Query psy6236
Match_columns 358
No_of_seqs 170 out of 503
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 21:14:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6236.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6236hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3766|consensus 100.0 8.1E-54 1.8E-58 430.1 17.1 240 1-355 94-344 (478)
2 KOG3766|consensus 100.0 7.5E-37 1.6E-41 307.6 15.9 223 14-355 1-238 (478)
3 smart00561 MBT Present in Dros 99.9 5E-28 1.1E-32 195.7 10.0 90 75-283 7-96 (96)
4 PF02820 MBT: mbt repeat; Int 99.9 5.1E-28 1.1E-32 186.4 6.3 70 1-70 1-72 (73)
5 smart00561 MBT Present in Dros 99.9 1.5E-25 3.2E-30 181.3 8.6 63 1-63 32-96 (96)
6 PF02820 MBT: mbt repeat; Int 99.9 6.9E-25 1.5E-29 169.0 6.3 47 240-291 27-73 (73)
7 smart00743 Agenet Tudor-like d 81.7 4.4 9.5E-05 29.3 5.3 37 105-142 2-39 (61)
8 PF11717 Tudor-knot: RNA bindi 78.1 3.9 8.5E-05 29.3 4.0 36 106-143 1-40 (55)
9 PF05641 Agenet: Agenet domain 71.6 7.9 0.00017 28.9 4.3 37 106-142 1-40 (68)
10 smart00743 Agenet Tudor-like d 71.0 13 0.00028 26.8 5.3 37 318-355 2-39 (61)
11 PF05641 Agenet: Agenet domain 53.8 25 0.00055 26.1 4.2 36 319-354 1-39 (68)
12 PRK10737 FKBP-type peptidyl-pr 47.4 29 0.00063 31.7 4.4 33 105-140 89-121 (196)
13 PF11717 Tudor-knot: RNA bindi 46.9 69 0.0015 22.8 5.4 35 10-44 12-52 (55)
14 PRK10737 FKBP-type peptidyl-pr 41.5 48 0.001 30.3 4.8 45 305-355 79-123 (196)
15 PF06003 SMN: Survival motor n 39.4 70 0.0015 30.6 5.8 40 103-143 66-107 (264)
16 smart00333 TUDOR Tudor domain. 34.3 1.4E+02 0.0029 20.7 5.4 35 105-141 2-37 (57)
17 smart00333 TUDOR Tudor domain. 34.2 1.2E+02 0.0026 21.0 5.0 36 318-355 2-38 (57)
18 cd05841 BS69_related The PWWP 30.7 52 0.0011 25.9 2.8 37 12-50 20-57 (83)
19 COG1047 SlpA FKBP-type peptidy 27.0 1.1E+02 0.0024 27.5 4.6 34 105-141 90-123 (174)
20 COG1047 SlpA FKBP-type peptidy 25.5 1.2E+02 0.0026 27.3 4.5 35 318-355 90-124 (174)
21 COG3472 Uncharacterized conser 24.7 31 0.00068 33.9 0.7 18 262-279 216-233 (342)
22 smart00541 FYRN "FY-rich" doma 24.6 24 0.00053 24.3 -0.0 13 263-275 11-23 (44)
23 PF06003 SMN: Survival motor n 23.5 1.7E+02 0.0037 27.9 5.5 41 315-356 65-107 (264)
24 PF15057 DUF4537: Domain of un 22.0 3.6E+02 0.0078 22.6 6.6 74 229-353 17-96 (124)
25 PF13162 DUF3997: Protein of u 21.2 3.2E+02 0.007 22.8 6.0 61 228-308 35-106 (115)
26 PF12945 YcgR_2: Flagellar pro 20.4 1.6E+02 0.0035 22.1 3.9 35 319-353 1-38 (87)
No 1
>KOG3766|consensus
Probab=100.00 E-value=8.1e-54 Score=430.08 Aligned_cols=240 Identities=33% Similarity=0.547 Sum_probs=214.7
Q ss_pred CEEEEecCCCCCCEEEEEEEEEeCCeEEEEEeC--CCCCEEEeCCCCCeeccchhhhcCccccCCCCCC-cccccccc--
Q psy6236 1 MNLEVVDKKRISQVKVATIEKIVGKRLQVHYYD--DDDGFCCHQDSPLIHPVGWARRTGHLISAPPLYT-DRCAKGIR-- 75 (358)
Q Consensus 1 MkLE~id~~~~~~~~vAtV~~v~G~rl~l~~~~--~~~dfW~~~~S~~IhPVGWc~~ng~~L~pP~~y~-~~~~~~~~-- 75 (358)
||||++|+.+++.+|+|||++++|+|++|+|+| +.+|||+|++||+|||+|||+++|+.|+||.+|. .+.+.|..
