Query 004281
Match_columns 764
No_of_seqs 249 out of 1558
Neff 5.6
Searched_HMMs 29240
Date Mon Mar 25 20:10:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004281.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/004281hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3gvo_A Pumilio 2, pumilio homo 100.0 4.6E-59 1.6E-63 506.5 27.4 324 437-761 10-340 (351)
2 3k62_A FEM-3 mRNA-binding fact 100.0 8.2E-58 2.8E-62 507.9 27.2 332 421-761 3-400 (412)
3 3k49_A MRNA-binding protein PU 100.0 3.9E-57 1.3E-61 494.5 21.0 316 444-760 22-357 (369)
4 3bwt_A Protein PUF4; pumilio, 100.0 1.4E-56 4.7E-61 482.5 24.0 315 446-762 6-333 (333)
5 3v71_A PUF (pumilio/FBF) domai 100.0 5.7E-55 1.9E-59 480.8 26.3 316 443-761 8-379 (382)
6 3k49_A MRNA-binding protein PU 100.0 4.6E-41 1.6E-45 367.5 17.2 262 463-761 3-272 (369)
7 3bwt_A Protein PUF4; pumilio, 100.0 1.6E-39 5.4E-44 349.7 20.4 241 483-760 7-252 (333)
8 3gvo_A Pumilio 2, pumilio homo 100.0 6.7E-37 2.3E-41 332.5 22.3 280 446-728 55-343 (351)
9 3v71_A PUF (pumilio/FBF) domai 100.0 1.2E-34 4E-39 319.2 19.7 276 484-760 13-323 (382)
10 3k62_A FEM-3 mRNA-binding fact 100.0 6.9E-33 2.4E-37 307.9 23.7 272 488-760 28-343 (412)
11 3hjl_A Flagellar motor switch 46.2 3E+02 0.01 29.3 16.9 26 677-702 197-222 (329)
12 2rfa_A Transient receptor pote 45.6 1.7E+02 0.0058 27.5 11.5 163 566-736 32-216 (232)
13 2ilr_A Protein FACE, fanconi a 41.7 82 0.0028 32.8 8.8 22 466-488 39-60 (264)
14 1wdy_A 2-5A-dependent ribonucl 30.1 3.6E+02 0.012 25.6 11.2 159 566-730 100-266 (285)
15 1k1a_A B-cell lymphoma 3-encod 26.4 3.3E+02 0.011 25.4 10.0 55 460-514 5-60 (241)
16 2dzn_A Probable 26S proteasome 23.4 4.4E+02 0.015 24.3 10.6 152 567-730 32-187 (228)
17 2rfa_A Transient receptor pote 22.9 4.3E+02 0.015 24.6 10.1 130 567-699 71-217 (232)
18 2ilr_A Protein FACE, fanconi a 22.7 6.5E+02 0.022 26.0 14.4 165 503-676 39-214 (264)
19 2of3_A ZYG-9; multifunctional 22.5 6.4E+02 0.022 25.9 16.0 54 681-742 210-263 (266)
20 1k1a_A B-cell lymphoma 3-encod 21.2 3.1E+02 0.011 25.5 8.7 154 566-731 41-197 (241)
21 4fhr_B Flagellar motor switch 20.8 6.3E+02 0.021 25.1 13.3 23 645-667 88-110 (216)
No 1
>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=100.00 E-value=4.6e-59 Score=506.53 Aligned_cols=324 Identities=33% Similarity=0.535 Sum_probs=301.4
Q ss_pred ccCCCCCCCccHHHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHH
Q 004281 437 IIRPQPQKYNSVEEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQR 516 (764)
Q Consensus 437 ~~r~~~~~~nsleEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr 516 (764)
++|..+.....++++.|+++++|+|++|||+||++|+.+++++++.||+++.+++.+||+|+||||||||+|++++++++
T Consensus 10 ~~r~~~~~~~~l~~~~g~i~~la~dq~gsR~lQ~~l~~~~~~~~~~i~~ei~~~~~~L~~d~~gn~vvQklle~~~~~~~ 89 (351)
T 3gvo_A 10 DFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQLMTDVFGNYVIQKFFEFGSLDQK 89 (351)
T ss_dssp HHHTTCCTTCCGGGGTTCHHHHHTSHHHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHHCCHHHH
T ss_pred HHhCCCCCCcCHHHHHhHHHHHhcCCcchHHHHHHHhhCCHHHHHHHHHHHHHhHHHHHhChhhhHHHHHHHhhCCHHHH
Confidence 34433333345889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhHHhh--hhHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhh
Q 004281 517 MQILQAITRKAGDLVRI--STRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQAT 594 (764)
Q Consensus 517 ~~Ii~~I~~~~g~Ll~l--s~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL 594 (764)
..|++.+.++..++... +|||||++++.+.++ +...+++++.+++.+|++|+|||||+|+++++++++.+.+|++.+
T Consensus 90 ~~i~~~i~g~~~~l~~~~~G~rvvQk~le~~~~~-~~~~i~~el~~~~~~L~~d~~Gn~ViQk~l~~~~~~~~~~i~~~~ 168 (351)
T 3gvo_A 90 LALATRIRGHVLPLALQMYGCRVIQKALESISSD-QQSEMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAF 168 (351)
T ss_dssp HHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHH-HHHHHHGGGTTCHHHHHHSTTHHHHHHHHHHHSCGGGTHHHHHHT
T ss_pred HHHHHHHHhhHHHHhhCHHhHHHHHHHHHhCCHH-HHHHHHHHhhhhHHHHHHhhhhhHHHHHHHHhCCHHHHHHHHHHH
Confidence 99999997544444332 299999999999755 557789999999999999999999999999999999999999999
Q ss_pred hhhhhhhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhccc
Q 004281 595 TNNCVELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDLS 674 (764)
Q Consensus 595 ~~~iv~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS 674 (764)
.+++..+++|+|||+|+|+++++++++++..|+++|.+++..|++|+|||||||++|++++++.+..|++.|.+++..||
T Consensus 169 ~~~~~~ls~~~~G~~Vvq~~le~~~~~~~~~ii~~l~~~~~~L~~d~~Gn~ViQ~~l~~~~~~~~~~i~~~l~~~~~~Ls 248 (351)
T 3gvo_A 169 KGQVFVLSTHPYGCRVIQRILEHCTAEQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIRGKVLALS 248 (351)
T ss_dssp TTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTTTCHHHHH
T ss_pred HHHHHHHHhCcHhHHHHHHHHHHCCHHHHHHHHHHHhhhHHhcCCCchHHHHHHHHHHhCchhhHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcchhHHHHHHHhhCCHHHHHHHHHHHHhc-----hhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhhhHHHHhc
Q 004281 675 MQKYSSNVVEKCLKYGDDERRAHIIQELISN-----AHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRPHVPVLRT 749 (764)
Q Consensus 675 ~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~-----~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~~l~~L~~ 749 (764)
+|||||+|||+||+.+++++|+.|+++++.. +.+..|+.|+|||||||++|+.+++++|..|++.|++++..|++
T Consensus 249 ~~k~gs~Vvek~l~~~~~~~r~~ii~el~~~~~~~~~~l~~l~~d~ygnyViq~~L~~~~~~~r~~i~~~i~~~~~~L~~ 328 (351)
T 3gvo_A 249 QHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMIDMAEPAQRKIIMHKIRPHITTLRK 328 (351)
T ss_dssp TSTTHHHHHHHHHHHSCHHHHHHHHHHHHSCEETTEEHHHHHHHSTTHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHTT
T ss_pred cCcHHHHHHHHHHHhCCHHHHHHHHHHHhcccCCCChHHHHccCCcchHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999862 36899999999999999999999999999999999999999999
Q ss_pred CCchHHHHHHhh
Q 004281 750 SPYGKKVLSCNS 761 (764)
Q Consensus 750 skyGsrVV~kL~ 761 (764)
++||++|++++.
