Query 012810
Match_columns 456
No_of_seqs 243 out of 1683
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 06:32:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012810.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012810hhsearch_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 5.8E-53 1.3E-57 423.5 24.0 243 30-280 7-254 (323)
2 KOG0835 Cyclin L [General func 100.0 1.2E-42 2.6E-47 341.9 23.3 256 44-303 5-261 (367)
3 KOG0794 CDK8 kinase-activating 100.0 3.4E-40 7.5E-45 311.4 13.9 232 33-277 12-244 (264)
4 TIGR00569 ccl1 cyclin ccl1. Un 100.0 8.5E-39 1.8E-43 321.0 21.2 221 33-276 8-260 (305)
5 COG5333 CCL1 Cdk activating ki 100.0 3E-31 6.5E-36 261.5 16.3 185 39-242 26-211 (297)
6 KOG2496 Cdk activating kinase 99.9 2.5E-23 5.4E-28 204.2 10.9 224 33-275 9-261 (325)
7 KOG0656 G1/S-specific cyclin D 99.9 1.1E-20 2.3E-25 190.7 18.6 167 51-237 67-240 (335)
8 PRK00423 tfb transcription ini 99.8 7.4E-20 1.6E-24 185.1 19.9 183 63-272 123-305 (310)
9 KOG0653 Cyclin B and related k 99.8 8.4E-20 1.8E-24 190.1 14.4 189 56-272 152-346 (391)
10 COG5024 Cyclin [Cell division 99.7 7.2E-18 1.5E-22 175.9 13.3 189 57-274 208-402 (440)
11 KOG0655 G1/S-specific cyclin E 99.7 2.1E-17 4.6E-22 163.9 11.9 186 56-273 139-337 (408)
12 PF00134 Cyclin_N: Cyclin, N-t 99.7 1.1E-16 2.3E-21 139.6 8.2 121 36-178 5-127 (127)
13 KOG0654 G2/Mitotic-specific cy 99.6 1.7E-15 3.7E-20 154.5 8.0 199 54-281 129-332 (359)
14 COG1405 SUA7 Transcription ini 99.5 2.2E-13 4.8E-18 136.1 16.2 181 64-271 99-279 (285)
15 KOG1597 Transcription initiati 99.5 3.3E-13 7.1E-18 132.9 15.4 181 63-270 105-287 (308)
16 cd00043 CYCLIN Cyclin box fold 99.3 7.6E-12 1.7E-16 100.2 7.9 71 62-132 2-72 (88)
17 smart00385 CYCLIN domain prese 99.2 5.7E-11 1.2E-15 94.2 6.5 83 67-171 1-83 (83)
18 PF02984 Cyclin_C: Cyclin, C-t 98.9 2.5E-09 5.4E-14 91.5 7.1 89 180-275 1-93 (118)
19 smart00385 CYCLIN domain prese 98.5 4.7E-07 1E-11 71.6 7.6 80 185-268 2-82 (83)
20 PF00382 TFIIB: Transcription 98.4 1.4E-06 3.1E-11 69.4 7.5 63 69-131 1-63 (71)
21 KOG1598 Transcription initiati 98.4 1.9E-06 4.1E-11 91.6 10.5 162 56-241 61-227 (521)
22 cd00043 CYCLIN Cyclin box fold 98.4 1.8E-06 3.8E-11 68.8 7.8 86 179-268 2-88 (88)
23 KOG4164 Cyclin ik3-1/CABLES [C 97.7 4.2E-05 9E-10 78.6 4.8 97 66-181 386-483 (497)
24 PF08613 Cyclin: Cyclin; Inte 97.6 0.00038 8.2E-09 63.5 9.2 90 65-177 54-149 (149)
25 PF00382 TFIIB: Transcription 97.5 0.0003 6.4E-09 56.0 6.5 56 186-242 1-56 (71)
26 PRK00423 tfb transcription ini 97.4 0.00068 1.5E-08 69.1 9.2 67 66-132 220-286 (310)
27 COG1405 SUA7 Transcription ini 95.5 0.034 7.4E-07 56.2 7.0 68 65-132 194-261 (285)
28 PF00134 Cyclin_N: Cyclin, N-t 95.1 0.076 1.6E-06 45.8 7.0 86 183-271 35-122 (127)
29 KOG1597 Transcription initiati 94.3 0.15 3.3E-06 51.3 7.6 68 65-132 203-270 (308)
30 TIGR00569 ccl1 cyclin ccl1. Un 89.6 0.72 1.6E-05 47.2 6.1 56 185-241 62-119 (305)
31 PF01857 RB_B: Retinoblastoma- 89.0 1.8 4E-05 39.1 7.6 67 65-131 14-82 (135)
32 PF02984 Cyclin_C: Cyclin, C-t 87.4 0.59 1.3E-05 39.4 3.3 55 66-120 4-58 (118)
33 KOG1674 Cyclin [General functi 86.8 2.3 5E-05 41.4 7.4 93 66-180 79-181 (218)
34 KOG0835 Cyclin L [General func 84.0 1.6 3.5E-05 44.9 4.9 56 67-122 143-200 (367)
35 KOG0834 CDK9 kinase-activating 83.1 2.1 4.5E-05 44.2 5.4 71 183-254 43-114 (323)
36 KOG0656 G1/S-specific cyclin D 71.0 22 0.00048 37.0 8.8 82 161-243 51-144 (335)
37 KOG1598 Transcription initiati 69.9 4.8 0.0001 43.8 3.9 55 80-134 184-238 (521)
38 KOG0794 CDK8 kinase-activating 69.9 9.2 0.0002 37.8 5.4 86 185-272 47-145 (264)
39 COG5333 CCL1 Cdk activating ki 68.9 6.7 0.00014 40.0 4.4 87 183-270 49-140 (297)
40 PF01857 RB_B: Retinoblastoma- 68.2 15 0.00032 33.3 6.1 57 183-240 15-73 (135)
41 PF08613 Cyclin: Cyclin; Inte 63.7 36 0.00077 30.8 7.8 87 183-272 55-146 (149)
42 KOG1675 Predicted cyclin [Gene 58.2 12 0.00026 38.4 3.9 76 84-181 212-290 (343)
43 KOG2496 Cdk activating kinase 54.7 21 0.00045 36.6 5.0 54 185-239 62-117 (325)
44 PF13591 MerR_2: MerR HTH fami 35.1 1E+02 0.0022 25.2 5.4 42 33-95 33-74 (84)
45 KOG0653 Cyclin B and related k 32.1 1.3E+02 0.0028 31.9 6.9 95 185-280 164-259 (391)
46 KOG4557 Origin recognition com 26.4 1.1E+02 0.0024 30.0 4.7 59 216-277 129-187 (262)
47 COG5024 Cyclin [Cell division 23.8 1E+02 0.0022 33.4 4.3 90 202-291 235-326 (440)
48 PF07226 DUF1422: Protein of u 23.7 1.2E+02 0.0025 27.0 3.9 37 79-116 40-76 (117)
49 KOG1010 Rb (Retinoblastoma tum 21.0 2.3E+02 0.0051 33.1 6.6 66 66-131 681-748 (920)
50 PRK10265 chaperone-modulator p 20.6 3E+02 0.0065 23.3 5.9 43 32-95 40-82 (101)
No 1
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=5.8e-53 Score=423.54 Aligned_cols=243 Identities=55% Similarity=0.916 Sum_probs=228.7
Q ss_pred CCCCCccccHHHHhhhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHH
Q 012810 30 KDGGRWYFSRKELEEDSPSRRDGIDLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVAT 109 (456)
Q Consensus 30 ~~~~~W~Ft~eel~~~sPSr~dGis~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaa 109 (456)
....+|||+++|+++.+|||++|++.+.|...|..++.||+++|.+|++|+.|++||++||||||+.++++.++++.||+
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 34478999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcccCCCCCchhHHHHHHHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHH
Q 012810 110 VCMFLAGKVEETPRPLKDVIIVSYEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEA 189 (456)
Q Consensus 110 ACLfLA~KvEE~~rkL~dvi~v~~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~ 189 (456)
+|||||||+||++++++|||.+++.++++++ +...+.|+++|+.|+.+|.+||++|+|||+|.|||.||.+|
T Consensus 87 sclfLAgKvEetp~kl~dIi~~s~~~~~~~~--------~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~ 158 (323)
T KOG0834|consen 87 SCLFLAGKVEETPRKLEDIIKVSYRYLNPKD--------LELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKY 158 (323)
T ss_pred HHHHHHhhcccCcccHHHHHHHHHHHcCccc--------ccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHH
Confidence 9999999999999999999999999887652 34578899999999999999999999999999999999999
Q ss_pred HHHhhhchH---HHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccC--CCHHHHHHHH
Q 012810 190 IKKFKVAQN---ALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFD--VTPRQLEEVS 264 (456)
Q Consensus 190 l~~l~~~~~---~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~--vt~eeL~ei~ 264 (456)
+++++.+.+ .+++.||.|+||++++.+||+|+|++||+|||++|+++.++.+|...+..||..|+ ++.+.|++++
T Consensus 159 ~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~ 238 (323)
T KOG0834|consen 159 LKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDIC 238 (323)
T ss_pred HHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHH
Confidence 999988765 58999999999999999999999999999999999999999999877778999998 9999999999
Q ss_pred HHHHHHHhhCCCCCCC
Q 012810 265 NQMLELYEQNRVQPSH 280 (456)
Q Consensus 265 ~~Il~lY~~~~~~~s~ 280 (456)
++++++|+..+.....
