Query 002587
Match_columns 904
No_of_seqs 242 out of 1387
Neff 4.7
Searched_HMMs 29240
Date Tue Mar 26 16:58:55 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/002587.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1304-1308//hhsearch_pdb/002587hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3k49_A MRNA-binding protein PU 1.0 1 1 375.8 12.0 225 678-903 2-231 (369)
2 3gvo_A Pumilio 2, pumilio homo 1.0 1 1 374.1 12.7 227 675-902 68-304 (351)
3 3k62_A FEM-3 mRNA-binding fact 1.0 1 1 369.5 18.1 225 663-903 4-260 (412)
4 3gvo_A Pumilio 2, pumilio homo 1.0 1 1 359.9 12.8 223 680-903 4-226 (351)
5 3v71_A PUF (pumilio/FBF) domai 1.0 1 1 351.2 15.7 230 673-903 64-325 (382)
6 3k62_A FEM-3 mRNA-binding fact 1.0 1 1 349.5 18.7 230 673-903 73-345 (412)
7 3bwt_A Protein PUF4; pumilio, 1.0 1 1 345.5 16.1 207 696-903 7-214 (333)
8 3k49_A MRNA-binding protein PU 1.0 1 1 339.7 9.2 230 673-903 71-322 (369)
9 3v71_A PUF (pumilio/FBF) domai 1.0 1 1 338.0 14.9 210 694-903 10-239 (382)
10 3bwt_A Protein PUF4; pumilio, 1.0 1 1 323.8 17.2 228 673-903 53-293 (333)
No 1
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} SCOP: a.118.1.0 PDB: 3k4e_A
Probab=1.00 E-value=1 Score=375.75 Aligned_cols=225 Identities=46% Similarity=0.780 Sum_probs=216.5
Q ss_pred HHHHHHHHHHHCCCC-----CCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCHH
Q ss_conf 135679997313733-----120799999999998508552899999851199999999999999969985306662337
Q 002587 678 SFASSLLDEFKSNKT-----KCFELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYV 752 (904)
Q Consensus 678 ~fgS~lLEef~sne~-----r~liLeeIkG~IveLA~Dq~GSRVIQKlLE~aS~Eer~~IfeEI~p~i~~Ls~D~fGNyV 752 (904)
-++|.+||+|+++.. +.+.++++.|+++++|+|++|||+||++|+.++++++..||+++.+++.+|++|+|||||
T Consensus 2 ~~~s~lle~~~~~~~~~~~~~~~~l~~i~g~i~~l~~d~~gsR~lQ~~l~~~~~~~~~~I~~el~~~~~~L~~d~~gn~v 81 (369)
T 3k49_A 2 YHRSPLLEQLRNSSSDKNSNSNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYV 81 (369)
T ss_dssp ---CHHHHHHHTTCC------CCCGGGGTTCHHHHHTSHHHHHHHHHHHTTCCHHHHHHHHHHHGGGHHHHHHSTTTHHH
T ss_pred CCCCHHHHHHHCCCCCCCCCCCEEHHHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCH
T ss_conf 87525489986799865544460399999899999728723099999866299999999999999989998648511558
Q ss_pred HHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf 98997307998899999999998999730344437787665511568899999999999999850877608887965028
Q 002587 753 IQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECV 832 (904)
Q Consensus 753 IQKLLE~~s~eqr~~Lie~L~g~Iv~LS~dkyGsrVIQKLLE~~~~eqk~~IVeeL~~~il~La~DqnGNhVIQkiLE~~ 832 (904)
|||+|++++++++..|++.+.+++..|+.|+|||||||++|+++..+++..|+.+|.+++..|++|++||||||+||++.
T Consensus 82 vQkll~~~~~~~~~~i~~~~~g~~~~L~~~~~G~rVlQk~le~~~~~q~~~ii~el~~~~~~L~~d~~Gn~ViQ~~l~~~ 161 (369)
T 3k49_A 82 IQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDSVLQMIKDQNGNHVIQKAIETI 161 (369)
T ss_dssp HHHHHHHCCHHHHHHHHHHHTTCHHHHHHSTTHHHHHHHHHHHSCHHHHHHHHGGGTTCHHHHHHSTTHHHHHHHHHHHS
T ss_pred HHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHC
T ss_conf 99999739999999999998620898851755489999999758999999999999999999951744554999999719
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf 94579999999999799982092146999999941696889999999999989977409444589887118
Q 002587 833 PEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQVCFG 903 (904)
Q Consensus 833 p~e~r~~IIe~Ll~~lveLSthKYGSrVIQkiLe~c~d~~~kk~IieEIl~nl~~LaqDqYGNYVVQkILE 903 (904)
+++.+++|++.|.++++.|++|+|||+|||+||+++.. ..++.|+++|..++..|++|+|||||||++|+
T Consensus 162 ~~~~~~~i~~~~~~~~~~ls~~~~Gs~Vvq~~l~~~~~-~~~~~i~~~l~~~~~~L~~d~~GnyViQ~~l~ 231 (369)
T 3k49_A 162 PIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSS-EDQESILNELKDFIPYLIQDQYGNYVIQYVLQ 231 (369)
T ss_dssp CGGGCHHHHHHHTTTHHHHHTSTTHHHHHHHHHHHSCH-HHHHHHHHTTTTCHHHHHHSTTHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCH-HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 99999999999999999996787668299999986899-99999999999999999659729999999995
No 2
