Query psy7892
Match_columns 240
No_of_seqs 223 out of 1496
Neff 6.6
Searched_HMMs 46136
Date Fri Aug 16 21:29:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7892.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7892hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0653|consensus 100.0 1.1E-38 2.4E-43 298.1 10.9 162 73-239 108-270 (391)
2 COG5024 Cyclin [Cell division 100.0 5E-37 1.1E-41 287.5 9.8 162 73-239 162-324 (440)
3 KOG0655|consensus 100.0 4.8E-35 1E-39 261.9 7.6 144 92-240 113-258 (408)
4 KOG0656|consensus 100.0 5.7E-29 1.2E-33 226.2 13.5 143 90-237 44-191 (335)
5 PF00134 Cyclin_N: Cyclin, N-t 100.0 1.9E-28 4.1E-33 192.9 9.8 126 94-224 1-127 (127)
6 KOG0654|consensus 99.9 3.4E-26 7.4E-31 209.7 5.7 158 76-239 88-248 (359)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.7 1.9E-16 4E-21 143.9 9.5 111 126-237 54-168 (305)
8 cd00043 CYCLIN Cyclin box fold 99.6 2.1E-15 4.6E-20 109.1 7.1 88 127-216 1-88 (88)
9 smart00385 CYCLIN domain prese 99.5 1.6E-14 3.6E-19 103.5 6.2 83 133-217 1-83 (83)
10 KOG0834|consensus 99.5 8.5E-14 1.8E-18 127.0 8.3 114 124-238 35-161 (323)
11 COG5333 CCL1 Cdk activating ki 99.3 1.3E-11 2.8E-16 110.8 10.5 114 124-238 41-160 (297)
12 KOG0835|consensus 99.0 6.6E-10 1.4E-14 100.5 8.7 116 122-238 17-151 (367)
13 KOG0794|consensus 98.9 1.7E-09 3.6E-14 93.9 3.6 112 127-238 40-163 (264)
14 PF08613 Cyclin: Cyclin; Inte 98.8 1.2E-08 2.6E-13 83.7 7.8 91 131-223 54-149 (149)
15 PRK00423 tfb transcription ini 98.5 1.5E-06 3.2E-11 79.5 11.8 107 129-238 123-229 (310)
16 KOG2496|consensus 98.2 5.8E-06 1.3E-10 74.6 8.8 105 130-235 58-166 (325)
17 KOG4164|consensus 97.7 1.7E-05 3.7E-10 73.8 2.4 104 123-226 377-482 (497)
18 KOG1597|consensus 97.0 0.0031 6.7E-08 57.0 8.2 103 132-237 108-212 (308)
19 COG1405 SUA7 Transcription ini 96.8 0.013 2.8E-07 53.2 10.8 109 127-238 96-204 (285)
20 KOG1674|consensus 96.7 0.0033 7.1E-08 54.9 5.7 94 131-226 78-181 (218)
21 PF00382 TFIIB: Transcription 96.2 0.011 2.4E-07 42.1 5.1 65 135-200 1-65 (71)
22 KOG1675|consensus 96.0 0.017 3.6E-07 52.7 6.3 98 138-237 200-299 (343)
23 PRK00423 tfb transcription ini 94.4 0.23 4.9E-06 45.5 8.5 89 132-223 220-308 (310)
24 KOG0834|consensus 90.9 0.32 6.9E-06 45.0 4.4 94 129-222 153-248 (323)
25 PF02984 Cyclin_C: Cyclin, C-t 90.8 0.53 1.2E-05 35.5 4.9 87 132-220 4-90 (118)
26 COG1405 SUA7 Transcription ini 79.6 3.9 8.5E-05 37.2 5.4 69 131-200 194-262 (285)
27 KOG1598|consensus 50.3 13 0.00029 36.4 2.7 66 125-191 60-129 (521)
28 KOG0835|consensus 46.6 44 0.00096 31.2 5.3 66 149-216 161-226 (367)
29 KOG1597|consensus 44.0 52 0.0011 30.2 5.3 69 131-200 203-271 (308)
30 PF01857 RB_B: Retinoblastoma- 42.7 35 0.00077 27.5 3.7 67 132-199 15-83 (135)
31 PF14376 Haem_bd: Haem-binding 31.0 39 0.00084 27.2 2.2 30 105-137 106-135 (137)
32 TIGR01446 DnaD_dom DnaD and ph 20.8 2.4E+02 0.0053 19.3 4.6 30 122-155 12-41 (73)
No 1
>KOG0653|consensus
Probab=100.00 E-value=1.1e-38 Score=298.07 Aligned_cols=162 Identities=40% Similarity=0.667 Sum_probs=153.1
Q ss_pred CCCCCCCCCCCCccchhhhHHHHHHHHHHHHhhCCCCCccCcCCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHH
Q psy7892 73 DVDDFDKETWEDPLQVSCYAMHIFEYLKSREAEFQIKDYLPFQSSTEKGNINAEMRSVLVDWMVEVQETFELNHETLYLA 152 (240)
Q Consensus 73 ~v~~~d~~~~~dp~~~~eY~~dI~~~L~~~E~~~~~~~yl~~q~~~~~~~it~~~R~~lvdWl~ev~~~~~L~~eTl~lA 152 (240)
.+.|+|..++.+|+++.+|+.+||.|++.+|..+.+..|+..|. +++..||.+++|||++||.+|+|.+||+|+|
T Consensus 108 ~~~dl~~~d~~~~~~~~ey~~di~~~l~~~e~~~~p~~~~~~~~-----e~~~~mR~iLvdwlvevh~~F~L~~ETL~La 182 (391)
T KOG0653|consen 108 SILDLDSEDKSDPSMIVEYVQDIFEYLRQLELEFLPLSYDISQS-----EIRAKMRAILVDWLVEVHEKFGLSPETLYLA 182 (391)
T ss_pred CccCcchhcccCcHHHHHHHHHHHHHHHHHHHhhCchhhhcccc-----cccHHHHHHHHHHHHHhhhhcCcCHHHHHHH
Confidence 48999999999999999999999999999994444445556677 9999999999999999999999999999999
Q ss_pred HHHHHHHhhcccccCccchhhhhhccc-cccccccCCCCChhhHHHHhCCCCCHHHHHHHHHHHHHHcCCccCCCCHHHH
Q psy7892 153 VKLVDLYLGKVVCSRLNLQLLGATAIF-VSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEIKLVTAIGFDLGIPLSYRF 231 (240)
Q Consensus 153 V~ilDRyLs~~~v~~~~lqLvg~tcL~-IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~mE~~IL~~L~f~L~~pTp~~F 231 (240)
|+++||||++..|++.++||+|++||| ||+||||..+|.++||+++++++||+++|++||+.||++|+|+++.|+|+.|
T Consensus 183 VnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~F 262 (391)
T KOG0653|consen 183 VNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDGAYSREEILRMEKYILNVLEFDLSVPTPLSF 262 (391)