T Consensus 239 ~~~l~~y~~~~~~~~~ 254 (323)
T KOG0834|consen 239 HEFLDLYEQTPQRNHL 254 (323)
T ss_pred HHHHHHHhhccccccc
Confidence 9999999987766443
No 2
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=100.00 E-value=1.2e-42 Score=341.91 Aligned_cols=256 Identities=30% Similarity=0.554 Sum_probs=217.8
Q ss_pred hhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCC
Q 012810 44 EDSPSRRDGIDLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPR 123 (456)
Q Consensus 44 ~~sPSr~dGis~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~r 123 (456)
.++||..||++.+.|..+|..+|.||++.|..|+||+.+++|++++|+|||...++..+++..|++|||+||+|+||.|+
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 47889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CchhHHHHHHHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhchH-HHHH
Q 012810 124 PLKDVIIVSYEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQN-ALAQ 202 (456)
Q Consensus 124 kL~dvi~v~~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~~-~I~q 202 (456)
++++|++|+..+-......+.... .....|...+..++.+|+.||++|||+.+|.|||+++..|+..|++..+ .|.|
T Consensus 85 r~rdVinVFh~L~~r~~~~~~~~~--~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q 162 (367)
T KOG0835|consen 85 RIRDVINVFHYLEQRRESEAAEHL--ILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQ 162 (367)
T ss_pred cHhHHHHHHHHHHHHHhccCcchh--hhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHH
Confidence 999999999876544321222111 1234566788899999999999999999999999999999999998765 4899
Q ss_pred HHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCCCHHHHHHHHHHHHHHHhhCCCCCCCCc
Q 012810 203 VAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEVSNQMLELYEQNRVQPSHGD 282 (456)
Q Consensus 203 ~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei~~~Il~lY~~~~~~~s~~~ 282 (456)
.+|+|+||+++|++|..|+|..|||||||||++.++++||.. +.||..|+++.++|+++|-.++.+|...+...+..+
T Consensus 163 ~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~--P~Wf~~Fd~~k~eid~ic~~l~~lY~~~~p~~~li~ 240 (367)
T KOG0835|consen 163 AAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQ--PHWFKAFDTTKREIDEICYRLIPLYKRAKPDETLIE 240 (367)
T ss_pred HHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCC--ccHHHHcCCcHHHHHHHHHHHHHHHHhcccCHHHHH
Confidence 999999999999999999999999999999999999999874 589999999999999999999999999444433224
Q ss_pred cccCCCCCCccccCCcccccC
Q 012810 283 VEGSTGSGGTHRASSKALSIT 303 (456)
Q Consensus 283 ~e~s~~~~~~q~~~~~~~~~~ 303 (456)
++........+.+..|+.+.+
T Consensus 241 ~~vd~~k~~~~da~~k~~~~~ 261 (367)
T KOG0835|consen 241 AFVDRLKRKFSDASGKAKGAN 261 (367)
T ss_pred HHHHHhhHHHHhccCCccchh
Confidence 444333333444444443333
No 3
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=100.00 E-value=3.4e-40 Score=311.44 Aligned_cols=232 Identities=29% Similarity=0.542 Sum_probs=202.7
Q ss_pred CCccccHHHHhhhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHH
Q 012810 33 GRWYFSRKELEEDSPSRRDGIDLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCM 112 (456)
Q Consensus 33 ~~W~Ft~eel~~~sPSr~dGis~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACL 112 (456)
.+|+|++++|..-.|--..|++.++-.+++.++.++|+.+|.+++++|.++|||++||+|||.++|+++++++++|.|||
T Consensus 12 ~qwl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TCl 91 (264)
T KOG0794|consen 12 QQWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCL 91 (264)
T ss_pred hhHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHH
Confidence 57999999999888877889999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcccCCC-CCchhHHHHHHHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHH
Q 012810 113 FLAGKVEETP-RPLKDVIIVSYEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIK 191 (456)
Q Consensus 113 fLA~KvEE~~-rkL~dvi~v~~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~ 191 (456)
|||||+||++ ...+-+++.+..+.++-+..|. .+.--...|+++|+.||+.|++.|.|+|||+.|.+++.
T Consensus 92 yLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~e---------~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~q 162 (264)
T KOG0794|consen 92 YLACKVEECPIVHIRLLVNEAKVLKTRFSYWPE---------KFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQ 162 (264)
T ss_pred HHHhhhhhcchHHHHHHHHHHHHHhhhcccchh---------hcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHH
Confidence 9999999998 5556666555444222110110 01111246999999999999999999999999999999
Q ss_pred HhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCCCHHHHHHHHHHHHHHH
Q 012810 192 KFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEVSNQMLELY 271 (456)
Q Consensus 192 ~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei~~~Il~lY 271 (456)
..++.+.++.+.+|.++||++++++||.|||+.||+|||++|+...+.++| +.|+.++.++.+.|.+|+.+|+++|
T Consensus 163 d~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~----~~w~~el~vD~ekV~~~v~~I~~lY 238 (264)
T KOG0794|consen 163 DMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIP----KAWFAELSVDMEKVKDIVQEILKLY 238 (264)
T ss_pred HhcccchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChH----HHHHHHHhccHHHHHHHHHHHHHHH
Confidence 999865568899999999999999999999999999999999999998765 5799999999999999999999999
Q ss_pred hhCCCC
Q 012810 272 EQNRVQ 277 (456)
Q Consensus 272 ~~~~~~ 277 (456)
+.++.-
T Consensus 239 e~wk~~ 244 (264)
T KOG0794|consen 239 ELWKIF 244 (264)
T ss_pred HHHhhh
Confidence 998754
No 4
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=8.5e-39 Score=321.02 Aligned_cols=221 Identities=26% Similarity=0.379 Sum_probs=185.3
Q ss_pred CCcccc-HHHHhhhCC------------------CccCCCCHHHHHHHHHHHHHHHHHHHHhcC--CCHHHHHHHHHHHH
Q 012810 33 GRWYFS-RKELEEDSP------------------SRRDGIDLKRETYLRKSYCTFLQDLGMKLK--VPQITIATAIIFCH 91 (456)
Q Consensus 33 ~~W~Ft-~eel~~~sP------------------Sr~dGis~e~E~~lR~~~~~~I~~l~~~Lk--Lp~~TiatAi~yf~ 91 (456)
..|.|+ +++|.+... ....++++++|..+|.++|.+|+++|.+|+ ||+.|++||++|||
T Consensus 8 r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~~~~~~~~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~ 87 (305)
T TIGR00569 8 RHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFK 87 (305)
T ss_pred ccCcCCCHHHHHHHHHHHHHHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHh
Confidence 579999 888864321 234689999999999999999999999999 99999999999999
Q ss_pred HHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHHHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHH
Q 012810 92 RFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLA 171 (456)
Q Consensus 92 RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~ 171 (456)
|||+++|+..+++++|++||||||||+||+++++++++.... . +| ...++.|+.+|+.||+
T Consensus 88 RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~-----~--~~------------~~~~~~Il~~E~~lL~ 148 (305)
T TIGR00569 88 RFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLK-----E--TP------------LKALEQVLEYELLLIQ 148 (305)
T ss_pred HHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhcc-----C--Cc------------hhhHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999988875321 1 11 1346789999999999
Q ss_pred hcCCccccCCcHHHHHHHHHHhhh------chHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCC
Q 012810 172 TLAFDLNVLHPYKPLVEAIKKFKV------AQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDG 245 (456)
Q Consensus 172 ~L~FdL~V~~P~~~L~~~l~~l~~------~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~ 245 (456)
+|+|+|.|+|||++|..|+..++. ..+.+.+.||.|+||+++|++||.|+|++||+||||+|++.+++++|+.
T Consensus 149 ~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~~~l~~~- 227 (305)
T TIGR00569 149 QLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESY- 227 (305)
T ss_pred HCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhCCCCccc-
Confidence 999999999999999999876542 2246889999999999999999999999999999999999999999974
Q ss_pred cccchhccCC--CHHH---HHHHHHHHHHHHhhCCC
Q 012810 246 DRMWWQEFDV--TPRQ---LEEVSNQMLELYEQNRV 276 (456)
Q Consensus 246 ~~~W~~~f~v--t~ee---L~ei~~~Il~lY~~~~~ 276 (456)
.| +.|++ +.+. |.+.++.|..+..+...
T Consensus 228 --~~-e~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 260 (305)
T TIGR00569 228 --LT-EQLSVPGNREELPQLIDIMRELRILVKKYEE 260 (305)
T ss_pred --ch-hhhcccccHHHHHHHHHHHHHHHHHHHcCCC
Confidence 24 67766 4554 55555555555555443
No 5
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.97 E-value=3e-31 Score=261.47 Aligned_cols=185 Identities=38% Similarity=0.593 Sum_probs=159.6
Q ss_pred HHHHhhhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcc
Q 012810 39 RKELEEDSPSRRDGIDLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKV 118 (456)
Q Consensus 39 ~eel~~~sPSr~dGis~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~Kv 118 (456)
...+....| . ++.+.|..+|.+++.||+++|.+|++|+.+++||+.||+||+.+.++++++++.|++||||||||+
T Consensus 26 e~~l~~~~p---~-l~~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ 101 (297)
T COG5333 26 ELDLLVLEP---E-LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKV 101 (297)
T ss_pred HhhHhcCCc---c-cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeec
Confidence 344444555 1 788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCchhHHHHHHHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhchH
Q 012810 119 EETPRPLKDVIIVSYEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQN 198 (456)
Q Consensus 119 EE~~rkL~dvi~v~~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~~ 198 (456)
||+++.+ ...++...+.. .+.++..|+.|+.+|+.||++|+|||.|+|||.++..|++.+.....
