Query psy4747
Match_columns 414
No_of_seqs 234 out of 1783
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 16:36:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4747.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4747hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0834|consensus 100.0 2.8E-45 6.2E-50 359.9 19.4 244 39-287 8-254 (323)
2 KOG0794|consensus 100.0 6.5E-40 1.4E-44 301.3 11.3 254 21-298 1-257 (264)
3 KOG0835|consensus 100.0 1.2E-37 2.6E-42 298.9 16.8 221 49-280 3-231 (367)
4 TIGR00569 ccl1 cyclin ccl1. Un 100.0 4.2E-37 9.2E-42 302.4 20.8 224 36-277 3-251 (305)
5 COG5333 CCL1 Cdk activating ki 100.0 2.3E-28 4.9E-33 235.3 16.7 175 60-241 36-210 (297)
6 KOG0656|consensus 99.9 8.5E-25 1.8E-29 215.3 14.7 169 57-236 66-239 (335)
7 KOG0653|consensus 99.9 1.7E-24 3.7E-29 221.1 12.2 227 29-279 118-346 (391)
8 KOG2496|consensus 99.9 2.1E-23 4.5E-28 199.5 10.2 195 36-240 4-225 (325)
9 COG5024 Cyclin [Cell division 99.9 4.2E-23 9E-28 210.1 11.8 236 24-284 167-405 (440)
10 KOG0655|consensus 99.9 5.8E-23 1.3E-27 197.9 10.1 193 59-280 135-337 (408)
11 PRK00423 tfb transcription ini 99.8 6.6E-20 1.4E-24 182.0 21.2 182 70-278 123-304 (310)
12 KOG0654|consensus 99.7 2.1E-18 4.7E-23 171.5 8.2 224 37-285 102-329 (359)
13 PF00134 Cyclin_N: Cyclin, N-t 99.7 7E-18 1.5E-22 144.9 6.9 102 63-175 25-127 (127)
14 COG1405 SUA7 Transcription ini 99.6 1.7E-14 3.6E-19 141.0 17.9 182 70-278 98-279 (285)
15 KOG1597|consensus 99.6 2.9E-14 6.3E-19 136.6 17.1 181 69-276 104-286 (308)
16 cd00043 CYCLIN Cyclin box fold 99.4 8.5E-13 1.9E-17 104.3 7.6 87 69-167 2-88 (88)
17 smart00385 CYCLIN domain prese 99.3 4.3E-12 9.3E-17 99.3 6.3 83 74-168 1-83 (83)
18 PF02984 Cyclin_C: Cyclin, C-t 99.0 1.1E-09 2.4E-14 92.3 7.3 93 177-282 1-93 (118)
19 KOG1598|consensus 98.9 7.5E-09 1.6E-13 107.0 9.4 165 62-241 60-227 (521)
20 PF00382 TFIIB: Transcription 98.4 5E-07 1.1E-11 70.3 5.7 65 76-140 1-65 (71)
21 smart00385 CYCLIN domain prese 98.4 1.7E-06 3.8E-11 67.2 8.6 81 181-275 1-82 (83)
22 cd00043 CYCLIN Cyclin box fold 98.3 5.2E-06 1.1E-10 65.1 9.4 85 176-274 2-87 (88)
23 KOG4164|consensus 98.2 1.4E-06 3E-11 87.0 5.3 98 71-177 384-482 (497)
24 PF08613 Cyclin: Cyclin; Inte 97.9 3.6E-05 7.7E-10 68.7 8.4 90 72-174 54-149 (149)
25 PRK00423 tfb transcription ini 97.7 0.00012 2.7E-09 73.0 8.8 89 73-174 220-308 (310)
26 PF00382 TFIIB: Transcription 97.5 0.00054 1.2E-08 53.1 8.0 56 183-242 1-56 (71)
27 COG1405 SUA7 Transcription ini 96.0 0.028 6.1E-07 55.4 8.4 68 73-140 195-262 (285)
28 PF00134 Cyclin_N: Cyclin, N-t 94.7 0.23 4.9E-06 42.0 8.8 88 181-279 36-123 (127)
29 KOG1597|consensus 93.8 0.16 3.4E-06 49.9 6.6 68 72-139 203-270 (308)
30 KOG1674|consensus 93.3 0.15 3.4E-06 48.4 5.5 91 74-177 80-181 (218)
31 PF01857 RB_B: Retinoblastoma- 92.4 0.37 8E-06 42.4 6.3 70 72-141 14-85 (135)
32 PF02984 Cyclin_C: Cyclin, C-t 86.6 0.9 1.9E-05 37.5 3.9 56 73-128 4-59 (118)
33 TIGR00569 ccl1 cyclin ccl1. Un 86.0 1.9 4.2E-05 43.1 6.5 55 182-240 62-118 (305)
34 KOG0835|consensus 85.1 0.83 1.8E-05 45.6 3.4 58 73-130 142-201 (367)
35 KOG0834|consensus 82.1 0.99 2.2E-05 45.4 2.6 56 74-129 153-212 (323)
36 KOG1675|consensus 81.7 1.7 3.8E-05 43.0 4.0 92 75-179 196-291 (343)
37 KOG0656|consensus 73.9 10 0.00022 38.3 7.0 83 156-242 49-143 (335)
38 KOG1598|consensus 70.9 4.9 0.00011 42.7 4.1 56 87-142 184-239 (521)
39 PF08613 Cyclin: Cyclin; Inte 70.7 40 0.00087 29.7 9.4 90 177-279 52-146 (149)
40 COG5333 CCL1 Cdk activating ki 63.4 12 0.00027 37.1 4.9 54 181-238 50-103 (297)
41 PF01857 RB_B: Retinoblastoma- 58.8 34 0.00075 30.0 6.5 54 182-239 17-72 (135)
42 KOG0794|consensus 57.1 16 0.00034 35.1 4.3 80 197-278 58-144 (264)
43 KOG1010|consensus 50.6 18 0.0004 40.6 4.1 68 73-140 681-750 (920)
44 KOG2496|consensus 44.4 50 0.0011 33.0 5.7 41 199-239 77-117 (325)
45 PF12238 MSA-2c: Merozoite sur 34.1 3.8E+02 0.0082 25.4 9.5 13 263-275 103-115 (205)
46 PF09080 K-cyclin_vir_C: K cyc 32.6 2.8E+02 0.006 22.7 8.4 93 181-278 6-99 (106)
47 KOG1924|consensus 30.3 2.4E+02 0.0052 32.0 8.5 13 199-211 386-398 (1102)
48 KOG1924|consensus 30.2 5.5E+02 0.012 29.4 11.2 11 371-381 591-601 (1102)
49 COG5024 Cyclin [Cell division 29.1 1.5E+02 0.0033 31.3 6.7 85 198-289 231-315 (440)
50 PF13591 MerR_2: MerR HTH fami 29.0 93 0.002 24.7 4.1 41 41-101 33-73 (84)
51 KOG2675|consensus 28.2 2.8E+02 0.0062 29.2 8.3 42 325-371 293-334 (480)
52 KOG0653|consensus 22.7 2.1E+02 0.0046 29.5 6.4 74 199-279 177-251 (391)
No 1
>KOG0834|consensus
Probab=100.00 E-value=2.8e-45 Score=359.91 Aligned_cols=244 Identities=48% Similarity=0.849 Sum_probs=225.1
Q ss_pred ccccCCcCHHHHh-cCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhh
Q psy4747 39 TMPYWYFDKKDIR-NSPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASC 117 (414)
Q Consensus 39 ~~~~W~ft~eeL~-~~pS~~~gis~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~A 117 (414)
....|||+++|++ ++||+++|++.+.|...|..++.||+++|.+|++++.++++|++||||||+..++++++.+.||++
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 4679999999996 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhccccCCCCCHHHHHHHHhhhcccc--cccccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHHHHHcCCChh
Q psy4747 118 CLFLAGKVEETPKKCKDVIKTARMLVDDK--KFKTFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKT 195 (414)
Q Consensus 118 CLfLA~K~EE~p~~l~~lv~v~~~~~~~~--~~~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~l~~l~~~~~ 195 (414)
|||||+|+||++++++||+++++..+.+. ...+.+++.++.|+..|++||++|+|||+|.+||.||.+|++.++.+.+
T Consensus 88 clfLAgKvEetp~kl~dIi~~s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~ 167 (323)
T KOG0834|consen 88 CLFLAGKVEETPRKLEDIIKVSYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADEN 167 (323)
T ss_pred HHHHHhhcccCcccHHHHHHHHHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhh
Confidence 99999999999999999999999988874 2334456789999999999999999999999999999999999999886
Q ss_pred HHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHHHHH
Q psy4747 196 KLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVL 275 (414)
Q Consensus 196 ~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~~il 275 (414)
....+.+.||.+++|++.+.+||.|+|..||+|||++|+++.|+..+.+.. ..||+.|..+++.++|.+++++++
T Consensus 168 ~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~-----~~w~~~~d~~vt~e~l~~i~~~~l 242 (323)
T KOG0834|consen 168 LKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTD-----KRWWREFDETVTNELLDDICHEFL 242 (323)
T ss_pred ccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcc-----cchhhhhcccCCHHHHHHHHHHHH
Confidence 555799999999999999999999999999999999999999997776443 289999987899999999999999
Q ss_pred HHHhhcccccCC
Q psy4747 276 DLYSQSQQQASQ 287 (414)
Q Consensus 276 ~ly~~~~~~~~~ 287 (414)
.+|++.......
T Consensus 243 ~~y~~~~~~~~~ 254 (323)
T KOG0834|consen 243 DLYEQTPQRNHL 254 (323)
T ss_pred HHHhhccccccc
Confidence 999987655444
No 2
>KOG0794|consensus
Probab=100.00 E-value=6.5e-40 Score=301.29 Aligned_cols=254 Identities=27% Similarity=0.474 Sum_probs=216.2
Q ss_pred cCCCcccccchhhhhcccccccCCcCHHHHhc-CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy4747 21 VKGNSVLFEHQICLIESVTMPYWYFDKKDIRN-SPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHR 99 (414)
Q Consensus 21 ~~~~~~~~~~~~~~~~s~~~~~W~ft~eeL~~-~pS~~~gis~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdR 99 (414)
+.|||| .|+++.+|+|+++|+.. .+-...|++.++-.+++....+.|+.+|.+++|.+.+++||++||+|
T Consensus 1 MA~NFW---------~SSh~~qwl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rR 71 (264)
T KOG0794|consen 1 MAGNFW---------TSSHYQQWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRR 71 (264)
T ss_pred CCcchh---------hhhhhhhHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357888 68889999999999944 33345688888888899999999999999999999999999999999
Q ss_pred HhhcCccccCCceehhhhhhhhhccccCCC-CCHHHHHHHHhhhccccccc-ccCCCcHHHHHHHHHHHHHHcCCccccc
Q psy4747 100 FYMYHSFKTFPRYVTASCCLFLAGKVEETP-KKCKDVIKTARMLVDDKKFK-TFGDDPREEVMTLERILLQTIKFDLQVD 177 (414)
Q Consensus 100 F~~~~si~~~~l~lVa~ACLfLA~K~EE~p-~~l~~lv~v~~~~~~~~~~~-~~~~~~k~~Il~~E~~IL~~L~FdL~v~ 177 (414)
||.++|++++++.+++.||||||||+||.+ ..++-+++.+..+.+.-.++ +........|+++|+.||+.|++-|.|.
