Query 019257
Match_columns 343
No_of_seqs 181 out of 1174
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 07:59:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019257.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019257hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0834 CDK9 kinase-activating 100.0 1.3E-44 2.7E-49 350.6 16.9 189 145-339 8-199 (323)
2 KOG0794 CDK8 kinase-activating 100.0 1.1E-38 2.4E-43 292.7 8.9 195 128-339 3-198 (264)
3 TIGR00569 ccl1 cyclin ccl1. Un 100.0 3.2E-36 6.9E-41 291.2 16.1 176 147-339 8-210 (305)
4 KOG0835 Cyclin L [General func 100.0 1.8E-34 3.9E-39 275.9 14.2 181 158-338 5-186 (367)
5 COG5333 CCL1 Cdk activating ki 100.0 3.6E-30 7.9E-35 245.5 12.1 169 154-339 27-196 (297)
6 KOG2496 Cdk activating kinase 99.8 3.5E-20 7.5E-25 176.6 10.6 177 146-339 8-212 (325)
7 PRK00423 tfb transcription ini 99.7 1E-15 2.2E-20 148.8 16.2 138 169-329 116-253 (310)
8 PF00134 Cyclin_N: Cyclin, N-t 99.6 7.2E-16 1.6E-20 128.6 9.6 102 170-290 25-127 (127)
9 KOG0656 G1/S-specific cyclin D 99.6 2.7E-15 5.9E-20 146.5 12.9 147 159-323 59-214 (335)
10 cd00043 CYCLIN Cyclin box fold 99.4 2.1E-12 4.7E-17 98.8 8.4 87 176-282 2-88 (88)
11 KOG0653 Cyclin B and related k 99.3 1.6E-11 3.5E-16 123.1 9.5 117 174-309 156-274 (391)
12 smart00385 CYCLIN domain prese 99.2 4.6E-11 9.9E-16 90.6 7.1 83 181-283 1-83 (83)
13 COG1405 SUA7 Transcription ini 99.0 7E-09 1.5E-13 100.2 15.4 137 167-326 89-225 (285)
14 COG5024 Cyclin [Cell division 99.0 1.1E-09 2.5E-14 110.8 9.5 123 166-307 201-326 (440)
15 KOG0655 G1/S-specific cyclin E 99.0 8.3E-10 1.8E-14 107.2 7.3 118 171-307 140-259 (408)
16 KOG1597 Transcription initiati 98.9 1.9E-08 4.2E-13 96.5 14.0 122 177-320 105-228 (308)
17 PF00382 TFIIB: Transcription 98.6 1.4E-07 3.1E-12 72.3 7.2 65 183-247 1-65 (71)
18 KOG4164 Cyclin ik3-1/CABLES [C 98.0 7E-06 1.5E-10 81.7 5.8 95 181-292 387-482 (497)
19 PRK00423 tfb transcription ini 97.8 9E-05 2E-09 72.4 9.8 69 179-247 219-287 (310)
20 PF08613 Cyclin: Cyclin; Inte 97.4 0.0012 2.5E-08 57.9 9.5 90 179-289 54-149 (149)
21 KOG0654 G2/Mitotic-specific cy 96.8 0.0017 3.6E-08 64.9 5.3 115 174-307 135-250 (359)
22 COG1405 SUA7 Transcription ini 96.1 0.017 3.6E-07 56.2 7.1 69 179-247 194-262 (285)
23 KOG1597 Transcription initiati 95.5 0.046 1E-06 53.2 7.6 68 179-246 203-270 (308)
24 KOG1598 Transcription initiati 95.4 0.071 1.5E-06 55.5 9.0 123 179-323 70-197 (521)
25 PF01857 RB_B: Retinoblastoma- 92.2 0.76 1.6E-05 40.0 7.9 69 179-247 14-84 (135)
26 KOG0835 Cyclin L [General func 91.1 0.38 8.2E-06 47.7 5.3 58 181-238 143-202 (367)
27 PF02984 Cyclin_C: Cyclin, C-t 87.9 0.5 1.1E-05 38.1 3.0 55 180-234 4-58 (118)
28 KOG1598 Transcription initiati 77.9 2.6 5.5E-05 44.3 4.0 52 195-249 185-239 (521)
29 KOG0834 CDK9 kinase-activating 74.6 1.6 3.4E-05 43.4 1.4 58 181-238 153-214 (323)
30 KOG1674 Cyclin [General functi 68.8 17 0.00037 34.0 6.9 92 181-292 80-181 (218)
31 cd00043 CYCLIN Cyclin box fold 68.7 6.3 0.00014 29.1 3.3 45 291-336 2-46 (88)
32 TIGR00569 ccl1 cyclin ccl1. Un 68.7 12 0.00027 36.8 6.1 54 181-234 165-221 (305)
33 KOG0794 CDK8 kinase-activating 51.1 1E+02 0.0023 29.6 8.7 23 215-237 190-212 (264)
34 smart00385 CYCLIN domain prese 50.5 16 0.00035 26.6 2.8 38 297-335 2-39 (83)
35 KOG1010 Rb (Retinoblastoma tum 39.9 55 0.0012 36.7 5.7 69 179-247 680-750 (920)
36 PF02984 Cyclin_C: Cyclin, C-t 37.4 12 0.00026 29.9 0.2 46 292-338 1-46 (118)
37 KOG1675 Predicted cyclin [Gene 35.4 77 0.0017 31.7 5.4 102 182-304 196-299 (343)
38 PF13591 MerR_2: MerR HTH fami 31.8 1.3E+02 0.0028 23.7 5.3 45 143-208 29-73 (84)
39 KOG1103 Predicted coiled-coil 30.5 80 0.0017 32.1 4.7 45 73-117 373-418 (561)
40 KOG4557 Origin recognition com 29.0 95 0.0021 29.6 4.6 50 183-233 96-150 (262)
41 PF11357 Spy1: Cell cycle regu 20.1 4.1E+02 0.0089 23.2 6.6 49 189-240 24-73 (131)
No 1
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.3e-44 Score=350.62 Aligned_cols=189 Identities=37% Similarity=0.602 Sum_probs=178.9
Q ss_pred CCCCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHH
Q 019257 145 DDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATA 224 (343)
Q Consensus 145 ~~~~w~fS~eEl~~~tPS~~dGIs~e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaA 224 (343)
....|+||+||++++|||+.+|++.+.|...|..++.||+++|.+|++|+.+++||++||||||+.+|++++|++.||++
T Consensus 8 ~~~~w~~s~e~~~~~tpSr~~g~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~s 87 (323)
T KOG0834|consen 8 ETSRWYFSKEQLEENTPSRRDGIDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAAS 87 (323)
T ss_pred cccccccCHHHHccCChhhccCCchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHH
Confidence 35689999999988999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHH
Q 019257 225 ALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNK 304 (343)
Q Consensus 225 CLFLA~KvEE~prkLrdVI~v~~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~ 304 (343)
|||||||+||+|++++|||.++++.+++.+ ....+.||+.++.|+.+|.+||++|+|||.|+|||+||++++++
T Consensus 88 clfLAgKvEetp~kl~dIi~~s~~~~~~~~------~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~ 161 (323)
T KOG0834|consen 88 CLFLAGKVEETPRKLEDIIKVSYRYLNPKD------LELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKK 161 (323)
T ss_pred HHHHHhhcccCcccHHHHHHHHHHHcCccc------ccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHH
Confidence 999999999999999999999999887654 13456799999999999999999999999999999999999999
Q ss_pred hCCChH---HHHHHHHHHHHHHHhccccccccCcceee
Q 019257 305 LGLSQT---VLVNLALNLVSEGYQFGLDNFLFGWSISI 339 (343)
Q Consensus 305 L~l~k~---~L~q~Aw~~lNDslrT~LcL~~~~~~i~~ 339 (343)
++..+. .+++.||+++||+++|++||-|.+++|+|
T Consensus 162 l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAv 199 (323)
T KOG0834|consen 162 LKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAV 199 (323)
T ss_pred hhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEe
Confidence 988764 59999999999999999999999999997
No 2
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=100.00 E-value=1.1e-38 Score=292.66 Aligned_cols=195 Identities=26% Similarity=0.394 Sum_probs=172.3
Q ss_pred ccccccccccccCCCCCCCCCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHH
Q 019257 128 IEVSTSMSCKRDRSKLEDDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRF 207 (343)
Q Consensus 128 ~~~~~s~~~~~~~~~~~~~~~w~fS~eEl~~~tPS~~dGIs~e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRF 207 (343)
++.|+|+||++ |+|+++||.+..|.+..|++.++-..++....++|+.+|++|+|.|+|+|||++||+||
T Consensus 3 ~NFW~SSh~~q----------wl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRf 72 (264)
T KOG0794|consen 3 GNFWTSSHYQQ----------WLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRF 72 (264)
T ss_pred cchhhhhhhhh----------HhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67899999964 99999999998898999999999999999999999999999999999999999999999
Q ss_pred hccCCCCccchHHHHHHHHHHhhccCCCC-CChHHHHHHHHHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcC
Q 019257 208 FVRRSHACHDRFIIATAALFLAAKSEETP-RPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLN 286 (343)
Q Consensus 208 y~r~Sl~~~d~~lVAaACLFLA~KvEE~p-rkLrdVI~v~~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~ 286 (343)
|.++|+++++++++|+||||||||+||++ ..++.++..+..+..+-+ +. .+.+.-..+.|+++|+.||+.|+
T Consensus 73 y~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~-----~~--~e~~~~~~~~I~e~Ef~llE~Ld 145 (264)
T KOG0794|consen 73 YLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFS-----YW--PEKFPYERKDILEMEFYLLEALD 145 (264)
T ss_pred HHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcc-----cc--hhhcCCCcCcchhhhhhHHhhhc
Confidence 99999999999999999999999999998 667777776665532211 11 11111135789999999999999
Q ss_pred cccccCCchHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccccccccCcceee
Q 019257 287 FELNVQHPYDPLTSILNKLGLSQTVLVNLALNLVSEGYQFGLDNFLFGWSISI 339 (343)
Q Consensus 287 FdL~V~hP~~~L~~~l~~L~l~k~~L~q~Aw~~lNDslrT~LcL~~~~~~i~~ 339 (343)
+.|.|+|||+.|.+++++.|+....+.+.+|.++||+|++++||.+|||.|++
T Consensus 146 ~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~Ial 198 (264)
T KOG0794|consen 146 CYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIAL 198 (264)
T ss_pred eeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcchhhcceeeecCHHHHHH
Confidence 99999999999999999999966569999999999999999999999999975
No 3
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=3.2e-36 Score=291.21 Aligned_cols=176 Identities=20% Similarity=0.264 Sum_probs=153.8
Q ss_pred CCcccc-HHHHHHhCC------------------CccCCCCHHHHHHHHHHHHHHHHHHHHHcC--CChhHHHHHHHHHH
Q 019257 147 EPVFMS-RDEIERFSP------------------SRKDGIDALRETHLRYSYCAFIQNLGLRLE--LPQTTIGTAMVLCH 205 (343)
Q Consensus 147 ~~w~fS-~eEl~~~tP------------------S~~dGIs~e~E~~lR~~~~~~I~~lg~~Lk--Lpq~tiaTA~vyfh 205 (343)
..|.|| ++||.+.-. ....+|++++|..+|..+|.+|+++|.+|+ ||+.|++||++|||
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 459999 887753211 235689999999999999999999999999 99999999999999
Q ss_pred HHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHc
Q 019257 206 RFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTL 285 (343)
Q Consensus 206 RFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL 285 (343)
|||+++|+.++++.+||+||||||||+||+++++++++..... ....+++.|+++|+.||++|
T Consensus 88 RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~-----------------~~~~~~~~Il~~E~~lL~~L 150 (305)
T TIGR00569 88 RFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKE-----------------TPLKALEQVLEYELLLIQQL 150 (305)
T ss_pred HHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccC-----------------CchhhHHHHHHHHHHHHHHC
Confidence 9999999999999999999999999999999999988864311 01146789999999999999
Q ss_pred CcccccCCchHHHHHHHHHhCC------ChHHHHHHHHHHHHHHHhccccccccCcceee
Q 019257 286 NFELNVQHPYDPLTSILNKLGL------SQTVLVNLALNLVSEGYQFGLDNFLFGWSISI 339 (343)
Q Consensus 286 ~FdL~V~hP~~~L~~~l~~L~l------~k~~L~q~Aw~~lNDslrT~LcL~~~~~~i~~ 339 (343)
+|+|.|+|||++|..|+.+++. ..+.+.+.||.++||+++|++||.|+|..|++
T Consensus 151 ~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAl 210 (305)
T TIGR00569 151 NFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIAL 210 (305)
T ss_pred CCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHH
Confidence 9999999999999999976641 22458999999999999999999999999975
No 4
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=100.00 E-value=1.8e-34 Score=275.87 Aligned_cols=181 Identities=30% Similarity=0.425 Sum_probs=162.2
Q ss_pred HhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCC
Q 019257 158 RFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPR 237 (343)
Q Consensus 158 ~~tPS~~dGIs~e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~pr 237 (343)
..||+..||++.+.|..+|.-||.|||+.|.+|+|||.+++|++++|+|||..+|+..+|...|++|||.||+|+||.|+
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 37899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHHHHHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCCChH-HHHHHH
Q 019257 238 PLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQT-VLVNLA 316 (343)
Q Consensus 238 kLrdVI~v~~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l~k~-~L~q~A 316 (343)
++++||+|++.+-+.......+...-...|...+..++.+|..||++|||+++|+|||+++..||+.|++++. .|.|.+
T Consensus 85 r~rdVinVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~ 164 (367)
T KOG0835|consen 85 RIRDVINVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAA 164 (367)
T ss_pred cHhHHHHHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHH
Confidence 9999999999876543321111111123455678899999999999999999999999999999999999875 389999
Q ss_pred HHHHHHHHhccccccccCccee
Q 019257 317 LNLVSEGYQFGLDNFLFGWSIS 338 (343)
Q Consensus 317 w~~lNDslrT~LcL~~~~~~i~ 338 (343)
|+|+||+++|++|+.|.+-+|+
T Consensus 165 wNfmNDslRT~v~vry~pe~iA 186 (367)
T KOG0835|consen 165 WNFMNDSLRTDVFVRYSPESIA 186 (367)
T ss_pred HHhhhhccccceeeecCHHHHH
Confidence 9999999999999999998875
No 5
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.96 E-value=3.6e-30 Score=245.51 Aligned_cols=169 Identities=27% Similarity=0.432 Sum_probs=145.7
Q ss_pred HHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccC
Q 019257 154 DEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSE 233 (343)