T Consensus 329 ~~~g~~i~~kl~ 340 (351)
T 3gvo_A 329 YTYGKHILAKLE 340 (351)
T ss_dssp STTTHHHHHHHH
T ss_pred CCchHHHHHHHH
Confidence 999999998763
No 2
>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=100.00 E-value=8.2e-58 Score=507.94 Aligned_cols=332 Identities=24% Similarity=0.401 Sum_probs=294.7
Q ss_pred CCCCCCCCCCCcccccccCCCCCCCccHHHh--hhhHhhhccCCCccHHHHhhhccC-CHHHHHHHHHHHHHH---HHHh
Q 004281 421 DGLNSWPLSSDSMDLKIIRPQPQKYNSVEEV--TGRIYLMAKDQHGCRFLQRKISEG-TLEDIEKIFVEIIDH---IVEL 494 (764)
Q Consensus 421 ~~l~s~~~~s~t~dl~~~r~~~~~~nsleEv--~GkI~~LA~Dq~GSRvLQklLe~a-s~eq~~~If~eL~~~---i~eL 494 (764)
++||+|+++.. .++++.. ++.++ +|+++++|+||+|||+||++|+.+ ++++++.||+++.++ +.+|
T Consensus 3 ~~~~~w~~~~~----~~~~~~~----~L~~~~~~G~i~~la~Dq~GsR~lQ~~l~~~~~~e~~~~If~el~~~~~~~~~L 74 (412)
T 3k62_A 3 NVLPTWSLDSN----GEMRSRL----SLSEVLDSGDLMKFAVDKTGCQFLEKAVKGSLTSYQKFQLFEQVIGRKDDFLKL 74 (412)
T ss_dssp --CCGGGBCTT----SSBCTTC----CHHHHHHHTCHHHHHTSHHHHHHHHHHTTSCCCHHHHHHHHHHHSSSHHHHHHH
T ss_pred CcCccchhccc----CCCCCCC----cHHHHHhCCCcHHHhcCChhHHHHHHHhccCCCHHHHHHHHHHHHhhhhHHHHH
Confidence 57899999976 6777664 57787 699999999999999999999997 899999999999874 8999
Q ss_pred hcCCchhHHHHHHHhhcCH-------HHHHHHHHHHHHhhhhHHhh--hhHHHHHHHHhcCChHHHHHHHHHh--hhhhh
Q 004281 495 MTDPFGNYLVQKLLEVCNE-------DQRMQILQAITRKAGDLVRI--STRAVQKVIETLKSPEQFSLVVSSL--KPGIV 563 (764)
Q Consensus 495 s~D~yGNhVVQKLLE~~s~-------eqr~~Ii~~I~~~~g~Ll~l--s~rVVQKlIe~~~t~eq~~~IveeL--~~~i~ 563 (764)
|+|+||||||||||++|++ +++..|++.+.++...+... +|||||++++.+. .++...+++++ .+++.
T Consensus 75 ~~d~fGNyvvQKlle~~~~~~~~~~~~q~~~i~~~l~g~v~~L~~~~~GsrvvQk~le~~~-~~~~~~iv~eL~~~~~i~ 153 (412)
T 3k62_A 75 STNIFGNYLVQSVIGISLATNDDGYTKRQEKLKNFISSQMTDMCLDKFACRVIQSSLQNMD-LSLACKLVQALPRDARLI 153 (412)
T ss_dssp HTSTTHHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTHHHHHHSTTHHHHHHHHHHHSC-HHHHHHHHHTSCCSHHHH
T ss_pred HhCcHHHHHHHHHHHhCCcccccccHHHHHHHHHHHHHHHHHHHcChhhhHHHHHHHHhCC-HHHHHHHHHHHhccccHH
Confidence 9999999999999999999 99999999997544443322 2999999999986 56778899999 68999
Q ss_pred hhhccCCCchHHHHHHhccChhhhHHHHhhhh--hhhhhhhcCcccchhhhhhhhcCCh------------HHHH----H
Q 004281 564 TLIKNMNGNHVAQRCLLYLLPEYSKFLFQATT--NNCVELATDRHGCCVIQKCLTHSEG------------EQRH----R 625 (764)
Q Consensus 564 ~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~--~~iv~Ls~dkyGSrVVQkiLe~as~------------eqr~----~ 625 (764)
.|++|+|||||||+||++++++.+++|++.+. ++++++++|+|||+|||+||+++++ +++. .
T Consensus 154 ~L~~D~~GNhVIQK~Le~~~~~~~~~I~~~~~~~~~~~~la~h~~GcrVvQk~le~~~~~~~~~~~~~~~~~qr~~il~~ 233 (412)
T 3k62_A 154 AICVDQNANHVIQKVVAVIPLKNWEFIVDFVATPEHLRQICSDKYGCRVVQTIIEKLTADSMNVDLTSAAQNLRERALQR 233 (412)
T ss_dssp HHHHCTTTHHHHHHHHHHSCHHHHHHHHHHHHSHHHHHHHHTSHHHHHHHHHHHHHTSCSGGGTTSCHHHHHHHHHHHHH
T ss_pred HHHhCccccHHHHHHHHhCCHHHHHHHHHHHhcchhHHHHhcCcchHHHHHHHHHhcCcccccchhhhhhHHHHHHHHHH
Confidence 99999999999999999999999999999998 5999999999999999999998873 4554 4
Q ss_pred HHHHHHHhHHHhhcCCCchHHHHHHHHhCChhh-HHHHHH-HHHHhhhccccCcchhHHHHHHHhhCCHHHHHHHHHHHH
Q 004281 626 LVSKITSNALILSQDPFGNYVVQFVFELRLPWA-TMDILD-QLEGNYGDLSMQKYSSNVVEKCLKYGDDERRAHIIQELI 703 (764)
Q Consensus 626 Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~-r~~II~-~L~g~~veLS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl 703 (764)
|+++|..++..|++|+|||||||++|+++.++. +..|++ .|.+++++||+|||||+||||||+.++++.|+.|++||+
T Consensus 234 L~~~I~~~~~~L~~dq~GNyViQ~iL~~g~~~~~r~~ii~~~l~~~~~~LS~~KfgSnVVek~L~~~~~~~r~~ii~ei~ 313 (412)
T 3k62_A 234 LMTSVTNRCQELATNEYANYIIQHIVSNDDLAVYRECIIEKCLMRNLLSLSQEKFASHVVEKAFLHAPLELLAEMMDEIF 313 (412)
T ss_dssp HHHHHHHTHHHHHHSTTTHHHHHHHHHCGGGHHHHHHHHHHHTTTCHHHHHTSTTHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhCccccHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHhcccHhHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 677888899999999999999999999987764 777887 599999999999999999999999999999999999998
Q ss_pred hc---------hhHHHhhcCCChhHHHHHHhhcCChh--------------------hHHHHHHHHhhhHHHHhcCCchH
Q 004281 704 SN---------AHLDQVMLDPYGNYVIQAALQQSKGG--------------------VHSALVDAIRPHVPVLRTSPYGK 754 (764)
Q Consensus 704 ~~---------~~L~~La~DqyGNyVIQkLL~~~~~~--------------------~r~~Lve~L~~~l~~L~~skyGs 754 (764)
.. +.+..|+.|+|||||||++|+++++. .++.|++.++++...|+.++|||
T Consensus 314 ~~~~~~~~~~~~~l~~L~~DqyGNYViQ~~L~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~L~~~~~Gk 393 (412)
T 3k62_A 314 DGYIPHPDTGKDALDIMMFHQFGNYVVQCMLTICCDAVSGRRQTKEGGYDHAISFQDWLKKLHSRVTKERHRLSRFSSGK 393 (412)
T ss_dssp HSSCCCTTTCCCHHHHHHHSTTHHHHHHHHHHHHHHHHTTSSCCEETTEETHHHHHHHHHHHHHHHHHTHHHHTTSHHHH
T ss_pred hhccCCccccchHHHHHhcCCchHHHHHHHHHHccccccchhhccccchhhhhhhHHHHHHHHHHHHHHHHHhccCCCcc
Confidence 52 46889999999999999999999553 25689999999999999999999
Q ss_pred HHHHHhh
Q 004281 755 KVLSCNS 761 (764)
Q Consensus 755 rVV~kL~ 761 (764)
+|+.+|.