T Consensus 72 fy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVh 151 (264)
T KOG0794|consen 72 FYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVH 151 (264)
T ss_pred HHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEe
Confidence 999999999999999999999999999998 56677777665552211111 1111236789999999999999999999
Q ss_pred CHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhH
Q psy4747 178 HPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEM 257 (414)
Q Consensus 178 ~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~ 257 (414)
+|++-|..+++.++.... ++.+.+|.++||++++++||.|+|.+||+|||++|+.+.+.+.+ +.|+..
T Consensus 152 HPYrsL~q~~qd~gi~d~---~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~---------~~w~~e 219 (264)
T KOG0794|consen 152 HPYRSLLQFVQDMGINDQ---KLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIP---------KAWFAE 219 (264)
T ss_pred cCCccHHHHHHHhcccch---hhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChH---------HHHHHH
Confidence 999999999999988543 68899999999999999999999999999999999999987764 478888
Q ss_pred hhcCCCHHHHHHHHHHHHHHHhhcccccCCCCCCCCCCCCC
Q psy4747 258 FVEDMTMDLLEDICHQVLDLYSQSQQQASQQDSPPQTQPEP 298 (414)
Q Consensus 258 ~~~~vt~~~l~~~~~~il~ly~~~~~~~~~~~~~~~~~~~~ 298 (414)
+ +++.+.+.+|+++|+++|+.++..+++. ......+-+
T Consensus 220 l--~vD~ekV~~~v~~I~~lYe~wk~~~E~~-v~~ll~kl~ 257 (264)
T KOG0794|consen 220 L--SVDMEKVKDIVQEILKLYELWKIFDEKK-VKKLLSKLP 257 (264)
T ss_pred H--hccHHHHHHHHHHHHHHHHHHhhhhHHH-HHHHHHhcc
Confidence 8 7899999999999999999999999886 443333333
No 3
>KOG0835|consensus
Probab=100.00 E-value=1.2e-37 Score=298.95 Aligned_cols=221 Identities=32% Similarity=0.593 Sum_probs=201.0
Q ss_pred HHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCC
Q psy4747 49 DIRNSPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEET 128 (414)
Q Consensus 49 eL~~~pS~~~gis~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~ 128 (414)
.|.++|+..+|++.+.|..+|..+++||++.|..|+|++.+.+++.++|+|||..+++.++++..|++||++||+|+||.
T Consensus 3 ~i~~~~s~qd~l~~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~ 82 (367)
T KOG0835|consen 3 KIDSTPSLQDGLSLETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE 82 (367)
T ss_pred cccCchhhhcccccchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc
Confidence 35677888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHhhhcccccc--------cccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHHHHHcCCChhHHHHH
Q psy4747 129 PKKCKDVIKTARMLVDDKKF--------KTFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKM 200 (414)
Q Consensus 129 p~~l~~lv~v~~~~~~~~~~--------~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~l~~l~~~~~~~~~v 200 (414)
|+++++|++|++.+...... .......+..++++|+.||++|||+++|.+||.++..|++.|+...+. ++
T Consensus 83 Prr~rdVinVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~--~l 160 (367)
T KOG0835|consen 83 PRRIRDVINVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNL--KL 160 (367)
T ss_pred cccHhHHHHHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCch--hH
Confidence 99999999999876432211 111224578999999999999999999999999999999999998764 68
Q ss_pred HHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHHHHHHHHhh
Q psy4747 201 LQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLYSQ 280 (414)
Q Consensus 201 ~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~~il~ly~~ 280 (414)
.+.+|.|+||++.+++|+.|+|+.||+||||+|++.+++.+| ....||..| +.++++|.++|-+++.+|.+
T Consensus 161 ~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp-------~~P~Wf~~F--d~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLP-------FQPHWFKAF--DTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred HHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCC-------CCccHHHHc--CCcHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999987665 344899999 78999999999999999998
No 4
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=4.2e-37 Score=302.37 Aligned_cols=224 Identities=21% Similarity=0.297 Sum_probs=186.9
Q ss_pred cccccccCCcC-HHHHhcCC-------------------CCCCCCCHHHHHHHHHHHHHHHHHHHHHcC--CCHHHHHHH
Q psy4747 36 ESVTMPYWYFD-KKDIRNSP-------------------SFREGIDYETEQRYRREGARFIIDCGTKMD--LGYNTMATG 93 (414)
Q Consensus 36 ~s~~~~~W~ft-~eeL~~~p-------------------S~~~gis~e~E~~~R~~~v~~I~~v~~~Lk--L~~~t~~tA 93 (414)
+|+|.++|.|+ +++|...+ ....+++.++|..+|..++.+|.++|.+|+ |++.|++||
T Consensus 3 ~StQ~r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~~~~~~~~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~viaTA 82 (305)
T TIGR00569 3 NSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVGTA 82 (305)
T ss_pred CCcccccCcCCCHHHHHHHHHHHHHHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHH
Confidence 69999999999 88884322 123489999999999999999999999999 999999999
Q ss_pred HHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhhcccccccccCCCcHHHHHHHHHHHHHHcCCc
Q psy4747 94 VVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFD 173 (414)
Q Consensus 94 i~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~Fd 173 (414)
++||||||++++++++++++|++||||||||+||.+++++++++..... . ...+++|+++|+.||+.|+|+
T Consensus 83 ivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~~-----~----~~~~~~Il~~E~~lL~~L~F~ 153 (305)
T TIGR00569 83 IMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKET-----P----LKALEQVLEYELLLIQQLNFH 153 (305)
T ss_pred HHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccCC-----c----hhhHHHHHHHHHHHHHHCCCc
Confidence 9999999999999999999999999999999999999999998754211 0 124689999999999999999
Q ss_pred ccccCHHHHHHHHHHHcCCC---hhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCccccccccccc
Q psy4747 174 LQVDHPYSFLLKYAKSLKGD---KTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSK 250 (414)
Q Consensus 174 L~v~~P~~~L~~~l~~l~~~---~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~ 250 (414)
|.+.+||++|..|+..++.. ....+.+.+.||.++||++++++|+.|+|++||+||||+|.+.+|++++..
T Consensus 154 L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~~~l~~~------ 227 (305)
T TIGR00569 154 LIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESY------ 227 (305)
T ss_pred EEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhCCCCccc------
Confidence 99999999999999766421 112246899999999999999999999999999999999999999887642
Q ss_pred ccchhhHhhcCCCHHHHHHHHHHHHHH
Q psy4747 251 HLRWWEMFVEDMTMDLLEDICHQVLDL 277 (414)
Q Consensus 251 ~~~W~~~~~~~vt~~~l~~~~~~il~l 277 (414)
.| +.+...-+.+++..++..|.++
T Consensus 228 --~~-e~~~~~~~~~~~~~l~~~~~~~ 251 (305)
T TIGR00569 228 --LT-EQLSVPGNREELPQLIDIMREL 251 (305)
T ss_pred --ch-hhhcccccHHHHHHHHHHHHHH
Confidence 23 5564333556655555544444
No 5
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.96 E-value=2.3e-28 Score=235.32 Aligned_cols=175 Identities=34% Similarity=0.581 Sum_probs=157.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHH
Q psy4747 60 IDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTA 139 (414)
Q Consensus 60 is~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~ 139 (414)
+..+.|..+|..+..||+++|.+|+||..+++||+.+|+||+.++++++.+++.|+.||||||||+||+++.+.-.....
T Consensus 36 l~~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~~~~I~i~~~~~ 115 (297)
T COG5333 36 LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEA 115 (297)
T ss_pred cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccchhhHHHHHh
Confidence 77799999999999999999999999999999999999999999999999999999999999999999877666555555
Q ss_pred hhhcccccccccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCC
Q psy4747 140 RMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQ 219 (414)
Q Consensus 140 ~~~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~ 219 (414)
+.+++ ...+..|++|+++|+.||+.|+||+.|++||.++.+|++.++.... .++.+.||.+++|++.+++|+.
T Consensus 116 ~~~~s-----e~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~--~~~~~~aw~~inDa~~t~~~ll 188 (297)
T COG5333 116 RDLWS-----EEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK--YKLLQIAWKIINDALRTDLCLL 188 (297)
T ss_pred hcccc-----ccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH--HHHHHHHHHHHHhhhhceeeee
Confidence 44433 2334569999999999999999999999999999999999876553 3699999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHhcCCcc
Q psy4747 220 WEPEIIAVALMYLAGKLSKFEV 241 (414)
Q Consensus 220 y~Ps~IAaA~I~lA~~~~~~~~ 241 (414)
|+|+.||+||+.+|+...|.+.
T Consensus 189 ypphiIA~a~l~ia~~~~~~~~ 210 (297)
T COG5333 189 YPPHIIALAALLIACEVLGMPI 210 (297)
T ss_pred cChHHHHHHHHHHHHHhcCCcc
Confidence 9999999999999999987654
No 6
>KOG0656|consensus
Probab=99.92 E-value=8.5e-25 Score=215.26 Aligned_cols=169 Identities=18% Similarity=0.267 Sum_probs=145.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCC---ceehhhhhhhhhccccCCC-CCH
Q psy4747 57 REGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFP---RYVTASCCLFLAGKVEETP-KKC 132 (414)
Q Consensus 57 ~~gis~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~---l~lVa~ACLfLA~K~EE~p-~~l 132 (414)
+.+++...-..+|..+++||.++|..+++...+..+|++|||||+..+.+.+.+ +|++|+|||+||+|+||+. +.+
T Consensus 66 ~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll 145 (335)
T KOG0656|consen 66 FLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLL 145 (335)
T ss_pred hhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchh
Confidence 345556666668999999999999999999999999999999999999999999 9999999999999999993 445
Q ss_pred HHHHH-HHhhhcccccccccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhh
Q psy4747 133 KDVIK-TARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDS 211 (414)
Q Consensus 133 ~~lv~-v~~~~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~ds 211 (414)
.|+.- ...+.+. .+.|.+||.+||.+|+|+++..||+.|+..|+.++.........+...+..++-..