Q Consensus 154 eEl~~~tPS~~dGIs~e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvE 233 (343)
.++....| . ++.+.|..+|.+++.+|+++|.+|+||+.+.+||+.||+||+.+.++++++++.|++||||||||+|
T Consensus 27 ~~l~~~~p---~-l~~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~e 102 (297)
T COG5333 27 LDLLVLEP---E-LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVE 102 (297)
T ss_pred hhHhcCCc---c-cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecc
Confidence 44545556 2 8889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCChHHHHHHHHHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCCChH-HH
Q 019257 234 ETPRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQT-VL 312 (343)
Q Consensus 234 E~prkLrdVI~v~~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l~k~-~L 312 (343)
|+++-+.-.....+.+ -.+..+.+|++|+++|+.||++|+|||.|+|||.++..+++++..... ++
T Consensus 103 d~~~~I~i~~~~~~~~-------------~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~ 169 (297)
T COG5333 103 DTPRDISIESFEARDL-------------WSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKL 169 (297)
T ss_pred cccchhhHHHHHhhcc-------------ccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHH
Confidence 9965554333222211 112345689999999999999999999999999999999999866443 58
Q ss_pred HHHHHHHHHHHHhccccccccCcceee
Q 019257 313 VNLALNLVSEGYQFGLDNFLFGWSISI 339 (343)
Q Consensus 313 ~q~Aw~~lNDslrT~LcL~~~~~~i~~ 339 (343)
.+.||+++||+++|.+|++++|++|++
T Consensus 170 ~~~aw~~inDa~~t~~~llypphiIA~ 196 (297)
T COG5333 170 LQIAWKIINDALRTDLCLLYPPHIIAL 196 (297)
T ss_pred HHHHHHHHHhhhhceeeeecChHHHHH
Confidence 999999999999999999999999975
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=99.82 E-value=3.5e-20 Score=176.61 Aligned_cols=177 Identities=19% Similarity=0.232 Sum_probs=134.2
Q ss_pred CCCccccHHHHHHh------------------CCCccCCCCHHHHHHHHHHHHHHHHHHHHHc--CCChhHHHHHHHHHH
Q 019257 146 DEPVFMSRDEIERF------------------SPSRKDGIDALRETHLRYSYCAFIQNLGLRL--ELPQTTIGTAMVLCH 205 (343)
Q Consensus 146 ~~~w~fS~eEl~~~------------------tPS~~dGIs~e~E~~lR~~~~~~I~~lg~~L--kLpq~tiaTA~vyfh 205 (343)
-..|.||+++|.+. .+...--+++++|..+-.....-+.+.+..+ .||..|++||+.||.
T Consensus 8 ~r~W~fte~qL~e~r~~~N~k~i~~~ee~~~~~~~~e~~v~~~ee~tl~k~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFk 87 (325)
T KOG2496|consen 8 YRKWIFTEEQLAERRVDANQKAIQMLEEEAHNLDENEVFVLEAEELTLTKEEELSLVNFYSKFKPNLPTSVVSTAIEFFK 87 (325)
T ss_pred hhcccccHHHHHHHHHHHHHHHHHHHHHhccCCCccchhccccccccccHHHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Confidence 34699999888542 0111112333344444333333444444444 589999999999999
Q ss_pred HHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHc
Q 019257 206 RFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTL 285 (343)
Q Consensus 206 RFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL 285 (343)
|||...|.+++++..|++||+|||||+||...++.++++-+. . .-|+..+.|+.+|+.+|+.|
T Consensus 88 RffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~---~--------------~~~k~~e~vLk~E~~llqsL 150 (325)
T KOG2496|consen 88 RFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMN---G--------------RKWKTHEIVLKYEFLLLQSL 150 (325)
T ss_pred HHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhcc---C--------------cccccHHHHHhchHHHHHhh
Confidence 999999999999999999999999999999999999997543 0 11245789999999999999
Q ss_pred CcccccCCchHHHHHHHHHhCC------ChHHHHHHHH--HHHHHHHhccccccccCcceee
Q 019257 286 NFELNVQHPYDPLTSILNKLGL------SQTVLVNLAL--NLVSEGYQFGLDNFLFGWSISI 339 (343)
Q Consensus 286 ~FdL~V~hP~~~L~~~l~~L~l------~k~~L~q~Aw--~~lNDslrT~LcL~~~~~~i~~ 339 (343)
.|+|.|++||+.|..|+-+++- ..+.+.+..- .+++.++.|+.|++++|--|+.
T Consensus 151 ~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIAL 212 (325)
T KOG2496|consen 151 KFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIAL 212 (325)
T ss_pred hhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHH
Confidence 9999999999999999877642 1222344444 8999999999999999988875
No 7
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.68 E-value=1e-15 Score=148.77 Aligned_cols=138 Identities=21% Similarity=0.299 Sum_probs=124.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHH
Q 019257 169 ALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSE 248 (343)
Q Consensus 169 ~e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~ 248 (343)
...|+.+. .+...|.++|..|+||+.++.+|..+|++++..+.+++.+...+++||||+|||.|+.|+++++|+.++..
T Consensus 116 ~~~er~l~-~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~v 194 (310)
T PRK00423 116 NAAERNLA-FALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSRV 194 (310)
T ss_pred ChHhHHHH-HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCC
Confidence 35677774 48899999999999999999999999999999999999999999999999999999999999999876431
Q ss_pred HhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccc
Q 019257 249 LYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQTVLVNLALNLVSEGYQFGL 328 (343)
Q Consensus 249 l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l~k~~L~q~Aw~~lNDslrT~L 328 (343)
.+++|-..++.|++.|++++.+.+|+.|+.+|+..|+++.. +.+.|+.+++++..+.+
T Consensus 195 ---------------------~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~~-v~~~A~~i~~~a~~~~l 252 (310)
T PRK00423 195 ---------------------SRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGE-VQKKAIEILQKAKEKGL 252 (310)
T ss_pred ---------------------CHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHH-HHHHHHHHHHHHHhcCc
Confidence 25678889999999999999999999999999999999986 89999999999987655
Q ss_pred c
Q 019257 329 D 329 (343)
Q Consensus 329 c 329 (343)
+
T Consensus 253 ~ 253 (310)
T PRK00423 253 T 253 (310)
T ss_pred c
Confidence 4
No 8
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.64 E-value=7.2e-16 Score=128.56 Aligned_cols=102 Identities=35% Similarity=0.517 Sum_probs=83.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCC-CCChHHHHHHHHH
Q 019257 170 LRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEET-PRPLNDVLRASSE 248 (343)
Q Consensus 170 e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~-prkLrdVI~v~~~ 248 (343)
+.....|...++||.+++..++++..|+.+|+.||+||+...++...+..++++||++||||.||. +.++.+++..+..
