Query 020646
Match_columns 323
No_of_seqs 187 out of 1174
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 04:02:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020646.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020646hhsearch_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-41 2.9E-46 326.8 15.4 173 145-323 8-183 (323)
2 KOG0794 CDK8 kinase-activating 100.0 1.6E-33 3.4E-38 256.9 10.0 179 128-323 3-182 (264)
3 TIGR00569 ccl1 cyclin ccl1. Un 100.0 2E-32 4.4E-37 262.5 15.5 160 147-323 8-194 (305)
4 KOG0835 Cyclin L [General func 100.0 2E-31 4.3E-36 253.1 15.0 165 159-323 6-171 (367)
5 COG5333 CCL1 Cdk activating ki 99.9 1.9E-26 4E-31 218.4 12.0 153 154-323 27-180 (297)
6 KOG2496 Cdk activating kinase 99.7 7.5E-18 1.6E-22 159.5 8.2 142 147-305 9-170 (325)
7 PF00134 Cyclin_N: Cyclin, N-t 99.7 1.3E-16 2.7E-21 131.9 9.7 122 150-290 5-127 (127)
8 PRK00423 tfb transcription ini 99.7 1.3E-15 2.9E-20 146.7 14.6 130 170-322 117-246 (310)
9 KOG0656 G1/S-specific cyclin D 99.7 9E-16 2E-20 148.6 12.5 133 159-309 59-197 (335)
10 cd00043 CYCLIN Cyclin box fold 99.4 1.4E-12 2.9E-17 99.0 8.4 87 176-282 2-88 (88)
11 KOG0653 Cyclin B and related k 99.3 6.6E-12 1.4E-16 124.7 9.9 117 173-308 155-273 (391)
12 smart00385 CYCLIN domain prese 99.2 2.3E-11 5E-16 91.4 7.1 83 181-283 1-83 (83)
13 COG5024 Cyclin [Cell division 99.1 2.3E-10 5E-15 114.8 9.9 123 167-308 202-327 (440)
14 KOG0655 G1/S-specific cyclin E 99.1 2.4E-10 5.1E-15 110.1 8.1 120 171-309 140-261 (408)
15 COG1405 SUA7 Transcription ini 99.0 7.6E-09 1.6E-13 99.1 14.3 131 168-321 90-220 (285)
16 KOG1597 Transcription initiati 98.9 2.7E-08 5.9E-13 94.7 12.8 113 177-310 105-219 (308)
17 PF00382 TFIIB: Transcription 98.7 9.4E-08 2E-12 72.7 7.2 64 183-246 1-64 (71)
18 KOG4164 Cyclin ik3-1/CABLES [C 98.2 1.4E-06 3E-11 85.9 5.8 95 181-292 387-482 (497)
19 PRK00423 tfb transcription ini 97.8 9.3E-05 2E-09 71.7 9.6 68 179-246 219-286 (310)
20 PF08613 Cyclin: Cyclin; Inte 97.4 0.0012 2.5E-08 57.4 9.0 90 179-289 54-149 (149)
21 KOG0654 G2/Mitotic-specific cy 96.9 0.00098 2.1E-08 66.0 4.6 115 173-306 134-249 (359)
22 COG1405 SUA7 Transcription ini 96.4 0.0084 1.8E-07 57.8 7.1 68 179-246 194-261 (285)
23 KOG1597 Transcription initiati 96.1 0.021 4.5E-07 55.1 7.6 68 179-246 203-270 (308)
24 KOG1598 Transcription initiati 95.5 0.046 9.9E-07 56.4 8.0 122 178-321 69-195 (521)
25 PF01857 RB_B: Retinoblastoma- 93.8 0.32 6.9E-06 42.0 7.7 69 179-247 14-84 (135)
26 PF02984 Cyclin_C: Cyclin, C-t 90.9 0.26 5.7E-06 39.4 3.5 55 180-234 4-58 (118)
27 KOG0835 Cyclin L [General func 87.5 0.9 1.9E-05 44.8 4.9 58 181-238 143-202 (367)
28 KOG1674 Cyclin [General functi 81.6 5.1 0.00011 37.2 7.0 92 181-292 80-181 (218)
29 KOG0834 CDK9 kinase-activating 81.1 0.91 2E-05 44.7 1.9 58 181-238 153-214 (323)
30 KOG1598 Transcription initiati 78.9 2.4 5.2E-05 44.1 4.1 51 195-248 185-238 (521)
31 TIGR00569 ccl1 cyclin ccl1. Un 70.9 11 0.00023 36.9 6.2 54 181-234 165-221 (305)
32 KOG0794 CDK8 kinase-activating 58.1 38 0.00082 32.3 6.9 55 180-237 158-212 (264)
33 KOG1010 Rb (Retinoblastoma tum 56.1 26 0.00056 38.8 6.2 69 179-247 680-750 (920)
34 KOG1675 Predicted cyclin [Gene 50.1 26 0.00057 34.6 4.7 103 182-305 196-300 (343)
35 PF13591 MerR_2: MerR HTH fami 41.3 85 0.0018 24.5 5.6 45 143-208 29-73 (84)
36 KOG4557 Origin recognition com 37.8 55 0.0012 30.9 4.6 78 150-233 60-150 (262)
37 cd00043 CYCLIN Cyclin box fold 36.0 51 0.0011 23.8 3.5 29 292-321 3-31 (88)
38 KOG1241 Karyopherin (importin) 35.4 4.1E+02 0.0088 29.6 11.1 58 265-322 745-808 (859)
39 KOG1103 Predicted coiled-coil 30.2 82 0.0018 31.8 4.7 45 73-117 373-418 (561)
40 PF11357 Spy1: Cell cycle regu 29.5 2.6E+02 0.0056 24.2 7.1 88 187-292 22-110 (131)
41 PHA02779 E6 protein; Provision 25.3 5.3 0.00012 35.1 -4.0 53 182-234 12-76 (150)
No 1
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.3e-41 Score=326.76 Aligned_cols=173 Identities=39% Similarity=0.660 Sum_probs=162.9
Q ss_pred CCCCccccHHHHHHhCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHH
Q 020646 145 DDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATA 224 (323)
Q Consensus 145 ~~~~w~fT~eEl~~~tPS~~~GIs~e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaA 224 (323)
...+|+|+++|+++.+||+.+|++.+.|...|..++.||+++|++|++++.+++||++||||||+.++++.+|++.||++
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 HHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHH
Q 020646 225 ALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNK 304 (323)
Q Consensus 225 CLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~ 304 (323)
|||||||+||++++++|||.+++.++++.+ ....+.|++.++.|+.+|.+||++|+|||.|+|||+||++++++
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 999999999999999999999999887643 12346799999999999999999999999999999999999999
Q ss_pred cCCChH---HHHHHHHHHhhCC
Q 020646 305 LGLSQT---VLVNLALNLVSEG 323 (323)
Q Consensus 305 L~ls~~---~l~q~Aw~~lND~ 323 (323)
++.+++ .++++||+|+||+
T Consensus 162 l~~~~~~~~~~a~~Aw~~~nD~ 183 (323)
T KOG0834|consen 162 LKADENLKQPLAQAAWNFVNDS 183 (323)
T ss_pred hhhhhhccccHHHHHHHHhchh
Confidence 998775 5999999999996
No 2
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=100.00 E-value=1.6e-33 Score=256.85 Aligned_cols=179 Identities=27% Similarity=0.411 Sum_probs=155.7