T Consensus 94 mklE~vd~~~~s~~~~asV~~v~g~Rl~l~~~g~~~~~dfW~~~~sp~i~pvGw~~~~g~~l~pP~~~~~~~~~s~~~~~ 173 (478)
T KOG3766|consen 94 MKLEAVDPDNPSSTWIATVEEVCGGRLRLRFDGLDENYDFWLHALSPDIHPVGWCEKSGHKLQPPLGYRIRNEYSWEQYL 173 (478)
T ss_pred ceEEEEecCCCceEEEEEEEeecccEEEEEecCcccCCccceecCCccccccccccccCcccCCCccccccccccccchh
Confidence 999999999999999999999999999999997 5699999999999999999999999999999997 44444421
Q ss_pred -----CccchhhhcCCCCcCCCCCCCCCCCCCCCCCCCCcEEEEecCCCCCCeEEEEEEEecceeeEEeecceeeccCCC
Q psy6236 76 -----DRDDATEDLFPLSVGTAGTKLSPGTGQTGGFVVGMKLESVDPLNLSDICVATVMKMEGYMMLEELDEGMYYEDPT 150 (358)
Q Consensus 76 -----~~~~ap~~lF~~~~~~~~~~~~p~~~~~~~F~vGmKLEavD~~np~~icvATV~~v~G~~l~~~~d~w~~~~sp~ 150 (358)
++..++..+|..... .....+.|++||||||||+.||..||||||++
T Consensus 174 ~k~~~~~~~~p~~~~~~~~~--------~~~~~~~F~vgmkLEavd~~np~~IcvATV~~-------------------- 225 (478)
T KOG3766|consen 174 EKTLGQAELAPKRLFVREPS--------RDPPPSRFQVGMKLEAVDDLNPSAICVATVVE-------------------- 225 (478)
T ss_pred hhcccccccCcccccccccc--------cCCCCCcceeccEEEEeccCCCcceeeeehhe--------------------
Confidence 134455555533221 12246899999999999999999999999999
Q ss_pred CccccCCCCcCCCccCCCCCCCccccCCCCCCcCccccccccCCCCCccccccCCccccccCceecccccccccCCceee
Q psy6236 151 GMSKISNTATQPAVNSHHGPNRKIKPVKHPGLKLQTPIAYQKDTDPNVIPIQKDGMAVCEKCGAMGVKHAFYTRERRFCS 230 (358)
Q Consensus 151 gwa~~~~~~~~p~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~Gmk~~~~~~~~~~at 230 (358)
T Consensus 226 -------------------------------------------------------------------------------- 225 (478)
T KOG3766|consen 226 -------------------------------------------------------------------------------- 225 (478)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred eeEeecCceEEEEEcCCCCCCCCCcceEEEecCCCCcccchhhhhcCCCCCCCC-CCcccccCHhHHHhhcCCCCCCccc
Q psy6236 231 LAQVLNDRFMMIRVNSYDEDTNGGLDWFCYHMSSPYIFAPGFCAAHGINLTPPK-GYTHATFSWEQYCRDTNSIPAPPEL 309 (358)
Q Consensus 231 v~~v~~~~~~~v~~D~~~~~~~~~~d~~~~h~~Sp~I~PvGwc~~~g~~L~pP~-gy~~~~F~W~~YL~~~~a~~aP~~~ 309 (358)
|++++||+|++|+|+.+ .+|||| +.+|++|||||||.+||+.|+||+ +|....|.|.+|+.++++.+++..+
T Consensus 226 ---V~~~~~i~v~~d~~~~~---~~d~~~-~~~s~~I~Pv~~~~~~~~~L~ppk~~~~~~~~~~~~~~e~~~~~~~~~~~ 298 (478)
T KOG3766|consen 226 ---VFDSREILVHFDGWDKS---ELDYWC-DHDSPKIFPVGWCCKNGDKLTPPKDYYEADNFKWEKYLEETGASAAPSRA 298 (478)
T ss_pred ---ecccceEEEEeccCCCc---ccceeE-ecCCCceeeeeEhhhcCcccCCCcccccccccccccccccccccccchhc
Confidence 68999999999999873 289998 788899999999999999999999 8889999999999999999999999
Q ss_pred cCCCCCCCCCCCCCeeeeecCCCCCCcceeEEEeEecceEEEEeCC
Q psy6236 310 FNQKINGEALLTLTKEKCFDLTGGKAGPSIKIAHLITCLNKIVQNP 355 (358)
Q Consensus 310 F~~~~~~~~F~~gmkLEavd~~~p~~icvAtV~~v~g~~~~i~~~~ 355 (358)
|++..+.+.|++|||||++|+++|.+||||||.++...++-||+|-
T Consensus 299 ~~p~~p~~~~k~~~k~e~~d~~~p~~~~vatv~~~~~~~~~~h~d~ 344 (478)
T KOG3766|consen 299 FNPRCPNHLFKVGMKLEAVDLRNPRLICVATVEKVCKTPLIIHFDG 344 (478)
T ss_pred cCCCCCCccccccceeeeccccCCcccccccchhccccccccCCCC
Confidence 9999999999999999999999999999999999999999999984
No 2
>KOG3766|consensus
Probab=100.00 E-value=7.5e-37 Score=307.56 Aligned_cols=223 Identities=24% Similarity=0.336 Sum_probs=194.2
Q ss_pred EEEEEEEEEeCCeEEEEEeCCCCCEEEeCCCCCeeccchhhhcCccccCCCCCCccccccc-------cCccchhhhcCC
Q psy6236 14 VKVATIEKIVGKRLQVHYYDDDDGFCCHQDSPLIHPVGWARRTGHLISAPPLYTDRCAKGI-------RDRDDATEDLFP 86 (358)
Q Consensus 14 ~~vAtV~~v~G~rl~l~~~~~~~dfW~~~~S~~IhPVGWc~~ng~~L~pP~~y~~~~~~~~-------~~~~~ap~~lF~ 86 (358)
+|+|+++..++...++++++-.++|||+....+++|+|||..++..+.+|.....+..+|. +++..+|...+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dw~~~l~~~~~g~~~~Pv~~~~ 80 (478)
T KOG3766|consen 1 FWVANVIQTGGQLHLLRYEGYGHDLWCTSGTADLEPIGYCPENSKKLVAPRAIKEKKEDWSWELYLEETGSRTAPVEFGR 80 (478)
