRKWKTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEG 165 (325)
T ss_pred HHHHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhccCcccccHHHHHhchHHHHHhhhhhheecCCCCchHH
Confidence 99999999999999999999999999999999999887766543 566667777775433 7888
Q ss_pred HHH-HHHHHHh
Q 023010 267 VST-TISVLQS 276 (288)
Q Consensus 267 ~~~-~~~vlqa 276 (288)
|.. ...++++
T Consensus 166 Fl~D~kt~l~~ 176 (325)
T KOG2496|consen 166 FLLDMKTRLPA 176 (325)
T ss_pred HHHHHHHHHHh
Confidence 775 4555444
No 7
>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=99.37 E-value=2.2e-12 Score=94.20 Aligned_cols=73 Identities=32% Similarity=0.399 Sum_probs=68.5
Q ss_pred HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHHHh
Q 023010 176 RYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSE 248 (288)
Q Consensus 176 R~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va~~ 248 (288)
|...+.||.+++..|+++..+..+|+.+++||+..+.+.++++..||+||||||||+||.+..+++++..+..
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCC
Confidence 4578899999999999999999999999999999999999999999999999999999999999999887644
No 8
>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=99.33 E-value=8.8e-12 Score=99.59 Aligned_cols=77 Identities=34% Similarity=0.452 Sum_probs=67.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCC-CCChHHHHHHH
Q 023010 170 LRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEET-PRPLNDVLRAS 246 (288)
Q Consensus 170 eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEt-prkLRDII~va 246 (288)
+.....|...++||.+++..++++..|..+|+.|++||+...++...++..|++|||+||||+||. +.++.+++..+
T Consensus 25 ~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~ 102 (127)
T PF00134_consen 25 EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRIS 102 (127)
T ss_dssp SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHT
T ss_pred hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHH
Confidence 334477889999999999999999999999999999999999999999999999999999999998 77788888876
No 9
>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=99.16 E-value=8.4e-11 Score=85.19 Aligned_cols=67 Identities=30% Similarity=0.390 Sum_probs=61.6
Q ss_pred HHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHHH
Q 023010 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (288)
Q Consensus 181 ~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va~ 247 (288)
+||.+++..|++|..+..+|..++.||.....+.++++..||+||||||||++|.+....++...+.
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~ 67 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTG 67 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhC
Confidence 3799999999999999999999999999988888899999999999999999999888888877643
No 10
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.06 E-value=6.8e-10 Score=104.86 Aligned_cols=77 Identities=19% Similarity=0.242 Sum_probs=70.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHH
Q 023010 169 ALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (288)
Q Consensus 169 ~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va 246 (288)
...|+.|. .+...|+++|..|+||+.++.+|+.+|++++..+.+.+.+...|++||||+|||.|+.|+.++||+.++
T Consensus 116 ~~~er~l~-~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~ 192 (310)
T PRK00423 116 NAAERNLA-FALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVS 192 (310)
T ss_pred ChHhHHHH-HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHh
Confidence 35577774 788999999999999999999999999999999999999999999999999999999999999987754
No 11
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=98.78 E-value=2.8e-08 Score=74.41 Aligned_cols=64 Identities=23% Similarity=0.311 Sum_probs=57.7
Q ss_pred HHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHH
Q 023010 183 IQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (288)
Q Consensus 183 Iq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va 246 (288)
|.++|..|+||..+..+|.-++++-....-..+-.+..|++||||+||+.+..++.++||..++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~ 64 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAA 64 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHC
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHh
Confidence 6789999999999999999999999998888889999999999999999999999999998864
No 12
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=98.72 E-value=9e-08 Score=92.43 Aligned_cols=97 Identities=21% Similarity=0.199 Sum_probs=83.1
Q ss_pred HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCccc---HHHHHHHHHHHhhhcCCCCCC-------------
Q 023010 175 LRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHD---RFIIATAALFLAAKSEETPRP------------- 238 (288)
Q Consensus 175 LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d---~~~VAaACLFLAcKvEEtprk------------- 238 (288)
.|..+..||.++|...++-..|+-.|+.|+-||...+.+.+.. .+++|+|||+||+|+||+.++
T Consensus 77 ~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~ 156 (335)
T KOG0656|consen 77 MRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNV 156 (335)
T ss_pred HHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhcccccc
Confidence 3899999999999999999999999999999999999999999 899999999999999999643
Q ss_pred --hHHHHHHHHhhhhccCcceeccccchhHHHHHHH
Q 023010 239 --LNDVLRASSELYHKQNITLLSYLLPIVRVSTTIS 272 (288)
Q Consensus 239 --LRDII~va~~Il~k~~~~l~~y~~p~e~~~~~~~ 272 (288)
.+.|.....-|+.+.+-++-+. -|.++|+++.+
T Consensus 157 feaktI~rmELLVLstL~Wrl~aV-TP~sF~~~fl~ 191 (335)
T KOG0656|consen 157 FEAKTIQRMELLVLSTLKWRLRAV-TPFSFIDHFLS 191 (335)
T ss_pred ccHHHHHHHHHHHHhhccccccCC-CchHHHHHHHH
Confidence 5778888888888877666544 46666665543
No 13
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.13 E-value=2.2e-05 Score=74.53 Aligned_cols=103 Identities=16% Similarity=0.202 Sum_probs=81.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHH
Q 023010 167 IDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (288)
Q Consensus 167 L~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va 246 (288)
+....|+.+. .+...|..++..|+||..+..+|+.+|.+-+...-+..-+.+-|++||||.||+.+..|+.+.+|..+.
T Consensus 89 v~~~~ernl~-~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~ 167 (285)
T COG1405 89 VSSAKERNLI-TALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKAL 167 (285)
T ss_pred cccchhhHHH-HHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHH
Confidence 3334566655 888999999999999999999999999999999999999999999999999999999999998877654
Q ss_pred H----------hhhhccCcceeccccchhHHHHH
Q 023010 247 S----------ELYHKQNITLLSYLLPIVRVSTT 270 (288)
Q Consensus 247 ~----------~Il~k~~~~l~~y~~p~e~~~~~ 270 (288)
. .++.+....-+.-..|.+++.++
T Consensus 168 ~V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf 201 (285)
T COG1405 168 GVSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRF 201 (285)
T ss_pred CCCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHH
Confidence 3 22222222222224678887765
No 14
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=97.95 E-value=2.9e-05 Score=74.26 Aligned_cols=72 Identities=19% Similarity=0.212 Sum_probs=68.4
Q ss_pred HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHHH
Q 023010 176 RYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (288)
Q Consensus 176 R~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va~ 247 (288)
...+...|..++..|+||..+..+|.-+|+++...+.+.+-....+++||||.||..|+.||.+++|..++.
T Consensus 104 ~~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~an 175 (308)
T KOG1597|consen 104 LKAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVAN 175 (308)
T ss_pred HHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHc
Confidence 357888999999999999999999999999999999999999999999999999999999999999998877
No 15
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.84 E-value=6.1e-05 Score=71.43 Aligned_cols=68 Identities=13% Similarity=0.132 Sum_probs=62.2
Q ss_pred HHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHH
Q 023010 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (288)
Q Consensus 179 ~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va 246 (288)
...||.++|..|+||..+.-+|..++++.....-..+..|..||+|||||||+..+.++.+++|..++
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~ 286 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVA 286 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHc
Confidence 45999999999999999999999999988776666889999999999999999999999999997764