T Consensus 394 ~i~~~l~ 400 (412)
T 3k62_A 394 KMIETLA 400 (412)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 9998874
No 3
>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=100.00 E-value=3.9e-57 Score=494.53 Aligned_cols=316 Identities=30% Similarity=0.478 Sum_probs=293.3
Q ss_pred CCccHHHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHH
Q 004281 444 KYNSVEEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAI 523 (764)
Q Consensus 444 ~~nsleEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I 523 (764)
+...++++.|+++++|+|++|||+||++|+.+++++++.||+++.+++.+||+|+||||||||+|++++++++..|++.+
T Consensus 22 ~~~~l~~i~g~i~~l~~d~~gsR~lQ~~l~~~~~~~~~~I~~el~~~~~~L~~d~~gn~vvQkll~~~~~~~~~~i~~~~ 101 (369)
T 3k49_A 22 SNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQKNTLVDQF 101 (369)
T ss_dssp -CCCGGGGTTCHHHHHTSHHHHHHHHHHHTTCCHHHHHHHHHHHGGGHHHHHHSTTTHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred cceeHHHHHHHHHHHHcCCcchHHHHHHhccCCHHHHHHHHHHHHHHHHHHhhCcccccHHHHHHHhCCHHHHHHHHHHH
Confidence 44568999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhHHhhh--hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhh
Q 004281 524 TRKAGDLVRIS--TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVEL 601 (764)
Q Consensus 524 ~~~~g~Ll~ls--~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~L 601 (764)
.++...+..+. |||||++++.+. +++...+++++.+++..|++|+|||||||++|++++++.+.+|++.+.++++.+
T Consensus 102 ~g~~~~L~~~~~G~rVlQk~le~~~-~~q~~~ii~el~~~~~~L~~d~~Gn~ViQ~~l~~~~~~~~~~i~~~~~~~~~~l 180 (369)
T 3k49_A 102 KGNMKQLSLQMYACRVIQKALEYID-SNQRIELVLELSDSVLQMIKDQNGNHVIQKAIETIPIEKLPFILSSLTGHIYHL 180 (369)
T ss_dssp TTCHHHHHHSTTHHHHHHHHHHHSC-HHHHHHHHGGGTTCHHHHHHSTTHHHHHHHHHHHSCGGGCHHHHHHHTTTHHHH
T ss_pred hhhHHHHhcChhhHHHHHHHHHhCC-HHHHHHHHHHHHHHHHHHhcCcccchHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 76555554433 999999999986 667778999999999999999999999999999999999999999999999999
Q ss_pred hcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhh------HHHHHHHHHHhhhcccc
Q 004281 602 ATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWA------TMDILDQLEGNYGDLSM 675 (764)
Q Consensus 602 s~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~------r~~II~~L~g~~veLS~ 675 (764)
+.|+|||+|+|+|+++++++++..|+.+|.+++..|++|+|||||||++|+.+++.. +..|++.|.+++.+||+
T Consensus 181 s~~~~Gs~Vvq~~l~~~~~~~~~~i~~~l~~~~~~L~~d~~GnyViQ~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~Ls~ 260 (369)
T 3k49_A 181 STHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVLQQDQFTNKEMVDIKQEIIETVANNVVEYSK 260 (369)
T ss_dssp HTSTTHHHHHHHHHHHSCHHHHHHHHHTTTTCHHHHHHSTTHHHHHHHHHTCCTTSCHHHHHHHHHHHHHHHTTHHHHHT
T ss_pred hCCCccCcHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHhcCCchhhhhHhHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999987764 57899999999999999
Q ss_pred CcchhHHHHHHHhhCCHHHHHHHHHHHHhc-----------hhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhhhH
Q 004281 676 QKYSSNVVEKCLKYGDDERRAHIIQELISN-----------AHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRPHV 744 (764)
Q Consensus 676 ~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~-----------~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~~l 744 (764)
|||||+|||+||+.++++.|+.|+.+|+.. +.+..|+.|+|||||||++|+.+++.+++.|++.|+|++
T Consensus 261 ~k~gS~Vvek~l~~~~~~~r~~ii~~l~~~~~~~~~~~~~~~~l~~L~~D~~gNyViq~~l~~~~~~~~~~l~~~i~p~l 340 (369)
T 3k49_A 261 HKFASNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKDQFANYVIQKLVNVSEGEGKKLIVIAIRAYL 340 (369)
T ss_dssp STTHHHHHHHHHHHSCHHHHHHHHTTTSCSSHHHHHTCCTTSHHHHHHTSTTHHHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_pred hhHhhHHHHHHHHhCCHHHHHHHHHHHhccccccccccccccHHHHHHhCcchHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999863 357899999999999999999999999999999999999
Q ss_pred HHHhc-CCchHHHHHHh
Q 004281 745 PVLRT-SPYGKKVLSCN 760 (764)
Q Consensus 745 ~~L~~-skyGsrVV~kL 760 (764)
..|+. ++||++|+.++
T Consensus 341 ~~L~~~~~~G~~~~~~~ 357 (369)
T 3k49_A 341 DKLNKSNSLGNRHLASV 357 (369)
T ss_dssp HHHHHCC--CCCCCHHH
T ss_pred HHHhccccCcchHHHHH
Confidence 99986 59999997765
No 4
>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=100.00 E-value=1.4e-56 Score=482.47 Aligned_cols=315 Identities=40% Similarity=0.651 Sum_probs=293.5
Q ss_pred ccHHHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHH
Q 004281 446 NSVEEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITR 525 (764)
Q Consensus 446 nsleEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~ 525 (764)
+++++++|+++++|+|++|||+||++|+.+++++++.||+++.+++.+||+|+||||||||+|++++++++..|++.+.+
T Consensus 6 ~~l~~~~g~i~~l~~~q~gsr~iQ~~l~~~~~~~~~~i~~el~~~~~~L~~d~~gn~vvQkll~~~~~~~~~~i~~~~~~ 85 (333)
T 3bwt_A 6 AVLDQYIGSIHSLCKDQHGCRFLQKQLDILGSKAADAIFEETKDYTVELMTDSFGNYLIQKLLEEVTTEQRIVLTKISSP 85 (333)
T ss_dssp CCGGGTTTCHHHHTSSHHHHHHHHHHHHHSCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHGG
T ss_pred CcHHHHHHHHHHHhcCcHhhHHHHHHHccCCHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHhhCCHHHHHHHHHHHHh
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999998876
Q ss_pred hhhhHHhhh--hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhc
Q 004281 526 KAGDLVRIS--TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELAT 603 (764)
Q Consensus 526 ~~g~Ll~ls--~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~ 603 (764)
+...+.... |||||++++.++++++...+++++.+++..|++|+|||||||+||+.++++.+++|++.+.+++.+++.