Q ss_pred cccccccccccccCCCCCCCCccccHHHHHHhCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Q 020646 128 IEVSTSMSCKRDRSKLEDDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRF 207 (323)
Q Consensus 128 ~~~~~s~~~~~~~~~~~~~~~w~fT~eEl~~~tPS~~~GIs~e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRF 207 (323)
++.|+|++++ +|+|+++||..--|.+..|++.++-..++....++|+.+|++|+|+|.|+|||++||+||
T Consensus 3 ~NFW~SSh~~----------qwl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRf 72 (264)
T KOG0794|consen 3 GNFWTSSHYQ----------QWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRF 72 (264)
T ss_pred cchhhhhhhh----------hHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6789999996 499999999987788899999999999999999999999999999999999999999999
Q ss_pred hccCccccchhHHHHHHHHHHhhccCCCC-CChHHHHHHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcC
Q 020646 208 FVRRSHACHDRFIIATAALFLAAKSEETP-RPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLN 286 (323)
Q Consensus 208 y~r~S~~~~d~~lVAaACLFLAcKvEE~~-rkl~dVi~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~ 286 (323)
|.++|+++++++++|+||||||||+||++ ..++-++..+..+..+ + ++. .+.+.-..+.|+++|+.||+.|+
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 YLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTR--F---SYW--PEKFPYERKDILEMEFYLLEALD 145 (264)
T ss_pred HHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhh--c---ccc--hhhcCCCcCcchhhhhhHHhhhc
Confidence 99999999999999999999999999998 6667666655444211 1 111 11121235789999999999999
Q ss_pred ccceecCcHHHHHHHHHHcCCChHHHHHHHHHHhhCC
Q 020646 287 FELNVQHPYDPLTSILNKLGLSQTVLVNLALNLVSEG 323 (323)
Q Consensus 287 FDL~V~~P~~~L~~~l~~L~ls~~~l~q~Aw~~lND~ 323 (323)
+.|.|.|||+.|.++++++|+.+..+.+.||.++|||
T Consensus 146 ~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~W~ivNDS 182 (264)
T KOG0794|consen 146 CYLIVHHPYRSLLQFVQDMGINDQKLLQLAWSIVNDS 182 (264)
T ss_pred eeEEEecCCccHHHHHHHhcccchhhhhhhHhhhcch
Confidence 9999999999999999999997667999999999997
No 3
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=2e-32 Score=262.50 Aligned_cols=160 Identities=23% Similarity=0.316 Sum_probs=138.4
Q ss_pred CCcccc-HHHHHHhC------------------CCCcCCCCHHHHHHHHHHHHHHHHHHHHHcC--CcHHHHHHHHHHHH
Q 020646 147 EPVFMS-RDEIERFS------------------PSRKDGIDALRETHLRYSYCAFIQNLGLRLE--LPQTTIGTAMVLCH 205 (323)
Q Consensus 147 ~~w~fT-~eEl~~~t------------------PS~~~GIs~e~E~~lR~~~~~fI~~lg~~L~--Lpq~tiaTA~vyfh 205 (323)
..|.|| ++||.+.= +....+|++++|..+|.+++.+|+++|.+|+ ||+.|++||++|||
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 469999 88876321 1235689999999999999999999999999 99999999999999
Q ss_pred HHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHc
Q 020646 206 RFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTL 285 (323)
Q Consensus 206 RFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL 285 (323)
|||+++|+..+++++||+||||||||+||+++++++++..... ....+++.|+++|+.||++|
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 9999999999999999999999999999999999988864210 01246789999999999999
Q ss_pred CccceecCcHHHHHHHHHHcC-----C-ChHHHHHHHHHHhhCC
Q 020646 286 NFELNVQHPYDPLTSILNKLG-----L-SQTVLVNLALNLVSEG 323 (323)
Q Consensus 286 ~FDL~V~~P~~~L~~~l~~L~-----l-s~~~l~q~Aw~~lND~ 323 (323)
+|+|.|.|||++|..|+.+++ + +.+.+.|.||+||||+
T Consensus 151 ~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lnds 194 (305)
T TIGR00569 151 NFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRT 194 (305)
T ss_pred CCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHH
Confidence 999999999999999997664 1 2346899999999985
No 4
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.97 E-value=2e-31 Score=253.11 Aligned_cols=165 Identities=32% Similarity=0.487 Sum_probs=146.6
Q ss_pred hCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCC
Q 020646 159 FSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP 238 (323)
Q Consensus 159 ~tPS~~~GIs~e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rk 238 (323)
.+|+..+|++.+.|..+|.-||.|||+.|..|+|||.+++|++|+|+|||..+|+..+|...|++|||.||+|+||.|++
T Consensus 6 ~~~s~qd~l~~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~Prr 85 (367)
T KOG0835|consen 6 STPSLQDGLSLETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEEPRR 85 (367)
T ss_pred CchhhhcccccchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhcccccc
Confidence 68899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcCCChH-HHHHHHH
Q 020646 239 LNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQT-VLVNLAL 317 (323)
Q Consensus 239 l~dVi~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ls~~-~l~q~Aw 317 (323)
+++|++|+..+-+.-.....+...-...|...+..++.+|..||++|||++.|+|||+.+..||+.|+++++ +|.|.||
T Consensus 86 ~rdVinVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~w 165 (367)
T KOG0835|consen 86 IRDVINVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAAW 165 (367)
T ss_pred HhHHHHHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHHH
Confidence 999999998876542211111111123345678899999999999999999999999999999999999887 4899999
Q ss_pred HHhhCC
Q 020646 318 NLVSEG 323 (323)
Q Consensus 318 ~~lND~ 323 (323)
+|+|||
T Consensus 166 NfmNDs 171 (367)
T KOG0835|consen 166 NFMNDS 171 (367)
T ss_pred Hhhhhc
Confidence 999997
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=99.94 E-value=1.9e-26 Score=218.39 Aligned_cols=153 Identities=28% Similarity=0.457 Sum_probs=129.9