T ss_pred HHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCCccchHHHHHHHHHHHhccCeeecCCchHHH
Confidence 999999999999999999999999966 9999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHh
Q psy7892 232 LRRYARIR 239 (240)
Q Consensus 232 L~~f~k~a 239 (240)
|++|++++
T Consensus 263 Lrr~~ka~ 270 (391)
T KOG0653|consen 263 LRRFLKAA 270 (391)
T ss_pred HHHHHHhh
Confidence 99999986
No 2
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=5e-37 Score=287.54 Aligned_cols=162 Identities=36% Similarity=0.587 Sum_probs=157.4
Q ss_pred CCCCCCCCCCCCccchhhhHHHHHHHHHHHHhh-CCCCCccCcCCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHH
Q psy7892 73 DVDDFDKETWEDPLQVSCYAMHIFEYLKSREAE-FQIKDYLPFQSSTEKGNINAEMRSVLVDWMVEVQETFELNHETLYL 151 (240)
Q Consensus 73 ~v~~~d~~~~~dp~~~~eY~~dI~~~L~~~E~~-~~~~~yl~~q~~~~~~~it~~~R~~lvdWl~ev~~~~~L~~eTl~l 151 (240)
.+++.|.++.+||.++.||+.+||.||.++|.. .|.++||.+|+ .+.+.||.+|++|+++||.+|++.++|+++
T Consensus 162 ~~~dld~~~~~d~~mv~Ey~~~Ife~l~k~e~~~lp~~~yl~kq~-----~~~~~mR~~Lv~wlvevH~~F~llpeTL~l 236 (440)
T COG5024 162 SWQDLDATDQEDPLMVPEYASDIFEYLLKLELIDLPNPNYLIKQS-----LYEWSMRSILVDWLVEVHGKFGLLPETLFL 236 (440)
T ss_pred CccccccccccCccchHHHHHHHHHHHHHHHHHhcCcHHHHhhcc-----hhHHhHHHHHHHHHHHhcccccccchHHHH
Confidence 678999999999999999999999999999998 57889999999 999999999999999999999999999999
Q ss_pred HHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHHHHHHHHHcCCccCCCCHHHH
Q psy7892 152 AVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEIKLVTAIGFDLGIPLSYRF 231 (240)
Q Consensus 152 AV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~mE~~IL~~L~f~L~~pTp~~F 231 (240)
||+++||||++..+.-+++||+|++||||||||||++.|.+++|++++++.||.++|+++|+.+|.+|+|+++.|+|+.|
T Consensus 237 ainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~aE~~ml~~l~f~is~P~P~sF 316 (440)
T COG5024 237 AINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIRAERYMLEVLDFNISWPSPMSF 316 (440)
T ss_pred HHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHHHHHHHhhhcccccCCCChHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHh
Q psy7892 232 LRRYARIR 239 (240)
Q Consensus 232 L~~f~k~a 239 (240)
||++.++.
T Consensus 317 LRriSka~ 324 (440)
T COG5024 317 LRRISKAS 324 (440)
T ss_pred HHHHHhhc
Confidence 99999874
No 3
>KOG0655|consensus
Probab=100.00 E-value=4.8e-35 Score=261.85 Aligned_cols=144 Identities=30% Similarity=0.608 Sum_probs=134.8
Q ss_pred HHHHHHHHHHHHhhC-CCCCccCcCCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhc-ccccCcc
Q psy7892 92 AMHIFEYLKSREAEF-QIKDYLPFQSSTEKGNINAEMRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGK-VVCSRLN 169 (240)
Q Consensus 92 ~~dI~~~L~~~E~~~-~~~~yl~~q~~~~~~~it~~~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~-~~v~~~~ 169 (240)
..+.|..|..+|..+ ....++.+|| .+.|+||++|+|||++||+.++|.+||||||+-||||||.. ..+.+.+
T Consensus 113 ~~eVW~lM~kkee~~l~~~~~l~qHp-----dlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~ 187 (408)
T KOG0655|consen 113 SKEVWLLMLKKEERYLRDKHFLEQHP-----DLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTN 187 (408)
T ss_pred HHHHHHHHHccchhhhhhhHHHhhCC-----CCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhh
Confidence 488999888888764 4567777888 99999999999999999999999999999999999999965 4599999
Q ss_pred chhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHHhC
Q psy7892 170 LQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEIKLVTAIGFDLGIPLSYRFLRRYARIRY 240 (240)
Q Consensus 170 lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~mE~~IL~~L~f~L~~pTp~~FL~~f~k~a~ 240 (240)
|||||+||||||||+||++||++.+|.+++|++||.++|+.||..||++|+|+|+..|...||..|+.+++
T Consensus 188 lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~ 258 (408)
T KOG0655|consen 188 LQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDA 258 (408)
T ss_pred HHHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999863
No 4
>KOG0656|consensus
Probab=99.96 E-value=5.7e-29 Score=226.17 Aligned_cols=143 Identities=19% Similarity=0.331 Sum_probs=124.4
Q ss_pred hhHHHHHHHHHHHHhhCCCCCccC-cCCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCc
Q psy7892 90 CYAMHIFEYLKSREAEFQIKDYLP-FQSSTEKGNINAEMRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRL 168 (240)
Q Consensus 90 eY~~dI~~~L~~~E~~~~~~~yl~-~q~~~~~~~it~~~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~ 168 (240)
.+.+.|.+.+...|...|..+|.. .|. .+++.||.+.++||.+||.++++.+++++||||||||||+...+++.