T Consensus 25 ~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~ 104 (127)
T PF00134_consen 25 EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISDN 104 (127)
T ss_dssp SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTT
T ss_pred hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHcC
Confidence 445588999999999999999999999999999999999999999999999999999999999998 6667777765411
Q ss_pred HhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccc
Q 019257 249 LYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELN 290 (343)
Q Consensus 249 l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~ 290 (343)
.| .+++|+++|+.||++|+|+++
T Consensus 105 -----------------~~--~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 105 -----------------TF--TKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp -----------------SS--HHHHHHHHHHHHHHHTTT---
T ss_pred -----------------CC--CHHHHHHHHHHHHHHCCCCcC
Confidence 11 378899999999999999984
No 9
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.63 E-value=2.7e-15 Score=146.52 Aligned_cols=147 Identities=20% Similarity=0.217 Sum_probs=115.9
Q ss_pred hCCCc--cCCCCHHHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccc---hHHHHHHHHHHhhccC
Q 019257 159 FSPSR--KDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHD---RFIIATAALFLAAKSE 233 (343)
Q Consensus 159 ~tPS~--~dGIs~e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d---~~lVAaACLFLA~KvE 233 (343)
..|+. ..+++...--..|.++++||.++|...++...|...|+.||.||..-+.+.+.+ .+++|+|||+||+|+|
T Consensus 59 ~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKme 138 (335)
T KOG0656|consen 59 HNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKME 138 (335)
T ss_pred hCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhc
Confidence 45554 344444444466999999999999999999999999999999999999999998 8999999999999999
Q ss_pred CCCCChH-HHHHHHHHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCCCh---
Q 019257 234 ETPRPLN-DVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQ--- 309 (343)
Q Consensus 234 E~prkLr-dVI~v~~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l~k--- 309 (343)
|+.+++- |+... + +... -..+.|.+||.+||.+|+|++...+|+.|+..|+.+++...
T Consensus 139 E~~vPll~dl~v~-~---------------~~~~--feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~ 200 (335)
T KOG0656|consen 139 ETDVPLLADLQVE-Y---------------TDNV--FEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNK 200 (335)
T ss_pred CcCCchhhhhhhc-c---------------cccc--ccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchH
Confidence 9964442 21110 0 0111 14688999999999999999999999999999999998743
Q ss_pred HHHHHHHHHHHHHH
Q 019257 310 TVLVNLALNLVSEG 323 (343)
Q Consensus 310 ~~L~q~Aw~~lNDs 323 (343)
..+...|..++-..
T Consensus 201 ~~~~~~~s~~ll~~ 214 (335)
T KOG0656|consen 201 HLFLKHASLFLLSV 214 (335)
T ss_pred HHHHHHHHHHHHHH
Confidence 23666666666543
No 10
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=99.37 E-value=2.1e-12 Score=98.79 Aligned_cols=87 Identities=30% Similarity=0.418 Sum_probs=76.4
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhch
Q 019257 176 RYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNI 255 (343)
Q Consensus 176 R~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l~~k~~~ 255 (343)
|...+.||.+++..++++..+..+|+.+++||+..+.+.++++..||+||||||||.+|.+..+++++..+...
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~------ 75 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGYA------ 75 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCCC------
Confidence 45688999999999999999999999999999999999999999999999999999999999999988764310
Q ss_pred hhhcccCChhHHHHhHHHHHHHHHHHH
Q 019257 256 TLLSYLLPIDWFEQYRERVIEAEQMIL 282 (343)
Q Consensus 256 ~~~~~~~p~~~ye~~re~Il~~E~~IL 282 (343)
..++|..+|..||
T Consensus 76 --------------~~~~i~~~e~~il 88 (88)
T cd00043 76 --------------TEEEILRMEKLLL 88 (88)
T ss_pred --------------CHHHHHHHHHHhC
Confidence 3567888887764
No 11
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.26 E-value=1.6e-11 Score=123.07 Aligned_cols=117 Identities=23% Similarity=0.367 Sum_probs=100.3
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHH-HhhccCCCCCC-hHHHHHHHHHHhh
Q 019257 174 HLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALF-LAAKSEETPRP-LNDVLRASSELYH 251 (343)
Q Consensus 174 ~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLF-LA~KvEE~prk-LrdVI~v~~~l~~ 251 (343)
..|..-++||.++...++|..+|+..|+.++.||.....+...+.++|+++||| ||||-||...+ ++|++...
T Consensus 156 ~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~is----- 230 (391)
T KOG0653|consen 156 KMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLIT----- 230 (391)
T ss_pred HHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeee-----
Confidence 678889999999999999999999999999999999988878889999999977 99999996555 44444321
Q ss_pred hhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCCCh
Q 019257 252 KQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQ 309 (343)
Q Consensus 252 k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l~k 309 (343)
++.| .+++|+.||..||.+|+|++.+.+|+.||.++.+..+.+.
T Consensus 231 ------------d~~~--s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d~ 274 (391)
T KOG0653|consen 231 ------------DGAY--SREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYDI 274 (391)
T ss_pred ------------CCcc--chHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcch
Confidence 2223 5789999999999999999999999999999999887543
No 12
>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=99.20 E-value=4.6e-11 Score=90.58 Aligned_cols=83 Identities=28% Similarity=0.385 Sum_probs=70.9
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcc
Q 019257 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSY 260 (343)
Q Consensus 181 ~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l~~k~~~~~~~~ 260 (343)
+||.+++..++++..+..+|..+++||+....+.++++..||+||||+|||.+|.++..+++...+..
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~------------ 68 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGY------------ 68 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCC------------
Confidence 48999999999999999999999999999777778999999999999999999998888777654321
Q ss_pred cCChhHHHHhHHHHHHHHHHHHH
Q 019257 261 LLPIDWFEQYRERVIEAEQMILT 283 (343)
Q Consensus 261 ~~p~~~ye~~re~Il~~E~~IL~ 283 (343)
...++|..+|+.||+
T Consensus 69 --------~~~~~i~~~~~~il~ 83 (83)
T smart00385 69 --------FTEEEILRMEKLLLE 83 (83)
T ss_pred --------CCHHHHHHHHHHHhC
Confidence 035678899988873
No 13
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.02 E-value=7e-09 Score=100.20 Aligned_cols=137 Identities=18% Similarity=0.278 Sum_probs=120.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHH
Q 019257 167 IDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (343)
Q Consensus 167 Is~e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~ 246 (343)
++...|+.+.. +...|..++..|+||..+..+|+.+|.+.+....+++.+...+++||+|.||+.+..|+++++|..+.
