Query psy6234
Match_columns 260
No_of_seqs 154 out of 544
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 21:12:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6234.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6234hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3766|consensus 100.0 4.4E-56 9.4E-61 420.3 18.9 236 6-259 88-330 (478)
2 KOG3766|consensus 100.0 1.3E-42 2.9E-47 328.6 14.5 214 35-260 1-224 (478)
3 smart00561 MBT Present in Dros 100.0 1.1E-35 2.4E-40 226.5 10.2 93 100-194 2-96 (96)
4 smart00561 MBT Present in Dros 100.0 5.8E-29 1.3E-33 189.6 9.0 73 4-88 24-96 (96)
5 PF02820 MBT: mbt repeat; Int 100.0 5.2E-29 1.1E-33 181.0 6.9 70 132-201 1-72 (73)
6 PF02820 MBT: mbt repeat; Int 99.9 6.4E-28 1.4E-32 175.3 6.9 73 12-96 1-73 (73)
7 smart00743 Agenet Tudor-like d 96.1 0.023 5.1E-07 39.0 6.0 37 127-164 2-39 (61)
8 PF11717 Tudor-knot: RNA bindi 96.1 0.022 4.8E-07 38.7 5.7 46 128-175 1-52 (55)
9 PF05641 Agenet: Agenet domain 95.2 0.072 1.6E-06 37.7 6.0 42 8-57 1-43 (68)
10 PF05641 Agenet: Agenet domain 95.1 0.058 1.3E-06 38.2 5.1 37 128-164 1-40 (68)
11 PF11717 Tudor-knot: RNA bindi 94.8 0.13 2.9E-06 34.8 6.0 48 8-69 1-52 (55)
12 smart00743 Agenet Tudor-like d 94.1 0.21 4.5E-06 34.2 6.0 37 7-54 2-39 (61)
13 smart00333 TUDOR Tudor domain. 90.0 1.5 3.3E-05 29.2 6.1 47 127-175 2-49 (57)
14 PF15057 DUF4537: Domain of un 82.8 18 0.00039 28.6 9.6 40 125-164 53-98 (124)
15 PF07039 DUF1325: SGF29 tudor- 73.6 10 0.00023 30.3 5.7 40 125-165 69-111 (130)
16 PF11623 DUF3252: Protein of u 72.8 14 0.0003 24.8 5.1 39 128-166 2-40 (53)
17 smart00333 TUDOR Tudor domain. 70.6 22 0.00048 23.3 6.1 38 7-56 2-40 (57)
18 PRK10737 FKBP-type peptidyl-pr 66.5 10 0.00022 32.6 4.5 34 127-163 89-122 (196)
19 PF06003 SMN: Survival motor n 65.1 18 0.00038 32.5 5.9 39 125-164 66-106 (264)
20 COG1047 SlpA FKBP-type peptidy 57.1 20 0.00044 30.2 4.5 33 127-162 90-122 (174)
21 PF11302 DUF3104: Protein of u 54.4 29 0.00063 25.1 4.4 35 7-46 5-39 (75)
22 PF07039 DUF1325: SGF29 tudor- 52.7 53 0.0012 26.2 6.2 42 4-56 68-112 (130)
23 smart00293 PWWP domain with co 51.1 40 0.00087 23.1 4.6 36 8-55 1-48 (63)
24 PF11623 DUF3252: Protein of u 48.8 54 0.0012 22.0 4.6 38 8-55 2-39 (53)
25 cd04508 TUDOR Tudor domains ar 47.2 69 0.0015 20.0 5.3 33 131-164 1-34 (48)
26 cd05834 HDGF_related The PWWP 38.8 58 0.0013 23.8 4.0 37 7-55 2-43 (83)
27 PF00855 PWWP: PWWP domain; I 37.3 1.1E+02 0.0025 21.5 5.5 51 8-76 1-59 (86)
28 PF12945 YcgR_2: Flagellar pro 36.1 1E+02 0.0022 21.7 5.1 35 128-162 1-38 (87)
29 PF06003 SMN: Survival motor n 33.1 1.3E+02 0.0027 27.1 6.1 40 6-56 67-108 (264)
30 COG1047 SlpA FKBP-type peptidy 33.0 90 0.0019 26.3 4.8 33 7-52 90-122 (174)
31 cd05841 BS69_related The PWWP 30.2 90 0.0019 23.0 3.8 38 33-75 20-57 (83)
32 PF08940 DUF1918: Domain of un 29.1 1.3E+02 0.0029 20.6 4.2 37 129-165 4-44 (58)
33 COG3472 Uncharacterized conser 28.8 24 0.00052 32.6 0.7 19 172-190 215-233 (342)
34 PLN00045 photosystem I reactio 25.8 1.3E+02 0.0028 22.8 4.0 37 5-54 37-81 (101)
35 PLN00104 MYST -like histone ac 25.0 1.4E+02 0.003 29.1 5.0 54 6-72 52-113 (450)
36 cd05162 PWWP The PWWP domain, 24.4 1.4E+02 0.003 21.5 4.1 52 8-77 1-63 (87)
37 PF09096 Phage-tail_2: Basepla 23.8 52 0.0011 27.2 1.7 20 233-252 112-131 (168)
38 KOG4218|consensus 23.4 16 0.00034 34.2 -1.5 13 235-247 77-89 (475)
39 cd06080 MUM1_like Mutated mela 23.2 1.5E+02 0.0033 21.6 4.0 36 8-55 1-38 (80)
40 PF04452 Methyltrans_RNA: RNA 21.7 2.6E+02 0.0056 24.0 5.8 37 125-163 14-50 (225)
41 PF14370 Topo_C_assoc: C-termi 21.3 23 0.0005 25.4 -0.7 19 173-192 30-48 (71)
No 1
>KOG3766|consensus
Probab=100.00 E-value=4.4e-56 Score=420.29 Aligned_cols=236 Identities=31% Similarity=0.560 Sum_probs=200.3
Q ss_pred cCcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeCCEEEEEEcccCCCCCCCeeeeCCCCCeecccchhccCCCC
Q psy6234 6 ENISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAGYKALLRYEGFGEDSSKDFWVNLCSSMVHPVGWCATRGKPL 85 (260)
Q Consensus 6 ~~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G~rl~lr~~G~~~d~~~dfW~~~~s~~ihPvGw~~~~g~~L 85 (260)
+.|++|||||++|+ ++|+.+|+|+|++++|+|++|+|+|++ ..+|||++++||+|||+|||+++|+.|
T Consensus 88 ~~~k~GmklE~vd~----------~~~s~~~~asV~~v~g~Rl~l~~~g~~--~~~dfW~~~~sp~i~pvGw~~~~g~~l 155 (478)