T Consensus 44 ~~e~~i~~ll~kEe~~~p~~~~~~~~~~-----~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~ 118 (335)
T KOG0656|consen 44 WDERVLANLLEKEEQHNPSLDYFLCVQK-----LILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKD 118 (335)
T ss_pred ccHHHHHHHHHHHHHhCCCCchhhhccc-----ccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCC
Confidence 444445555555555567767444 466 89999999999999999999999999999999999999999999999
Q ss_pred c---chhhhhhccccccccccCCCCC-hhhHHHHhCCCCCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHH
Q psy7892 169 N---LQLLGATAIFVSSKFDDRIPPQ-LSDLEYICSHTYSIQDLKDMEIKLVTAIGFDLGIPLSYRFLRRYAR 237 (240)
Q Consensus 169 ~---lqLvg~tcL~IAsK~eE~~~p~-i~dl~~~~~~~yt~~ei~~mE~~IL~~L~f~L~~pTp~~FL~~f~k 237 (240)
+ +||+|++||+||||+||+..|. ++-.+..+++.|-++.|.+||+.||++|+|+++.+||++|+++|++
T Consensus 119 k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ 191 (335)
T KOG0656|consen 119 KPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLS 191 (335)
T ss_pred chHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHH
Confidence 9 9999999999999999996444 5555678899999999999999999999999999999999999986
No 5
>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=99.95 E-value=1.9e-28 Score=192.88 Aligned_cols=126 Identities=37% Similarity=0.693 Sum_probs=115.2
Q ss_pred HHHHHHHHHHhhC-CCCCccCcCCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchh
Q psy7892 94 HIFEYLKSREAEF-QIKDYLPFQSSTEKGNINAEMRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQL 172 (240)
Q Consensus 94 dI~~~L~~~E~~~-~~~~yl~~q~~~~~~~it~~~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqL 172 (240)
||+++|.+.|.++ ++++|+..|+ +++..+|..+++||.+++..++++++|+++|+.|+|||+.+..+.+.++++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~~~-----~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~l 75 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQQP-----EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQL 75 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTGTS-----SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHH
T ss_pred CHHHHHHHHHHHHCcCccccccCh-----hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhh
Confidence 7999999999985 5689999887 899999999999999999999999999999999999999999999999999
Q ss_pred hhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHHHHHHHHHcCCccC
Q psy7892 173 LGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEIKLVTAIGFDLG 224 (240)
Q Consensus 173 vg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~mE~~IL~~L~f~L~ 224 (240)
+|+||++||+|++|..+|.+.+++.++++.|++++|++||+.||++|+|+++
T Consensus 76 i~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 76 IALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHHHHHHHTTT---
T ss_pred hhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHHHHHHHCCCCcC
Confidence 9999999999999999999999999999999999999999999999999985
No 6
>KOG0654|consensus
Probab=99.92 E-value=3.4e-26 Score=209.72 Aligned_cols=158 Identities=34% Similarity=0.609 Sum_probs=150.9
Q ss_pred CCCCCCCCCccchhhhHHHHHHHHHHHHhh--CCCCCccCc-CCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHH
Q psy7892 76 DFDKETWEDPLQVSCYAMHIFEYLKSREAE--FQIKDYLPF-QSSTEKGNINAEMRSVLVDWMVEVQETFELNHETLYLA 152 (240)
Q Consensus 76 ~~d~~~~~dp~~~~eY~~dI~~~L~~~E~~--~~~~~yl~~-q~~~~~~~it~~~R~~lvdWl~ev~~~~~L~~eTl~lA 152 (240)
++|. +..||++|..|+.+|++|++..|.+ .|.++|+.. |. ++++.||.++++|+++|++.+++..++||++
T Consensus 88 ~~ds-~~~dp~~c~~~~~~I~~~~r~~ei~~~rp~~~~~e~vq~-----d~t~smrgilvdwlvevsee~r~~~e~l~ls 161 (359)
T KOG0654|consen 88 RIDS-VGEDPQMCLKIAAKIYNTLRVSDIKSERPLPSKFEFVQA-----DITPSMRGILVDWLVEVSEEYRLTFETLYLS 161 (359)
T ss_pred chhh-cccchHHHHHHHHHHhhcccccchhhccCcccceeeeec-----CCCcchhhhhhhhhhHHHHHHHhhhhheeec
Confidence 4454 5569999999999999999999987 477899998 98 9999999999999999999999999999999
Q ss_pred HHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHHHHHHHHHcCCccCCCCHHHHH
Q psy7892 153 VKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEIKLVTAIGFDLGIPLSYRFL 232 (240)
Q Consensus 153 V~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~mE~~IL~~L~f~L~~pTp~~FL 232 (240)
++++|||+....+.+.++|++|.+|++||+|+||+.+|.+++|+++++++|+..++..||..||..|.|.+..||.-.||
T Consensus 162 ~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l 241 (359)
T KOG0654|consen 162 VNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEIDILNALTFELVRPTSKTFL 241 (359)
T ss_pred HHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHHHHHHhHHHHhCchHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHh
Q psy7892 233 RRYARIR 239 (240)
Q Consensus 233 ~~f~k~a 239 (240)
++|+++|
T Consensus 242 ~~~~~~~ 248 (359)
T KOG0654|consen 242 RRFLRVA 248 (359)
T ss_pred HHHHHhh
Confidence 9999886
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.67 E-value=1.9e-16 Score=143.90 Aligned_cols=111 Identities=12% Similarity=0.212 Sum_probs=102.2
Q ss_pred HHHHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCC-
Q psy7892 126 EMRSVLVDWMVEVQETFE--LNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHT- 202 (240)
Q Consensus 126 ~~R~~lvdWl~ev~~~~~--L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~- 202 (240)
.+|..-..+|.++|..|+ |+.+|+.+|+.||+||+..+++...+.++||+||+|||+|+||.. .++.+|+......
