Query psy15287
Match_columns 186
No_of_seqs 117 out of 483
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 17:13:30 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15287.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15287hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3766|consensus 100.0 4.2E-39 9.2E-44 291.6 12.4 161 1-184 118-282 (478)
2 smart00561 MBT Present in Dros 100.0 3.3E-39 7.1E-44 236.7 8.8 95 57-173 2-96 (96)
3 KOG3766|consensus 100.0 1.5E-31 3.3E-36 242.4 8.5 144 2-173 230-376 (478)
4 PF02820 MBT: mbt repeat; Int 100.0 1.6E-30 3.5E-35 181.5 5.8 72 106-180 1-72 (73)
5 PF02820 MBT: mbt repeat; Int 99.8 4.6E-19 9.9E-24 123.6 3.5 45 1-45 25-69 (73)
6 smart00561 MBT Present in Dros 99.7 7.8E-18 1.7E-22 123.5 4.8 41 1-41 56-96 (96)
7 PF11717 Tudor-knot: RNA bindi 97.8 8.3E-05 1.8E-09 48.9 5.7 48 102-154 1-52 (55)
8 PF05641 Agenet: Agenet domain 96.4 0.013 2.9E-07 39.8 5.9 39 102-140 1-41 (68)
9 smart00743 Agenet Tudor-like d 95.4 0.061 1.3E-06 35.3 5.8 37 101-139 2-39 (61)
10 PF06003 SMN: Survival motor n 88.0 1.5 3.2E-05 37.6 6.0 43 97-141 64-108 (264)
11 smart00333 TUDOR Tudor domain. 85.8 3.1 6.6E-05 26.4 5.3 37 101-140 2-39 (57)
12 PF11717 Tudor-knot: RNA bindi 83.5 0.96 2.1E-05 29.4 2.1 21 2-22 32-52 (55)
13 PLN00104 MYST -like histone ac 82.5 2.6 5.7E-05 38.9 5.3 60 97-160 49-116 (450)
14 PF11623 DUF3252: Protein of u 80.2 3.8 8.3E-05 26.7 3.9 38 102-140 2-39 (53)
15 PRK10737 FKBP-type peptidyl-pr 65.0 10 0.00023 31.2 4.1 34 101-138 89-122 (196)
16 PF12945 YcgR_2: Flagellar pro 60.0 28 0.00061 23.6 5.1 36 102-138 1-39 (87)
17 cd04508 TUDOR Tudor domains ar 59.6 36 0.00079 20.4 5.4 35 105-141 1-36 (48)
18 COG1047 SlpA FKBP-type peptidy 52.5 30 0.00065 28.0 4.7 34 101-138 90-123 (174)
19 PF04452 Methyltrans_RNA: RNA 41.6 69 0.0015 26.3 5.4 37 99-138 14-50 (225)
20 COG3472 Uncharacterized conser 40.0 4.5 9.7E-05 35.9 -2.0 19 151-169 215-233 (342)
21 PF07039 DUF1325: SGF29 tudor- 39.5 87 0.0019 23.9 5.3 42 97-140 67-111 (130)
22 PF15057 DUF4537: Domain of un 36.3 90 0.0019 23.5 4.9 40 97-137 51-96 (124)
23 PRK15095 FKBP-type peptidyl-pr 31.4 1.4E+02 0.0029 23.4 5.3 35 101-138 92-126 (156)
24 PRK04980 hypothetical protein; 31.2 1.2E+02 0.0027 22.4 4.7 30 98-129 28-58 (102)
25 PF10844 DUF2577: Protein of u 30.7 33 0.00072 24.9 1.6 30 107-139 7-36 (100)
26 smart00541 FYRN "FY-rich" doma 29.7 24 0.00053 21.9 0.6 14 153-166 11-24 (44)
27 PF12073 DUF3553: Protein of u 25.5 1.3E+02 0.0029 19.5 3.5 34 103-140 2-35 (52)
28 KOG4226|consensus 24.8 47 0.001 29.2 1.7 25 91-115 199-223 (379)
29 PF13567 DUF4131: Domain of un 24.3 64 0.0014 23.8 2.3 26 35-63 138-163 (176)
30 PRK11713 16S ribosomal RNA met 24.3 2E+02 0.0043 23.8 5.4 37 99-138 27-63 (234)
31 TIGR00046 RNA methyltransferas 24.0 2E+02 0.0044 23.8 5.4 37 99-138 29-65 (240)
32 PF07497 Rho_RNA_bind: Rho ter 23.9 92 0.002 21.8 2.8 34 96-129 37-72 (78)
33 smart00739 KOW KOW (Kyprides, 23.7 1.2E+02 0.0027 15.7 3.3 26 102-130 2-27 (28)
34 COG4583 Sarcosine oxidase gamm 21.2 28 0.00061 28.6 -0.3 47 119-165 99-146 (189)
35 KOG3026|consensus 20.9 1.7E+02 0.0037 25.1 4.3 43 97-141 86-130 (262)
36 PF05964 FYRN: F/Y-rich N-term 20.9 48 0.001 21.3 0.8 15 152-166 20-34 (54)
37 COG1545 Predicted nucleic-acid 20.3 66 0.0014 24.8 1.6 17 98-114 106-122 (140)
38 PF01796 DUF35: DUF35 OB-fold 20.0 70 0.0015 21.1 1.5 14 98-111 53-66 (68)
No 1
>KOG3766|consensus
Probab=100.00 E-value=4.2e-39 Score=291.60 Aligned_cols=161 Identities=37% Similarity=0.704 Sum_probs=146.0
Q ss_pred CceEEEEcCCCCCCcEEEeCCCCCcccCchhHhhCCccCCCCCCCCCCCCCCCCHHHHHHhhC--CCCCCCCCcccCCCc
Q psy15287 1 PRIRLHFDGYPDRFDFWVNCNHPDLYPCGWNANFHRRIYPPASTPNMRNTAWFSWGKYLHVTK--SMAAPPHCFTSSHSS 78 (186)
Q Consensus 1 ~r~~lhfdG~~~~~dfW~~~~S~~IhPvGw~~~~g~~L~pP~g~~~~~~~~~f~W~~YL~~~~--~~~aP~~~F~~~~~~ 78 (186)
.|++|+|||.++.+|||+|++||+|||+|||+++|+.|+||.+|.. .+.++|+.||+++- +..+|..+|.....