T Consensus 102 ed~~~~I---~i~~~~~~~~~------------se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~ 166 (297)
T COG5333 102 EDTPRDI---SIESFEARDLW------------SEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK 166 (297)
T ss_pred ccccchh---hHHHHHhhccc------------cccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH
Confidence 9985443 33333222111 23445678899999999999999999999999999999999877654
Q ss_pred -HHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCC
Q 012810 199 -ALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLP 242 (456)
Q Consensus 199 -~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp 242 (456)
++.+.||.++||++++++|+.|+|+.||+|||++|+..++.+++
T Consensus 167 ~~~~~~aw~~inDa~~t~~~llypphiIA~a~l~ia~~~~~~~~~ 211 (297)
T COG5333 167 YKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPII 211 (297)
T ss_pred HHHHHHHHHHHHhhhhceeeeecChHHHHHHHHHHHHHhcCCccc
Confidence 68899999999999999999999999999999999999988654
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=99.89 E-value=2.5e-23 Score=204.16 Aligned_cols=224 Identities=25% Similarity=0.334 Sum_probs=161.9
Q ss_pred CCccccHHHHhhhCCC------------------ccCCCCHHHHHHHHHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHH
Q 012810 33 GRWYFSRKELEEDSPS------------------RRDGIDLKRETYLRKSYCTFLQDLGMKL--KVPQITIATAIIFCHR 92 (456)
Q Consensus 33 ~~W~Ft~eel~~~sPS------------------r~dGis~e~E~~lR~~~~~~I~~l~~~L--kLp~~TiatAi~yf~R 92 (456)
..|.||+++|.+...- ..--+.+.+|..+-+....-+.+.+.++ .+|..|++||+.||.|
T Consensus 9 r~W~fte~qL~e~r~~~N~k~i~~~ee~~~~~~~~e~~v~~~ee~tl~k~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkR 88 (325)
T KOG2496|consen 9 RKWIFTEEQLAERRVDANQKAIQMLEEEAHNLDENEVFVLEAEELTLTKEEELSLVNFYSKFKPNLPTSVVSTAIEFFKR 88 (325)
T ss_pred hcccccHHHHHHHHHHHHHHHHHHHHHhccCCCccchhccccccccccHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHH
Confidence 5799999999654110 0111233445555556666677777776 4899999999999999
Q ss_pred HhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHHHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 012810 93 FYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLAT 172 (456)
Q Consensus 93 Fy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~ 172 (456)
||..+++.++++..|++||+|||||++|+.+++.+++.-.. . .+ ++..+.|+..|..+|+.
T Consensus 89 ffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~---~----~~------------~k~~e~vLk~E~~llqs 149 (325)
T KOG2496|consen 89 FFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMN---G----RK------------WKTHEIVLKYEFLLLQS 149 (325)
T ss_pred HHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhcc---C----cc------------cccHHHHHhchHHHHHh
Confidence 99999999999999999999999999999999999885321 1 11 22356899999999999
Q ss_pred cCCccccCCcHHHHHHHHHHhhh------chHHHHH--HHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCC
Q 012810 173 LAFDLNVLHPYKPLVEAIKKFKV------AQNALAQ--VAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSD 244 (456)
Q Consensus 173 L~FdL~V~~P~~~L~~~l~~l~~------~~~~I~q--~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~ 244 (456)
|.|+|.|++||+.|..|+..++- +.+.+.+ ....|++.+++|++++.|+|++||+|||..|.-..|+.+.+.
T Consensus 150 L~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a~~~~~~~l~s~ 229 (325)
T KOG2496|consen 150 LKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHAAGRTGETLESY 229 (325)
T ss_pred hhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHHhccccchHHHH
Confidence 99999999999999999877642 1122222 335899999999999999999999999966665555532110
Q ss_pred C-cccchhccCCCHHHHHHHHHHHHHHHhhCC
Q 012810 245 G-DRMWWQEFDVTPRQLEEVSNQMLELYEQNR 275 (456)
Q Consensus 245 ~-~~~W~~~f~vt~eeL~ei~~~Il~lY~~~~ 275 (456)
- +.--...-.-..+++.+++..|-.+..+..
T Consensus 230 ~~e~l~~~enr~~~s~l~d~~~~~~nlvk~~~ 261 (325)
T KOG2496|consen 230 LLESLGSQENREKLSELLDILKKIRNLVKQYK 261 (325)
T ss_pred HHHHhcCccccccchhhHHHHHHHHHHHHhcc
Confidence 0 000000113345667777777777776665
No 7
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.86 E-value=1.1e-20 Score=190.71 Aligned_cols=167 Identities=22% Similarity=0.276 Sum_probs=136.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcc---hHHHHHHHHHHhhcccCCCCC-ch
Q 012810 51 DGIDLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKND---RRTVATVCMFLAGKVEETPRP-LK 126 (456)
Q Consensus 51 dGis~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d---~~lVaaACLfLA~KvEE~~rk-L~ 126 (456)
.+++-..--.+|+.+++||.++|.++++...|..+|++||+||+..+++.+.+ .+++|+|||+||+|+||+.++ +-
T Consensus 67 ~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~ 146 (335)
T KOG0656|consen 67 LCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLA 146 (335)
T ss_pred hhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhh
Confidence 34443444567999999999999999999999999999999999999999999 999999999999999998643 33
Q ss_pred hHHHHHHHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhch---HHHHHH
Q 012810 127 DVIIVSYEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQ---NALAQV 203 (456)
Q Consensus 127 dvi~v~~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~---~~I~q~ 203 (456)
|+... + + .|-...+.|.+||.+||.+|+|+++..+|+.|+..|+.+++... ..+...
T Consensus 147 dl~v~-~---------~----------~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~ 206 (335)
T KOG0656|consen 147 DLQVE-Y---------T----------DNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKH 206 (335)
T ss_pred hhhhc-c---------c----------cccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHH
Confidence 33321 0 0 01223457999999999999999999999999999999997642 246677
Q ss_pred HHHHhhhhcccccccCcCHHHHHHHHHHHHHHHc
Q 012810 204 AWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFL 237 (456)
Q Consensus 204 A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l 237 (456)
+..++-......-++.|+|++||+|++.++....
T Consensus 207 ~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~ 240 (335)
T KOG0656|consen 207 ASLFLLSVITDIKFLEYPPSVIAAAAILSVSASV 240 (335)
T ss_pred HHHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhh
Confidence 7777777777778999999999999987776544
No 8
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.84 E-value=7.4e-20 Score=185.13 Aligned_cols=183 Identities=16% Similarity=0.170 Sum_probs=163.0
Q ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHHHHhhcCCCC
Q 012810 63 KSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDKD 142 (456)
Q Consensus 63 ~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~i~~k~~~d 142 (456)
..+...|.++|..|+||..++.+|..||++++....++......+++||||+|||.++.|++++||..++. .
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~----v---- 194 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSR----V---- 194 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhC----C----
Confidence 55778999999999999999999999999999999999999999999999999999999999999987642 1
Q ss_pred CchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCH
Q 012810 143 PDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKP 222 (456)
Q Consensus 143 P~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~P 222 (456)
.+.+|...++.|++.|++++.+.+|+.|+.+|+..|+++. .+.+.|+.+++++....++....|
T Consensus 195 ---------------~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~-~v~~~A~~i~~~a~~~~l~~Gr~P 258 (310)
T PRK00423 195 ---------------SRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG-EVQKKAIEILQKAKEKGLTSGKGP 258 (310)
T ss_pred ---------------CHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHhcCcccCCCH
Confidence 1235788899999999999999999999999999999975 788999999999998889999999
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCCcccchhccCCCHHHHHHHHHHHHHHHh
Q 012810 223 HHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEVSNQMLELYE 272 (456)
Q Consensus 223 s~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei~~~Il~lY~ 272 (456)
..||+||||+|++.+|.+... +.-....+|+...|...+++|...+.
T Consensus 259 ~sIAAAaIYlA~~~~g~~~t~---keIa~v~~Vs~~tI~~~ykel~~~l~ 305 (310)
T PRK00423 259 TGLAAAAIYIASLLLGERRTQ---REVAEVAGVTEVTVRNRYKELAEKLD 305 (310)
T ss_pred HHHHHHHHHHHHHHhCCCCCH---HHHHHHcCCCHHHHHHHHHHHHHHhC
Confidence 999999999999999987543 22345669999999999999998553
No 9
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.82 E-value=8.4e-20 Score=190.13 Aligned_cols=189 Identities=21% Similarity=0.261 Sum_probs=158.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHH-HhhcccCCCCC-chhHHHHHH
Q 012810 56 KRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMF-LAGKVEETPRP-LKDVIIVSY 133 (456)
Q Consensus 56 e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLf-LA~KvEE~~rk-L~dvi~v~~ 133 (456)
+.-..||...++||.+++.+|+|..+|+++|+.+++||+....+...++++|+++||| ||||+||...+ +.|++.++.
T Consensus 152 e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd 231 (391)
T KOG0653|consen 152 EIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITD 231 (391)
T ss_pred cccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeC
Confidence 3445799999999999999999999999999999999999988889999999999977 99999997544 677765543
Q ss_pred HHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhchHHHHHHHHHHhhhhcc
Q 012810 134 EIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLR 213 (456)
Q Consensus 134 ~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~ 213 (456)
..+ .+++|+.||+.||.+|+|++.+++|+.||.+|.+....+. .....+.+++..++.
T Consensus 232 ~~~---------------------s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d~-~~~~~~k~~~El~l~ 289 (391)
T KOG0653|consen 232 GAY---------------------SREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYDI-KTRTLVKYLLELSLC 289 (391)
T ss_pred Ccc---------------------chHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcch-hHHHHHHHHHHHHHh
Confidence 322 3568999999999999999999999999999999877433 566788899999999
Q ss_pred cccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhcc----CCCHHHHHHHHHHHHHHHh
Q 012810 214 TSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEF----DVTPRQLEEVSNQMLELYE 272 (456)
Q Consensus 214 t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f----~vt~eeL~ei~~~Il~lY~ 272 (456)
..-++.++|+.+|+|++++|..+.... ..|...+ ++....+..+...+..+..