T Consensus 54 ~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~~~~ 132 (305)
T TIGR00569 54 DLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFN-VSIDQFVGNLKETP 132 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccC-cCHHHHHhhccCCc
Confidence 688888999999999999 999999999999999999999999999999999999999999975 4789999876554
Q ss_pred -CCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHH
Q psy7892 203 -YSIQDLKDMEIKLVTAIGFDLGIPLSYRFLRRYAR 237 (240)
Q Consensus 203 -yt~~ei~~mE~~IL~~L~f~L~~pTp~~FL~~f~k 237 (240)
..+++|++||..||+.|+|+|.+++|+.||..|+.
T Consensus 133 ~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~ 168 (305)
T TIGR00569 133 LKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLI 168 (305)
T ss_pred hhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHH
Confidence 36799999999999999999999999999998873
No 8
>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=99.60 E-value=2.1e-15 Score=109.14 Aligned_cols=88 Identities=30% Similarity=0.447 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHH
Q psy7892 127 MRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQ 206 (240)
Q Consensus 127 ~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ 206 (240)
+|...++||.+++..++++.++.++|+.++|||+....+.+.+++++|++|++||+|+++. ++..+++...++.. +.+
T Consensus 1 ~~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~-~~~ 78 (88)
T cd00043 1 MRPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYA-TEE 78 (88)
T ss_pred CcchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCC-CHH
Confidence 3677899999999999999999999999999999999999999999999999999999999 88999999988755 999
Q ss_pred HHHHHHHHHH
Q psy7892 207 DLKDMEIKLV 216 (240)
Q Consensus 207 ei~~mE~~IL 216 (240)
+|.+||+.|+
T Consensus 79 ~i~~~e~~il 88 (88)
T cd00043 79 EILRMEKLLL 88 (88)
T ss_pred HHHHHHHHhC
Confidence 9999999875
No 9
>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=99.53 E-value=1.6e-14 Score=103.53 Aligned_cols=83 Identities=25% Similarity=0.407 Sum_probs=76.4
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHHH
Q psy7892 133 DWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDME 212 (240)
Q Consensus 133 dWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~mE 212 (240)
+||.+++..++++.++.++|+.++||++....+.+...+++|++|++||+|+++.. +...++...++. |+.++|.+||
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~-~~~~~i~~~~ 78 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGY-FTEEEILRME 78 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCC-CCHHHHHHHH
Confidence 59999999999999999999999999999877778999999999999999999986 577888888876 8999999999
Q ss_pred HHHHH
Q psy7892 213 IKLVT 217 (240)
Q Consensus 213 ~~IL~ 217 (240)
+.||.
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 99974
No 10
>KOG0834|consensus
Probab=99.48 E-value=8.5e-14 Score=127.01 Aligned_cols=114 Identities=17% Similarity=0.388 Sum_probs=103.1
Q ss_pred CHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCC
Q psy7892 124 NAEMRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTY 203 (240)
Q Consensus 124 t~~~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~y 203 (240)
....|...+.||++++.++++...|+..|+.|++||.............+|++|||+|+|.||. |.+++|++..+...+
T Consensus 35 E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEet-p~kl~dIi~~s~~~~ 113 (323)
T KOG0834|consen 35 ELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEET-PRKLEDIIKVSYRYL 113 (323)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcccC-cccHHHHHHHHHHHc
Confidence 3468999999999999999999999999999999999999999999999999999999999885 557888887664333
Q ss_pred C-------------HHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHH
Q psy7892 204 S-------------IQDLKDMEIKLVTAIGFDLGIPLSYRFLRRYARI 238 (240)
Q Consensus 204 t-------------~~ei~~mE~~IL~~L~f~L~~pTp~~FL~~f~k~ 238 (240)
. ++.|+..|+.||++|+||+++-.|+.||-.|++-
T Consensus 114 ~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~ 161 (323)
T KOG0834|consen 114 NPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKK 161 (323)
T ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHH
Confidence 3 5889999999999999999999999999999874
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=99.31 E-value=1.3e-11 Score=110.79 Aligned_cols=114 Identities=17% Similarity=0.328 Sum_probs=98.8
Q ss_pred CHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCC--
Q psy7892 124 NAEMRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSH-- 201 (240)
Q Consensus 124 t~~~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~-- 201 (240)
..+.|..-..|+..+|.+++++..++..||.+|+||.-+..+....++-|+.||+++|+|.||. |-.+.-.....++
T Consensus 41 e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~-~~~I~i~~~~~~~~~ 119 (297)
T COG5333 41 ELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDT-PRDISIESFEARDLW 119 (297)
T ss_pred hhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccc-cchhhHHHHHhhccc
Confidence 3467777789999999999999999999999999999999999999999999999999999996 3333333344432
Q ss_pred ----CCCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHH
Q psy7892 202 ----TYSIQDLKDMEIKLVTAIGFDLGIPLSYRFLRRYARI 238 (240)
Q Consensus 202 ----~yt~~ei~~mE~~IL~~L~f~L~~pTp~~FL~~f~k~ 238 (240)
.-+++.|+.+|..+|+.|+|++.++.|+.++..|++.