No 16
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=97.55 E-value=0.0003 Score=70.49 Aligned_cols=84 Identities=21% Similarity=0.340 Sum_probs=72.9
Q ss_pred HHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCC--------------h
Q 023010 174 HLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP--------------L 239 (288)
Q Consensus 174 ~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprk--------------L 239 (288)
.+|..-.+||.++=..++|-+.|.-.|+-++-||.......--..++|+++|||+|||.||..++ -
T Consensus 211 ~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~ 290 (440)
T COG5024 211 SMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTR 290 (440)
T ss_pred hHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccH
Confidence 56778889999999999999999999999999999988776667899999999999999998765 3
Q ss_pred HHHHHHHHhhhhccCcce
Q 023010 240 NDVLRASSELYHKQNITL 257 (288)
Q Consensus 240 RDII~va~~Il~k~~~~l 257 (288)
+||+.+...+++..++.+
T Consensus 291 ~~i~~aE~~ml~~l~f~i 308 (440)
T COG5024 291 DDIIRAERYMLEVLDFNI 308 (440)
T ss_pred HHHHHHHHHHhhhccccc
Confidence 667778888888877744
No 17
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=97.39 E-value=0.00043 Score=67.65 Aligned_cols=102 Identities=19% Similarity=0.218 Sum_probs=80.6
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccc-CcCcccHHHHHHHHHHHhhhcCCC-CCC----------
Q 023010 171 RETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRR-SHACHDRFIIATAALFLAAKSEET-PRP---------- 238 (288)
Q Consensus 171 eE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~-S~~~~d~~~VAaACLFLAcKvEEt-prk---------- 238 (288)
.+-+.|.--..|+.++|...+|-..|.-.|+-||-||.... ...+-..++|.+||||+|+|+||- |-|
T Consensus 140 lqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDg 219 (408)
T KOG0655|consen 140 LQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTDG 219 (408)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCccccceeeeccC
Confidence 34456788899999999999999999999999999997644 445667899999999999999996 333
Q ss_pred ---hHHHHHHHHhhhhccCcceeccccchhHHHHHHHH
Q 023010 239 ---LNDVLRASSELYHKQNITLLSYLLPIVRVSTTISV 273 (288)
Q Consensus 239 ---LRDII~va~~Il~k~~~~l~~y~~p~e~~~~~~~v 273 (288)
-+||+....-|+...+-.|-++ --+-|...|..+
T Consensus 220 Acs~ddIltmE~iilkal~W~l~Pi-Tii~WL~vylQv 256 (408)
T KOG0655|consen 220 ACSEDDILTMELIILKALKWELSPI-TIISWLNVYLQV 256 (408)
T ss_pred ccchHHHHHHHHHHHHHhcccccce-ehHHHHHHHHHH
Confidence 4788888888888776654433 236677777654
No 18
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.35 E-value=0.00085 Score=65.71 Aligned_cols=85 Identities=20% Similarity=0.303 Sum_probs=74.4
Q ss_pred HHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHH-HhhhcCCCCCC--------------
Q 023010 174 HLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALF-LAAKSEETPRP-------------- 238 (288)
Q Consensus 174 ~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLF-LAcKvEEtprk-------------- 238 (288)
..|..-++||.++-..++|...|+-.|+-++-||........-..+.|+++||| +|||-||...+
T Consensus 156 ~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s 235 (391)
T KOG0653|consen 156 KMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYS 235 (391)
T ss_pred HHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccc
Confidence 568889999999999999999999999999999999988777788999999977 99999886544
Q ss_pred hHHHHHHHHhhhhccCccee
Q 023010 239 LNDVLRASSELYHKQNITLL 258 (288)
Q Consensus 239 LRDII~va~~Il~k~~~~l~ 258 (288)
.++|+.....++...++.+-
T Consensus 236 ~~~il~mE~~il~~L~f~l~ 255 (391)
T KOG0653|consen 236 REEILRMEKYILNVLEFDLS 255 (391)
T ss_pred hHHHHHHHHHHHhccCeeec
Confidence 57788888888888887554
No 19
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.02 E-value=0.00092 Score=66.58 Aligned_cols=83 Identities=19% Similarity=0.331 Sum_probs=68.5
Q ss_pred HHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCC-hHHHHHHHHhhhhccCcceec
Q 023010 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP-LNDVLRASSELYHKQNITLLS 259 (288)
Q Consensus 181 ~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprk-LRDII~va~~Il~k~~~~l~~ 259 (288)
.-|.++|.-.++-..|+|+|-|||-..-+..-+.+-++..+|-|||+||+|+.+-.+. ++.+|...-..+.-..-+|+.