T ss_pred CcceeeccccccccccceecccccchhhcCCCCceeccccccccccccCcccccccccCcchhheeccccccccCccccc
Confidence 4799999999999999999877999999999999999999999999999999887766652 355667766433
Q ss_pred CCcCCCCCCCCCCCCCCCCCCCCcEEEEecCCCCCCeEEEEEEEecceeeEEeecceeeccCCCCccccCCCCcCCCccC
Q psy6236 87 LSVGTAGTKLSPGTGQTGGFVVGMKLESVDPLNLSDICVATVMKMEGYMMLEELDEGMYYEDPTGMSKISNTATQPAVNS 166 (358)
Q Consensus 87 ~~~~~~~~~~~p~~~~~~~F~vGmKLEavD~~np~~icvATV~~v~G~~l~~~~d~w~~~~sp~gwa~~~~~~~~p~~~~ 166 (358)
+.. ....+.|++||||||+|+.|+...|+|||++++|+|+.++|||
T Consensus 81 ~~~----------~~~~~~~k~GmklE~vd~~~~s~~~~asV~~v~g~Rl~l~~~g------------------------ 126 (478)
T KOG3766|consen 81 QPT----------ESPNNCFKPGMKLEAVDPDNPSSTWIATVEEVCGGRLRLRFDG------------------------ 126 (478)
T ss_pred ccc----------cCCCcccCCCceEEEEecCCCceEEEEEEEeecccEEEEEecC------------------------
Confidence 321 2246889999999999999999999999999999887766665
Q ss_pred CCCCCCccccCCCCCCcCccccccccCCCCCccccccCCccccccCceecccccccccCCceeeeeEeecCceEEEEEcC
Q psy6236 167 HHGPNRKIKPVKHPGLKLQTPIAYQKDTDPNVIPIQKDGMAVCEKCGAMGVKHAFYTRERRFCSLAQVLNDRFMMIRVNS 246 (358)
Q Consensus 167 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~Gmk~~~~~~~~~~atv~~v~~~~~~~v~~D~ 246 (358)
T Consensus 127 -------------------------------------------------------------------------------- 126 (478)
T KOG3766|consen 127 -------------------------------------------------------------------------------- 126 (478)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCCCCCCcceEEEecCCCCcccchhhhhcCCCCCCCCCCc-ccccCHhHHHhhcC--CCCCCccccCCCC----CCCCC
Q psy6236 247 YDEDTNGGLDWFCYHMSSPYIFAPGFCAAHGINLTPPKGYT-HATFSWEQYCRDTN--SIPAPPELFNQKI----NGEAL 319 (358)
Q Consensus 247 ~~~~~~~~~d~~~~h~~Sp~I~PvGwc~~~g~~L~pP~gy~-~~~F~W~~YL~~~~--a~~aP~~~F~~~~----~~~~F 319 (358)
++. .+|+|+ |+.||+|||+|||+++|+.|+||.+|. .++++|+.||.++- +.++|.+.|...+ +.+.|
T Consensus 127 ~~~----~~dfW~-~~~sp~i~pvGw~~~~g~~l~pP~~~~~~~~~s~~~~~~k~~~~~~~~p~~~~~~~~~~~~~~~~F 201 (478)
T KOG3766|consen 127 LDE----NYDFWL-HALSPDIHPVGWCEKSGHKLQPPLGYRIRNEYSWEQYLEKTLGQAELAPKRLFVREPSRDPPPSRF 201 (478)
T ss_pred ccc----CCccce-ecCCccccccccccccCcccCCCccccccccccccchhhhcccccccCcccccccccccCCCCCcc
Confidence 332 568897 999999999999999999999999998 78999999999973 8889998886553 34899
Q ss_pred CCCCeeeeecCCCCCCcceeEEEeEecce-EEEEeCC
Q psy6236 320 LTLTKEKCFDLTGGKAGPSIKIAHLITCL-NKIVQNP 355 (358)
Q Consensus 320 ~~gmkLEavd~~~p~~icvAtV~~v~g~~-~~i~~~~ 355 (358)
++||||||||+.||..||||||++|.++. |.|++|-
T Consensus 202 ~vgmkLEavd~~np~~IcvATV~~V~~~~~i~v~~d~ 238 (478)
T KOG3766|consen 202 QVGMKLEAVDDLNPSAICVATVVEVFDSREILVHFDG 238 (478)
T ss_pred eeccEEEEeccCCCcceeeeehheecccceEEEEecc
Confidence 99999999999999999999999999999 9999984
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=99.95 E-value=5e-28 Score=195.71 Aligned_cols=90 Identities=41% Similarity=0.787 Sum_probs=76.7
Q ss_pred cCccchhhhcCCCCcCCCCCCCCCCCCCCCCCCCCcEEEEecCCCCCCeEEEEEEEecceeeEEeecceeeccCCCCccc
Q psy6236 75 RDRDDATEDLFPLSVGTAGTKLSPGTGQTGGFVVGMKLESVDPLNLSDICVATVMKMEGYMMLEELDEGMYYEDPTGMSK 154 (358)
Q Consensus 75 ~~~~~ap~~lF~~~~~~~~~~~~p~~~~~~~F~vGmKLEavD~~np~~icvATV~~v~G~~l~~~~d~w~~~~sp~gwa~ 154 (358)
+++..||.++|++.. ....++|++||||||+|++||.+||||||+++.|+|
T Consensus 7 ~~a~~aP~~~F~~~~----------~~~~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g~~------------------- 57 (96)
T smart00561 7 TGARAAPVELFKQPV----------DSPPNGFKVGMKLEAVDPRNPSLICVATVVEVKGYR------------------- 57 (96)
T ss_pred cCCCcCCHHHhCCCC----------CCccCcccCCCEEEEECCCCCceEEEEEEEEEECCE-------------------
Confidence 456789999999721 224789999999999999999999999999976655