T Consensus 146 ~dl~v~~~~~~fe-----------aktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~ 214 (335)
T KOG0656|consen 146 ADLQVEYTDNVFE-----------AKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSV 214 (335)
T ss_pred hhhhhcccccccc-----------HHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHH
Confidence 55443 2233332 68999999999999999999999999999999999886544557888999999999
Q ss_pred hcCcccCCCCHHHHHHHHHHHHHHh
Q psy4747 212 LCTTLCLQWEPEIIAVALMYLAGKL 236 (414)
Q Consensus 212 l~t~l~l~y~Ps~IAaA~I~lA~~~ 236 (414)
..+.-++.|+||+||+|++..+...
T Consensus 215 ~~d~~Fl~y~pSviAaa~~~~v~~~ 239 (335)
T KOG0656|consen 215 ITDIKFLEYPPSVIAAAAILSVSAS 239 (335)
T ss_pred hhhhhhhcCChHHHHHHHHHHHHHh
Confidence 9999999999999999988666553
No 7
>KOG0653|consensus
Probab=99.91 E-value=1.7e-24 Score=221.12 Aligned_cols=227 Identities=20% Similarity=0.236 Sum_probs=184.2
Q ss_pred cchhhhhcccccccCCcCHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCcccc
Q psy4747 29 EHQICLIESVTMPYWYFDKKDIRNSPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKT 108 (414)
Q Consensus 29 ~~~~~~~~s~~~~~W~ft~eeL~~~pS~~~gis~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~ 108 (414)
+..++.+++++++.-++...|.+..|.....-+.+....||..++|||.+++.+|+|..+|+++|++++|||+.+..+..
T Consensus 118 ~~~~~~~ey~~di~~~l~~~e~~~~p~~~~~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~ 197 (391)
T KOG0653|consen 118 SDPSMIVEYVQDIFEYLRQLELEFLPLSYDISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPL 197 (391)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHhhCchhhhcccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccH
Confidence 44445667777777666665533344434444555566899999999999999999999999999999999999988999
Q ss_pred CCceehhhhhhh-hhccccCC-CCCHHHHHHHHhhhcccccccccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHH
Q psy4747 109 FPRYVTASCCLF-LAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKY 186 (414)
Q Consensus 109 ~~l~lVa~ACLf-LA~K~EE~-p~~l~~lv~v~~~~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~ 186 (414)
.++++||++||| ||||+||. .+.++|++.++++.++ +++|++||+.||.+|+|++.+++|+.||.+|
T Consensus 198 ~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s-----------~~~il~mE~~il~~L~f~l~~p~~~~FLrr~ 266 (391)
T KOG0653|consen 198 KKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYS-----------REEILRMEKYILNVLEFDLSVPTPLSFLRRF 266 (391)
T ss_pred HHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccc-----------hHHHHHHHHHHHhccCeeecCCchHHHHHHH
Confidence 999999999977 99999998 5568999888766554 7999999999999999999999999999999
Q ss_pred HHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhcCCCHHH
Q psy4747 187 AKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDL 266 (414)
Q Consensus 187 l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~ 266 (414)
.+....+. ....++.++++.++.++-++.++|+.+|+|+++++..+.+.+. .|.... .+..++...+
T Consensus 267 ~ka~~~d~----~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~-~w~~~~--------~~~sg~~~~~ 333 (391)
T KOG0653|consen 267 LKAADYDI----KTRTLVKYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGD-VWSPTL--------EHYSGYSESY 333 (391)
T ss_pred HHhhhcch----hHHHHHHHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCC-ccCCCC--------eeccCCCcHH
Confidence 99988655 5788899999999999999999999999999999999987642 344432 1223555556
Q ss_pred HHHHHHHHHHHHh
Q psy4747 267 LEDICHQVLDLYS 279 (414)
Q Consensus 267 l~~~~~~il~ly~ 279 (414)
+.++.+.+..+..
T Consensus 334 ~~~~~~~~~~~~~ 346 (391)
T KOG0653|consen 334 LFECARSLSALSL 346 (391)
T ss_pred HHHHHHHHHHHHH
Confidence 6676666666433
No 8
>KOG2496|consensus
Probab=99.89 E-value=2.1e-23 Score=199.47 Aligned_cols=195 Identities=23% Similarity=0.342 Sum_probs=152.5
Q ss_pred cccccccCCcCHHHHhcCCC-------------------CCCCCCHHHHHHHHHHHHHHHHHHHHHcC--CCHHHHHHHH
Q psy4747 36 ESVTMPYWYFDKKDIRNSPS-------------------FREGIDYETEQRYRREGARFIIDCGTKMD--LGYNTMATGV 94 (414)
Q Consensus 36 ~s~~~~~W~ft~eeL~~~pS-------------------~~~gis~e~E~~~R~~~v~~I~~v~~~Lk--L~~~t~~tAi 94 (414)
.|+|++.|.|++++|...+. ..-.+..+.|..+-+....-+.+.+.+++ ||..|..||+
T Consensus 4 ~Ssq~r~W~fte~qL~e~r~~~N~k~i~~~ee~~~~~~~~e~~v~~~ee~tl~k~~E~~l~~f~~k~~p~lp~~Vv~TA~ 83 (325)
T KOG2496|consen 4 TSSQYRKWIFTEEQLAERRVDANQKAIQMLEEEAHNLDENEVFVLEAEELTLTKEEELSLVNFYSKFKPNLPTSVVSTAI 83 (325)
T ss_pred cchhhhcccccHHHHHHHHHHHHHHHHHHHHHhccCCCccchhccccccccccHHHHHHHHHHHHHhcCCCchHHHHHHH
Confidence 68999999999999954321 00123333344444555555667777664 8999999999
Q ss_pred HHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhhcccccccccCCCcHHHHHHHHHHHHHHcCCcc
Q psy4747 95 VFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDL 174 (414)
Q Consensus 95 ~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL 174 (414)
.+|+|||..++++++++..|++||+|||||+||..+++++|++... .+. +...+.|++.|..+|+.|+|+|
T Consensus 84 ~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~---~~~------~k~~e~vLk~E~~llqsL~f~L 154 (325)
T KOG2496|consen 84 EFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMN---GRK------WKTHEIVLKYEFLLLQSLKFSL 154 (325)
T ss_pred HHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhcc---Ccc------cccHHHHHhchHHHHHhhhhhh
Confidence 9999999999999999999999999999999999999999998754 111 1347899999999999999999
Q ss_pred cccCHHHHHHHHHHHcCC------ChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCc
Q psy4747 175 QVDHPYSFLLKYAKSLKG------DKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFE 240 (414)
Q Consensus 175 ~v~~P~~~L~~~l~~l~~------~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~ 240 (414)
.+.+|++-|..|+..++. +.+ ..........+++.+++++.++.|+|++||+|||..|.-..|..
T Consensus 155 ~vh~PyRPleGFl~D~kt~l~~~~n~d-~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a~~~~~~~ 225 (325)
T KOG2496|consen 155 TVHNPYRPLEGFLLDMKTRLPALENPD-ILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHAAGRTGET 225 (325)
T ss_pred eecCCCCchHHHHHHHHHHHHhccCHH-HHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHHhccccch
Confidence 999999999999987642 111 11222233689999999999999999999999996665555543
No 9
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.89 E-value=4.2e-23 Score=210.10 Aligned_cols=236 Identities=19% Similarity=0.185 Sum_probs=195.9
Q ss_pred CcccccchhhhhcccccccCCcCHHHHhcCCCCCCCCCH--HHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHh
Q psy4747 24 NSVLFEHQICLIESVTMPYWYFDKKDIRNSPSFREGIDY--ETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFY 101 (414)
Q Consensus 24 ~~~~~~~~~~~~~s~~~~~W~ft~eeL~~~pS~~~gis~--e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~ 101 (414)
+..-.++...+.|+..++--|+.+.|+...|.... +.. +-+..||..+++||.+++.+|+|-++|+.+|++++|||+
T Consensus 167 d~~~~~d~~mv~Ey~~~Ife~l~k~e~~~lp~~~y-l~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfL 245 (440)
T COG5024 167 DATDQEDPLMVPEYASDIFEYLLKLELIDLPNPNY-LIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFL 245 (440)
T ss_pred ccccccCccchHHHHHHHHHHHHHHHHHhcCcHHH-HhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHh
Confidence 33444556666777777777888888877765443 333 334579999999999999999999999999999999999
Q ss_pred hcCccccCCceehhhhhhhhhccccCC-CCCHHHHHHHHhhhcccccccccCCCcHHHHHHHHHHHHHHcCCcccccCHH
Q psy4747 102 MYHSFKTFPRYVTASCCLFLAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQVDHPY 180 (414)
Q Consensus 102 ~~~si~~~~l~lVa~ACLfLA~K~EE~-p~~l~~lv~v~~~~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~ 180 (414)
..+.+.-..+++||++|||||||+||+ .+.+++++.++.+.++ +++|+++|+.+|..|+|++..+.|.
T Consensus 246 s~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t-----------~~~i~~aE~~ml~~l~f~is~P~P~ 314 (440)
T COG5024 246 SSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFT-----------RDDIIRAERYMLEVLDFNISWPSPM 314 (440)
T ss_pred ccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHccccc-----------HHHHHHHHHHHhhhcccccCCCChH
Confidence 999999999999999999999999999 5578999998877665 7999999999999999999999999
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhc
Q psy4747 181 SFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVE 260 (414)
Q Consensus 181 ~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~ 260 (414)
-||+++.+.-+.+. ..+..+.++++.+....-++.+.|+.+|+||.|+|+++++.+ +|.+.+.. +.+
T Consensus 315 sFLRriSka~dyd~----~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~--~w~~~l~~-------ySg 381 (440)
T COG5024 315 SFLRRISKASDYDI----FSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQN--QWDRTLIH-------YSG 381 (440)
T ss_pred HHHHHHHhhcccch----hhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccC--CCCccccc-------cCC
Confidence 99999998877665 566789999999999999999999999999999999999854 25554321 222
Q ss_pred CCCHHHHHHHHHHHHHHHhhcccc
Q psy4747 261 DMTMDLLEDICHQVLDLYSQSQQQ 284 (414)
Q Consensus 261 ~vt~~~l~~~~~~il~ly~~~~~~ 284 (414)
|++.+++..++..+++........