T Consensus 290 d~~~~~~~~s~~aaa~~~~~~~~~~~~------~~w~~~~~~~sg~~~~~~~~~~~~~~~~~~ 346 (391)
T KOG0653|consen 290 DYSMLSIPPSSSAAASFTLALRMLSKG------DVWSPTLEHYSGYSESYLFECARSLSALSL 346 (391)
T ss_pred hhHHhccCcHHHHHHHHHHHHHHhccC------CccCCCCeeccCCCcHHHHHHHHHHHHHHH
Confidence 999999999999999999999998873 2476644 5555577777777766443
No 10
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.75 E-value=7.2e-18 Score=175.88 Aligned_cols=189 Identities=21% Similarity=0.232 Sum_probs=157.1
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCC-chhHHHHHHHH
Q 012810 57 RETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRP-LKDVIIVSYEI 135 (456)
Q Consensus 57 ~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rk-L~dvi~v~~~i 135 (456)
.+-.||..+++||.+++.+|++-++|+.+|+.+++||+....+.-..+++||++|||||||+||...+ +++++.++...
T Consensus 208 ~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~ 287 (440)
T COG5024 208 YEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGA 287 (440)
T ss_pred hHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHccc
Confidence 34479999999999999999999999999999999999999988889999999999999999997644 56666554322
Q ss_pred hhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhchHHHHHHHHHHhhhhcccc
Q 012810 136 IHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTS 215 (456)
Q Consensus 136 ~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~ 215 (456)
+ .++.|+.+|+.+|.+|+|++..+.|+-||.++.+.-..+- .....+.+++.-+....
T Consensus 288 ~---------------------t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd~-~srt~~k~~~e~s~~~~ 345 (440)
T COG5024 288 F---------------------TRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYDI-FSRTPAKFSSEISPVDY 345 (440)
T ss_pred c---------------------cHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccch-hhhhhHhhhCCchHhhh
Confidence 2 3567999999999999999999999999777766543321 34457888888888888
Q ss_pred cccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhcc----C-CCHHHHHHHHHHHHHHHhhC
Q 012810 216 LCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEF----D-VTPRQLEEVSNQMLELYEQN 274 (456)
Q Consensus 216 l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f----~-vt~eeL~ei~~~Il~lY~~~ 274 (456)
-++.++|+.+|+||.|+|.+.++.. .|-..+ | ++..++..++..++++....
T Consensus 346 ~f~~~~~S~~~aaa~~~s~~~~~~~-------~w~~~l~~ySg~y~~~~l~~~~~~~~~~l~~~ 402 (440)
T COG5024 346 KFIQISPSWCAAAAMYLSRKILSQN-------QWDRTLIHYSGNYTNPDLKPLNESNKENLQNP 402 (440)
T ss_pred hhccCCchHHHHHHHHHHHhhhccC-------CCCccccccCCCCCchhHHHHHHHHHHHhccc
Confidence 8888999999999999999999863 366655 4 88889999999999876543
No 11
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=99.73 E-value=2.1e-17 Score=163.87 Aligned_cols=186 Identities=18% Similarity=0.200 Sum_probs=144.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccC-CCCCcchHHHHHHHHHHhhcccCC-CCCchhHHHHHH
Q 012810 56 KRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQ-SHTKNDRRTVATVCMFLAGKVEET-PRPLKDVIIVSY 133 (456)
Q Consensus 56 e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~-s~~~~d~~lVaaACLfLA~KvEE~-~rkL~dvi~v~~ 133 (456)
.-+-+||+.+.+|++++|.-++|..+|.++|+-||+||+... .+.+..+++|++||||+|+|+||. |+++-++..|..
T Consensus 139 dlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTD 218 (408)
T KOG0655|consen 139 DLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTD 218 (408)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCccccceeeecc
Confidence 345679999999999999999999999999999999998744 566788999999999999999995 678888776543
Q ss_pred HHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhch-----------HHHHH
Q 012810 134 EIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQ-----------NALAQ 202 (456)
Q Consensus 134 ~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~-----------~~I~q 202 (456)
... .-+.|+.||.+||++|+|+|...+--.+|.-|+....... ....|
T Consensus 219 gAc---------------------s~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~~efiq 277 (408)
T KOG0655|consen 219 GAC---------------------SEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQEEFIQ 277 (408)
T ss_pred Ccc---------------------chHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccchHHHHH
Confidence 211 1246999999999999999999999999998987755321 23444
Q ss_pred HHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCCCHHHHHHHHHHHHHHHhh
Q 012810 203 VAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEVSNQMLELYEQ 273 (456)
Q Consensus 203 ~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei~~~Il~lY~~ 273 (456)
.| .++..+...--++.|+-..||||||+.-....- --..-|+....|++|++-|.-++.-
T Consensus 278 ia-qlLDlc~ldids~~fsYrilaAAal~h~~s~e~----------v~kaSG~~w~~ie~cv~wm~Pf~rv 337 (408)
T KOG0655|consen 278 IA-QLLDLCILDIDSLEFSYRILAAAALCHFTSIEV----------VKKASGLEWDSIEECVDWMVPFVRV 337 (408)
T ss_pred HH-HHHHHHHhccccccchHHHHHHHHHHHHhHHHH----------HHHcccccHHHHHHHHHHHHHHHHH
Confidence 44 345555566678999999999999986543211 1123366778899999888777654
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=1.1e-16 Score=139.59 Aligned_cols=121 Identities=31% Similarity=0.467 Sum_probs=90.8
Q ss_pred cccHHHHhhhC-CCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHH
Q 012810 36 YFSRKELEEDS-PSRRDGIDLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFL 114 (456)
Q Consensus 36 ~Ft~eel~~~s-PSr~dGis~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfL 114 (456)
++...|..... +...+ ..++.....|..+++||.+++..++++..|+++|+.|||||+...++...+++++++|||+|
T Consensus 5 ~~~~~e~~~~~~~~~~~-~~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~l 83 (127)
T PF00134_consen 5 YLLEKELKYKPNPDYLE-QQPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFL 83 (127)
T ss_dssp HHHHHHHHTTCCTTHGT-GTSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHH
T ss_pred HHHHHHHHHCcCccccc-cChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHH
Confidence 44555664332 22222 22245568899999999999999999999999999999999999999999999999999999
Q ss_pred hhcccCC-CCCchhHHHHHHHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccc
Q 012810 115 AGKVEET-PRPLKDVIIVSYEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLN 178 (456)
Q Consensus 115 A~KvEE~-~rkL~dvi~v~~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~ 178 (456)
|||++|. ++.+.+++.++... ..+++|+.||+.||++|+|+++
T Consensus 84 A~K~~e~~~~~~~~~~~~~~~~---------------------~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 84 ASKMEEDNPPSISDLIRISDNT---------------------FTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHTSS--HHHHHHHHTTTS---------------------SHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhhccccchHHHHHHHHcCC---------------------CCHHHHHHHHHHHHHHCCCCcC
Confidence 9999998 56677777543110 1256799999999999999985
No 13
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.59 E-value=1.7e-15 Score=154.47 Aligned_cols=199 Identities=18% Similarity=0.207 Sum_probs=168.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCC-CCchhHHHHH
Q 012810 54 DLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETP-RPLKDVIIVS 132 (456)
Q Consensus 54 s~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~-rkL~dvi~v~ 132 (456)
..+....||..+++|+.++++.+++-.++++.+.++.+||+....+.....++++.+|+++|+|+||.. +.+.+++...
T Consensus 129 q~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~it 208 (359)
T KOG0654|consen 129 QADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYIT 208 (359)
T ss_pred ecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhh
Confidence 334455789999999999999999999999999999999999999999999999999999999999864 5567776554
Q ss_pred HHHhhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhchHHHHHHHHHHhhhhc
Q 012810 133 YEIIHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGL 212 (456)
Q Consensus 133 ~~i~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl 212 (456)
.+.+ .+.+++.||..+|..|.|++..++...|+..|+........++.-+|.++.+.++
T Consensus 209 d~ty---------------------~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~~~~~e~~~~yl~elsl 267 (359)
T KOG0654|consen 209 DNTY---------------------TYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTPELQVEPLANYLTELSL 267 (359)
T ss_pred hhhh---------------------HHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcchhHHHHHHHHHHHHhhh
Confidence 3322 3457999999999999999999999999999987755444467788999999999
Q ss_pred ccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhcc----CCCHHHHHHHHHHHHHHHhhCCCCCCCC
Q 012810 213 RTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEF----DVTPRQLEEVSNQMLELYEQNRVQPSHG 281 (456)
Q Consensus 213 ~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f----~vt~eeL~ei~~~Il~lY~~~~~~~s~~ 281 (456)
....+|.|.|+.||+||+++|...++. .+|-..+ +++.+++..|+..|. +|...+...-+.
T Consensus 268 l~~~~l~y~PSliAasAv~lA~~~~~~-------~pW~~~L~~~T~y~~edl~~~v~~L~-~~l~~~~~~l~a 332 (359)
T KOG0654|consen 268 LDYIFLKYLPSLIAASAVFLARLTLDF-------HPWNQTLEDYTGYKAEDLKPCVLDLH-LYLNASGTDLPA 332 (359)
T ss_pred hhHHHhccChHHHHHHHHHHHHhhccC-------CCCchhhHHhhcccHHHHHHHHHHHh-cccCCCCCchHH
Confidence 888899999999999999999999883 3576555 899999999999999 887766654443
No 14
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.53 E-value=2.2e-13 Score=136.11 Aligned_cols=181 Identities=18% Similarity=0.215 Sum_probs=159.1
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHHHHhhcCCCCC
Q 012810 64 SYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDKDP 143 (456)
Q Consensus 64 ~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~i~~k~~~dP 143 (456)
.+...|..++..|+||..+.-+|+.+|.+.+...-.+.....-+++||+|+||+.+..|+.+.+|..+.. - +
T Consensus 99 ~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~----V---~- 170 (285)
T COG1405 99 TALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALG----V---S- 170 (285)
T ss_pred HHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHC----C---C-
Confidence 4677899999999999999999999999999999999999999999999999999999999999987643 1 1
Q ss_pred chhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCCcHHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHH
Q 012810 144 DSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPH 223 (456)
Q Consensus 144 ~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~P~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps 223 (456)
+..|....+.+.+.|+-.+....|..|+.+|+..|+++. .+...|..++..+....+...-.|.