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} SCOP: a.118.1.8 PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X
Probab=1.00 E-value=1 Score=374.10 Aligned_cols=227 Identities=30% Similarity=0.500 Sum_probs=119.7
Q ss_pred CCCHHHHHHHHHHH---CCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCH
Q ss_conf 87113567999731---373312079999999999850855289999985119999999999999996998530666233
Q 002587 675 LDESFASSLLDEFK---SNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNY 751 (904)
Q Consensus 675 m~D~fgS~lLEef~---sne~r~liLeeIkG~IveLA~Dq~GSRVIQKlLE~aS~Eer~~IfeEI~p~i~~Ls~D~fGNy 751 (904)
+.|+||++++|++. +.+.+..+++++.|++++++.|++|||+||++|+.++.+++..|++++.+++..|++|+||||
T Consensus 68 ~~d~~gn~vvQklle~~~~~~~~~i~~~i~g~~~~l~~~~~G~rvvQk~le~~~~~~~~~i~~el~~~~~~L~~d~~Gn~ 147 (351)
T 3gvo_A 68 MTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQQSEMVKELDGHVLKCVKDQNGNH 147 (351)
T ss_dssp HTSTTHHHHHHHHHHHCCHHHHHHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHGGGTTCHHHHHHSTTHHH
T ss_pred HHCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 71816629999999609999999999998766998860788689999999967899999999985316999987101327
Q ss_pred HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHC
Q ss_conf 79899730799889999999999899973034443778766551156889999999999999985087760888796502
Q 002587 752 VIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIEC 831 (904)
Q Consensus 752 VIQKLLE~~s~eqr~~Lie~L~g~Iv~LS~dkyGsrVIQKLLE~~~~eqk~~IVeeL~~~il~La~DqnGNhVIQkiLE~ 831 (904)
||||+|++++++++..|++.+.+++..|+.|+|||+|||++|+++..+++..|+++|.+++..|++|+|||||||+||++
T Consensus 148 ViQk~l~~~~~~~~~~i~~~~~~~~~~ls~~~~G~~Vvq~~le~~~~~~~~~ii~~l~~~~~~L~~d~~Gn~ViQ~~l~~ 227 (351)
T 3gvo_A 148 VVQKCIECVQPQSLQFIIDAFKGQVFVLSTHPYGCRVIQRILEHCTAEQTLPILEELHQHTEQLVQDQYGNYVIQHVLEH 227 (351)
T ss_dssp HHHHHHHHSCGGGTHHHHHHTTTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHTTHHHHHTSTTHHHHHHHHHHH
T ss_pred HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf 99999976899999999999988899998075748999999997899999999999865499618994387999999996
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHH-------HHHHHHCCCCHHHHHHHHC
Q ss_conf 8945799999999997999820921469999999416968899999999999-------8997740944458988711
Q 002587 832 VPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQ-------SVCMLAQDQYGNYVVQVCF 902 (904)
Q Consensus 832 ~p~e~r~~IIe~Ll~~lveLSthKYGSrVIQkiLe~c~d~~~kk~IieEIl~-------nl~~LaqDqYGNYVVQkIL 902 (904)
.+++.+++|++.|.++++.||+|||||+|||+||+++++. .++.|++||+. .+..|++|+|||||||++|
T Consensus 228 ~~~~~~~~i~~~l~~~~~~Ls~~k~gs~Vvek~l~~~~~~-~r~~ii~el~~~~~~~~~~l~~l~~d~ygnyViq~~L 304 (351)
T 3gvo_A 228 GRPEDKSKIVSEIRGKVLALSQHKFASNVVEKCVTHASRA-ERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMI 304 (351)
T ss_dssp SCHHHHHHHHHTTTTCHHHHHTSTTHHHHHHHHHHHSCHH-HHHHHHHHHHSCEETTEEHHHHHHHSTTHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCHH-HHHHHHHHHHCCCCCCCHHHHHCCCCCCHHHHHHHHH
T ss_conf 7534499999999988999854938899999999759999-9999999986126788727988069962679999999
No 3
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A
Probab=1.00 E-value=1 Score=369.47 Aligned_cols=225 Identities=27% Similarity=0.577 Sum_probs=159.1
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCHHHHH--HHHHHHHHHCCCCCHHHHHHHHCC-CHHHHHHHHHHHHHH
Q ss_conf 78887655789987113567999731373312079999--999999850855289999985119-999999999999996
Q 002587 663 VMGPWHSEAGGSLDESFASSLLDEFKSNKTKCFELSEI--AGHVVEFSADQYGSRFIQQKLETA-TTEEKNMVFQEIMPQ 739 (904)
Q Consensus 663 ~~~~w~~d~~~~m~D~fgS~lLEef~sne~r~liLeeI--kG~IveLA~Dq~GSRVIQKlLE~a-S~Eer~~IfeEI~p~ 739 (904)
+++.|+.|+.+++... +.|.++ +|+++++|+||+||||||++|+.+ ++++++.||+||.++
T Consensus 4 ~~~~w~~~~~~~~~~~----------------~~L~~~~~~G~i~~la~Dq~GsR~lQ~~l~~~~~~e~~~~If~el~~~ 67 (412)
T 3k62_A 4 VLPTWSLDSNGEMRSR----------------LSLSEVLDSGDLMKFAVDKTGCQFLEKAVKGSLTSYQKFQLFEQVIGR 67 (412)
T ss_dssp -CCGGGBCTTSSBCTT----------------CCHHHHHHHTCHHHHHTSHHHHHHHHHHTTSCCCHHHHHHHHHHHSSS