Q ss_pred cCCCCcCCCccCCCCCCCccccCCCCCCcCccccccccCCCCCccccccCCccccccCceecccccccccCCceeeeeEe
Q psy6236 155 ISNTATQPAVNSHHGPNRKIKPVKHPGLKLQTPIAYQKDTDPNVIPIQKDGMAVCEKCGAMGVKHAFYTRERRFCSLAQV 234 (358)
Q Consensus 155 ~~~~~~~p~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~Gmk~~~~~~~~~~atv~~v 234 (358)
T Consensus 58 -------------------------------------------------------------------------------- 57 (96)
T smart00561 58 -------------------------------------------------------------------------------- 57 (96)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ecCceEEEEEcCCCCCCCCCcceEEEecCCCCcccchhhhhcCCCCCCC
Q psy6236 235 LNDRFMMIRVNSYDEDTNGGLDWFCYHMSSPYIFAPGFCAAHGINLTPP 283 (358)
Q Consensus 235 ~~~~~~~v~~D~~~~~~~~~~d~~~~h~~Sp~I~PvGwc~~~g~~L~pP 283 (358)
++|+||||++ .+|+|| +.+|++|||||||++||++|+||
T Consensus 58 -----l~v~~dg~~~----~~D~W~-~~~S~~I~PvGwc~~~g~~L~pP 96 (96)
T smart00561 58 -----LLLHFDGWDD----KYDFWC-DADSPDIHPVGWCEKNGHPLQPP 96 (96)
T ss_pred -----EEEEEccCCC----cCCEEE-ECCCCCcccCchHHhcCCcCCCC
Confidence 5566666654 578998 99999999999999999999998
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=99.94 E-value=5.1e-28 Score=186.41 Aligned_cols=70 Identities=46% Similarity=0.790 Sum_probs=65.0
Q ss_pred CEEEEecCCCCCCEEEEEEEEEeCCeEEEEEeC--CCCCEEEeCCCCCeeccchhhhcCccccCCCCCCccc
Q psy6236 1 MNLEVVDKKRISQVKVATIEKIVGKRLQVHYYD--DDDGFCCHQDSPLIHPVGWARRTGHLISAPPLYTDRC 70 (358)
Q Consensus 1 MkLE~id~~~~~~~~vAtV~~v~G~rl~l~~~~--~~~dfW~~~~S~~IhPVGWc~~ng~~L~pP~~y~~~~ 70 (358)
|||||+|+++++.+|||||++|+|+||+|||+| +++|||||++|++|||||||++||+.|+||++|.++.
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 999999999999999999999999999999997 5679999999999999999999999999999998764
No 5
>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=99.92 E-value=1.5e-25 Score=181.30 Aligned_cols=63 Identities=44% Similarity=0.811 Sum_probs=61.5
Q ss_pred CEEEEecCCCCCCEEEEEEEEEeCCeEEEEEeC--CCCCEEEeCCCCCeeccchhhhcCccccCC
Q psy6236 1 MNLEVVDKKRISQVKVATIEKIVGKRLQVHYYD--DDDGFCCHQDSPLIHPVGWARRTGHLISAP 63 (358)
Q Consensus 1 MkLE~id~~~~~~~~vAtV~~v~G~rl~l~~~~--~~~dfW~~~~S~~IhPVGWc~~ng~~L~pP 63 (358)
|||||+|++|++.+|||||++|+|+||+|||+| +.+|||||++|++|||||||++||+.|+||
T Consensus 32 mkLEavD~~~~~~i~vAtV~~v~g~~l~v~~dg~~~~~D~W~~~~S~~I~PvGwc~~~g~~L~pP 96 (96)
T smart00561 32 MKLEAVDPRNPSLICVATVVEVKGYRLLLHFDGWDDKYDFWCDADSPDIHPVGWCEKNGHPLQPP 96 (96)
T ss_pred CEEEEECCCCCceEEEEEEEEEECCEEEEEEccCCCcCCEEEECCCCCcccCchHHhcCCcCCCC
Confidence 999999999999999999999999999999986 679999999999999999999999999998
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=99.91 E-value=6.9e-25 Score=168.99 Aligned_cols=47 Identities=43% Similarity=1.048 Sum_probs=38.3
Q ss_pred EEEEEcCCCCCCCCCcceEEEecCCCCcccchhhhhcCCCCCCCCCCccccc
Q psy6236 240 MMIRVNSYDEDTNGGLDWFCYHMSSPYIFAPGFCAAHGINLTPPKGYTHATF 291 (358)
Q Consensus 240 ~~v~~D~~~~~~~~~~d~~~~h~~Sp~I~PvGwc~~~g~~L~pP~gy~~~~F 291 (358)
++|++||+++ .+|+|| |.+|+.|||||||++||++|+||+||..++|
T Consensus 27 l~v~~dg~~~----~~d~w~-~~~S~~i~PvGw~~~~g~~L~pP~~~~~~~~ 73 (73)
T PF02820_consen 27 LLVRYDGWDD----DYDFWC-HIDSPRIFPVGWCEKNGHPLQPPKGYRSKTF 73 (73)
T ss_dssp EEEEETTSTG----GGEEEE-ETTSTTEEETTHHHHHT-EEE-STTCSSTG-
T ss_pred EEEEEcCCCC----CccEEE-ECCCCCeeecchHHhcCCcccCCCCCccCCC
Confidence 6677777765 358887 9999999999999999999999999998776
No 7
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=81.72 E-value=4.4 Score=29.29 Aligned_cols=37 Identities=22% Similarity=0.108 Sum_probs=31.2
Q ss_pred CCCCCcEEEEecCCCCCCeEEEEEEEecc-eeeEEeecc
Q psy6236 105 GFVVGMKLESVDPLNLSDICVATVMKMEG-YMMLEELDE 142 (358)
Q Consensus 105 ~F~vGmKLEavD~~np~~icvATV~~v~G-~~l~~~~d~ 142 (358)
.|++|.++||...- ...-+.|+|+++.| .+..+.|+.