T KOG3766|consen 88 NCFKPGMKLEAVDP----------DNPSSTWIATVEEVCGGRLRLRFDGLD--ENYDFWLHALSPDIHPVGWCEKSGHKL 155 (478)
T ss_pred cccCCCceEEEEec----------CCCceEEEEEEEeecccEEEEEecCcc--cCCccceecCCccccccccccccCccc
Confidence 57999999999986 378999999999999999999999986 579999999999999999999999999
Q ss_pred CCCCCCC-CCcCcHHHHHHHHhcCCCCCCccccccc--cccccCCCCCCcEEEEecCCCCCceEEEEEEeEeCCe-EEEE
Q psy6234 86 IPPRTIE-TKYSDWKDFLVKRLTGARTLPSNFYHKV--QESVKSRFRVDMNLEVVDKKRISQVKVATIEKIVGKR-LQVH 161 (260)
Q Consensus 86 ~pP~~~~-~~~~~W~~~L~~~~~~~~~~P~~~f~~~--~~~~~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g~r-l~v~ 161 (260)
+||.+|. .+.++|..||.+.+.++..+|...|... +.+..+.|++|||||+||+.||+.||||||++|+++| ++|+
T Consensus 156 ~pP~~~~~~~~~s~~~~~~k~~~~~~~~p~~~~~~~~~~~~~~~~F~vgmkLEavd~~np~~IcvATV~~V~~~~~i~v~ 235 (478)
T KOG3766|consen 156 QPPLGYRIRNEYSWEQYLEKTLGQAELAPKRLFVREPSRDPPPSRFQVGMKLEAVDDLNPSAICVATVVEVFDSREILVH 235 (478)
T ss_pred CCCccccccccccccchhhhcccccccCcccccccccccCCCCCcceeccEEEEeccCCCcceeeeehheecccceEEEE
Confidence 9999998 6778999999987656778888777543 4566799999999999999999999999999999999 9999
Q ss_pred Eec--CC-CCEEEEcCCCCceechhhhhcCCcccCCCCCccccccccCCCCCCccccCCCCCCCcCCCCCCCCCCCCCCC
Q psy6234 162 YYD--DD-DGFCCHQDSPLIHPVGWARRTGHLISAPPLYTDRCAKGIRDRDDATEDLFPLSVGTAGTKLSPGTGQTGGFV 238 (260)
Q Consensus 162 ~~~--~~-~~~w~~~~S~~I~PvGw~~~~g~~L~pP~~y~~~~~~~~~~~~~a~~~~f~~~~~~~~~~~~~~~~~~~~F~ 238 (260)
+|+ .. +||||+.+|+.|||||||.+||+.|+||++|.......+ ....++ .....+++.++++..+.|.|+
T Consensus 236 ~d~~~~~~~d~~~~~~s~~I~Pv~~~~~~~~~L~ppk~~~~~~~~~~---~~~~e~---~~~~~~~~~~~~p~~p~~~~k 309 (478)
T KOG3766|consen 236 FDGWDKSELDYWCDHDSPKIFPVGWCCKNGDKLTPPKDYYEADNFKW---EKYLEE---TGASAAPSRAFNPRCPNHLFK 309 (478)
T ss_pred eccCCCcccceeEecCCCceeeeeEhhhcCcccCCCccccccccccc---cccccc---ccccccchhccCCCCCCcccc
Confidence 998 33 799999999999999999999999999995544332111 111111 112223334555677889999
Q ss_pred CCCEEEEecCCCCCCceeeee
Q psy6234 239 VGMKLESVDPLNLSDIWKRQQ 259 (260)
Q Consensus 239 ~GMKLEaVDp~~p~~IcvATv 259 (260)
+|||||+||+++|.+||||||
T Consensus 310 ~~~k~e~~d~~~p~~~~vatv 330 (478)
T KOG3766|consen 310 VGMKLEAVDLRNPRLICVATV 330 (478)
T ss_pred ccceeeeccccCCcccccccc
Confidence 999999999999999999998
No 2
>KOG3766|consensus
Probab=100.00 E-value=1.3e-42 Score=328.61 Aligned_cols=214 Identities=37% Similarity=0.591 Sum_probs=187.2
Q ss_pred EEEEEEEEEeCCEEEEEEcccCCCCCCCeeeeCCCCCeecccchhccCCCCCCCCCCCCCcCcHHHHHHHHhcCCCCCCc
Q psy6234 35 FWVASVTQIAGYKALLRYEGFGEDSSKDFWVNLCSSMVHPVGWCATRGKPLIPPRTIETKYSDWKDFLVKRLTGARTLPS 114 (260)
Q Consensus 35 ~wvA~V~~~~G~rl~lr~~G~~~d~~~dfW~~~~s~~ihPvGw~~~~g~~L~pP~~~~~~~~~W~~~L~~~~~~~~~~P~ 114 (260)
+|+|+++..+|+..+++|+|+. ++||++....+++|+|||..+...+.+|.....++.+|..+|..+++|+.++|.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dw~~~l~~~~~g~~~~Pv 76 (478)
T KOG3766|consen 1 FWVANVIQTGGQLHLLRYEGYG----HDLWCTSGTADLEPIGYCPENSKKLVAPRAIKEKKEDWSWELYLEETGSRTAPV 76 (478)
T ss_pred Ccceeeccccccccccceeccc----ccchhhcCCCCceeccccccccccccCcccccccccCcchhheeccccccccCc
Confidence 5899999999999999999985 899999999999999999999999999999988888999999999999999999
Q ss_pred cccccccccccCCCCCCcEEEEecCCCCCceEEEEEEeEeCCeEEEEEec--CCCCEEEEcCCCCceechhhhhcCCccc
Q psy6234 115 NFYHKVQESVKSRFRVDMNLEVVDKKRISQVKVATIEKIVGKRLQVHYYD--DDDGFCCHQDSPLIHPVGWARRTGHLIS 192 (260)
Q Consensus 115 ~~f~~~~~~~~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g~rl~v~~~~--~~~~~w~~~~S~~I~PvGw~~~~g~~L~ 192 (260)
+++..........|++|||||++|+.+++..|+|||++++|+|++++|+| +.+|||++++||+|||+|||+++|+.|+
T Consensus 77 ~~~~~~~~~~~~~~k~GmklE~vd~~~~s~~~~asV~~v~g~Rl~l~~~g~~~~~dfW~~~~sp~i~pvGw~~~~g~~l~ 156 (478)
T KOG3766|consen 77 EFGRQPTESPNNCFKPGMKLEAVDPDNPSSTWIATVEEVCGGRLRLRFDGLDENYDFWLHALSPDIHPVGWCEKSGHKLQ 156 (478)
T ss_pred ccccccccCCCcccCCCceEEEEecCCCceEEEEEEEeecccEEEEEecCcccCCccceecCCccccccccccccCcccC
Confidence 97766667778899999999999999999999999999999999999999 5699999999999999999999999999
Q ss_pred CCCCCcc-cccccc------C-CCCCCccccCCCCCCCcCCCCCCCCCCCCCCCCCCEEEEecCCCCCCceeeeeC
Q psy6234 193 APPLYTD-RCAKGI------R-DRDDATEDLFPLSVGTAGTKLSPGTGQTGGFVVGMKLESVDPLNLSDIWKRQQH 260 (260)
Q Consensus 193 pP~~y~~-~~~~~~------~-~~~~a~~~~f~~~~~~~~~~~~~~~~~~~~F~~GMKLEaVDp~~p~~IcvATv~ 260 (260)
||.+|.. ...++. + ....++...|.... ....+.|.|++||||||||++||..||||||.
