Query psy16012
Match_columns 712
No_of_seqs 309 out of 1572
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 18:41:39 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16012.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16012hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0655|consensus 100.0 1.4E-72 3E-77 584.8 26.1 371 30-529 29-407 (408)
2 KOG0656|consensus 100.0 3.9E-33 8.4E-38 296.5 21.5 190 196-411 42-236 (335)
3 KOG0653|consensus 100.0 4.4E-31 9.5E-36 288.9 16.4 189 234-439 148-345 (391)
4 COG5024 Cyclin [Cell division 100.0 3.4E-29 7.3E-34 274.8 10.6 212 212-440 179-400 (440)
5 KOG0654|consensus 99.9 9.1E-26 2E-30 242.3 8.7 187 234-436 127-320 (359)
6 TIGR00569 ccl1 cyclin ccl1. Un 99.8 3E-20 6.4E-25 197.7 18.5 161 242-413 54-218 (305)
7 PF00134 Cyclin_N: Cyclin, N-t 99.8 1.7E-21 3.6E-26 178.4 7.5 105 236-342 23-127 (127)
8 KOG0834|consensus 99.8 2.6E-19 5.6E-24 191.1 11.0 189 242-444 37-250 (323)
9 KOG0835|consensus 99.8 3.7E-17 8.1E-22 171.9 21.6 187 239-441 18-231 (367)
10 KOG0794|consensus 99.6 2.2E-15 4.7E-20 152.6 10.8 182 245-442 42-241 (264)
11 COG5333 CCL1 Cdk activating ki 99.6 9.8E-15 2.1E-19 153.5 13.9 155 243-413 44-204 (297)
12 cd00043 CYCLIN Cyclin box fold 99.4 4.6E-13 1E-17 112.6 8.2 87 244-334 2-88 (88)
13 smart00385 CYCLIN domain prese 99.3 3.7E-12 8E-17 106.2 7.7 83 249-335 1-83 (83)
14 PRK00423 tfb transcription ini 99.3 1E-10 2.2E-15 125.3 19.6 175 245-439 123-304 (310)
15 PF02984 Cyclin_C: Cyclin, C-t 99.2 2.1E-11 4.5E-16 109.8 7.2 82 344-440 1-90 (118)
16 KOG2496|consensus 99.1 7.6E-10 1.6E-14 116.5 13.1 158 246-412 58-219 (325)
17 COG1405 SUA7 Transcription ini 98.4 1.2E-05 2.6E-10 85.8 17.5 173 245-437 98-277 (285)
18 PF08613 Cyclin: Cyclin; Inte 98.3 2.1E-06 4.5E-11 83.0 8.7 94 246-341 53-149 (149)
19 KOG1597|consensus 98.3 1.5E-05 3.4E-10 84.3 14.9 177 246-442 106-291 (308)
20 smart00385 CYCLIN domain prese 97.8 7.8E-05 1.7E-09 61.9 7.0 61 376-436 14-82 (83)
21 cd00043 CYCLIN Cyclin box fold 97.7 0.00023 4.9E-09 59.6 8.5 78 343-435 2-87 (88)
22 KOG4164|consensus 97.4 7.8E-05 1.7E-09 81.5 2.7 109 235-345 373-483 (497)
23 KOG1598|consensus 95.2 0.19 4.1E-06 57.8 12.3 146 249-412 72-220 (521)
24 KOG1674|consensus 94.4 0.13 2.9E-06 53.3 7.8 97 246-344 77-181 (218)
25 PF00382 TFIIB: Transcription 93.8 0.18 3.8E-06 42.7 6.1 64 251-317 1-64 (71)
26 PF00382 TFIIB: Transcription 89.7 1.4 2.9E-05 37.3 6.9 52 376-427 12-70 (71)
27 PRK00423 tfb transcription ini 88.2 2.3 4.9E-05 46.3 9.1 90 247-341 219-308 (310)
28 KOG1924|consensus 83.0 3.3 7.2E-05 49.9 7.5 17 612-628 636-652 (1102)
29 KOG1675|consensus 80.8 4.8 0.0001 44.0 7.2 107 251-359 197-303 (343)
30 KOG1924|consensus 80.6 5.7 0.00012 48.0 8.3 19 241-259 248-266 (1102)
31 KOG0834|consensus 78.2 3.4 7.4E-05 45.5 5.3 91 244-336 152-244 (323)
32 PF02984 Cyclin_C: Cyclin, C-t 75.5 5.7 0.00012 35.5 5.2 85 249-337 5-89 (118)
33 PF15449 Retinal: Retinal prot 53.0 59 0.0013 41.1 9.1 14 580-593 1121-1134(1287)
34 COG1405 SUA7 Transcription ini 43.4 54 0.0012 35.7 6.3 58 245-304 192-249 (285)
35 KOG0260|consensus 40.2 1.4E+02 0.0031 38.5 9.6 17 253-269 1021-1037(1605)
36 PF01857 RB_B: Retinoblastoma- 39.1 69 0.0015 31.2 5.7 58 247-304 14-71 (135)
37 KOG0260|consensus 36.8 1.7E+02 0.0037 37.8 9.6 19 392-412 1332-1350(1605)
38 KOG0655|consensus 35.3 13 0.00027 41.4 -0.0 33 619-653 116-148 (408)
39 KOG1597|consensus 34.8 1.3E+02 0.0028 33.2 7.4 62 378-440 124-193 (308)
40 KOG1923|consensus 34.1 1.3E+02 0.0028 37.0 7.9 9 159-167 24-32 (830)
41 PF00134 Cyclin_N: Cyclin, N-t 32.6 1.1E+02 0.0024 27.7 5.8 38 376-413 49-86 (127)
42 KOG3537|consensus 29.4 1.1E+02 0.0024 35.4 6.0 17 476-492 358-374 (543)
43 PF09080 K-cyclin_vir_C: K cyc 27.8 4.9E+02 0.011 24.0 10.5 63 378-440 25-100 (106)
44 KOG0835|consensus 27.3 2.2E+02 0.0048 32.0 7.7 60 266-329 162-221 (367)
45 TIGR00569 ccl1 cyclin ccl1. Un 26.1 75 0.0016 34.9 4.0 39 375-413 75-113 (305)
46 PLN02217 probable pectinestera 24.2 1.8E+02 0.004 35.4 7.0 37 550-586 621-658 (670)
47 PF12126 DUF3583: Protein of u 23.6 1E+03 0.023 26.4 13.0 25 422-446 131-155 (324)
48 PRK14954 DNA polymerase III su 21.1 1.3E+03 0.028 28.1 13.2 47 649-695 502-550 (620)
49 PRK13042 superantigen-like pro 20.5 1.8E+02 0.004 31.8 5.4 10 669-678 177-186 (291)
No 1
>KOG0655|consensus
Probab=100.00 E-value=1.4e-72 Score=584.76 Aligned_cols=371 Identities=38% Similarity=0.653 Sum_probs=312.2
Q ss_pred hhhccccHHHHhhcccchhhhhhhhcccCCCCCCCCCCCCCccccccccCCCccccccccccccCcCCc---cccccC--
Q psy16012 30 DKRLRQDEEALAAERKPLSELITRVSLSSPGSTSSEGHDPSTTVQEEFGLLTPVELDEDSCDSLSSHSS---SWVTKL-- 104 (712)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~el~~~~~~~~~~~s~---~~~~~~-- 104 (712)
+++++.+++-...+|.-.++.|. -....+++ |...-.++-+++-+. .|++.+.+-++. ..+++.
T Consensus 29 ~e~~e~~~~~~~d~ree~~k~i~-~a~d~c~~-------~vvn~~~~p~~~~~~---~d~~~~~sdf~v~~r~~~k~~v~ 97 (408)
T KOG0655|consen 29 AESKESHTMVRLDEREEIEKEIE-DAFDDCEE-------PVVNGKEEPCESIDT---PDKEVQNSDFAVTKRLMDKPMVI 97 (408)
T ss_pred hhhhccchhhhhhhHHHHHHhcc-hhhhcccc-------ccccCCcCcCcccCC---CCcccCcccccccccccCccccc
Confidence 45566666666667766666654 11222221 322222232222111 233333333332 334443
Q ss_pred -CCCCCCCCCCccCChhHHHHHHHhcccccccccCccccccCCCCCCCCCCchhhhhhccchhhhhhHhhhhhhcccccc
Q psy16012 105 -PPRPSPFPTLDWANEEDLWDLLCAKDQDSLSLRDPHMLDRHPSIVPRMRTPVFWIITGLSLKMFMMYEYRLYCVNNYFL 183 (712)
Q Consensus 105 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~g~~~~~~~~y~~~~~C~~~~~~ 183 (712)
|.|-||+|.|+|||.++||.+|++||+ .|+||.||+..||.|+|+||+
T Consensus 98 apsr~splp~lswgn~~eVW~lM~kkee--~~l~~~~~l~qHpdlqp~mRa----------------------------- 146 (408)
T KOG0655|consen 98 APSRLSPLPCLSWGNSKEVWLLMLKKEE--RYLRDKHFLEQHPDLQPQMRA----------------------------- 146 (408)
T ss_pred ccccCCCCccccccCHHHHHHHHHccch--hhhhhhHHHhhCCCCCHHHHH-----------------------------
Confidence 456679999999999999999999999 999999999999999999998
Q ss_pred ccccCCCcccccccchhHHHHHHHHHhhhcCChHHHHHhhhhhccccccchhhccCCcccHHHHHHHHHHHHHHhcCchh
Q psy16012 184 FTIFTPSNIVLPILTLNKVTRQVSLAVESSVPSTFLVTMQKEGQQKFGLEVEALQVKYLPRTVLLDWLSEVCEVYTLHRE 263 (712)
Q Consensus 184 ~~~~~~s~~v~P~l~~nr~l~~Ls~~ee~y~ps~yl~~~q~E~q~~~~~~~~q~eIt~~~R~iLVDWL~EV~~~ykLs~E 263 (712)
+|+|||+|||+.|+||+|
T Consensus 147 --------------------------------------------------------------ILlDWlmEVCEvykLHRE 164 (408)
T KOG0655|consen 147 --------------------------------------------------------------ILLDWLMEVCEVYKLHRE 164 (408)
T ss_pred --------------------------------------------------------------HHHHHHHHHHHHHHHhhh
Confidence 999999999999999999
Q ss_pred HHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHHHHHHHHHHHHHHcCccccC
Q psy16012 264 TFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQDILSTEMNILAVLEWNITP 343 (712)
Q Consensus 264 T~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~EIl~mE~~ILktL~WdL~~ 343 (712)
||||||+||||||..+.+ +.+.+|||||+||||||||+||+|||++.+|+|++||+||.++|+.||++||++|+|+|++
T Consensus 165 TFyLAvDy~DRyl~t~~~-v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~P 243 (408)
T KOG0655|consen 165 TFYLAVDYFDRYLETQVE-VSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSP 243 (408)
T ss_pred HHHHHHHHHHHHHHHHHH-hhhhhHHHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccc
Confidence 999999999999998754 5599999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHHcChhHHHHhhCC
Q psy16012 344 VTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVCSKELACMISGL 423 (712)
Q Consensus 344 pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~~~e~L~~vtGy 423 (712)
.|...||+.||++....+. ..+++|+|++..+.+..+|||+|++|.+++.|++++||||||++....+.+.+++|+
T Consensus 244 iTii~WL~vylQv~~~n~~----~k~l~Pq~~~~efiqiaqlLDlc~ldids~~fsYrilaAAal~h~~s~e~v~kaSG~ 319 (408)
T KOG0655|consen 244 ITIISWLNVYLQVDALNDA----PKVLLPQYSQEEFIQIAQLLDLCILDIDSLEFSYRILAAAALCHFTSIEVVKKASGL 319 (408)
T ss_pred eehHHHHHHHHHHHhcCCC----CceeccccchHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHhHHHHHHHcccc
Confidence 9999999999999987765 569999999999999999999999999999999999999999999999999999999
Q ss_pred CHHhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCCcccccccceecccccchhhHHHHHHHHHHHhhhccCC
Q psy16012 424 RLESLEDCIEWMNIYWVILCEKSPGTDYCDSDSNELPPGPLRHNNVFDYAYSYHKHSVSMELSDLAIAESAKLLKEEQQP 503 (712)
Q Consensus 424 ~~eeL~eCve~L~~~~~~I~e~~~~~lk~~~~f~~i~~dpdsHNgV~D~s~SiQth~~sl~~l~~a~~~~~~~~~~~~~~ 503 (712)
.|.+|++|++||++|+++|++.++..++ +|++|+.+ |+|| ||||.++++|++++... +.+.....