T Consensus 86 ~~~~l~~~~~G~rviQ~~l~~~~~~~~~~~i~~el~~~~~~L~~d~~gn~Viqk~l~~~~~~~~~~i~~~l~~~~~~l~~ 165 (333)
T 3bwt_A 86 HFVEISLNPHGTRALQKLIECIKTDEEAQIVVDSLRPYTVQLSKDLNGNHVIQKCLQRLKPENFQFIFDAISDSCIDIAT 165 (333)
T ss_dssp GHHHHHHSTTHHHHHHHHHHHCCSHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHHSHHHHHT
T ss_pred HHHHHHhcccccHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHCCHHHHHHHHHHHHHHHHHHhc
Confidence 555544332 999999999999998999999999999999999999999999999999999999999999999999999
Q ss_pred CcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhh----HHHHHHHHHHhhhccccCcch
Q 004281 604 DRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWA----TMDILDQLEGNYGDLSMQKYS 679 (764)
Q Consensus 604 dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~----r~~II~~L~g~~veLS~~K~G 679 (764)
|+|||+|+|+|+++++++++..|++++.+++..|++|+|||||||++|+.++++. +..|++.|.+++.+||++|||
T Consensus 166 ~~~Gs~Vvq~~l~~~~~~~~~~l~~el~~~~~~L~~d~~GnyVvQ~~L~~~~~~~~~~~~~~ii~~l~~~~~~Ls~~k~g 245 (333)
T 3bwt_A 166 HRHGCCVLQRCLDHGTTEQCDNLCDKLLALVDKLTLDPFGNYVVQYIITKEAEKNKYDYTHKIVHLLKPRAIELSIHKFG 245 (333)
T ss_dssp STTHHHHHHHHHHHCCHHHHHHHHHHHHTTHHHHHTSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHGGGHHHHHTSTTH
T ss_pred CchhHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhCCccccchhHHHHHHHHHHHHHHHHcccHH
Confidence 9999999999999999999999999999999999999999999999999865543 578999999999999999999
Q ss_pred hHHHHHHHhhCCHHHHHHHHHHHHhc---hhHHHhhcCCChhHHHHHHhhcCChh---hHHHHHHHHhhhH-HHHhcCCc
Q 004281 680 SNVVEKCLKYGDDERRAHIIQELISN---AHLDQVMLDPYGNYVIQAALQQSKGG---VHSALVDAIRPHV-PVLRTSPY 752 (764)
Q Consensus 680 S~VVEK~L~~a~~k~Rk~Ii~eLl~~---~~L~~La~DqyGNyVIQkLL~~~~~~---~r~~Lve~L~~~l-~~L~~sky 752 (764)
|+||++||+.++ .++.++.+++.. +.+..|+.|+|||||||++|+.+++. .++.|+++|+|++ ..|++++|
T Consensus 246 s~Vvek~l~~~~--~~~~ii~ell~~~~~~~l~~L~~d~~gnyViq~~l~~~~~~~~~~~~~l~~~l~p~l~~~lr~~~~ 323 (333)
T 3bwt_A 246 SNVIEKILKTAI--VSEPMILEILNNGGETGIQSLLNDSYGNYVLQTALDISHKQNDYLYKRLSEIVAPLLVGPIRNTPH 323 (333)
T ss_dssp HHHHHHHHTSHH--HHHHHHHHHHHTTHHHHHHHHHTSTTHHHHHHHHHHHHHHHCHHHHHHHHHHHGGGCCGGGGGSHH
T ss_pred HHHHHHHHcccc--hhHHHHHHHHhccCchHHHHHHcCChHHHHHHHHHHhccCccHHHHHHHHHHHHHhchhhhcCCCC
Confidence 999999999754 467889998863 67999999999999999999998754 6899999999998 99999999
Q ss_pred hHHHHHHhhc
Q 004281 753 GKKVLSCNSL 762 (764)
Q Consensus 753 GsrVV~kL~l 762 (764)
|+||+.+|.|
T Consensus 324 G~~i~~~l~~ 333 (333)
T 3bwt_A 324 GKRIIGMLHL 333 (333)
T ss_dssp HHHHHTTSCC
T ss_pred HHHHHHHhcC
Confidence 9999999875
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=100.00 E-value=5.7e-55 Score=480.79 Aligned_cols=316 Identities=23% Similarity=0.397 Sum_probs=280.1
Q ss_pred CCCccHHHh--hhhHhhhccCCCccHHHHhhhccCCHHH-HHHHHHHHH---HHHHHhhcCCchhHHHHHHHhhcCHHHH
Q 004281 443 QKYNSVEEV--TGRIYLMAKDQHGCRFLQRKISEGTLED-IEKIFVEII---DHIVELMTDPFGNYLVQKLLEVCNEDQR 516 (764)
Q Consensus 443 ~~~nsleEv--~GkI~~LA~Dq~GSRvLQklLe~as~eq-~~~If~eL~---~~i~eLs~D~yGNhVVQKLLE~~s~eqr 516 (764)
+...++.++ +|+++++|+||+||||||++|+.+++++ ++.||+++. +++.+||+|+||||||||||++|+++++
T Consensus 8 ~~~~~L~~~~~~G~i~~~a~Dq~Gsr~lQ~~l~~~~~~~~~~~if~~l~e~~~~~~~L~~d~~Gn~vvQklle~~~~~~~ 87 (382)
T 3v71_A 8 PIFISLEDVLLNGQLIDFAIDPSGVKFLEANYPLDSEDQIRKAVFEKFTESTTLFVGLCHSRNGNFIVQKLVELATPAEQ 87 (382)
T ss_dssp ---CCHHHHHHTTCHHHHHHSHHHHHHHHHTSCSCTTCHHHHHHHHHHHSCHHHHHHHHSSTTHHHHHHHHHHTCCHHHH
T ss_pred cccCcHHHHhhCCCEehhccCCcccHHHHHHcccCChHHHHHHHHHHHHhhHHHHHHHhcCcHHHHHHHHHHHhCCHHHH
Confidence 356689998 8999999999999999999999988665 788999985 7899999999999999999999999999
Q ss_pred HHHHHHHHHhhhhHHhhh-----hHHHHHHHHhcCChHHHHHHHHHhhh-hhhhhhccCCCchHHHHHHhccChhhhHHH
Q 004281 517 MQILQAITRKAGDLVRIS-----TRAVQKVIETLKSPEQFSLVVSSLKP-GIVTLIKNMNGNHVAQRCLLYLLPEYSKFL 590 (764)
Q Consensus 517 ~~Ii~~I~~~~g~Ll~ls-----~rVVQKlIe~~~t~eq~~~IveeL~~-~i~~L~~Dq~GNhVIQklLe~lspe~~~~I 590 (764)
..++..+. .++++.++ |||||++++.++. ++...++++|.+ ++..|++|+|||||||+||++++++.+++|
T Consensus 88 ~~li~~~l--~g~v~~Ls~~~~G~rvvQk~ie~~~~-~~~~~li~eL~~~~~~~L~~D~~GnhVIQk~le~~~~~~~~~I 164 (382)
T 3v71_A 88 RELLRQMI--DGGLLAMCKDKFACRVVQLALQKFDH-SNVFQLIQELSTFDLAAMCTDQISIHVIQRVVKQLPVDMWTFF 164 (382)
T ss_dssp HHHHHHHH--HTCHHHHHTSTTHHHHHHHHHHHSCH-HHHHHHHHHHHTSCHHHHHHSTTTHHHHHHHHTTSCTTTSHHH
T ss_pred HHHHHHHh--cchHHHHHhCccchHHHHHHHHHCCH-HHHHHHHHHhcccchHHHhcCcccccHHHHHHHHCCHHHHHHH
Confidence 99988753 14555555 9999999999975 455668899998 899999999999999999999999999999
Q ss_pred Hhhhh--hhhhhhhcCcccchhhhhhhhcCChHH-----------HHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCCh-