T Consensus 171 ---------------~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~-~v~~~a~ei~~~~~~~g~~~Gk~P~ 234 (285)
T COG1405 171 ---------------KKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSD-EVRRKAIEIVKKAKRAGLTAGKSPA 234 (285)
T ss_pred ---------------HHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHHhCcccCCCch
Confidence 235788888999999999999999999999999999984 7889999999999888888899999
Q ss_pred HHHHHHHHHHHHHcCCCCCCCCcccchhccCCCHHHHHHHHHHHHHHH
Q 012810 224 HVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEVSNQMLELY 271 (456)
Q Consensus 224 ~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei~~~Il~lY 271 (456)
.||+||||+|+.++++...+ ..--...|+|+..|++-+.+|.+..
T Consensus 235 glAaaaiy~as~l~~~~~tq---~eva~v~~vtevTIrnrykel~~~~ 279 (285)
T COG1405 235 GLAAAAIYLASLLLGERRTQ---KEVAKVAGVTEVTIRNRYKELADAL 279 (285)
T ss_pred hHHHHHHHHHHHHhCCchHH---HHHHHHhCCeeeHHHHHHHHHHHhh
Confidence 99999999999999976443 1233456999999999998888754
No 15
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=99.51 E-value=3.3e-13 Score=132.90 Aligned_cols=181 Identities=13% Similarity=0.158 Sum_probs=149.2
Q ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHHHHhhcCCCC
Q 012810 63 KSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDKD 142 (456)
Q Consensus 63 ~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~i~~k~~~d 142 (456)
.....-|..++.+++||..+.-.|..+|++|...+.++......+++||||+||+-++.||++++|..++. ..
T Consensus 105 ~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~an--v~----- 177 (308)
T KOG1597|consen 105 KAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVAN--VS----- 177 (308)
T ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHc--CC-----
Confidence 44667899999999999999999999999999999999999999999999999999999999999998764 11
Q ss_pred CchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccC--CcHHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCc
Q 012810 143 PDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVL--HPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQF 220 (456)
Q Consensus 143 P~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~--~P~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y 220 (456)
+.+|-++=..|++.|+-+.... +.-+|+.+||..|+++. .+...|..++.-+-.-+++-..
T Consensus 178 ----------------kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~-~~q~aA~e~a~ka~~~~~~~gR 240 (308)
T KOG1597|consen 178 ----------------KKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPK-SAQEAATEIAEKAEEMDIRAGR 240 (308)
T ss_pred ----------------HHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCH-HHHHHHHHHHHHHHHhccccCC
Confidence 2245566667788877766554 47899999999999986 6767788887777666666679
Q ss_pred CHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCCCHHHHHHHHHHHHHH
Q 012810 221 KPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEVSNQMLEL 270 (456)
Q Consensus 221 ~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei~~~Il~l 270 (456)
.|-.||+|+||+++.+...+.+.. .--...||++..|+..+++|+..
T Consensus 241 sPiSIAAa~IYmisqls~~kkt~k---eI~~vtgVaE~TIr~sYK~Lyp~ 287 (308)
T KOG1597|consen 241 SPISIAAAAIYMISQLSDEKKTQK---EIGEVTGVAEVTIRNSYKDLYPH 287 (308)
T ss_pred CchhHHHHHHHHHHHhccCcccHH---HHHHHhhhhHHHHHHHHHHHhhc
Confidence 999999999999999998765542 23345589999999999887763
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=99.30 E-value=7.6e-12 Score=100.19 Aligned_cols=71 Identities=32% Similarity=0.424 Sum_probs=66.6
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHH
Q 012810 62 RKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVS 132 (456)
Q Consensus 62 R~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~ 132 (456)
|...++||.+++..++++..+..+|+.|++||+..+.+..++++++++||||||||+++.++.+++++.++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~ 72 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVT 72 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHh
Confidence 56789999999999999999999999999999999999999999999999999999999988899887654
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=99.17 E-value=5.7e-11 Score=94.23 Aligned_cols=83 Identities=25% Similarity=0.305 Sum_probs=70.3
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHHHHhhcCCCCCchh
Q 012810 67 TFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSYEIIHKKDKDPDSI 146 (456)
Q Consensus 67 ~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~i~~k~~~dP~~~ 146 (456)
+||.+++..++++..+..+|+.|++||+....+..+.++.+|+||||||||+++.++...++..++.. .
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~----~------- 69 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGY----F------- 69 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCC----C-------
Confidence 48999999999999999999999999999777778999999999999999999988888877654321 0
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHH
Q 012810 147 YRIKQKEVYEQQKELILLGERVVLA 171 (456)
Q Consensus 147 ~~i~~~e~y~~~ke~Il~~E~~IL~ 171 (456)
.+++|..+|+.||+
T Consensus 70 -----------~~~~i~~~~~~il~ 83 (83)
T smart00385 70 -----------TEEEILRMEKLLLE 83 (83)
T ss_pred -----------CHHHHHHHHHHHhC
Confidence 13468899988873
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=98.92 E-value=2.5e-09 Score=91.48 Aligned_cols=89 Identities=25% Similarity=0.293 Sum_probs=71.7
Q ss_pred CCcHHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchh----ccCC
Q 012810 180 LHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQ----EFDV 255 (456)
Q Consensus 180 ~~P~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~----~f~v 255 (456)
++|+.||..|++..+. ...+...++++++.++.+.-++.|+|+.||+|||++|...++.. ..|.. ..++
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 5899999999665444 34688999999999999999999999999999999999998742 24544 3399
Q ss_pred CHHHHHHHHHHHHHHHhhCC
Q 012810 256 TPRQLEEVSNQMLELYEQNR 275 (456)
Q Consensus 256 t~eeL~ei~~~Il~lY~~~~ 275 (456)
+.++|.+|+..|.+++....
T Consensus 74 ~~~~l~~c~~~i~~~~~~~~ 93 (118)
T PF02984_consen 74 DKEDLKECIELIQELLSKAS 93 (118)
T ss_dssp -HHHHHHHHHHHHHHHHHCC
T ss_pred CHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999998654
No 19
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=98.49 E-value=4.7e-07 Score=71.55 Aligned_cols=80 Identities=20% Similarity=0.220 Sum_probs=67.8
Q ss_pred HHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCC-CHHHHHHH
Q 012810 185 PLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDV-TPRQLEEV 263 (456)
Q Consensus 185 ~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~v-t~eeL~ei 263 (456)
||.+++..++++. .+...|+.+++..+...-++.++|+.||+||||+|++..+...+. ..+....++ +.++|.++
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 6888999999875 788999999999988777888999999999999999999986322 345666688 99999999
Q ss_pred HHHHH
Q 012810 264 SNQML 268 (456)
Q Consensus 264 ~~~Il 268 (456)
...|+
T Consensus 78 ~~~il 82 (83)
T smart00385 78 EKLLL 82 (83)
T ss_pred HHHHh
Confidence 98886
No 20
>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=98.37 E-value=1.4e-06 Score=69.36 Aligned_cols=63 Identities=21% Similarity=0.339 Sum_probs=56.5
Q ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHH
Q 012810 69 LQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIV 131 (456)
Q Consensus 69 I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v 131 (456)
|.++|..|+||..+..+|..++++.....-.....+..+++||||+||+.+..++++++|..+
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~ 63 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEA 63 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHH
Confidence 568999999999999999999999999988899999999999999999999999999999865
No 21
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=98.36 E-value=1.9e-06 Score=91.59 Aligned_cols=162 Identities=15% Similarity=0.159 Sum_probs=126.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHHHH
Q 012810 56 KRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSYEI 135 (456)
Q Consensus 56 e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~i 135 (456)
+...+.-..+-..|.+++..|+++. .+-+|..||.--..++-.+......|.++|+|++|..|.++.-+-|+..+.
T Consensus 61 e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~L--- 136 (521)
T KOG1598|consen 61 ESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYL--- 136 (521)
T ss_pred HHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccce---
Confidence 3333334445668999999999999 999999999999999988999999999999999999998875554444321
Q ss_pred hhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCc---cccCCcHHHHHHHHHHhhhc--hHHHHHHHHHHhhh
Q 012810 136 IHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFD---LNVLHPYKPLVEAIKKFKVA--QNALAQVAWNFVND 210 (456)
Q Consensus 136 ~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~Fd---L~V~~P~~~L~~~l~~l~~~--~~~I~q~A~~~lnD 210 (456)
+- .+| .+-.+=..|...|.-+ +....|.-|+.+|...|... .+++...|..+++-
T Consensus 137 -qv--------------~Vy-----~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~r 196 (521)
T KOG1598|consen 137 -QV--------------SVY-----DLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQR 196 (521)
T ss_pred -EE--------------ehh-----hhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHH
Confidence 00 111 1223334567777777 66778999999998776532 34688899999998
Q ss_pred hcccccccCcCHHHHHHHHHHHHHHHcCCCC
Q 012810 211 GLRTSLCLQFKPHHVAAGAIFLAAKFLKVKL 241 (456)
Q Consensus 211 sl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~l 241 (456)
..+..+.-.-.|+.|+-|||++|++.+|++.