T Consensus 320 ~w~~ie~cv~wm~Pf~rvi~~~~~~~~~---~~~kI~~e-DsHn--------IQtht~~ldM~dev~~~--~~~~~~~~- 384 (408)
T KOG0655|consen 320 EWDSIEECVDWMVPFVRVIKSTSPVKLK---TFKKIPME-DSHN--------IQTHTNYLDMLDEVNYI--NTFRQKGG- 384 (408)
T ss_pred cHHHHHHHHHHHHHHHHHHhhccchHhh---hccCCCcc-cccc--------hhhhhhHHHHHHHHHHH--HHHHHhcc-
Confidence 9999999999999999999999999998 99999999 9999 99999999999999877 33333332
Q ss_pred CCCCCCCCCCC--CCCCCCCCCCCCCCC
Q psy16012 504 TTPGNRTYSVP--CDMTPPPSSSKGQTT 529 (712)
Q Consensus 504 ~~~~~~~s~~p--~~ltPP~S~~k~~~~ 529 (712)
+.+++| |.+|||.|..|+++.
T Consensus 385 -----ar~~~p~~~lltpp~s~~kppg~ 407 (408)
T KOG0655|consen 385 -----ARSPVPNGGLLTPPKSTEKPPGK 407 (408)
T ss_pred -----ccccCCCCCcccCcccccCCCCC
Confidence 223333 389999999999854
No 2
>KOG0656|consensus
Probab=100.00 E-value=3.9e-33 Score=296.53 Aligned_cols=190 Identities=29% Similarity=0.482 Sum_probs=167.2
Q ss_pred ccchhHHHHHHHHHhhhcCChH-HHHHhhhhhccccccchhhccCCcccHHHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q psy16012 196 ILTLNKVTRQVSLAVESSVPST-FLVTMQKEGQQKFGLEVEALQVKYLPRTVLLDWLSEVCEVYTLHRETFYLTIDYIDR 274 (712)
Q Consensus 196 ~l~~nr~l~~Ls~~ee~y~ps~-yl~~~q~E~q~~~~~~~~q~eIt~~~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDR 274 (712)
.+..++++.++...|+.+.|.. |...+ ++.+++.+|.++++||++||+++++..+|++||||||||
T Consensus 42 ~~~~e~~i~~ll~kEe~~~p~~~~~~~~-------------~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDR 108 (335)
T KOG0656|consen 42 LLWDERVLANLLEKEEQHNPSLDYFLCV-------------QKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDR 108 (335)
T ss_pred ccccHHHHHHHHHHHHHhCCCCchhhhc-------------ccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence 4566789999998888887765 34443 344778899999999999999999999999999999999
Q ss_pred hhccCccccCCcc---hhhHHHHHHHHHHHhccCCCCCccccc-cccCCCCCHHHHHHHHHHHHHHcCccccCCChhHHH
Q psy16012 275 YLSTNANIVPKQQ---LQLIGVAALMIAAKVEEIYPPKVSDYA-YVTDGACSSQDILSTEMNILAVLEWNITPVTAHYWL 350 (712)
Q Consensus 275 FLS~~~~iv~k~~---LQLIGiTCLfIASKvEEi~pP~i~dL~-~itd~~yT~~EIl~mE~~ILktL~WdL~~pTP~~FL 350 (712)
||+.++ +++++ +||+|+|||+||||+||+.+|.+.|+. ..+++.|.++.|++||++||.+|+|+++.+||++|+
T Consensus 109 Fls~~~--l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~ 186 (335)
T KOG0656|consen 109 FLSSQK--LPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFI 186 (335)
T ss_pred hhcccc--cCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHH
Confidence 999987 76777 999999999999999999988888874 667999999999999999999999999999999999
Q ss_pred HHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHH
Q psy16012 351 NVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLV 411 (712)
Q Consensus 351 ~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA 411 (712)
++|+..++.... ....+...+..++-.+..|..|+.|+||+||+|++..+
T Consensus 187 ~~fl~ki~~~~~-----------~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviAaa~~~~v 236 (335)
T KOG0656|consen 187 DHFLSKISQKDH-----------NKHLFLKHASLFLLSVITDIKFLEYPPSVIAAAAILSV 236 (335)
T ss_pred HHHHHHcCcccc-----------hHHHHHHHHHHHHHHHhhhhhhhcCChHHHHHHHHHHH
Confidence 999999987633 12456778888999999999999999999999999777
No 3
>KOG0653|consensus
Probab=99.97 E-value=4.4e-31 Score=288.87 Aligned_cols=189 Identities=35% Similarity=0.469 Sum_probs=175.3
Q ss_pred hhhccCCcccHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHH-HHHHhccCCCCCccc
Q psy16012 234 VEALQVKYLPRTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALM-IAAKVEEIYPPKVSD 312 (712)
Q Consensus 234 ~~q~eIt~~~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLf-IASKvEEi~pP~i~d 312 (712)
..+.+++..||.+++|||++|+..|+|..||+||||+++||||+... +.+.++||+|++||| ||+|+||..+|.+.|
T Consensus 148 ~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~--v~~~~lqLvgvsalf~IA~K~EE~~~P~v~d 225 (391)
T KOG0653|consen 148 ISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVK--VPLKKLQLVGVSALLSIACKYEEISLPSVED 225 (391)
T ss_pred cccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhc--ccHHHhhHHhHHHHHHHHHhhhhccCCccce
Confidence 46788999999999999999999999999999999999999999976 889999999999976 999999999999999
Q ss_pred cccccCCCCCHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcc
Q psy16012 313 YAYVTDGACSSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLD 392 (712)
Q Consensus 313 L~~itd~~yT~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD 392 (712)
|++++|++|+.+||++||+.||++|+|+++.|||+.||+.|++....+ ...+..+.++++++++|
T Consensus 226 lv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d---------------~~~~~~~k~~~El~l~d 290 (391)
T KOG0653|consen 226 LVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYD---------------IKTRTLVKYLLELSLCD 290 (391)
T ss_pred eEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcc---------------hhHHHHHHHHHHHHHhh
Confidence 999999999999999999999999999999999999999999988732 23578899999999999
Q ss_pred cccccCcHHHHHHHHHHHHc--------ChhHHHHhhCCCHHhHHHHHHHHHHHH
Q psy16012 393 IRCLNYSYSVLATTAIYLVC--------SKELACMISGLRLESLEDCIEWMNIYW 439 (712)
Q Consensus 393 ~~fl~f~PSvIAAAAL~lA~--------~~e~L~~vtGy~~eeL~eCve~L~~~~ 439 (712)
+.++.++||.+|||+++++. |...+..++|+...++.+|.+.+..+.
T Consensus 291 ~~~~~~~~s~~aaa~~~~~~~~~~~~~~w~~~~~~~sg~~~~~~~~~~~~~~~~~ 345 (391)
T KOG0653|consen 291 YSMLSIPPSSSAAASFTLALRMLSKGDVWSPTLEHYSGYSESYLFECARSLSALS 345 (391)
T ss_pred hHHhccCcHHHHHHHHHHHHHHhccCCccCCCCeeccCCCcHHHHHHHHHHHHHH
Confidence 99999999999999999986 567788999999999999999988843
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.96 E-value=3.4e-29 Score=274.78 Aligned_cols=212 Identities=27% Similarity=0.352 Sum_probs=185.3
Q ss_pred hcCChHHHHHhhhh--hccccccchhhccCCcccHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchh
Q psy16012 212 SSVPSTFLVTMQKE--GQQKFGLEVEALQVKYLPRTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQ 289 (712)
Q Consensus 212 ~y~ps~yl~~~q~E--~q~~~~~~~~q~eIt~~~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQ 289 (712)
+|...++...+..| -.+.-.+..++..+.+.||.+|++||.+|+..|++.++|+++||+++||||+... +.-.++|
T Consensus 179 Ey~~~Ife~l~k~e~~~lp~~~yl~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~--v~l~k~Q 256 (440)
T COG5024 179 EYASDIFEYLLKLELIDLPNPNYLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRV--VSLEKYQ 256 (440)
T ss_pred HHHHHHHHHHHHHHHHhcCcHHHHhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCc--ccHHHHH
Confidence 55556644444444 3444455567888888999999999999999999999999999999999999965 8899999
Q ss_pred hHHHHHHHHHHHhccCCCCCccccccccCCCCCHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhcccccccccccc
Q psy16012 290 LIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGF 369 (712)
Q Consensus 290 LIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~ 369 (712)
|+|++|||||+|+||.+.|.+.+|+++++|.|+.++|+++|+.+|.+|+|++..|+|+.||+.+...-..+
T Consensus 257 Lvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd--------- 327 (440)
T COG5024 257 LVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYD--------- 327 (440)
T ss_pred HHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccc---------
Confidence 99999999999999999999999999999999999999999999999999999999999977766543322
Q ss_pred ccccchHHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHHc-------ChhHHHHhhC-CCHHhHHHHHHHHHHHHH
Q psy16012 370 IYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVC-------SKELACMISG-LRLESLEDCIEWMNIYWV 440 (712)
Q Consensus 370 l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~-------~~e~L~~vtG-y~~eeL~eCve~L~~~~~ 440 (712)
...+..+.|+++.+.+++.|.+++||.+||||++.++ |...+..++| |+.+++.+++..+.+...
