Query 007507
Match_columns 601
No_of_seqs 264 out of 1724
Neff 5.6
Searched_HMMs 46136
Date Thu Mar 28 11:32:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007507.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007507hhsearch_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 1.1E-49 2.5E-54 414.7 24.5 296 29-341 7-309 (323)
2 KOG0835 Cyclin L [General func 100.0 9.4E-39 2E-43 326.2 20.6 224 43-271 5-231 (367)
3 TIGR00569 ccl1 cyclin ccl1. Un 100.0 4.7E-37 1E-41 319.9 22.5 227 27-275 3-261 (305)
4 KOG0794 CDK8 kinase-activating 100.0 3E-36 6.4E-41 295.7 12.7 237 29-277 9-246 (264)
5 COG5333 CCL1 Cdk activating ki 100.0 2.1E-29 4.5E-34 257.9 17.3 175 52-240 36-211 (297)
6 KOG2496 Cdk activating kinase 99.9 3.2E-22 6.9E-27 203.9 11.9 225 27-273 4-261 (325)
7 KOG0656 G1/S-specific cyclin D 99.9 2.1E-21 4.5E-26 203.3 16.0 174 44-236 59-241 (335)
8 PRK00423 tfb transcription ini 99.8 6.7E-20 1.4E-24 192.4 20.6 187 57-270 119-305 (310)
9 KOG0653 Cyclin B and related k 99.8 1.2E-20 2.6E-25 203.7 12.8 184 57-267 154-343 (391)
10 KOG0655 G1/S-specific cyclin E 99.8 1.2E-19 2.5E-24 186.6 13.0 194 53-277 137-343 (408)
11 COG5024 Cyclin [Cell division 99.8 5.1E-19 1.1E-23 191.4 13.8 186 58-271 210-401 (440)
12 PF00134 Cyclin_N: Cyclin, N-t 99.7 1.7E-16 3.6E-21 143.4 9.1 102 55-176 25-127 (127)
13 KOG0654 G2/Mitotic-specific cy 99.6 8.3E-16 1.8E-20 162.7 10.0 195 55-277 131-330 (359)
14 COG1405 SUA7 Transcription ini 99.6 2.8E-14 6.1E-19 148.0 16.8 183 62-270 98-280 (285)
15 KOG1597 Transcription initiati 99.6 1.3E-13 2.8E-18 140.9 17.8 185 60-270 103-289 (308)
16 cd00043 CYCLIN Cyclin box fold 99.3 5.5E-12 1.2E-16 104.6 8.1 87 61-168 2-88 (88)
17 smart00385 CYCLIN domain prese 99.2 7.2E-11 1.6E-15 97.0 6.8 83 66-169 1-83 (83)
18 PF02984 Cyclin_C: Cyclin, C-t 98.9 3.4E-09 7.5E-14 94.0 7.6 89 178-273 1-93 (118)
19 KOG1598 Transcription initiati 98.8 1.8E-08 4E-13 110.7 10.7 183 57-265 63-250 (521)
20 smart00385 CYCLIN domain prese 98.4 1E-06 2.2E-11 72.2 8.4 80 183-266 2-82 (83)
21 PF00382 TFIIB: Transcription 98.4 8.7E-07 1.9E-11 73.5 6.9 64 68-131 1-64 (71)
22 cd00043 CYCLIN Cyclin box fold 98.3 2.8E-06 6E-11 70.2 8.1 85 177-265 2-87 (88)
23 KOG4164 Cyclin ik3-1/CABLES [C 97.9 1.9E-05 4.1E-10 84.2 6.9 99 63-179 384-483 (497)
24 PF08613 Cyclin: Cyclin; Inte 97.8 0.00013 2.9E-09 69.1 9.4 90 64-175 54-149 (149)
25 PF00382 TFIIB: Transcription 97.6 0.00025 5.3E-09 58.8 6.9 71 184-258 1-71 (71)
26 PRK00423 tfb transcription ini 97.5 0.00043 9.4E-09 73.3 9.5 67 65-131 220-286 (310)
27 COG1405 SUA7 Transcription ini 95.5 0.035 7.5E-07 58.5 7.4 68 65-132 195-262 (285)
28 PF00134 Cyclin_N: Cyclin, N-t 94.2 0.17 3.7E-06 45.4 7.4 86 182-270 36-123 (127)
29 KOG1597 Transcription initiati 94.1 0.14 3.1E-06 53.7 7.3 69 64-132 203-271 (308)
30 PF01857 RB_B: Retinoblastoma- 90.6 0.93 2E-05 42.8 7.3 67 64-130 14-82 (135)
31 KOG0835 Cyclin L [General func 88.3 0.59 1.3E-05 49.9 4.5 58 66-123 143-202 (367)
32 PF02984 Cyclin_C: Cyclin, C-t 88.0 0.41 8.9E-06 42.1 2.7 55 65-119 4-58 (118)
33 TIGR00569 ccl1 cyclin ccl1. Un 88.0 1.1 2.3E-05 47.8 6.3 57 183-240 62-120 (305)
34 KOG1674 Cyclin [General functi 87.9 1 2.2E-05 45.7 5.9 93 65-178 79-181 (218)
35 KOG0834 CDK9 kinase-activating 83.1 0.52 1.1E-05 50.6 1.1 59 65-123 152-214 (323)
36 KOG1598 Transcription initiati 74.5 3.5 7.5E-05 46.8 4.2 55 80-134 185-239 (521)
37 PF01857 RB_B: Retinoblastoma- 71.4 18 0.0004 34.1 7.7 54 183-237 17-72 (135)
38 KOG1675 Predicted cyclin [Gene 69.2 11 0.00024 40.3 6.2 91 67-179 196-290 (343)
39 KOG0656 G1/S-specific cyclin D 62.7 20 0.00044 38.8 6.9 82 158-240 50-143 (335)
40 COG5333 CCL1 Cdk activating ki 62.3 12 0.00026 39.8 5.0 90 181-271 49-143 (297)
41 PF08613 Cyclin: Cyclin; Inte 62.2 42 0.00091 31.8 8.3 87 181-270 55-146 (149)
42 KOG4557 Origin recognition com 58.4 2.3E+02 0.0049 29.3 14.9 75 197-274 107-186 (262)
43 KOG0794 CDK8 kinase-activating 53.3 29 0.00063 35.9 5.7 74 197-270 60-145 (264)
44 KOG2496 Cdk activating kinase 50.0 33 0.00071 36.8 5.7 55 184-238 63-118 (325)
45 COG4009 Uncharacterized protei 40.7 19 0.00041 31.3 1.9 48 440-487 21-83 (88)
46 KOG1010 Rb (Retinoblastoma tum 40.2 45 0.00097 40.2 5.4 66 65-130 681-748 (920)
47 KOG0653 Cyclin B and related k 32.6 1.5E+02 0.0033 32.7 7.9 99 183-282 164-263 (391)
48 PF07713 DUF1604: Protein of u 32.3 20 0.00044 31.5 0.8 17 458-474 59-75 (87)
49 PF13591 MerR_2: MerR HTH fami 31.5 1E+02 0.0022 26.5 5.0 42 32-94 33-74 (84)
50 COG5024 Cyclin [Cell division 29.2 69 0.0015 36.1 4.5 83 198-282 233-317 (440)
51 KOG4557 Origin recognition com 24.9 1.1E+02 0.0024 31.4 4.6 78 34-118 59-150 (262)
52 PF11357 Spy1: Cell cycle regu 21.2 3.3E+02 0.0072 25.9 6.7 87 73-179 23-111 (131)
No 1
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.1e-49 Score=414.66 Aligned_cols=296 Identities=48% Similarity=0.781 Sum_probs=252.7
Q ss_pred cccccccccHHHHhhhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHH
Q 007507 29 EEVARWYFSRREIEDSSPSRRDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIAT 108 (601)
Q Consensus 29 eq~~~WyFT~eELee~sPSr~dgIs~e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAa 108 (601)
.....|||+++|+++.+||+.+|++.+.|..+|..++.||+++|.+|++|+.|++||++||||||+.+++..+++++||+
T Consensus 7 ~~~~~w~~s~e~~~~~tpSr~~g~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~ 86 (323)
T KOG0834|consen 7 GETSRWYFSKEQLEENTPSRRDGIDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAA 86 (323)
T ss_pred ccccccccCHHHHccCChhhccCCchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHH
Confidence 45689999999999899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhccCCCCCCChHHHHHHHHHHHhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHH
Q 007507 109 VCMFLAGKVEETPRPLKDVIIVSYEIIHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAI 188 (601)
Q Consensus 109 ACLfLA~KvEE~prkL~dIi~Vs~~l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl 188 (601)
+|||||||+||+|++++|||.+++.++++.+ +. ..+.|+..++.|+.+|+.||++|+|||+|.+||.||.+|+
T Consensus 87 sclfLAgKvEetp~kl~dIi~~s~~~~~~~~------~~-~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~ 159 (323)
T KOG0834|consen 87 SCLFLAGKVEETPRKLEDIIKVSYRYLNPKD------LE-LEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYL 159 (323)
T ss_pred HHHHHHhhcccCcccHHHHHHHHHHHcCccc------cc-HHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHH
Confidence 9999999999999999999999999987654 11 5789999999999999999999999999999999999999
Q ss_pred HHhccchH---HHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccC--CCHHHHHHHHH
Q 007507 189 KKFKVAQN---ALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFD--VTPRQLEEVSN 263 (601)
Q Consensus 189 ~~L~~~~~---~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fd--vt~eeL~ei~~ 263 (601)
+.++...+ .+++.||+|++|++++.+||+|+|.+||+|||+||+.+.++.+|...+..||..|+ +|.+.|.+++.
T Consensus 160 k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~ 239 (323)
T KOG0834|consen 160 KKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICH 239 (323)
T ss_pred HHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHH
Confidence 99988765 59999999999999999999999999999999999999999999877778999998 99999999999
Q ss_pred HHHHHHhcCCCCCCCCcccccccCCCCCCCCCCCCCchhhhhhhc--cCcccccCCCCCCCCCCCCcccccCCCCCCCCC
Q 007507 264 QMLELYEQNRVPQSQGSEVEGSAGGASSHRPQKTPAAAEEQASKQ--TSSRSATEHSHPENNGASSRTAQNNQSNDDGSG 341 (601)
Q Consensus 264 eILeLY~~~~~~~~~~~~~~~s~~~~~~qr~~k~~~~~~e~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 341 (601)
+++++|+............+..... .++.. ..+... ++....+.+.+++..+++....+ ++++.++..