T Consensus 197 Mkrdwm~tGRRPsglcGAaLliAar~h~~~r 227 (521)
T KOG1598|consen 197 MKRDWMQTGRRPSGLCGAALLIAARMHGFRR 227 (521)
T ss_pred HHHHHHHhCCCccchhHHHHHHHHHHcCccc
Confidence 8888888899999999999999999999863
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=98.35 E-value=1.8e-06 Score=68.83 Aligned_cols=86 Identities=21% Similarity=0.157 Sum_probs=70.8
Q ss_pred cCCcHHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCC-CH
Q 012810 179 VLHPYKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDV-TP 257 (456)
Q Consensus 179 V~~P~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~v-t~ 257 (456)
.++|..|+.+++..++.+. .+...|+.+++.++....+..+.|+.||+||||+|+++.+.... -..+....++ +.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~---~~~~~~~~~~~~~ 77 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP-ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPW---LKDLVHVTGYATE 77 (88)
T ss_pred cchHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCC---HHHHhHHhCCCCH
Confidence 4678999999999999876 68899999999999888888999999999999999999988321 1235555578 89
Q ss_pred HHHHHHHHHHH
Q 012810 258 RQLEEVSNQML 268 (456)
Q Consensus 258 eeL~ei~~~Il 268 (456)
++|..+...|+
T Consensus 78 ~~i~~~e~~il 88 (88)
T cd00043 78 EEILRMEKLLL 88 (88)
T ss_pred HHHHHHHHHhC
Confidence 99988877653
No 23
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.68 E-value=4.2e-05 Score=78.65 Aligned_cols=97 Identities=23% Similarity=0.396 Sum_probs=78.5
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCC-chhHHHHHHHHhhcCCCCCc
Q 012810 66 CTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRP-LKDVIIVSYEIIHKKDKDPD 144 (456)
Q Consensus 66 ~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rk-L~dvi~v~~~i~~k~~~dP~ 144 (456)
-.-|.+++...++...|+++|-+||-......-+.+.+..++|-|||+||+|+.+.... ++.+|.-
T Consensus 386 KREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek------------- 452 (497)
T KOG4164|consen 386 KREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEK------------- 452 (497)
T ss_pred HHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHH-------------
Confidence 34577888889999999999999999999999999999999999999999999964321 2322211
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccCC
Q 012810 145 SIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVLH 181 (456)
Q Consensus 145 ~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~~ 181 (456)
..+.|...|.+++..|+-||-+|.|-|.++-
T Consensus 453 ------~Ee~fR~nrrdLia~Ef~VlvaLefaL~~~~ 483 (497)
T KOG4164|consen 453 ------LEEQFRLNRRDLIAFEFPVLVALEFALHLPE 483 (497)
T ss_pred ------HHHHhcccHHhhhhhhhhHHHhhhhhccCCh
Confidence 1345666788899999999999999998653
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=97.58 E-value=0.00038 Score=63.47 Aligned_cols=90 Identities=18% Similarity=0.174 Sum_probs=61.8
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHhc---cC--CCCCcchHHHHHHHHHHhhcccC-CCCCchhHHHHHHHHhhc
Q 012810 65 YCTFLQDLGMKLKVPQITIATAIIFCHRFYL---RQ--SHTKNDRRTVATVCMFLAGKVEE-TPRPLKDVIIVSYEIIHK 138 (456)
Q Consensus 65 ~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~---~~--s~~~~d~~lVaaACLfLA~KvEE-~~rkL~dvi~v~~~i~~k 138 (456)
+.+|+.++.+..+++..++..|++|++|+.. .. .+.....+-+.++||.+|.|+-+ ....-+....++
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~------ 127 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVG------ 127 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHH------
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhc------
Confidence 5678999999999999999999999999998 22 24566788899999999999654 333222222211
Q ss_pred CCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCcc
Q 012810 139 KDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDL 177 (456)
Q Consensus 139 ~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL 177 (456)
++ ..+++-.||+.+|..|+|+|
T Consensus 128 ---------gi--------s~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 128 ---------GI--------SLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp ---------TS---------HHHHHHHHHHHHHHTTT--
T ss_pred ---------CC--------CHHHHHHHHHHHHHHCCCcC
Confidence 01 13468999999999999986
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=97.51 E-value=0.0003 Score=55.99 Aligned_cols=56 Identities=18% Similarity=0.233 Sum_probs=46.9
Q ss_pred HHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCC
Q 012810 186 LVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLP 242 (456)
Q Consensus 186 L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp 242 (456)
+.+|+..|+++. .+.+.|..++.......+.-.-.|..||+||||+|++..+.+.+
T Consensus 1 I~r~~~~L~L~~-~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t 56 (71)
T PF00382_consen 1 IPRICSKLGLPE-DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRT 56 (71)
T ss_dssp HHHHHHHTT--H-HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSS
T ss_pred ChHHHhHcCCCH-HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcC
Confidence 467899999986 78899999999988888888899999999999999999998754
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.39 E-value=0.00068 Score=69.10 Aligned_cols=67 Identities=12% Similarity=0.160 Sum_probs=61.8
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHH
Q 012810 66 CTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVS 132 (456)
Q Consensus 66 ~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~ 132 (456)
.+||.++|..|+|+..+.-+|..++++.....-.....+.-||+||||+||+....++++++|..++
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 5899999999999999999999999999877777889999999999999999999999999987654
No 27
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=95.53 E-value=0.034 Score=56.21 Aligned_cols=68 Identities=16% Similarity=0.167 Sum_probs=62.1
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHH
Q 012810 65 YCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVS 132 (456)
Q Consensus 65 ~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~ 132 (456)
-.+||..+|..|+|+.++...|+.+++............+.-+|+||+|+||+....++.-+++..++
T Consensus 194 p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~ 261 (285)
T COG1405 194 PSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVA 261 (285)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHh
Confidence 36799999999999999999999999999998888899999999999999999999887778777654
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=95.08 E-value=0.076 Score=45.82 Aligned_cols=86 Identities=17% Similarity=0.200 Sum_probs=60.8
Q ss_pred HHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchh--ccCCCHHHH
Q 012810 183 YKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQ--EFDVTPRQL 260 (456)
Q Consensus 183 ~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~--~f~vt~eeL 260 (456)
..|+...+..+++.. .+...|..+++..+....+....+..||+||+++|+++.....|.. ..|.. ...++.++|
T Consensus 35 ~~~i~~~~~~~~l~~-~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~--~~~~~~~~~~~~~~~i 111 (127)
T PF00134_consen 35 IDWIIELCQRLKLSP-ETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSI--SDLIRISDNTFTKKDI 111 (127)
T ss_dssp HHHHHHHHHHTT-BH-HHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HH--HHHHHHTTTSSHHHHH
T ss_pred HHHHHHHHHhcccch-hHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchH--HHHHHHHcCCCCHHHH
Confidence 345666667777765 5667888888877766667788899999999999999998754432 12322 225789999
Q ss_pred HHHHHHHHHHH
Q 012810 261 EEVSNQMLELY 271 (456)
Q Consensus 261 ~ei~~~Il~lY 271 (456)
.++-..|+...
T Consensus 112 ~~~E~~iL~~L 122 (127)
T PF00134_consen 112 LEMEREILSAL 122 (127)
T ss_dssp HHHHHHHHHHT
T ss_pred HHHHHHHHHHC
Confidence 99999988764
No 29
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=94.25 E-value=0.15 Score=51.33 Aligned_cols=68 Identities=10% Similarity=0.191 Sum_probs=61.4
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHH
Q 012810 65 YCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVS 132 (456)
Q Consensus 65 ~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~ 132 (456)
..+||.++|..|+||..+...|..+-.+.-...-.....+.-|++|++|+++-+++.++.+++|..++
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vt 270 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVT 270 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHh
Confidence 67899999999999999999999999998877777788999999999999999999888888887654
No 30
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=89.62 E-value=0.72 Score=47.20 Aligned_cols=56 Identities=16% Similarity=0.312 Sum_probs=43.8
Q ss_pred HHHHHHHHhh--hchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCC
Q 012810 185 PLVEAIKKFK--VAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKL 241 (456)
Q Consensus 185 ~L~~~l~~l~--~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~l 241 (456)
+|..++..++ ++. .+...|..++...+...-...|.|..||++|||||++.-...+
T Consensus 62 ~i~~~~~~lkp~Lpq-~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~ 119 (305)
T TIGR00569 62 RLLDFCSAFKPTMPT-SVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNV 119 (305)
T ss_pred HHHHHHHHhcCCCCc-hHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCc
Confidence 4555666677 665 5667788888887777777789999999999999999877654
No 31
>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=88.96 E-value=1.8 Score=39.05 Aligned_cols=67 Identities=15% Similarity=0.104 Sum_probs=51.1
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHhccC--CCCCcchHHHHHHHHHHhhcccCCCCCchhHHHH
Q 012810 65 YCTFLQDLGMKLKVPQITIATAIIFCHRFYLRQ--SHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIV 131 (456)
Q Consensus 65 ~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~--s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v 131 (456)
+..=|.++|.+|+++..+.......|...+..+ -+.+.++--+.+.|+|.-||+.....+.++|+..
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 455688999999999887777777777666433 4667788889999999999999988999999865
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=87.38 E-value=0.59 Score=39.40 Aligned_cols=55 Identities=16% Similarity=0.084 Sum_probs=44.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccC
Q 012810 66 CTFLQDLGMKLKVPQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEE 120 (456)
Q Consensus 66 ~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE 120 (456)
..||..+.+..+....+...|..++.-.+....+..+.+-.||+||+++|.++-.