T Consensus 118 ~Rl~l~~~g~~~~~dfW~~~~sp~i~pvGw~~~~g~~l~pP~~~~~---~~~~s~~~~~~k~~~~~~~~p~~~~~~~~~- 193 (478)
T KOG3766|consen 118 GRLRLRFDGLDENYDFWLHALSPDIHPVGWCEKSGHKLQPPLGYRI---RNEYSWEQYLEKTLGQAELAPKRLFVREPS- 193 (478)
T ss_pred cEEEEEecCcccCCccceecCCccccccccccccCcccCCCccccc---cccccccchhhhcccccccCcccccccccc-
Confidence 3899999999999999999999999999999999999999999973 57899999999983 78888888866543
Q ss_pred ccccccCCCCCcccccCCCCCCCCCcccEEEeecCCCCCccEEEEEEEeeeCCe-EEEEecCCCCCCC-CCeEEeCCCCC
Q psy15287 79 KYCACATQPGSHCFTSSHMPPSVFKIGRKLEAIDKKGGSNLFHVATVRDVIGTR-LHIHIDSAGSSDR-MDYWTDIGSAY 156 (186)
Q Consensus 79 ~~~~~~~~~g~~~~~~~~~~~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~-l~v~~dg~~~d~~-~d~W~d~~S~~ 156 (186)
.....+.|++|||||+||+.| |..||||||.+|.+.+ +.|++|+| +.+ +|+||+.+|+.
T Consensus 194 ----------------~~~~~~~F~vgmkLEavd~~n-p~~IcvATV~~V~~~~~i~v~~d~~--~~~~~d~~~~~~s~~ 254 (478)
T KOG3766|consen 194 ----------------RDPPPSRFQVGMKLEAVDDLN-PSAICVATVVEVFDSREILVHFDGW--DKSELDYWCDHDSPK 254 (478)
T ss_pred ----------------cCCCCCcceeccEEEEeccCC-CcceeeeehheecccceEEEEeccC--CCcccceeEecCCCc
Confidence 135679999999999999999 9999999999999999 99999999 777 99999999999
Q ss_pred eeeeeceeccCCcccCCCCCCCCCCccc
Q psy15287 157 IRPVGWCRRNKVKLVPPASGKRVSPLFF 184 (186)
Q Consensus 157 I~PvGwc~~~g~~L~pP~~~~~~~~~~~ 184 (186)
|||||||..+|+.|+||+.|.+...+-|
T Consensus 255 I~Pv~~~~~~~~~L~ppk~~~~~~~~~~ 282 (478)
T KOG3766|consen 255 IFPVGWCCKNGDKLTPPKDYYEADNFKW 282 (478)
T ss_pred eeeeeEhhhcCcccCCCccccccccccc
Confidence 9999999999999999997776666554
No 2
>smart00561 MBT Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. These proteins are involved in transcriptional regulation.
Probab=100.00 E-value=3.3e-39 Score=236.75 Aligned_cols=95 Identities=45% Similarity=0.791 Sum_probs=90.9
Q ss_pred HHHHhhCCCCCCCCCcccCCCcccccccCCCCCcccccCCCCCCCCCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEE
Q psy15287 57 KYLHVTKSMAAPPHCFTSSHSSKYCACATQPGSHCFTSSHMPPSVFKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIH 136 (186)
Q Consensus 57 ~YL~~~~~~~aP~~~F~~~~~~~~~~~~~~~g~~~~~~~~~~~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~ 136 (186)
+||+++++.+||.++|++.. ....++|++||||||+|+++ +.+||||||++|+|+||+||
T Consensus 2 ~YL~~~~a~~aP~~~F~~~~-------------------~~~~~~F~vGmkLEavD~~~-~~~i~vAtV~~v~g~~l~v~ 61 (96)
T smart00561 2 DYLEETGARAAPVELFKQPV-------------------DSPPNGFKVGMKLEAVDPRN-PSLICVATVVEVKGYRLLLH 61 (96)
T ss_pred hhHHHcCCCcCCHHHhCCCC-------------------CCccCcccCCCEEEEECCCC-CceEEEEEEEEEECCEEEEE
Confidence 79999999999999999943 36799999999999999999 99999999999999999999
Q ss_pred ecCCCCCCCCCeEEeCCCCCeeeeeceeccCCcccCC
Q psy15287 137 IDSAGSSDRMDYWTDIGSAYIRPVGWCRRNKVKLVPP 173 (186)
Q Consensus 137 ~dg~~~d~~~d~W~d~~S~~I~PvGwc~~~g~~L~pP 173 (186)
|||| ++++||||+++|++|||||||++||++|+||
T Consensus 62 ~dg~--~~~~D~W~~~~S~~I~PvGwc~~~g~~L~pP 96 (96)
T smart00561 62 FDGW--DDKYDFWCDADSPDIHPVGWCEKNGHPLQPP 96 (96)
T ss_pred EccC--CCcCCEEEECCCCCcccCchHHhcCCcCCCC
Confidence 9999 8889999999999999999999999999998
No 3
>KOG3766|consensus
Probab=99.97 E-value=1.5e-31 Score=242.41 Aligned_cols=144 Identities=40% Similarity=0.774 Sum_probs=137.1
Q ss_pred c-eEEEEcCCCCC-CcEEEeCCCCCcccCchhHhhCCccCCCC-CCCCCCCCCCCCHHHHHHhhCCCCCCCCCcccCCCc
Q psy15287 2 R-IRLHFDGYPDR-FDFWVNCNHPDLYPCGWNANFHRRIYPPA-STPNMRNTAWFSWGKYLHVTKSMAAPPHCFTSSHSS 78 (186)
Q Consensus 2 r-~~lhfdG~~~~-~dfW~~~~S~~IhPvGw~~~~g~~L~pP~-g~~~~~~~~~f~W~~YL~~~~~~~aP~~~F~~~~~~ 78 (186)
| |+|+|||++.+ +|+||+.+|+.|||||||..||+.|+||+ +|. ...|.|.+|++++.+.+++...|....