T Consensus 328 ------~~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~w~~~l~~ySg~y~~~~l~~~~~~~~~~l~ 400 (440)
T COG5024 328 ------IFSRTPAKFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQWDRTLIHYSGNYTNPDLKPLNESNKENLQ 400 (440)
T ss_pred ------hhhhhhHhhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccCCCCccccccCCCCCchhHHHHHHHHHHHhc
Confidence 2256789999999999999999999999999999998 6677889999 999999999998888754
No 5
>KOG0654|consensus
Probab=99.92 E-value=9.1e-26 Score=242.30 Aligned_cols=187 Identities=33% Similarity=0.538 Sum_probs=175.0
Q ss_pred hhhccCCcccHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCcccc
Q psy16012 234 VEALQVKYLPRTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDY 313 (712)
Q Consensus 234 ~~q~eIt~~~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL 313 (712)
..|..+++.||.++++|+++|++.+++..++||++++++|||+.... +.+.++|++|++|++||+|+||+.+|.+.+|
T Consensus 127 ~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~--~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef 204 (359)
T KOG0654|consen 127 FVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKE--VNKQKLQLVGISAMLIASKYEEIKEPRVEEF 204 (359)
T ss_pred eeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCc--cHHHHHHHhCcccceeeccchhhcchHHHHH
Confidence 34788999999999999999999999999999999999999999865 7799999999999999999999999999999
Q ss_pred ccccCCCCCHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhccc
Q psy16012 314 AYVTDGACSSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDI 393 (712)
Q Consensus 314 ~~itd~~yT~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~ 393 (712)
++++|+.|+..++..||..||..|.|++..||...|+..|+...... ...+.-.+.||.+++++|+
T Consensus 205 ~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~--------------~~~~e~~~~yl~elsll~~ 270 (359)
T KOG0654|consen 205 CYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTP--------------ELQVEPLANYLTELSLLDY 270 (359)
T ss_pred HhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcch--------------hHHHHHHHHHHHHhhhhhH
Confidence 99999999999999999999999999999999999999998776641 1235567999999999999
Q ss_pred ccccCcHHHHHHHHHHHHc-------ChhHHHHhhCCCHHhHHHHHHHHH
Q psy16012 394 RCLNYSYSVLATTAIYLVC-------SKELACMISGLRLESLEDCIEWMN 436 (712)
Q Consensus 394 ~fl~f~PSvIAAAAL~lA~-------~~e~L~~vtGy~~eeL~eCve~L~ 436 (712)
.|+.|.||+|||||+++|+ |+..+..+|||+.+++..|+..|+
T Consensus 271 ~~l~y~PSliAasAv~lA~~~~~~~pW~~~L~~~T~y~~edl~~~v~~L~ 320 (359)
T KOG0654|consen 271 IFLKYLPSLIAASAVFLARLTLDFHPWNQTLEDYTGYKAEDLKPCVLDLH 320 (359)
T ss_pred HHhccChHHHHHHHHHHHHhhccCCCCchhhHHhhcccHHHHHHHHHHHh
Confidence 9999999999999999998 679999999999999999999998
No 6
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.85 E-value=3e-20 Score=197.71 Aligned_cols=161 Identities=19% Similarity=0.210 Sum_probs=136.3
Q ss_pred ccHHHHHHHHHHHHHHhc--CchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCC
Q psy16012 242 LPRTVLLDWLSEVCEVYT--LHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDG 319 (712)
Q Consensus 242 ~~R~iLVDWL~EV~~~yk--Ls~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~ 319 (712)
..|.-.+.+|.++|..++ |+.+|+++|+.||+||+...+ +...+.++||+||||||+|+||.. ..+.+|+.....
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~S--v~~~~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~~ 130 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNS--VMEYHPKIIMLTCVFLACKVEEFN-VSIDQFVGNLKE 130 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCc--hhhcCHHHHHHHHHHHHHhccccC-cCHHHHHhhccC
Confidence 468888999999999999 999999999999999999866 778999999999999999999985 468888765544
Q ss_pred C--CCHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhccccccc
Q psy16012 320 A--CSSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLN 397 (712)
Q Consensus 320 ~--yT~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~ 397 (712)
. ...++|++||..||++|+|+|...+|+.+|..|+..+....... .....+.+.|+.+++.+++...++.
T Consensus 131 ~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~--------~~~~~l~q~a~~~lndsl~Td~~L~ 202 (305)
T TIGR00569 131 TPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGL--------ENPEYLRKHADKFLNRTLLTDAYLL 202 (305)
T ss_pred CchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccc--------cchHHHHHHHHHHHHHHHcCCceec
Confidence 3 36799999999999999999999999999999987554221100 0113467789999998888888999
Q ss_pred CcHHHHHHHHHHHHcC
Q psy16012 398 YSYSVLATTAIYLVCS 413 (712)
Q Consensus 398 f~PSvIAAAAL~lA~~ 413 (712)
|+|++||+|||++|..
T Consensus 203 y~Ps~IAlAAI~lA~~ 218 (305)
T TIGR00569 203 YTPSQIALAAILHTAS 218 (305)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 9999999999999973
No 7
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.84 E-value=1.7e-21 Score=178.41 Aligned_cols=105 Identities=35% Similarity=0.636 Sum_probs=93.4
Q ss_pred hccCCcccHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCcccccc
Q psy16012 236 ALQVKYLPRTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAY 315 (712)
Q Consensus 236 q~eIt~~~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~ 315 (712)
+.+++...|..+++||.+++..++++.+|+++|+.|||||+.... +.+.+++++|+|||+||+|+||..++.+.+++.
T Consensus 23 ~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~--~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~ 100 (127)
T PF00134_consen 23 QPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRP--VNRSKLQLIALACLFLASKMEEDNPPSISDLIR 100 (127)
T ss_dssp TSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS---TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHH
T ss_pred ChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcc--cccchhhhhhhhHHHHhhhhhccccchHHHHHH
Confidence 335677889999999999999999999999999999999999875 789999999999999999999999999999999
Q ss_pred ccCCCCCHHHHHHHHHHHHHHcCcccc
Q psy16012 316 VTDGACSSQDILSTEMNILAVLEWNIT 342 (712)
Q Consensus 316 itd~~yT~~EIl~mE~~ILktL~WdL~ 342 (712)
++++.|+.++|++||+.||++|+|+++
T Consensus 101 ~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 101 ISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred HHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 999999999999999999999999985
No 8
>KOG0834|consensus
Probab=99.79 E-value=2.6e-19 Score=191.08 Aligned_cols=189 Identities=17% Similarity=0.167 Sum_probs=160.3
Q ss_pred ccHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCC
Q psy16012 242 LPRTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGAC 321 (712)
Q Consensus 242 ~~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~y 321 (712)
..|...+.||++++..++++..|+..|+.||+||+..++ +...+.+.+|++|||||+|+||. +-+++|++.++...+
T Consensus 37 ~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s--~~~~~~~~vA~sclfLAgKvEet-p~kl~dIi~~s~~~~ 113 (323)
T KOG0834|consen 37 RLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHS--FKKFDPYTVAASCLFLAGKVEET-PRKLEDIIKVSYRYL 113 (323)
T ss_pred HHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcc--cccCcHHHHHHHHHHHHhhcccC-cccHHHHHHHHHHHc
Confidence 468899999999999999999999999999999999987 77889999999999999999996 667888765543222
Q ss_pred -------------CHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHH
Q psy16012 322 -------------SSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDL 388 (712)
Q Consensus 322 -------------T~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL 388 (712)
-+++|+..|++||++|+|+++.-+||.||..|+..+....+.. +.+...||.++..
T Consensus 114 ~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~-----------~~~a~~Aw~~~nD 182 (323)
T KOG0834|consen 114 NPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLK-----------QPLAQAAWNFVND 182 (323)
T ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhcc-----------ccHHHHHHHHhch
Confidence 2688999999999999999999999999999999988765421 2367889999999
Q ss_pred HhcccccccCcHHHHHHHHHHHHcC---------h-hHHHHhhC--CCHHhHHHHHHHHHHHHHHHHh
Q psy16012 389 CHLDIRCLNYSYSVLATTAIYLVCS---------K-ELACMISG--LRLESLEDCIEWMNIYWVILCE 444 (712)
Q Consensus 389 ~LlD~~fl~f~PSvIAAAAL~lA~~---------~-e~L~~vtG--y~~eeL~eCve~L~~~~~~I~e 444 (712)
++...-+++|+|..||+|||++|.. . ..+....+ ++.+++.+.+..+..++...++
T Consensus 183 ~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~~ 250 (323)
T KOG0834|consen 183 SLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQTPQ 250 (323)
T ss_pred hheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhccc
Confidence 9999999999999999999999972 1 23566666 8888888888888877754333
No 9
>KOG0835|consensus
Probab=99.76 E-value=3.7e-17 Score=171.93 Aligned_cols=187 Identities=14% Similarity=0.179 Sum_probs=159.8
Q ss_pred CCcccHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccC
Q psy16012 239 VKYLPRTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTD 318 (712)
Q Consensus 239 It~~~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd 318 (712)
.....|-..++||.+.|--++|+..+.+.+..+|.||+...+ +-+.++..++++|++||+|+||. |-.+.|++.+-.