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 4567776554555677888999999988888889999999999999999999854
No 33
>KOG1674 consensus Cyclin [General function prediction only]
Probab=86.78 E-value=2.3 Score=41.40 Aligned_cols=93 Identities=14% Similarity=0.086 Sum_probs=64.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCC---------CCCcc-hHHHHHHHHHHhhcccCCCCCchhHHHHHHHH
Q 012810 66 CTFLQDLGMKLKVPQITIATAIIFCHRFYLRQS---------HTKND-RRTVATVCMFLAGKVEETPRPLKDVIIVSYEI 135 (456)
Q Consensus 66 ~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s---------~~~~d-~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~i 135 (456)
-+++.++-+..+....++-+|.+||+||..... +.-.+ ..-..++|+-+|||+.+.-- .-+..+
T Consensus 79 ~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~----y~n~~~-- 152 (218)
T KOG1674|consen 79 RQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVY----YSNAYY-- 152 (218)
T ss_pred HHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchh----hhHHHH--
Confidence 457888888999999999999999999998622 11233 44478999999999985310 011111
Q ss_pred hhcCCCCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhcCCccccC
Q 012810 136 IHKKDKDPDSIYRIKQKEVYEQQKELILLGERVVLATLAFDLNVL 180 (456)
Q Consensus 136 ~~k~~~dP~~~~~i~~~e~y~~~ke~Il~~E~~IL~~L~FdL~V~ 180 (456)
.+-+.-| .+++-.+|..+|..++|.+.+.
T Consensus 153 -a~vggl~---------------~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 153 -AKVGGLT---------------TDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -HHhCCCC---------------hHhhhhhhHHHHhhCCeEEEec
Confidence 1111111 2345689999999999999986
No 34
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=84.05 E-value=1.6 Score=44.86 Aligned_cols=56 Identities=18% Similarity=0.300 Sum_probs=40.1
Q ss_pred HHHHHHHHhcCCCHHH--HHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCC
Q 012810 67 TFLQDLGMKLKVPQIT--IATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETP 122 (456)
Q Consensus 67 ~~I~~l~~~LkLp~~T--iatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~ 122 (456)
.+|.....-|++++.- +-.|-+|+.=-+-..-++.|.+..||+||+|||+..+|.|
T Consensus 143 klii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIp 200 (367)
T KOG0835|consen 143 KLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIP 200 (367)
T ss_pred HHHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCC
Confidence 3555555666776543 5566666655555555677899999999999999999965
No 35
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=83.12 E-value=2.1 Score=44.22 Aligned_cols=71 Identities=20% Similarity=0.175 Sum_probs=48.2
Q ss_pred HHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCC-cccchhccC
Q 012810 183 YKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDG-DRMWWQEFD 254 (456)
Q Consensus 183 ~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~-~~~W~~~f~ 254 (456)
..||.+...+|+..... ...|..++.-.+.-.-+-.|.|..||++|||||++.-+-..+..+ -..++..++
T Consensus 43 ~~fI~elg~~L~~~~~t-i~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEetp~kl~dIi~~s~~~~~ 114 (323)
T KOG0834|consen 43 AKFIQELGVRLKMPQKT-IATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEETPRKLEDIIKVSYRYLN 114 (323)
T ss_pred HHHHHHHHHHcCCCccc-hhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccCcccHHHHHHHHHHHcC
Confidence 45777777778776643 355666666666666667899999999999999998766433211 124555554
No 36
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=71.04 E-value=22 Score=36.97 Aligned_cols=82 Identities=17% Similarity=0.192 Sum_probs=58.9
Q ss_pred HHHHHHHHHHHhcCCcccc---CCc------HHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcC---HHHHHHH
Q 012810 161 LILLGERVVLATLAFDLNV---LHP------YKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFK---PHHVAAG 228 (456)
Q Consensus 161 ~Il~~E~~IL~~L~FdL~V---~~P------~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~---Ps~IAaA 228 (456)
.++..|..-...+++.+.+ .+| ..+|.+.++..+... .+.-+|.+++...+...-+.... -..||+|
T Consensus 51 ~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~-~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAva 129 (335)
T KOG0656|consen 51 NLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEP-LVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVA 129 (335)
T ss_pred HHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCch-HHHHHHHHHHHHhhcccccCCCchHHHHHHHHH
Confidence 4666677766666643433 233 467777777777665 56778999998877766677888 4568999
Q ss_pred HHHHHHHHcCCCCCC
Q 012810 229 AIFLAAKFLKVKLPS 243 (456)
Q Consensus 229 aIyLA~~~l~v~lp~ 243 (456)
|+.||+++-...+|.
T Consensus 130 CLsLAsKmeE~~vPl 144 (335)
T KOG0656|consen 130 CLSLASKMEETDVPL 144 (335)
T ss_pred HHHHHHhhcCcCCch
Confidence 999999998776553
No 37
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=69.89 E-value=4.8 Score=43.84 Aligned_cols=55 Identities=15% Similarity=0.142 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHHH
Q 012810 80 QITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSYE 134 (456)
Q Consensus 80 ~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~~ 134 (456)
..|+-+|..+..|----.-.....+--++-|||++||.+....+++.||+.+++-
T Consensus 184 ~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvhV 238 (521)
T KOG1598|consen 184 EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVHV 238 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccHHHHHHHHHH
Confidence 3488888888888655444566778889999999999999999999999988763
No 38
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=69.88 E-value=9.2 Score=37.76 Aligned_cols=86 Identities=16% Similarity=0.230 Sum_probs=52.8
Q ss_pred HHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCC-------------CCCCCcccchh
Q 012810 185 PLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVK-------------LPSDGDRMWWQ 251 (456)
Q Consensus 185 ~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~-------------lp~~~~~~W~~ 251 (456)
++..+-..+++-+ .+...|..++...+.-.-.-.+.|..+|.-|||||++.-..+ ++..-+ .|.+
T Consensus 47 ~I~~lg~~lklRQ-~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~-~~~e 124 (264)
T KOG0794|consen 47 VIQKLGQHLKLRQ-RVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFS-YWPE 124 (264)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcc-cchh
Confidence 3333444444433 444555555554443333456899999999999999976654 122112 5777
Q ss_pred ccCCCHHHHHHHHHHHHHHHh
Q 012810 252 EFDVTPRQLEEVSNQMLELYE 272 (456)
Q Consensus 252 ~f~vt~eeL~ei~~~Il~lY~ 272 (456)
.+.++...|.++--.+++..+
T Consensus 125 ~~~~~~~~I~e~Ef~llE~Ld 145 (264)
T KOG0794|consen 125 KFPYERKDILEMEFYLLEALD 145 (264)
T ss_pred hcCCCcCcchhhhhhHHhhhc
Confidence 777777777777766666554
No 39
>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=68.90 E-value=6.7 Score=39.98 Aligned_cols=87 Identities=15% Similarity=0.228 Sum_probs=53.7
Q ss_pred HHHHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcC--CCCCCC---CcccchhccCCCH
Q 012810 183 YKPLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLK--VKLPSD---GDRMWWQEFDVTP 257 (456)
Q Consensus 183 ~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~--v~lp~~---~~~~W~~~f~vt~ 257 (456)
+.++..++..|+++. .+...|..|+...+.-.-.-.+++..||.+|||||++.-. ..+... ....|-+..--++
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 LKLIMDLCTRLNLPQ-TVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEARDLWSEEPKSSR 127 (297)
T ss_pred HHHHHHHHHhcCCCc-chHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccchhhHHHHHhhccccccccccH
Confidence 356777788888776 4556666666655544446689999999999999999887 322211 0112333334455
Q ss_pred HHHHHHHHHHHHH
Q 012810 258 RQLEEVSNQMLEL 270 (456)
Q Consensus 258 eeL~ei~~~Il~l 270 (456)
+.|-++-.+|++.
T Consensus 128 ~~Il~~E~~lLEa 140 (297)
T COG5333 128 ERILEYEFELLEA 140 (297)
T ss_pred HHHHHHHHHHHHH
Confidence 5555555555553
No 40
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=68.21 E-value=15 Score=33.27 Aligned_cols=57 Identities=18% Similarity=0.242 Sum_probs=44.5
Q ss_pred HHHHHHHHHHhhhchHHHHHHHHHHhhhhc--ccccccCcCHHHHHHHHHHHHHHHcCCC
Q 012810 183 YKPLVEAIKKFKVAQNALAQVAWNFVNDGL--RTSLCLQFKPHHVAAGAIFLAAKFLKVK 240 (456)
Q Consensus 183 ~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl--~t~l~L~y~Ps~IAaAaIyLA~~~l~v~ 240 (456)
..-|..+|+.|++.. ++...+|.+++-++ .+.++..-.-.+|-++|||..+++.+.+
T Consensus 15 ~~Rl~~LC~~L~l~~-~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~ 73 (135)
T PF01857_consen 15 AVRLQDLCERLDLSS-DLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEE 73 (135)
T ss_dssp HHHHHHHHHHHTTST-THHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S
T ss_pred HHHHHHHHHHcCCcH-HHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCC
Confidence 344666788888775 57788999998887 5678778888999999999999998753
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=63.72 E-value=36 Score=30.84 Aligned_cols=87 Identities=18% Similarity=0.253 Sum_probs=55.5
Q ss_pred HHHHHHHHHHhhhchHHHHHHHHHHhhhhcc----ccc-ccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCCCH
Q 012810 183 YKPLVEAIKKFKVAQNALAQVAWNFVNDGLR----TSL-CLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTP 257 (456)
Q Consensus 183 ~~~L~~~l~~l~~~~~~I~q~A~~~lnDsl~----t~l-~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~ 257 (456)
.+|+.++++...+.. .+.-.|..++..... ... .-....+-+-++|+.+|.+++.=.--. .+.|-...|++.
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 344455555544333 122 225678899999999999998543222 357888889999
Q ss_pred HHHHHHHHHHHHHHh
Q 012810 258 RQLEEVSNQMLELYE 272 (456)
Q Consensus 258 eeL~ei~~~Il~lY~ 272 (456)
.+|..+-.++|.+..