T Consensus 120 se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~ 160 (297)
T COG5333 120 SEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKD 160 (297)
T ss_pred cccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHH
Confidence 3468999999999999999999999999999998874
No 12
>KOG0835|consensus
Probab=99.05 E-value=6.6e-10 Score=100.54 Aligned_cols=116 Identities=13% Similarity=0.248 Sum_probs=100.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCC
Q psy7892 122 NINAEMRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSH 201 (240)
Q Consensus 122 ~it~~~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~ 201 (240)
+-....|..-+.||.+.+.-++|+..+.+.+..+|-||+.....-+.++..++++|++||||+||. |-.+++++.+...
T Consensus 17 e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~-Prr~rdVinVFh~ 95 (367)
T KOG0835|consen 17 ETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE-PRRIRDVINVFHY 95 (367)
T ss_pred chHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc-cccHhHHHHHHHH
Confidence 345578999999999999999999999999999999999999999999999999999999999985 4456666554321
Q ss_pred -------------------CCCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHH
Q psy7892 202 -------------------TYSIQDLKDMEIKLVTAIGFDLGIPLSYRFLRRYARI 238 (240)
Q Consensus 202 -------------------~yt~~ei~~mE~~IL~~L~f~L~~pTp~~FL~~f~k~ 238 (240)
.-.+.++.++|+.||+.|+|++++-.|+-++-.|++.
T Consensus 96 L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqt 151 (367)
T KOG0835|consen 96 LEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQT 151 (367)
T ss_pred HHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHH
Confidence 1125678899999999999999999999999988875
No 13
>KOG0794|consensus
Probab=98.85 E-value=1.7e-09 Score=93.92 Aligned_cols=112 Identities=15% Similarity=0.266 Sum_probs=92.9
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHh-------
Q psy7892 127 MRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYIC------- 199 (240)
Q Consensus 127 ~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~------- 199 (240)
.+--..+.+..++.++++...++..|+.||-||+-+.++..-+..|++.||+++|||.||.-...++-++...
T Consensus 40 l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f 119 (264)
T KOG0794|consen 40 LKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRF 119 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhc
Confidence 3444566789999999999999999999999999999999999999999999999999996423344444322
Q ss_pred -----CCCCCHHHHHHHHHHHHHHcCCccCCCCHHHHHHHHHHH
Q psy7892 200 -----SHTYSIQDLKDMEIKLVTAIGFDLGIPLSYRFLRRYARI 238 (240)
Q Consensus 200 -----~~~yt~~ei~~mE~~IL~~L~f~L~~pTp~~FL~~f~k~ 238 (240)
...|...+|++||..+|..|++-|-+-.||.=|..|++.
T Consensus 120 ~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd 163 (264)
T KOG0794|consen 120 SYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQD 163 (264)
T ss_pred ccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHH
Confidence 125678899999999999999999988888877776654
No 14
>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=98.83 E-value=1.2e-08 Score=83.67 Aligned_cols=91 Identities=21% Similarity=0.282 Sum_probs=73.6
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhh---cc--cccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCH
Q psy7892 131 LVDWMVEVQETFELNHETLYLAVKLVDLYLG---KV--VCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSI 205 (240)
Q Consensus 131 lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs---~~--~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~ 205 (240)
+.+|+.++....+++++++.+|..|+||+.. .. .+.....+-+-++|+.||+|+-+.....-+.+..+++ ++.
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~g--is~ 131 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG--ISL 131 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT--S-H
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcC--CCH
Confidence 7889999999999999999999999999998 22 2677888899999999999998888888889999986 799
Q ss_pred HHHHHHHHHHHHHcCCcc
Q psy7892 206 QDLKDMEIKLVTAIGFDL 223 (240)
Q Consensus 206 ~ei~~mE~~IL~~L~f~L 223 (240)
+++.+||+..|..|+|+|
T Consensus 132 ~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 132 KELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHHHCCCcC
Confidence 999999999999999986
No 15
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=98.49 E-value=1.5e-06 Score=79.45 Aligned_cols=107 Identities=11% Similarity=0.135 Sum_probs=96.8
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHH
Q psy7892 129 SVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDL 208 (240)
Q Consensus 129 ~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei 208 (240)
.....-|.+++..++|+..+.-.|..++.++.....+.......++++|+++|+|.++ .|-+++++..+++ .+..+|
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~-~prtl~eI~~~~~--v~~k~i 199 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCK-VPRTLDEIAEVSR--VSRKEI 199 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcC-CCcCHHHHHHHhC--CCHHHH
Confidence 3455678999999999999999999999999999888999999999999999999855 5678999999885 689999
Q ss_pred HHHHHHHHHHcCCccCCCCHHHHHHHHHHH
Q psy7892 209 KDMEIKLVTAIGFDLGIPLSYRFLRRYARI 238 (240)
Q Consensus 209 ~~mE~~IL~~L~f~L~~pTp~~FL~~f~k~ 238 (240)
-+..+.|++.|++++....|.+|+.+|...
T Consensus 200 ~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~ 229 (310)
T PRK00423 200 GRCYRFLLRELNLKLPPTDPIDYVPRFASE 229 (310)
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHHHH
Confidence 999999999999999988999999999864
No 16
>KOG2496|consensus
Probab=98.23 E-value=5.8e-06 Score=74.60 Aligned_cols=105 Identities=14% Similarity=0.184 Sum_probs=88.2
Q ss_pred HHHHHHHHHHHHc--CCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCC--CCCH
Q psy7892 130 VLVDWMVEVQETF--ELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSH--TYSI 205 (240)
Q Consensus 130 ~lvdWl~ev~~~~--~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~--~yt~ 205 (240)
.-..-+++.+.+| .+...++-.|+.+|-||+-..+|.....+.|.+||+|+|+|++|-+. ++.+|+.-..+ .-+.