T Consensus 2 ~~~~G~~Ve~~~~~-~~~W~~a~V~~~~~~~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKE-EDSWWEAVVTKVLGDGKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECC-CCEEEEEEEEEECCCCEEEEEECC
Confidence 58999999999764 57899999999988 667777765
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=78.13 E-value=3.9 Score=29.33 Aligned_cols=36 Identities=14% Similarity=0.059 Sum_probs=26.1
Q ss_pred CCCCcEEEEecCCCCCCeEEEEEEEecce----eeEEeecce
Q psy6236 106 FVVGMKLESVDPLNLSDICVATVMKMEGY----MMLEELDEG 143 (358)
Q Consensus 106 F~vGmKLEavD~~np~~icvATV~~v~G~----~l~~~~d~w 143 (358)
|++|+++-+.+ .......|+|+++... .-.+||.||
T Consensus 1 ~~vG~~v~~~~--~~~~~y~A~I~~~r~~~~~~~YyVHY~g~ 40 (55)
T PF11717_consen 1 FEVGEKVLCKY--KDGQWYEAKILDIREKNGEPEYYVHYQGW 40 (55)
T ss_dssp --TTEEEEEEE--TTTEEEEEEEEEEEECTTCEEEEEEETTS
T ss_pred CCcCCEEEEEE--CCCcEEEEEEEEEEecCCCEEEEEEcCCC
Confidence 68999999998 5678999999998542 345666654
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=71.58 E-value=7.9 Score=28.93 Aligned_cols=37 Identities=30% Similarity=0.299 Sum_probs=26.0
Q ss_pred CCCCcEEEEecCCC--CCCeEEEEEEEecce-eeEEeecc
Q psy6236 106 FVVGMKLESVDPLN--LSDICVATVMKMEGY-MMLEELDE 142 (358)
Q Consensus 106 F~vGmKLEavD~~n--p~~icvATV~~v~G~-~l~~~~d~ 142 (358)
|++|+++|+.-..+ ...-..|||++..+. +.+++++.
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 78999999964443 357889999999998 88888863
No 10
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=70.99 E-value=13 Score=26.78 Aligned_cols=37 Identities=3% Similarity=-0.098 Sum_probs=32.1
Q ss_pred CCCCCCeeeeecCCCCCCcceeEEEeEec-ceEEEEeCC
Q psy6236 318 ALLTLTKEKCFDLTGGKAGPSIKIAHLIT-CLNKIVQNP 355 (358)
Q Consensus 318 ~F~~gmkLEavd~~~p~~icvAtV~~v~g-~~~~i~~~~ 355 (358)
.|++|.++||-..- ...=..|+|+++.+ ....|.|+.
T Consensus 2 ~~~~G~~Ve~~~~~-~~~W~~a~V~~~~~~~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKE-EDSWWEAVVTKVLGDGKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECC-CCEEEEEEEEEECCCCEEEEEECC
Confidence 59999999999875 46778899999999 889999986
No 11
>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=53.79 E-value=25 Score=26.12 Aligned_cols=36 Identities=6% Similarity=-0.218 Sum_probs=26.3
Q ss_pred CCCCCeeeeecCCCCC--CcceeEEEeEecc-eEEEEeC
Q psy6236 319 LLTLTKEKCFDLTGGK--AGPSIKIAHLITC-LNKIVQN 354 (358)
Q Consensus 319 F~~gmkLEavd~~~p~--~icvAtV~~v~g~-~~~i~~~ 354 (358)
|++|+++|+--..+-. .=..|+|.+..+. .+.|.|+
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~~~~V~Y~ 39 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGDDKYLVEYD 39 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT-EEEEEET
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCCcEEEEEEC
Confidence 8899999997655442 4457999999999 9999996
No 12
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=47.44 E-value=29 Score=31.75 Aligned_cols=33 Identities=12% Similarity=0.122 Sum_probs=26.0
Q ss_pred CCCCCcEEEEecCCCCCCeEEEEEEEecceeeEEee
Q psy6236 105 GFVVGMKLESVDPLNLSDICVATVMKMEGYMMLEEL 140 (358)
Q Consensus 105 ~F~vGmKLEavD~~np~~icvATV~~v~G~~l~~~~ 140 (358)
.+++||++++..... -.+++|+++.+..+.+-+
T Consensus 89 ~l~~G~~~~~~~~~G---~~~~~V~ev~~d~V~vD~ 121 (196)
T PRK10737 89 ELQVGMRFLAETDQG---PVPVEITAVEDDHVVVDG 121 (196)
T ss_pred CCCCCCEEEEeCCCC---cEEEEEEEEcCCEEEEEC
Confidence 479999999977655 258999999888877544
No 13
>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=46.94 E-value=69 Score=22.76 Aligned_cols=35 Identities=23% Similarity=0.103 Sum_probs=27.1
Q ss_pred CCCCEEEEEEEEEeCC----eEEEEEeC--CCCCEEEeCCC
Q psy6236 10 RISQVKVATIEKIVGK----RLQVHYYD--DDDGFCCHQDS 44 (358)
Q Consensus 10 ~~~~~~vAtV~~v~G~----rl~l~~~~--~~~dfW~~~~S 44 (358)
.......|+|+++-.. .+.|||.| ...|=|+..+.