T Consensus 240 ~~l~~y~~~~~~~~~~~~~~~~~~~------~~~~~---~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~-~~s~~~~~~ 309 (323)
T KOG0834|consen 240 EFLDLYEQTPQRNHLLLNVEAVVEL------SKAKP---GNVRPRIPSSRDPNSSERLSDTRVNGSKSSS-SSSNHRSPH 309 (323)
T ss_pred HHHHHHhhccccccccccccccccc------cccCC---CCCCCCCCccccCccccccccccccCccccc-cccccccCc
Confidence 9999999987775555443321110 01111 111111 11122345556777777777777 666665444
No 2
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=100.00 E-value=9.4e-39 Score=326.19 Aligned_cols=224 Identities=35% Similarity=0.666 Sum_probs=205.5
Q ss_pred hhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCC
Q 007507 43 DSSPSRRDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPR 122 (601)
Q Consensus 43 e~sPSr~dgIs~e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~pr 122 (601)
..+|+..+|++.+.|..+|..+|.||++.|..|+||+.+++|+.+||+|||..+++..+++..|++|||+||+|+||.|+
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 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHHHHHHHhc--CCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccchHH-HH
Q 007507 123 PLKDVIIVSYEIIHK--KDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVAQNA-LA 199 (601)
Q Consensus 123 kL~dIi~Vs~~l~~k--~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~~~~-L~ 199 (601)
++++|++|+..+-.. ..+.... | ....|...+..++.+|+.||++|||++.|.+||.++..|+..|++.++. |.
T Consensus 85 r~rdVinVFh~L~~r~~~~~~~~~-~--~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~ 161 (367)
T KOG0835|consen 85 RIRDVINVFHYLEQRRESEAAEHL-I--LARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLL 161 (367)
T ss_pred cHhHHHHHHHHHHHHHhccCcchh-h--hhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHH
Confidence 999999998876432 2222111 2 2455667888999999999999999999999999999999999988654 89
Q ss_pred HHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHHHHHHHHHHHHHhc
Q 007507 200 QVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEVSNQMLELYEQ 271 (601)
Q Consensus 200 qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei~~eILeLY~~ 271 (601)
|.+|+|+||++.|.+|..|+|..|||||||||++.+++++|.. +.||..|+++..+|.+++-.++.||..
T Consensus 162 Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~--P~Wf~~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 162 QAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQ--PHWFKAFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred HHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCC--ccHHHHcCCcHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999974 589999999999999999999999998
No 3
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=4.7e-37 Score=319.91 Aligned_cols=227 Identities=25% Similarity=0.364 Sum_probs=190.6
Q ss_pred ccccccccccc-HHHHhhhCC------------------CccCCCCHHHHHHHHHHHHHHHHHHHHHcC--CcHHHHHHH
Q 007507 27 KPEEVARWYFS-RREIEDSSP------------------SRRDGIDLKKETYLRKSYCTFLQDLGMRLK--VPQVTIATA 85 (601)
Q Consensus 27 ~~eq~~~WyFT-~eELee~sP------------------Sr~dgIs~e~E~~lR~~~v~~I~ev~~~Lk--Lp~~TiaTA 85 (601)
.++|...|.|| +++|.+... ....+++.++|..+|.+++.+|+++|..|+ ||+.|++||
T Consensus 3 ~StQ~r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~~~~~~~~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~viaTA 82 (305)
T TIGR00569 3 NSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVGTA 82 (305)
T ss_pred CCcccccCcCCCHHHHHHHHHHHHHHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHH
Confidence 35788999999 988864321 234589999999999999999999999999 999999999
Q ss_pred HHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHHHhcCCCCchhhhccchHHHHHHHHHHHHHHH
Q 007507 86 IIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDSTAPQRIRQQKEVYEQQKELILLGER 165 (601)
Q Consensus 86 i~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~ 165 (601)
++||||||+.+|+..+++++|++||||||||+||+++++.+++.... . .+..+++.|+.+|+
T Consensus 83 ivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~-----~-------------~~~~~~~~Il~~E~ 144 (305)
T TIGR00569 83 IMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLK-----E-------------TPLKALEQVLEYEL 144 (305)
T ss_pred HHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhcc-----C-------------CchhhHHHHHHHHH
Confidence 99999999999999999999999999999999999999988875321 0 11135688999999
Q ss_pred HHHHHhCCcccccCcHHHHHHHHHHhcc------chHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCC
Q 007507 166 VVLATLGFDLNVHHPYKPLVEAIKKFKV------AQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKL 239 (601)
Q Consensus 166 ~IL~tL~FDL~v~~P~~fL~~fl~~L~~------~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~l 239 (601)
.||++|+|+|.|++||.+|..|+..+.. ..+.+.+.||.|++|+++|++||.|+|++||+||||+|+..+++++
T Consensus 145 ~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~~~l 224 (305)
T TIGR00569 145 LLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNM 224 (305)
T ss_pred HHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhCCCC
Confidence 9999999999999999999999875531 2346889999999999999999999999999999999999999999
Q ss_pred CCCCccccccccCC--CHH---HHHHHHHHHHHHHhcCCCC
Q 007507 240 PSDGDKVWWQEFDV--TPR---QLEEVSNQMLELYEQNRVP 275 (601)
Q Consensus 240 P~~~~~~W~~~fdv--t~e---eL~ei~~eILeLY~~~~~~ 275 (601)
|... | +.|++ +.+ .|...+..|..+......+
T Consensus 225 ~~~~---~-e~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 261 (305)
T TIGR00569 225 ESYL---T-EQLSVPGNREELPQLIDIMRELRILVKKYEEP 261 (305)
T ss_pred cccc---h-hhhcccccHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 9742 4 67766 444 4556666666666654444
No 4
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=100.00 E-value=3e-36 Score=295.66 Aligned_cols=237 Identities=28% Similarity=0.530 Sum_probs=206.9
Q ss_pred cccccccccHHHHhhhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHH
Q 007507 29 EEVARWYFSRREIEDSSPSRRDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIAT 108 (601)
Q Consensus 29 eq~~~WyFT~eELee~sPSr~dgIs~e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAa 108 (601)
.+..+|+|++++|..-.|-...|++.++-..++.++..+|+.+|.+++|.|.++|||++||+|||.++|++.+++.++|.
T Consensus 9 Sh~~qwl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~ 88 (264)
T KOG0794|consen 9 SHYQQWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAP 88 (264)
T ss_pred hhhhhHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHH
Confidence 46689999999998877877889998888899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhccCCCCC-CChHHHHHHHHHHHhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHH
Q 007507 109 VCMFLAGKVEETP-RPLKDVIIVSYEIIHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEA 187 (601)
Q Consensus 109 ACLfLA~KvEE~p-rkL~dIi~Vs~~l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~f 187 (601)
||||||||+||++ ..++-+++.+..+..+-. . ..+.+.-....|+.+|+.||+.|++-|.|.|||..|..|
T Consensus 89 TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~-~-------~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~ 160 (264)
T KOG0794|consen 89 TCLYLACKVEECPIVHIRLLVNEAKVLKTRFS-Y-------WPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQF 160 (264)
T ss_pred HHHHHHhhhhhcchHHHHHHHHHHHHHhhhcc-c-------chhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHH
Confidence 9999999999998 446666665554432211 1 111112234679999999999999999999999999999
Q ss_pred HHHhccchHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHHHHHHHHHHH
Q 007507 188 IKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEVSNQMLE 267 (601)
Q Consensus 188 l~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei~~eILe 267 (601)
+...++....+.+.+|.++||++++++||.|||+.||+|||++|+...+.++| +.|+..+.++.+.+.+|+.+|+.
T Consensus 161 ~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~----~~w~~el~vD~ekV~~~v~~I~~ 236 (264)
T KOG0794|consen 161 VQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIP----KAWFAELSVDMEKVKDIVQEILK 236 (264)
T ss_pred HHHhcccchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChH----HHHHHHHhccHHHHHHHHHHHHH
Confidence 99999865568899999999999999999999999999999999999998766 47999999999999999999999
Q ss_pred HHhcCCCCCC
Q 007507 268 LYEQNRVPQS 277 (601)
Q Consensus 268 LY~~~~~~~~ 277 (601)
+|+.++.-..
T Consensus 237 lYe~wk~~~E 246 (264)
T KOG0794|consen 237 LYELWKIFDE 246 (264)
T ss_pred HHHHHhhhhH
Confidence 9999866543
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=99.96 E-value=2.1e-29 Score=257.87 Aligned_cols=175 Identities=39% Similarity=0.635 Sum_probs=156.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHH
Q 007507 52 IDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVS 131 (601)
Q Consensus 52 Is~e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs 131 (601)
+..+.|..+|.+++.||+.+|.+|+||+.|++||+.||+||+.+.+++.++++.|++||||||||+||+++-+. ..+
T Consensus 36 l~~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~~~~I~---i~~ 112 (297)
T COG5333 36 LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDIS---IES 112 (297)
T ss_pred cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccchhh---HHH
Confidence 78899999999999999999999999999999999999999999999999999999999999999999965443 333
Q ss_pred HHHHhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccchH-HHHHHHHHHHHHHh
Q 007507 132 YEIIHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVAQN-ALAQVAWNFVNDGL 210 (601)
Q Consensus 132 ~~l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~~~-~L~qlA~~~LnDsl 210 (601)
+...+. .++.++.+++.|+.+|+.||++|+|||.|++||.++..|+..+..... ++.+.||.+++|++
T Consensus 113 ~~~~~~-----------~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~ 181 (297)
T COG5333 113 FEARDL-----------WSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDAL 181 (297)
T ss_pred HHhhcc-----------ccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhh
Confidence 222211 245566789999999999999999999999999999999999876654 68999999999999
Q ss_pred ccccccccchHHHHHHHHHHHHHHcCCCCC
Q 007507 211 RTSLCLQFKPHHIAAGAIFLAAKFLKVKLP 240 (601)
Q Consensus 211 ~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP 240 (601)
.+.+|+.|+|+.||+|||++|+..++.+++
T Consensus 182 ~t~~~llypphiIA~a~l~ia~~~~~~~~~ 211 (297)
T COG5333 182 RTDLCLLYPPHIIALAALLIACEVLGMPII 211 (297)
T ss_pred hceeeeecChHHHHHHHHHHHHHhcCCccc
Confidence 999999999999999999999999988654
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=99.87 E-value=3.2e-22 Score=203.88 Aligned_cols=225 Identities=24% Similarity=0.353 Sum_probs=168.1
Q ss_pred cccccccccccHHHHhhhC------------------CCccCCCCHHHHHHHHHHHHHHHHHHHHHc--CCcHHHHHHHH
Q 007507 27 KPEEVARWYFSRREIEDSS------------------PSRRDGIDLKKETYLRKSYCTFLQDLGMRL--KVPQVTIATAI 86 (601)
Q Consensus 27 ~~eq~~~WyFT~eELee~s------------------PSr~dgIs~e~E~~lR~~~v~~I~ev~~~L--kLp~~TiaTAi 86 (601)
.+.|...|.||++||.+.. +...--+.+.+|..+-+....-+.+.|..| .||..|..||+
T Consensus 4 ~Ssq~r~W~fte~qL~e~r~~~N~k~i~~~ee~~~~~~~~e~~v~~~ee~tl~k~~E~~l~~f~~k~~p~lp~~Vv~TA~ 83 (325)
T KOG2496|consen 4 TSSQYRKWIFTEEQLAERRVDANQKAIQMLEEEAHNLDENEVFVLEAEELTLTKEEELSLVNFYSKFKPNLPTSVVSTAI 83 (325)
T ss_pred cchhhhcccccHHHHHHHHHHHHHHHHHHHHHhccCCCccchhccccccccccHHHHHHHHHHHHHhcCCCchHHHHHHH
Confidence 3468889999999996531 111112334455556666666677777777 48999999999
Q ss_pred HHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHHHhcCCCCchhhhccchHHHHHHHHHHHHHHHH
Q 007507 87 IFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDSTAPQRIRQQKEVYEQQKELILLGERV 166 (601)
Q Consensus 87 ~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~ 166 (601)
.||+|||..++++.+++..|++||+|||||++|..+++.+++.-.. . .-+...+.|+..|..
