Query psy17187
Match_columns 123
No_of_seqs 144 out of 1081
Neff 7.4
Searched_HMMs 46136
Date Sat Aug 17 00:04:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17187.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17187hhsearch_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-31 3E-36 207.0 5.8 114 5-118 139-253 (408)
2 KOG0653|consensus 100.0 2.7E-30 5.8E-35 206.7 6.9 118 2-119 149-267 (391)
3 KOG0656|consensus 100.0 4.7E-29 1E-33 194.8 8.9 114 5-118 72-189 (335)
4 PF00134 Cyclin_N: Cyclin, N-t 99.9 4.3E-27 9.4E-32 159.9 8.2 102 5-106 25-126 (127)
5 COG5024 Cyclin [Cell division 99.9 6.7E-27 1.5E-31 188.2 7.4 109 9-117 211-319 (440)
6 KOG0654|consensus 99.8 2.2E-20 4.7E-25 147.4 1.1 113 4-116 130-242 (359)
7 cd00043 CYCLIN Cyclin box fold 99.7 9.2E-18 2E-22 105.5 7.9 87 11-99 2-88 (88)
8 smart00385 CYCLIN domain prese 99.7 4.9E-17 1.1E-21 101.3 6.7 83 16-100 1-83 (83)
9 TIGR00569 ccl1 cyclin ccl1. Un 99.7 1.9E-16 4.1E-21 123.4 10.5 113 4-117 45-165 (305)
10 KOG0834|consensus 99.4 2.9E-13 6.3E-18 106.1 7.4 113 9-122 37-162 (323)
11 COG5333 CCL1 Cdk activating ki 99.2 1.1E-10 2.3E-15 90.3 7.5 107 9-116 43-155 (297)
12 KOG0794|consensus 99.1 2.9E-11 6.3E-16 90.5 3.7 102 13-114 43-156 (264)
13 PF08613 Cyclin: Cyclin; Inte 99.0 3.4E-09 7.4E-14 74.8 8.7 92 13-106 53-149 (149)
14 KOG0835|consensus 98.7 9.3E-08 2E-12 74.9 8.0 102 9-111 21-141 (367)
15 PRK00423 tfb transcription ini 98.3 6.1E-06 1.3E-10 64.6 10.4 98 16-116 127-224 (310)
16 KOG2496|consensus 98.3 1.6E-06 3.5E-11 67.4 5.2 95 18-113 63-161 (325)
17 KOG4164|consensus 97.8 4.3E-05 9.3E-10 61.5 4.9 96 12-107 383-480 (497)
18 PF00382 TFIIB: Transcription 97.2 0.0013 2.8E-08 40.4 5.7 65 18-83 1-65 (71)
19 COG1405 SUA7 Transcription ini 96.5 0.039 8.4E-07 43.1 10.0 101 12-115 98-198 (285)
20 KOG1674|consensus 96.5 0.011 2.3E-07 44.4 6.5 94 14-109 78-181 (218)
21 KOG1597|consensus 96.4 0.02 4.4E-07 44.7 7.7 90 17-109 110-199 (308)
22 PRK00423 tfb transcription ini 96.1 0.052 1.1E-06 42.6 8.9 90 14-106 219-308 (310)
23 KOG0834|consensus 95.6 0.031 6.8E-07 44.3 5.6 101 4-104 144-247 (323)
24 PF02984 Cyclin_C: Cyclin, C-t 94.3 0.22 4.7E-06 32.4 6.1 86 15-102 4-89 (118)
25 KOG1675|consensus 89.3 0.56 1.2E-05 37.1 3.9 76 34-110 213-290 (343)
26 COG1405 SUA7 Transcription ini 87.3 4.2 9.1E-05 31.8 7.6 87 14-103 194-280 (285)
27 PF01857 RB_B: Retinoblastoma- 57.0 44 0.00096 23.1 5.5 68 14-82 14-83 (135)
28 KOG1598|consensus 54.5 24 0.00053 29.9 4.5 53 17-70 73-125 (521)
29 KOG0835|consensus 53.8 59 0.0013 26.3 6.3 47 24-70 151-199 (367)
30 KOG1597|consensus 53.4 61 0.0013 25.7 6.2 69 14-83 203-271 (308)
31 TIGR01446 DnaD_dom DnaD and ph 43.3 65 0.0014 19.1 4.2 30 5-38 12-41 (73)
32 cd04441 DEP_2_DEP6 DEP (Dishev 37.1 42 0.0009 21.5 2.6 29 12-41 36-64 (85)
33 PF08373 RAP: RAP domain; Int 36.8 36 0.00077 19.3 2.2 27 90-116 18-44 (58)
34 KOG0794|consensus 36.8 1.3E+02 0.0028 23.3 5.6 51 23-73 162-213 (264)
35 PF14502 HTH_41: Helix-turn-he 33.8 61 0.0013 18.6 2.7 24 18-41 9-32 (48)
36 PF13591 MerR_2: MerR HTH fami 32.8 86 0.0019 19.6 3.6 28 16-43 46-73 (84)
37 PF02796 HTH_7: Helix-turn-hel 32.6 41 0.00089 18.4 1.9 17 18-34 24-40 (45)
38 PF01466 Skp1: Skp1 family, di 32.5 52 0.0011 20.2 2.5 42 54-96 30-71 (78)
39 cd04443 DEP_GPR155 DEP (Dishev 31.6 61 0.0013 20.5 2.8 29 12-41 34-62 (83)
40 cd04449 DEP_DEPDC5-like DEP (D 31.4 59 0.0013 20.3 2.7 30 12-41 33-62 (83)
41 PF14823 Sirohm_synth_C: Siroh 30.6 19 0.00041 22.2 0.3 30 16-45 33-65 (70)
42 cd04438 DEP_dishevelled DEP (D 30.0 80 0.0017 20.0 3.1 32 12-43 33-64 (84)
43 TIGR00569 ccl1 cyclin ccl1. Un 29.3 1.7E+02 0.0037 23.0 5.5 38 31-68 183-220 (305)
44 PF11264 ThylakoidFormat: Thyl 29.0 95 0.0021 23.4 3.8 56 4-60 15-76 (216)
45 cd04442 DEP_1_DEP6 DEP (Dishev 28.5 67 0.0015 20.3 2.5 29 12-41 32-60 (82)
46 cd04439 DEP_1_P-Rex DEP (Dishe 28.5 64 0.0014 20.3 2.4 29 12-41 32-60 (81)
47 PF12550 GCR1_C: Transcription 28.0 1.4E+02 0.0031 18.4 4.0 32 8-42 49-80 (81)
48 cd04440 DEP_2_P-Rex DEP (Dishe 27.2 71 0.0015 20.8 2.5 29 12-41 41-69 (93)
49 PF08880 QLQ: QLQ; InterPro: 26.6 89 0.0019 16.7 2.5 16 84-99 1-16 (37)
50 cd04437 DEP_Epac DEP (Dishevel 26.0 75 0.0016 21.8 2.6 29 12-40 34-62 (125)
51 PF05043 Mga: Mga helix-turn-h 25.2 80 0.0017 19.4 2.5 38 20-57 35-74 (87)
52 smart00345 HTH_GNTR helix_turn 23.4 1.4E+02 0.0029 16.2 3.1 24 18-41 23-46 (60)
53 COG3636 Predicted transcriptio 23.0 71 0.0015 21.2 1.9 19 18-36 52-70 (100)
54 PF13542 HTH_Tnp_ISL3: Helix-t 22.9 1.1E+02 0.0023 16.7 2.5 21 19-42 31-51 (52)
55 PRK10265 chaperone-modulator p 22.1 1.7E+02 0.0036 19.0 3.6 29 14-42 52-80 (101)
56 cd04448 DEP_PIKfyve DEP (Dishe 22.1 1.1E+02 0.0024 19.1 2.7 29 12-41 32-60 (81)
57 cd08203 SAM_PNT Sterile alpha 22.0 1E+02 0.0022 18.5 2.4 20 10-29 6-25 (66)
58 PF13011 LZ_Tnp_IS481: leucine 22.0 2.1E+02 0.0045 18.3 3.9 39 4-45 7-52 (85)
59 PF00356 LacI: Bacterial regul 21.0 99 0.0021 17.2 2.0 19 18-36 2-20 (46)
60 cd08757 SAM_PNT_ESE Sterile al 20.4 1.1E+02 0.0025 18.4 2.4 21 10-30 6-26 (68)
No 1
>KOG0655|consensus
Probab=99.97 E-value=1.4e-31 Score=207.04 Aligned_cols=114 Identities=22% Similarity=0.257 Sum_probs=107.0
Q ss_pred CCCHHHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHcccc-CCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhc
Q psy17187 5 AISIQTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCY-CPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSD 83 (123)
Q Consensus 5 ~Is~~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~-~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~ 83 (123)
.+.|++|++|+|||.|||+.|+|.+||+|||+-|+|||+.. ..+.+..+||+|++|||||||+||..||++.+|.++++
T Consensus 139 dlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTD 218 (408)
T KOG0655|consen 139 DLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTD 218 (408)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCccccceeeecc
Confidence 36799999999999999999999999999999999999977 47999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHhHhcCCceehhhhhHHhccc
Q psy17187 84 YTFSPHTLKTTEKPAVYLNNTHVIMKKVKDLVGTS 118 (123)
Q Consensus 84 ~~~t~~ei~~mE~~IL~~ln~~i~~~~~~d~~~~~ 118 (123)
++||.++|+.||..||+.|+|++-.-|+.--+++=
T Consensus 219 gAcs~ddIltmE~iilkal~W~l~PiTii~WL~vy 253 (408)
T KOG0655|consen 219 GACSEDDILTMELIILKALKWELSPITIISWLNVY 253 (408)
T ss_pred CccchHHHHHHHHHHHHHhcccccceehHHHHHHH
Confidence 99999999999999999999999888877666543
No 2
>KOG0653|consensus
Probab=99.96 E-value=2.7e-30 Score=206.71 Aligned_cols=118 Identities=25% Similarity=0.275 Sum_probs=111.8
Q ss_pred CccCCCHHHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHH-HHhhhhhccCCCHHhHHH
Q psy17187 2 SAFAISIQTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLL-IASKIRECHALCVEDLVY 80 (123)
Q Consensus 2 ~~~~Is~~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~-iAsK~eE~~~~~~~~l~~ 80 (123)
+...++..||.+++||+.+||..|++.+||+||||+++||||+..+++++++||+|++||+ ||+|+||..+|.++++++
T Consensus 149 ~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~ 228 (391)
T KOG0653|consen 149 SQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVL 228 (391)
T ss_pred ccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEe
Confidence 3467888999999999999999999999999999999999999999999999999999966 999999999999999999
Q ss_pred hhcCCCCHHHHHHHHHHHhHhcCCceehhhhhHHhcccc
Q psy17187 81 YSDYTFSPHTLKTTEKPAVYLNNTHVIMKKVKDLVGTSM 119 (123)
Q Consensus 81 ~~~~~~t~~ei~~mE~~IL~~ln~~i~~~~~~d~~~~~~ 119 (123)
+++++||++||++||+.||++|+|++-.|+++-|++--.