Q ss_pred HHHHHhCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccC
Q 020646 154 DEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSE 233 (323)
Q Consensus 154 eEl~~~tPS~~~GIs~e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvE 233 (323)
..+....| . ++.+.|..+|.+++.+|+.+|.+|+||+.|.+||+.+|+||+.+.++++++++.|++||||||||+|
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 44444445 2 7889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCChHHHHHHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcCCChH-HH
Q 020646 234 ETPRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQT-VL 312 (323)
Q Consensus 234 E~~rkl~dVi~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ls~~-~l 312 (323)
|+++.+.-..... .+. ..+..+.+|++|+++|+.||++|+|||.|.|||+++..+++++...+. ++
T Consensus 103 d~~~~I~i~~~~~---~~~----------~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~ 169 (297)
T COG5333 103 DTPRDISIESFEA---RDL----------WSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKL 169 (297)
T ss_pred cccchhhHHHHHh---hcc----------ccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHH
Confidence 9965554222221 111 123345689999999999999999999999999999999999977554 69
Q ss_pred HHHHHHHhhCC
Q 020646 313 VNLALNLVSEG 323 (323)
Q Consensus 313 ~q~Aw~~lND~ 323 (323)
.+.||+++||+
T Consensus 170 ~~~aw~~inDa 180 (297)
T COG5333 170 LQIAWKIINDA 180 (297)
T ss_pred HHHHHHHHHhh
Confidence 99999999996
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=99.72 E-value=7.5e-18 Score=159.51 Aligned_cols=142 Identities=23% Similarity=0.305 Sum_probs=112.6
Q ss_pred CCccccHHHHHHh------------------CCCCcCCCCHHHHHHHHHHHHHHHHHHHHHc--CCcHHHHHHHHHHHHH
Q 020646 147 EPVFMSRDEIERF------------------SPSRKDGIDALRETHLRYSYCAFIQNLGLRL--ELPQTTIGTAMVLCHR 206 (323)
Q Consensus 147 ~~w~fT~eEl~~~------------------tPS~~~GIs~e~E~~lR~~~~~fI~~lg~~L--~Lpq~tiaTA~vyfhR 206 (323)
..|.||+++|.+. .+-...-+++++|+.+-.+...-+.+.+.++ .||..|++||+.||+|
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 3599999988763 1111222344455555555555555556555 4899999999999999
Q ss_pred HhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcC
Q 020646 207 FFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLN 286 (323)
Q Consensus 207 Fy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~ 286 (323)
||...|..++++..|++||+|||||+||...+++++++-.. . .-++..+.||.+|+.+|+.|.
T Consensus 89 ffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~-----~------------~~~k~~e~vLk~E~~llqsL~ 151 (325)
T KOG2496|consen 89 FFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMN-----G------------RKWKTHEIVLKYEFLLLQSLK 151 (325)
T ss_pred HHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhcc-----C------------cccccHHHHHhchHHHHHhhh
Confidence 99999999999999999999999999999999999987532 0 113467899999999999999
Q ss_pred ccceecCcHHHHHHHHHHc
Q 020646 287 FELNVQHPYDPLTSILNKL 305 (323)
Q Consensus 287 FDL~V~~P~~~L~~~l~~L 305 (323)
|+|.|.+||+.|..|+-++
T Consensus 152 f~L~vh~PyRPleGFl~D~ 170 (325)
T KOG2496|consen 152 FSLTVHNPYRPLEGFLLDM 170 (325)
T ss_pred hhheecCCCCchHHHHHHH
Confidence 9999999999999998776
No 7
>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=99.69 E-value=1.3e-16 Score=131.91 Aligned_cols=122 Identities=30% Similarity=0.436 Sum_probs=91.6
Q ss_pred cccHHHHHHhCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHh
Q 020646 150 FMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLA 229 (323)
Q Consensus 150 ~fT~eEl~~~tPS~~~GIs~e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLA 229 (323)
++.+.|.....+.......++.....|...+.||.+++..++++..|+.+|+.||+||+...++...++.++++||++||
T Consensus 5 ~~~~~e~~~~~~~~~~~~~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA 84 (127)
T PF00134_consen 5 YLLEKELKYKPNPDYLEQQPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLA 84 (127)
T ss_dssp HHHHHHHHTTCCTTHGTGTSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHH
T ss_pred HHHHHHHHHCcCccccccChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHh
Confidence 35556664332232222222445578999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCC-CCChHHHHHHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccce
Q 020646 230 AKSEET-PRPLNDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELN 290 (323)
Q Consensus 230 cKvEE~-~rkl~dVi~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~ 290 (323)
||++|. +..+.+++..+.. .| .+++|+++|+.||++|+|+++
T Consensus 85 ~K~~e~~~~~~~~~~~~~~~-----------------~~--~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 85 SKMEEDNPPSISDLIRISDN-----------------TF--TKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHTSS--HHHHHHHHTTT-----------------SS--HHHHHHHHHHHHHHHTTT---
T ss_pred hhhhccccchHHHHHHHHcC-----------------CC--CHHHHHHHHHHHHHHCCCCcC
Confidence 999998 6667777665310 12 478999999999999999984
No 8
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.66 E-value=1.3e-15 Score=146.68 Aligned_cols=130 Identities=21% Similarity=0.296 Sum_probs=117.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHH
Q 020646 170 LRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSEL 249 (323)
Q Consensus 170 e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l 249 (323)
..|+.+ ..+...|.++|..|+||+.++.+|+.+|++++..+.+++.+...+++||||+|||.|+.|+.+++|..++.