T Consensus 157 pP~~~~~~~~~s~~~~~~k~~~~~~~~p~~~~~~~~--------~~~~~~~~F~vgmkLEavd~~np~~IcvATV~ 224 (478)
T KOG3766|consen 157 PPLGYRIRNEYSWEQYLEKTLGQAELAPKRLFVREP--------SRDPPPSRFQVGMKLEAVDDLNPSAICVATVV 224 (478)
T ss_pred CCccccccccccccchhhhcccccccCccccccccc--------ccCCCCCcceeccEEEEeccCCCcceeeeehh
Confidence 9999973 222221 1 12344444443321 23556799999999999999999999999983
No 3
>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=1.1e-35 Score=226.54 Aligned_cols=93 Identities=41% Similarity=0.756 Sum_probs=88.2
Q ss_pred HHHHHHhcCCCCCCccccccccccccCCCCCCcEEEEecCCCCCceEEEEEEeEeCCeEEEEEec--CCCCEEEEcCCCC
Q psy6234 100 DFLVKRLTGARTLPSNFYHKVQESVKSRFRVDMNLEVVDKKRISQVKVATIEKIVGKRLQVHYYD--DDDGFCCHQDSPL 177 (260)
Q Consensus 100 ~~L~~~~~~~~~~P~~~f~~~~~~~~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g~rl~v~~~~--~~~~~w~~~~S~~ 177 (260)
+||++ +|+.++|.++|++...+..+.|++||||||+|++|++.||||||++|.|+|++|+||| +++||||+++|++
T Consensus 2 ~YL~~--~~a~~aP~~~F~~~~~~~~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g~~l~v~~dg~~~~~D~W~~~~S~~ 79 (96)
T smart00561 2 DYLEE--TGARAAPVELFKQPVDSPPNGFKVGMKLEAVDPRNPSLICVATVVEVKGYRLLLHFDGWDDKYDFWCDADSPD 79 (96)
T ss_pred hhHHH--cCCCcCCHHHhCCCCCCccCcccCCCEEEEECCCCCceEEEEEEEEEECCEEEEEEccCCCcCCEEEECCCCC
Confidence 68865 8999999999998666778999999999999999999999999999999999999999 6789999999999
Q ss_pred ceechhhhhcCCcccCC
Q psy6234 178 IHPVGWARRTGHLISAP 194 (260)
Q Consensus 178 I~PvGw~~~~g~~L~pP 194 (260)
|||||||++||++|+||
T Consensus 80 I~PvGwc~~~g~~L~pP 96 (96)
T smart00561 80 IHPVGWCEKNGHPLQPP 96 (96)
T ss_pred cccCchHHhcCCcCCCC
Confidence 99999999999999998
No 4
>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=99.96 E-value=5.8e-29 Score=189.59 Aligned_cols=73 Identities=40% Similarity=0.853 Sum_probs=68.4
Q ss_pred cccCcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeCCEEEEEEcccCCCCCCCeeeeCCCCCeecccchhccCC
Q psy6234 4 CWENISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAGYKALLRYEGFGEDSSKDFWVNLCSSMVHPVGWCATRGK 83 (260)
Q Consensus 4 ~~~~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G~rl~lr~~G~~~d~~~dfW~~~~s~~ihPvGw~~~~g~ 83 (260)
..+.|++|||||++|+ .||+.+|||||++++|+||+|||||++ +++||||+++|++|||||||++||+
T Consensus 24 ~~~~F~vGmkLEavD~----------~~~~~i~vAtV~~v~g~~l~v~~dg~~--~~~D~W~~~~S~~I~PvGwc~~~g~ 91 (96)
T smart00561 24 PPNGFKVGMKLEAVDP----------RNPSLICVATVVEVKGYRLLLHFDGWD--DKYDFWCDADSPDIHPVGWCEKNGH 91 (96)
T ss_pred ccCcccCCCEEEEECC----------CCCceEEEEEEEEEECCEEEEEEccCC--CcCCEEEECCCCCcccCchHHhcCC
Confidence 4678999999999986 388999999999999999999999996 4799999999999999999999999
Q ss_pred CCCCC
Q psy6234 84 PLIPP 88 (260)
Q Consensus 84 ~L~pP 88 (260)
+|+||
T Consensus 92 ~L~pP 96 (96)
T smart00561 92 PLQPP 96 (96)
T ss_pred cCCCC
Confidence 99998
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=99.95 E-value=5.2e-29 Score=180.99 Aligned_cols=70 Identities=46% Similarity=0.790 Sum_probs=64.8
Q ss_pred cEEEEecCCCCCceEEEEEEeEeCCeEEEEEec--CCCCEEEEcCCCCceechhhhhcCCcccCCCCCcccc
Q psy6234 132 MNLEVVDKKRISQVKVATIEKIVGKRLQVHYYD--DDDGFCCHQDSPLIHPVGWARRTGHLISAPPLYTDRC 201 (260)
Q Consensus 132 mkLEavD~~~~~~i~vAtV~~v~g~rl~v~~~~--~~~~~w~~~~S~~I~PvGw~~~~g~~L~pP~~y~~~~ 201 (260)
|||||+|++++..+|||||++|+|+|++|+||| +.++||||++|++|||||||++||++|+||++|..+.
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 MKLEAVDPRNPSLICVATVVKVCGGRLLVRYDGWDDDYDFWCHIDSPRIFPVGWCEKNGHPLQPPKGYRSKT 72 (73)
T ss_dssp EEEEEEETTECCEEEEEEEEEEETTEEEEEETTSTGGGEEEEETTSTTEEETTHHHHHT-EEE-STTCSSTG
T ss_pred CeEEEECCCCCCeEEEEEEEEEeCCEEEEEEcCCCCCccEEEECCCCCeeecchHHhcCCcccCCCCCccCC
Confidence 999999999999999999999999999999999 5679999999999999999999999999999997653
No 6
>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=99.95 E-value=6.4e-28 Score=175.26 Aligned_cols=73 Identities=37% Similarity=0.814 Sum_probs=64.9
Q ss_pred cEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeCCEEEEEEcccCCCCCCCeeeeCCCCCeecccchhccCCCCCCCCCC
Q psy6234 12 MKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAGYKALLRYEGFGEDSSKDFWVNLCSSMVHPVGWCATRGKPLIPPRTI 91 (260)
Q Consensus 12 mklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G~rl~lr~~G~~~d~~~dfW~~~~s~~ihPvGw~~~~g~~L~pP~~~ 91 (260)
||||++|+ .+|+.+|||||++++|+||+|||||+++ .+|||||++|++|||||||+++|++|+||.+|
T Consensus 1 MkLEa~d~----------~~~~~~~vAtV~~v~g~~l~v~~dg~~~--~~d~w~~~~S~~i~PvGw~~~~g~~L~pP~~~ 68 (73)
T PF02820_consen 1 MKLEAVDP----------RNPSLICVATVVKVCGGRLLVRYDGWDD--DYDFWCHIDSPRIFPVGWCEKNGHPLQPPKGY 68 (73)
T ss_dssp EEEEEEET----------TECCEEEEEEEEEEETTEEEEEETTSTG--GGEEEEETTSTTEEETTHHHHHT-EEE-STTC
T ss_pred CeEEEECC----------CCCCeEEEEEEEEEeCCEEEEEEcCCCC--CccEEEECCCCCeeecchHHhcCCcccCCCCC
Confidence 99999987 3788999999999999999999999974 46999999999999999999999999999999
Q ss_pred CCCcC
Q psy6234 92 ETKYS 96 (260)
Q Consensus 92 ~~~~~ 96 (260)
.++.|
T Consensus 69 ~~~~~ 73 (73)
T PF02820_consen 69 RSKTF 73 (73)
T ss_dssp SSTG-
T ss_pred ccCCC
Confidence 87643
No 7
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=96.08 E-value=0.023 Score=39.02 Aligned_cols=37 Identities=24% Similarity=0.369 Sum_probs=33.6
Q ss_pred CCCCCcEEEEecCCCCCceEEEEEEeEeC-CeEEEEEec
Q psy6234 127 RFRVDMNLEVVDKKRISQVKVATIEKIVG-KRLQVHYYD 164 (260)
Q Consensus 127 ~F~vGmkLEavD~~~~~~i~vAtV~~v~g-~rl~v~~~~ 164 (260)
.|++|.++||.... ....+.|+|+++.+ +++.|.|.+
T Consensus 2 ~~~~G~~Ve~~~~~-~~~W~~a~V~~~~~~~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKE-EDSWWEAVVTKVLGDGKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECC-CCEEEEEEEEEECCCCEEEEEECC
Confidence 59999999999876 68899999999998 789999987
No 8
>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=96.05 E-value=0.022 Score=38.65 Aligned_cols=46 Identities=22% Similarity=0.109 Sum_probs=36.6
Q ss_pred CCCCcEEEEecCCCCCceEEEEEEeEeCC----eEEEEEec--CCCCEEEEcCC
Q psy6234 128 FRVDMNLEVVDKKRISQVKVATIEKIVGK----RLQVHYYD--DDDGFCCHQDS 175 (260)
Q Consensus 128 F~vGmkLEavD~~~~~~i~vAtV~~v~g~----rl~v~~~~--~~~~~w~~~~S 175 (260)
|++|.++-+.+ .......|+|+++-.. .+.|||.| ...|-|+..+.