T Consensus 89 v~~~~ernl~~-a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~ 167 (285)
T COG1405 89 VSSAKERNLIT-ALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKAL 167 (285)
T ss_pred cccchhhHHHH-HHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHH
Confidence 44446666555 88999999999999999999999999999999999999999999999999999999999999999874
Q ss_pred HHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCCChHHHHHHHHHHHHHHHhc
Q 019257 247 SELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQTVLVNLALNLVSEGYQF 326 (343)
Q Consensus 247 ~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l~k~~L~q~Aw~~lNDslrT 326 (343)
.. .+++|..+.+++.+.|+-.+....|..|+.+|+.+|+++.+ +...|..++..+.+-
T Consensus 168 ~V---------------------~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~-v~~~a~ei~~~~~~~ 225 (285)
T COG1405 168 GV---------------------SKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDE-VRRKAIEIVKKAKRA 225 (285)
T ss_pred CC---------------------CHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHH-HHHHHHHHHHHHHHh
Confidence 31 24778888999999999999999999999999999999965 788888888876543
No 14
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.01 E-value=1.1e-09 Score=110.81 Aligned_cols=123 Identities=23% Similarity=0.322 Sum_probs=101.1
Q ss_pred CCCHHHHH--HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCC-hHHH
Q 019257 166 GIDALRET--HLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP-LNDV 242 (343)
Q Consensus 166 GIs~e~E~--~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prk-LrdV 242 (343)
+|....|. .+|...++||.++...++|-+.|+..|+.++.||...+...--..++|+++|||+|||.||..++ ++++
T Consensus 201 yl~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l 280 (440)
T COG5024 201 YLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDL 280 (440)
T ss_pred HHhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHH
Confidence 35555554 56777899999999999999999999999999999988777667899999999999999997554 4444
Q ss_pred HHHHHHHhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCC
Q 019257 243 LRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGL 307 (343)
Q Consensus 243 I~v~~~l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l 307 (343)
+-++.. .| .++.|+.+|+.+|.+|+|++..+.|+.||.++-+.-+.
T Consensus 281 ~~~t~g-----------------~~--t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dy 326 (440)
T COG5024 281 VYATDG-----------------AF--TRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDY 326 (440)
T ss_pred HHHHcc-----------------cc--cHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhccc
Confidence 443221 11 47899999999999999999999999998887666544
No 15
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=98.99 E-value=8.3e-10 Score=107.16 Aligned_cols=118 Identities=20% Similarity=0.211 Sum_probs=95.8
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhcc-CCCCccchHHHHHHHHHHhhccCCC-CCChHHHHHHHHH
Q 019257 171 RETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVR-RSHACHDRFIIATAALFLAAKSEET-PRPLNDVLRASSE 248 (343)
Q Consensus 171 ~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r-~Sl~~~d~~lVAaACLFLA~KvEE~-prkLrdVI~v~~~ 248 (343)
.+..+|....+|+.++|...+|-.+|...|+-||.||... +...+-..++|++||||+|+|.||. |.|+-++.-+.
T Consensus 140 lqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvT-- 217 (408)
T KOG0655|consen 140 LQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVT-- 217 (408)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCccccceeeec--
Confidence 4557788899999999999999999999999999999865 4455677899999999999999996 55654443321
Q ss_pred HhhhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCC
Q 019257 249 LYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGL 307 (343)
Q Consensus 249 l~~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l 307 (343)
.+ .. ..++|+.||..||++|+|+|...+--..|.-|++-.+.
T Consensus 218 --------------Dg-Ac--s~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~ 259 (408)
T KOG0655|consen 218 --------------DG-AC--SEDDILTMELIILKALKWELSPITIISWLNVYLQVDAL 259 (408)
T ss_pred --------------cC-cc--chHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhc
Confidence 11 11 35789999999999999999988888888888877654
No 16
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.93 E-value=1.9e-08 Score=96.47 Aligned_cols=122 Identities=17% Similarity=0.224 Sum_probs=99.3
Q ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchh
Q 019257 177 YSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNIT 256 (343)
Q Consensus 177 ~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l~~k~~~~ 256 (343)
..+...|..++++++||..+..+|..+|+++...+.+++.+...+++||||+||+-++.||.+++|..+++ +
T Consensus 105 ~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~an-v------- 176 (308)
T KOG1597|consen 105 KAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVAN-V------- 176 (308)
T ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHc-C-------
Confidence 34788999999999999999999999999999999999999999999999999999999999999998876 2
Q ss_pred hhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccC--CchHHHHHHHHHhCCChHHHHHHHHHHH
Q 019257 257 LLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQ--HPYDPLTSILNKLGLSQTVLVNLALNLV 320 (343)
Q Consensus 257 ~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~--hP~~~L~~~l~~L~l~k~~L~q~Aw~~l 320 (343)
.+++|-++=..|++.|+-....- +--.|+.+||..|+++++ +...|..+.
T Consensus 177 -------------~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~-~q~aA~e~a 228 (308)
T KOG1597|consen 177 -------------SKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKS-AQEAATEIA 228 (308)
T ss_pred -------------CHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHH-HHHHHHHHH
Confidence 13344445566667666655433 478899999999999985 334444333
No 17
>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=98.61 E-value=1.4e-07 Score=72.34 Aligned_cols=65 Identities=23% Similarity=0.308 Sum_probs=57.9
Q ss_pred HHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHH
Q 019257 183 IQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (343)
Q Consensus 183 I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~ 247 (343)
|.++|..|+||..+..+|..++++-...+-..+..+..+++||||+||+.++.++++++|..++.
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~~ 65 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAAG 65 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHCT
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhC
Confidence 67899999999999999999999999988888999999999999999999999999999988653
No 18
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.03 E-value=7e-06 Score=81.70 Aligned_cols=95 Identities=22% Similarity=0.327 Sum_probs=77.9
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCC-hHHHHHHHHHHhhhhchhhhc
Q 019257 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP-LNDVLRASSELYHKQNITLLS 259 (343)
Q Consensus 181 ~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prk-LrdVI~v~~~l~~k~~~~~~~ 259 (343)
..|.+++.--++...|+|+|.|||-+.-++.-+.+-++.++|-|||+||+|+.+..+. ++.+|...
T Consensus 387 REMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~------------- 453 (497)
T KOG4164|consen 387 REMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKL------------- 453 (497)
T ss_pred HHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHH-------------
Confidence 3688888888999999999999999999999999999999999999999999965422 33444322
Q ss_pred ccCChhHHHHhHHHHHHHHHHHHHHcCcccccC
Q 019257 260 YLLPIDWFEQYRERVIEAEQMILTTLNFELNVQ 292 (343)
Q Consensus 260 ~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~ 292 (343)
++.|...|.+++..|+-||-+|.|-|.+.
T Consensus 454 ----Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 454 ----EEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred ----HHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 23455578999999999999999998754
No 19
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.84 E-value=9e-05 Score=72.42 Aligned_cols=69 Identities=13% Similarity=0.132 Sum_probs=62.7
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHH
Q 019257 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (343)
Q Consensus 179 ~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~ 247 (343)
...||..+|..|+||..+.-+|..++.+.....-..+..|..||+||||+||+..+.++++++|..++.
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~~ 287 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVAG 287 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC
Confidence 358999999999999999999999999988766678899999999999999999999999999987653
No 20
>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=97.40 E-value=0.0012 Score=57.89 Aligned_cols=90 Identities=14% Similarity=0.129 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHhc---c--CCCCccchHHHHHHHHHHhhccCC-CCCChHHHHHHHHHHhhh
Q 019257 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFV---R--RSHACHDRFIIATAALFLAAKSEE-TPRPLNDVLRASSELYHK 252 (343)
Q Consensus 179 ~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~---r--~Sl~~~d~~lVAaACLFLA~KvEE-~prkLrdVI~v~~~l~~k 252 (343)
...||.++....+++..++..|.+|+.|+.. . ..+.....+-+-++||.||.|.-+ ...+-+...+++.