T Consensus 117 ~~er~l-~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~-- 193 (310)
T PRK00423 117 AAERNL-AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSR-- 193 (310)
T ss_pred hHhHHH-HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhC--
Confidence 456666 44889999999999999999999999999999999999999999999999999999999999999987642
Q ss_pred hhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcCCChHHHHHHHHHHhhC
Q 020646 250 YHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQTVLVNLALNLVSE 322 (323)
Q Consensus 250 ~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ls~~~l~q~Aw~~lND 322 (323)
-.+++|-..++.|++.|++++.+.+|+.||.+|+..|+++.. +.+.|+.++++
T Consensus 194 -------------------v~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~~-v~~~A~~i~~~ 246 (310)
T PRK00423 194 -------------------VSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGE-VQKKAIEILQK 246 (310)
T ss_pred -------------------CCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHH-HHHHHHHHHHH
Confidence 135678889999999999999999999999999999999986 88999999875
No 9
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=99.65 E-value=9e-16 Score=148.60 Aligned_cols=133 Identities=22% Similarity=0.231 Sum_probs=109.0
Q ss_pred hCCCC--cCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccch---hHHHHHHHHHHhhccC
Q 020646 159 FSPSR--KDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHD---RFIIATAALFLAAKSE 233 (323)
Q Consensus 159 ~tPS~--~~GIs~e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d---~~lVAaACLFLAcKvE 233 (323)
+.|+. +.+++...--..|.+++.||.++|...+....|...|+.||.||...+++.+.+ .+++|+|||+||+|+|
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 35654 355555455566999999999999999999999999999999999999999988 8999999999999999
Q ss_pred CCCCCh-HHHHHHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcCCCh
Q 020646 234 ETPRPL-NDVLRASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQ 309 (323)
Q Consensus 234 E~~rkl-~dVi~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ls~ 309 (323)
|+.+++ -|+.... + .|--..+.|..||.+||.+|+|++...+|+.|+..|+.+++..+
T Consensus 139 E~~vPll~dl~v~~----------------~--~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~ 197 (335)
T KOG0656|consen 139 ETDVPLLADLQVEY----------------T--DNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKD 197 (335)
T ss_pred CcCCchhhhhhhcc----------------c--cccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCccc
Confidence 986443 2221110 0 01125789999999999999999999999999999999998843
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=99.39 E-value=1.4e-12 Score=98.96 Aligned_cols=87 Identities=30% Similarity=0.418 Sum_probs=76.1
Q ss_pred HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhch
Q 020646 176 RYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNI 255 (323)
Q Consensus 176 R~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~ 255 (323)
|...+.||.+++..++++..|..+|+.|++||+....+..+++..||+||||||||++|.+..+++++.++...
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~------ 75 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGYA------ 75 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCCC------
Confidence 44678999999999999999999999999999999999999999999999999999999999999887764210
Q ss_pred hhhcccCChhhhHHhHHHHHHHHHHHH
Q 020646 256 TLLSYLLPIDWFEQYRERVIEAEQMIL 282 (323)
Q Consensus 256 ~~~~y~~~~~~y~~~r~~IL~~E~~IL 282 (323)
..++|..+|..||
T Consensus 76 --------------~~~~i~~~e~~il 88 (88)
T cd00043 76 --------------TEEEILRMEKLLL 88 (88)
T ss_pred --------------CHHHHHHHHHHhC
Confidence 3577888887764
No 11
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.31 E-value=6.6e-12 Score=124.69 Aligned_cols=117 Identities=23% Similarity=0.387 Sum_probs=100.3
Q ss_pred HHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHH-HhhccCCCCCC-hHHHHHHHHHHh
Q 020646 173 THLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALF-LAAKSEETPRP-LNDVLRASSELY 250 (323)
Q Consensus 173 ~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLF-LAcKvEE~~rk-l~dVi~v~~~l~ 250 (323)
...|...++||.++...++|...|+..|+.++.||.....+.....++|+++||| ||||.||...+ +++++.++.
T Consensus 155 ~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd--- 231 (391)
T KOG0653|consen 155 AKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITD--- 231 (391)
T ss_pred HHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeC---
Confidence 3678889999999999999999999999999999999988878889999999977 99999996655 444433221
Q ss_pred hhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcCCC
Q 020646 251 HKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLS 308 (323)
Q Consensus 251 ~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ls 308 (323)
..| .+++|+.||+.||.+|.|++.+.+|+.||.++.+..+.+
T Consensus 232 --------------~~~--s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d 273 (391)
T KOG0653|consen 232 --------------GAY--SREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYD 273 (391)
T ss_pred --------------Ccc--chHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcc
Confidence 123 689999999999999999999999999999999988753
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=99.24 E-value=2.3e-11 Score=91.36 Aligned_cols=83 Identities=28% Similarity=0.385 Sum_probs=71.0
Q ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcc
Q 020646 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSY 260 (323)
Q Consensus 181 ~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~~~~~y 260 (323)
.||.+++..++++..+..+|..+++||.....+..+++..||+||||||||.+|.++..+++...+..
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~------------ 68 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGY------------ 68 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCC------------
Confidence 48999999999999999999999999999777778999999999999999999998888777654311
Q ss_pred cCChhhhHHhHHHHHHHHHHHHH
Q 020646 261 LLPIDWFEQYRERVIEAEQMILT 283 (323)
Q Consensus 261 ~~~~~~y~~~r~~IL~~E~~IL~ 283 (323)
...++|..+|+.||+
T Consensus 69 --------~~~~~i~~~~~~il~ 83 (83)
T smart00385 69 --------FTEEEILRMEKLLLE 83 (83)
T ss_pred --------CCHHHHHHHHHHHhC
Confidence 135789999988873
No 13
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.12 E-value=2.3e-10 Score=114.77 Aligned_cols=123 Identities=23% Similarity=0.329 Sum_probs=100.7
Q ss_pred CCHHHHH--HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCCh-HHHH
Q 020646 167 IDALRET--HLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPL-NDVL 243 (323)
Q Consensus 167 Is~e~E~--~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl-~dVi 243 (323)
|....|. .+|...++||.++...++|-+.|+..|+.++.||.......--..++|+++|||+|||.||..++. ++++
T Consensus 202 l~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~ 281 (440)
T COG5024 202 LIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLV 281 (440)
T ss_pred HhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHH
Confidence 5544443 678888999999999999999999999999999999887776778999999999999999976544 4443
Q ss_pred HHHHHHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcCCC
Q 020646 244 RASSELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLS 308 (323)
Q Consensus 244 ~v~~~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ls 308 (323)
-++ .+. | .++.|+.+|+.+|.+|+|++....|+-||.++-+..+-+
T Consensus 282 ~~t-----~g~------------~--t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd 327 (440)
T COG5024 282 YAT-----DGA------------F--TRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYD 327 (440)
T ss_pred HHH-----ccc------------c--cHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccc
Confidence 332 111 1 578999999999999999999999999988876666543
No 14
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=99.09 E-value=2.4e-10 Score=110.08 Aligned_cols=120 Identities=20% Similarity=0.217 Sum_probs=97.1
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhcc-CccccchhHHHHHHHHHHhhccCCC-CCChHHHHHHHHH
Q 020646 171 RETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVR-RSHACHDRFIIATAALFLAAKSEET-PRPLNDVLRASSE 248 (323)
Q Consensus 171 ~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r-~S~~~~d~~lVAaACLFLAcKvEE~-~rkl~dVi~v~~~ 248 (323)
-+...|.-..+|+.++|.-.+|...|...|+-||.||... +...+...++|++||||+|+|+||. |.|+-++.-+.