T Consensus 1 ~~vG~~v~~~~--~~~~~y~A~I~~~r~~~~~~~YyVHY~g~nkR~DeWV~~~~ 52 (55)
T PF11717_consen 1 FEVGEKVLCKY--KDGQWYEAKILDIREKNGEPEYYVHYQGWNKRLDEWVPESR 52 (55)
T ss_dssp --TTEEEEEEE--TTTEEEEEEEEEEEECTTCEEEEEEETTSTGCC-EEEETTT
T ss_pred CCcCCEEEEEE--CCCcEEEEEEEEEEecCCCEEEEEEcCCCCCCceeeecHHH
Confidence 68999999999 6689999999998744 58999999 57899998764
No 9
>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=95.21 E-value=0.072 Score=37.67 Aligned_cols=42 Identities=26% Similarity=0.505 Sum_probs=29.1
Q ss_pred cccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeCC-EEEEEEcccCC
Q psy6234 8 ISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAGY-KALLRYEGFGE 57 (260)
Q Consensus 8 ~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G~-rl~lr~~G~~~ 57 (260)
|++|+++||.... .......+-|+|++..+. +++++|+....
T Consensus 1 F~~G~~VEV~s~e--------~g~~gaWf~a~V~~~~~~~~~~V~Y~~~~~ 43 (68)
T PF05641_consen 1 FKKGDEVEVSSDE--------DGFRGAWFPATVLKENGDDKYLVEYDDLPD 43 (68)
T ss_dssp --TT-EEEEEE-S--------BTT--EEEEEEEEEEETT-EEEEEETT-SS
T ss_pred CCCCCEEEEEEcC--------CCCCcEEEEEEEEEeCCCcEEEEEECCccc
Confidence 7899999998642 123467888999999999 99999988753
No 10
>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=95.08 E-value=0.058 Score=38.19 Aligned_cols=37 Identities=27% Similarity=0.281 Sum_probs=28.3
Q ss_pred CCCCcEEEEecCCC--CCceEEEEEEeEeCC-eEEEEEec
Q psy6234 128 FRVDMNLEVVDKKR--ISQVKVATIEKIVGK-RLQVHYYD 164 (260)
Q Consensus 128 F~vGmkLEavD~~~--~~~i~vAtV~~v~g~-rl~v~~~~ 164 (260)
|++|+++|+.-..+ .+....|+|++..+. +++|.|++
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~~~~V~Y~~ 40 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGDDKYLVEYDD 40 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT-EEEEEETT
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCCcEEEEEECC
Confidence 89999999988665 467889999999999 99999976
No 11
>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=94.77 E-value=0.13 Score=34.79 Aligned_cols=48 Identities=25% Similarity=0.434 Sum_probs=35.9
Q ss_pred cccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeC----CEEEEEEcccCCCCCCCeeeeCCC
Q psy6234 8 ISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAG----YKALLRYEGFGEDSSKDFWVNLCS 69 (260)
Q Consensus 8 ~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G----~rl~lr~~G~~~d~~~dfW~~~~s 69 (260)
|++|+++-+...+ ....-|+|+++-. ....+||.|+. .+.|=|+..+.
T Consensus 1 ~~vG~~v~~~~~~------------~~~y~A~I~~~r~~~~~~~YyVHY~g~n--kR~DeWV~~~~ 52 (55)
T PF11717_consen 1 FEVGEKVLCKYKD------------GQWYEAKILDIREKNGEPEYYVHYQGWN--KRLDEWVPESR 52 (55)
T ss_dssp --TTEEEEEEETT------------TEEEEEEEEEEEECTTCEEEEEEETTST--GCC-EEEETTT
T ss_pred CCcCCEEEEEECC------------CcEEEEEEEEEEecCCCEEEEEEcCCCC--CCceeeecHHH
Confidence 6899999998621 4588999999973 35889999996 58999998754
No 12
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=94.11 E-value=0.21 Score=34.18 Aligned_cols=37 Identities=41% Similarity=0.623 Sum_probs=31.7
Q ss_pred CcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeC-CEEEEEEcc
Q psy6234 7 NISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAG-YKALLRYEG 54 (260)
Q Consensus 7 ~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G-~rl~lr~~G 54 (260)
.|++|.++||...+ -...|.|+|+++.+ .+..++|.+
T Consensus 2 ~~~~G~~Ve~~~~~-----------~~~W~~a~V~~~~~~~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKE-----------EDSWWEAVVTKVLGDGKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECC-----------CCEEEEEEEEEECCCCEEEEEECC
Confidence 58999999998642 25799999999998 889999988
No 13
>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=90.03 E-value=1.5 Score=29.15 Aligned_cols=47 Identities=17% Similarity=0.136 Sum_probs=37.8
Q ss_pred CCCCCcEEEEecCCCCCceEEEEEEeEeC-CeEEEEEecCCCCEEEEcCC
Q psy6234 127 RFRVDMNLEVVDKKRISQVKVATIEKIVG-KRLQVHYYDDDDGFCCHQDS 175 (260)
Q Consensus 127 ~F~vGmkLEavD~~~~~~i~vAtV~~v~g-~rl~v~~~~~~~~~w~~~~S 175 (260)
.|++|..+.|.. +-....-|+|+++.+ +.+.|.|.|-...-|+...+
T Consensus 2 ~~~~G~~~~a~~--~d~~wyra~I~~~~~~~~~~V~f~D~G~~~~v~~~~ 49 (57)
T smart00333 2 TFKVGDKVAARW--EDGEWYRARIIKVDGEQLYEVFFIDYGNEEVVPPSD 49 (57)
T ss_pred CCCCCCEEEEEe--CCCCEEEEEEEEECCCCEEEEEEECCCccEEEeHHH
Confidence 489999999998 468889999999999 78999998844445665444
No 14
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=82.80 E-value=18 Score=28.63 Aligned_cols=40 Identities=13% Similarity=0.130 Sum_probs=33.9
Q ss_pred cCCCCCCcEEEEecCCCCCceEEEEEE------eEeCCeEEEEEec
Q psy6234 125 KSRFRVDMNLEVVDKKRISQVKVATIE------KIVGKRLQVHYYD 164 (260)
Q Consensus 125 ~~~F~vGmkLEavD~~~~~~i~vAtV~------~v~g~rl~v~~~~ 164 (260)
.+..++|.++=|..+.....+.||+|+ ...+..|.|+|.+
T Consensus 53 ~~~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f~n 98 (124)
T PF15057_consen 53 RHSLQVGDKVLAPWEPDDCRYGPGTVIAGPERRASEDKEYTVRFYN 98 (124)