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~g----- 128 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG----- 128 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT-----
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcC-----
Confidence 4468888999999999999999999999998 2 224556678889999999999654 4333333222211
Q ss_pred hchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCccc
Q 019257 253 QNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFEL 289 (343)
Q Consensus 253 ~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL 289 (343)
-..+++-.+|+..|..|+|+|
T Consensus 129 ----------------is~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 129 ----------------ISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp ----------------S-HHHHHHHHHHHHHHTTT--
T ss_pred ----------------CCHHHHHHHHHHHHHHCCCcC
Confidence 125689999999999999986
No 21
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=96.81 E-value=0.0017 Score=64.91 Aligned_cols=115 Identities=17% Similarity=0.196 Sum_probs=96.0
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCC-ChHHHHHHHHHHhhh
Q 019257 174 HLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPR-PLNDVLRASSELYHK 252 (343)
Q Consensus 174 ~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~pr-kLrdVI~v~~~l~~k 252 (343)
.+|...+.|..+++...++.-.+..-+..+.+||...........+++..+|.++|+|-||... .+++++....
T Consensus 135 smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd----- 209 (359)
T KOG0654|consen 135 SMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITD----- 209 (359)
T ss_pred chhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhh-----
Confidence 5677889999999999999999999999999999998887777788999999999999998753 4455443321
Q ss_pred hchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHHhCC
Q 019257 253 QNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGL 307 (343)
Q Consensus 253 ~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~L~l 307 (343)
+.| .+.+++.+|..+|..|.|++..+....+|.+++.....
T Consensus 210 ------------~ty--~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~ 250 (359)
T KOG0654|consen 210 ------------NTY--TYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQT 250 (359)
T ss_pred ------------hhh--HHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcc
Confidence 122 56789999999999999999999999999999766543
No 22
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=96.06 E-value=0.017 Score=56.25 Aligned_cols=69 Identities=17% Similarity=0.175 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHH
Q 019257 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (343)
Q Consensus 179 ~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~ 247 (343)
..+||...+..|+|+..+...|.-+....-......+.+|..+|+||||+||+.....+.-++|..++.
T Consensus 194 p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~~ 262 (285)
T COG1405 194 PSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAG 262 (285)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHhC
Confidence 467899999999999999999999999999888888999999999999999999998888888887654
No 23
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=95.53 E-value=0.046 Score=53.20 Aligned_cols=68 Identities=15% Similarity=0.220 Sum_probs=61.0
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHH
Q 019257 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (343)
Q Consensus 179 ~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~ 246 (343)
..+||.+.|..|+||..+...|..+-.+.-...-..+..|..||||++|+++-.++.++.+++|..+.
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 67899999999999999999999999888777777778899999999999999999999999887665
No 24
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=95.42 E-value=0.071 Score=55.53 Aligned_cols=123 Identities=16% Similarity=0.110 Sum_probs=88.0
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhh
Q 019257 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLL 258 (343)
Q Consensus 179 ~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l~~k~~~~~~ 258 (343)
+-..|.+++.+|+|+. ++.+|..+|.--..++--++.....|.++|||++|..|-++.-+=|+..+
T Consensus 70 ~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~------------- 135 (521)
T KOG1598|consen 70 ARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSY------------- 135 (521)
T ss_pred HHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccc-------------
Confidence 6679999999999999 99999999998888877788888999999999999998876433222211
Q ss_pred cccCChhHHHHhHHHHHHHHHHHHHHcCcc---cccCCchHHHHHHHHHhCCCh--HHHHHHHHHHHHHH
Q 019257 259 SYLLPIDWFEQYRERVIEAEQMILTTLNFE---LNVQHPYDPLTSILNKLGLSQ--TVLVNLALNLVSEG 323 (343)
Q Consensus 259 ~~~~p~~~ye~~re~Il~~E~~IL~tL~Fd---L~V~hP~~~L~~~l~~L~l~k--~~L~q~Aw~~lNDs 323 (343)
...+.| ++-..=..|...|.-+ +....|.-|+.+|...|.... ++++..|..+++-.
T Consensus 136 ---Lqv~Vy-----~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rM 197 (521)
T KOG1598|consen 136 ---LQVSVY-----DLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRM 197 (521)
T ss_pred ---eEEehh-----hhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHH
Confidence 011112 1222233455666666 666789999999988886533 34777777777643
No 25
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=92.21 E-value=0.76 Score=40.04 Aligned_cols=69 Identities=14% Similarity=0.108 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHhccC--CCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHH
Q 019257 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRR--SHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (343)
Q Consensus 179 ~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~--Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~ 247 (343)
+..-|+++|.+|+|+..+.....+.|..-...+ -|.+.+.--+.+.|+|.-||+.....+.++|+....
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~sF~~Ii~~Yr 84 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEELSFKDIIKAYR 84 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S--HHHHHHHHT
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence 566799999999999988766666666665433 345556666899999999999999999999998754
No 26
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=91.05 E-value=0.38 Score=47.71 Aligned_cols=58 Identities=24% Similarity=0.247 Sum_probs=41.9
Q ss_pred HHHHHHHHHcCCChhH--HHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCC
Q 019257 181 AFIQNLGLRLELPQTT--IGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP 238 (343)
Q Consensus 181 ~~I~~lg~~LkLpq~t--iaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prk 238 (343)
.+|.--.+.|++|+.- ...|-.|+.--.-..-++.|.+..||+||+|||+..+|.|.+
T Consensus 143 klii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp 202 (367)
T KOG0835|consen 143 KLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLP 202 (367)
T ss_pred HHHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCC
Confidence 4566666778888764 555555555444445567899999999999999999996543
No 27
>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=87.95 E-value=0.5 Score=38.08 Aligned_cols=55 Identities=20% Similarity=0.078 Sum_probs=40.7
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCC
Q 019257 180 CAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEE 234 (343)
Q Consensus 180 ~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE 234 (343)
..||....+..+..+.+...|..++.-..+...+.++.+-.||+||++||.+..+
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 3566666444455566777777777776666778889999999999999999854
No 28
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=77.91 E-value=2.6 Score=44.31 Aligned_cols=52 Identities=21% Similarity=0.264 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHH---hccCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHHH
Q 019257 195 TTIGTAMVLCHRF---FVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSEL 249 (343)
Q Consensus 195 ~tiaTA~vyfhRF---y~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l 249 (343)
.|+.+|.-+..|- ||. .+.-|.-|+-|||++||.+....+++.||+.+++..