T Consensus 12 ~~~~~y~A~I~~~r~~~~~~~YyVHY~g~nkR~DeWV~~~~ 52 (55)
T PF11717_consen 12 KDGQWYEAKILDIREKNGEPEYYVHYQGWNKRLDEWVPESR 52 (55)
T ss_dssp TTTEEEEEEEEEEEECTTCEEEEEEETTSTGCC-EEEETTT
T ss_pred CCCcEEEEEEEEEEecCCCEEEEEEcCCCCCCceeeecHHH
Confidence 4567889999999744 49999986 67999998764
No 14
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=41.45 E-value=48 Score=30.34 Aligned_cols=45 Identities=13% Similarity=0.053 Sum_probs=33.5
Q ss_pred CCccccCCCCCCCCCCCCCeeeeecCCCCCCcceeEEEeEecceEEEEeCC
Q psy6236 305 APPELFNQKINGEALLTLTKEKCFDLTGGKAGPSIKIAHLITCLNKIVQNP 355 (358)
Q Consensus 305 aP~~~F~~~~~~~~F~~gmkLEavd~~~p~~icvAtV~~v~g~~~~i~~~~ 355 (358)
.|.+.|... ..+++||++++-....+ .+++|++|.+..+.|-||.
T Consensus 79 vpr~~F~~~---~~l~~G~~~~~~~~~G~---~~~~V~ev~~d~V~vD~NH 123 (196)
T PRK10737 79 VPKDVFMGV---DELQVGMRFLAETDQGP---VPVEITAVEDDHVVVDGNH 123 (196)
T ss_pred ecHHHCCCc---cCCCCCCEEEEeCCCCc---EEEEEEEEcCCEEEEECCC
Confidence 455556432 24899999999765553 5899999999999888773
No 15
>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=39.41 E-value=70 Score=30.58 Aligned_cols=40 Identities=15% Similarity=0.018 Sum_probs=28.3
Q ss_pred CCCCCCCcEEEEecCCCCCCeEEEEEEEecc--eeeEEeecce
Q psy6236 103 TGGFVVGMKLESVDPLNLSDICVATVMKMEG--YMMLEELDEG 143 (358)
Q Consensus 103 ~~~F~vGmKLEavD~~np~~icvATV~~v~G--~~l~~~~d~w 143 (358)
...++||+++.|+= -+-.++..|||.+|.+ ....|.|++|
T Consensus 66 ~~~WkvGd~C~A~~-s~Dg~~Y~A~I~~i~~~~~~~~V~f~gY 107 (264)
T PF06003_consen 66 NKKWKVGDKCMAVY-SEDGQYYPATIESIDEEDGTCVVVFTGY 107 (264)
T ss_dssp TT---TT-EEEEE--TTTSSEEEEEEEEEETTTTEEEEEETTT
T ss_pred ccCCCCCCEEEEEE-CCCCCEEEEEEEEEcCCCCEEEEEEccc
Confidence 57899999999993 4557899999999986 4566888764
No 16
>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=34.28 E-value=1.4e+02 Score=20.70 Aligned_cols=35 Identities=20% Similarity=0.175 Sum_probs=29.2
Q ss_pred CCCCCcEEEEecCCCCCCeEEEEEEEecc-eeeEEeec
Q psy6236 105 GFVVGMKLESVDPLNLSDICVATVMKMEG-YMMLEELD 141 (358)
Q Consensus 105 ~F~vGmKLEavD~~np~~icvATV~~v~G-~~l~~~~d 141 (358)
.|++|..+.|.. +-....-|+|+++.+ ....+.|.
T Consensus 2 ~~~~G~~~~a~~--~d~~wyra~I~~~~~~~~~~V~f~ 37 (57)
T smart00333 2 TFKVGDKVAARW--EDGEWYRARIIKVDGEQLYEVFFI 37 (57)
T ss_pred CCCCCCEEEEEe--CCCCEEEEEEEEECCCCEEEEEEE
Confidence 488999999997 567899999999988 66677775
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=34.16 E-value=1.2e+02 Score=21.01 Aligned_cols=36 Identities=8% Similarity=-0.165 Sum_probs=30.4
Q ss_pred CCCCCCeeeeecCCCCCCcceeEEEeEec-ceEEEEeCC
Q psy6236 318 ALLTLTKEKCFDLTGGKAGPSIKIAHLIT-CLNKIVQNP 355 (358)
Q Consensus 318 ~F~~gmkLEavd~~~p~~icvAtV~~v~g-~~~~i~~~~ 355 (358)
.|++|..+.|.. . -..-.-|+|.++.+ ..+.|.|+-
T Consensus 2 ~~~~G~~~~a~~-~-d~~wyra~I~~~~~~~~~~V~f~D 38 (57)
T smart00333 2 TFKVGDKVAARW-E-DGEWYRARIIKVDGEQLYEVFFID 38 (57)
T ss_pred CCCCCCEEEEEe-C-CCCEEEEEEEEECCCCEEEEEEEC
Confidence 488999999998 4 46778899999999 888888864
No 18
>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=30.70 E-value=52 Score=25.88 Aligned_cols=37 Identities=14% Similarity=0.293 Sum_probs=28.1
Q ss_pred CCEEEEEEEEEeCCeEEEEEeC-CCCCEEEeCCCCCeecc
Q psy6236 12 SQVKVATIEKIVGKRLQVHYYD-DDDGFCCHQDSPLIHPV 50 (358)
Q Consensus 12 ~~~~vAtV~~v~G~rl~l~~~~-~~~dfW~~~~S~~IhPV 50 (358)
...|+|.|++..+..+.|+|.| +...=|+... +|+|.