T ss_pred cCcCCCCCEEEEecCcCCCEEeCEEEEECccccccCCceEEEEEEC
Confidence 567899999999988888889999999 4556788999876
No 15
>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=73.60 E-value=10 Score=30.28 Aligned_cols=40 Identities=13% Similarity=0.120 Sum_probs=30.2
Q ss_pred cCCCCCCcEEEEecCCCCCceEEEEEEeE---eCCeEEEEEecC
Q psy6234 125 KSRFRVDMNLEVVDKKRISQVKVATIEKI---VGKRLQVHYYDD 165 (260)
Q Consensus 125 ~~~F~vGmkLEavD~~~~~~i~vAtV~~v---~g~rl~v~~~~~ 165 (260)
...|..|.++=|+=|. ..++..|+|... ..+.++|.|+|+
T Consensus 69 ~~~f~~g~~VLAlYP~-TT~FY~A~V~~~p~~~~~~y~l~Fedd 111 (130)
T PF07039_consen 69 LAEFPKGTKVLALYPD-TTCFYPATVVSPPKKKSGEYKLKFEDD 111 (130)
T ss_dssp GGS--TT-EEEEE-TT-SSEEEEEEEEEE-SSTTS-EEEEECTT
T ss_pred hhhCCCCCEEEEECCC-CceEEEEEEEeCCCCCCCcEEEEEeCC
Confidence 3569999999999887 689999999999 567899999983
No 16
>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=72.83 E-value=14 Score=24.81 Aligned_cols=39 Identities=8% Similarity=0.086 Sum_probs=30.8
Q ss_pred CCCCcEEEEecCCCCCceEEEEEEeEeCCeEEEEEecCC
Q psy6234 128 FRVDMNLEVVDKKRISQVKVATIEKIVGKRLQVHYYDDD 166 (260)
Q Consensus 128 F~vGmkLEavD~~~~~~i~vAtV~~v~g~rl~v~~~~~~ 166 (260)
+-+||-+-+.|+.++.--.-..|.+|.+++.-|.|.|..
T Consensus 2 ilPG~~V~V~n~~~~Y~~y~G~VQRvsdgkaaVLFEGGn 40 (53)
T PF11623_consen 2 ILPGSTVRVKNPNDIYYGYEGFVQRVSDGKAAVLFEGGN 40 (53)
T ss_dssp --TT-EEEE--TTSTTTT-EEEEEEEETTEEEEEEEETT
T ss_pred ccCCCEEEEeCCCCccchheEEEEEeeCCeEEEEecCCC
Confidence 458999999999999999999999999999999999844
No 17
>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=70.59 E-value=22 Score=23.28 Aligned_cols=38 Identities=21% Similarity=0.397 Sum_probs=31.7
Q ss_pred CcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeC-CEEEEEEcccC
Q psy6234 7 NISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAG-YKALLRYEGFG 56 (260)
Q Consensus 7 ~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G-~rl~lr~~G~~ 56 (260)
.+++|..+.+.. + + ..+.=|+|+++.+ ..+.++|++++
T Consensus 2 ~~~~G~~~~a~~-~-d----------~~wyra~I~~~~~~~~~~V~f~D~G 40 (57)
T smart00333 2 TFKVGDKVAARW-E-D----------GEWYRARIIKVDGEQLYEVFFIDYG 40 (57)
T ss_pred CCCCCCEEEEEe-C-C----------CCEEEEEEEEECCCCEEEEEEECCC
Confidence 578999999885 2 1 4588899999998 89999999986
No 18
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=66.50 E-value=10 Score=32.57 Aligned_cols=34 Identities=12% Similarity=0.097 Sum_probs=27.0
Q ss_pred CCCCCcEEEEecCCCCCceEEEEEEeEeCCeEEEEEe
Q psy6234 127 RFRVDMNLEVVDKKRISQVKVATIEKIVGKRLQVHYY 163 (260)
Q Consensus 127 ~F~vGmkLEavD~~~~~~i~vAtV~~v~g~rl~v~~~ 163 (260)
.+++||++++..... -.+++|++|.+.++.|-|.
T Consensus 89 ~l~~G~~~~~~~~~G---~~~~~V~ev~~d~V~vD~N 122 (196)
T PRK10737 89 ELQVGMRFLAETDQG---PVPVEITAVEDDHVVVDGN 122 (196)
T ss_pred CCCCCCEEEEeCCCC---cEEEEEEEEcCCEEEEECC
Confidence 478999999977554 2589999999999877553
No 19
>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=65.11 E-value=18 Score=32.53 Aligned_cols=39 Identities=23% Similarity=0.149 Sum_probs=28.9
Q ss_pred cCCCCCCcEEEEecCCCCCceEEEEEEeEeC--CeEEEEEec
Q psy6234 125 KSRFRVDMNLEVVDKKRISQVKVATIEKIVG--KRLQVHYYD 164 (260)
Q Consensus 125 ~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g--~rl~v~~~~ 164 (260)
...++||++.-|+ -.+-+.++.|||.+|.. +...|.|.|
T Consensus 66 ~~~WkvGd~C~A~-~s~Dg~~Y~A~I~~i~~~~~~~~V~f~g 106 (264)
T PF06003_consen 66 NKKWKVGDKCMAV-YSEDGQYYPATIESIDEEDGTCVVVFTG 106 (264)
T ss_dssp TT---TT-EEEEE--TTTSSEEEEEEEEEETTTTEEEEEETT
T ss_pred ccCCCCCCEEEEE-ECCCCCEEEEEEEEEcCCCCEEEEEEcc
Confidence 4679999999999 45568899999999996 467889987
No 20
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=57.14 E-value=20 Score=30.19 Aligned_cols=33 Identities=18% Similarity=0.376 Sum_probs=28.7
Q ss_pred CCCCCcEEEEecCCCCCceEEEEEEeEeCCeEEEEE
Q psy6234 127 RFRVDMNLEVVDKKRISQVKVATIEKIVGKRLQVHY 162 (260)
Q Consensus 127 ~F~vGmkLEavD~~~~~~i~vAtV~~v~g~rl~v~~ 162 (260)
..++||.+++-.+. .-.+++|++|.++++.|-|
T Consensus 90 ~~~vGm~~~~~~~~---~~~~~~V~~V~~~~V~VDf 122 (174)
T COG1047 90 ELEVGMEVEAEGGD---GEIPGVVTEVSGDRVTVDF 122 (174)
T ss_pred CCCCCcEEEEcCCC---ceeeEEEEEEcCCEEEEeC
Confidence 46899999998887 7789999999999998855
No 21
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=54.39 E-value=29 Score=25.13 Aligned_cols=35 Identities=17% Similarity=0.354 Sum_probs=25.8
Q ss_pred CcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeCC
Q psy6234 7 NISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAGY 46 (260)
Q Consensus 7 ~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G~ 46 (260)
.+++||.+-|.+..- ........+|++.|+-+.|+
T Consensus 5 ~Vk~Gd~ViV~~~~~-----~~~~~~~dWWmg~Vi~~~gg 39 (75)
T PF11302_consen 5 SVKPGDTVIVQDEQE-----VGQKQDKDWWMGQVIHCEGG 39 (75)
T ss_pred ccCCCCEEEEecCcc-----ccccCCCCcEEEEEEEEecc
Confidence 579999999986531 12234567999999999875
No 22
>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=52.69 E-value=53 Score=26.19 Aligned_cols=42 Identities=21% Similarity=0.199 Sum_probs=30.0