T Consensus 387 REMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia 466 (497)
T KOG4164|consen 387 REMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIA 466 (497)
T ss_pred HHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhh
Confidence 4577888888999999999999999999999999999999999999999999965443 666777666666666666666
Q ss_pred cccc
Q 023010 260 YLLP 263 (288)
Q Consensus 260 y~~p 263 (288)
+.+|
T Consensus 467 ~Ef~ 470 (497)
T KOG4164|consen 467 FEFP 470 (497)
T ss_pred hhhh
Confidence 6665
No 20
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=96.54 E-value=0.0079 Score=57.29 Aligned_cols=70 Identities=17% Similarity=0.175 Sum_probs=63.3
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHHH
Q 023010 178 SYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (288)
Q Consensus 178 ~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va~ 247 (288)
....+|.+.+..|+||..+...|+-+....-......+-.|--+|+|||||||+....++.-++|..++.
T Consensus 193 ~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~~ 262 (285)
T COG1405 193 DPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAG 262 (285)
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHhC
Confidence 3458899999999999999999999999999888888899999999999999999998888888887643
No 21
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=96.31 E-value=0.015 Score=55.96 Aligned_cols=81 Identities=16% Similarity=0.183 Sum_probs=66.7
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHH----------HH
Q 023010 178 SYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRA----------SS 247 (288)
Q Consensus 178 ~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~v----------a~ 247 (288)
....||.+.|..|+||..+...|.-+-++.-...-..+-.|.-||+|+|||++-+++.++.+++|..+ .|
T Consensus 202 ~t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vtgVaE~TIr~sY 281 (308)
T KOG1597|consen 202 STGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVTGVAEVTIRNSY 281 (308)
T ss_pred hHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHhhhhHHHHHHHH
Confidence 36789999999999999999999999888877777777889999999999999999999998887553 45
Q ss_pred hhhhccCccee
Q 023010 248 ELYHKQNITLL 258 (288)
Q Consensus 248 ~Il~k~~~~l~ 258 (288)
+.+++....|+
T Consensus 282 K~Lyp~~~~li 292 (308)
T KOG1597|consen 282 KDLYPHADKLI 292 (308)
T ss_pred HHHhhchhhhC
Confidence 55665554444
No 22
>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=94.88 E-value=0.33 Score=41.32 Aligned_cols=67 Identities=13% Similarity=0.132 Sum_probs=48.2
Q ss_pred HHHHHHHHHHhcCCChHHHHHHHHHHHHhhc--cc---CcCcccHHHHHHHHHHHhhhc-CCCCCChHHHHHH
Q 023010 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFV--RR---SHACHDRFIIATAALFLAAKS-EETPRPLNDVLRA 245 (288)
Q Consensus 179 ~~~fIq~~G~~L~LPq~tiATAiVyfHRFYl--r~---S~~~~d~~~VAaACLFLAcKv-EEtprkLRDII~v 245 (288)
...||.++....+++..+.-.|++|+.|+.. .. .+.....+-+-++||-||+|. +|..-.-+....+
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v 126 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKV 126 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHH
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhh
Confidence 4567888889999999999999999999988 22 245677889999999999996 6666565555544
No 23
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=93.68 E-value=0.36 Score=49.80 Aligned_cols=59 Identities=20% Similarity=0.179 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCC
Q 023010 178 SYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPR 237 (288)
Q Consensus 178 ~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtpr 237 (288)
.+-..|.+++..|+|+. ++.+|--||.---.++-..+.....|.++|||++|..|-++.
T Consensus 69 n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~h 127 (521)
T KOG1598|consen 69 NARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDH 127 (521)
T ss_pred HHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCce
Confidence 66678999999999999 999999999999999988888899999999999999998864
No 24
>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=93.53 E-value=0.1 Score=40.59 Aligned_cols=55 Identities=20% Similarity=0.078 Sum_probs=42.9
Q ss_pred HHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCC
Q 023010 180 CAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEE 234 (288)
Q Consensus 180 ~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEE 234 (288)
..||.......+..+.+...|..++.-..+...+.+|.|-.||+|||+||.++-+
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~ 58 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILG 58 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhC
Confidence 4566666555555667888888888887778889999999999999999999844
No 25
>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=92.96 E-value=0.77 Score=39.38 Aligned_cols=70 Identities=14% Similarity=0.097 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccc--CcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHHH
Q 023010 178 SYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRR--SHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (288)
Q Consensus 178 ~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~--S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va~ 247 (288)
.+..-|+++|.+|+|+..+..-.-+.|..-...+ =+.+-+.-.+.+.|+|.-||+.....+.++|+....