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 3446688899999999999999999999999999999754 4556677899999999999999996 55554433221
Q ss_pred HhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcCCCh
Q 020646 249 LYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQ 309 (323)
Q Consensus 249 l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ls~ 309 (323)
.+. -..++|+.||..||++|+|+|...+--..|.-|++..++.+
T Consensus 218 --------------DgA---cs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~ 261 (408)
T KOG0655|consen 218 --------------DGA---CSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALND 261 (408)
T ss_pred --------------cCc---cchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCC
Confidence 111 14688999999999999999999888888988888776643
No 15
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.00 E-value=7.6e-09 Score=99.09 Aligned_cols=131 Identities=18% Similarity=0.287 Sum_probs=113.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHH
Q 020646 168 DALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (323)
Q Consensus 168 s~e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~ 247 (323)
+...|+.+.. +...|..++..|+||..+.-+|+.+|.+-+....++......+++||||+||+.+..|+.+.+|..+..
T Consensus 90 ~~~~ernl~~-a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~ 168 (285)
T COG1405 90 SSAKERNLIT-ALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALG 168 (285)
T ss_pred ccchhhHHHH-HHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHC
Confidence 3345555555 789999999999999999999999999999999999999999999999999999999999999988643
Q ss_pred HHhhhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcCCChHHHHHHHHHHhh
Q 020646 248 ELYHKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLGLSQTVLVNLALNLVS 321 (323)
Q Consensus 248 ~l~~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ls~~~l~q~Aw~~lN 321 (323)
-.+++|..+.+.+.+.|+-.+....|..|+.+|+.+|+++.+ +...|..++.
T Consensus 169 ---------------------V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~-v~~~a~ei~~ 220 (285)
T COG1405 169 ---------------------VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDE-VRRKAIEIVK 220 (285)
T ss_pred ---------------------CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHH-HHHHHHHHHH
Confidence 124778888889999999999999999999999999999965 6666666654
No 16
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.87 E-value=2.7e-08 Score=94.68 Aligned_cols=113 Identities=18% Similarity=0.209 Sum_probs=93.3
Q ss_pred HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchh
Q 020646 177 YSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNIT 256 (323)
Q Consensus 177 ~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~~ 256 (323)
..+...|..|+.+++||..+.-.|..+|+++...+.+++.....+++||||+||..++.||.+++|..++. ..
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 34778999999999999999999999999999999999999999999999999999999999999988765 11
Q ss_pred hhcccCChhhhHHhHHHHHHHHHHHHHHcCccc--eecCcHHHHHHHHHHcCCChH
Q 020646 257 LLSYLLPIDWFEQYRERVIEAEQMILTTLNFEL--NVQHPYDPLTSILNKLGLSQT 310 (323)
Q Consensus 257 ~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL--~V~~P~~~L~~~l~~L~ls~~ 310 (323)
+++|=.+=..|++.|+-.. ...+.-.|+.+||..|+++..
T Consensus 178 --------------kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~ 219 (308)
T KOG1597|consen 178 --------------KKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKS 219 (308)
T ss_pred --------------HHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHH
Confidence 2333334445555555433 344578999999999999875
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=98.65 E-value=9.4e-08 Score=72.73 Aligned_cols=64 Identities=23% Similarity=0.311 Sum_probs=57.2
Q ss_pred HHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHH
Q 020646 183 IQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (323)
Q Consensus 183 I~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~ 246 (323)
|.++|..|+||..+..+|..++++-....-.++..+..+++||||+||+.++.++++++|..++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~ 64 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAA 64 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHC
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHh
Confidence 6789999999999999999999999988888888999999999999999999999999998764
No 18
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=98.24 E-value=1.4e-06 Score=85.92 Aligned_cols=95 Identities=22% Similarity=0.327 Sum_probs=77.8
Q ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCC-hHHHHHHHHHHhhhhchhhhc
Q 020646 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP-LNDVLRASSELYHKQNITLLS 259 (323)
Q Consensus 181 ~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rk-l~dVi~v~~~l~~k~~~~~~~ 259 (323)
.-|.+++...+|...|+|+|-|||.+.-...-+.+-++.++|.|||+||+|+.+-.+. ++.+|...
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 4678889999999999999999999999999999999999999999999999954322 23333321
Q ss_pred ccCChhhhHHhHHHHHHHHHHHHHHcCccceec
Q 020646 260 YLLPIDWFEQYRERVIEAEQMILTTLNFELNVQ 292 (323)
Q Consensus 260 y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~ 292 (323)
++.|...+.+++..|+-||.+|.|-|.+.
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=97.83 E-value=9.3e-05 Score=71.66 Aligned_cols=68 Identities=13% Similarity=0.132 Sum_probs=61.8
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHH
Q 020646 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (323)
Q Consensus 179 ~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~ 246 (323)
...||..+|..|+|+..+.-+|..++++.....-..+..|..||+|||||||+..+.++.+++|..++
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~ 286 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVA 286 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHc
Confidence 35899999999999999999999999998776666788999999999999999999999999997764
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=97.37 E-value=0.0012 Score=57.38 Aligned_cols=90 Identities=14% Similarity=0.124 Sum_probs=62.0
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhc---c--CccccchhHHHHHHHHHHhhccCCCC-CChHHHHHHHHHHhhh
Q 020646 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFV---R--RSHACHDRFIIATAALFLAAKSEETP-RPLNDVLRASSELYHK 252 (323)
Q Consensus 179 ~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~---r--~S~~~~d~~lVAaACLFLAcKvEE~~-rkl~dVi~v~~~l~~k 252 (323)
...||.++.+..+++..++..|++|+.|+.. . ..+.....+-+-++||.||.|.-+.. -.-+...+++
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 4578899999999999999999999999998 2 12445667788999999999987543 2222221111
Q ss_pred hchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccc
Q 020646 253 QNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFEL 289 (323)
Q Consensus 253 ~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL 289 (323)
+ -..++|-.+|+..|..|+|+|
T Consensus 128 -g--------------is~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 128 -G--------------ISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp -T--------------S-HHHHHHHHHHHHHHTTT--
T ss_pred -C--------------CCHHHHHHHHHHHHHHCCCcC
Confidence 0 135789999999999999986
No 21
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=96.92 E-value=0.00098 Score=65.96 Aligned_cols=115 Identities=17% Similarity=0.200 Sum_probs=96.3
Q ss_pred HHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCC-ChHHHHHHHHHHhh
Q 020646 173 THLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPR-PLNDVLRASSELYH 251 (323)
Q Consensus 173 ~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~r-kl~dVi~v~~~l~~ 251 (323)
..+|...+.|..++++..++...++..+..+.+||...........+++..+|.++|+|-||... .+.+++....