Q ss_pred cccCcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEE---eCCEEEEEEcccC
Q psy6234 4 CWENISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQI---AGYKALLRYEGFG 56 (260)
Q Consensus 4 ~~~~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~---~G~rl~lr~~G~~ 56 (260)
-+..|..|.++-++-++ =.+|.-|+|... ..+..+|+|+|-+
T Consensus 68 ~~~~f~~g~~VLAlYP~-----------TT~FY~A~V~~~p~~~~~~y~l~Fedd~ 112 (130)
T PF07039_consen 68 PLAEFPKGTKVLALYPD-----------TTCFYPATVVSPPKKKSGEYKLKFEDDE 112 (130)
T ss_dssp GGGS--TT-EEEEE-TT-----------SSEEEEEEEEEE-SSTTS-EEEEECTTT
T ss_pred chhhCCCCCEEEEECCC-----------CceEEEEEEEeCCCCCCCcEEEEEeCCC
Confidence 35678999999998764 146999999999 5788999999954
No 23
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=51.05 E-value=40 Score=23.06 Aligned_cols=36 Identities=17% Similarity=0.059 Sum_probs=25.4
Q ss_pred cccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEe------------CCEEEEEEccc
Q psy6234 8 ISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIA------------GYKALLRYEGF 55 (260)
Q Consensus 8 ~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~------------G~rl~lr~~G~ 55 (260)
|++|..+=+.-.+ ...|.|.|+.-- ...++++|.|.
T Consensus 1 f~~GdlVwaK~~G------------~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~ 48 (63)
T smart00293 1 FKPGDLVWAKMKG------------FPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGD 48 (63)
T ss_pred CCCCCEEEEECCC------------CCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCC
Confidence 4667777765432 347999988764 45789999994
No 24
>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=48.80 E-value=54 Score=21.99 Aligned_cols=38 Identities=26% Similarity=0.211 Sum_probs=27.1
Q ss_pred cccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeCCEEEEEEccc
Q psy6234 8 ISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAGYKALLRYEGF 55 (260)
Q Consensus 8 ~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G~rl~lr~~G~ 55 (260)
|-+||.+-|.|++ ++.--.-..|-.+.++++-+-|+|-
T Consensus 2 ilPG~~V~V~n~~----------~~Y~~y~G~VQRvsdgkaaVLFEGG 39 (53)
T PF11623_consen 2 ILPGSTVRVKNPN----------DIYYGYEGFVQRVSDGKAAVLFEGG 39 (53)
T ss_dssp --TT-EEEE--TT----------STTTT-EEEEEEEETTEEEEEEEET
T ss_pred ccCCCEEEEeCCC----------CccchheEEEEEeeCCeEEEEecCC
Confidence 5689999999874 5566678889999999999999993
No 25
>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=47.23 E-value=69 Score=20.00 Aligned_cols=33 Identities=15% Similarity=0.072 Sum_probs=23.9
Q ss_pred CcEEEEecCCCCCceEEEEEEeEe-CCeEEEEEec
Q psy6234 131 DMNLEVVDKKRISQVKVATIEKIV-GKRLQVHYYD 164 (260)
Q Consensus 131 GmkLEavD~~~~~~i~vAtV~~v~-g~rl~v~~~~ 164 (260)
|+..-|.-.. -...+.|+|.++. ++.+.|.|.|
T Consensus 1 G~~c~a~~~~-d~~wyra~V~~~~~~~~~~V~f~D 34 (48)
T cd04508 1 GDLCLAKYSD-DGKWYRAKITSILSDGKVEVFFVD 34 (48)
T ss_pred CCEEEEEECC-CCeEEEEEEEEECCCCcEEEEEEc
Confidence 3444444332 3788999999999 7789999987
No 26
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=38.79 E-value=58 Score=23.79 Aligned_cols=37 Identities=22% Similarity=0.213 Sum_probs=29.4
Q ss_pred CcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEe-----CCEEEEEEccc
Q psy6234 7 NISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIA-----GYKALLRYEGF 55 (260)
Q Consensus 7 ~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~-----G~rl~lr~~G~ 55 (260)
.|++|..+=+.-++ ...|+|.|+..- +..++++|.|.
T Consensus 2 ~f~~GdlVwaK~kG------------yp~WPa~I~~~~~~~~~~~~~~V~FfGt 43 (83)
T cd05834 2 QFKAGDLVFAKVKG------------YPAWPARVDEPEDWKPPGKKYPVYFFGT 43 (83)
T ss_pred CCCCCCEEEEecCC------------CCCCCEEEecccccCCCCCEEEEEEeCC
Confidence 57888888876543 458999999987 57899999984
No 27
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=37.34 E-value=1.1e+02 Score=21.55 Aligned_cols=51 Identities=24% Similarity=0.322 Sum_probs=34.8
Q ss_pred cccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEE--------eCCEEEEEEcccCCCCCCCeeeeCCCCCeeccc
Q psy6234 8 ISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQI--------AGYKALLRYEGFGEDSSKDFWVNLCSSMVHPVG 76 (260)
Q Consensus 8 ~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~--------~G~rl~lr~~G~~~d~~~dfW~~~~s~~ihPvG 76 (260)
|++|..+=+.-.+ ...|+|.|+.. .+..++++|.|.. .--|+.. ..|.|..
T Consensus 1 f~~GdlVWaK~~g------------~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~----~~~wv~~--~~i~~f~ 59 (86)
T PF00855_consen 1 FRPGDLVWAKLKG------------YPWWPARVCDPDEKSKKKRKDGHVLVRFFGDN----DYAWVKP--SNIKPFS 59 (86)
T ss_dssp -STTEEEEEEETT------------SEEEEEEEEECCHCTSCSSSSTEEEEEETTTT----EEEEEEG--GGEEECC
T ss_pred CCCCCEEEEEeCC------------CCCCceEEeecccccccCCCCCEEEEEecCCC----CEEEECH--HHhhChh
Confidence 5677777776432 45999999998 3688999999942 2356654 3466665
No 28
>PF12945 YcgR_2: Flagellar protein YcgR; PDB: 2RDE_B 1YLN_A 3KYG_A.