T Consensus 13 la~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~sF~~Ii~~Yr 84 (135)
T PF01857_consen 13 LAAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEELSFKDIIKAYR 84 (135)
T ss_dssp HHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S--HHHHHHHHT
T ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence 4566799999999999877544444444433222 244556778999999999999999999999999654
No 26
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=92.66 E-value=0.37 Score=47.50 Aligned_cols=71 Identities=21% Similarity=0.162 Sum_probs=43.2
Q ss_pred HHHHHHHHhcCCChHH-HHHHHHHH-HHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCC------------hHHHHHHH
Q 023010 181 AFIQNLGLRLELPQTT-IGTAMVLC-HRFFVRRSHACHDRFIIATAALFLAAKSEETPRP------------LNDVLRAS 246 (288)
Q Consensus 181 ~fIq~~G~~L~LPq~t-iATAiVyf-HRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprk------------LRDII~va 246 (288)
.+|..-++-|++|+.- +-.++..| .=-.-..-++.|.|+.||+||||||+..+|.|.. -++|-..+
T Consensus 143 klii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k~eid~ic 222 (367)
T KOG0835|consen 143 KLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTKREIDEIC 222 (367)
T ss_pred HHHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcHHHHHHHH
Confidence 4555556667777644 32222222 1111122357899999999999999999994432 35566666
Q ss_pred Hhhhh
Q 023010 247 SELYH 251 (288)
Q Consensus 247 ~~Il~ 251 (288)
+.+++
T Consensus 223 ~~l~~ 227 (367)
T KOG0835|consen 223 YRLIP 227 (367)
T ss_pred HHHHH
Confidence 65554
No 27
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=88.65 E-value=0.47 Score=46.30 Aligned_cols=56 Identities=16% Similarity=0.066 Sum_probs=43.8
Q ss_pred HHHHHHHHhcCCCh----HHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCC
Q 023010 181 AFIQNLGLRLELPQ----TTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETP 236 (288)
Q Consensus 181 ~fIq~~G~~L~LPq----~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtp 236 (288)
.++.+.++.|+--. .+.-+|-+|++..+..--...|.+..||+|||+||+|.-...
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~ 212 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVE 212 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCC
Confidence 45555666555444 578888899999888777789999999999999999976543
No 28
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=84.43 E-value=3 Score=40.21 Aligned_cols=54 Identities=20% Similarity=0.153 Sum_probs=40.9
Q ss_pred HHHHHHHHHhc-C--CChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcC
Q 023010 180 CAFIQNLGLRL-E--LPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSE 233 (288)
Q Consensus 180 ~~fIq~~G~~L-~--LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvE 233 (288)
..+|+++...| + -+..+.-.|.-|+...++..-...|.|..||+||||||++..
T Consensus 164 ~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~ 220 (305)
T TIGR00569 164 EGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRA 220 (305)
T ss_pred HHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHh
Confidence 35677766554 2 234556777788888888777788999999999999999854
No 29
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=76.26 E-value=3.5 Score=42.74 Aligned_cols=63 Identities=19% Similarity=0.140 Sum_probs=47.3
Q ss_pred HHHhcCCCh--HHHHHHHHHHHHh---hcccCcCcccHHHHHHHHHHHhhhcCCCCCChHHHHHHHHhhhh
Q 023010 186 LGLRLELPQ--TTIGTAMVLCHRF---FVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYH 251 (288)
Q Consensus 186 ~G~~L~LPq--~tiATAiVyfHRF---Ylr~S~~~~d~~~VAaACLFLAcKvEEtprkLRDII~va~~Il~ 251 (288)
++.++..+. .|+.||.-+.+|- ||. ..-.|--++-|||++||.+...++++.||+.+.+-...