T Consensus 185 ~Vv~~a~~L~~rMkrdwm~---tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvhV~ 239 (521)
T KOG1598|consen 185 DVAKTATRLAQRMKRDWMQ---TGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVHVC 239 (521)
T ss_pred HHHHHHHHHHHHHHHHHHH---hCCCccchhHHHHHHHHHHcCccccHHHHHHHHHHh
Confidence 4888888777664 553 344577899999999999999999999999887653
No 29
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=74.56 E-value=1.6 Score=43.42 Aligned_cols=58 Identities=17% Similarity=0.095 Sum_probs=43.3
Q ss_pred HHHHHHHHHcCCCh----hHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCC
Q 019257 181 AFIQNLGLRLELPQ----TTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP 238 (343)
Q Consensus 181 ~~I~~lg~~LkLpq----~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prk 238 (343)
.++.+.++.|+-.. .+.-+|.++.+..+...-.-.|.+..||+|||+||+|.-....+
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~ 214 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELP 214 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCC
Confidence 44555555555444 47788888988888766556799999999999999998776433
No 30
>KOG1674 consensus Cyclin [General function prediction only]
Probab=68.80 E-value=17 Score=33.99 Aligned_cols=92 Identities=15% Similarity=0.139 Sum_probs=62.6
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHhccCC---------CCccc-hHHHHHHHHHHhhccCCCCCChHHHHHHHHHHh
Q 019257 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRS---------HACHD-RFIIATAALFLAAKSEETPRPLNDVLRASSELY 250 (343)
Q Consensus 181 ~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~S---------l~~~d-~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l~ 250 (343)
+++..+-+..+....+.-.|.+||.||-.... +..+. .+-..++|+-+|+|-.+..-- -+.. +
T Consensus 80 ~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y----~n~~---~ 152 (218)
T KOG1674|consen 80 QYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYY----SNAY---Y 152 (218)
T ss_pred HHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhh----hHHH---H
Confidence 46777788889999999999999999988511 11233 333678999999998764311 0111 1
Q ss_pred hhhchhhhcccCChhHHHHhHHHHHHHHHHHHHHcCcccccC
Q 019257 251 HKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQ 292 (343)
Q Consensus 251 ~k~~~~~~~~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~ 292 (343)
.+.+ . . ..+++-.+|..+|..++|.+.|.
T Consensus 153 a~vg-----g-l-------~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 153 AKVG-----G-L-------TTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred HHhC-----C-C-------ChHhhhhhhHHHHhhCCeEEEec
Confidence 1111 0 1 23556689999999999999985
No 31
>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=68.74 E-value=6.3 Score=29.14 Aligned_cols=45 Identities=24% Similarity=0.058 Sum_probs=35.5
Q ss_pred cCCchHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccccccccCcc
Q 019257 291 VQHPYDPLTSILNKLGLSQTVLVNLALNLVSEGYQFGLDNFLFGWS 336 (343)
Q Consensus 291 V~hP~~~L~~~l~~L~l~k~~L~q~Aw~~lNDslrT~LcL~~~~~~ 336 (343)
..+|..+|.+++..++++.+ +...|+.++...+....+.-..+..
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~ 46 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPE-TLTLAVNLLDRFLLDYSVLGRSPSL 46 (88)
T ss_pred cchHHHHHHHHHHHcCCCHH-HHHHHHHHHHHHHHhcccccCChHH
Confidence 35788999999999999987 8899999999988766554444433
No 32
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=68.70 E-value=12 Score=36.82 Aligned_cols=54 Identities=20% Similarity=0.167 Sum_probs=38.7
Q ss_pred HHHHHHHHHc-C--CChhHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCC
Q 019257 181 AFIQNLGLRL-E--LPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEE 234 (343)
Q Consensus 181 ~~I~~lg~~L-k--Lpq~tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE 234 (343)
.++.++...+ + -+..+...|..++...+..--.-.|.|..||+|||+||++...
T Consensus 165 ~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~ 221 (305)
T TIGR00569 165 GFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAG 221 (305)
T ss_pred HHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhC
Confidence 4566665544 2 2234566777888887776656679999999999999998554
No 33
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=51.09 E-value=1e+02 Score=29.62 Aligned_cols=23 Identities=26% Similarity=0.223 Sum_probs=19.8
Q ss_pred ccchHHHHHHHHHHhhccCCCCC
Q 019257 215 CHDRFIIATAALFLAAKSEETPR 237 (343)
Q Consensus 215 ~~d~~lVAaACLFLA~KvEE~pr 237 (343)
-|.|+.||.|||++||=..|...
T Consensus 190 l~PPh~IalAcl~Ia~~~~~k~~ 212 (264)
T KOG0794|consen 190 LYPPHQIALACLYIACVIDEKDI 212 (264)
T ss_pred ecCHHHHHHHHHHHHHhhcCCCh
Confidence 47899999999999998877653
No 34
>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=50.54 E-value=16 Score=26.57 Aligned_cols=38 Identities=21% Similarity=-0.004 Sum_probs=28.4
Q ss_pred HHHHHHHHhCCChHHHHHHHHHHHHHHHhccccccccCc
Q 019257 297 PLTSILNKLGLSQTVLVNLALNLVSEGYQFGLDNFLFGW 335 (343)
Q Consensus 297 ~L~~~l~~L~l~k~~L~q~Aw~~lNDslrT~LcL~~~~~ 335 (343)
+|.++++.++++++ +..+|+.++...+...-++-..+.
T Consensus 2 ~l~~~~~~~~~~~~-~~~~a~~~~~~~l~~~~~~~~~~~ 39 (83)
T smart00385 2 FLRRVCKALNLDPE-TLNLAVNLLDRFLSDYKFLKYSPS 39 (83)
T ss_pred HHHHHHHHcCCCHH-HHHHHHHHHHHHHHHhhcccCCHH
Confidence 67888999999886 889999999988774433334433
No 35
>KOG1010 consensus Rb (Retinoblastoma tumor suppressor)-related protein [Cell cycle control, cell division, chromosome partitioning]
Probab=39.89 E-value=55 Score=36.68 Aligned_cols=69 Identities=16% Similarity=0.140 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHHHHHhccCC--CCccchHHHHHHHHHHhhccCCCCCChHHHHHHHH
Q 019257 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRS--HACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (343)
Q Consensus 179 ~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy~r~S--l~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~ 247 (343)
|..-|+.+|.+|.|.+++.-.--++|.--..... |++.+..-+.+-|+|+-+|+++.-++.++|+..+.