T Consensus 134 ~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd---- 209 (359)
T KOG0654|consen 134 PSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITD---- 209 (359)
T ss_pred cchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhh----
Confidence 35677788999999999999999999999999999998888877789999999999999999653 4555444321
Q ss_pred hhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHcC
Q 020646 252 KQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKLG 306 (323)
Q Consensus 252 k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L~ 306 (323)
..| ...+++.+|..||..|.|++..+....+|.+++....
T Consensus 210 -------------~ty--~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~ 249 (359)
T KOG0654|consen 210 -------------NTY--TYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQ 249 (359)
T ss_pred -------------hhh--HHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhc
Confidence 122 5678999999999999999999999999999966554
No 22
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=96.43 E-value=0.0084 Score=57.80 Aligned_cols=68 Identities=18% Similarity=0.175 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHH
Q 020646 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (323)
Q Consensus 179 ~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~ 246 (323)
-..+|..+|..|+|+..+...|..+.+..-......+..|..+|+|||||||+.....+.-++|..++
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 45799999999999999999999999999988877888999999999999999999888888877764
No 23
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=96.08 E-value=0.021 Score=55.11 Aligned_cols=68 Identities=15% Similarity=0.220 Sum_probs=61.0
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHH
Q 020646 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRAS 246 (323)
Q Consensus 179 ~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~ 246 (323)
...||.+.|..|+||..+...|..+-++.-...-.....|..||+|++|+++-+++.++.+++|..+.
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 66899999999999999999999999998777667778899999999999999999999999887654
No 24
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=95.54 E-value=0.046 Score=56.43 Aligned_cols=122 Identities=16% Similarity=0.132 Sum_probs=84.8
Q ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhh
Q 020646 178 SYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITL 257 (323)
Q Consensus 178 ~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~~~ 257 (323)
.+-..|.+++.+|+|+. ++.+|..+|.--..++--++.....|.++|+||+|..|.++.-+=|+..+ +
T Consensus 69 n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~----L------- 136 (521)
T KOG1598|consen 69 NARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSY----L------- 136 (521)
T ss_pred HHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccc----e-------
Confidence 36679999999999999 99999999998888877778778899999999999998876433222111 0
Q ss_pred hcccCChhhhHHhHHHHHHHHHHHHHHcCcc---ceecCcHHHHHHHHHHcCCCh--HHHHHHHHHHhh
Q 020646 258 LSYLLPIDWFEQYRERVIEAEQMILTTLNFE---LNVQHPYDPLTSILNKLGLSQ--TVLVNLALNLVS 321 (323)
Q Consensus 258 ~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FD---L~V~~P~~~L~~~l~~L~ls~--~~l~q~Aw~~lN 321 (323)
....| +.=..+ +.|...|.-+ +-...|.-|+.+|...|.+.+ .+++.+|..+++
T Consensus 137 -----qv~Vy-~LG~~~----l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~ 195 (521)
T KOG1598|consen 137 -----QVSVY-DLGSNF----LEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQ 195 (521)
T ss_pred -----EEehh-hhhHHH----HHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHH
Confidence 11111 011111 2233455555 566789999999998886633 257777776654
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=93.75 E-value=0.32 Score=42.02 Aligned_cols=69 Identities=14% Similarity=0.108 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccC--ccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHH
Q 020646 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRR--SHACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (323)
Q Consensus 179 ~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~--S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~ 247 (323)
+..-|+++|.+|+|+..+.....+.|......+ -+.+...--+.+.|+|.-||+.....+.++|+..+.
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 566789999999999887777777777666543 344555566899999999999999999999998654
No 26
>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=90.89 E-value=0.26 Score=39.35 Aligned_cols=55 Identities=20% Similarity=0.078 Sum_probs=42.4
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCC
Q 020646 180 CAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEE 234 (323)
Q Consensus 180 ~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE 234 (323)
..||..+.+..+..+.+...|..++.-......+.++.+-.||+||++||.++.+
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 4566666444555667888888888877777778889999999999999999854
No 27
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=87.47 E-value=0.9 Score=44.79 Aligned_cols=58 Identities=24% Similarity=0.247 Sum_probs=36.5
Q ss_pred HHHHHHHHHcCCcHHH--HHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCC
Q 020646 181 AFIQNLGLRLELPQTT--IGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP 238 (323)
Q Consensus 181 ~fI~~lg~~L~Lpq~t--iaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rk 238 (323)
.+|.--.+-|++++.- +-.|-.|+.--.-..-+..|.+..||+||+|||+..+|.|.+
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 3455555566666543 334444443322223345788999999999999999996533
No 28
>KOG1674 consensus Cyclin [General function prediction only]
Probab=81.61 E-value=5.1 Score=37.16 Aligned_cols=92 Identities=13% Similarity=0.082 Sum_probs=63.7
Q ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHhccCc---------cccch-hHHHHHHHHHHhhccCCCCCChHHHHHHHHHHh
Q 020646 181 AFIQNLGLRLELPQTTIGTAMVLCHRFFVRRS---------HACHD-RFIIATAALFLAAKSEETPRPLNDVLRASSELY 250 (323)
Q Consensus 181 ~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S---------~~~~d-~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~ 250 (323)
.++.++-+..+....+.-+|.+||.||-.... +..++ .+-..++|+-+|||..+..-- -+..+
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----SNAYY--- 152 (218)
T ss_pred HHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhh----hHHHH---
Confidence 56777888889999999999999999988511 12333 344678999999998864311 01111
Q ss_pred hhhchhhhcccCChhhhHHhHHHHHHHHHHHHHHcCccceec
Q 020646 251 HKQNITLLSYLLPIDWFEQYRERVIEAEQMILTTLNFELNVQ 292 (323)
Q Consensus 251 ~k~~~~~~~y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~ 292 (323)
.+-+. -..+++-.+|..+|..++|.+.|.
T Consensus 153 a~vgg-------------l~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 153 AKVGG-------------LTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred HHhCC-------------CChHhhhhhhHHHHhhCCeEEEec
Confidence 11100 024566689999999999999985
No 29
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=81.09 E-value=0.91 Score=44.70 Aligned_cols=58 Identities=17% Similarity=0.095 Sum_probs=43.8
Q ss_pred HHHHHHHHHcCCcH----HHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCC
Q 020646 181 AFIQNLGLRLELPQ----TTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRP 238 (323)
Q Consensus 181 ~fI~~lg~~L~Lpq----~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rk 238 (323)
.++.+.++.|+-.. .+.-+|.++....+...-.-.|.+..||+|||+||||.-....+
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 45555666665544 47788888888887766556789999999999999998876533
No 30
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=78.89 E-value=2.4 Score=44.13 Aligned_cols=51 Identities=22% Similarity=0.279 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHH---hccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHH
Q 020646 195 TTIGTAMVLCHRF---FVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSE 248 (323)
Q Consensus 195 ~tiaTA~vyfhRF---y~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~ 248 (323)
.|+.+|.-+..|- ||. +..-|-.|+.|||++||.+....+++.+|+.+++.