T Consensus 382 ~y~~~~l~~~~~~~~~~l~~~~~~ 405 (440)
T COG5024 382 NYTNPDLKPLNESNKENLQNPSVH 405 (440)
T ss_pred CCCchhHHHHHHHHHHHhcccchh
Confidence 478889999999988866654433
No 10
>KOG0655|consensus
Probab=99.88 E-value=5.8e-23 Score=197.89 Aligned_cols=193 Identities=18% Similarity=0.242 Sum_probs=156.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhc-CccccCCceehhhhhhhhhccccCC-CCCHHHHH
Q psy4747 59 GIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMY-HSFKTFPRYVTASCCLFLAGKVEET-PKKCKDVI 136 (414)
Q Consensus 59 gis~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~-~si~~~~l~lVa~ACLfLA~K~EE~-p~~l~~lv 136 (414)
+..+..+.+||+.++|||+++|+.++|..+|+++|+.|||||+.. ..+.+.++|+||+||||+|+|+||. |+++.+|.
T Consensus 135 ~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFA 214 (408)
T KOG0655|consen 135 EQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFA 214 (408)
T ss_pred hhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCcccccee
Confidence 444555778899999999999999999999999999999999965 4677889999999999999999999 89999999
Q ss_pred HHHhhhcccccccccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHHHHHcCCChh--------HHHHHHHHHHHHH
Q psy4747 137 KTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKT--------KLEKMLQMAWTFV 208 (414)
Q Consensus 137 ~v~~~~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~l~~l~~~~~--------~~~~v~~~A~~ll 208 (414)
.++.+.++ -++|+.||.+||+.|+|+|...+...+|.-|++....++. ......+.| .+|
T Consensus 215 yvTDgAcs-----------~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~~efiqia-qlL 282 (408)
T KOG0655|consen 215 YVTDGACS-----------EDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQEEFIQIA-QLL 282 (408)
T ss_pred eeccCccc-----------hHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccchHHHHHHH-HHH
Confidence 99887766 5899999999999999999999999999999998654331 112445555 477
Q ss_pred HhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHHHHHHHHhh
Q psy4747 209 NDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLYSQ 280 (414)
Q Consensus 209 ~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~~il~ly~~ 280 (414)
..+...--++.|+-+.||||+|+.-.... +.. -..|+.+..|++|++-|.-+.+-
T Consensus 283 Dlc~ldids~~fsYrilaAAal~h~~s~e---~v~--------------kaSG~~w~~ie~cv~wm~Pf~rv 337 (408)
T KOG0655|consen 283 DLCILDIDSLEFSYRILAAAALCHFTSIE---VVK--------------KASGLEWDSIEECVDWMVPFVRV 337 (408)
T ss_pred HHHHhccccccchHHHHHHHHHHHHhHHH---HHH--------------HcccccHHHHHHHHHHHHHHHHH
Confidence 88888889999999999999998544321 110 11267788888887777655443
No 11
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.85 E-value=6.6e-20 Score=182.02 Aligned_cols=182 Identities=14% Similarity=0.161 Sum_probs=162.8
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhhccccccc
Q psy4747 70 REGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFK 149 (414)
Q Consensus 70 ~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~~~~~~~~ 149 (414)
..+...|.++|..|+||..+..+|..||++++..+.+++.+...+++||||+|||.|+.|++++||..++..
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~v-------- 194 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSRV-------- 194 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCC--------
Confidence 556788999999999999999999999999999999999999999999999999999999999999988632
Q ss_pred ccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHH
Q psy4747 150 TFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVAL 229 (414)
Q Consensus 150 ~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~ 229 (414)
.+++|.+.++.|++.|++++...+|++|+.+|+..|+.+. .+.+.|+.+++++....++.+.+|..||+||
T Consensus 195 -----~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~----~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAa 265 (310)
T PRK00423 195 -----SRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG----EVQKKAIEILQKAKEKGLTSGKGPTGLAAAA 265 (310)
T ss_pred -----CHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHhcCcccCCCHHHHHHHH
Confidence 3789999999999999999999999999999999999987 6899999999999988899999999999999
Q ss_pred HHHHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHHHHHHHH
Q psy4747 230 MYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLY 278 (414)
Q Consensus 230 I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~~il~ly 278 (414)
||+|++++|.+.... .-.+. .++++.+|....++|....
T Consensus 266 IYlA~~~~g~~~t~k--------eIa~v--~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 266 IYIASLLLGERRTQR--------EVAEV--AGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred HHHHHHHhCCCCCHH--------HHHHH--cCCCHHHHHHHHHHHHHHh
Confidence 999999998765321 11122 2899999999999988754
No 12
>KOG0654|consensus
Probab=99.74 E-value=2.1e-18 Score=171.52 Aligned_cols=224 Identities=17% Similarity=0.224 Sum_probs=183.9
Q ss_pred ccccccCCcCHHHHh-cCC--CCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCcee
Q psy4747 37 SVTMPYWYFDKKDIR-NSP--SFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYV 113 (414)
Q Consensus 37 s~~~~~W~ft~eeL~-~~p--S~~~gis~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~l 113 (414)
+.-.+.=+++..|+. ..| +....++.+....||..+++|++++++..++..++++++.++.|||+....+.+...++
T Consensus 102 ~~~~I~~~~r~~ei~~~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql 181 (359)
T KOG0654|consen 102 IAAKIYNTLRVSDIKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQL 181 (359)
T ss_pred HHHHHhhcccccchhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHH
Confidence 333333344444443 322 23345566677789999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhhccccCC-CCCHHHHHHHHhhhcccccccccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHHHHHcCC
Q psy4747 114 TASCCLFLAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKG 192 (414)
Q Consensus 114 Va~ACLfLA~K~EE~-p~~l~~lv~v~~~~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~l~~l~~ 192 (414)
++.+|.+||+|+||. ++.+++++..+.+.+. +.++..||..+|..|.|++..++...|+.+|+.....
T Consensus 182 ~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~-----------~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~ 250 (359)
T KOG0654|consen 182 VGISAMLIASKYEEIKEPRVEEFCYITDNTYT-----------YWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQT 250 (359)
T ss_pred hCcccceeeccchhhcchHHHHHHhhhhhhhH-----------HHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcc
Confidence 999999999999998 7789999998866554 7899999999999999999999999999999988775
Q ss_pred ChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHH
Q psy4747 193 DKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICH 272 (414)
Q Consensus 193 ~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~ 272 (414)
.. .++..++.++.+.++.++.++.|.||.||+||+++|...++ .--|+..+. -.++|+.+++..|..
T Consensus 251 ~~---~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~--~~pW~~~L~--------~~T~y~~edl~~~v~ 317 (359)
T KOG0654|consen 251 PE---LQVEPLANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD--FHPWNQTLE--------DYTGYKAEDLKPCVL 317 (359)
T ss_pred hh---HHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc--CCCCchhhH--------HhhcccHHHHHHHHH
Confidence 22 27889999999999999999999999999999999999887 222443321 113899999999999
Q ss_pred HHHHHHhhccccc
Q psy4747 273 QVLDLYSQSQQQA 285 (414)
Q Consensus 273 ~il~ly~~~~~~~ 285 (414)
.|. +|...++.+
T Consensus 318 ~L~-~~l~~~~~~ 329 (359)
T KOG0654|consen 318 DLH-LYLNASGTD 329 (359)
T ss_pred HHh-cccCCCCCc
Confidence 988 777665543
No 13
>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=99.72 E-value=7e-18 Score=144.93 Aligned_cols=102 Identities=26% Similarity=0.476 Sum_probs=87.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCC-CCCHHHHHHHHhh
Q psy4747 63 ETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEET-PKKCKDVIKTARM 141 (414)
Q Consensus 63 e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~-p~~l~~lv~v~~~ 141 (414)
+.....|..+++||.+++..++++..++++|+.|||||+.+..+...+++++++|||+||||+||. +.++++++.++.+
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 556688999999999999999999999999999999999999999999999999999999999999 7889999988743
Q ss_pred hcccccccccCCCcHHHHHHHHHHHHHHcCCccc
Q psy4747 142 LVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQ 175 (414)
Q Consensus 142 ~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL~ 175 (414)
.++ +++|++||+.||+.|+|+++
T Consensus 105 ~~~-----------~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 105 TFT-----------KKDILEMEREILSALNFDLN 127 (127)
T ss_dssp SSH-----------HHHHHHHHHHHHHHTTT---
T ss_pred CCC-----------HHHHHHHHHHHHHHCCCCcC
Confidence 332 79999999999999999985
No 14
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.62 E-value=1.7e-14 Score=141.00 Aligned_cols=182 Identities=15% Similarity=0.185 Sum_probs=161.4
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhhccccccc
Q psy4747 70 REGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFK 149 (414)
Q Consensus 70 ~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~~~~~~~~ 149 (414)
..+...|..++..|+||..+..+|+.+|.+.+.....++.+..-+++||+|+||+.++.|+++++|..+...
T Consensus 98 ~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~V-------- 169 (285)
T COG1405 98 ITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALGV-------- 169 (285)
T ss_pred HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHCC--------
Confidence 345678999999999999999999999999999999999999999999999999999999999999998641
Q ss_pred ccCCCcHHHHHHHHHHHHHHcCCcccccCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHH
Q psy4747 150 TFGDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVAL 229 (414)
Q Consensus 150 ~~~~~~k~~Il~~E~~IL~~L~FdL~v~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~ 229 (414)
.+++|.+..+.+.+.|+-.+....|..|+.+|+..|+.+. ++...|..++..+....+..+..|..||+||
T Consensus 170 -----~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~----~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaa 240 (285)
T COG1405 170 -----SKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSD----EVRRKAIEIVKKAKRAGLTAGKSPAGLAAAA 240 (285)
T ss_pred -----CHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHHhCcccCCCchhHHHHH
Confidence 3689999999999999999999999999999999999996 7889999999999988888899999999999
Q ss_pred HHHHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHHHHHHHH
Q psy4747 230 MYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLY 278 (414)
Q Consensus 230 I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~~il~ly 278 (414)
||+|+.++|....+... ....++++.+|.+--++|.+..
T Consensus 241 iy~as~l~~~~~tq~ev----------a~v~~vtevTIrnrykel~~~~ 279 (285)
T COG1405 241 IYLASLLLGERRTQKEV----------AKVAGVTEVTIRNRYKELADAL 279 (285)
T ss_pred HHHHHHHhCCchHHHHH----------HHHhCCeeeHHHHHHHHHHHhh
Confidence 99999999976543211 1223899999988887776543
No 15
>KOG1597|consensus
Probab=99.60 E-value=2.9e-14 Score=136.64 Aligned_cols=181 Identities=13% Similarity=0.156 Sum_probs=155.0
Q ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhhcccccc
Q psy4747 69 RREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKF 148 (414)
Q Consensus 69 R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~~~~~~~ 148 (414)
.......|..++++++|+..+...|-.+|+++...+..++.+...+++||||+||+-++.|++++||..+++.