T Consensus 58 ~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~I-SieqFvkn~~~~~~k~~ 136 (325)
T KOG2496|consen 58 EEELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYI-SIEQFVKNMNGRKWKTH 136 (325)
T ss_pred HHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhhee-cHHHHHhhccCcccccH
Confidence 3445566677777 48999999999999999999999999999999999999999998655 89999986552 4578
Q ss_pred HHHHHHHHHHHHHcCCccCCCCHHHHHHHH
Q psy7892 206 QDLKDMEIKLVTAIGFDLGIPLSYRFLRRY 235 (240)
Q Consensus 206 ~ei~~mE~~IL~~L~f~L~~pTp~~FL~~f 235 (240)
+.|+..|..+|+.|+|+|.+-+|+.=+.=|
T Consensus 137 e~vLk~E~~llqsL~f~L~vh~PyRPleGF 166 (325)
T KOG2496|consen 137 EIVLKYEFLLLQSLKFSLTVHNPYRPLEGF 166 (325)
T ss_pred HHHHhchHHHHHhhhhhheecCCCCchHHH
Confidence 999999999999999999988887644433
No 17
>KOG4164|consensus
Probab=97.71 E-value=1.7e-05 Score=73.79 Aligned_cols=104 Identities=19% Similarity=0.235 Sum_probs=89.5
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhC--
Q psy7892 123 INAEMRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICS-- 200 (240)
Q Consensus 123 it~~~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~-- 200 (240)
+|-.--+-|-.-|.++....++..-|+.+|-.||....-+..+.+.+-.|.|.+|+++|+|+.+..--.++.++.-..
T Consensus 377 LTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~ 456 (497)
T KOG4164|consen 377 LTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQ 456 (497)
T ss_pred EeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence 444333346677889999999999999999999999999999999999999999999999999877777887776443
Q ss_pred CCCCHHHHHHHHHHHHHHcCCccCCC
Q psy7892 201 HTYSIQDLKDMEIKLVTAIGFDLGIP 226 (240)
Q Consensus 201 ~~yt~~ei~~mE~~IL~~L~f~L~~p 226 (240)
-.+.+.|++..|.-||-+|+|.|..|
T Consensus 457 fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 457 FRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred hcccHHhhhhhhhhHHHhhhhhccCC
Confidence 46789999999999999999999866
No 18
>KOG1597|consensus
Probab=97.02 E-value=0.0031 Score=57.03 Aligned_cols=103 Identities=11% Similarity=0.210 Sum_probs=90.8
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHH
Q psy7892 132 VDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDM 211 (240)
Q Consensus 132 vdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~m 211 (240)
+.-+..++...+|.....-.|-.+|-++-..+.......+-++++|++||+.-++ .|-++++++.+++ .+++||-+.
T Consensus 108 ~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~-~pRT~kEI~~~an--v~kKEIgr~ 184 (308)
T KOG1597|consen 108 FKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQED-VPRTFKEISAVAN--VSKKEIGRC 184 (308)
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcC-CCchHHHHHHHHc--CCHHHHHHH
Confidence 4447889999999999999999999999988888899999999999999999655 5778999999987 899999999
Q ss_pred HHHHHHHcCCccCCCC--HHHHHHHHHH
Q psy7892 212 EIKLVTAIGFDLGIPL--SYRFLRRYAR 237 (240)
Q Consensus 212 E~~IL~~L~f~L~~pT--p~~FL~~f~k 237 (240)
=..|+..|+=....-+ .-+|++||..
T Consensus 185 ~K~i~~~l~~s~~~~s~~t~~~m~RFCs 212 (308)
T KOG1597|consen 185 VKLIGEALETSVDLISISTGDFMPRFCS 212 (308)
T ss_pred HHHHHHHHhccchhhhhhHHHHHHHHHH
Confidence 9999999988876665 7899999964
No 19
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=96.84 E-value=0.013 Score=53.18 Aligned_cols=109 Identities=11% Similarity=0.170 Sum_probs=98.5
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHH
Q psy7892 127 MRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQ 206 (240)
Q Consensus 127 ~R~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ 206 (240)
.-.....-+-.++..++|+..+.-.|..++=+.+.+..+..-..+-++++|+++|++... .|-+++++..+.. .++.
T Consensus 96 nl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~-~prtl~eIa~a~~--V~~k 172 (285)
T COG1405 96 NLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRING-VPRTLDEIAKALG--VSKK 172 (285)
T ss_pred HHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcC-CCccHHHHHHHHC--CCHH
Confidence 445677889999999999999999999999999999999999999999999999999865 4668999998887 7789
Q ss_pred HHHHHHHHHHHHcCCccCCCCHHHHHHHHHHH
Q psy7892 207 DLKDMEIKLVTAIGFDLGIPLSYRFLRRYARI 238 (240)
Q Consensus 207 ei~~mE~~IL~~L~f~L~~pTp~~FL~~f~k~ 238 (240)
+|-++.+.+.+.|+=.+...-|.+|+.+|...