T Consensus 18 ~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks--~v~~~~e~vv~ACv~LASKiEE~-Prr~rdVinVFh 94 (367)
T KOG0835|consen 18 TEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKS--FVRHDFEIVVMACVLLASKIEEE-PRRIRDVINVFH 94 (367)
T ss_pred hHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccc--cccccHHHHHHHHHHHHhhhccc-cccHhHHHHHHH
Confidence 344568899999999999999999999999999999998876 44899999999999999999996 445666543321
Q ss_pred -----------------CCC--CHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHH
Q psy16012 319 -----------------GAC--SSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLY 379 (712)
Q Consensus 319 -----------------~~y--T~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~ 379 (712)
..+ .+.+++++|+.||++|+|++++.+|+.++-.|++.++...+ ..+.
T Consensus 95 ~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~-------------~~l~ 161 (367)
T KOG0835|consen 95 YLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPN-------------LKLL 161 (367)
T ss_pred HHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCc-------------hhHH
Confidence 111 46788999999999999999999999999999999998765 3578
Q ss_pred HHHHHHHHHHhcccccccCcHHHHHHHHHHHHcC--------hhHHHHhhCCCHHhHHHHHHHHHHHHHH
Q psy16012 380 TQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVCS--------KELACMISGLRLESLEDCIEWMNIYWVI 441 (712)
Q Consensus 380 ~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~~--------~e~L~~vtGy~~eeL~eCve~L~~~~~~ 441 (712)
+.+|.|+++++-..-|+.|+|+.|||||||+|.. .+.|.++.+.++++|.+.+-.+..++..
T Consensus 162 Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 162 QAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFDTTKREIDEICYRLIPLYKR 231 (367)
T ss_pred HHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcCCcHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999973 3578999999999999877666666653
No 10
>KOG0794|consensus
Probab=99.61 E-value=2.2e-15 Score=152.59 Aligned_cols=182 Identities=16% Similarity=0.203 Sum_probs=153.2
Q ss_pred HHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccc--------
Q psy16012 245 TVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYV-------- 316 (712)
Q Consensus 245 ~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~i-------- 316 (712)
--..+.|+.+++++++...++++|+.||-||+.+.+ +..-.+.|+|.||+|+|+|+||-....++-++..
T Consensus 42 i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S--~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f 119 (264)
T KOG0794|consen 42 IFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKS--LKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRF 119 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhc
Confidence 356788999999999999999999999999999976 7788999999999999999999742222222211
Q ss_pred ----cCCCCCHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcc
Q psy16012 317 ----TDGACSSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLD 392 (712)
Q Consensus 317 ----td~~yT~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD 392 (712)
-...|...+|.+||..+|+.|++-|-.-+|+.=|..+++..+..+ +.+.+.+|.+++.+...
T Consensus 120 ~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d--------------~~~l~~~W~ivNDSyr~ 185 (264)
T KOG0794|consen 120 SYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGIND--------------QKLLQLAWSIVNDSYRM 185 (264)
T ss_pred ccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccc--------------hhhhhhhHhhhcchhhc
Confidence 123467889999999999999999999999999999998887633 33678899999999999
Q ss_pred cccccCcHHHHHHHHHHHHcC------hhHHHHhhCCCHHhHHHHHHHHHHHHHHH
Q psy16012 393 IRCLNYSYSVLATTAIYLVCS------KELACMISGLRLESLEDCIEWMNIYWVIL 442 (712)
Q Consensus 393 ~~fl~f~PSvIAAAAL~lA~~------~e~L~~vtGy~~eeL~eCve~L~~~~~~I 442 (712)
.-++-|+|-+||.|||+.|+. ...+......+.+.+.+|++.+.+++...
T Consensus 186 Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~~~w~~el~vD~ekV~~~v~~I~~lYe~w 241 (264)
T KOG0794|consen 186 DLCLLYPPHQIALACLYIACVIDEKDIPKAWFAELSVDMEKVKDIVQEILKLYELW 241 (264)
T ss_pred ceeeecCHHHHHHHHHHHHHhhcCCChHHHHHHHHhccHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999983 24566777899999999999999988644
No 11
>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=99.59 E-value=9.8e-15 Score=153.53 Aligned_cols=155 Identities=19% Similarity=0.340 Sum_probs=132.5
Q ss_pred cHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccC----
Q psy16012 243 PRTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTD---- 318 (712)
Q Consensus 243 ~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd---- 318 (712)
.|.....|++.+|.+++++..++.+||.||+||+.+.. +..-.++-|+.||++||+|+||. +-.+.-......
T Consensus 44 l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~s--v~e~~~~~vv~tcv~LA~K~ed~-~~~I~i~~~~~~~~~s 120 (297)
T COG5333 44 LVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNS--VEEISLYSVVTTCVYLACKVEDT-PRDISIESFEARDLWS 120 (297)
T ss_pred HHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcc--cccccHHHHHHhheeeeeecccc-cchhhHHHHHhhcccc
Confidence 46677899999999999999999999999999999966 88999999999999999999995 212222121221
Q ss_pred --CCCCHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccc
Q psy16012 319 --GACSSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCL 396 (712)
Q Consensus 319 --~~yT~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl 396 (712)
-.-+++.|..+|..||+.|+|++...+|+..+..|++.+...+. .+..+.||.++..++...-++
T Consensus 121 e~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~-------------~~~~~~aw~~inDa~~t~~~l 187 (297)
T COG5333 121 EEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDK-------------YKLLQIAWKIINDALRTDLCL 187 (297)
T ss_pred ccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccH-------------HHHHHHHHHHHHhhhhceeee
Confidence 12378999999999999999999999999999999988775443 457889999999999999999
Q ss_pred cCcHHHHHHHHHHHHcC
Q psy16012 397 NYSYSVLATTAIYLVCS 413 (712)
Q Consensus 397 ~f~PSvIAAAAL~lA~~ 413 (712)
.|+|..||+||++.|+.
T Consensus 188 lypphiIA~a~l~ia~~ 204 (297)
T COG5333 188 LYPPHIIALAALLIACE 204 (297)
T ss_pred ecChHHHHHHHHHHHHH
Confidence 99999999999999974
No 12
>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=99.42 E-value=4.6e-13 Score=112.56 Aligned_cols=87 Identities=39% Similarity=0.545 Sum_probs=79.9
Q ss_pred HHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCH
Q psy16012 244 RTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSS 323 (712)
Q Consensus 244 R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~ 323 (712)
|..+++||.+++..++++.+|.++|+.|+|||+.... +.+.+++++|++||+||+|++|. ++.+.++..+++.. +.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~-~~ 77 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYS--VLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYA-TE 77 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcc--cccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCC-CH
Confidence 6688999999999999999999999999999999865 66999999999999999999998 88899998887655 99
Q ss_pred HHHHHHHHHHH
Q psy16012 324 QDILSTEMNIL 334 (712)
Q Consensus 324 ~EIl~mE~~IL 334 (712)
++|.+||+.||
T Consensus 78 ~~i~~~e~~il 88 (88)
T cd00043 78 EEILRMEKLLL 88 (88)
T ss_pred HHHHHHHHHhC
Confidence 99999999875
No 13
>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=99.33 E-value=3.7e-12 Score=106.18 Aligned_cols=83 Identities=36% Similarity=0.504 Sum_probs=74.2
Q ss_pred HHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHHHHHH
Q psy16012 249 DWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQDILS 328 (712)
Q Consensus 249 DWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~EIl~ 328 (712)
+||.+++..++++.++.++|+.++|||+.... +.+...+++|++||+||+|++|.. +...++..+++. |+.++|.+
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~--~~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~-~~~~~i~~ 76 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYK--FLKYSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGY-FTEEEILR 76 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhh--cccCCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCC-CCHHHHHH
Confidence 59999999999999999999999999998654 447999999999999999999986 567788777766 89999999
Q ss_pred HHHHHHH
Q psy16012 329 TEMNILA 335 (712)
Q Consensus 329 mE~~ILk 335 (712)
+|+.||+
T Consensus 77 ~~~~il~ 83 (83)
T smart00385 77 MEKLLLE 83 (83)
T ss_pred HHHHHhC
Confidence 9999974
No 14
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.31 E-value=1e-10 Score=125.32 Aligned_cols=175 Identities=14% Similarity=0.141 Sum_probs=150.8
Q ss_pred HHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHH
Q psy16012 245 TVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQ 324 (712)
Q Consensus 245 ~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~ 324 (712)
.....-|.++|..++|+..+.-.|..+|.+++... .+.......++++|||+|+|.|+. |-.+.|++.++. .+..
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~--~~rgrs~~~i~AAclYiACR~~~~-prtl~eI~~~~~--v~~k 197 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKG--LIRGRSIEGVVAAALYAACRRCKV-PRTLDEIAEVSR--VSRK 197 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cccCCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHhC--CCHH
Confidence 35567789999999999999999999999999874 477888999999999999999775 568889887764 6899
Q ss_pred HHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHHHHH
Q psy16012 325 DILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVLA 404 (712)
Q Consensus 325 EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvIA 404 (712)
+|-+.++.|++.|++++.+..|.+|+..|...+.... .+...|.++++.+.-..-....+|..||
T Consensus 198 ~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~---------------~v~~~A~~i~~~a~~~~l~~Gr~P~sIA 262 (310)
T PRK00423 198 EIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG---------------EVQKKAIEILQKAKEKGLTSGKGPTGLA 262 (310)
T ss_pred HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCH---------------HHHHHHHHHHHHHHhcCcccCCCHHHHH
Confidence 9999999999999999999999999999999987643 3667788888877765556899999999
Q ss_pred HHHHHHHcC-------hhHHHHhhCCCHHhHHHHHHHHHHHH
Q psy16012 405 TTAIYLVCS-------KELACMISGLRLESLEDCIEWMNIYW 439 (712)
Q Consensus 405 AAAL~lA~~-------~e~L~~vtGy~~eeL~eCve~L~~~~ 439 (712)
|||||+|+. ...+..++|.+...|...++.|.+.+
T Consensus 263 AAaIYlA~~~~g~~~t~keIa~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 263 AAAIYIASLLLGERRTQREVAEVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 999999972 35678889999999999998888753
No 15
>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=99.22 E-value=2.1e-11 Score=109.79 Aligned_cols=82 Identities=29% Similarity=0.374 Sum_probs=68.6
Q ss_pred CChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHHc--------Chh
Q psy16012 344 VTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVC--------SKE 415 (712)
Q Consensus 344 pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~--------~~e 415 (712)
|||++||++|+..... ...+...+++|++++++|+.|++|+||+|||||+++|+ |.+
T Consensus 1 PTp~~Fl~~~~~~~~~---------------~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~ 65 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNA---------------DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPE 65 (118)
T ss_dssp --HHHHHHHHHTSSSH---------------HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHH
T ss_pred CcHHHHHHHHHHHcCC---------------cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccCCc
Confidence 7999999999654221 24577899999999999999999999999999999997 557
Q ss_pred HHHHhhCCCHHhHHHHHHHHHHHHH
Q psy16012 416 LACMISGLRLESLEDCIEWMNIYWV 440 (712)
Q Consensus 416 ~L~~vtGy~~eeL~eCve~L~~~~~ 440 (712)
.+..++|+++++|.+|++.|..++.