T Consensus 104 ~~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~anv------- 176 (308)
T KOG1597|consen 104 LKAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVANV------- 176 (308)
T ss_pred HHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHcC-------
Confidence 3455677999999999999999999999999999999999999999999999999999999999999998752
Q ss_pred cccCCCcHHHHHHHHHHHHHHcCCcccccC--HHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHH
Q psy4747 149 KTFGDDPREEVMTLERILLQTIKFDLQVDH--PYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIA 226 (414)
Q Consensus 149 ~~~~~~~k~~Il~~E~~IL~~L~FdL~v~~--P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IA 226 (414)
.+++|-+.=..|++.|+-++...+ ..+|+.+|+..|+.++ .+...|-.+++.+-.-.++-+.+|-.||
T Consensus 177 ------~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~----~~q~aA~e~a~ka~~~~~~~gRsPiSIA 246 (308)
T KOG1597|consen 177 ------SKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPK----SAQEAATEIAEKAEEMDIRAGRSPISIA 246 (308)
T ss_pred ------CHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCH----HHHHHHHHHHHHHHHhccccCCCchhHH
Confidence 378999999999999998877665 8899999999999988 6778888888888777888889999999
Q ss_pred HHHHHHHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHHHHHH
Q psy4747 227 VALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLD 276 (414)
Q Consensus 227 aA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~~il~ 276 (414)
||+||++..+.+...++.. - ...++|++.+|....++|..
T Consensus 247 Aa~IYmisqls~~kkt~ke--------I--~~vtgVaE~TIr~sYK~Lyp 286 (308)
T KOG1597|consen 247 AAAIYMISQLSDEKKTQKE--------I--GEVTGVAEVTIRNSYKDLYP 286 (308)
T ss_pred HHHHHHHHHhccCcccHHH--------H--HHHhhhhHHHHHHHHHHHhh
Confidence 9999999999875543211 0 12238899999888877754
No 16
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=99.39 E-value=8.5e-13 Score=104.34 Aligned_cols=87 Identities=28% Similarity=0.419 Sum_probs=79.3
Q ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhhcccccc
Q psy4747 69 RREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKF 148 (414)
Q Consensus 69 R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~~~~~~~ 148 (414)
|...++||.+++..++++..+..+|+.|++||+..+.+.+++++++++||||||||++|.+..++++..++...
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~------ 75 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGYA------ 75 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCCC------
Confidence 56788999999999999999999999999999999999999999999999999999999999999998876321
Q ss_pred cccCCCcHHHHHHHHHHHH
Q psy4747 149 KTFGDDPREEVMTLERILL 167 (414)
Q Consensus 149 ~~~~~~~k~~Il~~E~~IL 167 (414)
..++|.++|..||
T Consensus 76 ------~~~~i~~~e~~il 88 (88)
T cd00043 76 ------TEEEILRMEKLLL 88 (88)
T ss_pred ------CHHHHHHHHHHhC
Confidence 3689999999875
No 17
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=99.30 E-value=4.3e-12 Score=99.34 Aligned_cols=83 Identities=25% Similarity=0.454 Sum_probs=74.0
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhhcccccccccCC
Q psy4747 74 RFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGD 153 (414)
Q Consensus 74 ~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~~~~~~~~~~~~ 153 (414)
+||.+++..++++.++..+|+.+++||+....+.+.+++.+|+||||+|||++|.++..+++..++.. +
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~-~---------- 69 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGY-F---------- 69 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCC-C----------
Confidence 58999999999999999999999999999888888999999999999999999998888888776532 1
Q ss_pred CcHHHHHHHHHHHHH
Q psy4747 154 DPREEVMTLERILLQ 168 (414)
Q Consensus 154 ~~k~~Il~~E~~IL~ 168 (414)
.+++|.++|+.||+
T Consensus 70 -~~~~i~~~~~~il~ 83 (83)
T smart00385 70 -TEEEILRMEKLLLE 83 (83)
T ss_pred -CHHHHHHHHHHHhC
Confidence 36899999999874
No 18
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=98.99 E-value=1.1e-09 Score=92.30 Aligned_cols=93 Identities=25% Similarity=0.364 Sum_probs=71.2
Q ss_pred cCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhh
Q psy4747 177 DHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWE 256 (414)
Q Consensus 177 ~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~ 256 (414)
|+|++||.+|++..+.+ +++..+|+++++.++.+..++.|+||.||+|||++|+.+++. .+.|... ..
T Consensus 1 PTp~~Fl~~~~~~~~~~----~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~-~~~~~~~-------l~ 68 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNAD----QEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK-EPPWPES-------LE 68 (118)
T ss_dssp --HHHHHHHHHTSSSHH----HHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS-STCSHHH-------HH
T ss_pred CcHHHHHHHHHHHcCCc----HHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc-cccCCcc-------ch
Confidence 68999999996543332 279999999999999999999999999999999999999873 2233321 12
Q ss_pred HhhcCCCHHHHHHHHHHHHHHHhhcc
Q psy4747 257 MFVEDMTMDLLEDICHQVLDLYSQSQ 282 (414)
Q Consensus 257 ~~~~~vt~~~l~~~~~~il~ly~~~~ 282 (414)
.+. ++++++|.+|++.|.+++.+..
T Consensus 69 ~~t-~~~~~~l~~c~~~i~~~~~~~~ 93 (118)
T PF02984_consen 69 KLT-GYDKEDLKECIELIQELLSKAS 93 (118)
T ss_dssp HHH-TS-HHHHHHHHHHHHHHHHHCC
T ss_pred hhc-CCCHHHHHHHHHHHHHHHHhcC
Confidence 232 8999999999999999998643
No 19
>KOG1598|consensus
Probab=98.86 E-value=7.5e-09 Score=106.97 Aligned_cols=165 Identities=13% Similarity=0.158 Sum_probs=135.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhh
Q psy4747 62 YETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARM 141 (414)
Q Consensus 62 ~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~ 141 (414)
.+.........-..|.+++..|+|+. .+.+|.++|.....++-.++.....|.++|||++|..|.++.-+-|+..+...
T Consensus 60 ~e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv 138 (521)
T KOG1598|consen 60 LESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQV 138 (521)
T ss_pred hHHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccceEE
Confidence 33333334445678999999999999 99999999999999999999999999999999999999987655555443211
Q ss_pred hcccccccccCCCcHHHHHHHHHHHHHHcCCc---ccccCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccC
Q psy4747 142 LVDDKKFKTFGDDPREEVMTLERILLQTIKFD---LQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCL 218 (414)
Q Consensus 142 ~~~~~~~~~~~~~~k~~Il~~E~~IL~~L~Fd---L~v~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l 218 (414)
.--++-.+=+.|.+.|.-+ +....|.-|+.+|...|...... +++...|..+++.+.++++.-
T Consensus 139 -------------~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~-~~Vv~~a~~L~~rMkrdwm~t 204 (521)
T KOG1598|consen 139 -------------SVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT-EDVAKTATRLAQRMKRDWMQT 204 (521)
T ss_pred -------------ehhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCch-HHHHHHHHHHHHHHHHHHHHh
Confidence 0124555666777888888 77889999999999998665433 689999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHhcCCcc
Q psy4747 219 QWEPEIIAVALMYLAGKLSKFEV 241 (414)
Q Consensus 219 ~y~Ps~IAaA~I~lA~~~~~~~~ 241 (414)
+.+|+.|.-|||++|++++|+..
T Consensus 205 GRRPsglcGAaLliAar~h~~~r 227 (521)
T KOG1598|consen 205 GRRPSGLCGAALLIAARMHGFRR 227 (521)
T ss_pred CCCccchhHHHHHHHHHHcCccc
Confidence 99999999999999999999854
No 20
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=98.41 E-value=5e-07 Score=70.32 Aligned_cols=65 Identities=17% Similarity=0.255 Sum_probs=58.3
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHh
Q psy4747 76 IIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTAR 140 (414)
Q Consensus 76 I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~ 140 (414)
|.++|..|+|+..+...|..++++.....-..+.++..+++||||+||+.++.+++++||..++.
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 56899999999999999999999999999999999999999999999999999999999988753
No 21
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=98.40 E-value=1.7e-06 Score=67.21 Aligned_cols=81 Identities=25% Similarity=0.373 Sum_probs=66.4
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhc
Q psy4747 181 SFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVE 260 (414)
Q Consensus 181 ~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~ 260 (414)
+||.+++..++.+. ++...|+++++.++....++.++|+.||+||+++|+++.+... |.. .+....
T Consensus 1 ~~l~~~~~~~~~~~----~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~--~~~------~~~~~~-- 66 (83)
T smart00385 1 DFLRRVCKALNLDP----ETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPP--WTK------ELVHYT-- 66 (83)
T ss_pred CHHHHHHHHcCCCH----HHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCC--Cch------hHhHhh--
Confidence 37889999998876 7999999999999987788889999999999999999998642 332 333333
Q ss_pred CC-CHHHHHHHHHHHH
Q psy4747 261 DM-TMDLLEDICHQVL 275 (414)
Q Consensus 261 ~v-t~~~l~~~~~~il 275 (414)
++ +.++|.++.++|+
T Consensus 67 ~~~~~~~i~~~~~~il 82 (83)
T smart00385 67 GYFTEEEILRMEKLLL 82 (83)
T ss_pred CCCCHHHHHHHHHHHh
Confidence 56 9999999988876
No 22
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=98.31 E-value=5.2e-06 Score=65.13 Aligned_cols=85 Identities=22% Similarity=0.329 Sum_probs=69.4
Q ss_pred ccCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchh
Q psy4747 176 VDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWW 255 (414)
Q Consensus 176 v~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~ 255 (414)
.+++.+||.+++..++.+. ++...|+.+++.++....+..+.|+.||+|||++|+++.+. +.|.. ++.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~----~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~--~~~~~------~~~ 69 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSP----ETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI--PPWLK------DLV 69 (88)
T ss_pred cchHHHHHHHHHHHcCCCH----HHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC--CCCHH------HHh
Confidence 4678999999999998887 68999999999999888889999999999999999999886 33332 333
Q ss_pred hHhhcCC-CHHHHHHHHHHH
Q psy4747 256 EMFVEDM-TMDLLEDICHQV 274 (414)
Q Consensus 256 ~~~~~~v-t~~~l~~~~~~i 274 (414)
... ++ +.++|.++.+++
T Consensus 70 ~~~--~~~~~~~i~~~e~~i 87 (88)
T cd00043 70 HVT--GYATEEEILRMEKLL 87 (88)
T ss_pred HHh--CCCCHHHHHHHHHHh
Confidence 333 66 888888877665
No 23
>KOG4164|consensus
Probab=98.23 E-value=1.4e-06 Score=86.97 Aligned_cols=98 Identities=20% Similarity=0.333 Sum_probs=83.2
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCC-CCHHHHHHHHhhhccccccc
Q psy4747 71 EGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETP-KKCKDVIKTARMLVDDKKFK 149 (414)
Q Consensus 71 ~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p-~~l~~lv~v~~~~~~~~~~~ 149 (414)
.+-+-|.+++...++...|+++|.+||.+...+.-+.+.+..++|-|||+||+|+.|.. -.++.++.-....+.