T Consensus 229 isd~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ 267 (391)
T KOG0653|consen 229 ITDGAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFL 267 (391)
T ss_pred eeCCccchHHHHHHHHHHHhccCeeecCCchHHHHHHHH
Confidence 999999999999999999999999999999999986543
No 3
>KOG0656|consensus
Probab=99.96 E-value=4.7e-29 Score=194.80 Aligned_cols=114 Identities=27% Similarity=0.314 Sum_probs=106.3
Q ss_pred CCCHHHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcC---ceehhhhhHHHHhhhhhccCC-CHHhHHH
Q psy17187 5 AISIQTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQ---LQLTASACLLIASKIRECHAL-CVEDLVY 80 (123)
Q Consensus 5 ~Is~~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~---lqLlg~tcL~iAsK~eE~~~~-~~~~l~~ 80 (123)
.+.+-+|.+.++||.+||+++++.+++++||+||+|||++.+++++.+ +||+|++||.||||+||+..| .++..+.
T Consensus 72 ~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~ 151 (335)
T KOG0656|consen 72 LILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVE 151 (335)
T ss_pred ccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhc
Confidence 477889999999999999999999999999999999999999999999 999999999999999999755 5555567
Q ss_pred hhcCCCCHHHHHHHHHHHhHhcCCceehhhhhHHhccc
Q psy17187 81 YSDYTFSPHTLKTTEKPAVYLNNTHVIMKKVKDLVGTS 118 (123)
Q Consensus 81 ~~~~~~t~~ei~~mE~~IL~~ln~~i~~~~~~d~~~~~ 118 (123)
.+++.|.++.|++||..||.+|+|++.-.|+.||+..=
T Consensus 152 ~~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~f 189 (335)
T KOG0656|consen 152 YTDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHF 189 (335)
T ss_pred cccccccHHHHHHHHHHHHhhccccccCCCchHHHHHH
Confidence 88999999999999999999999999999999998653
No 4
>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=99.94 E-value=4.3e-27 Score=159.87 Aligned_cols=102 Identities=28% Similarity=0.466 Sum_probs=93.6
Q ss_pred CCCHHHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcC
Q psy17187 5 AISIQTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDY 84 (123)
Q Consensus 5 ~Is~~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~ 84 (123)
.+++..|..+++||.+++..++++++|++.|+.++|||+...++++.+++++|++|++||+|++|..+|++++++..+++
T Consensus 25 ~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~ 104 (127)
T PF00134_consen 25 EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISDN 104 (127)
T ss_dssp SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTT
T ss_pred hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHcC
Confidence 36788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHhHhcCCce
Q psy17187 85 TFSPHTLKTTEKPAVYLNNTHV 106 (123)
Q Consensus 85 ~~t~~ei~~mE~~IL~~ln~~i 106 (123)
.|+++++.+||..||+.|||++
T Consensus 105 ~~~~~~i~~~E~~iL~~L~f~l 126 (127)
T PF00134_consen 105 TFTKKDILEMEREILSALNFDL 126 (127)
T ss_dssp SSHHHHHHHHHHHHHHHTTT--
T ss_pred CCCHHHHHHHHHHHHHHCCCCc
Confidence 9999999999999999999986
No 5
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.94 E-value=6.7e-27 Score=188.22 Aligned_cols=109 Identities=21% Similarity=0.271 Sum_probs=106.9
Q ss_pred HHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCH
Q psy17187 9 QTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSP 88 (123)
Q Consensus 9 ~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~ 88 (123)
.+|.++++|+.+|+..|++.++|+++|++++|||++...+.-+++||+|++|||||+|+||..+|.+++++.++++.|+.
T Consensus 211 ~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~ 290 (440)
T COG5024 211 SMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTR 290 (440)
T ss_pred hHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhHhcCCceehhhhhHHhcc
Q psy17187 89 HTLKTTEKPAVYLNNTHVIMKKVKDLVGT 117 (123)
Q Consensus 89 ~ei~~mE~~IL~~ln~~i~~~~~~d~~~~ 117 (123)
++++++|+.+|.+|+|++-.|.+..|+|-
T Consensus 291 ~~i~~aE~~ml~~l~f~is~P~P~sFLRr 319 (440)
T COG5024 291 DDIIRAERYMLEVLDFNISWPSPMSFLRR 319 (440)
T ss_pred HHHHHHHHHHhhhcccccCCCChHHHHHH
Confidence 99999999999999999999999999763
No 6
>KOG0654|consensus
Probab=99.78 E-value=2.2e-20 Score=147.40 Aligned_cols=113 Identities=25% Similarity=0.329 Sum_probs=109.8
Q ss_pred cCCCHHHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhc
Q psy17187 4 FAISIQTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSD 83 (123)
Q Consensus 4 ~~Is~~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~ 83 (123)
..+++.+|.++++|.+++.+.+.+..+++|+++++.|||++...+++.++|++|.+|++||+|++|..+|.+++++++++
T Consensus 130 ~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd 209 (359)
T KOG0654|consen 130 ADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITD 209 (359)
T ss_pred cCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhh
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHhHhcCCceehhhhhHHhc
Q psy17187 84 YTFSPHTLKTTEKPAVYLNNTHVIMKKVKDLVG 116 (123)
Q Consensus 84 ~~~t~~ei~~mE~~IL~~ln~~i~~~~~~d~~~ 116 (123)
++|+..|+..||..+|+.+.+.+..||...|..