T Consensus 230 ~~i~v~~d~~~~~~~d~~~~~~s~~I~Pv~~~~~~~~~L~ppk~~~~----~~~~~~~~~~e~~~~~~~~~~~~~p~~-- 303 (478)
T KOG3766|consen 230 REILVHFDGWDKSELDYWCDHDSPKIFPVGWCCKNGDKLTPPKDYYE----ADNFKWEKYLEETGASAAPSRAFNPRC-- 303 (478)
T ss_pred ceEEEEeccCCCcccceeEecCCCceeeeeEhhhcCcccCCCccccc----ccccccccccccccccccchhccCCCC--
Confidence 5 99999999998 99999999999999999999999999999 666 788999999999999999999999874
Q ss_pred ccccccCCCCCcccccCCCCCCCCCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEecCCCCCCCCCeEEeCCCCCee
Q psy15287 79 KYCACATQPGSHCFTSSHMPPSVFKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHIDSAGSSDRMDYWTDIGSAYIR 158 (186)
Q Consensus 79 ~~~~~~~~~g~~~~~~~~~~~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~dg~~~d~~~d~W~d~~S~~I~ 158 (186)
+.+.|++|||||++|.++ |.++|||||++++..++.||+||| +..+++|++.++++||
T Consensus 304 -------------------p~~~~k~~~k~e~~d~~~-p~~~~vatv~~~~~~~~~~h~d~~--~~~~~~~i~~d~~~~~ 361 (478)
T KOG3766|consen 304 -------------------PNHLFKVGMKLEAVDLRN-PRLICVATVEKVCKTPLIIHFDGW--PSEYDFWIDIDSPDIH 361 (478)
T ss_pred -------------------CCccccccceeeeccccC-CcccccccchhccccccccCCCCC--CcccceeeecCCCCCC
Confidence 479999999999999999 999999999999999999999999 7779999999999999
Q ss_pred eeeceeccCCcccCC
Q psy15287 159 PVGWCRRNKVKLVPP 173 (186)
Q Consensus 159 PvGwc~~~g~~L~pP 173 (186)
|+|||+..|+.|++|
T Consensus 362 p~g~~~~~g~~L~~~ 376 (478)
T KOG3766|consen 362 PVGWAELTGPYLQPP 376 (478)
T ss_pred ccceeccCCcccCCc
Confidence 999999999999999
No 4
>PF02820 MBT: mbt repeat; InterPro: IPR004092 The function of the malignant brain tumor (MBT) repeat is unknown, but is found in a number of nuclear proteins involved in transcriptional repression. The repeat contains a completely conserved glutamate at its amino terminus that may be important for function. The crystal structure of the two MBT repeats of human SCM-like 2 protein has been reported. Each repeat consists of an extended "arm" and a globular core. The arm of the first repeat packs against the core of the second repeat and vice versa. The structure of the core-interacting part of each arm consists of an N-terminal alpha-helix and a turn of 310 helix connected by a short beta-strand. The core consists of an Src homology 3-like five-stranded beta-barrel followed by a C-terminal alpha-helix and another short beta-strand. Each arm interacts with its partner core in a similar way, with the orientation of the N-terminal helix relative to the barrel varying slightly. There are also extensive interactions between the two barrels [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P0K_A 3F70_B 3CEY_A 2VYT_A 2BIV_A 1OI1_A 3OQ5_A 2RJE_B 2RJD_A 2RI3_A ....
Probab=99.96 E-value=1.6e-30 Score=181.54 Aligned_cols=72 Identities=42% Similarity=0.708 Sum_probs=67.1
Q ss_pred cEEEeecCCCCCccEEEEEEEeeeCCeEEEEecCCCCCCCCCeEEeCCCCCeeeeeceeccCCcccCCCCCCCCC
Q psy15287 106 RKLEAIDKKGGSNLFHVATVRDVIGTRLHIHIDSAGSSDRMDYWTDIGSAYIRPVGWCRRNKVKLVPPASGKRVS 180 (186)
Q Consensus 106 mkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~dg~~~d~~~d~W~d~~S~~I~PvGwc~~~g~~L~pP~~~~~~~ 180 (186)
|||||+|+.+ +..+|||||++|+|++|+|+|||| ++.+||||+++|++|||||||+++|++|+||++|..++
T Consensus 1 MkLEa~d~~~-~~~~~vAtV~~v~g~~l~v~~dg~--~~~~d~w~~~~S~~i~PvGw~~~~g~~L~pP~~~~~~~ 72 (73)
T PF02820_consen 1 MKLEAVDPRN-PSLICVATVVKVCGGRLLVRYDGW--DDDYDFWCHIDSPRIFPVGWCEKNGHPLQPPKGYRSKT 72 (73)
T ss_dssp EEEEEEETTE-CCEEEEEEEEEEETTEEEEEETTS--TGGGEEEEETTSTTEEETTHHHHHT-EEE-STTCSSTG
T ss_pred CeEEEECCCC-CCeEEEEEEEEEeCCEEEEEEcCC--CCCccEEEECCCCCeeecchHHhcCCcccCCCCCccCC
Confidence 9999999999 999999999999999999999999 77779999999999999999999999999999998764
No 5
>PF02820 MBT: mbt repeat; InterPro: IPR004092 The function of the malignant brain tumor (MBT) repeat is unknown, but is found in a number of nuclear proteins involved in transcriptional repression. The repeat contains a completely conserved glutamate at its amino terminus that may be important for function. The crystal structure of the two MBT repeats of human SCM-like 2 protein has been reported. Each repeat consists of an extended "arm" and a globular core. The arm of the first repeat packs against the core of the second repeat and vice versa. The structure of the core-interacting part of each arm consists of an N-terminal alpha-helix and a turn of 310 helix connected by a short beta-strand. The core consists of an Src homology 3-like five-stranded beta-barrel followed by a C-terminal alpha-helix and another short beta-strand. Each arm interacts with its partner core in a similar way, with the orientation of the N-terminal helix relative to the barrel varying slightly. There are also extensive interactions between the two barrels [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P0K_A 3F70_B 3CEY_A 2VYT_A 2BIV_A 1OI1_A 3OQ5_A 2RJE_B 2RJD_A 2RI3_A ....
Probab=99.75 E-value=4.6e-19 Score=123.63 Aligned_cols=45 Identities=29% Similarity=0.849 Sum_probs=41.7
Q ss_pred CceEEEEcCCCCCCcEEEeCCCCCcccCchhHhhCCccCCCCCCC
Q psy15287 1 PRIRLHFDGYPDRFDFWVNCNHPDLYPCGWNANFHRRIYPPASTP 45 (186)
Q Consensus 1 ~r~~lhfdG~~~~~dfW~~~~S~~IhPvGw~~~~g~~L~pP~g~~ 45 (186)
.||+|||||+++.+|||||++|++|||||||++||+.|+||+||.
T Consensus 25 ~~l~v~~dg~~~~~d~w~~~~S~~i~PvGw~~~~g~~L~pP~~~~ 69 (73)
T PF02820_consen 25 GRLLVRYDGWDDDYDFWCHIDSPRIFPVGWCEKNGHPLQPPKGYR 69 (73)
T ss_dssp TEEEEEETTSTGGGEEEEETTSTTEEETTHHHHHT-EEE-STTCS
T ss_pred CEEEEEEcCCCCCccEEEECCCCCeeecchHHhcCCcccCCCCCc
Confidence 479999999999999999999999999999999999999999998
No 6
>smart00561 MBT Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. These proteins are involved in transcriptional regulation.