T Consensus 185 ~Vv~~a~~L~~rMkrdwm~---tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvhV 238 (521)
T KOG1598|consen 185 DVAKTATRLAQRMKRDWMQ---TGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVHV 238 (521)
T ss_pred HHHHHHHHHHHHHHHHHHH---hCCCccchhHHHHHHHHHHcCccccHHHHHHHHHH
Confidence 4888888777665 443 34457789999999999999999999999988764
No 31
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=70.86 E-value=11 Score=36.90 Aligned_cols=54 Identities=22% Similarity=0.210 Sum_probs=37.4
Q ss_pred HHHHHHHHHc-CC--cHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCC
Q 020646 181 AFIQNLGLRL-EL--PQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEE 234 (323)
Q Consensus 181 ~fI~~lg~~L-~L--pq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE 234 (323)
.+|.++...+ ++ +..+...|..++...+...-.-.|.|..||+|||+||++...
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 4566665554 22 234556677777777665555568899999999999998554
No 32
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=58.14 E-value=38 Score=32.25 Aligned_cols=55 Identities=20% Similarity=0.225 Sum_probs=31.7
Q ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCC
Q 020646 180 CAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPR 237 (323)
Q Consensus 180 ~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~r 237 (323)
.++++++|. ..+.-...|--+..-=|...-.--+.|+.||.|||++||=..|.+.
T Consensus 158 ~q~~qd~gi---~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~ 212 (264)
T KOG0794|consen 158 LQFVQDMGI---NDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDI 212 (264)
T ss_pred HHHHHHhcc---cchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCCh
Confidence 345555554 2332333333333333322222357899999999999998877653
No 33
>KOG1010 consensus Rb (Retinoblastoma tumor suppressor)-related protein [Cell cycle control, cell division, chromosome partitioning]
Probab=56.11 E-value=26 Score=38.79 Aligned_cols=69 Identities=16% Similarity=0.148 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhccCcc--ccchhHHHHHHHHHHhhccCCCCCChHHHHHHHH
Q 020646 179 YCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSH--ACHDRFIIATAALFLAAKSEETPRPLNDVLRASS 247 (323)
Q Consensus 179 ~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~--~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~ 247 (323)
|..-|+.+|.+|.|.+.+-..--.+|..-+..... ++.+.--+.+.|+|+-||++...++..+|+..+.
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 45678999999999997776666677665554432 3333444889999999999999999999987654
No 34
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=50.14 E-value=26 Score=34.55 Aligned_cols=103 Identities=17% Similarity=0.179 Sum_probs=56.8
Q ss_pred HHHHHHHHcCCcHHHHHHHHHHHHHHhccC--ccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhc
Q 020646 182 FIQNLGLRLELPQTTIGTAMVLCHRFFVRR--SHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLS 259 (323)
Q Consensus 182 fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~--S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~~~~~ 259 (323)
|..-++....|.-..-..-.+|+.|-..-. .........+....+++|+|+=...---+ .-++++++.
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 334444444444444444456666663322 23345556666667888998764321110 112223321
Q ss_pred ccCChhhhHHhHHHHHHHHHHHHHHcCccceecCcHHHHHHHHHHc
Q 020646 260 YLLPIDWFEQYRERVIEAEQMILTTLNFELNVQHPYDPLTSILNKL 305 (323)
Q Consensus 260 y~~~~~~y~~~r~~IL~~E~~IL~tL~FDL~V~~P~~~L~~~l~~L 305 (323)
...+++-++|+.+|+.|+|++.| |.--..++.-+|
T Consensus 266 ---------~tveDmNe~ERqfLelLqfNinv--p~svYAKyYfdl 300 (343)
T KOG1675|consen 266 ---------QSVDDMNALERQFLELLQFNINV--PSSEYAKYYFDL 300 (343)
T ss_pred ---------ccHhhHHHHHHHHHHHHhhccCc--cHHHHHHHHHHH
Confidence 13678999999999999999886 444444444444
No 35
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=41.31 E-value=85 Score=24.50 Aligned_cols=45 Identities=20% Similarity=0.256 Sum_probs=37.0
Q ss_pred CCCCCCccccHHHHHHhCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHh
Q 020646 143 LEDDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFF 208 (323)
Q Consensus 143 ~~~~~~w~fT~eEl~~~tPS~~~GIs~e~E~~lR~~~~~fI~~lg~~L~Lpq~tiaTA~vyfhRFy 208 (323)
...+..|+|+.+++.+ +..|..+..-|++....++.+..++.|-.