T Consensus 210 ~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~ 242 (359)
T KOG0654|consen 210 NTYTYWQVLRMEIDILNALTFELVRPTSKTFLR 242 (359)
T ss_pred hhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHH
Confidence 999999999999999999999999999988854
No 7
>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=99.74 E-value=9.2e-18 Score=105.47 Aligned_cols=87 Identities=23% Similarity=0.282 Sum_probs=82.0
Q ss_pred HHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHH
Q psy17187 11 NVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHT 90 (123)
Q Consensus 11 R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~e 90 (123)
|....+||.+++..+++++++.++|+.++|||+...++.+.+++++|++|+++|+|++|. ++..+++...+++. +.++
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~-~~~~ 79 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYA-TEEE 79 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCC-CHHH
Confidence 678899999999999999999999999999999999999999999999999999999988 88999999888665 9999
Q ss_pred HHHHHHHHh
Q psy17187 91 LKTTEKPAV 99 (123)
Q Consensus 91 i~~mE~~IL 99 (123)
+.+||..++
T Consensus 80 i~~~e~~il 88 (88)
T cd00043 80 ILRMEKLLL 88 (88)
T ss_pred HHHHHHHhC
Confidence 999999875
No 8
>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=99.70 E-value=4.9e-17 Score=101.28 Aligned_cols=83 Identities=28% Similarity=0.405 Sum_probs=76.1
Q ss_pred HHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHHHHHH
Q psy17187 16 SSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKTTE 95 (123)
Q Consensus 16 ~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei~~mE 95 (123)
+|+.++++.+++++++.++|++++||++...++.+.+.+++|++|+++|+|++|.. |...++...+++ |+.+++.++|
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 59999999999999999999999999999888888999999999999999999875 567788888876 8999999999
Q ss_pred HHHhH
Q psy17187 96 KPAVY 100 (123)
Q Consensus 96 ~~IL~ 100 (123)
+.|++
T Consensus 79 ~~il~ 83 (83)
T smart00385 79 KLLLE 83 (83)
T ss_pred HHHhC
Confidence 99874
No 9
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.69 E-value=1.9e-16 Score=123.38 Aligned_cols=113 Identities=15% Similarity=0.186 Sum_probs=99.6
Q ss_pred cCCCH----HHHHHHHHHHHHHhHhcC--CchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHh
Q psy17187 4 FAISI----QTNVFLYSSLLQLCEERH--CEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVED 77 (123)
Q Consensus 4 ~~Is~----~~R~~li~W~~~v~~~~~--l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~ 77 (123)
..+|+ ..|..-.+.+.++|..++ ++++|+..|+.|++||+..+++...+.+++|+||++||+|+||. ++++.+
T Consensus 45 ~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~-~~si~~ 123 (305)
T TIGR00569 45 IFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEF-NVSIDQ 123 (305)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhcccc-CcCHHH
Confidence 35666 567778899999999999 99999999999999999999999999999999999999999986 467888
Q ss_pred HHHhhcCC--CCHHHHHHHHHHHhHhcCCceehhhhhHHhcc
Q psy17187 78 LVYYSDYT--FSPHTLKTTEKPAVYLNNTHVIMKKVKDLVGT 117 (123)
Q Consensus 78 l~~~~~~~--~t~~ei~~mE~~IL~~ln~~i~~~~~~d~~~~ 117 (123)
++....+. ..+++|++||..||+.|+|++..++|+.++..
T Consensus 124 fv~~~~~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~ 165 (305)
T TIGR00569 124 FVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEG 165 (305)
T ss_pred HHhhccCCchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHH
Confidence 88765544 36799999999999999999999999886543
No 10
>KOG0834|consensus
Probab=99.44 E-value=2.9e-13 Score=106.06 Aligned_cols=113 Identities=14% Similarity=0.132 Sum_probs=99.1
Q ss_pred HHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCC-
Q psy17187 9 QTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFS- 87 (123)
Q Consensus 9 ~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t- 87 (123)
..|...+.||.+++.++++++.|+..|+.++.||....+.+....+.+|++|++||+|.|| .|.++++++..+...+.
T Consensus 37 ~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvEe-tp~kl~dIi~~s~~~~~~ 115 (323)
T KOG0834|consen 37 RLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVEE-TPRKLEDIIKVSYRYLNP 115 (323)
T ss_pred HHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhccc-CcccHHHHHHHHHHHcCc
Confidence 4688999999999999999999999999999999999999999999999999999999987 47788888877655555
Q ss_pred ------------HHHHHHHHHHHhHhcCCceehhhhhHHhccccccc
Q psy17187 88 ------------PHTLKTTEKPAVYLNNTHVIMKKVKDLVGTSMATF 122 (123)
Q Consensus 88 ------------~~ei~~mE~~IL~~ln~~i~~~~~~d~~~~~~~~~ 122 (123)
+++|+..|..+|++++||+-+..+..+|---+++|
T Consensus 116 ~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l 162 (323)
T KOG0834|consen 116 KDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKL 162 (323)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHh
Confidence 46799999999999999999998877765555443
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=99.16 E-value=1.1e-10 Score=90.34 Aligned_cols=107 Identities=12% Similarity=0.173 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhc-----
Q psy17187 9 QTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSD----- 83 (123)
Q Consensus 9 ~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~----- 83 (123)
..|..=..|+..+|.+++++..++..|+.+++||....++....++-++.||+++|+|.||+ |..+.-.....+
T Consensus 43 ~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~-~~~I~i~~~~~~~~~se 121 (297)
T COG5333 43 NLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDT-PRDISIESFEARDLWSE 121 (297)
T ss_pred hHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccc-cchhhHHHHHhhccccc
Confidence 34555568999999999999999999999999999999999999999999999999999996 322332222222
Q ss_pred -CCCCHHHHHHHHHHHhHhcCCceehhhhhHHhc
Q psy17187 84 -YTFSPHTLKTTEKPAVYLNNTHVIMKKVKDLVG 116 (123)
Q Consensus 84 -~~~t~~ei~~mE~~IL~~ln~~i~~~~~~d~~~ 116 (123)
-.-+++.+.++|..+|+.|+|+.+.+.++-.+.
T Consensus 122 ~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~ 155 (297)
T COG5333 122 EPKSSRERILEYEFELLEALDFDLHVHHPYKYLE 155 (297)
T ss_pred cccccHHHHHHHHHHHHHHcccceEeccccHHHH
Confidence 345789999999999999999999988875543
No 12
>KOG0794|consensus
Probab=99.15 E-value=2.9e-11 Score=90.52 Aligned_cols=102 Identities=18% Similarity=0.277 Sum_probs=85.1
Q ss_pred HHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhh----------
Q psy17187 13 FLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYS---------- 82 (123)
Q Consensus 13 ~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~---------- 82 (123)
-..+.+..++++.++.+.++..|+.|+-||+.+.+...-+..+++.||+++|+|.||......+.++...
T Consensus 43 ~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~ 122 (264)
T KOG0794|consen 43 FMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYW 122 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccc
Confidence 3455677889999999999999999999999999999999999999999999999997523333333221
Q ss_pred --cCCCCHHHHHHHHHHHhHhcCCceehhhhhHH
Q psy17187 83 --DYTFSPHTLKTTEKPAVYLNNTHVIMKKVKDL 114 (123)
Q Consensus 83 --~~~~t~~ei~~mE~~IL~~ln~~i~~~~~~d~ 114 (123)
...|..++|.+||..+|+.||.=++.+.++..
T Consensus 123 ~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrs 156 (264)
T KOG0794|consen 123 PEKFPYERKDILEMEFYLLEALDCYLIVHHPYRS 156 (264)
T ss_pred hhhcCCCcCcchhhhhhHHhhhceeEEEecCCcc
Confidence 34688899999999999999999998887654
No 13
>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=98.99 E-value=3.4e-09 Score=74.76 Aligned_cols=92 Identities=16% Similarity=0.196 Sum_probs=73.0
Q ss_pred HHHHHHHHHhHhcCCchhhHHHHHHHHHHccc---cC--CccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCC
Q psy17187 13 FLYSSLLQLCEERHCEYQVFPYAVSIMDRFLC---YC--PMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFS 87 (123)
Q Consensus 13 ~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls---~~--~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t 87 (123)
.+.+++.++...-+++++++.+|..|+||+.. .. .+.+...+-+-++|+.+|+|+-+....+-+....+++ ++
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 47889999999999999999999999999998 22 4667788899999999999999988888888888875 79
Q ss_pred HHHHHHHHHHHhHhcCCce
Q psy17187 88 PHTLKTTEKPAVYLNNTHV 106 (123)
Q Consensus 88 ~~ei~~mE~~IL~~ln~~i 106 (123)
.+|+-+||+..|+.+||++
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 9999999999999999985
No 14
>KOG0835|consensus
Probab=98.68 E-value=9.3e-08 Score=74.91 Aligned_cols=102 Identities=13% Similarity=0.116 Sum_probs=81.3
Q ss_pred HHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhh------
Q psy17187 9 QTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYS------ 82 (123)
Q Consensus 9 ~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~------ 82 (123)
..|.-=++|+.+-+--++|++.+...+..+|-||+...+.-+.++..++.+|++||+|+||. |-++.+.+...