T Consensus 384 SlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR----- 458 (497)
T KOG4164|consen 384 SLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFR----- 458 (497)
T ss_pred HHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhc-----
Confidence 34567889999999999999999999999999999999999999999999999999873 367777765433222
Q ss_pred ccCCCcHHHHHHHHHHHHHHcCCccccc
Q psy4747 150 TFGDDPREEVMTLERILLQTIKFDLQVD 177 (414)
Q Consensus 150 ~~~~~~k~~Il~~E~~IL~~L~FdL~v~ 177 (414)
..|.+++..|+-||-+|.|.|.++
T Consensus 459 ----~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 459 ----LNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred ----ccHHhhhhhhhhHHHhhhhhccCC
Confidence 348999999999999999999864
No 24
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=97.95 E-value=3.6e-05 Score=68.71 Aligned_cols=90 Identities=16% Similarity=0.142 Sum_probs=66.1
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhh---cC--ccccCCceehhhhhhhhhccccCC-CCCHHHHHHHHhhhccc
Q psy4747 72 GARFIIDCGTKMDLGYNTMATGVVFFHRFYM---YH--SFKTFPRYVTASCCLFLAGKVEET-PKKCKDVIKTARMLVDD 145 (414)
Q Consensus 72 ~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~---~~--si~~~~l~lVa~ACLfLA~K~EE~-p~~l~~lv~v~~~~~~~ 145 (414)
+.+|+.++.+..+++..++-.|++|++|+.. .. .+.....+-+.++||.+|+|+-+. .-.-+...+++.
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 4578999999999999999999999999998 22 345567888999999999999765 344455555432
Q ss_pred ccccccCCCcHHHHHHHHHHHHHHcCCcc
Q psy4747 146 KKFKTFGDDPREEVMTLERILLQTIKFDL 174 (414)
Q Consensus 146 ~~~~~~~~~~k~~Il~~E~~IL~~L~FdL 174 (414)
-..+++-+||+.+|..|+|+|
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 236899999999999999986
No 25
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.72 E-value=0.00012 Score=72.96 Aligned_cols=89 Identities=8% Similarity=0.093 Sum_probs=77.9
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhhcccccccccC
Q psy4747 73 ARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFG 152 (414)
Q Consensus 73 v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~~~~~~~~~~~ 152 (414)
.++|.++|..|+|+..+..+|..++++.....-..+.++.-|++||||+||+..+.++++++|..++..
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~~V----------- 288 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVAGV----------- 288 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCC-----------
Confidence 489999999999999999999999999988777789999999999999999999999999999887632
Q ss_pred CCcHHHHHHHHHHHHHHcCCcc
Q psy4747 153 DDPREEVMTLERILLQTIKFDL 174 (414)
Q Consensus 153 ~~~k~~Il~~E~~IL~~L~FdL 174 (414)
....|.+.-..|++.|+..+
T Consensus 289 --s~~tI~~~ykel~~~l~~~~ 308 (310)
T PRK00423 289 --TEVTVRNRYKELAEKLDIKI 308 (310)
T ss_pred --CHHHHHHHHHHHHHHhCccc
Confidence 24677788888888887654
No 26
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=97.52 E-value=0.00054 Score=53.15 Aligned_cols=56 Identities=21% Similarity=0.186 Sum_probs=47.4
Q ss_pred HHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCccc
Q psy4747 183 LLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVV 242 (414)
Q Consensus 183 L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p 242 (414)
|.+|+..|+.+. .+.+.|..+........+.-+.+|..||+||||+|++..|.+..
T Consensus 1 I~r~~~~L~L~~----~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t 56 (71)
T PF00382_consen 1 IPRICSKLGLPE----DVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRT 56 (71)
T ss_dssp HHHHHHHTT--H----HHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSS
T ss_pred ChHHHhHcCCCH----HHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcC
Confidence 468899999887 69999999999999889999999999999999999999987653
No 27
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=95.99 E-value=0.028 Score=55.45 Aligned_cols=68 Identities=15% Similarity=0.112 Sum_probs=63.6
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHh
Q psy4747 73 ARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTAR 140 (414)
Q Consensus 73 v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~ 140 (414)
.++|.+++..|+|+.++...|+.++++........+..+.-+++||+|+||+.....++-+++..++.
T Consensus 195 ~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~~ 262 (285)
T COG1405 195 SDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAG 262 (285)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHhC
Confidence 67999999999999999999999999999999989999999999999999999998888888888764
No 28
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=94.71 E-value=0.23 Score=42.02 Aligned_cols=88 Identities=15% Similarity=0.194 Sum_probs=61.8
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhc
Q psy4747 181 SFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVE 260 (414)
Q Consensus 181 ~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~ 260 (414)
+|+......++.+. .+...|..+++..+.........+..||+||+++|+++.+...+. ...|......
T Consensus 36 ~~i~~~~~~~~l~~----~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~-------~~~~~~~~~~ 104 (127)
T PF00134_consen 36 DWIIELCQRLKLSP----ETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPS-------ISDLIRISDN 104 (127)
T ss_dssp HHHHHHHHHTT-BH----HHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--H-------HHHHHHHTTT
T ss_pred HHHHHHHHhcccch----hHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccch-------HHHHHHHHcC
Confidence 45666666666665 577888888888777667788889999999999999988764332 1233333333
Q ss_pred CCCHHHHHHHHHHHHHHHh
Q psy4747 261 DMTMDLLEDICHQVLDLYS 279 (414)
Q Consensus 261 ~vt~~~l~~~~~~il~ly~ 279 (414)
.++.++|.++-..|+...+
T Consensus 105 ~~~~~~i~~~E~~iL~~L~ 123 (127)
T PF00134_consen 105 TFTKKDILEMEREILSALN 123 (127)
T ss_dssp SSHHHHHHHHHHHHHHHTT
T ss_pred CCCHHHHHHHHHHHHHHCC
Confidence 5789999999888887643
No 29
>KOG1597|consensus
Probab=93.83 E-value=0.16 Score=49.89 Aligned_cols=68 Identities=7% Similarity=0.091 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHH
Q psy4747 72 GARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTA 139 (414)
Q Consensus 72 ~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~ 139 (414)
..+||.+.|..|+|+..+...|..+-++.-......+..+.-|++|.+|+++-.++.++..++|..++
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 35789999999999999999999999999888888889999999999999999999888888887765
No 30
>KOG1674|consensus
Probab=93.31 E-value=0.15 Score=48.37 Aligned_cols=91 Identities=14% Similarity=0.130 Sum_probs=66.6
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCc---------cccCC-ceehhhhhhhhhccccCCC-CCHHHHHHHHhhh
Q psy4747 74 RFIIDCGTKMDLGYNTMATGVVFFHRFYMYHS---------FKTFP-RYVTASCCLFLAGKVEETP-KKCKDVIKTARML 142 (414)
Q Consensus 74 ~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~s---------i~~~~-l~lVa~ACLfLA~K~EE~p-~~l~~lv~v~~~~ 142 (414)
+++.++-+..+....++-.|.+|||||..+.. +...+ .+-..++|+-+|+|+.+.- -+=.-..+
T Consensus 80 ~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~----- 154 (218)
T KOG1674|consen 80 QYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAK----- 154 (218)
T ss_pred HHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHH-----
Confidence 46788899999999999999999999998622 11223 4557899999999998642 11111111
Q ss_pred cccccccccCCCcHHHHHHHHHHHHHHcCCccccc
Q psy4747 143 VDDKKFKTFGDDPREEVMTLERILLQTIKFDLQVD 177 (414)
Q Consensus 143 ~~~~~~~~~~~~~k~~Il~~E~~IL~~L~FdL~v~ 177 (414)
.+--..+++-.+|..+|..++|.+.+.
T Consensus 155 --------vggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 155 --------VGGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred --------hCCCChHhhhhhhHHHHhhCCeEEEec
Confidence 112246788899999999999999986
No 31
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=92.44 E-value=0.37 Score=42.38 Aligned_cols=70 Identities=21% Similarity=0.182 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcC--ccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhh
Q psy4747 72 GARFIIDCGTKMDLGYNTMATGVVFFHRFYMYH--SFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARM 141 (414)
Q Consensus 72 ~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~--si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~ 141 (414)
+..-|.++|.+|+|+.+........|+..+... -+.+.++.-+.++|+|.-||+.....+.++|+.....
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~sF~~Ii~~Yr~ 85 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEELSFKDIIKAYRK 85 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S--HHHHHHHHTT
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHh
Confidence 345588999999999998888888888888644 4567788889999999999999989999999987643
No 32
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=86.56 E-value=0.9 Score=37.55 Aligned_cols=56 Identities=14% Similarity=0.138 Sum_probs=44.8
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCC
Q psy4747 73 ARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEET 128 (414)
Q Consensus 73 v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~ 128 (414)
.+||....+..+....+...|..+++..+....+-++.+-.||+||+++|.+..+.
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~ 59 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK 59 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc
Confidence 45666664444556778899999999888888899999999999999999999654
No 33
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=85.99 E-value=1.9 Score=43.05 Aligned_cols=55 Identities=20% Similarity=0.406 Sum_probs=44.8
Q ss_pred HHHHHHHHcC--CChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCc
Q psy4747 182 FLLKYAKSLK--GDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFE 240 (414)
Q Consensus 182 ~L~~~l~~l~--~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~ 240 (414)
+|..++..++ ... .+...|..++...+...-...|.|..||++|||+|+++-...