T Consensus 66 ~l~~~t~~~~~~l~~c~~~i~~~~~ 90 (118)
T PF02984_consen 66 SLEKLTGYDKEDLKECIELIQELLS 90 (118)
T ss_dssp HHHHHHTS-HHHHHHHHHHHHHHHH
T ss_pred cchhhcCCCHHHHHHHHHHHHHHHH
Confidence 7899999999999999999999876
No 16
>KOG2496|consensus
Probab=99.10 E-value=7.6e-10 Score=116.54 Aligned_cols=158 Identities=20% Similarity=0.218 Sum_probs=121.5
Q ss_pred HHHHHHHHHHHHh--cCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccC--CCC
Q psy16012 246 VLLDWLSEVCEVY--TLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTD--GAC 321 (712)
Q Consensus 246 iLVDWL~EV~~~y--kLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd--~~y 321 (712)
....-+++.+..+ .|...++..|+.||-||+...+ +..-....|.+||+|+|+|+||-++ .+.+|+.-.. ..=
T Consensus 58 ~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~ns--vme~~pk~I~~tc~flA~Kieef~I-SieqFvkn~~~~~~k 134 (325)
T KOG2496|consen 58 EEELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENS--VMEYSPKIIMATCFFLACKIEEFYI-SIEQFVKNMNGRKWK 134 (325)
T ss_pred HHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcc--hhhcChHHHHHHHHHHHhhhHhhee-cHHHHHhhccCcccc
Confidence 3345566677766 4899999999999999998854 7788999999999999999998654 6777765433 235
Q ss_pred CHHHHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHH
Q psy16012 322 SSQDILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYS 401 (712)
Q Consensus 322 T~~EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PS 401 (712)
+.+.|+..|..+|+.|+|+|..-+|+.-++-|+.-+...-....+..+ ...... ...+++-+++...++-|+||
T Consensus 135 ~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~-----~~~~~d-~~~fl~~~lltDa~lLytPs 208 (325)
T KOG2496|consen 135 THEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDI-----LRKHDD-SKKFLDRALLTDAYLLYTPS 208 (325)
T ss_pred cHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHH-----Hhhhhh-HHHHHHHHHHhccceecChH
Confidence 799999999999999999999999999998888665543221111111 111111 25788889998899999999
Q ss_pred HHHHHHHHHHc
Q psy16012 402 VLATTAIYLVC 412 (712)
Q Consensus 402 vIAAAAL~lA~ 412 (712)
+||.|||.+|.
T Consensus 209 QIALaAil~a~ 219 (325)
T KOG2496|consen 209 QIALAAILHAA 219 (325)
T ss_pred HHHHHHHHHHh
Confidence 99999997763
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.39 E-value=1.2e-05 Score=85.78 Aligned_cols=173 Identities=14% Similarity=0.181 Sum_probs=147.3
Q ss_pred HHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHH
Q psy16012 245 TVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQ 324 (712)
Q Consensus 245 ~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~ 324 (712)
.....-|-.++..++++..+.-.|..++=..+.. ++......+-++++|+|+|++.+.. |-.+.+++.+.. .++.
T Consensus 98 ~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~--~l~rGRsie~v~AA~iY~acR~~~~-prtl~eIa~a~~--V~~k 172 (285)
T COG1405 98 ITALEELERIASALGLPESVRETAARIYRKAVDK--GLLRGRSIESVAAACIYAACRINGV-PRTLDEIAKALG--VSKK 172 (285)
T ss_pred HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhc--CCCcCCcHHHHHHHHHHHHHHHcCC-CccHHHHHHHHC--CCHH
Confidence 3667888889999999999999999999998877 4576778999999999999999764 667777877665 6789
Q ss_pred HHHHHHHHHHHHcCccccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHHHHH
Q psy16012 325 DILSTEMNILAVLEWNITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVLA 404 (712)
Q Consensus 325 EIl~mE~~ILktL~WdL~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvIA 404 (712)
+|.++.+.+.+.|+=.+.+..|.+|+..|...++.... +...|..|++.+...-.-..-.|+-||
T Consensus 173 ei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~---------------v~~~a~ei~~~~~~~g~~~Gk~P~glA 237 (285)
T COG1405 173 EIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDE---------------VRRKAIEIVKKAKRAGLTAGKSPAGLA 237 (285)
T ss_pred HHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHH---------------HHHHHHHHHHHHHHhCcccCCCchhHH
Confidence 99999999999999999999999999999999987643 567788899988888778899999999
Q ss_pred HHHHHHHcC-------hhHHHHhhCCCHHhHHHHHHHHHH
Q psy16012 405 TTAIYLVCS-------KELACMISGLRLESLEDCIEWMNI 437 (712)
Q Consensus 405 AAAL~lA~~-------~e~L~~vtGy~~eeL~eCve~L~~ 437 (712)
|||+|+|.. ......++|.+..-|.+-.+.|.+
T Consensus 238 aaaiy~as~l~~~~~tq~eva~v~~vtevTIrnrykel~~ 277 (285)
T COG1405 238 AAAIYLASLLLGERRTQKEVAKVAGVTEVTIRNRYKELAD 277 (285)
T ss_pred HHHHHHHHHHhCCchHHHHHHHHhCCeeeHHHHHHHHHHH
Confidence 999999973 356788889988888777655554
No 18
>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=98.31 E-value=2.1e-06 Score=82.98 Aligned_cols=94 Identities=20% Similarity=0.281 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHHhcCchhHHHHHHHHHHHhhc---cCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCC
Q psy16012 246 VLLDWLSEVCEVYTLHRETFYLTIDYIDRYLS---TNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACS 322 (712)
Q Consensus 246 iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS---~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT 322 (712)
.+.+|+.++...-+++.+++.+|..|+||+.. .....+.....+-+-++||.+|+|+-+.....-+.++.+++ ++
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~g--is 130 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG--IS 130 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT--S-
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcC--CC
Confidence 47899999999999999999999999999998 32233557788899999999999997766666777777764 79
Q ss_pred HHHHHHHHHHHHHHcCccc
Q psy16012 323 SQDILSTEMNILAVLEWNI 341 (712)
Q Consensus 323 ~~EIl~mE~~ILktL~WdL 341 (712)
.+||.+||+..|..|+|+|
T Consensus 131 ~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 131 LKELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHHHHCCCcC
Confidence 9999999999999999986
No 19
>KOG1597|consensus
Probab=98.28 E-value=1.5e-05 Score=84.35 Aligned_cols=177 Identities=13% Similarity=0.126 Sum_probs=141.9
Q ss_pred HHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHHH
Q psy16012 246 VLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQD 325 (712)
Q Consensus 246 iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~E 325 (712)
....-|..+|+..+|.....-.|-.+|-+|-.... ......+-+++|||+||+.-++. |-.+++...++. .+++|
T Consensus 106 ~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~--lrGks~eai~AAclyiACRq~~~-pRT~kEI~~~an--v~kKE 180 (308)
T KOG1597|consen 106 AAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKL--LRGKSVEALAAACLYIACRQEDV-PRTFKEISAVAN--VSKKE 180 (308)
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhh--hcCccHHHHHHHHHHHHHHhcCC-CchHHHHHHHHc--CCHHH
Confidence 34556788999999999999999999999985532 56788999999999999997664 677888887776 89999
Q ss_pred HHHHHHHHHHHcCccccCCC--hhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHHHH
Q psy16012 326 ILSTEMNILAVLEWNITPVT--AHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVL 403 (712)
Q Consensus 326 Il~mE~~ILktL~WdL~~pT--P~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvI 403 (712)
|-+.=+.|+..|+=.+...+ .-+|+..|+..+..... ....|.++.+-+..=.....-.|=.|
T Consensus 181 Igr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~---------------~q~aA~e~a~ka~~~~~~~gRsPiSI 245 (308)
T KOG1597|consen 181 IGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKS---------------AQEAATEIAEKAEEMDIRAGRSPISI 245 (308)
T ss_pred HHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHH---------------HHHHHHHHHHHHHHhccccCCCchhH
Confidence 99999999999988777666 78899999998887543 33445555555543333355889999
Q ss_pred HHHHHHHHcC-------hhHHHHhhCCCHHhHHHHHHHHHHHHHHH
Q psy16012 404 ATTAIYLVCS-------KELACMISGLRLESLEDCIEWMNIYWVIL 442 (712)
Q Consensus 404 AAAAL~lA~~-------~e~L~~vtGy~~eeL~eCve~L~~~~~~I 442 (712)
|||+||++.. ...+..++|+...-|+.-++.|.+.+..+
T Consensus 246 AAa~IYmisqls~~kkt~keI~~vtgVaE~TIr~sYK~Lyp~~~~l 291 (308)
T KOG1597|consen 246 AAAAIYMISQLSDEKKTQKEIGEVTGVAEVTIRNSYKDLYPHADKL 291 (308)
T ss_pred HHHHHHHHHHhccCcccHHHHHHHhhhhHHHHHHHHHHHhhchhhh
Confidence 9999999873 35678899999999999999999887654
No 20
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=97.77 E-value=7.8e-05 Score=61.90 Aligned_cols=61 Identities=23% Similarity=0.270 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHHc-------ChhHHHHhhCC-CHHhHHHHHHHHH
Q psy16012 376 RTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVC-------SKELACMISGL-RLESLEDCIEWMN 436 (712)
Q Consensus 376 ~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~-------~~e~L~~vtGy-~~eeL~eCve~L~ 436 (712)
.++...|.++++.++.+..+..++|+.||+||+++|+ |...+..++|+ +.+++.+|...|.