T Consensus 21 el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~-Prr~rdVinVFh~L~~r 99 (367)
T KOG0835|consen 21 ELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE-PRRIRDVINVFHYLEQR 99 (367)
T ss_pred HHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc-cccHhHHHHHHHHHHHH
Confidence 34555689999999999999999999999999999999999999999999999999999984 33444433221
Q ss_pred --cCC-----------CCHHHHHHHHHHHhHhcCCceehhhh
Q psy17187 83 --DYT-----------FSPHTLKTTEKPAVYLNNTHVIMKKV 111 (123)
Q Consensus 83 --~~~-----------~t~~ei~~mE~~IL~~ln~~i~~~~~ 111 (123)
+.. =.+.++.++|..||+.|||++-...+
T Consensus 100 ~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hP 141 (367)
T KOG0835|consen 100 RESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHP 141 (367)
T ss_pred HhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeecc
Confidence 111 12457888999999999999855444
No 15
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=98.35 E-value=6.1e-06 Score=64.64 Aligned_cols=98 Identities=13% Similarity=0.012 Sum_probs=87.4
Q ss_pred HHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHHHHHH
Q psy17187 16 SSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKTTE 95 (123)
Q Consensus 16 ~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei~~mE 95 (123)
.-+.+++..++++..+.-.|..++.++.....+.......++++|+++|+|.+ ..|.++++++.+++ .+.++|-+.+
T Consensus 127 ~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~-~~prtl~eI~~~~~--v~~k~i~~~~ 203 (310)
T PRK00423 127 SELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRC-KVPRTLDEIAEVSR--VSRKEIGRCY 203 (310)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHc-CCCcCHHHHHHHhC--CCHHHHHHHH
Confidence 44678999999999999999999999999988888999999999999999985 56789999998875 5899999999
Q ss_pred HHHhHhcCCceehhhhhHHhc
Q psy17187 96 KPAVYLNNTHVIMKKVKDLVG 116 (123)
Q Consensus 96 ~~IL~~ln~~i~~~~~~d~~~ 116 (123)
+.|++.|+.++....+-||+.
T Consensus 204 ~~l~k~L~~~~~~~~p~~~i~ 224 (310)
T PRK00423 204 RFLLRELNLKLPPTDPIDYVP 224 (310)
T ss_pred HHHHHHhCCCCCCCCHHHHHH
Confidence 999999999887777777764
No 16
>KOG2496|consensus
Probab=98.26 E-value=1.6e-06 Score=67.41 Aligned_cols=95 Identities=14% Similarity=0.165 Sum_probs=80.6
Q ss_pred HHHHhHhc--CCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhc--CCCCHHHHHH
Q psy17187 18 LLQLCEER--HCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSD--YTFSPHTLKT 93 (123)
Q Consensus 18 ~~~v~~~~--~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~--~~~t~~ei~~ 93 (123)
+.+.+..+ .+.+.++..|+.+|-||.-..++-...-+.|.+||+++|+|.+| ..+++++++.-.+ ..=+.+.++.
T Consensus 63 l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kiee-f~ISieqFvkn~~~~~~k~~e~vLk 141 (325)
T KOG2496|consen 63 LVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEE-FYISIEQFVKNMNGRKWKTHEIVLK 141 (325)
T ss_pred HHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHh-heecHHHHHhhccCcccccHHHHHh
Confidence 44555555 56899999999999999999999999999999999999999986 5678999887554 2347889999
Q ss_pred HHHHHhHhcCCceehhhhhH
Q psy17187 94 TEKPAVYLNNTHVIMKKVKD 113 (123)
Q Consensus 94 mE~~IL~~ln~~i~~~~~~d 113 (123)
-|..+++.|+|+++.+.++.
T Consensus 142 ~E~~llqsL~f~L~vh~PyR 161 (325)
T KOG2496|consen 142 YEFLLLQSLKFSLTVHNPYR 161 (325)
T ss_pred chHHHHHhhhhhheecCCCC
Confidence 99999999999999887753
No 17
>KOG4164|consensus
Probab=97.76 E-value=4.3e-05 Score=61.54 Aligned_cols=96 Identities=19% Similarity=0.238 Sum_probs=83.3
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhh--cCCCCHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYS--DYTFSPH 89 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~--~~~~t~~ 89 (123)
+.+-.=|.+++...++..-|+..|..||....-...+++.+-+|.|-+|+.+|+|+.+...-.++.++.-. .-.+.++
T Consensus 383 rSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrr 462 (497)
T KOG4164|consen 383 RSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRR 462 (497)
T ss_pred HHHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHH
Confidence 34555688999999999999999999999999999999999999999999999999987777777776544 3457899
Q ss_pred HHHHHHHHHhHhcCCcee
Q psy17187 90 TLKTTEKPAVYLNNTHVI 107 (123)
Q Consensus 90 ei~~mE~~IL~~ln~~i~ 107 (123)
|++..|.-||..|.|.+.
T Consensus 463 dLia~Ef~VlvaLefaL~ 480 (497)
T KOG4164|consen 463 DLIAFEFPVLVALEFALH 480 (497)
T ss_pred hhhhhhhhHHHhhhhhcc
Confidence 999999999999988764
No 18
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=97.23 E-value=0.0013 Score=40.44 Aligned_cols=65 Identities=12% Similarity=0.169 Sum_probs=53.6
Q ss_pred HHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhc
Q psy17187 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSD 83 (123)
Q Consensus 18 ~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~ 83 (123)
|-++|+.++++.++.-.|..++++-....-.......-++++|+++|++.+ ..|.++.++...++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~-~~~~t~~eIa~~~~ 65 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLN-GVPRTLKEIAEAAG 65 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHT-TSSSSHHHHHHHCT
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHc-CCCcCHHHHHHHhC
Confidence 357899999999999999999999988877788889999999999999986 56778888877654
No 19
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=96.53 E-value=0.039 Score=43.06 Aligned_cols=101 Identities=13% Similarity=0.091 Sum_probs=86.8
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTL 91 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei 91 (123)
....+-+-.++..++++..+.-.|..++-+.++..-+.....+-+.++|+++|++.. ..|.+++++....+ -+++++
T Consensus 98 ~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~-~~prtl~eIa~a~~--V~~kei 174 (285)
T COG1405 98 ITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRIN-GVPRTLDEIAKALG--VSKKEI 174 (285)
T ss_pred HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHc-CCCccHHHHHHHHC--CCHHHH
Confidence 345566778899999999999999999999999988999999999999999999986 46888999998887 678999
Q ss_pred HHHHHHHhHhcCCceehhhhhHHh
Q psy17187 92 KTTEKPAVYLNNTHVIMKKVKDLV 115 (123)
Q Consensus 92 ~~mE~~IL~~ln~~i~~~~~~d~~ 115 (123)
.++.+.+.+.++-.+....+.|++
T Consensus 175 ~rtyr~~~~~L~l~~~~~~p~~yi 198 (285)
T COG1405 175 GRTYRLLVRELKLKIPPVDPSDYI 198 (285)
T ss_pred HHHHHHHHHhcCCCCCCCCHHHHH
Confidence 999999999998887655555554
No 20
>KOG1674|consensus
Probab=96.51 E-value=0.011 Score=44.37 Aligned_cols=94 Identities=12% Similarity=0.152 Sum_probs=71.6
Q ss_pred HHHHHHHHhHhcCCchhhHHHHHHHHHHccccCC---------ccCcC-ceehhhhhHHHHhhhhhccCCCHHhHHHhhc
Q psy17187 14 LYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCP---------MEKSQ-LQLTASACLLIASKIRECHALCVEDLVYYSD 83 (123)
Q Consensus 14 li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~---------i~~~~-lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~ 83 (123)
..+.+-++..+-..+++++..|..|+||+....+ ++.-. ..-.=++|+.+|+|+.+....+-.-+...
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 3456667777888999999999999999999732 22222 44467899999999987654444444433
Q ss_pred CCCCHHHHHHHHHHHhHhcCCceehh
Q psy17187 84 YTFSPHTLKTTEKPAVYLNNTHVIMK 109 (123)
Q Consensus 84 ~~~t~~ei~~mE~~IL~~ln~~i~~~ 109 (123)
+..+.+|+-.+|...|..+||.+++.
T Consensus 156 ggl~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 156 GGLTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred CCCChHhhhhhhHHHHhhCCeEEEec
Confidence 45688999999999999999999883
No 21
>KOG1597|consensus
Probab=96.41 E-value=0.02 Score=44.69 Aligned_cols=90 Identities=14% Similarity=0.100 Sum_probs=76.1
Q ss_pred HHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHHHHHHH
Q psy17187 17 SLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKTTEK 96 (123)
Q Consensus 17 W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei~~mE~ 96 (123)
=+-.+++..+|....--.|-.++-++-..+....+..+-++++|++||++-+ ..|-+.++++.+++ .+++||-+.=+
T Consensus 110 ~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~-~~pRT~kEI~~~an--v~kKEIgr~~K 186 (308)
T KOG1597|consen 110 EITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQE-DVPRTFKEISAVAN--VSKKEIGRCVK 186 (308)
T ss_pred HHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhc-CCCchHHHHHHHHc--CCHHHHHHHHH
Confidence 3556788999999888899999999988888888999999999999999965 45778999998887 79999999999
Q ss_pred HHhHhcCCceehh
Q psy17187 97 PAVYLNNTHVIMK 109 (123)
Q Consensus 97 ~IL~~ln~~i~~~ 109 (123)
.|++.|.-.+-+.