T Consensus 84 ~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~-----~-------------~~~k~~e~vLk~E~~ 145 (325)
T KOG2496|consen 84 EFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMN-----G-------------RKWKTHEIVLKYEFL 145 (325)
T ss_pred HHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhcc-----C-------------cccccHHHHHhchHH
Confidence 9999999999999999999999999999999999999999875321 0 012356889999999
Q ss_pred HHHHhCCcccccCcHHHHHHHHHHhcc------chHHHHHHH--HHHHHHHhccccccccchHHHHHHHHHHHHHHcCCC
Q 007507 167 VLATLGFDLNVHHPYKPLVEAIKKFKV------AQNALAQVA--WNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVK 238 (601)
Q Consensus 167 IL~tL~FDL~v~~P~~fL~~fl~~L~~------~~~~L~qlA--~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~ 238 (601)
+|+.|.|+|.+.+||..|..|+..+.- ..+.+.... ..|++.+++|+.++.|+|++||+|||..|.-..+..
T Consensus 146 llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a~~~~~~~ 225 (325)
T KOG2496|consen 146 LLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHAAGRTGET 225 (325)
T ss_pred HHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHHhccccch
Confidence 999999999999999999999876531 122233333 479999999999999999999999997676555553
Q ss_pred CCCCCcccccccc-----CCCHHHHHHHHHHHHHHHhcCC
Q 007507 239 LPSDGDKVWWQEF-----DVTPRQLEEVSNQMLELYEQNR 273 (601)
Q Consensus 239 lP~~~~~~W~~~f-----dvt~eeL~ei~~eILeLY~~~~ 273 (601)
+-+ -..+.. .-....+.+++..|..+..+..
T Consensus 226 l~s----~~~e~l~~~enr~~~s~l~d~~~~~~nlvk~~~ 261 (325)
T KOG2496|consen 226 LES----YLLESLGSQENREKLSELLDILKKIRNLVKQYK 261 (325)
T ss_pred HHH----HHHHHhcCccccccchhhHHHHHHHHHHHHhcc
Confidence 221 011111 3345667788888888887766
No 7
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.87 E-value=2.1e-21 Score=203.29 Aligned_cols=174 Identities=22% Similarity=0.273 Sum_probs=141.4
Q ss_pred hCCCc--cCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCc---hhHHHHHHHHHhccCC
Q 007507 44 SSPSR--RDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKND---RRTIATVCMFLAGKVE 118 (601)
Q Consensus 44 ~sPSr--~dgIs~e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~d---l~lVAaACLfLA~KvE 118 (601)
..|+. ...++...--.+|..+++||.++|..+++...|+.+|++||+||++.+.+.+.. ++++|+|||+||+|+|
T Consensus 59 ~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKme 138 (335)
T KOG0656|consen 59 HNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKME 138 (335)
T ss_pred hCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhc
Confidence 34554 233333334457999999999999999999999999999999999999999998 9999999999999999
Q ss_pred CCCCC-hHHHHHHHHHHHhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccch--
Q 007507 119 ETPRP-LKDVIIVSYEIIHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVAQ-- 195 (601)
Q Consensus 119 E~prk-L~dIi~Vs~~l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~~-- 195 (601)
|+.++ +-|+... + . .|-+..+.|.+||..||.+|+|+++.+||+.|+..|+.++....
T Consensus 139 E~~vPll~dl~v~-~----------------~--~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~ 199 (335)
T KOG0656|consen 139 ETDVPLLADLQVE-Y----------------T--DNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHN 199 (335)
T ss_pred CcCCchhhhhhhc-c----------------c--cccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccch
Confidence 99755 3333211 1 1 12234688999999999999999999999999999999987642
Q ss_pred -HHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcC
Q 007507 196 -NALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLK 236 (601)
Q Consensus 196 -~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~ 236 (601)
..+...|..++-.+....-|+.|+|++||+|++.++.....
T Consensus 200 ~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~ 241 (335)
T KOG0656|consen 200 KHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSVSASVD 241 (335)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhc
Confidence 24667788888888888999999999999998877665443
No 8
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.84 E-value=6.7e-20 Score=192.35 Aligned_cols=187 Identities=16% Similarity=0.189 Sum_probs=166.7
Q ss_pred HHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHHHh
Q 007507 57 ETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEIIH 136 (601)
Q Consensus 57 E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l~~ 136 (601)
|..+ ..++..|.++|..|+||..+..+|..||++++....++...+..+++||||+|||.++.|+.+++|+.++.
T Consensus 119 er~l-~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~---- 193 (310)
T PRK00423 119 ERNL-AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSR---- 193 (310)
T ss_pred hHHH-HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhC----
Confidence 3344 56778999999999999999999999999999999999999999999999999999999999999987643
Q ss_pred cCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccccc
Q 007507 137 KKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCL 216 (601)
Q Consensus 137 k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L 216 (601)
+ .+.+|...++.|++.|+|++.+.+|+.||.+|+..|+++. .+.+.|+.+++.+....++.
T Consensus 194 ---------v---------~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~-~v~~~A~~i~~~a~~~~l~~ 254 (310)
T PRK00423 194 ---------V---------SRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG-EVQKKAIEILQKAKEKGLTS 254 (310)
T ss_pred ---------C---------CHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHhcCccc
Confidence 1 1356788899999999999999999999999999999975 69999999999999889999
Q ss_pred ccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHHHHHHHHHHHHHh
Q 007507 217 QFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEVSNQMLELYE 270 (601)
Q Consensus 217 ~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei~~eILeLY~ 270 (601)
...|..||+||||+|+++++.+.+. .......+++..+|...+.+|...+.
T Consensus 255 Gr~P~sIAAAaIYlA~~~~g~~~t~---keIa~v~~Vs~~tI~~~ykel~~~l~ 305 (310)
T PRK00423 255 GKGPTGLAAAAIYIASLLLGERRTQ---REVAEVAGVTEVTVRNRYKELAEKLD 305 (310)
T ss_pred CCCHHHHHHHHHHHHHHHhCCCCCH---HHHHHHcCCCHHHHHHHHHHHHHHhC
Confidence 9999999999999999999987654 34566779999999999999987653
No 9
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.84 E-value=1.2e-20 Score=203.73 Aligned_cols=184 Identities=21% Similarity=0.295 Sum_probs=157.2
Q ss_pred HHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHH-HhccCCCCCCC-hHHHHHHHHHH
Q 007507 57 ETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMF-LAGKVEETPRP-LKDVIIVSYEI 134 (601)
Q Consensus 57 E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLf-LA~KvEE~prk-L~dIi~Vs~~l 134 (601)
-..||..+++||.+|+..|+|..+|+++||.++|||+....+....+++|+++||| ||||+||...| +.|++.++.
T Consensus 154 ~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd-- 231 (391)
T KOG0653|consen 154 RAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITD-- 231 (391)
T ss_pred cHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeC--
Confidence 34799999999999999999999999999999999999988999999999999977 99999997665 666665433
Q ss_pred HhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccc
Q 007507 135 IHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSL 214 (601)
Q Consensus 135 ~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l 214 (601)
..| ++++|+.||+.||.+|+|++.+++|+.||.+|++..... .....++.+++..+++..-
T Consensus 232 ----------------~~~--s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d-~~~~~~~k~~~El~l~d~~ 292 (391)
T KOG0653|consen 232 ----------------GAY--SREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYD-IKTRTLVKYLLELSLCDYS 292 (391)
T ss_pred ----------------Ccc--chHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcc-hhHHHHHHHHHHHHHhhhH
Confidence 223 578999999999999999999999999999999987743 3567888999999999999
Q ss_pred ccccchHHHHHHHHHHHHHHcCCCCCCCCcccccccc----CCCHHHHHHHHHHHHH
Q 007507 215 CLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEF----DVTPRQLEEVSNQMLE 267 (601)
Q Consensus 215 ~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~f----dvt~eeL~ei~~eILe 267 (601)
++.++|+.+|+|++++|..++... ..|...+ ++....+..+...+..
T Consensus 293 ~~~~~~s~~aaa~~~~~~~~~~~~------~~w~~~~~~~sg~~~~~~~~~~~~~~~ 343 (391)
T KOG0653|consen 293 MLSIPPSSSAAASFTLALRMLSKG------DVWSPTLEHYSGYSESYLFECARSLSA 343 (391)
T ss_pred HhccCcHHHHHHHHHHHHHHhccC------CccCCCCeeccCCCcHHHHHHHHHHHH
Confidence 999999999999999999999873 2476544 5555567777666666
No 10
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=99.81 E-value=1.2e-19 Score=186.59 Aligned_cols=194 Identities=18% Similarity=0.190 Sum_probs=155.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhc-CCCCCCchhHHHHHHHHHhccCCCC-CCChHHHHHH
Q 007507 53 DLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIR-QSHAKNDRRTIATVCMFLAGKVEET-PRPLKDVIIV 130 (601)
Q Consensus 53 s~e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~-~S~~~~dl~lVAaACLfLA~KvEE~-prkL~dIi~V 130 (601)
.+..+..||..+++||++||..++|..+|+++|+-||+||+.. ..+.+..+++|++||||||+|+||. |+++-++..|
T Consensus 137 Hpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyv 216 (408)
T KOG0655|consen 137 HPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYV 216 (408)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCccccceeee
Confidence 3345668999999999999999999999999999999999975 4567889999999999999999996 6779888877
Q ss_pred HHHHHhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccc-----------hHHHH
Q 007507 131 SYEIIHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVA-----------QNALA 199 (601)
Q Consensus 131 s~~l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~-----------~~~L~ 199 (601)
+...+ +-+.|+.||.+||++|+|+|...+...+|.-|+...... +....