Probab=99.71 E-value=7.8e-18 Score=123.48 Aligned_cols=41 Identities=41% Similarity=1.046 Sum_probs=39.9
Q ss_pred CceEEEEcCCCCCCcEEEeCCCCCcccCchhHhhCCccCCC
Q psy15287 1 PRIRLHFDGYPDRFDFWVNCNHPDLYPCGWNANFHRRIYPP 41 (186)
Q Consensus 1 ~r~~lhfdG~~~~~dfW~~~~S~~IhPvGw~~~~g~~L~pP 41 (186)
.||+||||||++++||||+++|++|||||||++||+.|+||
T Consensus 56 ~~l~v~~dg~~~~~D~W~~~~S~~I~PvGwc~~~g~~L~pP 96 (96)
T smart00561 56 YRLLLHFDGWDDKYDFWCDADSPDIHPVGWCEKNGHPLQPP 96 (96)
T ss_pred CEEEEEEccCCCcCCEEEECCCCCcccCchHHhcCCcCCCC
Confidence 48999999999999999999999999999999999999998
No 7
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=97.77 E-value=8.3e-05 Score=48.89 Aligned_cols=48 Identities=21% Similarity=0.365 Sum_probs=38.8
Q ss_pred CCcccEEEeecCCCCCccEEEEEEEeeeCC----eEEEEecCCCCCCCCCeEEeCCC
Q psy15287 102 FKIGRKLEAIDKKGGSNLFHVATVRDVIGT----RLHIHIDSAGSSDRMDYWTDIGS 154 (186)
Q Consensus 102 F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~----~l~v~~dg~~~d~~~d~W~d~~S 154 (186)
|++|.++-+... ....+.|+|+++... ...|||.|| +.+.|.|++.+.
T Consensus 1 ~~vG~~v~~~~~---~~~~y~A~I~~~r~~~~~~~YyVHY~g~--nkR~DeWV~~~~ 52 (55)
T PF11717_consen 1 FEVGEKVLCKYK---DGQWYEAKILDIREKNGEPEYYVHYQGW--NKRLDEWVPESR 52 (55)
T ss_dssp --TTEEEEEEET---TTEEEEEEEEEEEECTTCEEEEEEETTS--TGCC-EEEETTT
T ss_pred CCcCCEEEEEEC---CCcEEEEEEEEEEecCCCEEEEEEcCCC--CCCceeeecHHH
Confidence 689999999993 348999999999733 599999999 899999998765
No 8
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=96.37 E-value=0.013 Score=39.82 Aligned_cols=39 Identities=26% Similarity=0.386 Sum_probs=28.9
Q ss_pred CCcccEEEeecCCCC-CccEEEEEEEeeeCC-eEEEEecCC
Q psy15287 102 FKIGRKLEAIDKKGG-SNLFHVATVRDVIGT-RLHIHIDSA 140 (186)
Q Consensus 102 F~vGmkLEa~d~~~~-~~~i~vAtV~~v~g~-~l~v~~dg~ 140 (186)
|++|+++|+.-..++ ...+..|+|++..+. ++.|.|+..
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~~~~V~Y~~~ 41 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGDDKYLVEYDDL 41 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT-EEEEEETT-
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCCcEEEEEECCc
Confidence 789999999887653 567999999999999 999999755
No 9
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=95.43 E-value=0.061 Score=35.33 Aligned_cols=37 Identities=24% Similarity=0.406 Sum_probs=32.8
Q ss_pred CCCcccEEEeecCCCCCccEEEEEEEeeeC-CeEEEEecC
Q psy15287 101 VFKIGRKLEAIDKKGGSNLFHVATVRDVIG-TRLHIHIDS 139 (186)
Q Consensus 101 ~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g-~~l~v~~dg 139 (186)
.|++|.++||....+ ...+.|+|+++.+ .+..|.|++
T Consensus 2 ~~~~G~~Ve~~~~~~--~~W~~a~V~~~~~~~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKEE--DSWWEAVVTKVLGDGKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECCC--CEEEEEEEEEECCCCEEEEEECC
Confidence 589999999998754 4799999999998 789999987
No 10
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=88.00 E-value=1.5 Score=37.63 Aligned_cols=43 Identities=19% Similarity=0.264 Sum_probs=31.7
Q ss_pred CCCCCCCcccEEEeecCCCCCccEEEEEEEeeeC--CeEEEEecCCC
Q psy15287 97 MPPSVFKIGRKLEAIDKKGGSNLFHVATVRDVIG--TRLHIHIDSAG 141 (186)
Q Consensus 97 ~~~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g--~~l~v~~dg~~ 141 (186)
.....++||.++-|+=-.+ ..++.|+|.+|.. ....|.|+|++
T Consensus 64 ~~~~~WkvGd~C~A~~s~D--g~~Y~A~I~~i~~~~~~~~V~f~gYg 108 (264)
T PF06003_consen 64 APNKKWKVGDKCMAVYSED--GQYYPATIESIDEEDGTCVVVFTGYG 108 (264)
T ss_dssp TTTT---TT-EEEEE-TTT--SSEEEEEEEEEETTTTEEEEEETTTT
T ss_pred CcccCCCCCCEEEEEECCC--CCEEEEEEEEEcCCCCEEEEEEcccC
Confidence 4567899999999996544 4799999999995 46899999994
No 11
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=85.80 E-value=3.1 Score=26.39 Aligned_cols=37 Identities=22% Similarity=0.218 Sum_probs=31.8
Q ss_pred CCCcccEEEeecCCCCCccEEEEEEEeeeC-CeEEEEecCC
Q psy15287 101 VFKIGRKLEAIDKKGGSNLFHVATVRDVIG-TRLHIHIDSA 140 (186)
Q Consensus 101 ~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g-~~l~v~~dg~ 140 (186)
.|++|+.+.|.. .+ ..+.-|+|+++.+ ..+.|.|..+
T Consensus 2 ~~~~G~~~~a~~-~d--~~wyra~I~~~~~~~~~~V~f~D~ 39 (57)
T smart00333 2 TFKVGDKVAARW-ED--GEWYRARIIKVDGEQLYEVFFIDY 39 (57)
T ss_pred CCCCCCEEEEEe-CC--CCEEEEEEEEECCCCEEEEEEECC
Confidence 478999999998 44 4799999999998 7899999865
No 12
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=83.47 E-value=0.96 Score=29.35 Aligned_cols=21 Identities=29% Similarity=0.710 Sum_probs=17.2
Q ss_pred ceEEEEcCCCCCCcEEEeCCC
Q psy15287 2 RIRLHFDGYPDRFDFWVNCNH 22 (186)
Q Consensus 2 r~~lhfdG~~~~~dfW~~~~S 22 (186)
..+|||.||+...|=|+..+.