T Consensus 187 ~i~~~l~~s~~~~ 199 (308)
T KOG1597|consen 187 LIGEALETSVDLI 199 (308)
T ss_pred HHHHHHhccchhh
Confidence 9998876555443
No 22
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=96.14 E-value=0.052 Score=42.55 Aligned_cols=90 Identities=12% Similarity=0.010 Sum_probs=75.4
Q ss_pred HHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHHHH
Q psy17187 14 LYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKT 93 (123)
Q Consensus 14 li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei~~ 93 (123)
-.+.+...+..++++.++.-.|..++.+.....-.......-++++|+++|++..+ .+.+.+++...++ .+...|.+
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g-~~~t~keIa~v~~--Vs~~tI~~ 295 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLG-ERRTQREVAEVAG--VTEVTVRN 295 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhC-CCCCHHHHHHHcC--CCHHHHHH
Confidence 35788899999999999999999999988776666788899999999999999864 5678889887764 57888888
Q ss_pred HHHHHhHhcCCce
Q psy17187 94 TEKPAVYLNNTHV 106 (123)
Q Consensus 94 mE~~IL~~ln~~i 106 (123)
.=+++.+.++..+
T Consensus 296 ~ykel~~~l~~~~ 308 (310)
T PRK00423 296 RYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHhCccc
Confidence 8888888877543
No 23
>KOG0834|consensus
Probab=95.63 E-value=0.031 Score=44.30 Aligned_cols=101 Identities=16% Similarity=0.109 Sum_probs=77.2
Q ss_pred cCCCHHH-HHHHHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhH--HH
Q psy17187 4 FAISIQT-NVFLYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDL--VY 80 (123)
Q Consensus 4 ~~Is~~~-R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l--~~ 80 (123)
|.++.+. ..-|.+|+..+-...+........|.+++...+...-+-+.+.+-||++|++||+|+.....|...+- ..
T Consensus 144 Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~ 223 (323)
T KOG0834|consen 144 FDLNVEHPYKYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWR 223 (323)
T ss_pred CceeccCchHHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhh
Confidence 4444444 45677787777777766667888899999888877777788899999999999999987644433332 45
Q ss_pred hhcCCCCHHHHHHHHHHHhHhcCC
Q psy17187 81 YSDYTFSPHTLKTTEKPAVYLNNT 104 (123)
Q Consensus 81 ~~~~~~t~~ei~~mE~~IL~~ln~ 104 (123)
..+.+.|.+++.++...++....-
T Consensus 224 ~~d~~vt~e~l~~i~~~~l~~y~~ 247 (323)
T KOG0834|consen 224 EFDETVTNELLDDICHEFLDLYEQ 247 (323)
T ss_pred hhcccCCHHHHHHHHHHHHHHHhh
Confidence 667789999999999999988733
No 24
>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=94.32 E-value=0.22 Score=32.39 Aligned_cols=86 Identities=19% Similarity=0.130 Sum_probs=59.5
Q ss_pred HHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHHHHH
Q psy17187 15 YSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKTT 94 (123)
Q Consensus 15 i~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei~~m 94 (123)
.+|+.......+.+.++..+|-.+++-.+.....-...--.+|++|+++|.+..+..+.--..+...+ .++.+++...
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 34555554444456678888888888777666666677789999999999999764344445566666 3488888887
Q ss_pred HHHHhHhc
Q psy17187 95 EKPAVYLN 102 (123)
Q Consensus 95 E~~IL~~l 102 (123)
=..|.+.+
T Consensus 82 ~~~i~~~~ 89 (118)
T PF02984_consen 82 IELIQELL 89 (118)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 76666654
No 25
>KOG1675|consensus
Probab=89.30 E-value=0.56 Score=37.12 Aligned_cols=76 Identities=12% Similarity=0.111 Sum_probs=56.7
Q ss_pred HHHHHHHHccccCCcc--CcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHHHHHHHHHhHhcCCceehhh
Q psy17187 34 YAVSIMDRFLCYCPME--KSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKTTEKPAVYLNNTHVIMKK 110 (123)
Q Consensus 34 lAv~~lDr~ls~~~i~--~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei~~mE~~IL~~ln~~i~~~~ 110 (123)
....|++|-+.-.... +.....++....++|+|.....-..--+.+.++.. -|.+|+-+||++.|..|.|.+-.|.
T Consensus 213 itL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd-~tveDmNe~ERqfLelLqfNinvp~ 290 (343)
T KOG1675|consen 213 ITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKD-QSVDDMNALERQFLELLQFNINVPS 290 (343)
T ss_pred HHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhh-ccHhhHHHHHHHHHHHHhhccCccH
Confidence 3447778877665444 77777777778999999877654444556666643 4789999999999999999986664
No 26
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=87.26 E-value=4.2 Score=31.78 Aligned_cols=87 Identities=10% Similarity=-0.008 Sum_probs=64.4
Q ss_pred HHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHHHH
Q psy17187 14 LYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKT 93 (123)
Q Consensus 14 li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei~~ 93 (123)
-.+++-..++.++++.++--.|..+++............-.-++++|+++|++... .+.+-.+....++- |..-|++
T Consensus 194 p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~-~~~tq~eva~v~~v--tevTIrn 270 (285)
T COG1405 194 PSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLG-ERRTQKEVAKVAGV--TEVTIRN 270 (285)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhC-CchHHHHHHHHhCC--eeeHHHH
Confidence 45778899999999999999999999999888877788889999999999999875 34445555555543 2333444
Q ss_pred HHHHHhHhcC
Q psy17187 94 TEKPAVYLNN 103 (123)
Q Consensus 94 mE~~IL~~ln 103 (123)
-=+++.+.++
T Consensus 271 rykel~~~~~ 280 (285)
T COG1405 271 RYKELADALD 280 (285)
T ss_pred HHHHHHHhhc
Confidence 4444444443
No 27
>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=57.00 E-value=44 Score=23.13 Aligned_cols=68 Identities=15% Similarity=0.160 Sum_probs=51.2
Q ss_pred HHHHHHHHhHhcCCchhhHHHHHHHHHHccccCC--ccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhh
Q psy17187 14 LYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCP--MEKSQLQLTASACLLIASKIRECHALCVEDLVYYS 82 (123)
Q Consensus 14 li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~--i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~ 82 (123)
...-+.++|+.++++++........++..+..+. ....++--+-+.|++.-+|+.. ..++-.++...-
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~-~~~sF~~Ii~~Y 83 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK-EELSFKDIIKAY 83 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT--S--HHHHHHHH
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc-CCCCHHHHHHHH
Confidence 3445778999999999988888899999887653 5677899999999999999875 566666666533
No 28
>KOG1598|consensus
Probab=54.52 E-value=24 Score=29.91 Aligned_cols=53 Identities=11% Similarity=0.069 Sum_probs=48.3
Q ss_pred HHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhc
Q psy17187 17 SLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIREC 70 (123)
Q Consensus 17 W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~ 70 (123)
-|.+++..+++.. ..-.|.+++---++.+-.+....+.+-.+|++++++.+-+
T Consensus 73 ~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t 125 (521)
T KOG1598|consen 73 LIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKT 125 (521)
T ss_pred HHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCC
Confidence 5678999999999 8889999999999999999999999999999999998744
No 29
>KOG0835|consensus
Probab=53.84 E-value=59 Score=26.28 Aligned_cols=47 Identities=17% Similarity=0.137 Sum_probs=35.1
Q ss_pred hcCCchhh--HHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhc
Q psy17187 24 ERHCEYQV--FPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIREC 70 (123)
Q Consensus 24 ~~~l~~~t--l~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~ 70 (123)
.+++.++- +..|-|+++--+...-.-...-..|+++|.++|+.-.|.