T Consensus 217 TDgAc--------------------s~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~~efi 276 (408)
T KOG0655|consen 217 TDGAC--------------------SEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQEEFI 276 (408)
T ss_pred ccCcc--------------------chHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccchHHHH
Confidence 55433 347899999999999999999999999999998865432 12344
Q ss_pred HHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHHHHHHHHHHHHHhcCCCCCC
Q 007507 200 QVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEVSNQMLELYEQNRVPQS 277 (601)
Q Consensus 200 qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei~~eILeLY~~~~~~~~ 277 (601)
+.| .+|..++..--++.|+-..||||||+.-.... .--+..|+....|.+|+.-|.=++.--+...+
T Consensus 277 qia-qlLDlc~ldids~~fsYrilaAAal~h~~s~e----------~v~kaSG~~w~~ie~cv~wm~Pf~rvi~~~~~ 343 (408)
T KOG0655|consen 277 QIA-QLLDLCILDIDSLEFSYRILAAAALCHFTSIE----------VVKKASGLEWDSIEECVDWMVPFVRVIKSTSP 343 (408)
T ss_pred HHH-HHHHHHHhccccccchHHHHHHHHHHHHhHHH----------HHHHcccccHHHHHHHHHHHHHHHHHHhhccc
Confidence 444 56777778888999999999999998654311 12244578889999999999888776544433
No 11
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.79 E-value=5.1e-19 Score=191.37 Aligned_cols=186 Identities=20% Similarity=0.236 Sum_probs=158.9
Q ss_pred HHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCC-hHHHHHHHHHHHh
Q 007507 58 TYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRP-LKDVIIVSYEIIH 136 (601)
Q Consensus 58 ~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prk-L~dIi~Vs~~l~~ 136 (601)
..||..+++||.+++..|+|-++|+++|+.+++||+....+.-..+++||++|||||||+||...+ +++++.++...+
T Consensus 210 ~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~- 288 (440)
T COG5024 210 WSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAF- 288 (440)
T ss_pred HhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccc-
Confidence 369999999999999999999999999999999999999999999999999999999999998655 677766654322
Q ss_pred cCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccccc
Q 007507 137 KKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCL 216 (601)
Q Consensus 137 k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L 216 (601)
+++.|+.+|+.+|.+|+|++..|.|+.||.++.+.-.-+ -..+..+.+++.-+....-++
T Consensus 289 -------------------t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd-~~srt~~k~~~e~s~~~~~f~ 348 (440)
T COG5024 289 -------------------TRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYD-IFSRTPAKFSSEISPVDYKFI 348 (440)
T ss_pred -------------------cHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccc-hhhhhhHhhhCCchHhhhhhc
Confidence 568999999999999999999999999977776654332 245567888888888888889
Q ss_pred ccchHHHHHHHHHHHHHHcCCCCCCCCcccccccc----C-CCHHHHHHHHHHHHHHHhc
Q 007507 217 QFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEF----D-VTPRQLEEVSNQMLELYEQ 271 (601)
Q Consensus 217 ~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~f----d-vt~eeL~ei~~eILeLY~~ 271 (601)
.++|+.+|+||.|+|..+++-. .|-..+ | ++..++..++..++++...
T Consensus 349 ~~~~S~~~aaa~~~s~~~~~~~-------~w~~~l~~ySg~y~~~~l~~~~~~~~~~l~~ 401 (440)
T COG5024 349 QISPSWCAAAAMYLSRKILSQN-------QWDRTLIHYSGNYTNPDLKPLNESNKENLQN 401 (440)
T ss_pred cCCchHHHHHHHHHHHhhhccC-------CCCccccccCCCCCchhHHHHHHHHHHHhcc
Confidence 9999999999999999999862 366555 4 8888999999988887663
No 12
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.67 E-value=1.7e-16 Score=143.38 Aligned_cols=102 Identities=33% Similarity=0.530 Sum_probs=84.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCC-CCChHHHHHHHHH
Q 007507 55 KKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEET-PRPLKDVIIVSYE 133 (601)
Q Consensus 55 e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~-prkL~dIi~Vs~~ 133 (601)
+.....|..+++||..++..++++..|+++|+.||+||+...++...++++|++||||||||++|. ++.+.+++.++..
T Consensus 25 ~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~ 104 (127)
T PF00134_consen 25 EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISDN 104 (127)
T ss_dssp SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTT
T ss_pred hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHcC
Confidence 455589999999999999999999999999999999999999999999999999999999999998 5667777765311
Q ss_pred HHhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCccc
Q 007507 134 IIHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLN 176 (601)
Q Consensus 134 l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~ 176 (601)
.| .+++|+.||+.||.+|+|+|+
T Consensus 105 ------------------~~--~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 105 ------------------TF--TKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp ------------------SS--HHHHHHHHHHHHHHHTTT---
T ss_pred ------------------CC--CHHHHHHHHHHHHHHCCCCcC
Confidence 11 468999999999999999985
No 13
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.63 E-value=8.3e-16 Score=162.70 Aligned_cols=195 Identities=18% Similarity=0.237 Sum_probs=167.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCC-ChHHHHHHHHH
Q 007507 55 KKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPR-PLKDVIIVSYE 133 (601)
Q Consensus 55 e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~pr-kL~dIi~Vs~~ 133 (601)
+....||..+|+|+.++...+++-.++++.+.++.+||+....+.....++++.+|.+||+|+||... .+.+++..+.
T Consensus 131 d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd- 209 (359)
T KOG0654|consen 131 DITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITD- 209 (359)
T ss_pred CCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhh-
Confidence 33446999999999999999999999999999999999999999999999999999999999999754 4777765543
Q ss_pred HHhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccchHHHHHHHHHHHHHHhccc
Q 007507 134 IIHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTS 213 (601)
Q Consensus 134 l~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~ 213 (601)
..| +..+++.||..||..|.|.+..++...|+..|+.......-.+..++.++...++..+
T Consensus 210 -----------------~ty--~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~~~~~e~~~~yl~elsll~~ 270 (359)
T KOG0654|consen 210 -----------------NTY--TYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTPELQVEPLANYLTELSLLDY 270 (359)
T ss_pred -----------------hhh--HHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhhhH
Confidence 233 4678999999999999999999999999999988755444467788999999999998
Q ss_pred cccccchHHHHHHHHHHHHHHcCCCCCCCCcccccccc----CCCHHHHHHHHHHHHHHHhcCCCCCC
Q 007507 214 LCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEF----DVTPRQLEEVSNQMLELYEQNRVPQS 277 (601)
Q Consensus 214 l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~f----dvt~eeL~ei~~eILeLY~~~~~~~~ 277 (601)
.++.|.||.||+||+++|...++. .+|.+.+ +|+.+++..|+.+|. +|-..+..+.
T Consensus 271 ~~l~y~PSliAasAv~lA~~~~~~-------~pW~~~L~~~T~y~~edl~~~v~~L~-~~l~~~~~~l 330 (359)
T KOG0654|consen 271 IFLKYLPSLIAASAVFLARLTLDF-------HPWNQTLEDYTGYKAEDLKPCVLDLH-LYLNASGTDL 330 (359)
T ss_pred HHhccChHHHHHHHHHHHHhhccC-------CCCchhhHHhhcccHHHHHHHHHHHh-cccCCCCCch
Confidence 999999999999999999999883 4576555 899999999999999 7765544433
No 14
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.59 E-value=2.8e-14 Score=148.00 Aligned_cols=183 Identities=17% Similarity=0.221 Sum_probs=162.8
Q ss_pred HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHHHhcCCCC
Q 007507 62 KSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDST 141 (601)
Q Consensus 62 ~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l~~k~dP~ 141 (601)
..+...|..+|..|+||..+..+|+.+|.+.+.........+.-+++||||+||+.+..|+.+.+|..+..
T Consensus 98 ~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~--------- 168 (285)
T COG1405 98 ITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALG--------- 168 (285)
T ss_pred HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHC---------
Confidence 35678899999999999999999999999999999999999999999999999999999999999987643
Q ss_pred chhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccCcHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccccccchH
Q 007507 142 APQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPH 221 (601)
Q Consensus 142 ~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~P~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps 221 (601)
+ .+.+|..+.+.+.+.|+-.+....|..|+.+|+..|+++ ..+...|..++..+....+...-.|.
T Consensus 169 ----V---------~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~-~~v~~~a~ei~~~~~~~g~~~Gk~P~ 234 (285)
T COG1405 169 ----V---------SKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLS-DEVRRKAIEIVKKAKRAGLTAGKSPA 234 (285)
T ss_pred ----C---------CHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHhCcccCCCch
Confidence 1 135678888899999999999999999999999999998 57999999999999999888999999
Q ss_pred HHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHHHHHHHHHHHHHh
Q 007507 222 HIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEVSNQMLELYE 270 (601)
Q Consensus 222 ~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei~~eILeLY~ 270 (601)
.||+||||+|+.++++...+ .......++|+.+|.+.+.+|.+...
T Consensus 235 glAaaaiy~as~l~~~~~tq---~eva~v~~vtevTIrnrykel~~~~~ 280 (285)
T COG1405 235 GLAAAAIYLASLLLGERRTQ---KEVAKVAGVTEVTIRNRYKELADALD 280 (285)
T ss_pred hHHHHHHHHHHHHhCCchHH---HHHHHHhCCeeeHHHHHHHHHHHhhc
Confidence 99999999999999976554 33556679999999999988877543
No 15
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=99.56 E-value=1.3e-13 Score=140.93 Aligned_cols=185 Identities=14% Similarity=0.156 Sum_probs=156.2
Q ss_pred HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHHHhcCC
Q 007507 60 LRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKD 139 (601)
Q Consensus 60 lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l~~k~d 139 (601)
....++..|..+|.+++||..+...|..+|++|...+..+......+++||||+||+-++.||.+++|+.++. .
T Consensus 103 ~~~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~an--v---- 176 (308)
T KOG1597|consen 103 VLKAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVAN--V---- 176 (308)
T ss_pred HHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHc--C----
Confidence 4456778899999999999999999999999999999999999999999999999999999999999998764 1
Q ss_pred CCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCccccc--CcHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccccc
Q 007507 140 STAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVH--HPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQ 217 (601)
Q Consensus 140 P~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~--~P~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~ 217 (601)
.+++|-.+=..|++.|.-.+... +.-.|+.+||..|.++. .+...|-.++..+....++-.
T Consensus 177 ----------------~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~-~~q~aA~e~a~ka~~~~~~~g 239 (308)
T KOG1597|consen 177 ----------------SKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPK-SAQEAATEIAEKAEEMDIRAG 239 (308)
T ss_pred ----------------CHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCH-HHHHHHHHHHHHHHHhccccC
Confidence 24556667777888887766544 47899999999999985 688888888888887788888
Q ss_pred cchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHHHHHHHHHHHHHh
Q 007507 218 FKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEVSNQMLELYE 270 (601)
Q Consensus 218 y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei~~eILeLY~ 270 (601)
.+|-.||||+||+++.+...+.+. +..-...||++.+|...+.+|.....
T Consensus 240 RsPiSIAAa~IYmisqls~~kkt~---keI~~vtgVaE~TIr~sYK~Lyp~~~ 289 (308)
T KOG1597|consen 240 RSPISIAAAAIYMISQLSDEKKTQ---KEIGEVTGVAEVTIRNSYKDLYPHAD 289 (308)
T ss_pred CCchhHHHHHHHHHHHhccCcccH---HHHHHHhhhhHHHHHHHHHHHhhchh
Confidence 999999999999999999876554 23456669999999999988765433
No 16
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=99.31 E-value=5.5e-12 Score=104.62 Aligned_cols=87 Identities=30% Similarity=0.392 Sum_probs=76.4
Q ss_pred HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHHHhcCCC
Q 007507 61 RKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDS 140 (601)
Q Consensus 61 R~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l~~k~dP 140 (601)
|...++||.+++..++++..|..+|+.|++||+....+..+++++||+||||||||+++.+..+++++.++...