T Consensus 32 ~YyVHY~g~nkR~DeWV~~~~ 52 (55)
T PF11717_consen 32 EYYVHYQGWNKRLDEWVPESR 52 (55)
T ss_dssp EEEEEETTSTGCC-EEEETTT
T ss_pred EEEEEcCCCCCCceeeecHHH
Confidence 368999999999999998764
No 13
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=82.53 E-value=2.6 Score=38.88 Aligned_cols=60 Identities=13% Similarity=0.189 Sum_probs=46.3
Q ss_pred CCCCCCCcccEEEeecCCCCCccEEEEEEEeeeC--------CeEEEEecCCCCCCCCCeEEeCCCCCeeee
Q psy15287 97 MPPSVFKIGRKLEAIDKKGGSNLFHVATVRDVIG--------TRLHIHIDSAGSSDRMDYWTDIGSAYIRPV 160 (186)
Q Consensus 97 ~~~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g--------~~l~v~~dg~~~d~~~d~W~d~~S~~I~Pv 160 (186)
...-.|++|.||=|..... . .++.|+|+++.. ...-|||.|| +.+.|.|++.+--++-.+
T Consensus 49 ~~~~~~~VGekVla~~~~D-g-~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~--nrRlDEWV~~~rLdls~~ 116 (450)
T PLN00104 49 GVMLPLEVGTRVMCRWRFD-G-KYHPVKVIERRRGGSGGPNDYEYYVHYTEF--NRRLDEWVKLEQLDLDTV 116 (450)
T ss_pred CccceeccCCEEEEEECCC-C-CEEEEEEEEEeccCCCCCCCceEEEEEecC--CccHhhccCHhhcccccc
Confidence 4456799999998887644 3 677899999984 3589999999 899999987665554333
No 14
>PF11623 DUF3252: Protein of unknown function (DUF3252); InterPro: IPR021659 This family of proteins has no known function. Some members are annotated as Ssl0352 however this cannot be confirmed. Currently there is no known function. ; PDB: 3C4S_B 2JZ2_A.
Probab=80.21 E-value=3.8 Score=26.69 Aligned_cols=38 Identities=8% Similarity=0.029 Sum_probs=30.2
Q ss_pred CCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEecCC
Q psy15287 102 FKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHIDSA 140 (186)
Q Consensus 102 F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~dg~ 140 (186)
+-+||-+-+.|+.+ +..-.-..|++|.++++-|.|+|-
T Consensus 2 ilPG~~V~V~n~~~-~Y~~y~G~VQRvsdgkaaVLFEGG 39 (53)
T PF11623_consen 2 ILPGSTVRVKNPND-IYYGYEGFVQRVSDGKAAVLFEGG 39 (53)
T ss_dssp --TT-EEEE--TTS-TTTT-EEEEEEEETTEEEEEEEET
T ss_pred ccCCCEEEEeCCCC-ccchheEEEEEeeCCeEEEEecCC
Confidence 45899999999999 999999999999999999999984
No 15
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=65.02 E-value=10 Score=31.15 Aligned_cols=34 Identities=12% Similarity=0.212 Sum_probs=27.8
Q ss_pred CCCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEec
Q psy15287 101 VFKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHID 138 (186)
Q Consensus 101 ~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~d 138 (186)
.+++||++++..... + .+++|++|.+..|.|-|.
T Consensus 89 ~l~~G~~~~~~~~~G-~---~~~~V~ev~~d~V~vD~N 122 (196)
T PRK10737 89 ELQVGMRFLAETDQG-P---VPVEITAVEDDHVVVDGN 122 (196)
T ss_pred CCCCCCEEEEeCCCC-c---EEEEEEEEcCCEEEEECC
Confidence 378999999976555 3 588999999999888774
No 16
>PF12945 YcgR_2: Flagellar protein YcgR; PDB: 2RDE_B 1YLN_A 3KYG_A.
Probab=60.05 E-value=28 Score=23.58 Aligned_cols=36 Identities=25% Similarity=0.282 Sum_probs=23.5
Q ss_pred CCcccEEEe--ecCCCCCccEEEEEEEeeeCC-eEEEEec
Q psy15287 102 FKIGRKLEA--IDKKGGSNLFHVATVRDVIGT-RLHIHID 138 (186)
Q Consensus 102 F~vGmkLEa--~d~~~~~~~i~vAtV~~v~g~-~l~v~~d 138 (186)
.++||+||+ .++.+ ....+.++|+.+..+ .+.|..-
T Consensus 1 L~iG~~i~i~i~~~~~-~~~~y~S~v~g~~~~~~l~i~~P 39 (87)
T PF12945_consen 1 LKIGQKIEIEITNPTG-EKGRYKSRVIGIDDDRYLIISMP 39 (87)
T ss_dssp --TT-EEEEEEE-TTS--EEEEEEEEEEEETTTEEEEE--
T ss_pred CCCCCEEEEEEECCCC-ceEEEEEEEEEECCCCEEEEEcC
Confidence 368999987 35554 456899999999987 7888864
No 17
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=59.58 E-value=36 Score=20.44 Aligned_cols=35 Identities=11% Similarity=0.169 Sum_probs=26.3
Q ss_pred ccEEEeecCCCCCccEEEEEEEeee-CCeEEEEecCCC
Q psy15287 105 GRKLEAIDKKGGSNLFHVATVRDVI-GTRLHIHIDSAG 141 (186)
Q Consensus 105 GmkLEa~d~~~~~~~i~vAtV~~v~-g~~l~v~~dg~~ 141 (186)
|+.+-|.-..+ ..++-|+|+++. +..+.|.|..++
T Consensus 1 G~~c~a~~~~d--~~wyra~V~~~~~~~~~~V~f~DyG 36 (48)
T cd04508 1 GDLCLAKYSDD--GKWYRAKITSILSDGKVEVFFVDYG 36 (48)
T ss_pred CCEEEEEECCC--CeEEEEEEEEECCCCcEEEEEEcCC
Confidence 45555655542 379999999999 778999998763
No 18
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=52.46 E-value=30 Score=28.03 Aligned_cols=34 Identities=24% Similarity=0.406 Sum_probs=29.2
Q ss_pred CCCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEec
Q psy15287 101 VFKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHID 138 (186)
Q Consensus 101 ~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~d 138 (186)
..++||.+++-.... -.+++|++|.+.++.|-|.