T Consensus 151 tL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eI 199 (367)
T KOG0835|consen 151 TLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEI 199 (367)
T ss_pred HhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcC
Confidence 34444333 667778887777666666778889999999999999984
No 30
>KOG1597|consensus
Probab=53.40 E-value=61 Score=25.69 Aligned_cols=69 Identities=9% Similarity=0.006 Sum_probs=46.3
Q ss_pred HHHHHHHHhHhcCCchhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCCCHHhHHHhhc
Q psy17187 14 LYSSLLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLVYYSD 83 (123)
Q Consensus 14 li~W~~~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~~~~~l~~~~~ 83 (123)
..+.|...|..++|+..+.-.|-.+-.++-....+....---++++..++++...+ .+-+..++...++
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 34566677777777777777777666666555555555666678888888888876 5555666655543
No 31
>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=43.28 E-value=65 Score=19.12 Aligned_cols=30 Identities=17% Similarity=-0.098 Sum_probs=25.2
Q ss_pred CCCHHHHHHHHHHHHHHhHhcCCchhhHHHHHHH
Q psy17187 5 AISIQTNVFLYSSLLQLCEERHCEYQVFPYAVSI 38 (123)
Q Consensus 5 ~Is~~~R~~li~W~~~v~~~~~l~~~tl~lAv~~ 38 (123)
.+|+.....+.+|+ +.++++++.+..|+.+
T Consensus 12 ~ls~~e~~~i~~~~----~~~~~~~evI~~ai~~ 41 (73)
T TIGR01446 12 MLSPFEMEDLKYWL----DEFGNSPELIKEALKE 41 (73)
T ss_pred CCCHHHHHHHHHHH----HHhCCCHHHHHHHHHH
Confidence 68889999999997 6677889999888876
No 32
>cd04441 DEP_2_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=37.10 E-value=42 Score=21.47 Aligned_cols=29 Identities=14% Similarity=0.123 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
..++||+.+-+ ...-..+++.++-.++|.
T Consensus 36 sElVdWL~~~~-~~~sR~eAv~lgq~Ll~~ 64 (85)
T cd04441 36 SEFIDWLLQEG-EAESRREAVQLCRRLLEH 64 (85)
T ss_pred hHHHHHHHHcC-CCCCHHHHHHHHHHHHHC
Confidence 57899999976 234455666666666654
No 33
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=36.82 E-value=36 Score=19.32 Aligned_cols=27 Identities=7% Similarity=-0.130 Sum_probs=21.4
Q ss_pred HHHHHHHHHhHhcCCceehhhhhHHhc
Q psy17187 90 TLKTTEKPAVYLNNTHVIMKKVKDLVG 116 (123)
Q Consensus 90 ei~~mE~~IL~~ln~~i~~~~~~d~~~ 116 (123)
--..|-..+|+.++|+|+.-++.|.-.
T Consensus 18 g~t~lk~r~L~~~G~~Vi~Ip~~eW~~ 44 (58)
T PF08373_consen 18 GSTKLKHRHLKALGYKVISIPYYEWNK 44 (58)
T ss_pred hHHHHHHHHHHHCCCEEEEecHHHHHh
Confidence 355688899999999999888777543
No 34
>KOG0794|consensus
Probab=36.79 E-value=1.3e+02 Score=23.26 Aligned_cols=51 Identities=22% Similarity=0.124 Sum_probs=31.0
Q ss_pred HhcCC-chhhHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhhhccCC
Q psy17187 23 EERHC-EYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHAL 73 (123)
Q Consensus 23 ~~~~l-~~~tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~eE~~~~ 73 (123)
...|. +..-+.+|-.+.+--+...-+--..-..+|.+|++||+-..|...+
T Consensus 162 qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~ 213 (264)
T KOG0794|consen 162 QDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIP 213 (264)
T ss_pred HHhcccchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChH
Confidence 33344 3445666666655444332222334567899999999998876544
No 35
>PF14502 HTH_41: Helix-turn-helix domain
Probab=33.76 E-value=61 Score=18.60 Aligned_cols=24 Identities=8% Similarity=0.151 Sum_probs=20.4
Q ss_pred HHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 18 LLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 18 ~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
+-+.+++|+++.-|+..|+.++..
T Consensus 9 I~e~~~~~~vs~GtiQ~Alk~Le~ 32 (48)
T PF14502_consen 9 ISEYSEKFGVSRGTIQNALKFLEE 32 (48)
T ss_pred HHHHHHHhCcchhHHHHHHHHHHH
Confidence 347789999999999999988764
No 36
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=32.77 E-value=86 Score=19.56 Aligned_cols=28 Identities=11% Similarity=0.217 Sum_probs=24.1
Q ss_pred HHHHHHhHhcCCchhhHHHHHHHHHHcc
Q psy17187 16 SSLLQLCEERHCEYQVFPYAVSIMDRFL 43 (123)
Q Consensus 16 ~W~~~v~~~~~l~~~tl~lAv~~lDr~l 43 (123)
.-+...+..++++.+.+.++..++|+.=
T Consensus 46 ~~~~rL~~Dl~in~~gi~lil~LLd~i~ 73 (84)
T PF13591_consen 46 RRIRRLHRDLGINLEGIALILDLLDRIE 73 (84)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 4466788999999999999999999853
No 37
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=32.59 E-value=41 Score=18.35 Aligned_cols=17 Identities=0% Similarity=-0.023 Sum_probs=13.7
Q ss_pred HHHHhHhcCCchhhHHH
Q psy17187 18 LLQLCEERHCEYQVFPY 34 (123)
Q Consensus 18 ~~~v~~~~~l~~~tl~l 34 (123)
+.+++..+|++..|+|-
T Consensus 24 i~~IA~~~gvsr~TvyR 40 (45)
T PF02796_consen 24 IAEIAKQFGVSRSTVYR 40 (45)
T ss_dssp HHHHHHHTTS-HHHHHH
T ss_pred HHHHHHHHCcCHHHHHH
Confidence 45799999999999985
No 38
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=32.46 E-value=52 Score=20.22 Aligned_cols=42 Identities=17% Similarity=0.188 Sum_probs=26.1
Q ss_pred eehhhhhHHHHhhhhhccCCCHHhHHHhhcCCCCHHHHHHHHH
Q psy17187 54 QLTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKTTEK 96 (123)
Q Consensus 54 qLlg~tcL~iAsK~eE~~~~~~~~l~~~~~~~~t~~ei~~mE~ 96 (123)
.|+-.+|-.+|.++....|=.++.+..+. +.+|+++-.+++.
T Consensus 30 ~L~~~~~~~iA~~i~gks~eeir~~fgi~-~d~t~eee~~i~~ 71 (78)
T PF01466_consen 30 GLLDLCCKYIANMIKGKSPEEIRKYFGIE-NDLTPEEEEEIRK 71 (78)
T ss_dssp HHHHHHHHHHHHHHTTS-HHHHHHHHT----TSSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHcCCC-CCCCHHHHHHHHH
Confidence 47788899999999865443444444444 4588877665544
No 39
>cd04443 DEP_GPR155 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in GPR155-like proteins. GRP155-like proteins, also known as PGR22, contain an N-terminal permease domain, a central transmembrane region and a C-terminal DEP domain. They are orphan receptors of the class B G protein-coupled receptors. Their function is unknown.
Probab=31.55 E-value=61 Score=20.48 Aligned_cols=29 Identities=14% Similarity=0.092 Sum_probs=17.9
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
..+|+||.+... -.-..|.+.+|-.++|.
T Consensus 34 selVdWL~~~~~-~~sR~eAv~lg~~Ll~~ 62 (83)
T cd04443 34 CDLVSWLIEVGL-AQDRGEAVLYGRRLLQG 62 (83)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 468999998532 22234666666666654
No 40
>cd04449 DEP_DEPDC5-like DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
Probab=31.36 E-value=59 Score=20.30 Aligned_cols=30 Identities=13% Similarity=0.087 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
..+++|+.+-.....-..+.+.++-.++|.
T Consensus 33 ~e~VdWL~~~~~~~~~r~eAv~lgq~Ll~~ 62 (83)
T cd04449 33 SEAVSWLINNFEDVDTREEAVELGQELMNE 62 (83)
T ss_pred HHHHHHHHHhCCCCCCHHHHHHHHHHHHHC
Confidence 578999998655333345566666666654
No 41
>PF14823 Sirohm_synth_C: Sirohaem biosynthesis protein C-terminal; PDB: 1KYQ_B.
Probab=30.57 E-value=19 Score=22.17 Aligned_cols=30 Identities=13% Similarity=0.080 Sum_probs=17.7
Q ss_pred HHHHHHhHhcCCc---hhhHHHHHHHHHHcccc
Q psy17187 16 SSLLQLCEERHCE---YQVFPYAVSIMDRFLCY 45 (123)
Q Consensus 16 ~W~~~v~~~~~l~---~~tl~lAv~~lDr~ls~ 45 (123)
.||.+||+.+++. .-+----..+++-|-+.
T Consensus 33 ~Wm~~vcd~w~l~~l~~l~~~d~~~Ll~~y~~~ 65 (70)
T PF14823_consen 33 RWMSQVCDYWSLEELAELDDEDMENLLDFYWSN 65 (70)
T ss_dssp HHHHHHHHHHHHHHGGGB-HHHHHHHHHHHHTT
T ss_pred HHHHHHhcccCHHHHHHCCHHHHHHHHHHhhcc
Confidence 7999999999763 22222224555555443
No 42
>cd04438 DEP_dishevelled DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in dishevelled-like proteins. Dishevelled-like proteins play a key role in the transduction of the Wnt signal from the cell surface to the nucleus, which in turn is an important regulatory pathway for cellular development and growth. They contain an N-terminal DIX domain, a central PDZ domain, and a C-terminal DEP domain.