T Consensus 14 ~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~~~~~i~~~~~~il 82 (83)
T smart00385 14 PETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGYFTEEEILRMEKLLL 82 (83)
T ss_pred HHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCCCCHHHHHHHHHHHh
Confidence 4477889999999999999999999999999999998 45678888898 9999998887653
No 21
>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=97.68 E-value=0.00023 Score=59.61 Aligned_cols=78 Identities=22% Similarity=0.194 Sum_probs=65.8
Q ss_pred CCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHHc-------Chh
Q psy16012 343 PVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVC-------SKE 415 (712)
Q Consensus 343 ~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~-------~~e 415 (712)
.+++.+|+..+...++.+ .+....|.++++.++....+..+.|+.||+|||++|+ |..
T Consensus 2 ~~~~~~~l~~~~~~~~~~---------------~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~ 66 (88)
T cd00043 2 RPTPLDFLRRVAKALGLS---------------PETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLK 66 (88)
T ss_pred cchHHHHHHHHHHHcCCC---------------HHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHH
Confidence 578899999999888654 3467889999999999999999999999999999997 456
Q ss_pred HHHHhhCC-CHHhHHHHHHHH
Q psy16012 416 LACMISGL-RLESLEDCIEWM 435 (712)
Q Consensus 416 ~L~~vtGy-~~eeL~eCve~L 435 (712)
.+..++|+ +.+++..+...+
T Consensus 67 ~~~~~~~~~~~~~i~~~e~~i 87 (88)
T cd00043 67 DLVHVTGYATEEEILRMEKLL 87 (88)
T ss_pred HHhHHhCCCCHHHHHHHHHHh
Confidence 77888888 888888776654
No 22
>KOG4164|consensus
Probab=97.41 E-value=7.8e-05 Score=81.50 Aligned_cols=109 Identities=17% Similarity=0.259 Sum_probs=88.3
Q ss_pred hhccCCcccHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccc
Q psy16012 235 EALQVKYLPRTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYA 314 (712)
Q Consensus 235 ~q~eIt~~~R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~ 314 (712)
...++|-..=+-+=.=|.++++..++..-|+.+|-.||.....+. .+++.+..|.|-|||++|+||.+..-..++.++
T Consensus 373 P~IkLTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkg--lisK~NRKlcAGAclLlaaKmnD~Kks~vKslI 450 (497)
T KOG4164|consen 373 PHIKLTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKG--LISKQNRKLCAGACLLLAAKMNDLKKSTVKSLI 450 (497)
T ss_pred CeeEEeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhh--hhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence 334444444445566788899999999999999999999998874 488999999999999999999877656666666
Q ss_pred cccCC--CCCHHHHHHHHHHHHHHcCccccCCC
Q psy16012 315 YVTDG--ACSSQDILSTEMNILAVLEWNITPVT 345 (712)
Q Consensus 315 ~itd~--~yT~~EIl~mE~~ILktL~WdL~~pT 345 (712)
.-.+. .+...|++..|.-||-+|.|.|+++-
T Consensus 451 ek~Ee~fR~nrrdLia~Ef~VlvaLefaL~~~~ 483 (497)
T KOG4164|consen 451 EKLEEQFRLNRRDLIAFEFPVLVALEFALHLPE 483 (497)
T ss_pred HHHHHHhcccHHhhhhhhhhHHHhhhhhccCCh
Confidence 54443 45899999999999999999998653
No 23
>KOG1598|consensus
Probab=95.23 E-value=0.19 Score=57.83 Aligned_cols=146 Identities=14% Similarity=0.127 Sum_probs=113.3
Q ss_pred HHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHHHHHH
Q psy16012 249 DWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQDILS 328 (712)
Q Consensus 249 DWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~EIl~ 328 (712)
.-|-+++..+++.. ..-.|.++|---+.. |..+....++|-.+||++++..|-+.. .+-||..+.. ++.-++=.
T Consensus 72 ~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~--nftkGr~~~~vvasClY~vcR~e~t~h-lliDfS~~Lq--v~Vy~LG~ 145 (521)
T KOG1598|consen 72 RLIEELTERLNLGN-KTEVAFNFFKLAPDR--NFTKGRRSTEVVAACLYLVCRLEKTDH-LLIDFSSYLQ--VSVYDLGS 145 (521)
T ss_pred hHHHHHHHhcCcch-HHHHHHHHHHHHhhC--CCCCCcchHHHHHHHHHHHHHhhCCce-EEEEeccceE--EehhhhhH
Confidence 36889999999999 888999999888877 568788999999999999999877644 4445543322 34455555
Q ss_pred HHHHHHHHcCcc---ccCCChhHHHHHHHHHhccccccccccccccccchHHHHHHHHHHHHHHhcccccccCcHHHHHH
Q psy16012 329 TEMNILAVLEWN---ITPVTAHYWLNVFLQVVYHRSSRCHNLGFIYPAFSRTLYTQCIRLLDLCHLDIRCLNYSYSVLAT 405 (712)
Q Consensus 329 mE~~ILktL~Wd---L~~pTP~~FL~~fL~~l~~~~~~~~~~~~l~pq~s~~l~~~A~~LLdL~LlD~~fl~f~PSvIAA 405 (712)
+=+.|...|.=. +-..-|.-|+..|...+...+.+ .++...|.+|+.-..-|.-...-+|+-|.-
T Consensus 146 ~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~------------~~Vv~~a~~L~~rMkrdwm~tGRRPsglcG 213 (521)
T KOG1598|consen 146 NFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKT------------EDVAKTATRLAQRMKRDWMQTGRRPSGLCG 213 (521)
T ss_pred HHHHHHHHhccccccccccCcceeeechhHhhhcCCch------------HHHHHHHHHHHHHHHHHHHHhCCCccchhH
Confidence 556666677666 56777888898898887765542 346677888888888899899999999999
Q ss_pred HHHHHHc
Q psy16012 406 TAIYLVC 412 (712)
Q Consensus 406 AAL~lA~ 412 (712)
|||+.|+
T Consensus 214 AaLliAa 220 (521)
T KOG1598|consen 214 AALLIAA 220 (521)
T ss_pred HHHHHHH
Confidence 9999986
No 24
>KOG1674|consensus
Probab=94.36 E-value=0.13 Score=53.26 Aligned_cols=97 Identities=14% Similarity=0.314 Sum_probs=73.1
Q ss_pred HHHHHHHHHHHHhcCchhHHHHHHHHHHHhhcc-------CccccCCcc-hhhHHHHHHHHHHHhccCCCCCcccccccc
Q psy16012 246 VLLDWLSEVCEVYTLHRETFYLTIDYIDRYLST-------NANIVPKQQ-LQLIGVAALMIAAKVEEIYPPKVSDYAYVT 317 (712)
Q Consensus 246 iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~-------~~~iv~k~~-LQLIGiTCLfIASKvEEi~pP~i~dL~~it 317 (712)
.+-+++.++.+..+.+.+++.+|..|||||... +...++-.+ ..-+-++|+.+|+|+++...-.-.-++++
T Consensus 77 si~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~v- 155 (218)
T KOG1674|consen 77 SIRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKV- 155 (218)
T ss_pred chHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHh-
Confidence 456788888888999999999999999999985 222232333 55678999999999976532222222222
Q ss_pred CCCCCHHHHHHHHHHHHHHcCccccCC
Q psy16012 318 DGACSSQDILSTEMNILAVLEWNITPV 344 (712)
Q Consensus 318 d~~yT~~EIl~mE~~ILktL~WdL~~p 344 (712)
+..+.+|+..+|...|..++|++.+.