Q 004281 591 FQATT--NNCVELATDRHGCCVIQKCLTHSEGEQ-----------RHRLVSKITSNALILSQDPFGNYVVQFVFELRLP- 656 (764)
Q Consensus 591 ieaL~--~~iv~Ls~dkyGSrVVQkiLe~as~eq-----------r~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~- 656 (764)
++.+. ++++++++|+|||+|||+||+++++++ ...|+++|..++..|++|+|||||||++|+++.+
T Consensus 165 i~~~~~~~~~~~la~h~~Gc~VlQ~~le~~~~~~k~~~~~~r~~~l~~l~~~I~~~~~~L~~d~~GNyVIQ~iL~~~~~~ 244 (382)
T 3v71_A 165 VHFLSSGDSLMAVCQDKYGCRLVQQVIDRLAENPKLPCFKFRIQLLHSLMTCIVRNCYRLSSNEFANYVIQYVIKSSGIM 244 (382)
T ss_dssp HHHHHSTTHHHHHHHSTTHHHHHHHHHHHHTCCSSSTTHHHHHHHHHHHHHHHHTTHHHHHTSTTTHHHHHHHHTCCSTH
T ss_pred HHHHhcccchHhHhcCchhhHHHHHHHHhCCHhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhCccccHHHHHHHhcCCCc
Confidence 99987 699999999999999999999887542 2356777888889999999999999999999764
Q ss_pred -hhHHHHHHH-HHHhhhccccCcchhHHHHHHHhhCCHHHHHHHHHHHHh---------chhHHHhhcCCChhHHHHHHh
Q 004281 657 -WATMDILDQ-LEGNYGDLSMQKYSSNVVEKCLKYGDDERRAHIIQELIS---------NAHLDQVMLDPYGNYVIQAAL 725 (764)
Q Consensus 657 -~~r~~II~~-L~g~~veLS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~---------~~~L~~La~DqyGNyVIQkLL 725 (764)
+.+..|++. |.++++.||+|||||+||||||+.++++.|+.|+++|+. ++.+..|+.|+|||||||++|
T Consensus 245 e~~r~~ii~~~l~~~~~~Ls~~k~gS~Vvek~l~~~~~~~r~~ii~el~~~~~~~~~~~~~~l~~l~~D~ygNyVvQ~~L 324 (382)
T 3v71_A 245 EMYRDTIIDKCLLRNLLSMSQDKYASHVIEGAFLFAPPALLHEMMEEIFSGYVKDVESNRDALDILLFHQYGNYVVQQMI 324 (382)
T ss_dssp HHHHHHHHHHTTTTCHHHHTTSTTHHHHHHHHHHHCCHHHHHHHHHHHCC--CCCSSSCCCHHHHHHTCTTHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhcCchHhHHHHHHHHhCCHHHHHHHHHHHHhhccccccccchHHHHHHCCCCccHHHHHHH
Confidence 468889875 999999999999999999999999999999999999985 247999999999999999999
Q ss_pred hcCChh-------------------hHHHHHHHHhhhHHHHhcCCchHHHHHHhh
Q 004281 726 QQSKGG-------------------VHSALVDAIRPHVPVLRTSPYGKKVLSCNS 761 (764)
Q Consensus 726 ~~~~~~-------------------~r~~Lve~L~~~l~~L~~skyGsrVV~kL~ 761 (764)
+.+++. .++.|++.+++++..|+.++||+||+++|.
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~l~~~~~Gk~i~~~l~ 379 (382)
T 3v71_A 325 SICTAALIGKEERELPPAILLLYSGWYEKMKQRVLQHASRLERFSSGKKIIDSVM 379 (382)
T ss_dssp HHHHHHCC-----CCCTTTHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHH
T ss_pred HHcccccccchhcccchhHHhhhhHHHHHHHHHHHHHHHHhhhCCchHHHHHHHH
Confidence 999763 257899999999999999999999999874
No 6
>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=100.00 E-value=4.6e-41 Score=367.49 Aligned_cols=262 Identities=23% Similarity=0.341 Sum_probs=240.6
Q ss_pred CccHHHHhhhccCC--HHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHHhhhhHHhhhhHHHHH
Q 004281 463 HGCRFLQRKISEGT--LEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITRKAGDLVRISTRAVQK 540 (764)
Q Consensus 463 ~GSRvLQklLe~as--~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~~g~Ll~ls~rVVQK 540 (764)
+.|++|+......+ ..++...++++.|++.+||+|++|+++||++|++++++++..
T Consensus 3 ~~s~lle~~~~~~~~~~~~~~~~l~~i~g~i~~l~~d~~gsR~lQ~~l~~~~~~~~~~---------------------- 60 (369)
T 3k49_A 3 HRSPLLEQLRNSSSDKNSNSNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEV---------------------- 60 (369)
T ss_dssp --CHHHHHHHTTCC------CCCGGGGTTCHHHHHTSHHHHHHHHHHHTTCCHHHHHH----------------------
T ss_pred CcchhHHHHhCCCCccccccceeHHHHHHHHHHHHcCCcchHHHHHHhccCCHHHHHH----------------------
Confidence 36889998887663 467888999999999999999999999999999999876554
Q ss_pred HHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcCCh
Q 004281 541 VIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLTHSEG 620 (764)
Q Consensus 541 lIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~as~ 620 (764)
|++++.+++.+|++|+|||||+|++|++++++.+..|++.+.+++.+++.|+|||+|+|++++++++
T Consensus 61 -------------I~~el~~~~~~L~~d~~gn~vvQkll~~~~~~~~~~i~~~~~g~~~~L~~~~~G~rVlQk~le~~~~ 127 (369)
T 3k49_A 61 -------------IFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDS 127 (369)
T ss_dssp -------------HHHHHGGGHHHHHHSTTTHHHHHHHHHHCCHHHHHHHHHHHTTCHHHHHHSTTHHHHHHHHHHHSCH
T ss_pred -------------HHHHHHHHHHHHhhCcccccHHHHHHHhCCHHHHHHHHHHHhhhHHHHhcChhhHHHHHHHHHhCCH
Confidence 4556678899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhccccCcchhHHHHHHHhhCCHHHHHHHHH
Q 004281 621 EQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDDERRAHIIQ 700 (764)
Q Consensus 621 eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~k~Rk~Ii~ 700 (764)
+++..|+.++.+++..|++|+|||||||++|+..+++.+..|++.+.+++..||.|+|||+||++||+.+++++|+.|+.