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~------ 75 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGYA------ 75 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCCC------
Confidence 56789999999999999999999999999999999999999999999999999999999988899887654210
Q ss_pred CchhhhccchHHHHHHHHHHHHHHHHHH
Q 007507 141 TAPQRIRQQKEVYEQQKELILLGERVVL 168 (601)
Q Consensus 141 ~~~~rI~~~~e~Y~~~ke~Il~~E~~IL 168 (601)
..++|..+|..||
T Consensus 76 ---------------~~~~i~~~e~~il 88 (88)
T cd00043 76 ---------------TEEEILRMEKLLL 88 (88)
T ss_pred ---------------CHHHHHHHHHHhC
Confidence 2467888888764
No 17
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=99.15 E-value=7.2e-11 Score=97.02 Aligned_cols=83 Identities=27% Similarity=0.323 Sum_probs=71.1
Q ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHHHhcCCCCchhh
Q 007507 66 TFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDSTAPQR 145 (601)
Q Consensus 66 ~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l~~k~dP~~~~r 145 (601)
+||.+++..++++..|..+|+.|++||+....+..+.+++||+||||||||+++.++...++..++..
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~------------ 68 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGY------------ 68 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCC------------
Confidence 48999999999999999999999999999777778999999999999999999988778777654321
Q ss_pred hccchHHHHHHHHHHHHHHHHHHH
Q 007507 146 IRQQKEVYEQQKELILLGERVVLA 169 (601)
Q Consensus 146 I~~~~e~Y~~~ke~Il~~E~~IL~ 169 (601)
...++|..+|+.||.
T Consensus 69 ---------~~~~~i~~~~~~il~ 83 (83)
T smart00385 69 ---------FTEEEILRMEKLLLE 83 (83)
T ss_pred ---------CCHHHHHHHHHHHhC
Confidence 134678999998873
No 18
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=98.90 E-value=3.4e-09 Score=93.96 Aligned_cols=89 Identities=26% Similarity=0.304 Sum_probs=72.0
Q ss_pred cCcHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCcccccc----ccCC
Q 007507 178 HHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQ----EFDV 253 (601)
Q Consensus 178 ~~P~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~----~fdv 253 (601)
|+|+.||..|++..+. ...+..+|+++++.++.+..++.|+|+.||+|||++|...++.. ..|.. ..++
T Consensus 1 PTp~~Fl~~~~~~~~~-~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~------~~~~~~l~~~t~~ 73 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA-DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKE------PPWPESLEKLTGY 73 (118)
T ss_dssp --HHHHHHHHHTSSSH-HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSS------TCSHHHHHHHHTS
T ss_pred CcHHHHHHHHHHHcCC-cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCcc------ccCCccchhhcCC
Confidence 6899999999665443 34689999999999999999999999999999999999998742 24544 3499
Q ss_pred CHHHHHHHHHHHHHHHhcCC
Q 007507 254 TPRQLEEVSNQMLELYEQNR 273 (601)
Q Consensus 254 t~eeL~ei~~eILeLY~~~~ 273 (601)
+.++|.+|+..|.+++....
T Consensus 74 ~~~~l~~c~~~i~~~~~~~~ 93 (118)
T PF02984_consen 74 DKEDLKECIELIQELLSKAS 93 (118)
T ss_dssp -HHHHHHHHHHHHHHHHHCC
T ss_pred CHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999654
No 19
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=98.81 E-value=1.8e-08 Score=110.71 Aligned_cols=183 Identities=15% Similarity=0.134 Sum_probs=140.2
Q ss_pred HHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHHHh
Q 007507 57 ETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEIIH 136 (601)
Q Consensus 57 E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l~~ 136 (601)
....-..+-..|.+++..|+|+. .+.+|..||......+-.+......|.++||||+|..|.++.-+-|+..+.
T Consensus 63 r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~L----- 136 (521)
T KOG1598|consen 63 REKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYL----- 136 (521)
T ss_pred HHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccce-----
Confidence 33344456779999999999999 999999999999999999999999999999999999999887665554321
Q ss_pred cCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCc---ccccCcHHHHHHHHHHhccch--HHHHHHHHHHHHHHhc
Q 007507 137 KKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFD---LNVHHPYKPLVEAIKKFKVAQ--NALAQVAWNFVNDGLR 211 (601)
Q Consensus 137 k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FD---L~v~~P~~fL~~fl~~L~~~~--~~L~qlA~~~LnDsl~ 211 (601)
+-.+| ++-.+=+.|...|..+ +....|..|+.+|...|.... .++...|..+++-+.+
T Consensus 137 ------------qv~Vy-----~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkr 199 (521)
T KOG1598|consen 137 ------------QVSVY-----DLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKR 199 (521)
T ss_pred ------------EEehh-----hhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHH
Confidence 12334 2233445677788888 777899999999998876543 3588999999999999
Q ss_pred cccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHHHHHHHHH
Q 007507 212 TSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEVSNQM 265 (601)
Q Consensus 212 t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei~~eI 265 (601)
+++.....|+.|+-|||++|+++++++..-. ......-|....|.....+|
T Consensus 200 dwm~tGRRPsglcGAaLliAar~h~~~rsi~---dIv~vvhV~e~Tl~kRl~Ef 250 (521)
T KOG1598|consen 200 DWMQTGRRPSGLCGAALLIAARMHGFRRTIG---DIAKVVHVCESTLSKRLKEF 250 (521)
T ss_pred HHHHhCCCccchhHHHHHHHHHHcCccccHH---HHHHHHHHhHHHHHHHHHHH
Confidence 9999999999999999999999999865431 12223334444444444443
No 20
>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=98.43 E-value=1e-06 Score=72.22 Aligned_cols=80 Identities=23% Similarity=0.226 Sum_probs=68.2
Q ss_pred HHHHHHHHhccchHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCC-CHHHHHHH
Q 007507 183 PLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDV-TPRQLEEV 261 (601)
Q Consensus 183 fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdv-t~eeL~ei 261 (601)
||.+++..++++. .+...|+++++.++....++.++|+.||+||||+|+++.+...+. ..|...+++ +.++|..+
T Consensus 2 ~l~~~~~~~~~~~-~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~---~~~~~~~~~~~~~~i~~~ 77 (83)
T smart00385 2 FLRRVCKALNLDP-ETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWT---KELVHYTGYFTEEEILRM 77 (83)
T ss_pred HHHHHHHHcCCCH-HHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCc---hhHhHhhCCCCHHHHHHH
Confidence 7888999999874 689999999999998777888999999999999999999986332 346666687 99999999
Q ss_pred HHHHH
Q 007507 262 SNQML 266 (601)
Q Consensus 262 ~~eIL 266 (601)
...|+
T Consensus 78 ~~~il 82 (83)
T smart00385 78 EKLLL 82 (83)
T ss_pred HHHHh
Confidence 88876
No 21
>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=98.38 E-value=8.7e-07 Score=73.51 Aligned_cols=64 Identities=20% Similarity=0.340 Sum_probs=57.2
Q ss_pred HHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHH
Q 007507 68 LQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVS 131 (601)
Q Consensus 68 I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs 131 (601)
|.++|..|+||..+..+|..+|++.....-.....+..|++||||+||+.+..++++++|..++
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 5689999999999999999999999999989999999999999999999999999999998753
No 22
>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=98.30 E-value=2.8e-06 Score=70.21 Aligned_cols=85 Identities=20% Similarity=0.156 Sum_probs=70.8
Q ss_pred ccCcHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCC-CH
Q 007507 177 VHHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDV-TP 255 (601)
Q Consensus 177 v~~P~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdv-t~ 255 (601)
.++|+.||.+++..++.+. .+...|+.+++.++....+..+.|+.||+||||+|+++.+..... ..|....++ +.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~---~~~~~~~~~~~~ 77 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP-ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWL---KDLVHVTGYATE 77 (88)
T ss_pred cchHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCH---HHHhHHhCCCCH
Confidence 4678999999999998875 688999999999998888889999999999999999999883221 245555678 88
Q ss_pred HHHHHHHHHH
Q 007507 256 RQLEEVSNQM 265 (601)
Q Consensus 256 eeL~ei~~eI 265 (601)
++|..+...|
T Consensus 78 ~~i~~~e~~i 87 (88)
T cd00043 78 EEILRMEKLL 87 (88)
T ss_pred HHHHHHHHHh
Confidence 8888887665
No 23
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.91 E-value=1.9e-05 Score=84.23 Aligned_cols=99 Identities=23% Similarity=0.391 Sum_probs=81.7
Q ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCC-hHHHHHHHHHHHhcCCCC
Q 007507 63 SYCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRP-LKDVIIVSYEIIHKKDST 141 (601)
Q Consensus 63 ~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prk-L~dIi~Vs~~l~~k~dP~ 141 (601)
.+-.-|.+++...++...|+++|.+||.....+..+.+.+..++|-|||+||+|+.+.... ++.+|.-
T Consensus 384 SlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek----------- 452 (497)
T KOG4164|consen 384 SLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEK----------- 452 (497)
T ss_pred HHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHH-----------
Confidence 3455678888888999999999999999999999999999999999999999999965432 4444432
Q ss_pred chhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccC
Q 007507 142 APQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHH 179 (601)
Q Consensus 142 ~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~ 179 (601)
..+.|...+.+++..|+-||-+|.|-|.++-
T Consensus 453 -------~Ee~fR~nrrdLia~Ef~VlvaLefaL~~~~ 483 (497)
T KOG4164|consen 453 -------LEEQFRLNRRDLIAFEFPVLVALEFALHLPE 483 (497)
T ss_pred -------HHHHhcccHHhhhhhhhhHHHhhhhhccCCh
Confidence 2355556788999999999999999998753
No 24
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=97.77 E-value=0.00013 Score=69.13 Aligned_cols=90 Identities=17% Similarity=0.142 Sum_probs=64.1
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhh---cC--CCCCCchhHHHHHHHHHhccCC-CCCCChHHHHHHHHHHHhc
Q 007507 64 YCTFLQDLGMRLKVPQVTIATAIIFCHRFFI---RQ--SHAKNDRRTIATVCMFLAGKVE-ETPRPLKDVIIVSYEIIHK 137 (601)
Q Consensus 64 ~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~---~~--S~~~~dl~lVAaACLfLA~KvE-E~prkL~dIi~Vs~~l~~k 137 (601)
+.+||.++....+++..++-.|++|++|+.. .. .+.....+-+.++||.||+|+- +....-+....++.