T Consensus 62 ~i~~~~~~lkp~Lpq----~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~ 118 (305)
T TIGR00569 62 RLLDFCSAFKPTMPT----SVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFN 118 (305)
T ss_pred HHHHHHHHhcCCCCc----hHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccC
Confidence 4556666676 555 688888888888888888889999999999999999987653
No 34
>KOG0835|consensus
Probab=85.08 E-value=0.83 Score=45.57 Aligned_cols=58 Identities=21% Similarity=0.300 Sum_probs=47.7
Q ss_pred HHHHHHHHHHcCCCHHH--HHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCC
Q psy4747 73 ARFIIDCGTKMDLGYNT--MATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPK 130 (414)
Q Consensus 73 v~~I~~v~~~LkL~~~t--~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~ 130 (414)
-.+|+....-|++++.- +..|.+|++--+-..-+..+.+..||+||+|||+..+|.|.
T Consensus 142 hklii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpL 201 (367)
T KOG0835|consen 142 HKLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPL 201 (367)
T ss_pred HHHHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCC
Confidence 35677777888887655 77788888877777778889999999999999999999754
No 35
>KOG0834|consensus
Probab=82.09 E-value=0.99 Score=45.37 Aligned_cols=56 Identities=13% Similarity=0.157 Sum_probs=44.7
Q ss_pred HHHHHHHHHcCCCH----HHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCC
Q psy4747 74 RFIIDCGTKMDLGY----NTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETP 129 (414)
Q Consensus 74 ~~I~~v~~~LkL~~----~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p 129 (414)
.++.++++.++-.. ....+|.+++...+...-.-.+.++.||++||+||+|+-...
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~ 212 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVE 212 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCC
Confidence 34555555555443 588899999999998887888999999999999999998763
No 36
>KOG1675|consensus
Probab=81.72 E-value=1.7 Score=43.02 Aligned_cols=92 Identities=15% Similarity=0.143 Sum_probs=59.1
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHhh--cCccccCCceehhhhhhhhhccccCC--CCCHHHHHHHHhhhcccccccc
Q psy4747 75 FIIDCGTKMDLGYNTMATGVVFFHRFYM--YHSFKTFPRYVTASCCLFLAGKVEET--PKKCKDVIKTARMLVDDKKFKT 150 (414)
Q Consensus 75 ~I~~v~~~LkL~~~t~~tAi~~fdRF~~--~~si~~~~l~lVa~ACLfLA~K~EE~--p~~l~~lv~v~~~~~~~~~~~~ 150 (414)
++..++....|.-+..--.++|++|-.- ...+.......+....+++|+|+-.. ..+++- +.+ +.
T Consensus 196 ~v~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdy-cqI----lK------ 264 (343)
T KOG1675|consen 196 FVRILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDY-CEI----LK------ 264 (343)
T ss_pred hhhhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHH-HHH----Hh------
Confidence 4444555555544444445577777753 33344666777777789999998764 233221 111 11
Q ss_pred cCCCcHHHHHHHHHHHHHHcCCcccccCH
Q psy4747 151 FGDDPREEVMTLERILLQTIKFDLQVDHP 179 (414)
Q Consensus 151 ~~~~~k~~Il~~E~~IL~~L~FdL~v~~P 179 (414)
+...+++-+||+.+|+.|+||++++.-
T Consensus 265 --d~tveDmNe~ERqfLelLqfNinvp~s 291 (343)
T KOG1675|consen 265 --DQSVDDMNALERQFLELLQFNINVPSS 291 (343)
T ss_pred --hccHhhHHHHHHHHHHHHhhccCccHH
Confidence 134789999999999999999998754
No 37
>KOG0656|consensus
Probab=73.91 E-value=10 Score=38.33 Aligned_cols=83 Identities=16% Similarity=0.220 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHHHcCCccc---------ccCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCC---HH
Q psy4747 156 REEVMTLERILLQTIKFDLQ---------VDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWE---PE 223 (414)
Q Consensus 156 k~~Il~~E~~IL~~L~FdL~---------v~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~---Ps 223 (414)
...+++.|..-...+++.+. .....++|.+.+...+.+. .+.-+|.+.+...+...-+-... -.
T Consensus 49 i~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~----~~~~LA~NYlDRFls~~~l~k~k~W~lQ 124 (335)
T KOG0656|consen 49 LANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEP----LVFLLAMNYLDRFLSSQKLPKDKPWMLQ 124 (335)
T ss_pred HHHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCch----HHHHHHHHHHHHhhcccccCCCchHHHH
Confidence 45666667765555553222 2345577888888777776 68889999999988888888888 46
Q ss_pred HHHHHHHHHHHHhcCCccc
Q psy4747 224 IIAVALMYLAGKLSKFEVV 242 (414)
Q Consensus 224 ~IAaA~I~lA~~~~~~~~p 242 (414)
.||+||+.+|+++-...+|
T Consensus 125 LlAvaCLsLAsKmeE~~vP 143 (335)
T KOG0656|consen 125 LLAVACLSLASKMEETDVP 143 (335)
T ss_pred HHHHHHHHHHHhhcCcCCc
Confidence 6899999999998876554
No 38
>KOG1598|consensus
Probab=70.89 E-value=4.9 Score=42.69 Aligned_cols=56 Identities=11% Similarity=0.054 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHHhhcCccccCCceehhhhhhhhhccccCCCCCHHHHHHHHhhh
Q psy4747 87 YNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARML 142 (414)
Q Consensus 87 ~~t~~tAi~~fdRF~~~~si~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~~~ 142 (414)
..|..+|..++.|--.-.-..+..+--+.-|||++||.+....+++.||+++.+..
T Consensus 184 ~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvhV~ 239 (521)
T KOG1598|consen 184 EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVHVC 239 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccHHHHHHHHHHh
Confidence 44888898888887655566677888899999999999999999999999887643
No 39
>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=70.69 E-value=40 Score=29.72 Aligned_cols=90 Identities=13% Similarity=0.154 Sum_probs=57.9
Q ss_pred cCHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhc----Ccc-cCCCCHHHHHHHHHHHHHHhcCCcccccccccccc
Q psy4747 177 DHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLC----TTL-CLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKH 251 (414)
Q Consensus 177 ~~P~~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~----t~l-~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~ 251 (414)
..-.+|+.++.+....+. .+.-.|..++..... ... .-.....-+-++|+.+|.+++.-. . -.+
T Consensus 52 i~i~~fl~ri~~~~~~s~----~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~-~------~~n 120 (149)
T PF08613_consen 52 ISIRDFLSRILKYTQCSP----ECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDN-T------YSN 120 (149)
T ss_dssp S-HHHHHHHHHHHTT--H----HHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS----------H
T ss_pred CcHHHHHHHHHHHcCCCh----HHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccc-c------ccH
Confidence 455678888888877766 455555555554443 222 235678889999999999987421 1 234
Q ss_pred cchhhHhhcCCCHHHHHHHHHHHHHHHh
Q psy4747 252 LRWWEMFVEDMTMDLLEDICHQVLDLYS 279 (414)
Q Consensus 252 ~~W~~~~~~~vt~~~l~~~~~~il~ly~ 279 (414)
+.|-+.. |++..+|..+-.+++.+.+
T Consensus 121 ~~~a~v~--gis~~eln~lE~~fL~~l~ 146 (149)
T PF08613_consen 121 KSWAKVG--GISLKELNELEREFLKLLD 146 (149)
T ss_dssp HHHHHHH--TS-HHHHHHHHHHHHHHTT
T ss_pred HHHHhhc--CCCHHHHHHHHHHHHHHCC
Confidence 5777776 8999999999988887643
No 40
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=63.35 E-value=12 Score=37.11 Aligned_cols=54 Identities=15% Similarity=0.176 Sum_probs=44.4
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcC
Q psy4747 181 SFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSK 238 (414)
Q Consensus 181 ~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~ 238 (414)
.+|..++..|+... .+...|..+....+.-.-.-.+++-.||.+|||+|++.-+
T Consensus 50 k~i~~l~~~L~lp~----~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed 103 (297)
T COG5333 50 KLIMDLCTRLNLPQ----TVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVED 103 (297)
T ss_pred HHHHHHHHhcCCCc----chHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeeccc
Confidence 46677777888776 6778888888877766668899999999999999999876
No 41
>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=58.78 E-value=34 Score=30.01 Aligned_cols=54 Identities=24% Similarity=0.250 Sum_probs=42.3
Q ss_pred HHHHHHHHcCCChhHHHHHHHHHHHHHHhhh--cCcccCCCCHHHHHHHHHHHHHHhcCC
Q psy4747 182 FLLKYAKSLKGDKTKLEKMLQMAWTFVNDSL--CTTLCLQWEPEIIAVALMYLAGKLSKF 239 (414)
Q Consensus 182 ~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl--~t~l~l~y~Ps~IAaA~I~lA~~~~~~ 239 (414)
-|..++..|+... ++....|.+.+-++ .+.++....-.+|-++|||..+++.+.
T Consensus 17 Rl~~LC~~L~l~~----~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~ 72 (135)
T PF01857_consen 17 RLQDLCERLDLSS----DLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKE 72 (135)
T ss_dssp HHHHHHHHHTTST----THHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHcCCcH----HHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcC
Confidence 4566777777766 57788888888776 567888888999999999999998874
No 42
>KOG0794|consensus
Probab=57.13 E-value=16 Score=35.09 Aligned_cols=80 Identities=16% Similarity=0.238 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCccccc------cccc-ccccchhhHhhcCCCHHHHHH
Q psy4747 197 LEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDW------IGRN-SKHLRWWEMFVEDMTMDLLED 269 (414)
Q Consensus 197 ~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~------~~~l-~~~~~W~~~~~~~vt~~~l~~ 269 (414)
.+++...|...+...+.-.-.-.+.|-.+|..|||+|++.-...+... ...+ ..-..|.+.+ .+...+|.+
T Consensus 58 RQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~e~~--~~~~~~I~e 135 (264)
T KOG0794|consen 58 RQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWPEKF--PYERKDILE 135 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccchhhc--CCCcCcchh
Confidence 346777777666666655557789999999999999999765431100 0000 0011355555 456666666
Q ss_pred HHHHHHHHH
Q psy4747 270 ICHQVLDLY 278 (414)
Q Consensus 270 ~~~~il~ly 278 (414)
+--.+++..