T Consensus 128 ~q~~~ii~el~~~~~~L~~d~~Gn~ViQ~~l~~~~~~~~~~i~~~~~~~~~~ls~~~~Gs~Vvq~~l~~~~~~~~~~i~~ 207 (369)
T 3k49_A 128 NQRIELVLELSDSVLQMIKDQNGNHVIQKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSSEDQESILN 207 (369)
T ss_dssp HHHHHHHGGGTTCHHHHHHSTTHHHHHHHHHHHSCGGGCHHHHHHHTTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcCcccchHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCCCccCcHHHHHHHhCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhchhHHHhhcCCChhHHHHHHhhcCChhh------HHHHHHHHhhhHHHHhcCCchHHHHHHhh
Q 004281 701 ELISNAHLDQVMLDPYGNYVIQAALQQSKGGV------HSALVDAIRPHVPVLRTSPYGKKVLSCNS 761 (764)
Q Consensus 701 eLl~~~~L~~La~DqyGNyVIQkLL~~~~~~~------r~~Lve~L~~~l~~L~~skyGsrVV~kL~ 761 (764)
+|.. .+..|+.|+|||||||++|+.++++. +..|++.+.+++.+|+.++||++||+++.
T Consensus 208 ~l~~--~~~~L~~d~~GnyViQ~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~Ls~~k~gS~Vvek~l 272 (369)
T 3k49_A 208 ELKD--FIPYLIQDQYGNYVIQYVLQQDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSI 272 (369)
T ss_dssp TTTT--CHHHHHHSTTHHHHHHHHHTCCTTSCHHHHHHHHHHHHHHHTTHHHHHTSTTHHHHHHHHH
T ss_pred HHHH--HHHHHhcCCcHHHHHHHHHhcCCchhhhhHhHHHHHHHHHHHHHHHHHhhhHhhHHHHHHH
Confidence 9965 78899999999999999999998764 57899999999999999999999999874
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=100.00 E-value=1.6e-39 Score=349.71 Aligned_cols=241 Identities=23% Similarity=0.360 Sum_probs=216.1
Q ss_pred HHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHHhhhhHHhhhhHHHHHHHHhcCChHHHHHHHHHhhhhh
Q 004281 483 IFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITRKAGDLVRISTRAVQKVIETLKSPEQFSLVVSSLKPGI 562 (764)
Q Consensus 483 If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~~g~Ll~ls~rVVQKlIe~~~t~eq~~~IveeL~~~i 562 (764)
+++++.+++.+||.|++|+++||++|+.++++++.. |++++.+++
T Consensus 7 ~l~~~~g~i~~l~~~q~gsr~iQ~~l~~~~~~~~~~-----------------------------------i~~el~~~~ 51 (333)
T 3bwt_A 7 VLDQYIGSIHSLCKDQHGCRFLQKQLDILGSKAADA-----------------------------------IFEETKDYT 51 (333)
T ss_dssp CGGGTTTCHHHHTSSHHHHHHHHHHHHHSCHHHHHH-----------------------------------HHHHHGGGH
T ss_pred cHHHHHHHHHHHhcCcHhhHHHHHHHccCCHHHHHH-----------------------------------HHHHHHHHH
Confidence 467788999999999999999999999999876554 445567788
Q ss_pred hhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcCC-hHHHHHHHHHHHHhHHHhhcCC
Q 004281 563 VTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLTHSE-GEQRHRLVSKITSNALILSQDP 641 (764)
Q Consensus 563 ~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~as-~eqr~~Li~eL~~~l~~La~Dq 641 (764)
.+|++|+|||||+|++|++++++.+.++++.+.+++.+++.|+|||+|+|+++++++ ++++..+++++.+++..|++|+
T Consensus 52 ~~L~~d~~gn~vvQkll~~~~~~~~~~i~~~~~~~~~~l~~~~~G~rviQ~~l~~~~~~~~~~~i~~el~~~~~~L~~d~ 131 (333)
T 3bwt_A 52 VELMTDSFGNYLIQKLLEEVTTEQRIVLTKISSPHFVEISLNPHGTRALQKLIECIKTDEEAQIVVDSLRPYTVQLSKDL 131 (333)
T ss_dssp HHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHGGGHHHHHHSTTHHHHHHHHHHHCCSHHHHHHHHHHHGGGHHHHHTST
T ss_pred HHHhcCcccHHHHHHHHhhCCHHHHHHHHHHHHhHHHHHHhcccccHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHhcCC
Confidence 899999999999999999999999999999999999999999999999999999864 5667778899999999999999
Q ss_pred CchHHHHHHHHhCChhhHHHHHHHHHHhhhccccCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHH
Q 004281 642 FGNYVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVI 721 (764)
Q Consensus 642 yGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVI 721 (764)
|||||||++|+.++++.+..|++.+.+++..|+.|+|||+||++|++.+++++|+.|++++.. ++..|+.|+||||||
T Consensus 132 ~gn~Viqk~l~~~~~~~~~~i~~~l~~~~~~l~~~~~Gs~Vvq~~l~~~~~~~~~~l~~el~~--~~~~L~~d~~GnyVv 209 (333)
T 3bwt_A 132 NGNHVIQKCLQRLKPENFQFIFDAISDSCIDIATHRHGCCVLQRCLDHGTTEQCDNLCDKLLA--LVDKLTLDPFGNYVV 209 (333)
T ss_dssp THHHHHHHHHHHSCHHHHHHHHHHHHHSHHHHHTSTTHHHHHHHHHHHCCHHHHHHHHHHHHT--THHHHHTSTTHHHHH
T ss_pred cccHHHHHHHHHCCHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHhCCHHHHHHHHHHHHH--HHHHHhcCChHHHHH
Confidence 999999999999889999999999999999999999999999999999999999999999986 688899999999999
Q ss_pred HHHhhcCChh----hHHHHHHHHhhhHHHHhcCCchHHHHHHh
Q 004281 722 QAALQQSKGG----VHSALVDAIRPHVPVLRTSPYGKKVLSCN 760 (764)
Q Consensus 722 QkLL~~~~~~----~r~~Lve~L~~~l~~L~~skyGsrVV~kL 760 (764)
|++|+.++++ .+..|++.+++++.+|+.++||++|++++
T Consensus 210 Q~~L~~~~~~~~~~~~~~ii~~l~~~~~~Ls~~k~gs~Vvek~ 252 (333)
T 3bwt_A 210 QYIITKEAEKNKYDYTHKIVHLLKPRAIELSIHKFGSNVIEKI 252 (333)
T ss_dssp HHHHHHHHHHTCCSHHHHHHHHHGGGHHHHHTSTTHHHHHHHH
T ss_pred HHHHHhCCccccchhHHHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence 9999987654 36789999999999999999999999987
No 8
>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=100.00 E-value=6.7e-37 Score=332.47 Aligned_cols=280 Identities=22% Similarity=0.323 Sum_probs=263.6
Q ss_pred ccHHHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHH
Q 004281 446 NSVEEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITR 525 (764)
Q Consensus 446 nsleEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~ 525 (764)
..++++.+++++|++|+.|++++|++|+.++++++..|++++.+++.+||.|+||++|||++++.++.+++..|++++.+
T Consensus 55 ~i~~ei~~~~~~L~~d~~gn~vvQklle~~~~~~~~~i~~~i~g~~~~l~~~~~G~rvvQk~le~~~~~~~~~i~~el~~ 134 (351)
T 3gvo_A 55 IVFNEILQAAYQLMTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQQSEMVKELDG 134 (351)
T ss_dssp HHHHHHGGGHHHHHTSTTHHHHHHHHHHHCCHHHHHHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHGGGTT
T ss_pred HHHHHHHHhHHHHHhChhhhHHHHHHHhhCCHHHHHHHHHHHHhhHHHHhhCHHhHHHHHHHHHhCCHHHHHHHHHHhhh
Confidence 35889999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred hhhhHHhhh--hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhc
Q 004281 526 KAGDLVRIS--TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELAT 603 (764)
Q Consensus 526 ~~g~Ll~ls--~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~ 603 (764)
+...++... ++|||++++.+. +++...|++.+.+++..+++++||++|+|++|+.+.++.+..+++.+.+++..|+.