Probab=36.05 E-value=1e+02 Score=21.71 Aligned_cols=35 Identities=9% Similarity=0.130 Sum_probs=21.5
Q ss_pred CCCCcEEEE--ecCCCCCceEEEEEEeEeCC-eEEEEE
Q psy6234 128 FRVDMNLEV--VDKKRISQVKVATIEKIVGK-RLQVHY 162 (260)
Q Consensus 128 F~vGmkLEa--vD~~~~~~i~vAtV~~v~g~-rl~v~~ 162 (260)
.++||+||+ .++......+.++|.++..+ .+.|..
T Consensus 1 L~iG~~i~i~i~~~~~~~~~y~S~v~g~~~~~~l~i~~ 38 (87)
T PF12945_consen 1 LKIGQKIEIEITNPTGEKGRYKSRVIGIDDDRYLIISM 38 (87)
T ss_dssp --TT-EEEEEEE-TTS-EEEEEEEEEEEETTTEEEEE-
T ss_pred CCCCCEEEEEEECCCCceEEEEEEEEEECCCCEEEEEc
Confidence 368998775 45555556788999999988 555553
No 29
>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=33.12 E-value=1.3e+02 Score=27.06 Aligned_cols=40 Identities=20% Similarity=0.446 Sum_probs=28.7
Q ss_pred cCcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeC--CEEEEEEcccC
Q psy6234 6 ENISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAG--YKALLRYEGFG 56 (260)
Q Consensus 6 ~~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G--~rl~lr~~G~~ 56 (260)
..++||.+..+.--+ | ..+..|+|..|-+ +...|+|+||+
T Consensus 67 ~~WkvGd~C~A~~s~-D----------g~~Y~A~I~~i~~~~~~~~V~f~gYg 108 (264)
T PF06003_consen 67 KKWKVGDKCMAVYSE-D----------GQYYPATIESIDEEDGTCVVVFTGYG 108 (264)
T ss_dssp T---TT-EEEEE-TT-T----------SSEEEEEEEEEETTTTEEEEEETTTT
T ss_pred cCCCCCCEEEEEECC-C----------CCEEEEEEEEEcCCCCEEEEEEcccC
Confidence 468899999998531 1 4699999999994 67899999997
No 30
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=33.05 E-value=90 Score=26.34 Aligned_cols=33 Identities=30% Similarity=0.508 Sum_probs=26.5
Q ss_pred CcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeCCEEEEEE
Q psy6234 7 NISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAGYKALLRY 52 (260)
Q Consensus 7 ~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G~rl~lr~ 52 (260)
..++||.+++...+ .--.++|++|.|+++.+=|
T Consensus 90 ~~~vGm~~~~~~~~-------------~~~~~~V~~V~~~~V~VDf 122 (174)
T COG1047 90 ELEVGMEVEAEGGD-------------GEIPGVVTEVSGDRVTVDF 122 (174)
T ss_pred CCCCCcEEEEcCCC-------------ceeeEEEEEEcCCEEEEeC
Confidence 57999999997542 2458999999999988765
No 31
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=30.17 E-value=90 Score=23.00 Aligned_cols=38 Identities=18% Similarity=0.469 Sum_probs=27.1
Q ss_pred CcEEEEEEEEEeCCEEEEEEcccCCCCCCCeeeeCCCCCeecc
Q psy6234 33 DSFWVASVTQIAGYKALLRYEGFGEDSSKDFWVNLCSSMVHPV 75 (260)
Q Consensus 33 ~~~wvA~V~~~~G~rl~lr~~G~~~d~~~dfW~~~~s~~ihPv 75 (260)
...|+|.|++..+..+.++|.|-. -..=|+.. .+|.|+
T Consensus 20 yp~WPAkV~~~~~~~~~V~FFG~t---~~~a~v~~--~~i~~~ 57 (83)
T cd05841 20 FPYWPAKVMRVEDNQVDVRFFGGQ---HDRAWIPS--NNIQPI 57 (83)
T ss_pred CCCCCEEEeecCCCeEEEEEcCCC---CCeEEEeh--HHeeeh
Confidence 457999999999999999999932 12345433 356665
No 32
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=29.13 E-value=1.3e+02 Score=20.65 Aligned_cols=37 Identities=19% Similarity=0.152 Sum_probs=25.0
Q ss_pred CCCcEEEEecCCCCCceEEEEEEeEeCC----eEEEEEecC
Q psy6234 129 RVDMNLEVVDKKRISQVKVATIEKIVGK----RLQVHYYDD 165 (260)
Q Consensus 129 ~vGmkLEavD~~~~~~i~vAtV~~v~g~----rl~v~~~~~ 165 (260)
++|.+|-+-...--..-+.+.|++|.|. -|+|+|+++
T Consensus 4 ~vGD~lvv~g~~vg~~~r~GeIveV~g~dG~PPY~VRw~D~ 44 (58)
T PF08940_consen 4 SVGDRLVVHGRTVGQPDRHGEIVEVRGPDGSPPYLVRWDDT 44 (58)
T ss_dssp -TTEEEEES-TTTS--EEEEEEEE-S-SSS-S-EEEEETTT
T ss_pred CCCCEEEEcCCcCCCCCcEeEEEEEECCCCCCCEEEEecCC
Confidence 5788888877777778899999999964 589999773
No 33
>COG3472 Uncharacterized conserved protein [Function unknown]
Probab=28.80 E-value=24 Score=32.65 Aligned_cols=19 Identities=21% Similarity=0.338 Sum_probs=17.6
Q ss_pred EcCCCCceechhhhhcCCc
Q psy6234 172 HQDSPLIHPVGWARRTGHL 190 (260)
Q Consensus 172 ~~~S~~I~PvGw~~~~g~~ 190 (260)
+.++.-|||.+||++.|+.
T Consensus 215 ~l~~HHIFP~~~lr~~GI~ 233 (342)
T COG3472 215 DLNKHHIFPNAYLRKLGIS 233 (342)
T ss_pred cchhcccCcHHHHHhcCCC
Confidence 4899999999999999997
No 34
>PLN00045 photosystem I reaction center subunit IV; Provisional
Probab=25.81 E-value=1.3e+02 Score=22.79 Aligned_cols=37 Identities=30% Similarity=0.518 Sum_probs=24.8
Q ss_pred ccCcccccEEEEEeCCCCCCCCCCCCCCCcEEE------EEEEEE--eCCEEEEEEcc
Q psy6234 5 WENISVGMKVEVENTDTDTPSGNHDNYPDSFWV------ASVTQI--AGYKALLRYEG 54 (260)
Q Consensus 5 ~~~~~~GmklEv~~~~~~~~~~~~~~~p~~~wv------A~V~~~--~G~rl~lr~~G 54 (260)
+-+++.|.|+-+. .+.+||. |+|-+- +-|-+.+||+-
T Consensus 37 ~ig~~RGskVrIl-------------R~ESYWyn~vGtVvsVDq~~girYPVvVRF~k 81 (101)
T PLN00045 37 PIGPKRGSKVKIL-------------RPESYWFNDVGKVVAVDQDPGVRYPVVVRFEK 81 (101)
T ss_pred CcccCCCCEEEEc-------------cccceeecCcceEEEEeCCCCcccceEEEeee
Confidence 4567888888876 3567884 444444 23558899875
No 35
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=24.97 E-value=1.4e+02 Score=29.09 Aligned_cols=54 Identities=20% Similarity=0.271 Sum_probs=38.7
Q ss_pred cCcccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeC--------CEEEEEEcccCCCCCCCeeeeCCCCCe
Q psy6234 6 ENISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAG--------YKALLRYEGFGEDSSKDFWVNLCSSMV 72 (260)
Q Consensus 6 ~~~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G--------~rl~lr~~G~~~d~~~dfW~~~~s~~i 72 (260)
..|++|-+|-+.... + ..+..|+|+++.- ...-+||.|+. ...|=|+...--++
T Consensus 52 ~~~~VGekVla~~~~----------D-g~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~n--rRlDEWV~~~rLdl 113 (450)
T PLN00104 52 LPLEVGTRVMCRWRF----------D-GKYHPVKVIERRRGGSGGPNDYEYYVHYTEFN--RRLDEWVKLEQLDL 113 (450)
T ss_pred ceeccCCEEEEEECC----------C-CCEEEEEEEEEeccCCCCCCCceEEEEEecCC--ccHhhccCHhhccc
Confidence 358899998887531 1 2355899999984 46889999985 67899987654443
No 36
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=24.36 E-value=1.4e+02 Score=21.45 Aligned_cols=52 Identities=21% Similarity=0.215 Sum_probs=35.0
Q ss_pred cccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEeC-----------CEEEEEEcccCCCCCCCeeeeCCCCCeeccc
Q psy6234 8 ISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIAG-----------YKALLRYEGFGEDSSKDFWVNLCSSMVHPVG 76 (260)
Q Consensus 8 ~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~G-----------~rl~lr~~G~~~d~~~dfW~~~~s~~ihPvG 76 (260)
|++|+.+=+.-.. ...|+|.|+.... ..++++|.|. ..--|+.. ..|.|..