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~g----- 128 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG----- 128 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT-----
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcC-----
Confidence 5678999999999999999999999999998 22 2556778899999999999974 44444333333211
Q ss_pred CCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCcc
Q 007507 138 KDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDL 175 (601)
Q Consensus 138 ~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL 175 (601)
....++-.||+.+|..|+|+|
T Consensus 129 -----------------is~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 129 -----------------ISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp -----------------S-HHHHHHHHHHHHHHTTT--
T ss_pred -----------------CCHHHHHHHHHHHHHHCCCcC
Confidence 135689999999999999986
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=97.56 E-value=0.00025 Score=58.84 Aligned_cols=71 Identities=18% Similarity=0.204 Sum_probs=56.0
Q ss_pred HHHHHHHhccchHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHH
Q 007507 184 LVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQL 258 (601)
Q Consensus 184 L~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL 258 (601)
|.+|+..|+++. .+...|..++..+....+.-+.+|..||+||||+|++..+.+.+. ......++++..+|
T Consensus 1 I~r~~~~L~L~~-~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~---~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSKLGLPE-DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTL---KEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHTT--H-HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSH---HHHHHHCTSSHHHH
T ss_pred ChHHHhHcCCCH-HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCH---HHHHHHhCCCCCcC
Confidence 467899999985 699999999999998888889999999999999999999987664 23455556666543
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.49 E-value=0.00043 Score=73.33 Aligned_cols=67 Identities=12% Similarity=0.158 Sum_probs=62.3
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHH
Q 007507 65 CTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVS 131 (601)
Q Consensus 65 v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs 131 (601)
.+||..+|..|+|+..+.-+|..++++...........+..||+|||||||+..+.++++++|..++
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~ 286 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVA 286 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHc
Confidence 5899999999999999999999999999887777889999999999999999999999999998764
No 27
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=95.53 E-value=0.035 Score=58.50 Aligned_cols=68 Identities=16% Similarity=0.171 Sum_probs=62.6
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHH
Q 007507 65 CTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSY 132 (601)
Q Consensus 65 v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~ 132 (601)
.+||..+|..|+|+.++...|+.+++............+.-+|+|||||||.....++.-++|..++.
T Consensus 195 ~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~~ 262 (285)
T COG1405 195 SDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAG 262 (285)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHhC
Confidence 67899999999999999999999999999999888999999999999999999998888888877653
No 28
>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=94.23 E-value=0.17 Score=45.38 Aligned_cols=86 Identities=19% Similarity=0.192 Sum_probs=61.1
Q ss_pred HHHHHHHHHhccchHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCcccccccc--CCCHHHHH
Q 007507 182 KPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEF--DVTPRQLE 259 (601)
Q Consensus 182 ~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~f--dvt~eeL~ 259 (601)
.|+...+..+++.. .+...|..+++..+....+....+..||+||+++|+++.....|.. ..|.... .++..+|.
T Consensus 36 ~~i~~~~~~~~l~~-~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~--~~~~~~~~~~~~~~~i~ 112 (127)
T PF00134_consen 36 DWIIELCQRLKLSP-ETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSI--SDLIRISDNTFTKKDIL 112 (127)
T ss_dssp HHHHHHHHHTT-BH-HHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HH--HHHHHHTTTSSHHHHHH
T ss_pred HHHHHHHHhcccch-hHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchH--HHHHHHHcCCCCHHHHH
Confidence 45666667777764 5778888888888776678888999999999999999988754431 1232222 57888999
Q ss_pred HHHHHHHHHHh
Q 007507 260 EVSNQMLELYE 270 (601)
Q Consensus 260 ei~~eILeLY~ 270 (601)
.+-..||....
T Consensus 113 ~~E~~iL~~L~ 123 (127)
T PF00134_consen 113 EMEREILSALN 123 (127)
T ss_dssp HHHHHHHHHTT
T ss_pred HHHHHHHHHCC
Confidence 98888887654
No 29
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=94.12 E-value=0.14 Score=53.72 Aligned_cols=69 Identities=13% Similarity=0.178 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHH
Q 007507 64 YCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSY 132 (601)
Q Consensus 64 ~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~ 132 (601)
..+||.++|..|+||..+...|..+-.++-.........+.-||+|++|+++-+...++++++|..++.
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vtg 271 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVTG 271 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHhh
Confidence 578999999999999999999999999998888888889999999999999999998898998887653
No 30
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=90.65 E-value=0.93 Score=42.78 Aligned_cols=67 Identities=18% Similarity=0.134 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcC--CCCCCchhHHHHHHHHHhccCCCCCCChHHHHHH
Q 007507 64 YCTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQ--SHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIV 130 (601)
Q Consensus 64 ~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~--S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~V 130 (601)
+..=|.++|.+|+++..+.....+.|...+..+ -+...++.-+.+.|+|+-||+.....+.++|+..
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~sF~~Ii~~ 82 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEELSFKDIIKA 82 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S--HHHHHHH
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCCCHHHHHHH
Confidence 345588999999999988888888888777543 3677889999999999999999988899999864
No 31
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=88.29 E-value=0.59 Score=49.90 Aligned_cols=58 Identities=21% Similarity=0.338 Sum_probs=42.0
Q ss_pred HHHHHHHHHcCCcHHH--HHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCC
Q 007507 66 TFLQDLGMRLKVPQVT--IATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRP 123 (601)
Q Consensus 66 ~~I~ev~~~LkLp~~T--iaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prk 123 (601)
.+|......|++++.- .-.|.+|+.--+-..-+..|.+..||+||+|||+...|.|.+
T Consensus 143 klii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp 202 (367)
T KOG0835|consen 143 KLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLP 202 (367)
T ss_pred HHHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCC
Confidence 4555556667776544 556666665555555677889999999999999999996644
No 32
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=88.01 E-value=0.41 Score=42.08 Aligned_cols=55 Identities=16% Similarity=0.098 Sum_probs=44.6
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCC
Q 007507 65 CTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEE 119 (601)
Q Consensus 65 v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE 119 (601)
..||..+....+....+...|..++.-.+....+..+.+-.||+|||++|.++-.
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 4677777555556778889999999988888888999999999999999999844
No 33
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=87.98 E-value=1.1 Score=47.84 Aligned_cols=57 Identities=18% Similarity=0.314 Sum_probs=45.1
Q ss_pred HHHHHHHHhc--cchHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCC
Q 007507 183 PLVEAIKKFK--VAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLP 240 (601)
Q Consensus 183 fL~~fl~~L~--~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP 240 (601)
+|..++..|+ +.+ .+...|..++...+...-+..|.|..||++|||||+++-...++
T Consensus 62 ~i~~~~~~lkp~Lpq-~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~s 120 (305)
T TIGR00569 62 RLLDFCSAFKPTMPT-SVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVS 120 (305)
T ss_pred HHHHHHHHhcCCCCc-hHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcC
Confidence 4555666677 664 57778888888888777788999999999999999998876543
No 34
>KOG1674 consensus Cyclin [General function prediction only]
Probab=87.95 E-value=1 Score=45.72 Aligned_cols=93 Identities=14% Similarity=0.122 Sum_probs=65.3
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCC---------CCCCc-hhHHHHHHHHHhccCCCCCCChHHHHHHHHHH
Q 007507 65 CTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQS---------HAKND-RRTIATVCMFLAGKVEETPRPLKDVIIVSYEI 134 (601)
Q Consensus 65 v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S---------~~~~d-l~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l 134 (601)
-.++..+-+..++...++-+|.+||+||..... +.-.. ..-..++|+.+|||+.+.. .. ....
T Consensus 79 ~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~------~y-~n~~ 151 (218)
T KOG1674|consen 79 RQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDV------YY-SNAY 151 (218)
T ss_pred HHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccch------hh-hHHH
Confidence 457778888999999999999999999998622 11234 5558899999999987531 11 0011
Q ss_pred HhcCCCCchhhhccchHHHHHHHHHHHHHHHHHHHHhCCccccc
Q 007507 135 IHKKDSTAPQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVH 178 (601)
Q Consensus 135 ~~k~dP~~~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~ 178 (601)
+.+. ..| ..+++-.+|..+|..++|.+.+.
T Consensus 152 ~a~v-----ggl---------~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 152 YAKV-----GGL---------TTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred HHHh-----CCC---------ChHhhhhhhHHHHhhCCeEEEec
Confidence 1110 011 23566799999999999999886
No 35
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=83.10 E-value=0.52 Score=50.57 Aligned_cols=59 Identities=20% Similarity=0.241 Sum_probs=45.7
Q ss_pred HHHHHHHHHHcCCcH----HHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCC
Q 007507 65 CTFLQDLGMRLKVPQ----VTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRP 123 (601)
Q Consensus 65 v~~I~ev~~~LkLp~----~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prk 123 (601)
-.+|.++++.|+-.. .+.-+|.+|+...+...-.-.|.+..||+|||+||||+-....+
T Consensus 152 y~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~ 214 (323)
T KOG0834|consen 152 YKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELP 214 (323)
T ss_pred hHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCC
Confidence 345556666665544 47789999999998877777899999999999999998775433
No 36
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=74.51 E-value=3.5 Score=46.78 Aligned_cols=55 Identities=13% Similarity=0.117 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChHHHHHHHHHH
Q 007507 80 VTIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVIIVSYEI 134 (601)
Q Consensus 80 ~TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~Vs~~l 134 (601)
.|+-+|.-++.|----.-.....+--|+-|||++||.+...++++.+|+.+++..
T Consensus 185 ~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvhV~ 239 (521)
T KOG1598|consen 185 DVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVHVC 239 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccHHHHHHHHHHh
Confidence 4777888777765433334566778899999999999999999999999887754
No 37
>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=71.35 E-value=18 Score=34.12 Aligned_cols=54 Identities=20% Similarity=0.278 Sum_probs=42.7
Q ss_pred HHHHHHHHhccchHHHHHHHHHHHHHHh--ccccccccchHHHHHHHHHHHHHHcCC
Q 007507 183 PLVEAIKKFKVAQNALAQVAWNFVNDGL--RTSLCLQFKPHHIAAGAIFLAAKFLKV 237 (601)
Q Consensus 183 fL~~fl~~L~~~~~~L~qlA~~~LnDsl--~t~l~L~y~Ps~IAaAAIyLA~~~l~i 237 (601)
-|..+|..|++.. ++...+|.+++-++ .+.++....-.+|.++|||..+++.+.