T ss_pred CCCCCHHCCCCCCCCC----------------CCHHHHHHCCCCHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf 6864233026999987----------------849999748771999649756899999865089989999999999722
Q ss_pred ---HHHHHCCCCCCHHHHHHHHHCCH-------HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHH-
Q ss_conf ---99853066623379899730799-------8899999999998999730344437787665511568899999999-
Q 002587 740 ---ALSLMTDVFGNYVIQKFFEHGTA-------SQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKEL- 808 (904)
Q Consensus 740 ---i~~Ls~D~fGNyVIQKLLE~~s~-------eqr~~Lie~L~g~Iv~LS~dkyGsrVIQKLLE~~~~eqk~~IVeeL- 808 (904)
+.+||+|+||||||||+|+++++ +++..|++.+.++++.|+.|+|||||||++|+++..+++..|+.+|
T Consensus 68 ~~~~~~L~~d~fGNyvvQKlle~~~~~~~~~~~~q~~~i~~~l~g~v~~L~~~~~GsrvvQk~le~~~~~~~~~iv~eL~ 147 (412)
T 3k62_A 68 KDDFLKLSTNIFGNYLVQSVIGISLATNDDGYTKRQEKLKNFISSQMTDMCLDKFACRVIQSSLQNMDLSLACKLVQALP 147 (412)
T ss_dssp HHHHHHHHTSTTHHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTHHHHHHSTTHHHHHHHHHHHSCHHHHHHHHHTSC
T ss_pred HHHHHHHHHCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf 56799998372988999999984891123243999999999999999999817452499999999578889999999970
Q ss_pred -HHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHHHH--HHHHHHHCCCCHHHHHHHHHHHCCCH-----------HHH
Q ss_conf -9999998508776088879650289457999999999--97999820921469999999416968-----------899
Q 002587 809 -DGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFY--DQVVTLSTHPYGCRVIQRVLEHCHDE-----------KTQ 874 (904)
Q Consensus 809 -~~~il~La~DqnGNhVIQkiLE~~p~e~r~~IIe~Ll--~~lveLSthKYGSrVIQkiLe~c~d~-----------~~k 874 (904)
.+++..|++|++|||||||||++.+++.+++|++.|. +++++|++|+|||+|||+||++|.+. ..+
T Consensus 148 ~~~~i~~L~~D~~GNhVIQK~Le~~~~~~~~~I~~~~~~~~~~~~la~h~~GcrVvQk~le~~~~~~~~~~~~~~~~~qr 227 (412)
T 3k62_A 148 RDARLIAICVDQNANHVIQKVVAVIPLKNWEFIVDFVATPEHLRQICSDKYGCRVVQTIIEKLTADSMNVDLTSAAQNLR 227 (412)
T ss_dssp CSHHHHHHHHCTTTHHHHHHHHHHSCHHHHHHHHHHHHSHHHHHHHHTSHHHHHHHHHHHHHTSCSGGGTTSCHHHHHHH
T ss_pred CCCCHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
T ss_conf 46018999719643699999999699999999999871413699985596359999999996674112200100038899
Q ss_pred ----HHHHHHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf ----99999999989977409444589887118
Q 002587 875 ----SIMMDEILQSVCMLAQDQYGNYVVQVCFG 903 (904)
Q Consensus 875 ----k~IieEIl~nl~~LaqDqYGNYVVQkILE 903 (904)
+.++++|..++..|++|+||||||||+|+
T Consensus 228 ~~il~~L~~~I~~~~~~L~~dq~GNyViQ~iL~ 260 (412)
T 3k62_A 228 ERALQRLMTSVTNRCQELATNEYANYIIQHIVS 260 (412)
T ss_dssp HHHHHHHHHHHHHTHHHHHHSTTTHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf 999999999999999998648420299999996
No 4
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} SCOP: a.118.1.8 PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X
Probab=1.00 E-value=1 Score=359.90 Aligned_cols=223 Identities=60% Similarity=0.997 Sum_probs=216.5
Q ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf 56799973137331207999999999985085528999998511999999999999999699853066623379899730
Q 002587 680 ASSLLDEFKSNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEH 759 (904)
Q Consensus 680 gS~lLEef~sne~r~liLeeIkG~IveLA~Dq~GSRVIQKlLE~aS~Eer~~IfeEI~p~i~~Ls~D~fGNyVIQKLLE~ 759 (904)
+|.++|+|++++.+.+++++++|+++++|+|++|||+||++|+.++++++..||+++.+++.+||+|+||||||||+|++
T Consensus 4 ~~~l~e~~r~~~~~~~~l~~~~g~i~~la~dq~gsR~lQ~~l~~~~~~~~~~i~~ei~~~~~~L~~d~~gn~vvQklle~ 83 (351)
T 3gvo_A 4 RSRLLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQLMTDVFGNYVIQKFFEF 83 (351)
T ss_dssp CCHHHHHHHTTCCTTCCGGGGTTCHHHHHTSHHHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHH
T ss_pred CCHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_conf 42789997578989968999874999992698636999999713989999999999988589897181662999999960
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHH
Q ss_conf 79988999999999989997303444377876655115688999999999999998508776088879650289457999
Q 002587 760 GTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQF 839 (904)
Q Consensus 760 ~s~eqr~~Lie~L~g~Iv~LS~dkyGsrVIQKLLE~~~~eqk~~IVeeL~~~il~La~DqnGNhVIQkiLE~~p~e~r~~ 839 (904)