T Consensus 90 ~~~vGm~~~~~~~~~----~~~~~V~~V~~~~V~VDfN 123 (174)
T COG1047 90 ELEVGMEVEAEGGDG----EIPGVVTEVSGDRVTVDFN 123 (174)
T ss_pred CCCCCcEEEEcCCCc----eeeEEEEEEcCCEEEEeCC
Confidence 578999999987764 5689999999999999874
No 19
>PF04452 Methyltrans_RNA: RNA methyltransferase; InterPro: IPR006700 Methyltransferases (Mtases) are responsible for the transfer of methyl groups between two molecules. The transfer of the methyl group from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms. The reaction is catalyzed by Mtases and modifies DNA, RNA, proteins or small molecules, such as catechol, for regulatory purposes. Proteins in this entry belong to the RsmE family of Mtases, this is supported by crystal structural studying, which show a close structural homology to other known methyltransferases []. This entry contains RsmE of Escherichia coli, which specifically methylates the uridine in position 1498 of 16S rRNA in the fully assembled 30S ribosomal subunit [, ].; GO: 0008168 methyltransferase activity, 0006364 rRNA processing; PDB: 1NXZ_B 1VHY_B 2EGW_A 2EGV_A 2Z0Y_A 2CX8_A 3KW2_A 1VHK_D 1Z85_B 1V6Z_A ....
Probab=41.56 E-value=69 Score=26.29 Aligned_cols=37 Identities=19% Similarity=0.170 Sum_probs=28.8
Q ss_pred CCCCCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEec
Q psy15287 99 PSVFKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHID 138 (186)
Q Consensus 99 ~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~d 138 (186)
--+.++|..+++.|... ..+.|+|+++....+.+...
T Consensus 14 VlR~k~Gd~i~v~dg~g---~~~~a~i~~i~~~~~~~~i~ 50 (225)
T PF04452_consen 14 VLRLKEGDSIEVFDGDG---GEYRAEITEISKKSATLRIL 50 (225)
T ss_dssp TST--TT-EEEEEESSS---EEEEEEEEEEESSEEEEEEE
T ss_pred hcCCCCCCEEEEEECCC---CEEEEEEEECcCcEEEEEEe
Confidence 44679999999999666 89999999999998877765
No 20
>COG3472 Uncharacterized conserved protein [Function unknown]
Probab=39.99 E-value=4.5 Score=35.91 Aligned_cols=19 Identities=21% Similarity=0.366 Sum_probs=17.7
Q ss_pred eCCCCCeeeeeceeccCCc
Q psy15287 151 DIGSAYIRPVGWCRRNKVK 169 (186)
Q Consensus 151 d~~S~~I~PvGwc~~~g~~ 169 (186)
+++++-|||.+||++.|+.
T Consensus 215 ~l~~HHIFP~~~lr~~GI~ 233 (342)
T COG3472 215 DLNKHHIFPNAYLRKLGIS 233 (342)
T ss_pred cchhcccCcHHHHHhcCCC
Confidence 5899999999999999987
No 21
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=39.53 E-value=87 Score=23.90 Aligned_cols=42 Identities=21% Similarity=0.233 Sum_probs=30.6
Q ss_pred CCCCCCCcccEEEeecCCCCCccEEEEEEEee---eCCeEEEEecCC
Q psy15287 97 MPPSVFKIGRKLEAIDKKGGSNLFHVATVRDV---IGTRLHIHIDSA 140 (186)
Q Consensus 97 ~~~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v---~g~~l~v~~dg~ 140 (186)
.....|..|.++=|+=|.. . .++.|+|... ..+..+|+|+|-
T Consensus 67 ~~~~~f~~g~~VLAlYP~T-T-~FY~A~V~~~p~~~~~~y~l~Fedd 111 (130)
T PF07039_consen 67 DPLAEFPKGTKVLALYPDT-T-CFYPATVVSPPKKKSGEYKLKFEDD 111 (130)
T ss_dssp -GGGS--TT-EEEEE-TTS-S-EEEEEEEEEE-SSTTS-EEEEECTT
T ss_pred CchhhCCCCCEEEEECCCC-c-eEEEEEEEeCCCCCCCcEEEEEeCC
Confidence 3567799999999998886 4 8999999999 466799999975
No 22
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=36.33 E-value=90 Score=23.53 Aligned_cols=40 Identities=13% Similarity=0.074 Sum_probs=33.2
Q ss_pred CCCCCCCcccEEEeecCCCCCccEEEEEEEe------eeCCeEEEEe
Q psy15287 97 MPPSVFKIGRKLEAIDKKGGSNLFHVATVRD------VIGTRLHIHI 137 (186)
Q Consensus 97 ~~~~~F~vGmkLEa~d~~~~~~~i~vAtV~~------v~g~~l~v~~ 137 (186)
...+.+++|.++=|..... ...+.+|+|+. ..+..+.|+|
T Consensus 51 ~~~~~L~~GD~VLA~~~~~-~~~Y~Pg~V~~~~~~~~~~~~~~~V~f 96 (124)
T PF15057_consen 51 AMRHSLQVGDKVLAPWEPD-DCRYGPGTVIAGPERRASEDKEYTVRF 96 (124)
T ss_pred cccCcCCCCCEEEEecCcC-CCEEeCEEEEECccccccCCceEEEEE
Confidence 3478899999999998777 77899999994 4566788887
No 23
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=31.43 E-value=1.4e+02 Score=23.40 Aligned_cols=35 Identities=14% Similarity=0.227 Sum_probs=28.7
Q ss_pred CCCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEec
Q psy15287 101 VFKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHID 138 (186)
Q Consensus 101 ~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~d 138 (186)
..++||.+++.++.. .-.+++|++|.+.++.|-|.
T Consensus 92 ~~~~G~~~~~~~~~G---~~~~~~V~~i~~~~v~vD~N 126 (156)
T PRK15095 92 EPEIGAIMLFTAMDG---SEMPGVIREINGDSITVDFN 126 (156)
T ss_pred CCCCCCEEEEECCCC---CEEEEEEEEEcCCEEEEECC
Confidence 468999999877554 45789999999999999874
No 24
>PRK04980 hypothetical protein; Provisional
Probab=31.25 E-value=1.2e+02 Score=22.37 Aligned_cols=30 Identities=27% Similarity=0.245 Sum_probs=24.2
Q ss_pred CCCCCCcccEEEe-ecCCCCCccEEEEEEEeee
Q psy15287 98 PPSVFKIGRKLEA-IDKKGGSNLFHVATVRDVI 129 (186)
Q Consensus 98 ~~~~F~vGmkLEa-~d~~~~~~~i~vAtV~~v~ 129 (186)
....+++|+.+++ .+-.+ ..+|++.|..|.