T Consensus 17 Rl~~LC~~L~l~~-~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~ 72 (135)
T PF01857_consen 17 RLQDLCERLDLSS-DLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKE 72 (135)
T ss_dssp HHHHHHHHHTTST-THHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHcCCcH-HHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcC
Confidence 4556677777765 58888999988887 567888888999999999999998874
No 38
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=69.25 E-value=11 Score=40.33 Aligned_cols=91 Identities=18% Similarity=0.206 Sum_probs=55.9
Q ss_pred HHHHHHHHcCCcHHHHHHHHHHHHHHhhc--CCCCCCchhHHHHHHHHHhccCCCCC--CChHHHHHHHHHHHhcCCCCc
Q 007507 67 FLQDLGMRLKVPQVTIATAIIFCHRFFIR--QSHAKNDRRTIATVCMFLAGKVEETP--RPLKDVIIVSYEIIHKKDSTA 142 (601)
Q Consensus 67 ~I~ev~~~LkLp~~TiaTAi~yf~RFy~~--~S~~~~dl~lVAaACLfLA~KvEE~p--rkL~dIi~Vs~~l~~k~dP~~ 142 (601)
|+..++....|.-+..-..++|+.|..-. ..+..+....+....+++|+|+-... ..+ ..| .+++
T Consensus 196 ~v~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnv----dyc-qIlK------ 264 (343)
T KOG1675|consen 196 FVRILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNV----DYC-EILK------ 264 (343)
T ss_pred hhhhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccH----HHH-HHHh------
Confidence 33344444444444444455677776543 33456777778888899999975421 111 111 1121
Q ss_pred hhhhccchHHHHHHHHHHHHHHHHHHHHhCCcccccC
Q 007507 143 PQRIRQQKEVYEQQKELILLGERVVLATLGFDLNVHH 179 (601)
Q Consensus 143 ~~rI~~~~e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~ 179 (601)
..+.+++-.+|+.+|..|+|+++++.
T Consensus 265 -----------d~tveDmNe~ERqfLelLqfNinvp~ 290 (343)
T KOG1675|consen 265 -----------DQSVDDMNALERQFLELLQFNINVPS 290 (343)
T ss_pred -----------hccHhhHHHHHHHHHHHHhhccCccH
Confidence 12467899999999999999999886
No 39
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=62.67 E-value=20 Score=38.82 Aligned_cols=82 Identities=17% Similarity=0.186 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHHHhCCcccc---cCc------HHHHHHHHHHhccchHHHHHHHHHHHHHHhccccccccc---hHHHHH
Q 007507 158 ELILLGERVVLATLGFDLNV---HHP------YKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFK---PHHIAA 225 (601)
Q Consensus 158 e~Il~~E~~IL~tL~FDL~v---~~P------~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~---Ps~IAa 225 (601)
..++..|....-.+++.+.+ .+| ..+|.+.+..++... .+.-+|.+++...+...-+-... -..||+
T Consensus 50 ~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~-~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAv 128 (335)
T KOG0656|consen 50 ANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEP-LVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAV 128 (335)
T ss_pred HHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCch-HHHHHHHHHHHHhhcccccCCCchHHHHHHHH
Confidence 34555566555555533322 223 466777777777664 57788999999888877777888 566999
Q ss_pred HHHHHHHHHcCCCCC
Q 007507 226 GAIFLAAKFLKVKLP 240 (601)
Q Consensus 226 AAIyLA~~~l~i~lP 240 (601)
||+.||+++-...+|
T Consensus 129 aCLsLAsKmeE~~vP 143 (335)
T KOG0656|consen 129 ACLSLASKMEETDVP 143 (335)
T ss_pred HHHHHHHhhcCcCCc
Confidence 999999999887655
No 40
>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=62.30 E-value=12 Score=39.83 Aligned_cols=90 Identities=13% Similarity=0.218 Sum_probs=58.8
Q ss_pred HHHHHHHHHHhccchHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcC--CCCCCCC---ccccccccCCCH
Q 007507 181 YKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLK--VKLPSDG---DKVWWQEFDVTP 255 (601)
Q Consensus 181 ~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~--i~lP~~~---~~~W~~~fdvt~ 255 (601)
+.+|..++..|++... +...|..|+...+.-.-.-.+++..||.+|||||++.-. ..+.... ...|.+..--+.
T Consensus 49 ~k~i~~l~~~L~lp~~-~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~~~~I~i~~~~~~~~~se~~~~sr 127 (297)
T COG5333 49 LKLIMDLCTRLNLPQT-VLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEARDLWSEEPKSSR 127 (297)
T ss_pred HHHHHHHHHhcCCCcc-hHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccchhhHHHHHhhccccccccccH
Confidence 3567777788887754 556666666666655557799999999999999999877 3222110 123544445566
Q ss_pred HHHHHHHHHHHHHHhc
Q 007507 256 RQLEEVSNQMLELYEQ 271 (601)
Q Consensus 256 eeL~ei~~eILeLY~~ 271 (601)
+.|.++--.||+...-
T Consensus 128 ~~Il~~E~~lLEaL~f 143 (297)
T COG5333 128 ERILEYEFELLEALDF 143 (297)
T ss_pred HHHHHHHHHHHHHccc
Confidence 6666666666665543
No 41
>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=62.22 E-value=42 Score=31.75 Aligned_cols=87 Identities=20% Similarity=0.260 Sum_probs=56.6
Q ss_pred HHHHHHHHHHhccchHHHHHHHHHHHHHHhc----ccc-ccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCH
Q 007507 181 YKPLVEAIKKFKVAQNALAQVAWNFVNDGLR----TSL-CLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTP 255 (601)
Q Consensus 181 ~~fL~~fl~~L~~~~~~L~qlA~~~LnDsl~----t~l-~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~ 255 (601)
..|+.++++...+.. .+.-.|..++..... ... .-....+-|-++||.+|.+++.=.... ...|....|++.
T Consensus 55 ~~fl~ri~~~~~~s~-~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~--n~~~a~v~gis~ 131 (149)
T PF08613_consen 55 RDFLSRILKYTQCSP-ECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYS--NKSWAKVGGISL 131 (149)
T ss_dssp HHHHHHHHHHTT--H-HHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS-----HHHHHHHHTS-H
T ss_pred HHHHHHHHHHcCCCh-HHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhccccccc--HHHHHhhcCCCH
Confidence 566777776666554 455566666655544 122 225668889999999999998643222 356888889999
Q ss_pred HHHHHHHHHHHHHHh
Q 007507 256 RQLEEVSNQMLELYE 270 (601)
Q Consensus 256 eeL~ei~~eILeLY~ 270 (601)
.+|..+-.++|.+..
T Consensus 132 ~eln~lE~~fL~~l~ 146 (149)
T PF08613_consen 132 KELNELEREFLKLLD 146 (149)
T ss_dssp HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHCC
Confidence 999999888887654
No 42
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair]
Probab=58.40 E-value=2.3e+02 Score=29.27 Aligned_cols=75 Identities=20% Similarity=0.177 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHh-----ccccccccchHHHHHHHHHHHHHHcCCCCCCCCccccccccCCCHHHHHHHHHHHHHHHhc
Q 007507 197 ALAQVAWNFVNDGL-----RTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEVSNQMLELYEQ 271 (601)
Q Consensus 197 ~L~qlA~~~LnDsl-----~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei~~eILeLY~~ 271 (601)
++...|..++...- ....-+.|+-.+-++||+|+|++.++.++... ......|+.+.++.-++.++...|.+
T Consensus 107 evi~~a~~vl~syk~~lpaT~~~~~D~SrP~ft~aA~~~ack~lKlKVdK~---kli~~sg~~~s~F~~l~kqler~~~q 183 (262)
T KOG4557|consen 107 EVIKSAQNVLSSYKERLPATRRANADFSRPVFTAAAFYLACKKLKLKVDKL---KLIEVSGTSESEFSCLSKQLERNYKQ 183 (262)
T ss_pred HHHHHHHHHHHHHHhcCchhhhcCCcccchHHHHHHHHHHHHHHHHhhhHh---hcccccCCCHHHHHHHHHHHHHHHHH
Confidence 35566666554321 11345677878899999999999998765431 23344488999999999999999987
Q ss_pred CCC
Q 007507 272 NRV 274 (601)
Q Consensus 272 ~~~ 274 (601)
...
T Consensus 184 v~~ 186 (262)
T KOG4557|consen 184 VST 186 (262)
T ss_pred hcC
Confidence 543
No 43
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=53.26 E-value=29 Score=35.88 Aligned_cols=74 Identities=15% Similarity=0.219 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCC------------CCccccccccCCCHHHHHHHHHH
Q 007507 197 ALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPS------------DGDKVWWQEFDVTPRQLEEVSNQ 264 (601)
Q Consensus 197 ~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~------------~~~~~W~~~fdvt~eeL~ei~~e 264 (601)
.+...|..++...+.-.-.-.+.|..+|..|||||++.-..++.. .....|.+.|.+....|.++--.
T Consensus 60 ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~e~~~~~~~~I~e~Ef~ 139 (264)
T KOG0794|consen 60 RVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWPEKFPYERKDILEMEFY 139 (264)
T ss_pred HHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccchhhcCCCcCcchhhhhh
Confidence 344555555555554444668899999999999999976554210 00114666666666666666555
Q ss_pred HHHHHh
Q 007507 265 MLELYE 270 (601)
Q Consensus 265 ILeLY~ 270 (601)
+++...
T Consensus 140 llE~Ld 145 (264)
T KOG0794|consen 140 LLEALD 145 (264)
T ss_pred HHhhhc
Confidence 555444
No 44
>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=49.97 E-value=33 Score=36.77 Aligned_cols=55 Identities=25% Similarity=0.358 Sum_probs=42.4
Q ss_pred HHHHHHHhccc-hHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCC
Q 007507 184 LVEAIKKFKVA-QNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVK 238 (601)
Q Consensus 184 L~~fl~~L~~~-~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~ 238 (601)
+..|+..+.-. ...|.-.|..|....+.......|.|..|.++|+|+|+++-..-
T Consensus 63 l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~ 118 (325)
T KOG2496|consen 63 LVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFY 118 (325)
T ss_pred HHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhhe
Confidence 45566555421 23577888888888888888999999999999999999976543
No 45
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=40.73 E-value=19 Score=31.28 Aligned_cols=48 Identities=29% Similarity=0.325 Sum_probs=27.1
Q ss_pred cHHHHHHHHHHhhhhcCCCc----------cccCCCC---chhhhhhhhcc--ccccchhhhH
Q 007507 440 DEDKVKAIREKRRKSRGEPT----------RKKDFMD---EDDLIERELED--IEIPVDDEKM 487 (601)
Q Consensus 440 ~~~kvka~~ek~~k~~~~~~----------~k~~~~d---~~dl~erele~--~~~~~~~~k~ 487 (601)
|--++||+|+|+.=+..+-. .-+=+.+ -.|=++||||+ +++--..+++
T Consensus 21 ~Fv~~kA~l~k~~L~dDde~aIfnI~gT~Sy~V~Fl~~~~s~eev~~ele~mga~in~ds~~~ 83 (88)
T COG4009 21 DFVRLKAHLAKVDLNDDDELAIFNIEGTSSYYVVFLEEVESEEEVERELEDMGAEINRDSKAS 83 (88)
T ss_pred HHHHHHHHhcccccCCCCcEEEEEecCceeEEEEEEeccCCHHHHHHHHHHhCchhcccHHHH
Confidence 34579999999654443221 1111222 23457899998 6665555443
No 46
>KOG1010 consensus Rb (Retinoblastoma tumor suppressor)-related protein [Cell cycle control, cell division, chromosome partitioning]
Probab=40.17 E-value=45 Score=40.22 Aligned_cols=66 Identities=12% Similarity=0.154 Sum_probs=54.1
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHhhcCC--CCCCchhHHHHHHHHHhccCCCCCCChHHHHHH
Q 007507 65 CTFLQDLGMRLKVPQVTIATAIIFCHRFFIRQS--HAKNDRRTIATVCMFLAGKVEETPRPLKDVIIV 130 (601)
Q Consensus 65 v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S--~~~~dl~lVAaACLfLA~KvEE~prkL~dIi~V 130 (601)
.-=|+++|.+|.+..++...-..+|+.-+.... ++..++.-+.+.|+|+=||+.....+.++|+..