T Consensus 173 ei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~ 204 (285)
T COG1405 173 EIGRTYRLLVRELKLKIPPVDPSDYIPRFASK 204 (285)
T ss_pred HHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHH
Confidence 99999999999999999889999999999864
No 20
>KOG1674|consensus
Probab=96.70 E-value=0.0033 Score=54.88 Aligned_cols=94 Identities=21% Similarity=0.283 Sum_probs=74.6
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhccc---------ccCcc-chhhhhhccccccccccCCCCChhhHHHHhC
Q psy7892 131 LVDWMVEVQETFELNHETLYLAVKLVDLYLGKVV---------CSRLN-LQLLGATAIFVSSKFDDRIPPQLSDLEYICS 200 (240)
Q Consensus 131 lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~---------v~~~~-lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~ 200 (240)
+-+++-++....+.+++++..|..|||||..+.. +.-.+ ..-+-++|+.+|+|+.+.....-.-+.++
T Consensus 78 i~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~v-- 155 (218)
T KOG1674|consen 78 IRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKV-- 155 (218)
T ss_pred hHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHh--
Confidence 4678888999999999999999999999998622 33344 56678899999999987654333333333
Q ss_pred CCCCHHHHHHHHHHHHHHcCCccCCC
Q psy7892 201 HTYSIQDLKDMEIKLVTAIGFDLGIP 226 (240)
Q Consensus 201 ~~yt~~ei~~mE~~IL~~L~f~L~~p 226 (240)
+..+.+++..+|...|..++|++.++
T Consensus 156 ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 45789999999999999999999875
No 21
>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=96.22 E-value=0.011 Score=42.09 Aligned_cols=65 Identities=9% Similarity=0.193 Sum_probs=53.0
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhC
Q psy7892 135 MVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICS 200 (240)
Q Consensus 135 l~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~ 200 (240)
|-++|..++|+..+.-.|..++++-....-.......-++++|+++|++.+. .+.+++++...++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~-~~~t~~eIa~~~~ 65 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNG-VPRTLKEIAEAAG 65 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTT-SSSSHHHHHHHCT
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcC-CCcCHHHHHHHhC
Confidence 4578999999999999999999999888777778889999999999999864 4567888877665
No 22
>KOG1675|consensus
Probab=96.02 E-value=0.017 Score=52.72 Aligned_cols=98 Identities=18% Similarity=0.178 Sum_probs=70.3
Q ss_pred HHHHcCCCHHHHHHHHHHHHHHhhcccc--cCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHHHHHH
Q psy7892 138 VQETFELNHETLYLAVKLVDLYLGKVVC--SRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEIKL 215 (240)
Q Consensus 138 v~~~~~L~~eTl~lAV~ilDRyLs~~~v--~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~mE~~I 215 (240)
.+....|..+.-.....|++|.+.-..+ -+.+...++..++++|+|+-....-.--|.+.++.. -|.+|+.+||+.+
T Consensus 200 l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd-~tveDmNe~ERqf 278 (343)
T KOG1675|consen 200 LFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKD-QSVDDMNALERQF 278 (343)
T ss_pred HhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhh-ccHhhHHHHHHHH
Confidence 3333344444444455788887765554 477777777778999999876544444577777754 4789999999999
Q ss_pred HHHcCCccCCCCHHHHHHHHHH
Q psy7892 216 VTAIGFDLGIPLSYRFLRRYAR 237 (240)
Q Consensus 216 L~~L~f~L~~pTp~~FL~~f~k 237 (240)
|..|+|+++.|-. .|-.+|..
T Consensus 279 LelLqfNinvp~s-vYAKyYfd 299 (343)
T KOG1675|consen 279 LELLQFNINVPSS-EYAKYYFD 299 (343)
T ss_pred HHHHhhccCccHH-HHHHHHHH
Confidence 9999999999975 56666654
No 23
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=94.38 E-value=0.23 Score=45.46 Aligned_cols=89 Identities=13% Similarity=0.163 Sum_probs=73.8
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHH
Q psy7892 132 VDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDM 211 (240)
Q Consensus 132 vdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~m 211 (240)
.++|..++..++|+..+.-.|..++.+.....-.......-|+++|++||++... .+.+.+++..+++ .+...|...
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g-~~~t~keIa~v~~--Vs~~tI~~~ 296 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLG-ERRTQREVAEVAG--VTEVTVRNR 296 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhC-CCCCHHHHHHHcC--CCHHHHHHH
Confidence 5899999999999999999999999988876666778888999999999999875 4567888888775 677778777
Q ss_pred HHHHHHHcCCcc
Q psy7892 212 EIKLVTAIGFDL 223 (240)
Q Consensus 212 E~~IL~~L~f~L 223 (240)
=+.|++.|+..+
T Consensus 297 ykel~~~l~~~~ 308 (310)
T PRK00423 297 YKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHhCccc
Confidence 777777776543
No 24
>KOG0834|consensus
Probab=90.92 E-value=0.32 Score=44.97 Aligned_cols=94 Identities=14% Similarity=0.141 Sum_probs=73.6
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhh--HHHHhCCCCCHH
Q psy7892 129 SVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSD--LEYICSHTYSIQ 206 (240)
Q Consensus 129 ~~lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~d--l~~~~~~~yt~~ 206 (240)
.-|++|+..+...-+........|-+++-..+...-+.....+-||++|++||+|+-....|...+ +....+...|.+
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~d~~vt~e 232 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREFDETVTNE 232 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhhcccCCHH
Confidence 357788877777777666677788888888777767888899999999999999987764444333 366778889999
Q ss_pred HHHHHHHHHHHHcCCc
Q psy7892 207 DLKDMEIKLVTAIGFD 222 (240)
Q Consensus 207 ei~~mE~~IL~~L~f~ 222 (240)
++..+...+|....-+
T Consensus 233 ~l~~i~~~~l~~y~~~ 248 (323)
T KOG0834|consen 233 LLDDICHEFLDLYEQT 248 (323)
T ss_pred HHHHHHHHHHHHHhhc
Confidence 9999999998877543
No 25
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=90.78 E-value=0.53 Score=35.48 Aligned_cols=87 Identities=22% Similarity=0.261 Sum_probs=61.9
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHH
Q psy7892 132 VDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDM 211 (240)
Q Consensus 132 vdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~m 211 (240)
.+||.......+...++..+|-.+++..+.....-...--+||++|+++|.+.-...+..-..+..++ .++.++|..+
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t--~~~~~~l~~c 81 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEPPWPESLEKLT--GYDKEDLKEC 81 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHH--TS-HHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccccCCccchhhc--CCCHHHHHHH
Confidence 45666664444556788899999999888877777888889999999999998654344445566666 3588888877
Q ss_pred HHHHHHHcC
Q psy7892 212 EIKLVTAIG 220 (240)
Q Consensus 212 E~~IL~~L~ 220 (240)
=..|.+.+.