T Consensus 174 a~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~---tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvhV~e~ 241 (521)
T KOG1598|consen 174 SCRLLFGDKTEDVAKTATRLAQRMKRDWMQ---TGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVHVCES 241 (521)
T ss_pred hHhhhcCCchHHHHHHHHHHHHHHHHHHHH---hCCCccchhHHHHHHHHHHcCccccHHHHHHHHHHhHH
Confidence 334444554 4888888888773 442 34457789999999999999999999999987765444
No 30
>KOG1674 consensus Cyclin [General function prediction only]
Probab=61.60 E-value=57 Score=29.97 Aligned_cols=99 Identities=10% Similarity=0.116 Sum_probs=75.8
Q ss_pred HHHHHHHHhcCCChHHHHHHHHHHHHhhcccC---------cCccc-HHHHHHHHHHHhhhcCCCC------------CC
Q 023010 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRS---------HACHD-RFIIATAALFLAAKSEETP------------RP 238 (288)
Q Consensus 181 ~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S---------~~~~d-~~~VAaACLFLAcKvEEtp------------rk 238 (288)
+++.++-........+.-+|.+||-||-.... +.-+. ..-..++|+-+|||.++.. ++
T Consensus 80 ~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vggl~ 159 (218)
T KOG1674|consen 80 QYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVGGLT 159 (218)
T ss_pred HHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhCCCC
Confidence 45666777888999999999999999988611 11222 3336889999999988654 56
Q ss_pred hHHHHHHHHhhhhccCcceeccccchhHHHHHHHHHHhhccccc
Q 023010 239 LNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSANNSVK 282 (288)
Q Consensus 239 LRDII~va~~Il~k~~~~l~~y~~p~e~~~~~~~vlqa~n~~~~ 282 (288)
..|+......++...++.+. .+.+-|+.+...++......|
T Consensus 160 ~~eln~lE~~~l~~~~~~l~---i~~~~~~~~~~~~~~~~~~~~ 200 (218)
T KOG1674|consen 160 TDELNKLELDLLFLLDFRLI---ISRSEFNLYEDLLEREENLNK 200 (218)
T ss_pred hHhhhhhhHHHHhhCCeEEE---echhHHHHHHHHHHHHHhccc
Confidence 78888888899999999776 667888888777777776665
No 31
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=45.08 E-value=32 Score=32.96 Aligned_cols=24 Identities=25% Similarity=0.198 Sum_probs=20.5
Q ss_pred CcccHHHHHHHHHHHhhhcCCCCC
Q 023010 214 ACHDRFIIATAALFLAAKSEETPR 237 (288)
Q Consensus 214 ~~~d~~~VAaACLFLAcKvEEtpr 237 (288)
.-|+|+.||.||||.||=..|...
T Consensus 189 Ll~PPh~IalAcl~Ia~~~~~k~~ 212 (264)
T KOG0794|consen 189 LLYPPHQIALACLYIACVIDEKDI 212 (264)
T ss_pred eecCHHHHHHHHHHHHHhhcCCCh
Confidence 357899999999999998877665
No 32
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair]
Probab=42.22 E-value=1.6e+02 Score=28.13 Aligned_cols=79 Identities=19% Similarity=0.291 Sum_probs=47.6
Q ss_pred ccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHH--------HHHHHHhcCCChHHHHHHHHHHHHhhcc-----cCcCc
Q 023010 149 VFMSRDEIERFSPSRKDGIDALRETHLRYSYCAF--------IQNLGLRLELPQTTIGTAMVLCHRFFVR-----RSHAC 215 (288)
Q Consensus 149 WlFT~eELe~~tPS~~dGL~~eeE~~LR~~~~~f--------Iq~~G~~L~LPq~tiATAiVyfHRFYlr-----~S~~~ 215 (288)
..|++++..+ ..||+.+....-.....++ |.++|.-|++ ..|+-.|.-++.-|=.+ .--.+
T Consensus 59 i~fDr~~avK-----LSGl~k~~Y~~~~~sfe~llgln~~~~VrdlaVQfgc-~evi~~a~~vl~syk~~lpaT~~~~~D 132 (262)
T KOG4557|consen 59 IIFDRQAAVK-----LSGLSKKAYSRSFNSFENLLGLNIKLNVRDLAVQFGC-VEVIKSAQNVLSSYKERLPATRRANAD 132 (262)
T ss_pred ccccHHHHHH-----hccccHHHHHHHHHHHHHHhcchhhcCHHHHHHHHhH-HHHHHHHHHHHHHHHhcCchhhhcCCc
Confidence 3677777764 5677777655433222222 3444444444 24555666666666442 22257
Q ss_pred ccHHHHHHHHHHHhhhcC
Q 023010 216 HDRFIIATAALFLAAKSE 233 (288)
Q Consensus 216 ~d~~~VAaACLFLAcKvE 233 (288)
+.+-..+++++|+|||.-
T Consensus 133 ~SrP~ft~aA~~~ack~l 150 (262)
T KOG4557|consen 133 FSRPVFTAAAFYLACKKL 150 (262)
T ss_pred ccchHHHHHHHHHHHHHH
Confidence 778888999999999864
No 33
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=41.05 E-value=11 Score=37.40 Aligned_cols=81 Identities=17% Similarity=0.257 Sum_probs=65.6
Q ss_pred HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHHHHhhhcCCCCCC--------------hH
Q 023010 175 LRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP--------------LN 240 (288)
Q Consensus 175 LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACLFLAcKvEEtprk--------------LR 240 (288)
.|.-.+.+..+++...++--.+..-+..+.+||.......+.--+.+-.+|.++|+|-||.... ..