T Consensus 681 avRL~~Lc~rL~l~~e~r~~IWtlFehsl~~et~Lm~dRHLDQillCaiy~i~KV~~~~ltF~eIm~~ 748 (920)
T KOG1010|consen 681 AVRLNDLCERLSLSDELREQIWTLFEHSLTNETELMRDRHLDQILLCAIYGIAKVKKEDLTFSEIMRA 748 (920)
T ss_pred HHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccHHHHHhhhHHHHHHHHHHhheehhcccchHHHHHHH
Confidence 334899999999999988888888887665432 566778889999999999999988889888753
No 47
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=32.62 E-value=1.5e+02 Score=32.65 Aligned_cols=99 Identities=20% Similarity=0.199 Sum_probs=58.6
Q ss_pred HHHHHHHHhccchHHHHHHHHHHHHHHhccccccccchHHHHHHHHH-HHHHHcCCCCCCCCccccccccCCCHHHHHHH
Q 007507 183 PLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIF-LAAKFLKVKLPSDGDKVWWQEFDVTPRQLEEV 261 (601)
Q Consensus 183 fL~~fl~~L~~~~~~L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIy-LA~~~l~i~lP~~~~~~W~~~fdvt~eeL~ei 261 (601)
+|...-..|++.. +...+|.++++..+....+-.-.=..++++|++ +|+++-.+.+|....-.....-.++.++|..+
T Consensus 164 wlvevh~~F~L~~-ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~m 242 (391)
T KOG0653|consen 164 WLVEVHEKFGLSP-ETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRM 242 (391)
T ss_pred HHHHhhhhcCcCH-HHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHH
Confidence 4444444555554 355677777755444333333344557788866 99999555555421111111114889999999
Q ss_pred HHHHHHHHhcCCCCCCCCccc
Q 007507 262 SNQMLELYEQNRVPQSQGSEV 282 (601)
Q Consensus 262 ~~eILeLY~~~~~~~~~~~~~ 282 (601)
-..|+....-....|.+..-.
T Consensus 243 E~~il~~L~f~l~~p~~~~FL 263 (391)
T KOG0653|consen 243 EKYILNVLEFDLSVPTPLSFL 263 (391)
T ss_pred HHHHHhccCeeecCCchHHHH
Confidence 888988887776666554333
No 48
>PF07713 DUF1604: Protein of unknown function (DUF1604); InterPro: IPR011666 This domain is found at the N terminus of several eukaryotic RNA processing proteins (e.g Q8N3B7 from SWISSPROT).
Probab=32.29 E-value=20 Score=31.50 Aligned_cols=17 Identities=53% Similarity=0.776 Sum_probs=14.2
Q ss_pred CccccCCCCchhhhhhh
Q 007507 458 PTRKKDFMDEDDLIERE 474 (601)
Q Consensus 458 ~~~k~~~~d~~dl~ere 474 (601)
..+--|+|||+||.|-.
T Consensus 59 ~q~~eDfMDeeD~~e~~ 75 (87)
T PF07713_consen 59 QQRPEDFMDEEDLAEFG 75 (87)
T ss_pred cCChhhccCHHHHHHhc
Confidence 45678999999999875
No 49
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=31.46 E-value=1e+02 Score=26.48 Aligned_cols=42 Identities=21% Similarity=0.334 Sum_probs=35.8
Q ss_pred ccccccHHHHhhhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhh
Q 007507 32 ARWYFSRREIEDSSPSRRDGIDLKKETYLRKSYCTFLQDLGMRLKVPQVTIATAIIFCHRFFI 94 (601)
Q Consensus 32 ~~WyFT~eELee~sPSr~dgIs~e~E~~lR~~~v~~I~ev~~~LkLp~~TiaTAi~yf~RFy~ 94 (601)
..|||+..++.. +..+..++.-|+++...++.+..+++|...
T Consensus 33 ~~~~f~~~~l~r---------------------l~~~~rL~~Dl~in~~gi~lil~LLd~i~~ 74 (84)
T PF13591_consen 33 EEWYFSEEDLAR---------------------LRRIRRLHRDLGINLEGIALILDLLDRIEQ 74 (84)
T ss_pred CeeeECHHHHHH---------------------HHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 689999999953 356778999999999999999999998753
No 50
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=29.22 E-value=69 Score=36.11 Aligned_cols=83 Identities=23% Similarity=0.162 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHcCCCCCCCCcccccccc--CCCHHHHHHHHHHHHHHHhcCCCC
Q 007507 198 LAQVAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLPSDGDKVWWQEF--DVTPRQLEEVSNQMLELYEQNRVP 275 (601)
Q Consensus 198 L~qlA~~~LnDsl~t~l~L~y~Ps~IAaAAIyLA~~~l~i~lP~~~~~~W~~~f--dvt~eeL~ei~~eILeLY~~~~~~ 275 (601)
..-+|.+|++-.+....+..-.-..+++.|+++|+++-.+..|.. ...--.+ .++.++|...-..||+...-+-.-
T Consensus 233 TL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i--~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~ 310 (440)
T COG5024 233 TLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSI--KDLVYATDGAFTRDDIIRAERYMLEVLDFNISW 310 (440)
T ss_pred HHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHH--HHHHHHHcccccHHHHHHHHHHHhhhcccccCC
Confidence 446677788887777777777788999999999999998877652 1222222 689999999999999988876665
Q ss_pred CCCCccc
Q 007507 276 QSQGSEV 282 (601)
Q Consensus 276 ~~~~~~~ 282 (601)
|.+.+-.
T Consensus 311 P~P~sFL 317 (440)
T COG5024 311 PSPMSFL 317 (440)
T ss_pred CChHHHH
Confidence 5555433
No 51
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair]
Probab=24.91 E-value=1.1e+02 Score=31.42 Aligned_cols=78 Identities=18% Similarity=0.169 Sum_probs=46.5
Q ss_pred ccccHHHHhhhCCCccCCCCHHHHHHHHHHHHHH---------HHHHHHHcCCcHHHHHHHHHHHHHHhhcCC-----CC
Q 007507 34 WYFSRREIEDSSPSRRDGIDLKKETYLRKSYCTF---------LQDLGMRLKVPQVTIATAIIFCHRFFIRQS-----HA 99 (601)
Q Consensus 34 WyFT~eELee~sPSr~dgIs~e~E~~lR~~~v~~---------I~ev~~~LkLp~~TiaTAi~yf~RFy~~~S-----~~ 99 (601)
..|.+++.... .|++.+.-..-- ..+.- +.++|..|++- +++-.|..++.-|=.+-. -.
T Consensus 59 i~fDr~~avKL-----SGl~k~~Y~~~~-~sfe~llgln~~~~VrdlaVQfgc~-evi~~a~~vl~syk~~lpaT~~~~~ 131 (262)
T KOG4557|consen 59 IIFDRQAAVKL-----SGLSKKAYSRSF-NSFENLLGLNIKLNVRDLAVQFGCV-EVIKSAQNVLSSYKERLPATRRANA 131 (262)
T ss_pred ccccHHHHHHh-----ccccHHHHHHHH-HHHHHHhcchhhcCHHHHHHHHhHH-HHHHHHHHHHHHHHhcCchhhhcCC
Confidence 36888887643 566643322211 12222 45566666653 556677778877765322 23
Q ss_pred CCchhHHHHHHHHHhccCC
Q 007507 100 KNDRRTIATVCMFLAGKVE 118 (601)
Q Consensus 100 ~~dl~lVAaACLfLA~KvE 118 (601)
.+..-.+++|++|+|||.-
T Consensus 132 D~SrP~ft~aA~~~ack~l 150 (262)
T KOG4557|consen 132 DFSRPVFTAAAFYLACKKL 150 (262)
T ss_pred cccchHHHHHHHHHHHHHH
Confidence 4556678999999999963
No 52
>PF11357 Spy1: Cell cycle regulatory protein; InterPro: IPR020984 Speedy (Spy1) is a cell cycle regulatory protein which activates CDK2, the major kinase that allows progression through G1/S phase and further replication events. Spy1 expression overcomes a p27-induced cell cycle arrest to allow for DNA synthesis, so cell cycle progression occurs due to an interaction between Spy1 and p27 []. Spy1 is also known as Ringo protein A.
Probab=21.16 E-value=3.3e+02 Score=25.89 Aligned_cols=87 Identities=17% Similarity=0.179 Sum_probs=50.6
Q ss_pred HHcCCcHH-HHHHHHHHHHHHhhcCCCCCCchhHHHHHHHHHhccCCCCCCChH-HHHHHHHHHHhcCCCCchhhhccch
Q 007507 73 MRLKVPQV-TIATAIIFCHRFFIRQSHAKNDRRTIATVCMFLAGKVEETPRPLK-DVIIVSYEIIHKKDSTAPQRIRQQK 150 (601)
Q Consensus 73 ~~LkLp~~-TiaTAi~yf~RFy~~~S~~~~dl~lVAaACLfLA~KvEE~prkL~-dIi~Vs~~l~~k~dP~~~~rI~~~~ 150 (601)
..++++.. .++..+.||.|.-.... .+.. .--..|||||+-+||.....+ +|...++ .+
T Consensus 23 ~~~~~sDKYLLAmV~~YF~Ragl~~~--~Y~r-i~FFlALYLAndmEED~~~~K~~If~f~~---G~------------- 83 (131)
T PF11357_consen 23 KCLRVSDKYLLAMVIAYFSRAGLFSW--QYQR-IHFFLALYLANDMEEDDEEPKYEIFPFLY---GK------------- 83 (131)
T ss_pred cchhhhhHHHHHHHHHHHHhcccchh--hcch-HHHHHHHHHhhHHHhccchHHHHHHHHHH---Cc-------------
Confidence 34556655 67899999998754221 1222 223458999999998754333 3333222 11
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCcccccC
Q 007507 151 EVYEQQKELILLGERVVLATLGFDLNVHH 179 (601)
Q Consensus 151 e~Y~~~ke~Il~~E~~IL~tL~FDL~v~~ 179 (601)
+ +.........+=..+.+.++|...|.-
T Consensus 84 ~-w~~~~~~F~klr~~~~~~m~~Ra~Vsr 111 (131)
T PF11357_consen 84 N-WRSQIPQFHKLRDQFWRRMDWRAWVSR 111 (131)
T ss_pred c-hHHHhHHHHHHHHHHHHHcCCceeeCH
Confidence 1 111223455666677888999876643
Done!