T Consensus 28 se~~~~~G~~~~V~~~e~g--~~~c~ieI~sV~ 58 (102)
T PRK04980 28 SESHFKPGDVLRVGTFEDD--RYFCTIEVLSVS 58 (102)
T ss_pred cccCCCCCCEEEEEECCCC--cEEEEEEEEEEE
Confidence 4667999999999 55554 579999999886
No 25
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=30.69 E-value=33 Score=24.86 Aligned_cols=30 Identities=30% Similarity=0.304 Sum_probs=24.6
Q ss_pred EEEeecCCCCCccEEEEEEEeeeCCeEEEEecC
Q psy15287 107 KLEAIDKKGGSNLFHVATVRDVIGTRLHIHIDS 139 (186)
Q Consensus 107 kLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~dg 139 (186)
..++++..+ |..++.++|+++.- |.|++++
T Consensus 7 a~~~~~~~~-p~~i~~G~V~s~~P--L~I~i~~ 36 (100)
T PF10844_consen 7 AEEAVEASN-PVDIVIGTVVSVPP--LKIKIDQ 36 (100)
T ss_pred HHHHHhcCC-CceeEEEEEEeccc--EEEEECC
Confidence 456777788 88899999999987 8888876
No 26
>smart00541 FYRN "FY-rich" domain, N-terminal region. is sometimes closely juxtaposed with the C-terminal region (FYRC), but sometimes is far distant. Unknown function, but occurs frequently in chromatin-associated proteins.
Probab=29.70 E-value=24 Score=21.92 Aligned_cols=14 Identities=29% Similarity=0.423 Sum_probs=10.6
Q ss_pred CCCCeeeeeceecc
Q psy15287 153 GSAYIRPVGWCRRN 166 (186)
Q Consensus 153 ~S~~I~PvGwc~~~ 166 (186)
++..|+|+|++...
T Consensus 11 ~~~~IyP~Gy~s~R 24 (44)
T smart00541 11 SEDAIFPVGYKSTR 24 (44)
T ss_pred cCCEEecCCEEEEE
Confidence 46789999996543
No 27
>PF12073 DUF3553: Protein of unknown function (DUF3553); InterPro: IPR021938 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 60 amino acids in length. This protein has two conserved sequence motifs: GQVQS and TVNF.
Probab=25.45 E-value=1.3e+02 Score=19.54 Aligned_cols=34 Identities=18% Similarity=0.333 Sum_probs=25.2
Q ss_pred CcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEecCC
Q psy15287 103 KIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHIDSA 140 (186)
Q Consensus 103 ~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~dg~ 140 (186)
++||.+- +|.. | -+=+..|++..|+|+.|.|..-
T Consensus 2 ~pG~~Vr--HP~~-p-dWG~GqVqS~i~~rvTVnF~~a 35 (52)
T PF12073_consen 2 EPGMLVR--HPDH-P-DWGIGQVQSNIGGRVTVNFEHA 35 (52)
T ss_pred CCCCEEe--CCCC-C-CCcceEEEEecCCeEEEeeccC
Confidence 5677654 4444 4 3778899999999999999743
No 28
>KOG4226|consensus
Probab=24.80 E-value=47 Score=29.18 Aligned_cols=25 Identities=36% Similarity=0.525 Sum_probs=20.0
Q ss_pred ccccCCCCCCCCCcccEEEeecCCC
Q psy15287 91 CFTSSHMPPSVFKIGRKLEAIDKKG 115 (186)
Q Consensus 91 ~~~~~~~~~~~F~vGmkLEa~d~~~ 115 (186)
+|+++....-.|+.|.+||++|.-+
T Consensus 199 sFsssndeELsFeKGerleivd~Pe 223 (379)
T KOG4226|consen 199 SFSSSNDEELSFEKGERLEIVDKPE 223 (379)
T ss_pred cccCCChhhcccccCceeEeccCCC
Confidence 4556677778899999999999743
No 29
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=24.34 E-value=64 Score=23.78 Aligned_cols=26 Identities=23% Similarity=0.565 Sum_probs=21.1
Q ss_pred CCccCCCCCCCCCCCCCCCCHHHHHHhhC
Q psy15287 35 HRRIYPPASTPNMRNTAWFSWGKYLHVTK 63 (186)
Q Consensus 35 g~~L~pP~g~~~~~~~~~f~W~~YL~~~~ 63 (186)
.-+|.||.+.. +...||..+|+...+
T Consensus 138 ~g~l~~~~~~~---Npg~FD~~~yl~~~g 163 (176)
T PF13567_consen 138 RGKLKPPSGPT---NPGGFDYQRYLRSKG 163 (176)
T ss_pred EEEEecCCCCC---CCCCcCHHHHHHHCC
Confidence 34789999887 478999999998753
No 30
>PRK11713 16S ribosomal RNA methyltransferase RsmE; Provisional
Probab=24.28 E-value=2e+02 Score=23.75 Aligned_cols=37 Identities=19% Similarity=0.196 Sum_probs=29.4
Q ss_pred CCCCCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEec
Q psy15287 99 PSVFKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHID 138 (186)
Q Consensus 99 ~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~d 138 (186)
--+.++|..+++.|... ..+-|+|+++....+.+...
T Consensus 27 VlR~~~Gd~i~v~~g~g---~~~~~~i~~i~~~~~~~~i~ 63 (234)
T PRK11713 27 VLRLKEGDELRLFDGDG---GEYLAEITEIGKKEVELEIL 63 (234)
T ss_pred hccCCCCCEEEEEeCCC---CEEEEEEEEecCcEEEEEEE
Confidence 44688999999999876 68999999998776655543
No 31
>TIGR00046 RNA methyltransferase, RsmE family. Members of this protein family, previously called conserved hypothetical protein TIGR00046, include the YggJ protein of E. coli, which has now been shown to methylate U1498 in 16S rRNA.
Probab=24.02 E-value=2e+02 Score=23.84 Aligned_cols=37 Identities=16% Similarity=0.248 Sum_probs=29.8
Q ss_pred CCCCCcccEEEeecCCCCCccEEEEEEEeeeCCeEEEEec
Q psy15287 99 PSVFKIGRKLEAIDKKGGSNLFHVATVRDVIGTRLHIHID 138 (186)
Q Consensus 99 ~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g~~l~v~~d 138 (186)
-.+.++|..+++.|... ..+-|+|+++....+.+.+.