Probab=30.01 E-value=80 Score=19.96 Aligned_cols=32 Identities=22% Similarity=0.051 Sum_probs=22.9
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHHcc
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDRFL 43 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~l 43 (123)
..+++|+.+-.+...-..|++.+|-.+++.=+
T Consensus 33 sdlVdWL~~~~~~~~~R~eAv~~g~~Ll~~G~ 64 (84)
T cd04438 33 SDLVDWLLSHVEGLTDRREARKYASSLLKLGY 64 (84)
T ss_pred hHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCc
Confidence 46899999877655556677777777776533
No 43
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=29.32 E-value=1.7e+02 Score=23.03 Aligned_cols=38 Identities=16% Similarity=-0.025 Sum_probs=25.7
Q ss_pred hHHHHHHHHHHccccCCccCcCceehhhhhHHHHhhhh
Q psy17187 31 VFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIR 68 (123)
Q Consensus 31 tl~lAv~~lDr~ls~~~i~~~~lqLlg~tcL~iAsK~e 68 (123)
....|..+++..+...-.-...-+.||++|+++|++..
T Consensus 183 l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~ 220 (305)
T TIGR00569 183 LRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRA 220 (305)
T ss_pred HHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHh
Confidence 34556677665554433334566789999999999854
No 44
>PF11264 ThylakoidFormat: Thylakoid formation protein; InterPro: IPR017499 Psp29, originally designated sll1414 (P73956 from SWISSPROT) in Synechocystis sp. (strain PCC 6803), is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.; GO: 0010027 thylakoid membrane organization, 0015979 photosynthesis, 0009523 photosystem II
Probab=29.02 E-value=95 Score=23.37 Aligned_cols=56 Identities=18% Similarity=0.307 Sum_probs=38.4
Q ss_pred cCCCHHHHHHHHHHHHHHhH-----hcCCchhhHHHHH-HHHHHccccCCccCcCceehhhhh
Q psy17187 4 FAISIQTNVFLYSSLLQLCE-----ERHCEYQVFPYAV-SIMDRFLCYCPMEKSQLQLTASAC 60 (123)
Q Consensus 4 ~~Is~~~R~~li~W~~~v~~-----~~~l~~~tl~lAv-~~lDr~ls~~~i~~~~lqLlg~tc 60 (123)
..|.+-+|+.+-+-|.+.|- .|..+ ..+.+++ ..+|+|+...+...+.-.+..+-|
T Consensus 15 ~pI~siYrrvv~ELLVe~HLl~~n~~F~yD-~lfalG~vt~fd~fm~GY~p~~~~~~If~Alc 76 (216)
T PF11264_consen 15 RPIPSIYRRVVDELLVELHLLSVNKDFQYD-PLFALGLVTVFDRFMQGYPPEEDKDSIFNALC 76 (216)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHhccCceeC-chHHhhHHHHHHHHhcCCCChhHHHHHHHHHH
Confidence 46899999999999999773 34333 3444554 899999988876555444444444
No 45
>cd04442 DEP_1_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=28.53 E-value=67 Score=20.31 Aligned_cols=29 Identities=14% Similarity=0.062 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
..++|||.+.... .-..+++.++-.++|.
T Consensus 32 selVdWL~~~~~~-~sR~eAv~lgq~Ll~~ 60 (82)
T cd04442 32 KELIDWLIEHKEA-SDRETAIKIMQKLLDH 60 (82)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHHHHC
Confidence 4689999976542 2234455555545543
No 46
>cd04439 DEP_1_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and by the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=28.51 E-value=64 Score=20.27 Aligned_cols=29 Identities=14% Similarity=0.065 Sum_probs=18.1
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
..+++||.+... ..-..|.+.++-.++|.
T Consensus 32 selVdWL~~~~~-~~~r~eAv~lg~~Ll~~ 60 (81)
T cd04439 32 NEFVSWLLEIGE-ISKPEEGVNLGQALLEN 60 (81)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 468999997652 22234666666666664
No 47
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=27.98 E-value=1.4e+02 Score=18.42 Aligned_cols=32 Identities=16% Similarity=0.248 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHhHhcCCchhhHHHHHHHHHHc
Q psy17187 8 IQTNVFLYSSLLQLCEERHCEYQVFPYAVSIMDRF 42 (123)
Q Consensus 8 ~~~R~~li~W~~~v~~~~~l~~~tl~lAv~~lDr~ 42 (123)
-+.|..+++++..++...|++.+ -|+..+|.+
T Consensus 49 y~rRK~Ii~~I~~l~~~~g~~~~---~ai~~le~~ 80 (81)
T PF12550_consen 49 YSRRKVIIDFIERLANERGISEE---EAIEILEEI 80 (81)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHH---HHHHHHHhc
Confidence 46789999999999888777654 567777754
No 48
>cd04440 DEP_2_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=27.21 E-value=71 Score=20.80 Aligned_cols=29 Identities=14% Similarity=0.075 Sum_probs=17.9
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
..+++|+++.+ .-.-..+.+.++-.++|.
T Consensus 41 sElVdWLi~~g-~~~tR~eAv~~gq~Ll~~ 69 (93)
T cd04440 41 SKLVDWLLAQG-DCRTREEAVILGVGLCNN 69 (93)
T ss_pred hHHHHHHHHcC-CCCCHHHHHHHHHHHHhC
Confidence 46999999984 333445555555555554
No 49
>PF08880 QLQ: QLQ; InterPro: IPR014978 QLQ is named after the conserved Gln, Leu, Gln motif. QLQ is found at the N terminus of SWI2/SNF2 protein, which has been shown to be involved in protein-protein interactions. QLQ has been postulated to be involved in mediating protein interactions []. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=26.57 E-value=89 Score=16.74 Aligned_cols=16 Identities=19% Similarity=0.384 Sum_probs=13.6
Q ss_pred CCCCHHHHHHHHHHHh
Q psy17187 84 YTFSPHTLKTTEKPAV 99 (123)
Q Consensus 84 ~~~t~~ei~~mE~~IL 99 (123)
+.||..|+...|..|+
T Consensus 1 s~FT~~Ql~~L~~Qi~ 16 (37)
T PF08880_consen 1 SPFTPAQLQELRAQIL 16 (37)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 4689999999998876
No 50
>cd04437 DEP_Epac DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by cyclic AMP, a second messenger that plays a role in the control of diverse cellular processes, such as cell adhesion and insulin secretion. Epac-like proteins share a common domain architecture, containing RasGEF, DEP and CAP-effector (cAMP binding) domains. The DEP domain is involved in membrane localization.
Probab=26.03 E-value=75 Score=21.80 Aligned_cols=29 Identities=17% Similarity=0.037 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMD 40 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lD 40 (123)
..+||||.+....-.-..+.+.++-.++|
T Consensus 34 sElVdWLl~~~~~v~sR~eAv~lgq~Ll~ 62 (125)
T cd04437 34 TELVDWLLQQSPCVQSRSQAVGMWQVLLE 62 (125)
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHh
Confidence 45899999987544334455555555554
No 51
>PF05043 Mga: Mga helix-turn-helix domain; InterPro: IPR007737 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions []. The family also contains VirR like proteins which match only at the C terminus of the alignment.; PDB: 3SQN_A.
Probab=25.17 E-value=80 Score=19.35 Aligned_cols=38 Identities=16% Similarity=0.236 Sum_probs=28.2
Q ss_pred HHhHhcCCchhhHHHHHHHHHHccccCCcc--CcCceehh
Q psy17187 20 QLCEERHCEYQVFPYAVSIMDRFLCYCPME--KSQLQLTA 57 (123)
Q Consensus 20 ~v~~~~~l~~~tl~lAv~~lDr~ls~~~i~--~~~lqLlg 57 (123)
+.++.+.++..|+.--+.-+..++....+. .+.+++.|
T Consensus 35 ~la~~~~iS~sti~~~i~~l~~~l~~~~l~i~~~~~~l~G 74 (87)
T PF05043_consen 35 DLAEELFISRSTIYRDIKKLNKYLKKYGLKISKKGYRLEG 74 (87)
T ss_dssp HHHHHHT--HHHHHHHHHHHHHHHHCCT-EE-SSEEEEES
T ss_pred HHHHHHCCCHHHHHHHHHHHHHHHHHcCeEEeCCCeEEEe
Confidence 688999999999999999999999876543 35566655
No 52
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=23.43 E-value=1.4e+02 Score=16.24 Aligned_cols=24 Identities=13% Similarity=0.045 Sum_probs=20.2
Q ss_pred HHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 18 LLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 18 ~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
..++++.+++++.|+.-++.-+..