T Consensus 82 ~~~i~~~~~ 90 (118)
T PF02984_consen 82 IELIQELLS 90 (118)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 666665554
No 26
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=79.61 E-value=3.9 Score=37.18 Aligned_cols=69 Identities=14% Similarity=0.132 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhC
Q psy7892 131 LVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICS 200 (240)
Q Consensus 131 lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~ 200 (240)
-.+++-..+..++|+.++--.|+.+++............-.-+|++|++|||+... .+.+-+++..+++
T Consensus 194 p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~-~~~tq~eva~v~~ 262 (285)
T COG1405 194 PSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLG-ERRTQKEVAKVAG 262 (285)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhC-CchHHHHHHHHhC
Confidence 36888899999999999999999999999988776677777889999999999876 3334555555554
No 27
>KOG1598|consensus
Probab=50.29 E-value=13 Score=36.44 Aligned_cols=66 Identities=12% Similarity=0.133 Sum_probs=54.8
Q ss_pred HHHHHHHHH----HHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCC
Q psy7892 125 AEMRSVLVD----WMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQ 191 (240)
Q Consensus 125 ~~~R~~lvd----Wl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~ 191 (240)
-+.|..-+. -|-+++..+++.. .+-.|.++|-.-+...-.+....++|-.+|++|++..|-.-...
T Consensus 60 ~e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hll 129 (521)
T KOG1598|consen 60 LESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLL 129 (521)
T ss_pred hHHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEE
Confidence 344554443 4889999999999 99999999999999999999999999999999999987654433
No 28
>KOG0835|consensus
Probab=46.59 E-value=44 Score=31.21 Aligned_cols=66 Identities=12% Similarity=0.143 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhCCCCCHHHHHHHHHHHH
Q psy7892 149 LYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEIKLV 216 (240)
Q Consensus 149 l~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~~~yt~~ei~~mE~~IL 216 (240)
+..|-+++.--+.-...-...-..||++|+++|+...|+--|....+..+.+ .++.+|-..=..++
T Consensus 161 ~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd--~~k~eid~ic~~l~ 226 (367)
T KOG0835|consen 161 LQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFD--TTKREIDEICYRLI 226 (367)
T ss_pred HHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcC--CcHHHHHHHHHHHH
Confidence 3444455555454445566777889999999999999964444445555543 45555554433333
No 29
>KOG1597|consensus
Probab=43.95 E-value=52 Score=30.24 Aligned_cols=69 Identities=13% Similarity=0.117 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccccCccchhhhhhccccccccccCCCCChhhHHHHhC
Q psy7892 131 LVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICS 200 (240)
Q Consensus 131 lvdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~~ 200 (240)
.-++|.+.|..++|+..+.-.|-.+..++--...+....---|+++++++++-... .+.+.+++..+++
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~-~kkt~keI~~vtg 271 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSD-EKKTQKEIGEVTG 271 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhcc-CcccHHHHHHHhh
Confidence 45777888888888888888888777777666556555555678888888888766 4455666665543
No 30
>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=42.72 E-value=35 Score=27.51 Aligned_cols=67 Identities=12% Similarity=0.046 Sum_probs=50.6
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhccc--ccCccchhhhhhccccccccccCCCCChhhHHHHh
Q psy7892 132 VDWMVEVQETFELNHETLYLAVKLVDLYLGKVV--CSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYIC 199 (240)
Q Consensus 132 vdWl~ev~~~~~L~~eTl~lAV~ilDRyLs~~~--v~~~~lqLvg~tcL~IAsK~eE~~~p~i~dl~~~~ 199 (240)
..-|.++|.+++++.+.....-.+|+..+.... +..-++--+-++|+++-+|+.. ..++-+++...-
T Consensus 15 ~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~-~~~sF~~Ii~~Y 83 (135)
T PF01857_consen 15 AVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK-EELSFKDIIKAY 83 (135)
T ss_dssp HHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT--S--HHHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc-CCCCHHHHHHHH
Confidence 445788999999999888888899999997655 5666788889999999999876 555677776543
No 31
>PF14376 Haem_bd: Haem-binding domain
Probab=30.96 E-value=39 Score=27.17 Aligned_cols=30 Identities=20% Similarity=0.488 Sum_probs=24.9
Q ss_pred hCCCCCccCcCCCCCCCCCCHHHHHHHHHHHHH
Q psy7892 105 EFQIKDYLPFQSSTEKGNINAEMRSVLVDWMVE 137 (240)
Q Consensus 105 ~~~~~~yl~~q~~~~~~~it~~~R~~lvdWl~e 137 (240)
.+|+..|+--|+ +..+|...|..|++|+-+
T Consensus 106 ~MP~~~Y~~~H~---~a~Ls~~ek~~Ll~Wi~~ 135 (137)
T PF14376_consen 106 EMPPPSYTLLHW---EAKLSEEEKQALLNWIKE 135 (137)
T ss_pred CCChHHHhhhCC---CCCCCHHHHHHHHHHHHH
Confidence 478889988776 346999999999999865
No 32
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=20.81 E-value=2.4e+02 Score=19.33 Aligned_cols=30 Identities=20% Similarity=0.206 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Q psy7892 122 NINAEMRSVLVDWMVEVQETFELNHETLYLAVKL 155 (240)
Q Consensus 122 ~it~~~R~~lvdWl~ev~~~~~L~~eTl~lAV~i 155 (240)
.+++.....+.+|+ ..++++.+.+..|+.+
T Consensus 12 ~ls~~e~~~i~~~~----~~~~~~~evI~~ai~~ 41 (73)
T TIGR01446 12 MLSPFEMEDLKYWL----DEFGNSPELIKEALKE 41 (73)
T ss_pred CCCHHHHHHHHHHH----HHhCCCHHHHHHHHHH
Confidence 57888888888887 5567889999888876
Done!