T Consensus 135 ~~~~L~~d~~Gn~ViQk~l~~~~-~~~~~~i~~~~~~~~~~ls~~~~G~~Vvq~~le~~~~~~~~~ii~~l~~~~~~L~~ 213 (351)
T 3gvo_A 135 HVLKCVKDQNGNHVVQKCIECVQ-PQSLQFIIDAFKGQVFVLSTHPYGCRVIQRILEHCTAEQTLPILEELHQHTEQLVQ 213 (351)
T ss_dssp CHHHHHHSTTHHHHHHHHHHHSC-GGGTHHHHHHTTTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHTTHHHHHT
T ss_pred hHHHHHHhhhhhHHHHHHHHhCC-HHHHHHHHHHHHHHHHHHHhCcHhHHHHHHHHHHCCHHHHHHHHHHHhhhHHhcCC
Confidence 776666554 999999999874 66778899999999999999999999999999999999999999999999999999
Q ss_pred CcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHH-------hhhccccC
Q 004281 604 DRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEG-------NYGDLSMQ 676 (764)
Q Consensus 604 dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g-------~~veLS~~ 676 (764)
|+||++|||+++++++++.+..|++.+.+++..|++++||++||+++|++++++.+..|++.|.. .+..|+.|
T Consensus 214 d~~Gn~ViQ~~l~~~~~~~~~~i~~~l~~~~~~Ls~~k~gs~Vvek~l~~~~~~~r~~ii~el~~~~~~~~~~l~~l~~d 293 (351)
T 3gvo_A 214 DQYGNYVIQHVLEHGRPEDKSKIVSEIRGKVLALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKD 293 (351)
T ss_dssp STTHHHHHHHHHHHSCHHHHHHHHHTTTTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHSCEETTEEHHHHHHHS
T ss_pred CchHHHHHHHHHHhCchhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHhCCHHHHHHHHHHHhcccCCCChHHHHccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999985 68999999
Q ss_pred cchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHHhhcC
Q 004281 677 KYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAALQQS 728 (764)
Q Consensus 677 K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL~~~ 728 (764)
+||++||+++|+.+++++|..|+..+.. ++..|..++||..|+.++....
T Consensus 294 ~ygnyViq~~L~~~~~~~r~~i~~~i~~--~~~~L~~~~~g~~i~~kl~~~~ 343 (351)
T 3gvo_A 294 QYANYVVQKMIDMAEPAQRKIIMHKIRP--HITTLRKYTYGKHILAKLEKYY 343 (351)
T ss_dssp TTHHHHHHHHHHHCCHHHHHHHHHHHGG--GHHHHTTSTTTHHHHHHHHHHT
T ss_pred cchHHHHHHHHHhCCHHHHHHHHHHHHH--HHHHHhcCCchHHHHHHHHHHH
Confidence 9999999999999999999999999954 8999999999999999876643
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=100.00 E-value=1.2e-34 Score=319.21 Aligned_cols=276 Identities=19% Similarity=0.247 Sum_probs=239.1
Q ss_pred HHHH--HHHHHHhhcCCchhHHHHHHHhhcCHH-HHHHHHHHHHHhhhhHHhhh-----hHHHHHHHHhcCChHHHHHHH
Q 004281 484 FVEI--IDHIVELMTDPFGNYLVQKLLEVCNED-QRMQILQAITRKAGDLVRIS-----TRAVQKVIETLKSPEQFSLVV 555 (764)
Q Consensus 484 f~eL--~~~i~eLs~D~yGNhVVQKLLE~~s~e-qr~~Ii~~I~~~~g~Ll~ls-----~rVVQKlIe~~~t~eq~~~Iv 555 (764)
+.++ .+++.++|+|++|+++||++|+.++++ .+..|++++......++.++ ++||||+++.++.+++...+.
T Consensus 13 L~~~~~~G~i~~~a~Dq~Gsr~lQ~~l~~~~~~~~~~~if~~l~e~~~~~~~L~~d~~Gn~vvQklle~~~~~~~~~li~ 92 (382)
T 3v71_A 13 LEDVLLNGQLIDFAIDPSGVKFLEANYPLDSEDQIRKAVFEKFTESTTLFVGLCHSRNGNFIVQKLVELATPAEQRELLR 92 (382)
T ss_dssp HHHHHHTTCHHHHHHSHHHHHHHHHTSCSCTTCHHHHHHHHHHHSCHHHHHHHHSSTTHHHHHHHHHHTCCHHHHHHHHH
T ss_pred HHHHhhCCCEehhccCCcccHHHHHHcccCChHHHHHHHHHHHHhhHHHHHHHhcCcHHHHHHHHHHHhCCHHHHHHHHH
Confidence 3455 589999999999999999999998764 47888888864444555554 999999999997554444444
Q ss_pred HHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhh-hhhhhhcCcccchhhhhhhhcCChHHHHHHHHHHH--H
Q 004281 556 SSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTN-NCVELATDRHGCCVIQKCLTHSEGEQRHRLVSKIT--S 632 (764)
Q Consensus 556 eeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~-~iv~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~--~ 632 (764)
+.+.+++..|+.|+||++|+|++|+++..+.+..+++++.+ +++.++.|++|++|||+|+++.+++.+..|++++. +
T Consensus 93 ~~l~g~v~~Ls~~~~G~rvvQk~ie~~~~~~~~~li~eL~~~~~~~L~~D~~GnhVIQk~le~~~~~~~~~Ii~~~~~~~ 172 (382)
T 3v71_A 93 QMIDGGLLAMCKDKFACRVVQLALQKFDHSNVFQLIQELSTFDLAAMCTDQISIHVIQRVVKQLPVDMWTFFVHFLSSGD 172 (382)
T ss_dssp HHHHTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHTSCHHHHHHSTTTHHHHHHHHTTSCTTTSHHHHHHHHSTT
T ss_pred HHhcchHHHHHhCccchHHHHHHHHHCCHHHHHHHHHHhcccchHHHhcCcccccHHHHHHHHCCHHHHHHHHHHHhccc
Confidence 44789999999999999999999999999999999999998 89999999999999999999999999999999997 6
Q ss_pred hHHHhhcCCCchHHHHHHHHhCChhh-------H----HHHHHHHHHhhhccccCcchhHHHHHHHhhCCH--HHHHHHH
Q 004281 633 NALILSQDPFGNYVVQFVFELRLPWA-------T----MDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDD--ERRAHII 699 (764)
Q Consensus 633 ~l~~La~DqyGNyVIQ~LLe~~~~~~-------r----~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~--k~Rk~Ii 699 (764)
++..|++|+||++|||++|++..+.. + ..|++.+.+++..|+.++||++||+++|+.++. ..|..|+
T Consensus 173 ~~~~la~h~~Gc~VlQ~~le~~~~~~k~~~~~~r~~~l~~l~~~I~~~~~~L~~d~~GNyVIQ~iL~~~~~~e~~r~~ii 252 (382)
T 3v71_A 173 SLMAVCQDKYGCRLVQQVIDRLAENPKLPCFKFRIQLLHSLMTCIVRNCYRLSSNEFANYVIQYVIKSSGIMEMYRDTII 252 (382)
T ss_dssp HHHHHHHSTTHHHHHHHHHHHHTCCSSSTTHHHHHHHHHHHHHHHHTTHHHHHTSTTTHHHHHHHHTCCSTHHHHHHHHH