T Consensus 29 VlR~~~Gd~v~v~~g~g---~~~~a~i~~~~~~~~~~~i~ 65 (240)
T TIGR00046 29 VLRLKKGDKLKLLDGDG---FIYHCEIKKISKKFVKCELL 65 (240)
T ss_pred cccCCCCCEEEEEeCCC---CEEEEEEEEEcCCeEEEEEE
Confidence 45689999999999866 68889999988877665553
No 32
>PF07497 Rho_RNA_bind: Rho termination factor, RNA-binding domain; InterPro: IPR011113 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers [].; GO: 0003723 RNA binding, 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=23.92 E-value=92 Score=21.84 Aligned_cols=34 Identities=18% Similarity=0.253 Sum_probs=18.8
Q ss_pred CCCCCCCCcccEEEeec--CCCCCccEEEEEEEeee
Q psy15287 96 HMPPSVFKIGRKLEAID--KKGGSNLFHVATVRDVI 129 (186)
Q Consensus 96 ~~~~~~F~vGmkLEa~d--~~~~~~~i~vAtV~~v~ 129 (186)
.....+++.|..++..- ++++-...-+..|..|-
T Consensus 37 qIrrf~LR~GD~V~G~vr~p~~~ek~~aL~~V~~VN 72 (78)
T PF07497_consen 37 QIRRFGLRTGDLVEGQVRPPREGEKYFALLRVESVN 72 (78)
T ss_dssp CCCCTT--TTEEEEEEEE--STTSSSEEECEECEET
T ss_pred HHHHcCCCCCCEEEEEEeCCCCCCcceeeEEEEeEC
Confidence 47889999999999543 33323334455555443
No 33
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=23.68 E-value=1.2e+02 Score=15.73 Aligned_cols=26 Identities=27% Similarity=0.312 Sum_probs=18.4
Q ss_pred CCcccEEEeecCCCCCccEEEEEEEeeeC
Q psy15287 102 FKIGRKLEAIDKKGGSNLFHVATVRDVIG 130 (186)
Q Consensus 102 F~vGmkLEa~d~~~~~~~i~vAtV~~v~g 130 (186)
|++|.+++++.-.. .=.+|+|.++.+
T Consensus 2 ~~~G~~V~I~~G~~---~g~~g~i~~i~~ 27 (28)
T smart00739 2 FEVGDTVRVIAGPF---KGKVGKVLEVDG 27 (28)
T ss_pred CCCCCEEEEeECCC---CCcEEEEEEEcC
Confidence 67899999988544 334777777654
No 34
>COG4583 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]
Probab=21.16 E-value=28 Score=28.57 Aligned_cols=47 Identities=26% Similarity=0.205 Sum_probs=31.7
Q ss_pred cEEEEEEEeeeCCeEEEEecCCCCCCCCCeEEeCC-CCCeeeeeceec
Q psy15287 119 LFHVATVRDVIGTRLHIHIDSAGSSDRMDYWTDIG-SAYIRPVGWCRR 165 (186)
Q Consensus 119 ~i~vAtV~~v~g~~l~v~~dg~~~d~~~d~W~d~~-S~~I~PvGwc~~ 165 (186)
+.-.|+++++.++++.|+.+|-....-..-=|.+| |+..||||=|..
T Consensus 99 ~~~~as~VDvShg~t~I~IsG~~Ae~~L~kg~~~DL~~~~FpvG~~a~ 146 (189)
T COG4583 99 LEALASAVDVSHGRTAIRISGPKAEAVLAKGCALDLSLEAFPVGAAAR 146 (189)
T ss_pred ccccceeeeccCCeEEEEecCHhHHHHHhcCCccccChhhCCCcccee
Confidence 44556999999999999999852111011123344 778999998865
No 35
>KOG3026|consensus
Probab=20.91 E-value=1.7e+02 Score=25.07 Aligned_cols=43 Identities=21% Similarity=0.300 Sum_probs=36.4
Q ss_pred CCCCCCCcccEEEeecCCCCCccEEEEEEEeeeC--CeEEEEecCCC
Q psy15287 97 MPPSVFKIGRKLEAIDKKGGSNLFHVATVRDVIG--TRLHIHIDSAG 141 (186)
Q Consensus 97 ~~~~~F~vGmkLEa~d~~~~~~~i~vAtV~~v~g--~~l~v~~dg~~ 141 (186)
...-+|++|.|+-|+-... + .+.-|||..+.. ..+.|.|+++.
T Consensus 86 i~a~~w~vg~K~~A~~~dd-g-~~y~AtIe~ita~~~~~ai~f~s~~ 130 (262)
T KOG3026|consen 86 ITAVGWKVGDKVQAVFSDD-G-QIYDATIEHITAMEGTVAIIFASYG 130 (262)
T ss_pred chhcccccCCEEEEeecCC-C-ceEEeehhhccCCCCceeEEEeecc
Confidence 3344899999999999987 5 699999999997 78999998873
No 36
>PF05964 FYRN: F/Y-rich N-terminus; InterPro: IPR003888 The "FY-rich" domain N-terminal region is sometimes closely juxtaposed with the C-terminal region (IPR003889 from INTERPRO), but sometimes is far distant. It is of unknown function, but occurs frequently in chromatin-associated proteins like trithorax and its homologues.; GO: 0005634 nucleus; PDB: 2WZO_A.
Probab=20.90 E-value=48 Score=21.27 Aligned_cols=15 Identities=33% Similarity=0.592 Sum_probs=7.9
Q ss_pred CCCCCeeeeeceecc
Q psy15287 152 IGSAYIRPVGWCRRN 166 (186)
Q Consensus 152 ~~S~~I~PvGwc~~~ 166 (186)
-+...|+|+|++...
T Consensus 20 h~~~~IyP~Gy~s~R 34 (54)
T PF05964_consen 20 HSERYIYPVGYKSSR 34 (54)
T ss_dssp B-SS-B--EEEEEEE
T ss_pred cCCCEEeeCCEEEEE
Confidence 356789999996653
No 37
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=20.33 E-value=66 Score=24.80 Aligned_cols=17 Identities=41% Similarity=0.593 Sum_probs=13.8
Q ss_pred CCCCCCcccEEEeecCC
Q psy15287 98 PPSVFKIGRKLEAIDKK 114 (186)
Q Consensus 98 ~~~~F~vGmkLEa~d~~ 114 (186)
.....++|||+|++=..
T Consensus 106 ~p~~v~iGm~V~~v~~~ 122 (140)
T COG1545 106 DPDDVEIGMKVEAVFRK 122 (140)
T ss_pred CcccccCCCEEEEEEEE
Confidence 36789999999997654
No 38
>PF01796 DUF35: DUF35 OB-fold domain; InterPro: IPR002878 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is approximately 70 amino acids long. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain and a C-terminal OB fold domain represented in this entry. OB-folds are frequently found to bind nucleic acids suggesting this domain might bind to DNA or RNA.
Probab=20.03 E-value=70 Score=21.14 Aligned_cols=14 Identities=21% Similarity=0.617 Sum_probs=11.1
Q ss_pred CCCCCCcccEEEee
Q psy15287 98 PPSVFKIGRKLEAI 111 (186)
Q Consensus 98 ~~~~F~vGmkLEa~ 111 (186)
....+++||++|++
T Consensus 53 ~~~~l~iG~~V~~v 66 (68)
T PF01796_consen 53 DPDELRIGMRVRLV 66 (68)
T ss_pred CcccCCCCCEEEEE
Confidence 45568899999985
Done!