T Consensus 156 -ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 -GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 45689999999999999999999974
No 25
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=93.77 E-value=0.18 Score=42.75 Aligned_cols=64 Identities=11% Similarity=0.260 Sum_probs=49.0
Q ss_pred HHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCcccccccc
Q psy16012 251 LSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVT 317 (712)
Q Consensus 251 L~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~it 317 (712)
|-++|..++|+.++.-.|..++++-.... +.......-++++|+++|++.+.. +..+.|+..++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~--~~~Gr~~~~iaAA~iY~acr~~~~-~~t~~eIa~~~ 64 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERG--LLKGRSPESIAAACIYLACRLNGV-PRTLKEIAEAA 64 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTT--TSTTS-HHHHHHHHHHHHHHHTTS-SSSHHHHHHHC
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcC--CcccCCHHHHHHHHHHHHHHHcCC-CcCHHHHHHHh
Confidence 45789999999999999999999988763 466677899999999999998754 44566665444
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=89.65 E-value=1.4 Score=37.35 Aligned_cols=52 Identities=13% Similarity=0.153 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHHcC-------hhHHHHhhCCCHHh
Q psy16012 376 RTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVCS-------KELACMISGLRLES 427 (712)
Q Consensus 376 ~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~~-------~e~L~~vtGy~~ee 427 (712)
..+...|..+...+....-.-+-+|..|||||||+|+. ...+...+|++..+
T Consensus 12 ~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~~Vs~~t 70 (71)
T PF00382_consen 12 EDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAAGVSEKT 70 (71)
T ss_dssp HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHCTSSHHH
T ss_pred HHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCCCCCc
Confidence 34778888898888777767788999999999999983 24455555655443
No 27
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=88.15 E-value=2.3 Score=46.28 Aligned_cols=90 Identities=13% Similarity=0.139 Sum_probs=72.8
Q ss_pred HHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHHHH
Q psy16012 247 LLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQDI 326 (712)
Q Consensus 247 LVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~EI 326 (712)
.-++|...|..++|+.++.-.|..++.+.... .+.......-|+++|+|||+++... +..+++++.++ ..+...|
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~--~l~~Gr~P~sIAAAaIYlA~~~~g~-~~t~keIa~v~--~Vs~~tI 293 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEK--GLTSGKGPTGLAAAAIYIASLLLGE-RRTQREVAEVA--GVTEVTV 293 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc--CcccCCCHHHHHHHHHHHHHHHhCC-CCCHHHHHHHc--CCCHHHH
Confidence 46999999999999999999999999988764 3466889999999999999998754 45677776665 3678888
Q ss_pred HHHHHHHHHHcCccc
Q psy16012 327 LSTEMNILAVLEWNI 341 (712)
Q Consensus 327 l~mE~~ILktL~WdL 341 (712)
...=+.|++.|+..+
T Consensus 294 ~~~ykel~~~l~~~~ 308 (310)
T PRK00423 294 RNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHhCccc
Confidence 887788888776543
No 28
>KOG1924|consensus
Probab=82.98 E-value=3.3 Score=49.92 Aligned_cols=17 Identities=18% Similarity=0.489 Sum_probs=12.4
Q ss_pred hhhhhhhhhhhhhcccC
Q psy16012 612 QTKISRTAFYMMCAKDQ 628 (712)
Q Consensus 612 ~~~~~~~~~~~~~~~~~ 628 (712)
-+++|+.+|+.-|..|+
T Consensus 636 p~d~s~~cFWvkv~Edk 652 (1102)
T KOG1924|consen 636 PRDLSENCFWVKVNEDK 652 (1102)
T ss_pred ccccCccceeeecchhh
Confidence 35678888888777665
No 29
>KOG1675|consensus
Probab=80.75 E-value=4.8 Score=44.00 Aligned_cols=107 Identities=16% Similarity=0.182 Sum_probs=69.0
Q ss_pred HHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHHHHHHHH
Q psy16012 251 LSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQDILSTE 330 (712)
Q Consensus 251 L~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~EIl~mE 330 (712)
..-.+..+.|..+.--....|++|-+......+.+.....++....++|+|+=....--=-|.+.+.. .-|.+|+.+||
T Consensus 197 v~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlK-d~tveDmNe~E 275 (343)
T KOG1675|consen 197 VRILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILK-DQSVDDMNALE 275 (343)
T ss_pred hhhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHh-hccHhhHHHHH
Confidence 33344444555555555668899987665422336677777777899999973322111122222221 23799999999
Q ss_pred HHHHHHcCccccCCChhHHHHHHHHHhcc
Q psy16012 331 MNILAVLEWNITPVTAHYWLNVFLQVVYH 359 (712)
Q Consensus 331 ~~ILktL~WdL~~pTP~~FL~~fL~~l~~ 359 (712)
+.+|..|+|+++.|-.. |-.+|..+...
T Consensus 276 RqfLelLqfNinvp~sv-YAKyYfdlr~L 303 (343)
T KOG1675|consen 276 RQFLELLQFNINVPSSE-YAKYYFDLRCL 303 (343)
T ss_pred HHHHHHHhhccCccHHH-HHHHHHHHhhh
Confidence 99999999999988753 67777766533
No 30
>KOG1924|consensus
Probab=80.56 E-value=5.7 Score=48.02 Aligned_cols=19 Identities=26% Similarity=0.158 Sum_probs=12.3
Q ss_pred cccHHHHHHHHHHHHHHhc
Q psy16012 241 YLPRTVLLDWLSEVCEVYT 259 (712)
Q Consensus 241 ~~~R~iLVDWL~EV~~~yk 259 (712)
++++-.+|.-+..+|-.+.
T Consensus 248 pnmm~dvvkllsalciV~e 266 (1102)
T KOG1924|consen 248 PNMMTDVVKLLSALCIVGE 266 (1102)
T ss_pred ccHHHHHHHHHHHHheeeh
Confidence 4567777777777765544
No 31
>KOG0834|consensus
Probab=78.15 E-value=3.4 Score=45.54 Aligned_cols=91 Identities=18% Similarity=0.162 Sum_probs=64.6
Q ss_pred HHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCcccc--ccccCCCC
Q psy16012 244 RTVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDY--AYVTDGAC 321 (712)
Q Consensus 244 R~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL--~~itd~~y 321 (712)
-.-|++|+..+-..-+........|-+++-..+... ..+ ....+-||++||+||+|+-....|...+- -...+...
T Consensus 152 y~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~-~cL-~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~v 229 (323)
T KOG0834|consen 152 YKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTT-LCL-QYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETV 229 (323)
T ss_pred hHHHHHHHHHhhhhhhccccHHHHHHHHhchhheee-eeE-eecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccC
Confidence 346778888777766666667778888887777654 233 78888999999999999977765555554 34555667
Q ss_pred CHHHHHHHHHHHHHH
Q psy16012 322 SSQDILSTEMNILAV 336 (712)
Q Consensus 322 T~~EIl~mE~~ILkt 336 (712)
|.++|-++...+|..
T Consensus 230 t~e~l~~i~~~~l~~ 244 (323)
T KOG0834|consen 230 TNELLDDICHEFLDL 244 (323)
T ss_pred CHHHHHHHHHHHHHH
Confidence 888887766555443
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=75.53 E-value=5.7 Score=35.46 Aligned_cols=85 Identities=19% Similarity=0.199 Sum_probs=50.8
Q ss_pred HHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHHHHHH
Q psy16012 249 DWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQDILS 328 (712)
Q Consensus 249 DWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~EIl~ 328 (712)
+||.......+...++..+|-.+++-.+.... +-...--+||++|+++|.++-...+.--..+..++ .++.++|..
T Consensus 5 ~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~--fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t--~~~~~~l~~ 80 (118)
T PF02984_consen 5 DFLRRFLKISNADQEVRNLARYLLELSLLDYE--FLQYPPSVIAAAAILLARKILGKEPPWPESLEKLT--GYDKEDLKE 80 (118)
T ss_dssp HHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHH--HTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHH--TS-HHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHhhcc--ccCCCHHHHHHHHHHHHHHHhCccccCCccchhhc--CCCHHHHHH
Confidence 44444433334456677777777776665543 33566789999999999999653232223344444 457888776
Q ss_pred HHHHHHHHc
Q psy16012 329 TEMNILAVL 337 (712)
Q Consensus 329 mE~~ILktL 337 (712)
+=..|.+.+
T Consensus 81 c~~~i~~~~ 89 (118)
T PF02984_consen 81 CIELIQELL 89 (118)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 555555444
No 33
>PF15449 Retinal: Retinal protein
Probab=53.05 E-value=59 Score=41.14 Aligned_cols=14 Identities=36% Similarity=0.397 Sum_probs=8.5
Q ss_pred cccccccCCchhhh
Q psy16012 580 SSKSLRSGSDSQQL 593 (712)
Q Consensus 580 ~~~~~~~~~~~~~~ 593 (712)
..|-.|...|+|+.
T Consensus 1121 ~~K~~rdsed~~~~ 1134 (1287)
T PF15449_consen 1121 GPKEQRDSEDSQAA 1134 (1287)
T ss_pred CCCCCCccccCccc
Confidence 45666766666653
No 34
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=43.44 E-value=54 Score=35.70 Aligned_cols=58 Identities=12% Similarity=0.108 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhcc
Q psy16012 245 TVLLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEE 304 (712)
Q Consensus 245 ~iLVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEE 304 (712)
..-.+++-..|..++|+.++--.|+.+++....... .......=+|++|++||+++..
T Consensus 192 ~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~--~~Gk~P~glAaaaiy~as~l~~ 249 (285)
T COG1405 192 VDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGL--TAGKSPAGLAAAAIYLASLLLG 249 (285)
T ss_pred CCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCc--ccCCCchhHHHHHHHHHHHHhC
Confidence 355789999999999999999999999999987643 4477888899999999999866
No 35
>KOG0260|consensus
Probab=40.16 E-value=1.4e+02 Score=38.46 Aligned_cols=17 Identities=35% Similarity=0.507 Sum_probs=9.4
Q ss_pred HHHHHhcCchhHHHHHH
Q psy16012 253 EVCEVYTLHRETFYLTI 269 (712)
Q Consensus 253 EV~~~ykLs~ET~~LAV 269 (712)
.|++.|+|+.+.|.--+
T Consensus 1021 rv~~e~rls~eaf~w~~ 1037 (1605)
T KOG0260|consen 1021 RVLEEYRLSSEAFEWVL 1037 (1605)
T ss_pred HHHHHhcccHHHHHHHh
Confidence 35556666666665443
No 36
>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=39.07 E-value=69 Score=31.16 Aligned_cols=58 Identities=17% Similarity=0.229 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHhcCchhHHHHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhcc
Q psy16012 247 LLDWLSEVCEVYTLHRETFYLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEE 304 (712)
Q Consensus 247 LVDWL~EV~~~ykLs~ET~~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEE 304 (712)
...-|.++|++++++.+..-..-..|+..+..+..++...++--+-++|+++-+|+..
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~ 71 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK 71 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc
Confidence 4556788999999999988888899999998777778788999999999999999865
No 37
>KOG0260|consensus
Probab=36.75 E-value=1.7e+02 Score=37.81 Aligned_cols=19 Identities=26% Similarity=0.237 Sum_probs=9.8
Q ss_pred ccccccCcHHHHHHHHHHHHc
Q psy16012 392 DIRCLNYSYSVLATTAIYLVC 412 (712)
Q Consensus 392 D~~fl~f~PSvIAAAAL~lA~ 412 (712)
|-.+++| -.+|.=|..+..
T Consensus 1332 ~gsyVny--rhlaLl~dvmT~ 1350 (1605)
T KOG0260|consen 1332 DGSYVNY--RHLALLCDVMTA 1350 (1605)
T ss_pred cccchhH--HHHHHHHHHHhc
Confidence 4444444 456665555554
No 38
>KOG0655|consensus
Probab=35.29 E-value=13 Score=41.35 Aligned_cols=33 Identities=36% Similarity=0.766 Sum_probs=28.3
Q ss_pred hhhhhhcccCCccccCCCcccccCCCcccccceee
Q psy16012 619 AFYMMCAKDQDSLSLRDPHMLDRHPSIVPRMRTLS 653 (712)
Q Consensus 619 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 653 (712)
.+-.||.||. .-+||-|||..||..-|+||.+-
T Consensus 116 VW~lM~kkee--~~l~~~~~l~qHpdlqp~mRaIL 148 (408)
T KOG0655|consen 116 VWLLMLKKEE--RYLRDKHFLEQHPDLQPQMRAIL 148 (408)
T ss_pred HHHHHHccch--hhhhhhHHHhhCCCCCHHHHHHH
Confidence 3557998876 78999999999999999999754
No 39
>KOG1597|consensus
Probab=34.78 E-value=1.3e+02 Score=33.21 Aligned_cols=62 Identities=13% Similarity=0.328 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHhccccc-ccCcHHHHHHHHHHHHcCh-------hHHHHhhCCCHHhHHHHHHHHHHHHH
Q psy16012 378 LYTQCIRLLDLCHLDIRC-LNYSYSVLATTAIYLVCSK-------ELACMISGLRLESLEDCIEWMNIYWV 440 (712)
Q Consensus 378 l~~~A~~LLdL~LlD~~f-l~f~PSvIAAAAL~lA~~~-------e~L~~vtGy~~eeL~eCve~L~~~~~ 440 (712)
+...|.++...+- |..+ -.-.--.|||||||.|+.. .....+.+.++.|+-.|++.+.+-..