++++++..|++.+.+++++|+.|+|||||||++|+.+..+++..|+++|.+++..|++|++||||||+||++.+++.+.+
T Consensus 84 ~~~~~~~~i~~~i~g~~~~l~~~~~G~rvvQk~le~~~~~~~~~i~~el~~~~~~L~~d~~Gn~ViQk~l~~~~~~~~~~ 163 (351)
T 3gvo_A 84 GSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQQSEMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQF 163 (351)
T ss_dssp CCHHHHHHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHGGGTTCHHHHHHSTTHHHHHHHHHHHSCGGGTHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
T ss_conf 99999999999987669988607886899999999678999999999853169999871013279999997689999999
Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf 9999999799982092146999999941696889999999999989977409444589887118
Q 002587 840 IVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQVCFG 903 (904)
Q Consensus 840 IIe~Ll~~lveLSthKYGSrVIQkiLe~c~d~~~kk~IieEIl~nl~~LaqDqYGNYVVQkILE 903 (904)
|++.+.+++..|++|+|||+|||+||++|..+ .+..|+++|..++..|++|+|||||||++|+
T Consensus 164 i~~~~~~~~~~ls~~~~G~~Vvq~~le~~~~~-~~~~ii~~l~~~~~~L~~d~~Gn~ViQ~~l~ 226 (351)
T 3gvo_A 164 IIDAFKGQVFVLSTHPYGCRVIQRILEHCTAE-QTLPILEELHQHTEQLVQDQYGNYVIQHVLE 226 (351)
T ss_dssp HHHHTTTTHHHHHTSTTHHHHHHHHHHHSCHH-HHHHHHHHHHTTHHHHHTSTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf 99999888999980757489999999978999-9999999986549961899438799999999
No 5
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans}
Probab=1.00 E-value=1 Score=351.20 Aligned_cols=230 Identities=20% Similarity=0.292 Sum_probs=193.8
Q ss_pred CCCCCHHHHHHHHHHHC---CCCCCCHHHH-HHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHH-HHHHHHCCC
Q ss_conf 99871135679997313---7331207999-999999985085528999998511999999999999999-699853066
Q 002587 673 GSLDESFASSLLDEFKS---NKTKCFELSE-IAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMP-QALSLMTDV 747 (904)
Q Consensus 673 ~~m~D~fgS~lLEef~s---ne~r~liLee-IkG~IveLA~Dq~GSRVIQKlLE~aS~Eer~~IfeEI~p-~i~~Ls~D~ 747 (904)
.+|.|+||++++|++.. .+.+..++.+ ++++++.++.|++|||++||+|+.++.+++..|+.++.+ ++..|++|+
T Consensus 64 ~L~~d~~Gn~vvQklle~~~~~~~~~li~~~l~g~v~~Ls~~~~G~rvvQk~ie~~~~~~~~~li~eL~~~~~~~L~~D~ 143 (382)
T 3v71_A 64 GLCHSRNGNFIVQKLVELATPAEQRELLRQMIDGGLLAMCKDKFACRVVQLALQKFDHSNVFQLIQELSTFDLAAMCTDQ 143 (382)
T ss_dssp HHHSSTTHHHHHHHHHHTCCHHHHHHHHHHHHHTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHTSCHHHHHHST
T ss_pred HHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHCCCCHHHHHCCC
T ss_conf 99628288799999998599999999999973113988773750569999999978999999999985412669996185
Q ss_pred CCCHHHHHHHHHCCHHHHHHHHHHHH--HHHHHHHHCCCCCHHHHHHHHHCCHHH-------H----HHHHHHHHHHHHH
Q ss_conf 62337989973079988999999999--989997303444377876655115688-------9----9999999999999
Q 002587 748 FGNYVIQKFFEHGTASQVRELADQLT--GHVLTLSLQMYGCRVIQKAIEVVELDQ-------Q----TQMVKELDGHIMR 814 (904)
Q Consensus 748 fGNyVIQKLLE~~s~eqr~~Lie~L~--g~Iv~LS~dkyGsrVIQKLLE~~~~eq-------k----~~IVeeL~~~il~ 814 (904)
+|||||||+|++++++++..|++.+. +++..|+.|+|||+|||++||++..++ + ..|++++.+++..
T Consensus 144 ~GnhVIQk~le~~~~~~~~~Ii~~~~~~~~~~~la~h~~Gc~VlQ~~le~~~~~~k~~~~~~r~~~l~~l~~~I~~~~~~ 223 (382)
T 3v71_A 144 ISIHVIQRVVKQLPVDMWTFFVHFLSSGDSLMAVCQDKYGCRLVQQVIDRLAENPKLPCFKFRIQLLHSLMTCIVRNCYR 223 (382)
T ss_dssp TTHHHHHHHHTTSCTTTSHHHHHHHHSTTHHHHHHHSTTHHHHHHHHHHHHTCCSSSTTHHHHHHHHHHHHHHHHTTHHH
T ss_pred CCCCHHHHHHHHCCHHHHHHHHHHHHCCCCHHHHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 61519999999789999999999995453117682695115999999996887642114557899999999999998999
Q ss_pred HHHCCCCHHHHHHHHHCCCH--HHHHHHHHH-HHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHH--------
Q ss_conf 85087760888796502894--579999999-9997999820921469999999416968899999999999--------
Q 002587 815 CVRDQNGNHVIQKCIECVPE--DAIQFIVLT-FYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQ-------- 883 (904)
Q Consensus 815 La~DqnGNhVIQkiLE~~p~--e~r~~IIe~-Ll~~lveLSthKYGSrVIQkiLe~c~d~~~kk~IieEIl~-------- 883 (904)
|++|+|||||||+||+...+ +.+..|++. |.+++++||+|||||+|||+||+++++ ..++.|++||+.