T Consensus 29 ~~~~~~~~f~~~~l~r---------------------l~~~~rL~~Dl~in~~gi~lil~LLd~i~ 73 (84)
T PF13591_consen 29 EGEEEEWYFSEEDLAR---------------------LRRIRRLHRDLGINLEGIALILDLLDRIE 73 (84)
T ss_pred cCCCCeeeECHHHHHH---------------------HHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 3345689999999963 46778999999999999999999998864
No 36
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair]
Probab=37.79 E-value=55 Score=30.89 Aligned_cols=78 Identities=18% Similarity=0.267 Sum_probs=46.7
Q ss_pred cccHHHHHHhCCCCcCCCCHHHHHHHHHHHHHH--------HHHHHHHcCCcHHHHHHHHHHHHHHhccCc-----cccc
Q 020646 150 FMSRDEIERFSPSRKDGIDALRETHLRYSYCAF--------IQNLGLRLELPQTTIGTAMVLCHRFFVRRS-----HACH 216 (323)
Q Consensus 150 ~fT~eEl~~~tPS~~~GIs~e~E~~lR~~~~~f--------I~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S-----~~~~ 216 (323)
.|.+++.... .||+.+.-..-....-++ +.++|..|++ ..++-.|..++.-|-.+-+ -.++
T Consensus 60 ~fDr~~avKL-----SGl~k~~Y~~~~~sfe~llgln~~~~VrdlaVQfgc-~evi~~a~~vl~syk~~lpaT~~~~~D~ 133 (262)
T KOG4557|consen 60 IFDRQAAVKL-----SGLSKKAYSRSFNSFENLLGLNIKLNVRDLAVQFGC-VEVIKSAQNVLSSYKERLPATRRANADF 133 (262)
T ss_pred cccHHHHHHh-----ccccHHHHHHHHHHHHHHhcchhhcCHHHHHHHHhH-HHHHHHHHHHHHHHHhcCchhhhcCCcc
Confidence 4666666543 577654433322222222 4556666664 4566778888877755322 2356
Q ss_pred hhHHHHHHHHHHhhccC
Q 020646 217 DRFIIATAALFLAAKSE 233 (323)
Q Consensus 217 d~~lVAaACLFLAcKvE 233 (323)
.+-..++|++|+|||.-
T Consensus 134 SrP~ft~aA~~~ack~l 150 (262)
T KOG4557|consen 134 SRPVFTAAAFYLACKKL 150 (262)
T ss_pred cchHHHHHHHHHHHHHH
Confidence 66778999999999854
No 37
>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=36.04 E-value=51 Score=23.79 Aligned_cols=29 Identities=38% Similarity=0.572 Sum_probs=23.8
Q ss_pred cCcHHHHHHHHHHcCCChHHHHHHHHHHhh
Q 020646 292 QHPYDPLTSILNKLGLSQTVLVNLALNLVS 321 (323)
Q Consensus 292 ~~P~~~L~~~l~~L~ls~~~l~q~Aw~~lN 321 (323)
.+|..+|.+++..++++.+ +..+|+.+++
T Consensus 3 ~~~~~~l~~~~~~~~~~~~-~~~~A~~~~~ 31 (88)
T cd00043 3 PTPLDFLRRVAKALGLSPE-TLTLAVNLLD 31 (88)
T ss_pred chHHHHHHHHHHHcCCCHH-HHHHHHHHHH
Confidence 5688899999999999886 7788887765
No 38
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=35.44 E-value=4.1e+02 Score=29.64 Aligned_cols=58 Identities=24% Similarity=0.488 Sum_probs=41.6
Q ss_pred hhhHHhHHHHHHHHHHHHHHcCc--cceecCcH-HHHHHHHHHcCCCh---HHHHHHHHHHhhC
Q 020646 265 DWFEQYRERVIEAEQMILTTLNF--ELNVQHPY-DPLTSILNKLGLSQ---TVLVNLALNLVSE 322 (323)
Q Consensus 265 ~~y~~~r~~IL~~E~~IL~tL~F--DL~V~~P~-~~L~~~l~~L~ls~---~~l~q~Aw~~lND 322 (323)
++...+|+.++++--=|++.|+= +.....|| .++..|+.++..++ +.+...|-.+|.|
T Consensus 745 dYvd~LRe~~leay~gi~qglk~~~~~~~~~p~v~~I~sfi~~I~~e~~~~~~~~~~a~GlIgD 808 (859)
T KOG1241|consen 745 DYVDELREGILEAYTGIIQGLKTHADVMLVQPYVPHIISFIDRIAAEPDVSEALHAAALGLIGD 808 (859)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccchhhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHHH
Confidence 44457899999999999999995 33334454 56677777776644 2578888888876
No 39
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=30.23 E-value=82 Score=31.82 Aligned_cols=45 Identities=11% Similarity=-0.042 Sum_probs=34.7
Q ss_pred ccccCCCCCcccccccccccCCcchhhhcccCCCcccCccc-ccCC
Q 020646 73 ASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAVS-SSNK 117 (323)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 117 (323)
+|-+.+.++|--+|--.++.-|-+.+.--.++||+||.|.| +|--
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
>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=29.49 E-value=2.6e+02 Score=24.24 Aligned_cols=88 Identities=16% Similarity=0.156 Sum_probs=50.0
Q ss_pred HHHcCCcHH-HHHHHHHHHHHHhccCccccchhHHHHHHHHHHhhccCCCCCChHHHHHHHHHHhhhhchhhhcccCChh
Q 020646 187 GLRLELPQT-TIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPID 265 (323)
Q Consensus 187 g~~L~Lpq~-tiaTA~vyfhRFy~r~S~~~~d~~lVAaACLFLAcKvEE~~rkl~dVi~v~~~l~~k~~~~~~~y~~~~~ 265 (323)
-..++++.. .+|..++||.|--... ..+.+... -.+||||+-+||...-.+..|-- -++.++
T Consensus 22 D~~~~~sDKYLLAmV~~YF~Ragl~~--~~Y~ri~F-FlALYLAndmEED~~~~K~~If~--f~~G~~------------ 84 (131)
T PF11357_consen 22 DKCLRVSDKYLLAMVIAYFSRAGLFS--WQYQRIHF-FLALYLANDMEEDDEEPKYEIFP--FLYGKN------------ 84 (131)
T ss_pred CcchhhhhHHHHHHHHHHHHhcccch--hhcchHHH-HHHHHHhhHHHhccchHHHHHHH--HHHCcc------------
Confidence 344556555 7889999999875422 22333322 35899999999976544433321 122221
Q ss_pred hhHHhHHHHHHHHHHHHHHcCccceec
Q 020646 266 WFEQYRERVIEAEQMILTTLNFELNVQ 292 (323)
Q Consensus 266 ~y~~~r~~IL~~E~~IL~tL~FDL~V~ 292 (323)
+ .......+.+=..+...+||...|.
T Consensus 85 w-~~~~~~F~klr~~~~~~m~~Ra~Vs 110 (131)
T PF11357_consen 85 W-RSQIPQFHKLRDQFWRRMDWRAWVS 110 (131)
T ss_pred h-HHHhHHHHHHHHHHHHHcCCceeeC
Confidence 0 0112334445556678888888765
No 41
>PHA02779 E6 protein; Provisional
Probab=25.32 E-value=5.3 Score=35.11 Aligned_cols=53 Identities=17% Similarity=0.190 Sum_probs=42.8
Q ss_pred HHHHHHHHcCCcHHHHHHHHHHHHHHhccCcc------------ccchhHHHHHHHHHHhhccCC
Q 020646 182 FIQNLGLRLELPQTTIGTAMVLCHRFFVRRSH------------ACHDRFIIATAALFLAAKSEE 234 (323)
Q Consensus 182 fI~~lg~~L~Lpq~tiaTA~vyfhRFy~r~S~------------~~~d~~lVAaACLFLAcKvEE 234 (323)
-|.++|..|++|..-+...+++.+++...... ++--++.+..+|+.+.+|+|+
T Consensus 12 tl~~Lc~~~~i~l~dl~L~CvFC~~~Lt~~E~~~F~~k~L~lVwR~g~pyg~C~~Cl~~~a~~e~ 76 (150)
T PHA02779 12 TIDQLCKQCNLTMHTLQINCVFCKSILQTAEVYSFAYKELYVVWRGDFPFAACAKCLEFYGKVNQ 76 (150)
T ss_pred cHHHHHHHHCCCHHHhEeEeeecCCcCCHHHHHHHHhCCcEEEEECCEeeEEcHHHHHHHHHHHH
Confidence 47899999999999999999998888754322 233477899999999999985
Done!