T Consensus 680 AavRL~~Lc~rL~l~~e~r~~IWtlFehsl~~et~Lm~dRHLDQillCaiy~i~KV~~~~ltF~eIm~~YR 750 (920)
T KOG1010|consen 680 AAVRLNDLCERLSLSDELREQIWTLFEHSLTNETELMRDRHLDQILLCAIYGIAKVKKEDLTFSEIMRAYR 750 (920)
T ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccHHHHHhhhHHHHHHHHHHhheehhcccchHHHHHHHHh
Confidence 5567999999999999777666666665554433 23344444888999999999999999999987654
No 36
>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=37.39 E-value=12 Score=29.86 Aligned_cols=46 Identities=24% Similarity=0.031 Sum_probs=31.5
Q ss_pred CCchHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccccccccCccee
Q 019257 292 QHPYDPLTSILNKLGLSQTVLVNLALNLVSEGYQFGLDNFLFGWSIS 338 (343)
Q Consensus 292 ~hP~~~L~~~l~~L~l~k~~L~q~Aw~~lNDslrT~LcL~~~~~~i~ 338 (343)
++|+.||..|++..+.+. .+..+|+.++..++...-++-+.|=.|+
T Consensus 1 PTp~~Fl~~~~~~~~~~~-~~~~~a~~l~el~l~~~~fl~~~PS~iA 46 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNADQ-EVRNLARYLLELSLLDYEFLQYPPSVIA 46 (118)
T ss_dssp --HHHHHHHHHTSSSHHH-HHHHHHHHHHHHHHHSHHHTTS-HHHHH
T ss_pred CcHHHHHHHHHHHcCCcH-HHHHHHHHHHHHHHhhccccCCCHHHHH
Confidence 368899999855444433 4889999999988888777766665554
No 37
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=35.45 E-value=77 Score=31.65 Aligned_cols=102 Identities=17% Similarity=0.168 Sum_probs=52.9
Q ss_pred HHHHHHHHcCCChhHHHHHHHHHHHHhc--cCCCCccchHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhc
Q 019257 182 FIQNLGLRLELPQTTIGTAMVLCHRFFV--RRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLS 259 (343)
Q Consensus 182 ~I~~lg~~LkLpq~tiaTA~vyfhRFy~--r~Sl~~~d~~lVAaACLFLA~KvEE~prkLrdVI~v~~~l~~k~~~~~~~ 259 (343)
|+..++....|.-..-..-.+|+.|-.. ........+..+....+++|+|+=...---+ .-++++++.
T Consensus 196 ~v~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wn---vdycqIlKd------- 265 (343)
T KOG1675|consen 196 FVRILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWN---VDYCEILKD------- 265 (343)
T ss_pred hhhhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhccc---HHHHHHHhh-------
Confidence 3344444444444433344455555532 2223345556666666788888543210000 011222211
Q ss_pred ccCChhHHHHhHHHHHHHHHHHHHHcCcccccCCchHHHHHHHHH
Q 019257 260 YLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNK 304 (343)
Q Consensus 260 ~~~p~~~ye~~re~Il~~E~~IL~tL~FdL~V~hP~~~L~~~l~~ 304 (343)
...+++-++|+.+|+.|+|+++|. ..-..++.-+
T Consensus 266 ---------~tveDmNe~ERqfLelLqfNinvp--~svYAKyYfd 299 (343)
T KOG1675|consen 266 ---------QSVDDMNALERQFLELLQFNINVP--SSEYAKYYFD 299 (343)
T ss_pred ---------ccHhhHHHHHHHHHHHHhhccCcc--HHHHHHHHHH
Confidence 135789999999999999998864 4333344333
No 38
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=31.84 E-value=1.3e+02 Score=23.67 Aligned_cols=45 Identities=20% Similarity=0.282 Sum_probs=35.3
Q ss_pred CCCCCCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHh
Q 019257 143 LEDDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFF 208 (343)
Q Consensus 143 ~~~~~~w~fS~eEl~~~tPS~~dGIs~e~E~~lR~~~~~~I~~lg~~LkLpq~tiaTA~vyfhRFy 208 (343)
...+..|+|+.+++.+. ..|..+..-|++....++.+.-++.|-.
T Consensus 29 ~~~~~~~~f~~~~l~rl---------------------~~~~rL~~Dl~in~~gi~lil~LLd~i~ 73 (84)
T PF13591_consen 29 EGEEEEWYFSEEDLARL---------------------RRIRRLHRDLGINLEGIALILDLLDRIE 73 (84)
T ss_pred cCCCCeeeECHHHHHHH---------------------HHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 34457899999999531 4577888899999999999998888764
No 39
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=30.50 E-value=80 Score=32.12 Aligned_cols=45 Identities=11% Similarity=-0.042 Sum_probs=34.8
Q ss_pred ccccCCCCCcccccccccccCCcchhhhcccCCCcccCccc-ccCC
Q 019257 73 ASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAVS-SSNK 117 (343)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 117 (343)
+|-+.+.++|--+|--.++.-|-+.+.--.++||+||.|.| +|--
T Consensus 373 ~nN~en~~PP~e~~lala~e~P~E~ggcP~~ie~~VpmPsPl~S~G 418 (561)
T KOG1103|consen 373 ANNRENPAPPPEARLALAAEFPTEKGGCPRAIEPAVPMPSPLMSIG 418 (561)
T ss_pred cccccCCCCCchhcccccccCccccCCCCCCCCCCCCCCCcccccc
Confidence 34445666777788888888888888888889999999988 4444
No 40
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair]
Probab=28.98 E-value=95 Score=29.58 Aligned_cols=50 Identities=24% Similarity=0.354 Sum_probs=33.9
Q ss_pred HHHHHHHcCCChhHHHHHHHHHHHHhcc-----CCCCccchHHHHHHHHHHhhccC
Q 019257 183 IQNLGLRLELPQTTIGTAMVLCHRFFVR-----RSHACHDRFIIATAALFLAAKSE 233 (343)
Q Consensus 183 I~~lg~~LkLpq~tiaTA~vyfhRFy~r-----~Sl~~~d~~lVAaACLFLA~KvE 233 (343)
++++|..|++ .+++-.|..++.-|=.+ .--.++.+-..++|++|+|||.-
T Consensus 96 VrdlaVQfgc-~evi~~a~~vl~syk~~lpaT~~~~~D~SrP~ft~aA~~~ack~l 150 (262)
T KOG4557|consen 96 VRDLAVQFGC-VEVIKSAQNVLSSYKERLPATRRANADFSRPVFTAAAFYLACKKL 150 (262)
T ss_pred HHHHHHHHhH-HHHHHHHHHHHHHHHhcCchhhhcCCcccchHHHHHHHHHHHHHH
Confidence 4566666665 34666777777777543 22246777778999999999854
No 41
>PF11357 Spy1: Cell cycle regulatory protein; InterPro: IPR020984 Speedy (Spy1) is a cell cycle regulatory protein which activates CDK2, the major kinase that allows progression through G1/S phase and further replication events. Spy1 expression overcomes a p27-induced cell cycle arrest to allow for DNA synthesis, so cell cycle progression occurs due to an interaction between Spy1 and p27 []. Spy1 is also known as Ringo protein A.
Probab=20.11 E-value=4.1e+02 Score=23.22 Aligned_cols=49 Identities=18% Similarity=0.112 Sum_probs=32.0
Q ss_pred HcCCChh-HHHHHHHHHHHHhccCCCCccchHHHHHHHHHHhhccCCCCCChH
Q 019257 189 RLELPQT-TIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLN 240 (343)
Q Consensus 189 ~LkLpq~-tiaTA~vyfhRFy~r~Sl~~~d~~lVAaACLFLA~KvEE~prkLr 240 (343)
.+++... .+|..++||.|--... ..|.+.. --.+||||+-+||...-.+
T Consensus 24 ~~~~sDKYLLAmV~~YF~Ragl~~--~~Y~ri~-FFlALYLAndmEED~~~~K 73 (131)
T PF11357_consen 24 CLRVSDKYLLAMVIAYFSRAGLFS--WQYQRIH-FFLALYLANDMEEDDEEPK 73 (131)
T ss_pred chhhhhHHHHHHHHHHHHhcccch--hhcchHH-HHHHHHHhhHHHhccchHH
Confidence 4455554 7889999999886532 2343332 2357999999999764443
Done!