T Consensus 224 L~~d~~GNyVIQ~iL~~~~~~e~~r~~ii~~~l~~~~~~Ls~~k~gS~Vvek~l~~~~~-~~r~~ii~el~~~~~~~~~~ 302 (382)
T 3v71_A 224 LSSNEFANYVIQYVIKSSGIMEMYRDTIIDKCLLRNLLSMSQDKYASHVIEGAFLFAPP-ALLHEMMEEIFSGYVKDVES 302 (382)
T ss_dssp HHTSTTTHHHHHHHHTCCSTHHHHHHHHHHHTTTTCHHHHTTSTTHHHHHHHHHHHCCH-HHHHHHHHHHCC--CCCSSS
T ss_pred HHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCH-HHHHHHHHHHHHHCCCCCCC
T ss_conf 86475201999999844997478899999999999899996570675999999986999-99999999998213455556
Q ss_pred ---HHHHHHCCCCHHHHHHHHCC
Q ss_conf ---89977409444589887118
Q 002587 884 ---SVCMLAQDQYGNYVVQVCFG 903 (904)
Q Consensus 884 ---nl~~LaqDqYGNYVVQkILE 903 (904)
.+..|++|+|||||||++|+
T Consensus 303 ~~~~l~~l~~D~ygNyVvQ~~L~ 325 (382)
T 3v71_A 303 NRDALDILLFHQYGNYVVQQMIS 325 (382)
T ss_dssp CCCHHHHHHTCTTHHHHHHHHHH
T ss_pred CCHHHHHHHCCCCCCHHHHHHHH
T ss_conf 52589998779971399999999
No 6
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A
Probab=1.00 E-value=1 Score=349.50 Aligned_cols=230 Identities=20% Similarity=0.296 Sum_probs=206.6
Q ss_pred CCCCCHHHHHHHHHHH---CC-------CCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHH--HHHH
Q ss_conf 9987113567999731---37-------3312079999999999850855289999985119999999999999--9969
Q 002587 673 GSLDESFASSLLDEFK---SN-------KTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEI--MPQA 740 (904)
Q Consensus 673 ~~m~D~fgS~lLEef~---sn-------e~r~liLeeIkG~IveLA~Dq~GSRVIQKlLE~aS~Eer~~IfeEI--~p~i 740 (904)
.+|.|+||++++|++. +. +.+..+++.++|++++++.|++|||+||++|+.++.+++..|++++ .+++
T Consensus 73 ~L~~d~fGNyvvQKlle~~~~~~~~~~~~q~~~i~~~l~g~v~~L~~~~~GsrvvQk~le~~~~~~~~~iv~eL~~~~~i 152 (412)
T 3k62_A 73 KLSTNIFGNYLVQSVIGISLATNDDGYTKRQEKLKNFISSQMTDMCLDKFACRVIQSSLQNMDLSLACKLVQALPRDARL 152 (412)
T ss_dssp HHHTSTTHHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTHHHHHHSTTHHHHHHHHHHHSCHHHHHHHHHTSCCSHHH
T ss_pred HHHHCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCH
T ss_conf 99837298899999998489112324399999999999999999981745249999999957888999999997046018
Q ss_pred HHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHH--HHHHHHHHCCCCCHHHHHHHHHCCH------------HHHH----
Q ss_conf 985306662337989973079988999999999--9899973034443778766551156------------8899----
Q 002587 741 LSLMTDVFGNYVIQKFFEHGTASQVRELADQLT--GHVLTLSLQMYGCRVIQKAIEVVEL------------DQQT---- 802 (904)
Q Consensus 741 ~~Ls~D~fGNyVIQKLLE~~s~eqr~~Lie~L~--g~Iv~LS~dkyGsrVIQKLLE~~~~------------eqk~---- 802 (904)
..|++|++|||||||+|++++++++..|++.+. +++.+|++|+|||||||++||++.. +++.
T Consensus 153 ~~L~~D~~GNhVIQK~Le~~~~~~~~~I~~~~~~~~~~~~la~h~~GcrVvQk~le~~~~~~~~~~~~~~~~~qr~~il~ 232 (412)
T 3k62_A 153 IAICVDQNANHVIQKVVAVIPLKNWEFIVDFVATPEHLRQICSDKYGCRVVQTIIEKLTADSMNVDLTSAAQNLRERALQ 232 (412)
T ss_dssp HHHHHCTTTHHHHHHHHHHSCHHHHHHHHHHHHSHHHHHHHHTSHHHHHHHHHHHHHTSCSGGGTTSCHHHHHHHHHHHH
T ss_pred HHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf 99971964369999999969999999999987141369998559635999999999667411220010003889999999
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHH-HHHHHHH-HHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf 999999999999850877608887965028945-7999999-99997999820921469999999416968899999999
Q 002587 803 QMVKELDGHIMRCVRDQNGNHVIQKCIECVPED-AIQFIVL-TFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDE 880 (904)
Q Consensus 803 ~IVeeL~~~il~La~DqnGNhVIQkiLE~~p~e-~r~~IIe-~Ll~~lveLSthKYGSrVIQkiLe~c~d~~~kk~IieE 880 (904)
.|++++..++..|++|+|||||||++|++..++ .+..|++ .|.+++++||+|||||+||||||+++++ ..++.|++|
T Consensus 233 ~L~~~I~~~~~~L~~dq~GNyViQ~iL~~g~~~~~r~~ii~~~l~~~~~~LS~~KfgSnVVek~L~~~~~-~~r~~ii~e 311 (412)
T 3k62_A 233 RLMTSVTNRCQELATNEYANYIIQHIVSNDDLAVYRECIIEKCLMRNLLSLSQEKFASHVVEKAFLHAPL-ELLAEMMDE 311 (412)
T ss_dssp HHHHHHHHTHHHHHHSTTTHHHHHHHHHCGGGHHHHHHHHHHHTTTCHHHHHTSTTHHHHHHHHHHHCCH-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCH-HHHHHHHHH
T ss_conf 9999999999998648420299999996299055799999999998899996040768999999985999-999999999
Q ss_pred HHHH-----------HHHHHCCCCHHHHHHHHCC