T Consensus 20 yp~WPAkV~~~~~~~~~V~FFG~t~~~a~v~~~--~i~~~ 57 (83)
T cd05841 20 FPYWPAKVMRVEDNQVDVRFFGGQHDRAWIPSN--NIQPI 57 (83)
T ss_pred CCCCCEEEeecCCCeEEEEEcCCCCCeEEEehH--Heeeh
Confidence 4579999999999999999998 4444566554 45544
No 19
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=27.01 E-value=1.1e+02 Score=27.49 Aligned_cols=34 Identities=18% Similarity=0.219 Sum_probs=28.5
Q ss_pred CCCCCcEEEEecCCCCCCeEEEEEEEecceeeEEeec
Q psy6236 105 GFVVGMKLESVDPLNLSDICVATVMKMEGYMMLEELD 141 (358)
Q Consensus 105 ~F~vGmKLEavD~~np~~icvATV~~v~G~~l~~~~d 141 (358)
..++||.+++-++- .-.+++|++|.|.++.+-|-
T Consensus 90 ~~~vGm~~~~~~~~---~~~~~~V~~V~~~~V~VDfN 123 (174)
T COG1047 90 ELEVGMEVEAEGGD---GEIPGVVTEVSGDRVTVDFN 123 (174)
T ss_pred CCCCCcEEEEcCCC---ceeeEEEEEEcCCEEEEeCC
Confidence 57899999998776 56789999999999886553
No 20
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=25.53 E-value=1.2e+02 Score=27.33 Aligned_cols=35 Identities=6% Similarity=-0.224 Sum_probs=29.9
Q ss_pred CCCCCCeeeeecCCCCCCcceeEEEeEecceEEEEeCC
Q psy6236 318 ALLTLTKEKCFDLTGGKAGPSIKIAHLITCLNKIVQNP 355 (358)
Q Consensus 318 ~F~~gmkLEavd~~~p~~icvAtV~~v~g~~~~i~~~~ 355 (358)
..++||.+++-+.- --.+++|++|.++.+.|-||-
T Consensus 90 ~~~vGm~~~~~~~~---~~~~~~V~~V~~~~V~VDfNH 124 (174)
T COG1047 90 ELEVGMEVEAEGGD---GEIPGVVTEVSGDRVTVDFNH 124 (174)
T ss_pred CCCCCcEEEEcCCC---ceeeEEEEEEcCCEEEEeCCC
Confidence 57999999997765 347899999999999998874
No 21
>COG3472 Uncharacterized conserved protein [Function unknown]
Probab=24.71 E-value=31 Score=33.91 Aligned_cols=18 Identities=22% Similarity=0.438 Sum_probs=16.3
Q ss_pred cCCCCcccchhhhhcCCC
Q psy6236 262 MSSPYIFAPGFCAAHGIN 279 (358)
Q Consensus 262 ~~Sp~I~PvGwc~~~g~~ 279 (358)
.++..|||.+||++.||.
T Consensus 216 l~~HHIFP~~~lr~~GI~ 233 (342)
T COG3472 216 LNKHHIFPNAYLRKLGIS 233 (342)
T ss_pred chhcccCcHHHHHhcCCC
Confidence 688999999999999974
No 22
>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=24.64 E-value=24 Score=24.26 Aligned_cols=13 Identities=31% Similarity=0.503 Sum_probs=11.2
Q ss_pred CCCCcccchhhhh
Q psy6236 263 SSPYIFAPGFCAA 275 (358)
Q Consensus 263 ~Sp~I~PvGwc~~ 275 (358)
++..|||+||+..