T Consensus 136 mrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~ 215 (359)
T KOG0654|consen 136 MRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYW 215 (359)
T ss_pred hhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHH
Confidence 4667789999999888899999999999999999988888777889999999999999887654 44
Q ss_pred HHHHHHHhhhhccCc
Q 023010 241 DVLRASSELYHKQNI 255 (288)
Q Consensus 241 DII~va~~Il~k~~~ 255 (288)
++......++....+
T Consensus 216 qv~~~~~~il~~l~~ 230 (359)
T KOG0654|consen 216 QVLRMEIDILNALTF 230 (359)
T ss_pred HHHHHHHHHHHHhHH
Confidence 555555555555555
No 34
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=39.34 E-value=31 Score=34.47 Aligned_cols=74 Identities=18% Similarity=0.072 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhc----------------------ccCcCcccHHHHHHHHHHHhhhcC
Q 023010 176 RYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFV----------------------RRSHACHDRFIIATAALFLAAKSE 233 (288)
Q Consensus 176 R~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYl----------------------r~S~~~~d~~~VAaACLFLAcKvE 233 (288)
+.+...+..+++..|.+.. +.-|.-+|+.||+. -..+..|-|-+||++++|||-=+-
T Consensus 214 ~~qv~~~~~~il~~l~~~~-~~pt~~~~l~~~~~~~~~~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~ 292 (359)
T KOG0654|consen 214 YWQVLRMEIDILNALTFEL-VRPTSKTFLRRFLRVAQTPELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTL 292 (359)
T ss_pred HHHHHHHHHHHHHHhHHHH-hCchHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhc
Confidence 3344455555555554432 33455666666633 223568889999999999995332
Q ss_pred -----------CCCCChHHHHHHHHhhh
Q 023010 234 -----------ETPRPLNDVLRASSELY 250 (288)
Q Consensus 234 -----------EtprkLRDII~va~~Il 250 (288)
.+..+..|+..+...+.
T Consensus 293 ~~~pW~~~L~~~T~y~~edl~~~v~~L~ 320 (359)
T KOG0654|consen 293 DFHPWNQTLEDYTGYKAEDLKPCVLDLH 320 (359)
T ss_pred cCCCCchhhHHhhcccHHHHHHHHHHHh
Confidence 23456777766555443
No 35
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=27.11 E-value=98 Score=31.57 Aligned_cols=45 Identities=11% Similarity=-0.042 Sum_probs=31.4
Q ss_pred ccccCCCCCccccccccccccccccccccccCCCCCCCCCC-CCCC
Q 023010 73 ASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAVS-SSNK 117 (288)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~-~s~~ 117 (288)
+|-+.+.++|--+|--.++.-=-+.+.--.++||+||.|.| +|--
T Consensus 373 ~nN~en~~PP~e~~lala~e~P~E~ggcP~~ie~~VpmPsPl~S~G 418 (561)
T KOG1103|consen 373 ANNRENPAPPPEARLALAAEFPTEKGGCPRAIEPAVPMPSPLMSIG 418 (561)
T ss_pred cccccCCCCCchhcccccccCccccCCCCCCCCCCCCCCCcccccc
Confidence 34445666777787777776656666666689999999988 4444
No 36
>cd00171 Sec7 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor activity.