Q ss_conf 9998-----------9977409444589887118
Q 002587 881 ILQS-----------VCMLAQDQYGNYVVQVCFG 903 (904)
Q Consensus 881 Il~n-----------l~~LaqDqYGNYVVQkILE 903 (904)
|+.. +..|++|+|||||||++|+
T Consensus 312 i~~~~~~~~~~~~~~l~~L~~DqyGNYViQ~~L~ 345 (412)
T 3k62_A 312 IFDGYIPHPDTGKDALDIMMFHQFGNYVVQCMLT 345 (412)
T ss_dssp HHHSSCCCTTTCCCHHHHHHHSTTHHHHHHHHHH
T ss_pred HHHHCCCCCCCCCHHHHHHHCCCCHHHHHHHHHH
T ss_conf 9850357765451699998669936899999999
No 7
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A
Probab=1.00 E-value=1 Score=345.50 Aligned_cols=207 Identities=34% Similarity=0.551 Sum_probs=123.1
Q ss_pred HHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHH
Q ss_conf 79999999999850855289999985119999999999999996998530666233798997307998899999999998
Q 002587 696 ELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGH 775 (904)
Q Consensus 696 iLeeIkG~IveLA~Dq~GSRVIQKlLE~aS~Eer~~IfeEI~p~i~~Ls~D~fGNyVIQKLLE~~s~eqr~~Lie~L~g~ 775 (904)
.+++++|+++++|+|++|||+||++|+.++++++..||+|+.+++.+||+|+||||||||+|++++++++..|++.+.++
T Consensus 7 ~l~~~~g~i~~l~~~q~gsr~iQ~~l~~~~~~~~~~i~~el~~~~~~L~~d~~gn~vvQkll~~~~~~~~~~i~~~~~~~ 86 (333)
T 3bwt_A 7 VLDQYIGSIHSLCKDQHGCRFLQKQLDILGSKAADAIFEETKDYTVELMTDSFGNYLIQKLLEEVTTEQRIVLTKISSPH 86 (333)
T ss_dssp CGGGTTTCHHHHTSSHHHHHHHHHHHHHSCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHGGG
T ss_pred CHHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_conf 69999979999965847139999987629999999999999988999955853279999999629999999999998748
Q ss_pred HHHHHHCCCCCHHHHHHHHHCCH-HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 99973034443778766551156-88999999999999998508776088879650289457999999999979998209
Q 002587 776 VLTLSLQMYGCRVIQKAIEVVEL-DQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTH 854 (904)
Q Consensus 776 Iv~LS~dkyGsrVIQKLLE~~~~-eqk~~IVeeL~~~il~La~DqnGNhVIQkiLE~~p~e~r~~IIe~Ll~~lveLSth 854 (904)
+.+|+.|+|||||||++++++.. +++..++++|.+++..|++|++||||||+||++.+++.+++|++.+.+++.+|++|
T Consensus 87 ~~~l~~~~~G~rviQ~~l~~~~~~~~~~~i~~el~~~~~~L~~d~~gn~Viqk~l~~~~~~~~~~i~~~l~~~~~~l~~~ 166 (333)
T 3bwt_A 87 FVEISLNPHGTRALQKLIECIKTDEEAQIVVDSLRPYTVQLSKDLNGNHVIQKCLQRLKPENFQFIFDAISDSCIDIATH 166 (333)
T ss_dssp HHHHHHSTTHHHHHHHHHHHCCSHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHHSHHHHHTS
T ss_pred HHHHHHCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf 99998555552899988986381999999999999989999419762689999999779988999999999989999658
Q ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf 2146999999941696889999999999989977409444589887118
Q 002587 855 PYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQVCFG 903 (904)
Q Consensus 855 KYGSrVIQkiLe~c~d~~~kk~IieEIl~nl~~LaqDqYGNYVVQkILE 903 (904)
+|||+|||+||++++. ..++.|+++|.+++..|++|+|||||||++|+
T Consensus 167 ~~Gs~Vvq~~l~~~~~-~~~~~l~~el~~~~~~L~~d~~GnyVvQ~~L~ 214 (333)
T 3bwt_A 167 RHGCCVLQRCLDHGTT-EQCDNLCDKLLALVDKLTLDPFGNYVVQYIIT 214 (333)
T ss_dssp TTHHHHHHHHHHHCCH-HHHHHHHHHHHTTHHHHHTSTTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHCCH-HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf 3617999999982999-99999999999989998059828999999998
No 8
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} SCOP: a.118.1.0 PDB: 3k4e_A
Probab=1.00 E-value=1 Score=339.74 Aligned_cols=230 Identities=27% Similarity=0.423 Sum_probs=204.8
Q ss_pred CCCCCHHHHHHHHHHH---CCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 9987113567999731---3733120799999999998508552899999851199999999999999969985306662
Q 002587 673 GSLDESFASSLLDEFK---SNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFG 749 (904)
Q Consensus 673 ~~m~D~fgS~lLEef~---sne~r~liLeeIkG~IveLA~Dq~GSRVIQKlLE~aS~Eer~~IfeEI~p~i~~Ls~D~fG 749 (904)
.++.|+||++++|++. +.+.+..+++.+.|++.+++.+++|||+||++|+.++++++..|++|+.+++..|++|+||
T Consensus 71 ~L~~d~~gn~vvQkll~~~~~~~~~~i~~~~~g~~~~L~~~~~G~rVlQk~le~~~~~q~~~ii~el~~~~~~L~~d~~G 150 (369)
T 3k49_A 71 ELSNDVFGNYVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDSVLQMIKDQNG 150 (369)