T Consensus 11 ~~~~IyP~Gy~s~ 23 (44)
T smart00541 11 SEDAIFPVGYKST 23 (44)
T ss_pred cCCEEecCCEEEE
Confidence 8899999998765
No 23
>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=23.48 E-value=1.7e+02 Score=27.90 Aligned_cols=41 Identities=7% Similarity=-0.196 Sum_probs=28.8
Q ss_pred CCCCCCCCCeeeeecCCCCCCcceeEEEeEec--ceEEEEeCCC
Q psy6236 315 NGEALLTLTKEKCFDLTGGKAGPSIKIAHLIT--CLNKIVQNPN 356 (358)
Q Consensus 315 ~~~~F~~gmkLEavd~~~p~~icvAtV~~v~g--~~~~i~~~~~ 356 (358)
+.+.+++|.++.|+=- +-..+..|||++|.. ....|.|+--
T Consensus 65 ~~~~WkvGd~C~A~~s-~Dg~~Y~A~I~~i~~~~~~~~V~f~gY 107 (264)
T PF06003_consen 65 PNKKWKVGDKCMAVYS-EDGQYYPATIESIDEEDGTCVVVFTGY 107 (264)
T ss_dssp TTT---TT-EEEEE-T-TTSSEEEEEEEEEETTTTEEEEEETTT
T ss_pred cccCCCCCCEEEEEEC-CCCCEEEEEEEEEcCCCCEEEEEEccc
Confidence 3568999999999953 446899999999996 4778888754
No 24
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=22.02 E-value=3.6e+02 Score=22.57 Aligned_cols=74 Identities=8% Similarity=-0.097 Sum_probs=0.0
Q ss_pred eeeeEeecCceEEEEEcCCCCCCCCCcceEEEecCCCCcccchhhhhcCCCCCCCCCCcccccCHhHHHhhcCCCCCCcc
Q psy6236 229 CSLAQVLNDRFMMIRVNSYDEDTNGGLDWFCYHMSSPYIFAPGFCAAHGINLTPPKGYTHATFSWEQYCRDTNSIPAPPE 308 (358)
Q Consensus 229 atv~~v~~~~~~~v~~D~~~~~~~~~~d~~~~h~~Sp~I~PvGwc~~~g~~L~pP~gy~~~~F~W~~YL~~~~a~~aP~~ 308 (358)
+||.+.++.+.++|+|++.+. .-....+|.+.+.+..+.
T Consensus 17 GtV~~~~~~~~~lV~f~~~~~----------~~v~~~~iI~~~~~~~~~------------------------------- 55 (124)
T PF15057_consen 17 GTVKKCVSSGQFLVEFDDGDT----------QEVPISDIIALSDAMRHS------------------------------- 55 (124)
T ss_pred EEEEEccCCCEEEEEECCCCE----------EEeChHHeEEccCcccCc-------------------------------
Q ss_pred ccCCCCCCCCCCCCCeeeeecCCCCCCcceeEEE------eEecceEEEEe
Q psy6236 309 LFNQKINGEALLTLTKEKCFDLTGGKAGPSIKIA------HLITCLNKIVQ 353 (358)
Q Consensus 309 ~F~~~~~~~~F~~gmkLEavd~~~p~~icvAtV~------~v~g~~~~i~~ 353 (358)
+++|.++=|--......-.||+|. ...+..+.|+|
T Consensus 56 ----------L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f 96 (124)
T PF15057_consen 56 ----------LQVGDKVLAPWEPDDCRYGPGTVIAGPERRASEDKEYTVRF 96 (124)
T ss_pred ----------CCCCCEEEEecCcCCCEEeCEEEEECccccccCCceEEEEE
No 25
>PF13162 DUF3997: Protein of unknown function (DUF3997)
Probab=21.18 E-value=3.2e+02 Score=22.83 Aligned_cols=61 Identities=13% Similarity=0.340 Sum_probs=37.7
Q ss_pred eeeeeEe-ecCceEEEEEcCC-CCCCCC--------Cc-ceEEEecCCCCcccchhhhhcCCCCCCCCCCcccccCHhHH
Q psy6236 228 FCSLAQV-LNDRFMMIRVNSY-DEDTNG--------GL-DWFCYHMSSPYIFAPGFCAAHGINLTPPKGYTHATFSWEQY 296 (358)
Q Consensus 228 ~atv~~v-~~~~~~~v~~D~~-~~~~~~--------~~-d~~~~h~~Sp~I~PvGwc~~~g~~L~pP~gy~~~~F~W~~Y 296 (358)
.|+|.+| .|+.|+++.-.+. ...... .. .||.....+..++ +.|++.+|
T Consensus 35 ~a~V~~i~~dd~yIiaKq~p~~~~d~~~~~~~~~~~~~e~Y~IId~~~~~v~--------------------GP~~k~~F 94 (115)
T PF13162_consen 35 PAKVVEIGYDDDYIIAKQKPEIKSDPNNPKSYIYNKSSEEYWIIDKKNDEVY--------------------GPFSKEQF 94 (115)
T ss_pred CcEEEEEecCCeeEEEEccccccCCCCCccceeccCCCceEEEEEcCCCcEE--------------------CCCCHHHH
Confidence 3888887 6999988875522 111111 11 2666554444433 79999999
Q ss_pred HhhcCCCCCCcc
Q psy6236 297 CRDTNSIPAPPE 308 (358)
Q Consensus 297 L~~~~a~~aP~~ 308 (358)
..+.++.-.+.+
T Consensus 95 ~~k~k~l~I~~~ 106 (115)
T PF13162_consen 95 QEKRKELNISDE 106 (115)
T ss_pred HHHHHhcCCCcc
Confidence 998766555544
No 26
>PF12945 YcgR_2: Flagellar protein YcgR; PDB: 2RDE_B 1YLN_A 3KYG_A.
Probab=20.36 E-value=1.6e+02 Score=22.08 Aligned_cols=35 Identities=17% Similarity=-0.019 Sum_probs=23.2
Q ss_pred CCCCCeeee--ecCCCCCCcceeEEEeEecc-eEEEEe
Q psy6236 319 LLTLTKEKC--FDLTGGKAGPSIKIAHLITC-LNKIVQ 353 (358)
Q Consensus 319 F~~gmkLEa--vd~~~p~~icvAtV~~v~g~-~~~i~~ 353 (358)
.++|+|+|. .+..+....+..+|.++..+ .|.|..
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 368999885 35554557899999999998 888764
Done!