T Consensus 23 ~~~la~~~~vs~~tv~~~l~~L~~ 46 (60)
T smart00345 23 ERELAAQLGVSRTTVREALSRLEA 46 (60)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH
Confidence 346889999999999999887765
No 53
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=22.99 E-value=71 Score=21.17 Aligned_cols=19 Identities=11% Similarity=0.030 Sum_probs=16.9
Q ss_pred HHHHhHhcCCchhhHHHHH
Q psy17187 18 LLQLCEERHCEYQVFPYAV 36 (123)
Q Consensus 18 ~~~v~~~~~l~~~tl~lAv 36 (123)
|-+|+++-|+++|.+|.|.
T Consensus 52 MsqvA~~aGlsRe~LYkaL 70 (100)
T COG3636 52 MSQVARKAGLSREGLYKAL 70 (100)
T ss_pred HHHHHHHhCccHHHHHHHh
Confidence 7789999999999999874
No 54
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=22.87 E-value=1.1e+02 Score=16.69 Aligned_cols=21 Identities=19% Similarity=0.400 Sum_probs=14.1
Q ss_pred HHHhHhcCCchhhHHHHHHHHHHc
Q psy17187 19 LQLCEERHCEYQVFPYAVSIMDRF 42 (123)
Q Consensus 19 ~~v~~~~~l~~~tl~lAv~~lDr~ 42 (123)
.+|+..+|++..|+- .++|+|
T Consensus 31 ~~vA~~~~vs~~TV~---ri~~~~ 51 (52)
T PF13542_consen 31 KDVARELGVSWSTVR---RIFDRY 51 (52)
T ss_pred HHHHHHHCCCHHHHH---HHHHhh
Confidence 346788888888874 455554
No 55
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=22.14 E-value=1.7e+02 Score=18.97 Aligned_cols=29 Identities=14% Similarity=0.289 Sum_probs=24.6
Q ss_pred HHHHHHHHhHhcCCchhhHHHHHHHHHHc
Q psy17187 14 LYSSLLQLCEERHCEYQVFPYAVSIMDRF 42 (123)
Q Consensus 14 li~W~~~v~~~~~l~~~tl~lAv~~lDr~ 42 (123)
.+.-+.+.+..++++.+.+.++..++|+.
T Consensus 52 r~~~a~rL~~dl~in~~gialvl~LLd~i 80 (101)
T PRK10265 52 VVQRAVRLRHELALDWPGIAVALTLLDEI 80 (101)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 34456688999999999999999999984
No 56
>cd04448 DEP_PIKfyve DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGEF (GDP/GTP exchange factor) PIKfyve-like proteins. PIKfyve contains N-terminal Fyve finger and DEP domains, a central chaperonin-like domain and a C-terminal PIPK (phosphatidylinositol phosphate kinase) domain. PIKfyve-like proteins are important phosphatidylinositol (3)-monophosphate (PtdIns(3)P)-5-kinases, producing PtdIns(3,5)P2, which plays a major role in multivesicular body (MVB) sorting and control of retrograde traffic from the vacuole back to the endosome and/or Golgi. PIKfyve itself has been shown to be play a role in regulating early-endosome-to-trans-Golgi network (TGN) retrograde trafficking.
Probab=22.07 E-value=1.1e+02 Score=19.07 Aligned_cols=29 Identities=14% Similarity=0.133 Sum_probs=18.3
Q ss_pred HHHHHHHHHHhHhcCCchhhHHHHHHHHHH
Q psy17187 12 VFLYSSLLQLCEERHCEYQVFPYAVSIMDR 41 (123)
Q Consensus 12 ~~li~W~~~v~~~~~l~~~tl~lAv~~lDr 41 (123)
..+++||.+-.. ..-..+.+.++-.++|.
T Consensus 32 selVdWL~~~~~-~~~R~eAv~~gq~Ll~~ 60 (81)
T cd04448 32 KELVNWLIRQGK-AATRVQAIAIGQALLDA 60 (81)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHHHHC
Confidence 469999997643 22234666666666664
No 57
>cd08203 SAM_PNT Sterile alpha motif (SAM)/Pointed domain. Sterile alpha motif (SAM)/Pointed domain is found in about 40% of transcriptional regulators of ETS family (initially named for Erythroblastosis virus, E26-E Twenty Six). SAM Pointed domain containing proteins of this family additionally have C-terminal ETS DNA-binding domain. In a few cases, SAM Pointed domain appears as a single domain protein. Members of this group are mostly involved in regulation of embryonic development and growth control in eukaryotes. SAM Pointed domains mediate protein-protein interactions. Depending on the subgroup, they can interact with other SAM Pointed domains forming homo or hetero dimers/oligomers and/or they can recruit a protein kinase to its target which can be the SAM Pointed domain containing protein itself or another protein that has no kinase docking site. Thus, SAM Pointed domains participate in transcriptional regulation and signal transduction. Some genes coding ETS family transcripti
Probab=22.04 E-value=1e+02 Score=18.46 Aligned_cols=20 Identities=15% Similarity=-0.104 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHhHhcCCch
Q psy17187 10 TNVFLYSSLLQLCEERHCEY 29 (123)
Q Consensus 10 ~R~~li~W~~~v~~~~~l~~ 29 (123)
.+..+..|+..+..+|++..
T Consensus 6 t~~~V~~Wl~w~~~~f~L~~ 25 (66)
T cd08203 6 TKEHVLQWLEWAVKEFSLPP 25 (66)
T ss_pred CHHHHHHHHHHHHHhcCCCC
Confidence 46789999999999999886
No 58
>PF13011 LZ_Tnp_IS481: leucine-zipper of insertion element IS481
Probab=21.97 E-value=2.1e+02 Score=18.33 Aligned_cols=39 Identities=8% Similarity=-0.004 Sum_probs=30.2
Q ss_pred cCCCHHHHHHHHHH-------HHHHhHhcCCchhhHHHHHHHHHHcccc
Q psy17187 4 FAISIQTNVFLYSS-------LLQLCEERHCEYQVFPYAVSIMDRFLCY 45 (123)
Q Consensus 4 ~~Is~~~R~~li~W-------~~~v~~~~~l~~~tl~lAv~~lDr~ls~ 45 (123)
-.+||.-|..|+.- +.+++..||.+..|.+- .++||-..
T Consensus 7 A~Lt~~gR~~lv~~vv~~g~~~a~aA~~~gVS~~Ta~k---W~~Ryra~ 52 (85)
T PF13011_consen 7 ARLTPRGRLRLVRRVVEQGWPVAHAAAEFGVSRRTAYK---WLARYRAE 52 (85)
T ss_pred CCCCHHHHHHHHHHHHHcCCcHHHHHHHhCCCHHHHHH---HHHHHHHc
Confidence 35899999888774 45689999999999865 66777654
No 59
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=20.99 E-value=99 Score=17.21 Aligned_cols=19 Identities=5% Similarity=0.104 Sum_probs=14.3
Q ss_pred HHHHhHhcCCchhhHHHHH
Q psy17187 18 LLQLCEERHCEYQVFPYAV 36 (123)
Q Consensus 18 ~~~v~~~~~l~~~tl~lAv 36 (123)
|.++++..|++..|+..++
T Consensus 2 i~dIA~~agvS~~TVSr~l 20 (46)
T PF00356_consen 2 IKDIAREAGVSKSTVSRVL 20 (46)
T ss_dssp HHHHHHHHTSSHHHHHHHH
T ss_pred HHHHHHHHCcCHHHHHHHH
Confidence 4678888888888876654
No 60
>cd08757 SAM_PNT_ESE Sterile alpha motif (SAM)/Pointed domain of ESE-like ETS transcriptional regulators. SAM Pointed domain of ESE-like (Epithelium-Specific ETS) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. It can act as a major transactivator by providing a potential docking site for co-activators. ETS factors are important for cell differentiation. They can be involved in regulation of gene expression in different types of epithelial cells. They are expressed in salivary gland, intestine, stomach, pancreas, lungs, kidneys, colon, mammary gland, and prostate. Members of this group are proto-oncogenes. Expression profiles of these factors are altered in epithelial cancers, which makes them potential targets for cancer therapy.
Probab=20.37 E-value=1.1e+02 Score=18.39 Aligned_cols=21 Identities=14% Similarity=0.070 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHhHhcCCchh
Q psy17187 10 TNVFLYSSLLQLCEERHCEYQ 30 (123)
Q Consensus 10 ~R~~li~W~~~v~~~~~l~~~ 30 (123)
.+..+..|+..+.++++++.+
T Consensus 6 t~~~V~~Wl~w~~~e~~l~~~ 26 (68)
T cd08757 6 TKNDVLEWLQFVAEQNKLDAE 26 (68)
T ss_pred CHHHHHHHHHHHHHHcCCCCC
Confidence 578899999999999988754
Done!