T ss_dssp HHHHSTTTHHHHHHHHHHCCHHHHHHHHHHHTTCHHHHHHSTTHHHHHHHHHHHSCHHHHHHHHGGGTTCHHHHHHSTTH
T ss_pred HHHHCCCCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 98648511558999997399999999999986208988517554899999997589999999999999999999517445
Q ss_pred CHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf 33798997307998899999999998999730344437787665511568899999999999999850877608887965
Q 002587 750 NYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCI 829 (904)
Q Consensus 750 NyVIQKLLE~~s~eqr~~Lie~L~g~Iv~LS~dkyGsrVIQKLLE~~~~eqk~~IVeeL~~~il~La~DqnGNhVIQkiL 829 (904)
|||||++|++++++.+..|++.+.+++..|+.|+|||+|||++|+++..+++..|+++|.+++..|++|+|||||||++|
T Consensus 151 n~ViQ~~l~~~~~~~~~~i~~~~~~~~~~ls~~~~Gs~Vvq~~l~~~~~~~~~~i~~~l~~~~~~L~~d~~GnyViQ~~l 230 (369)
T 3k49_A 151 NHVIQKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVL 230 (369)
T ss_dssp HHHHHHHHHHSCGGGCHHHHHHHTTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTTTCHHHHHHSTTHHHHHHHHH
T ss_pred CHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf 54999999719999999999999999999967876682999999868999999999999999999965972999999999
Q ss_pred HCCCHHH------HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHH-------------HHHHHHC
Q ss_conf 0289457------99999999997999820921469999999416968899999999999-------------8997740
Q 002587 830 ECVPEDA------IQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQ-------------SVCMLAQ 890 (904)
Q Consensus 830 E~~p~e~------r~~IIe~Ll~~lveLSthKYGSrVIQkiLe~c~d~~~kk~IieEIl~-------------nl~~Laq 890 (904)
++.++.. +..|++.|.+++++|++|||||+||++||++++ +..++.|+++|+. .+..|++
T Consensus 231 ~~~~~~~~~~~~~~~~i~~~l~~~~~~Ls~~k~gS~Vvek~l~~~~-~~~r~~ii~~l~~~~~~~~~~~~~~~~l~~L~~ 309 (369)
T 3k49_A 231 QQDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSILYGS-KNQKDLIISKILPRDKNHALNLEDDSPMILMIK 309 (369)
T ss_dssp TCCTTSCHHHHHHHHHHHHHHHTTHHHHHTSTTHHHHHHHHHHHSC-HHHHHHHHTTTSCSSHHHHHTCCTTSHHHHHHT
T ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHH
T ss_conf 5389032235767999999999999999861575699999998399-999999999985556432112356527999984
Q ss_pred CCCHHHHHHHHCC
Q ss_conf 9444589887118
Q 002587 891 DQYGNYVVQVCFG 903 (904)
Q Consensus 891 DqYGNYVVQkILE 903 (904)
|+|||||||++|+
T Consensus 310 D~~gNyViq~~l~ 322 (369)
T 3k49_A 310 DQFANYVIQKLVN 322 (369)
T ss_dssp STTHHHHHHHHHH
T ss_pred CCCHHHHHHHHHH
T ss_conf 7305899999999
No 9
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans}
Probab=1.00 E-value=1 Score=338.02 Aligned_cols=210 Identities=25% Similarity=0.520 Sum_probs=192.9
Q ss_pred CCHHHHH--HHHHHHHHHCCCCCHHHHHHHHCCCHHH-HHHHHHHHH---HHHHHHHCCCCCCHHHHHHHHHCCHHHHHH
Q ss_conf 2079999--9999998508552899999851199999-999999999---969985306662337989973079988999
Q 002587 694 CFELSEI--AGHVVEFSADQYGSRFIQQKLETATTEE-KNMVFQEIM---PQALSLMTDVFGNYVIQKFFEHGTASQVRE 767 (904)
Q Consensus 694 ~liLeeI--kG~IveLA~Dq~GSRVIQKlLE~aS~Ee-r~~IfeEI~---p~i~~Ls~D~fGNyVIQKLLE~~s~eqr~~ 767 (904)
.+.|.++ +|+++++|+||+||||||++|+.+++++ +..||++|. +++.+||+|+||||||||+|++|+++++..
T Consensus 10 ~~~L~~~~~~G~i~~~a~Dq~Gsr~lQ~~l~~~~~~~~~~~if~~l~e~~~~~~~L~~d~~Gn~vvQklle~~~~~~~~~ 89 (382)
T 3v71_A 10 FISLEDVLLNGQLIDFAIDPSGVKFLEANYPLDSEDQIRKAVFEKFTESTTLFVGLCHSRNGNFIVQKLVELATPAEQRE 89 (382)
T ss_dssp -CCHHHHHHTTCHHHHHHSHHHHHHHHHTSCSCTTCHHHHHHHHHHHSCHHHHHHHHSSTTHHHHHHHHHHTCCHHHHHH
T ss_pred CCCHHHHHHCCCEEHHCCCCCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCHHHHHH
T ss_conf 17499884088770030487102999987043886899999999998627789999628288799999998599999999
Q ss_pred HHHH-HHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHH-HHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf 9999-999899973034443778766551156889999999999-99998508776088879650289457999999999
Q 002587 768 LADQ-LTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDG-HIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFY 845 (904)
Q Consensus 768 Lie~-L~g~Iv~LS~dkyGsrVIQKLLE~~~~eqk~~IVeeL~~-~il~La~DqnGNhVIQkiLE~~p~e~r~~IIe~Ll 845 (904)
|+.+ +.++++.|+.|+||||||||+|++++.+++..|+++|.+ ++..|++|+||||||||||++.+++.+++|++.|.