Probab=20.96 E-value=5.9e+02 Score=22.53 Aligned_cols=86 Identities=12% Similarity=0.155 Sum_probs=52.9
Q ss_pred HHHHHHhcCCCh--HHHHHHHHHH-HHhhcccCcC----cccHHHHHHHHHHHhhhcCCC----CCChHHHHHHHHhhhh
Q 023010 183 IQNLGLRLELPQ--TTIGTAMVLC-HRFFVRRSHA----CHDRFIIATAALFLAAKSEET----PRPLNDVLRASSELYH 251 (288)
Q Consensus 183 Iq~~G~~L~LPq--~tiATAiVyf-HRFYlr~S~~----~~d~~~VAaACLFLAcKvEEt----prkLRDII~va~~Il~ 251 (288)
+..+...+.||. +.|...+..| .|||..+.-. .-..+.+|-|+|.|-...... ....++.+.....+..
T Consensus 85 LR~~l~~f~lpgE~Q~Idrile~Fs~~y~~~Np~~~~~~~d~v~~l~~sllmLnTdlHn~~~~~kmt~~~Fi~~~~~~~~ 164 (185)
T cd00171 85 LRKFLQSFRLPGEAQKIDRLLEKFSERYCECNPGIFSSSADAAYTLAYSIIMLNTDLHNPNVKKKMTLEDFIKNLRGIND 164 (185)
T ss_pred HHHHHHhccCCchHHHHHHHHHHHHHHHHHHCCCCCCCChhHHHHHHHHHHHHhHHhcCcccCCCCCHHHHHHHHhcccC
Confidence 445566777885 3444444444 6677666432 224678889999999887644 3345666665544443
Q ss_pred ccCcceeccccchhHHH-HHHHHHH
Q 023010 252 KQNITLLSYLLPIVRVS-TTISVLQ 275 (288)
Q Consensus 252 k~~~~l~~y~~p~e~~~-~~~~vlq 275 (288)
. -.+|.|++. .|++|..
T Consensus 165 ~-------~~~~~~~L~~iY~~I~~ 182 (185)
T cd00171 165 G-------EDFPREFLKELYDSIKN 182 (185)
T ss_pred C-------CCCCHHHHHHHHHHHHh
Confidence 3 236888888 4677654
No 37
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=20.38 E-value=3.4e+02 Score=21.00 Aligned_cols=43 Identities=21% Similarity=0.320 Sum_probs=32.7
Q ss_pred CCCCCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHh
Q 023010 144 EDDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRF 207 (288)
Q Consensus 144 ~~~~~WlFT~eELe~~tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRF 207 (288)
.....|+|+.+++.+ ...|.++..-|++....++.+.-++.|-
T Consensus 30 ~~~~~~~f~~~~l~r---------------------l~~~~rL~~Dl~in~~gi~lil~LLd~i 72 (84)
T PF13591_consen 30 GEEEEWYFSEEDLAR---------------------LRRIRRLHRDLGINLEGIALILDLLDRI 72 (84)
T ss_pred CCCCeeeECHHHHHH---------------------HHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 334689999999963 2346777888899988888888888764
No 38
>PRK13298 tRNA CCA-pyrophosphorylase; Provisional
Probab=20.17 E-value=5.3e+02 Score=26.31 Aligned_cols=27 Identities=22% Similarity=0.303 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHH
Q 023010 178 SYCAFIQNLGLRLELPQTTIGTAMVLC 204 (288)
Q Consensus 178 ~~~~fIq~~G~~L~LPq~tiATAiVyf 204 (288)
.++..+.++|.+|++|..++..|+.+.
T Consensus 279 ~G~~~a~~i~~RLk~pn~~~~~~~~li 305 (417)
T PRK13298 279 YAASLIKNLCKRFKIPSYIRNIAVLNT 305 (417)
T ss_pred hHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 577789999999999998887666554
Done!