T Consensus 136 ~Ef~llE~L 144 (264)
T KOG0794|consen 136 MEFYLLEAL 144 (264)
T ss_pred hhhhHHhhh
Confidence 655555543
No 43
>KOG1010|consensus
Probab=50.57 E-value=18 Score=40.58 Aligned_cols=68 Identities=12% Similarity=0.140 Sum_probs=57.3
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCc--cccCCceehhhhhhhhhccccCCCCCHHHHHHHHh
Q psy4747 73 ARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHS--FKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTAR 140 (414)
Q Consensus 73 v~~I~~v~~~LkL~~~t~~tAi~~fdRF~~~~s--i~~~~l~lVa~ACLfLA~K~EE~p~~l~~lv~v~~ 140 (414)
..-|.++|.+|.+..++...-..+|+.-+.... +++.++.=+.++|+|+-+|+++..+++++|....+
T Consensus 681 avRL~~Lc~rL~l~~e~r~~IWtlFehsl~~et~Lm~dRHLDQillCaiy~i~KV~~~~ltF~eIm~~YR 750 (920)
T KOG1010|consen 681 AVRLNDLCERLSLSDELREQIWTLFEHSLTNETELMRDRHLDQILLCAIYGIAKVKKEDLTFSEIMRAYR 750 (920)
T ss_pred HHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccHHHHHhhhHHHHHHHHHHhheehhcccchHHHHHHHHh
Confidence 345889999999999999988889988776543 46677777999999999999999999999988754
No 44
>KOG2496|consensus
Probab=44.37 E-value=50 Score=32.97 Aligned_cols=41 Identities=22% Similarity=0.463 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCC
Q psy4747 199 KMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKF 239 (414)
Q Consensus 199 ~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~ 239 (414)
.|...|..+....+..+....|.|..|-++|+++|+++-.+
T Consensus 77 ~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef 117 (325)
T KOG2496|consen 77 SVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEF 117 (325)
T ss_pred HHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhh
Confidence 67888888888888888899999999999999999997643
No 45
>PF12238 MSA-2c: Merozoite surface antigen 2c; InterPro: IPR021060 This family of proteins are restricted to the apicomplexan Babesia bovis. Proteins in this entry are typically between 263 and 318 amino acids in length and plasma membrane glycoproteins. These antigens present on the merozoite surface (MSA) and are involved in the parasite invasion of the bovine erythrocyte. MSA-2c has been suggested as a possible antigen for a vaccine candidate [].
Probab=34.10 E-value=3.8e+02 Score=25.35 Aligned_cols=13 Identities=23% Similarity=0.470 Sum_probs=6.3
Q ss_pred CHHHHHHHHHHHH
Q psy4747 263 TMDLLEDICHQVL 275 (414)
Q Consensus 263 t~~~l~~~~~~il 275 (414)
+.+.|..+|+..|
T Consensus 103 d~~~lv~~ck~Fl 115 (205)
T PF12238_consen 103 DYNGLVKFCKDFL 115 (205)
T ss_pred cHHHHHHHHHHHh
Confidence 4444555555443
No 46
>PF09080 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IPR015164 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 domain adopts a secondary structure consisting of a five alpha-helix cyclin fold. Interaction with cyclin dependent kinases (CDKs) at a PSTAIRE sequence motif within the catalytic cleft of CDK results in the regulation of CDK activity []. ; PDB: 1G3N_C.
Probab=32.62 E-value=2.8e+02 Score=22.69 Aligned_cols=93 Identities=10% Similarity=-0.054 Sum_probs=49.4
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHHHHHHHhhhcCcccCCCCHHHHHHH-HHHHHHHhcCCcccccccccccccchhhHhh
Q psy4747 181 SFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVA-LMYLAGKLSKFEVVDWIGRNSKHLRWWEMFV 259 (414)
Q Consensus 181 ~~L~~~l~~l~~~~~~~~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA-~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~ 259 (414)
+-+.-.+-++...++....+.......+..++-++..-..+||.||+| |-.+.. +.-+|.-......-...-+.+
T Consensus 6 D~~~~~L~K~~~~~e~L~~~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~---~~~~P~~~~~~~~~~~LA~~~- 81 (106)
T PF09080_consen 6 DAIGPLLFKSGFTKEQLFAWHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSL---GAAAPPDTHSGGVVPQLAEAL- 81 (106)
T ss_dssp HHHHHHHHHHS-SSTTHHHHHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS----GGGS--------HHHHHHHHH-
T ss_pred ccccHHHHHHcccHHHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccc---cccCCCccccccchHHHHHHh-
Confidence 333333444444444444566667777788888888889999999988 654432 222332110000001223444
Q ss_pred cCCCHHHHHHHHHHHHHHH
Q psy4747 260 EDMTMDLLEDICHQVLDLY 278 (414)
Q Consensus 260 ~~vt~~~l~~~~~~il~ly 278 (414)
+++...+...++.++.-.
T Consensus 82 -G~~~a~L~AA~E~v~Tt~ 99 (106)
T PF09080_consen 82 -GVSAATLQAAAESVATTL 99 (106)
T ss_dssp -T--HHHHHHHHHHHHHHH
T ss_pred -CccHHHHHHHHHHHHHHH
Confidence 788888888887776543
No 47
>KOG1924|consensus
Probab=30.27 E-value=2.4e+02 Score=32.02 Aligned_cols=13 Identities=15% Similarity=0.340 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHhh
Q psy4747 199 KMLQMAWTFVNDS 211 (414)
Q Consensus 199 ~v~~~A~~ll~ds 211 (414)
++..+.+..+.|+
T Consensus 386 ~~f~lL~n~vkdT 398 (1102)
T KOG1924|consen 386 EVFELLANTVKDT 398 (1102)
T ss_pred HHHHHHHHhhhhc
Confidence 4555555555554
No 48
>KOG1924|consensus
Probab=30.24 E-value=5.5e+02 Score=29.36 Aligned_cols=11 Identities=36% Similarity=0.960 Sum_probs=4.5
Q ss_pred CCCCCCCCCCC
Q psy4747 371 YYGHHRPPPAA 381 (414)
Q Consensus 371 ~~~~~~~~~~~ 381 (414)
+-|---|||..
T Consensus 591 ~~Gg~ppPP~~ 601 (1102)
T KOG1924|consen 591 FLGGPPPPPPP 601 (1102)
T ss_pred CCCCCCCCCCC
Confidence 33444444433
No 49
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=29.09 E-value=1.5e+02 Score=31.28 Aligned_cols=85 Identities=11% Similarity=0.089 Sum_probs=61.6
Q ss_pred HHHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHHHHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHHHHHHH
Q psy4747 198 EKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDL 277 (414)
Q Consensus 198 ~~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~~il~l 277 (414)
.+..-+|..|++..+....+..-.-..+++.|+++|+++-.+..|... ..--.+...++.++|.+.-+.|+..
T Consensus 231 peTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~-------~l~~~t~g~~t~~~i~~aE~~ml~~ 303 (440)
T COG5024 231 PETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIK-------DLVYATDGAFTRDDIIRAERYMLEV 303 (440)
T ss_pred chHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHH-------HHHHHHcccccHHHHHHHHHHHhhh
Confidence 356667777888777777777777788999999999998877665411 2222344578999999999999987
Q ss_pred HhhcccccCCCC
Q psy4747 278 YSQSQQQASQQD 289 (414)
Q Consensus 278 y~~~~~~~~~~~ 289 (414)
.+-....+.+..
T Consensus 304 l~f~is~P~P~s 315 (440)
T COG5024 304 LDFNISWPSPMS 315 (440)
T ss_pred cccccCCCChHH
Confidence 776655555543
No 50
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=29.05 E-value=93 Score=24.71 Aligned_cols=41 Identities=20% Similarity=0.370 Sum_probs=34.0
Q ss_pred ccCCcCHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHh
Q psy4747 41 PYWYFDKKDIRNSPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFY 101 (414)
Q Consensus 41 ~~W~ft~eeL~~~pS~~~gis~e~E~~~R~~~v~~I~~v~~~LkL~~~t~~tAi~~fdRF~ 101 (414)
..|+|+.+++... ..+.++..-|+++...+..+..+++|..
T Consensus 33 ~~~~f~~~~l~rl--------------------~~~~rL~~Dl~in~~gi~lil~LLd~i~ 73 (84)
T PF13591_consen 33 EEWYFSEEDLARL--------------------RRIRRLHRDLGINLEGIALILDLLDRIE 73 (84)
T ss_pred CeeeECHHHHHHH--------------------HHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 5788888877542 3478999999999999999999999975
No 51
>KOG2675|consensus
Probab=28.22 E-value=2.8e+02 Score=29.19 Aligned_cols=42 Identities=21% Similarity=0.357 Sum_probs=25.9
Q ss_pred CCcccccCCccCCCCCCCCCCCCCCCCCCCCCCCcccccccCCCCCC
Q psy4747 325 IPTLGAQYPQRVAPPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQY 371 (414)
Q Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 371 (414)
-|.++.|-.+..+-+-+++ +-|+..-.-+..+|+--.. |.++
T Consensus 293 NP~LR~~~~~~~~~~~~~~---~~Psk~~~~~k~pp~~ELe--GkkW 334 (480)
T KOG2675|consen 293 NPNLRATSGVPASGPKQGS---SSPSKSAAPKKKPPVKELE--GKKW 334 (480)
T ss_pred ChhhhccCCCCCCCCCCCC---CCCCcccCCCCCCCceeec--cceE
Confidence 5889999998888888888 3333333334445544443 6554
No 52
>KOG0653|consensus
Probab=22.66 E-value=2.1e+02 Score=29.49 Aligned_cols=74 Identities=9% Similarity=0.094 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhhhcCcccCCCCHHHHHHHHHH-HHHHhcCCcccccccccccccchhhHhhcCCCHHHHHHHHHHHHHH
Q psy4747 199 KMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMY-LAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDL 277 (414)
Q Consensus 199 ~v~~~A~~ll~dsl~t~l~l~y~Ps~IAaA~I~-lA~~~~~~~~p~~~~~l~~~~~W~~~~~~~vt~~~l~~~~~~il~l 277 (414)
+...+|..+++..+....+-.-.=..++++|++ +|++.-.+..|.+.... -.-...++.++|.++.+.|+..
T Consensus 177 ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv-------~isd~~~s~~~il~mE~~il~~ 249 (391)
T KOG0653|consen 177 ETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLV-------LITDGAYSREEILRMEKYILNV 249 (391)
T ss_pred HHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeE-------eeeCCccchHHHHHHHHHHHhc
Confidence 455666666644443323223333456777755 99998555555433211 0111246788888877777765
Q ss_pred Hh
Q psy4747 278 YS 279 (414)
Q Consensus 278 y~ 279 (414)
..
T Consensus 250 L~ 251 (391)
T KOG0653|consen 250 LE 251 (391)
T ss_pred cC
Confidence 43
Done!