T Consensus 1 f~~GdlVwaK~~g------------~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg~----~~~~wv~~--~~l~pf~ 62 (87)
T cd05162 1 FRPGDLVWAKMKG------------YPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFGD----KTFAWVGA--ERLKPFT 62 (87)
T ss_pred CCCCCEEEEeCCC------------CCCCCEEEccccccchhhhccCCCCEEEEEEeCC----CcEEEeCc--cceeecc
Confidence 5778888775432 3489999998763 6799999982 23356653 4576665
Q ss_pred c
Q psy6234 77 W 77 (260)
Q Consensus 77 w 77 (260)
=
T Consensus 63 ~ 63 (87)
T cd05162 63 E 63 (87)
T ss_pred c
Confidence 4
No 37
>PF09096 Phage-tail_2: Baseplate structural protein, domain 2; InterPro: IPR015180 This domain adopts a beta barrel structure with a Greek key topology, which is topologically similar to the FMN-binding split barrel. It is found at the C terminus of the Gp27 protein; a structural component of the viral baseplate []. ; PDB: 1WTH_D 2Z6B_D 1K28_D.
Probab=23.78 E-value=52 Score=27.16 Aligned_cols=20 Identities=30% Similarity=0.288 Sum_probs=10.1
Q ss_pred CCCCCCCCCEEEEecCCCCC
Q psy6234 233 QTGGFVVGMKLESVDPLNLS 252 (260)
Q Consensus 233 ~~~~F~~GMKLEaVDp~~p~ 252 (260)
-.-++.+|||++-.||.|+.
T Consensus 112 GnF~l~PG~ki~F~D~KnQf 131 (168)
T PF09096_consen 112 GNFELTPGMKINFYDPKNQF 131 (168)
T ss_dssp --TT--TT-EEEEE-SS---
T ss_pred ccccccCCcEEEecChhhhh
Confidence 34568999999999999974
No 38
>KOG4218|consensus
Probab=23.44 E-value=16 Score=34.18 Aligned_cols=13 Identities=54% Similarity=0.723 Sum_probs=10.6
Q ss_pred CCCCCCCEEEEec
Q psy6234 235 GGFVVGMKLESVD 247 (260)
Q Consensus 235 ~~F~~GMKLEaVD 247 (260)
....+|||||||-
T Consensus 77 KCLtvGMklEAVR 89 (475)
T KOG4218|consen 77 KCLTVGMKLEAVR 89 (475)
T ss_pred HHhhhhhhHHHHH
Confidence 4478999999983
No 39
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=23.15 E-value=1.5e+02 Score=21.59 Aligned_cols=36 Identities=19% Similarity=0.217 Sum_probs=25.8
Q ss_pred cccccEEEEEeCCCCCCCCCCCCCCCcEEEEEEEEEe--CCEEEEEEccc
Q psy6234 8 ISVGMKVEVENTDTDTPSGNHDNYPDSFWVASVTQIA--GYKALLRYEGF 55 (260)
Q Consensus 8 ~~~GmklEv~~~~~~~~~~~~~~~p~~~wvA~V~~~~--G~rl~lr~~G~ 55 (260)
|++|+.+=+.-.+ ...|+|.|..+. ....++.|.|.
T Consensus 1 f~~gdlVWaK~~g------------~P~WPa~I~~~~~~~~k~~V~FfG~ 38 (80)
T cd06080 1 FEKNDLVWAKIQG------------YPWWPAVIKSISRKKQKARVNFIGD 38 (80)
T ss_pred CCCCCEEEEeCCC------------CCCCCEEEeeecCCCCEEEEEEeCC
Confidence 4567766665432 357999998886 56788999984
No 40
>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=21.72 E-value=2.6e+02 Score=24.05 Aligned_cols=37 Identities=22% Similarity=0.161 Sum_probs=28.2
Q ss_pred cCCCCCCcEEEEecCCCCCceEEEEEEeEeCCeEEEEEe
Q psy6234 125 KSRFRVDMNLEVVDKKRISQVKVATIEKIVGKRLQVHYY 163 (260)
Q Consensus 125 ~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g~rl~v~~~ 163 (260)
.-+.++|..+++.| ..+..+-|+|+++-...+.+...
T Consensus 14 VlR~k~Gd~i~v~d--g~g~~~~a~i~~i~~~~~~~~i~ 50 (225)
T PF04452_consen 14 VLRLKEGDSIEVFD--GDGGEYRAEITEISKKSATLRIL 50 (225)
T ss_dssp TST--TT-EEEEEE--SSSEEEEEEEEEEESSEEEEEEE
T ss_pred hcCCCCCCEEEEEE--CCCCEEEEEEEECcCcEEEEEEe
Confidence 34789999999999 45789999999999998866554
No 41
>PF14370 Topo_C_assoc: C-terminal topoisomerase domain; PDB: 1TL8_A 1K4T_A 1A36_A 1RR8_C 1T8I_A 1SC7_A 1EJ9_A 1LPQ_A 1RRJ_A 1A31_A ....
Probab=21.30 E-value=23 Score=25.37 Aligned_cols=19 Identities=32% Similarity=0.504 Sum_probs=12.6
Q ss_pred cCCCCceechhhhhcCCccc
Q psy6234 173 QDSPLIHPVGWARRTGHLIS 192 (260)
Q Consensus 173 ~~S~~I~PvGw~~~~g~~L~ 192 (260)
|..|+|. |.||.++++|+.
T Consensus 30 YlDPRIt-vAWck~~~VPie 48 (71)
T PF14370_consen 30 YLDPRIT-VAWCKRHEVPIE 48 (71)
T ss_dssp TS-HHHH-HHHHHHTT--GG
T ss_pred hcCcHHH-HHHHHHhCCcHH
Confidence 4556666 889999999875
Done!