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 999999999988653
No 42
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=58.21 E-value=12 Score=38.38 Aligned_cols=76 Identities=22% Similarity=0.323 Sum_probs=48.2
Q ss_pred HHHHHHHHHHhc--cCCCCCcchHHHHHHHHHHhhcccCCCCCchhHHHHHH-HHhhcCCCCCchhhhhhhhHHHHHHHH
Q 012810 84 ATAIIFCHRFYL--RQSHTKNDRRTVATVCMFLAGKVEETPRPLKDVIIVSY-EIIHKKDKDPDSIYRIKQKEVYEQQKE 160 (456)
Q Consensus 84 atAi~yf~RFy~--~~s~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v~~-~i~~k~~~dP~~~~~i~~~e~y~~~ke 160 (456)
-..++|+.|..- ......+.+..+....+++|+|+=... .+-++-| .++.. ..++
T Consensus 212 iitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dq----s~wnvdycqIlKd------------------~tve 269 (343)
T KOG1675|consen 212 IITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQ----SVWNVDYCEILKD------------------QSVD 269 (343)
T ss_pred hHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhh----hcccHHHHHHHhh------------------ccHh
Confidence 344567777643 333446677777777899999975421 0111211 22221 1356
Q ss_pred HHHHHHHHHHHhcCCccccCC
Q 012810 161 LILLGERVVLATLAFDLNVLH 181 (456)
Q Consensus 161 ~Il~~E~~IL~~L~FdL~V~~ 181 (456)
++-++||.+|+.|+|+++++.
T Consensus 270 DmNe~ERqfLelLqfNinvp~ 290 (343)
T KOG1675|consen 270 DMNALERQFLELLQFNINVPS 290 (343)
T ss_pred hHHHHHHHHHHHHhhccCccH
Confidence 788999999999999999876
No 43
>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=54.75 E-value=21 Score=36.57 Aligned_cols=54 Identities=24% Similarity=0.377 Sum_probs=41.1
Q ss_pred HHHHHHHHhhh--chHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCC
Q 012810 185 PLVEAIKKFKV--AQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKV 239 (456)
Q Consensus 185 ~L~~~l~~l~~--~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v 239 (456)
.+..|++++.- +. .|.-.|..|....+.......|.|..|-++|+|+|+++-..
T Consensus 62 ~l~~f~~k~~p~lp~-~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef 117 (325)
T KOG2496|consen 62 SLVNFYSKFKPNLPT-SVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEF 117 (325)
T ss_pred HHHHHHHHhcCCCch-HHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhh
Confidence 45566666542 22 56777888888888888888999999999999999997543
No 44
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=35.08 E-value=1e+02 Score=25.19 Aligned_cols=42 Identities=24% Similarity=0.361 Sum_probs=35.6
Q ss_pred CCccccHHHHhhhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhc
Q 012810 33 GRWYFSRKELEEDSPSRRDGIDLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYL 95 (456)
Q Consensus 33 ~~W~Ft~eel~~~sPSr~dGis~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~ 95 (456)
..|||+..++.. +..+.++...|++...-++.+..+++|...
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 579999999952 345888999999999999999999998753
No 45
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=32.13 E-value=1.3e+02 Score=31.85 Aligned_cols=95 Identities=21% Similarity=0.242 Sum_probs=52.9
Q ss_pred HHHHHHHHhhhchHHHHHHHHHHhhhhcccccccCcCHHHHHHHHHH-HHHHHcCCCCCCCCcccchhccCCCHHHHHHH
Q 012810 185 PLVEAIKKFKVAQNALAQVAWNFVNDGLRTSLCLQFKPHHVAAGAIF-LAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEV 263 (456)
Q Consensus 185 ~L~~~l~~l~~~~~~I~q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIy-LA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei 263 (456)
+|...-.++++.. +...+|.++++..+....+-.-.=..++++|++ +|+++-.+.+|.-.+-.--..-.++.++|..+
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 3344444455544 344566666633332212212223356777855 99999666566422111111224899999999
Q ss_pred HHHHHHHHhhCCCCCCC
Q 012810 264 SNQMLELYEQNRVQPSH 280 (456)
Q Consensus 264 ~~~Il~lY~~~~~~~s~ 280 (456)
...|+....-+..-|..
T Consensus 243 E~~il~~L~f~l~~p~~ 259 (391)
T KOG0653|consen 243 EKYILNVLEFDLSVPTP 259 (391)
T ss_pred HHHHHhccCeeecCCch
Confidence 99998877666555444
No 46
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair]
Probab=26.36 E-value=1.1e+02 Score=30.05 Aligned_cols=59 Identities=22% Similarity=0.222 Sum_probs=44.2
Q ss_pred cccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCCCHHHHHHHHHHHHHHHhhCCCC
Q 012810 216 LCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEVSNQMLELYEQNRVQ 277 (456)
Q Consensus 216 l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei~~~Il~lY~~~~~~ 277 (456)
.-+.|+-.+-++||+|+||+.++.++... ......|+.+.+..-++.++...|.+...-
T Consensus 129 ~~~D~SrP~ft~aA~~~ack~lKlKVdK~---kli~~sg~~~s~F~~l~kqler~~~qv~~e 187 (262)
T KOG4557|consen 129 ANADFSRPVFTAAAFYLACKKLKLKVDKL---KLIEVSGTSESEFSCLSKQLERNYKQVSTE 187 (262)
T ss_pred cCCcccchHHHHHHHHHHHHHHHHhhhHh---hcccccCCCHHHHHHHHHHHHHHHHHhcCC
Confidence 44566666789999999999998765321 122334889999999999999999876543
No 47
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=23.78 E-value=1e+02 Score=33.42 Aligned_cols=90 Identities=24% Similarity=0.189 Sum_probs=59.5
Q ss_pred HHHHHHhhhhcccccccCcCHHHHHHHHHHHHHHHcCCCCCCCCcccchhccCCCHHHHHHHHHHHHHHHhhCCCCCCCC
Q 012810 202 QVAWNFVNDGLRTSLCLQFKPHHVAAGAIFLAAKFLKVKLPSDGDRMWWQEFDVTPRQLEEVSNQMLELYEQNRVQPSHG 281 (456)
Q Consensus 202 q~A~~~lnDsl~t~l~L~y~Ps~IAaAaIyLA~~~l~v~lp~~~~~~W~~~f~vt~eeL~ei~~~Il~lY~~~~~~~s~~ 281 (456)
-+|-+|++-.+-...+..-.-..+++.|+++|+++-.+..|.-..-.--..-.++.+++...-..|++...-+-.-|..-
T Consensus 235 ~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~ 314 (440)
T COG5024 235 FLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPM 314 (440)
T ss_pred HHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChH
Confidence 45666776666556666666678999999999999888766521111111226899999999999999887765554443
Q ss_pred --ccccCCCCCC
Q 012810 282 --DVEGSTGSGG 291 (456)
Q Consensus 282 --~~e~s~~~~~ 291 (456)
...-|+++..
T Consensus 315 sFLRriSka~dy 326 (440)
T COG5024 315 SFLRRISKASDY 326 (440)
T ss_pred HHHHHHHhhccc
Confidence 3444444333
No 48
>PF07226 DUF1422: Protein of unknown function (DUF1422); InterPro: IPR009867 This family consists of several hypothetical bacterial proteins of around 120 residues in length. The function of this family is unknown.
Probab=23.74 E-value=1.2e+02 Score=26.96 Aligned_cols=37 Identities=24% Similarity=0.423 Sum_probs=28.9
Q ss_pred CHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHhh
Q 012810 79 PQITIATAIIFCHRFYLRQSHTKNDRRTVATVCMFLAG 116 (456)
Q Consensus 79 p~~TiatAi~yf~RFy~~~s~~~~d~~lVaaACLfLA~ 116 (456)
|--++..|++-+|.-|..+++.+ +.-.++++|+|+-.
T Consensus 40 PlIaLvLavy~LyQ~Yl~~~m~e-g~P~~a~acFflG~ 76 (117)
T PF07226_consen 40 PLIALVLAVYCLYQRYLNHPMPE-GTPKLALACFFLGL 76 (117)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCC-CChHHHHHHHHHHH
Confidence 55677788888888888887765 66678999999863
No 49
>KOG1010 consensus Rb (Retinoblastoma tumor suppressor)-related protein [Cell cycle control, cell division, chromosome partitioning]
Probab=21.05 E-value=2.3e+02 Score=33.11 Aligned_cols=66 Identities=9% Similarity=0.123 Sum_probs=51.1
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHhccCC--CCCcchHHHHHHHHHHhhcccCCCCCchhHHHH
Q 012810 66 CTFLQDLGMKLKVPQITIATAIIFCHRFYLRQS--HTKNDRRTVATVCMFLAGKVEETPRPLKDVIIV 131 (456)
Q Consensus 66 ~~~I~~l~~~LkLp~~TiatAi~yf~RFy~~~s--~~~~d~~lVaaACLfLA~KvEE~~rkL~dvi~v 131 (456)
.-=|.++|.+|.+.+++...--.+|+--+.... +++.++-=+.+.|+|+-+|+.+...+.++|+..
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 446789999999998877776677765554332 455666678999999999999999999988754
No 50
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=20.65 E-value=3e+02 Score=23.33 Aligned_cols=43 Identities=16% Similarity=0.142 Sum_probs=35.7
Q ss_pred CCCccccHHHHhhhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhc
Q 012810 32 GGRWYFSRKELEEDSPSRRDGIDLKRETYLRKSYCTFLQDLGMKLKVPQITIATAIIFCHRFYL 95 (456)
Q Consensus 32 ~~~W~Ft~eel~~~sPSr~dGis~e~E~~lR~~~~~~I~~l~~~LkLp~~TiatAi~yf~RFy~ 95 (456)
...|+|+..++. .+..+.+++..|++...-++.++.+++|...
T Consensus 40 ~~~~~F~~~~l~---------------------r~~~a~rL~~dl~in~~gialvl~LLd~i~~ 82 (101)
T PRK10265 40 ETTWVFDDHAAI---------------------VVQRAVRLRHELALDWPGIAVALTLLDEIAH 82 (101)
T ss_pred cccceECHHHHH---------------------HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 367999998885 2445778899999999999999999998764
Done!