T Consensus 124 I~d~A~~ifk~v~-~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~anv~kKEIgr~~K~i~~~l~ 193 (308)
T KOG1597|consen 124 IKDRANEIFKLVE-DSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVANVSKKEIGRCVKLIGEALE 193 (308)
T ss_pred HHHHHHHHHHHHH-HhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence 4455555555444 3433 4566678999999999953 45667788999999999998877543
No 40
>KOG1923|consensus
Probab=34.09 E-value=1.3e+02 Score=36.99 Aligned_cols=9 Identities=11% Similarity=-0.067 Sum_probs=3.7
Q ss_pred hhhccchhh
Q psy16012 159 IITGLSLKM 167 (712)
Q Consensus 159 ~~~g~~~~~ 167 (712)
+..-|.|+|
T Consensus 24 ia~S~~~~n 32 (830)
T KOG1923|consen 24 IANSSKHTN 32 (830)
T ss_pred hhHhhccCC
Confidence 333444443
No 41
>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=32.58 E-value=1.1e+02 Score=27.69 Aligned_cols=38 Identities=13% Similarity=0.126 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHHcC
Q psy16012 376 RTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVCS 413 (712)
Q Consensus 376 ~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~~ 413 (712)
...+..|..+++.-+.........+..+|+||+++|.+
T Consensus 49 ~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K 86 (127)
T PF00134_consen 49 PETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASK 86 (127)
T ss_dssp HHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhh
Confidence 44677788888888887778899999999999999984
No 42
>KOG3537|consensus
Probab=29.35 E-value=1.1e+02 Score=35.40 Aligned_cols=17 Identities=6% Similarity=0.219 Sum_probs=12.2
Q ss_pred ecccccchhhHHHHHHH
Q psy16012 476 YHKHSVSMELSDLAIAE 492 (712)
Q Consensus 476 iQth~~sl~~l~~a~~~ 492 (712)
.|+|....+..+.|.+.
T Consensus 358 ~~~H~~~~~~a~~Wlq~ 374 (543)
T KOG3537|consen 358 MQQHNANGDFAAAWLQN 374 (543)
T ss_pred hhhcccchHHHHHhHHh
Confidence 88898888866665443
No 43
>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=27.81 E-value=4.9e+02 Score=24.05 Aligned_cols=63 Identities=8% Similarity=0.037 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHhcccccccCcHHHHHHH-HHHHHcC------------hhHHHHhhCCCHHhHHHHHHHHHHHHH
Q psy16012 378 LYTQCIRLLDLCHLDIRCLNYSYSVLATT-AIYLVCS------------KELACMISGLRLESLEDCIEWMNIYWV 440 (712)
Q Consensus 378 l~~~A~~LLdL~LlD~~fl~f~PSvIAAA-AL~lA~~------------~e~L~~vtGy~~eeL~eCve~L~~~~~ 440 (712)
+......++.-++.|+.--..+||+|||| |-++... -+.+....|.+..-+...++.+..-.+
T Consensus 25 ~H~~V~~~v~KAiV~P~TG~Lp~SlvaAA~CAL~~~~~~~P~~~~~~~~~~~LA~~~G~~~a~L~AA~E~v~Tt~~ 100 (106)
T PF09080_consen 25 WHSEVVESVHKAIVNPKTGGLPPSLVAAAGCALFSLGAAAPPDTHSGGVVPQLAEALGVSAATLQAAAESVATTLR 100 (106)
T ss_dssp HHHHHHHHHHHHHCSTTGGGS-HHHHHHHHHHHHS-GGGS--------HHHHHHHHHT--HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCcccCCCCHHHHHHhhhhhccccccCCCccccccchHHHHHHhCccHHHHHHHHHHHHHHHH
Confidence 55667778889999999999999999999 4443321 146888899999888887776655443
No 44
>KOG0835|consensus
Probab=27.33 E-value=2.2e+02 Score=31.95 Aligned_cols=60 Identities=17% Similarity=0.210 Sum_probs=37.5
Q ss_pred HHHHHHHHHhhccCccccCCcchhhHHHHHHHHHHHhccCCCCCccccccccCCCCCHHHHHHH
Q psy16012 266 YLTIDYIDRYLSTNANIVPKQQLQLIGVAALMIAAKVEEIYPPKVSDYAYVTDGACSSQDILST 329 (712)
Q Consensus 266 ~LAV~yfDRFLS~~~~iv~k~~LQLIGiTCLfIASKvEEi~pP~i~dL~~itd~~yT~~EIl~m 329 (712)
..|-+|+.--+-. .++-...-.+||++|+++||..+|+..|....+..+. .+++++|-..
T Consensus 162 Q~~wNfmNDslRT--~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~F--d~~k~eid~i 221 (367)
T KOG0835|consen 162 QAAWNFMNDSLRT--DVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAF--DTTKREIDEI 221 (367)
T ss_pred HHHHHhhhhcccc--ceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHc--CCcHHHHHHH
Confidence 3333444433332 3444677789999999999999997666665443332 3466666543
No 45
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=26.08 E-value=75 Score=34.90 Aligned_cols=39 Identities=15% Similarity=0.375 Sum_probs=31.9
Q ss_pred hHHHHHHHHHHHHHHhcccccccCcHHHHHHHHHHHHcC
Q psy16012 375 SRTLYTQCIRLLDLCHLDIRCLNYSYSVLATTAIYLVCS 413 (712)
Q Consensus 375 s~~l~~~A~~LLdL~LlD~~fl~f~PSvIAAAAL~lA~~ 413 (712)
.+.+...|..++.--.+...+..|.|-.||++|||+|+.
T Consensus 75 pq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~K 113 (305)
T TIGR00569 75 PTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACK 113 (305)
T ss_pred CchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHh
Confidence 345666777777777777788899999999999999985
No 46
>PLN02217 probable pectinesterase/pectinesterase inhibitor
Probab=24.21 E-value=1.8e+02 Score=35.43 Aligned_cols=37 Identities=35% Similarity=0.354 Sum_probs=15.3
Q ss_pred CCCCCccCCCCC-CCCCCCCCCCCCCCCCCCccccccc
Q psy16012 550 PSSSKTILPATP-SSSKASRKSAPPAITTPCSSKSLRS 586 (712)
Q Consensus 550 p~s~~t~~p~~~-~~~~~~~~s~p~~~~~p~~~~~~~~ 586 (712)
|+++....|.+. +++..+-+.+-+++.+|-|++...+
T Consensus 621 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 658 (670)
T PLN02217 621 PPASHLGSPSTTPSSPESSIKVASTETASPESSIKVAS 658 (670)
T ss_pred CcccccCCCCCCCCCcccceeeccCCCCCCccceeeee
Confidence 344444444433 2222233334444445555554433
No 47
>PF12126 DUF3583: Protein of unknown function (DUF3583); InterPro: IPR021978 This domain is found in eukaryotes, and is typically between 302 and 338 amino acids in length. It is found in association with PF00097 from PFAM and PF00643 from PFAM. Most members are promyelocytic leukemia proteins, and this family lies towards the C terminus.
Probab=23.57 E-value=1e+03 Score=26.43 Aligned_cols=25 Identities=4% Similarity=0.150 Sum_probs=18.4
Q ss_pred CCCHHhHHHHHHHHHHHHHHHHhcC
Q psy16012 422 GLRLESLEDCIEWMNIYWVILCEKS 446 (712)
Q Consensus 422 Gy~~eeL~eCve~L~~~~~~I~e~~ 446 (712)
-+.-+.+.+|--.|..++.-|.+..
T Consensus 131 ~V~td~F~E~k~rLQ~L~scItq~t 155 (324)
T PF12126_consen 131 AVRTDGFDEFKARLQDLVSCITQGT 155 (324)
T ss_pred ceecccHHHHHHHHHHHHHHHhcCc
Confidence 3555678888888888888776543
No 48
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.06 E-value=1.3e+03 Score=28.07 Aligned_cols=47 Identities=11% Similarity=0.216 Sum_probs=31.6
Q ss_pred cceeeeeehhhcccCCCCchhh-hhhhcccCCCCCC-ceEEEEeeccch
Q psy16012 649 MRTLSVSYSLFLDHVPRLPSQI-CHVMGVLTPDIKD-PLILVVGVNNHL 695 (712)
Q Consensus 649 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~ 695 (712)
.-.|.+-|.-|++|+-.--.++ --.|-.--|-... +-+++|+++|-+
T Consensus 502 ~~~l~~~w~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 550 (620)
T PRK14954 502 LEKLRMEWNQFLEHLLKKGQKVLVTHLRSCELTSCSPHGVVVMTCCRKF 550 (620)
T ss_pred HHHHHHHHHHHHHHHHHccchHHHHHHhcCcccccCCCCeEEEEecccc
Confidence 4467788889999987654443 2344555566667 478888888753
No 49
>PRK13042 superantigen-like protein; Reviewed
Probab=20.50 E-value=1.8e+02 Score=31.84 Aligned_cols=10 Identities=20% Similarity=0.245 Sum_probs=5.2
Q ss_pred hhhhhhcccC
Q psy16012 669 QICHVMGVLT 678 (712)
Q Consensus 669 ~~~~~~~~~~ 678 (712)
..|-+-||--
T Consensus 177 ~~~syGGVTk 186 (291)
T PRK13042 177 EKYSVGGITK 186 (291)
T ss_pred ceEEECCEEc
Confidence 4565555543
Done!