T Consensus 90 li~~~l~g~v~~Ls~~~~G~rvvQk~ie~~~~~~~~~li~eL~~~~~~~L~~D~~GnhVIQk~le~~~~~~~~~Ii~~~~ 169 (382)
T 3v71_A 90 LLRQMIDGGLLAMCKDKFACRVVQLALQKFDHSNVFQLIQELSTFDLAAMCTDQISIHVIQRVVKQLPVDMWTFFVHFLS 169 (382)
T ss_dssp HHHHHHHTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHTSCHHHHHHSTTTHHHHHHHHTTSCTTTSHHHHHHHH
T ss_pred HHHHHHCCHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHCCCCHHHHHCCCCCCCHHHHHHHHCCHHHHHHHHHHHH
T ss_conf 99997311398877375056999999997899999999998541266999618561519999999789999999999995
Q ss_pred --HHHHHHHCCCCHHHHHHHHHHHCCCHH----------HHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf --979998209214699999994169688----------9999999999989977409444589887118
Q 002587 846 --DQVVTLSTHPYGCRVIQRVLEHCHDEK----------TQSIMMDEILQSVCMLAQDQYGNYVVQVCFG 903 (904)
Q Consensus 846 --~~lveLSthKYGSrVIQkiLe~c~d~~----------~kk~IieEIl~nl~~LaqDqYGNYVVQkILE 903 (904)
+++++|++|+|||+|||+||++|.+.. ....++++|..++..|++|+||||||||+|+
T Consensus 170 ~~~~~~~la~h~~Gc~VlQ~~le~~~~~~k~~~~~~r~~~l~~l~~~I~~~~~~L~~d~~GNyVIQ~iL~ 239 (382)
T 3v71_A 170 SGDSLMAVCQDKYGCRLVQQVIDRLAENPKLPCFKFRIQLLHSLMTCIVRNCYRLSSNEFANYVIQYVIK 239 (382)
T ss_dssp STTHHHHHHHSTTHHHHHHHHHHHHTCCSSSTTHHHHHHHHHHHHHHHHTTHHHHHTSTTTHHHHHHHHT
T ss_pred CCCCHHHHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf 4531176826951159999999968876421145578999999999999989998647520199999984
No 10
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A
Probab=1.00 E-value=1 Score=323.80 Aligned_cols=228 Identities=25% Similarity=0.392 Sum_probs=208.1
Q ss_pred CCCCCHHHHHHHHHHH---CCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCC-HHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 9987113567999731---3733120799999999998508552899999851199-99999999999996998530666
Q 002587 673 GSLDESFASSLLDEFK---SNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETAT-TEEKNMVFQEIMPQALSLMTDVF 748 (904)
Q Consensus 673 ~~m~D~fgS~lLEef~---sne~r~liLeeIkG~IveLA~Dq~GSRVIQKlLE~aS-~Eer~~IfeEI~p~i~~Ls~D~f 748 (904)
.++.|+||++++|++. +.+.+..+++.+.+++++++.|++|||+||++|+.++ ++++..|++++.+++..|++|+|
T Consensus 53 ~L~~d~~gn~vvQkll~~~~~~~~~~i~~~~~~~~~~l~~~~~G~rviQ~~l~~~~~~~~~~~i~~el~~~~~~L~~d~~ 132 (333)
T 3bwt_A 53 ELMTDSFGNYLIQKLLEEVTTEQRIVLTKISSPHFVEISLNPHGTRALQKLIECIKTDEEAQIVVDSLRPYTVQLSKDLN 132 (333)
T ss_dssp HHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHGGGHHHHHHSTTHHHHHHHHHHHCCSHHHHHHHHHHHGGGHHHHHTSTT
T ss_pred HHHCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 99558532799999996299999999999987489999855555289998898638199999999999998999941976
Q ss_pred CCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf 23379899730799889999999999899973034443778766551156889999999999999985087760888796
Q 002587 749 GNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKC 828 (904)
Q Consensus 749 GNyVIQKLLE~~s~eqr~~Lie~L~g~Iv~LS~dkyGsrVIQKLLE~~~~eqk~~IVeeL~~~il~La~DqnGNhVIQki 828 (904)
|||||||+|++++++++..|++.+.+++.+|+.|+|||+|||++|++++.+++..|+++|.+++..|++|+|||||||++
T Consensus 133 gn~Viqk~l~~~~~~~~~~i~~~l~~~~~~l~~~~~Gs~Vvq~~l~~~~~~~~~~l~~el~~~~~~L~~d~~GnyVvQ~~ 212 (333)
T 3bwt_A 133 GNHVIQKCLQRLKPENFQFIFDAISDSCIDIATHRHGCCVLQRCLDHGTTEQCDNLCDKLLALVDKLTLDPFGNYVVQYI 212 (333)
T ss_dssp HHHHHHHHHHHSCHHHHHHHHHHHHHSHHHHHTSTTHHHHHHHHHHHCCHHHHHHHHHHHHTTHHHHHTSTTHHHHHHHH
T ss_pred CCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf 26899999997799889999999999899996583617999999982999999999999999899980598289999999
Q ss_pred HHCCCHH----HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHH-----HHHHHHCCCCHHHHHH
Q ss_conf 5028945----799999999997999820921469999999416968899999999999-----8997740944458988
Q 002587 829 IECVPED----AIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQ-----SVCMLAQDQYGNYVVQ 899 (904)
Q Consensus 829 LE~~p~e----~r~~IIe~Ll~~lveLSthKYGSrVIQkiLe~c~d~~~kk~IieEIl~-----nl~~LaqDqYGNYVVQ 899 (904)
|++.+++ .++.|++.+.+++.+|++|||||+||++||+.+. .++.++.+++. .+..|+.|+|||||||
T Consensus 213 L~~~~~~~~~~~~~~ii~~l~~~~~~Ls~~k~gs~Vvek~l~~~~---~~~~ii~ell~~~~~~~l~~L~~d~~gnyViq 289 (333)
T 3bwt_A 213 ITKEAEKNKYDYTHKIVHLLKPRAIELSIHKFGSNVIEKILKTAI---VSEPMILEILNNGGETGIQSLLNDSYGNYVLQ 289 (333)
T ss_dssp HHHHHHHTCCSHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHTSHH---HHHHHHHHHHHTTHHHHHHHHHTSTTHHHHHH
T ss_pred HHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCC---HHHHHHHHHHHCCCCHHHHHHHCCCHHHHHHH
T ss_conf 983872002036999999999999999706277999999980620---16999999982468567999871880789999
Q ss_pred HHCC
Q ss_conf 7118
Q 002587 900 VCFG 903 (904)
Q Consensus 900 kILE 903 (904)
++|+
T Consensus 290 ~~l~ 293 (333)
T 3bwt_A 290 TALD 293 (333)
T ss_dssp HHHH
T ss_pred HHHH
T ss_conf 9999
Done!