T ss_pred chHhHhcCchhhHHHHHHHHhCCHhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhCccccHHHHHHHhcCCCcHHHHHHHH
Confidence 89999999999999999999865432 1 346778888999999999999999999998763 5688999
Q ss_pred HHHHhchhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhh-----------hHHHHhcCCchHHHHHHh
Q 004281 700 QELISNAHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRP-----------HVPVLRTSPYGKKVLSCN 760 (764)
Q Consensus 700 ~eLl~~~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~-----------~l~~L~~skyGsrVV~kL 760 (764)
.+.+. +++..|++|+||++||+++|..+++++|..|+++|.. .+..|..++||.+||+++
T Consensus 253 ~~~l~-~~~~~Ls~~k~gS~Vvek~l~~~~~~~r~~ii~el~~~~~~~~~~~~~~l~~l~~D~ygNyVvQ~~ 323 (382)
T 3v71_A 253 DKCLL-RNLLSMSQDKYASHVIEGAFLFAPPALLHEMMEEIFSGYVKDVESNRDALDILLFHQYGNYVVQQM 323 (382)
T ss_dssp HHTTT-TCHHHHTTSTTHHHHHHHHHHHCCHHHHHHHHHHHCC--CCCSSSCCCHHHHHHTCTTHHHHHHHH
T ss_pred HHHHH-HHHHHHhcCchHhHHHHHHHHhCCHHHHHHHHHHHHhhccccccccchHHHHHHCCCCccHHHHHH
Confidence 87333 4899999999999999999999999999999999974 688999999999999986
No 10
>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=100.00 E-value=6.9e-33 Score=307.94 Aligned_cols=272 Identities=16% Similarity=0.238 Sum_probs=232.3
Q ss_pred HHHHHHhhcCCchhHHHHHHHhhc-CHHHHHHHHHHHHHhhhhHHhhh-----hHHHHHHHHhcCCh------HHHHHHH
Q 004281 488 IDHIVELMTDPFGNYLVQKLLEVC-NEDQRMQILQAITRKAGDLVRIS-----TRAVQKVIETLKSP------EQFSLVV 555 (764)
Q Consensus 488 ~~~i~eLs~D~yGNhVVQKLLE~~-s~eqr~~Ii~~I~~~~g~Ll~ls-----~rVVQKlIe~~~t~------eq~~~Iv 555 (764)
.+++.++|+|++|+.++|++|+.+ +++++..|++++.++...+++++ ++||||+++.++.. ++...++
T Consensus 28 ~G~i~~la~Dq~GsR~lQ~~l~~~~~~e~~~~If~el~~~~~~~~~L~~d~fGNyvvQKlle~~~~~~~~~~~~q~~~i~ 107 (412)
T 3k62_A 28 SGDLMKFAVDKTGCQFLEKAVKGSLTSYQKFQLFEQVIGRKDDFLKLSTNIFGNYLVQSVIGISLATNDDGYTKRQEKLK 107 (412)
T ss_dssp HTCHHHHHTSHHHHHHHHHHTTSCCCHHHHHHHHHHHSSSHHHHHHHHTSTTHHHHHHHHHHHHHHCCSTTHHHHHHHHH
T ss_pred CCCcHHHhcCChhHHHHHHHhccCCCHHHHHHHHHHHHhhhhHHHHHHhCcHHHHHHHHHHHhCCcccccccHHHHHHHH
Confidence 589999999999999999999997 89999999999976543444444 99999999998531 5667788
Q ss_pred HHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhh--hhhhhhhhcCcccchhhhhhhhcCChHHHHHHHHHHH--
Q 004281 556 SSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQAT--TNNCVELATDRHGCCVIQKCLTHSEGEQRHRLVSKIT-- 631 (764)
Q Consensus 556 eeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL--~~~iv~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~-- 631 (764)
+.+.+++..|+.|++|++|+|++|+++.++.+..+++++ .+++..++.|++|++|||+||+.++++.+..|++.+.
T Consensus 108 ~~l~g~v~~L~~~~~GsrvvQk~le~~~~~~~~~iv~eL~~~~~i~~L~~D~~GNhVIQK~Le~~~~~~~~~I~~~~~~~ 187 (412)
T 3k62_A 108 NFISSQMTDMCLDKFACRVIQSSLQNMDLSLACKLVQALPRDARLIAICVDQNANHVIQKVVAVIPLKNWEFIVDFVATP 187 (412)
T ss_dssp HHHHHTHHHHHHSTTHHHHHHHHHHHSCHHHHHHHHHTSCCSHHHHHHHHCTTTHHHHHHHHHHSCHHHHHHHHHHHHSH
T ss_pred HHHHHHHHHHHcChhhhHHHHHHHHhCCHHHHHHHHHHHhccccHHHHHhCccccHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence 999999999999999999999999999988899999998 6889999999999999999999999999999999887
Q ss_pred HhHHHhhcCCCchHHHHHHHHhCCh------------hhHH----HHHHHHHHhhhccccCcchhHHHHHHHhhCCHH-H
Q 004281 632 SNALILSQDPFGNYVVQFVFELRLP------------WATM----DILDQLEGNYGDLSMQKYSSNVVEKCLKYGDDE-R 694 (764)
Q Consensus 632 ~~l~~La~DqyGNyVIQ~LLe~~~~------------~~r~----~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~k-~ 694 (764)
+++..|++|+||++|||++|++..+ +.+. .|++.+..++..|+.++||.+||+.+|+.+.+. .
T Consensus 188 ~~~~~la~h~~GcrVvQk~le~~~~~~~~~~~~~~~~~qr~~il~~L~~~I~~~~~~L~~dq~GNyViQ~iL~~g~~~~~ 267 (412)
T 3k62_A 188 EHLRQICSDKYGCRVVQTIIEKLTADSMNVDLTSAAQNLRERALQRLMTSVTNRCQELATNEYANYIIQHIVSNDDLAVY 267 (412)
T ss_dssp HHHHHHHTSHHHHHHHHHHHHHTSCSGGGTTSCHHHHHHHHHHHHHHHHHHHHTHHHHHHSTTTHHHHHHHHHCGGGHHH
T ss_pred hhHHHHhcCcchHHHHHHHHHhcCcccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhCccccHHHHHHHhcCCchhH
Confidence 5889999999999999999998653 2343 356677788889999999999999999987765 4
Q ss_pred HHHHHHHHHhchhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhh-----------hHHHHhcCCchHHHHHHh
Q 004281 695 RAHIIQELISNAHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRP-----------HVPVLRTSPYGKKVLSCN 760 (764)
Q Consensus 695 Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~-----------~l~~L~~skyGsrVV~kL 760 (764)
|..|+...+. +++..|++|+||+.||+++|..++++.+..|+++|.. .+..|..++||.+||+++
T Consensus 268 r~~ii~~~l~-~~~~~LS~~KfgSnVVek~L~~~~~~~r~~ii~ei~~~~~~~~~~~~~~l~~L~~DqyGNYViQ~~ 343 (412)
T 3k62_A 268 RECIIEKCLM-RNLLSLSQEKFASHVVEKAFLHAPLELLAEMMDEIFDGYIPHPDTGKDALDIMMFHQFGNYVVQCM 343 (412)
T ss_dssp HHHHHHHHTT-TCHHHHHTSTTHHHHHHHHHHHCCHHHHHHHHHHHHHSSCCCTTTCCCHHHHHHHSTTHHHHHHHH
T ss_pred HHHHHHHHHH-HHHHHHhcccHhHHHHHHHHHhCCHHHHHHHHHHHHhhccCCccccchHHHHHhcCCchHHHHHHH
Confidence 7788875333 4789999999999999999999998889999988874 378899999999999876
No 11
>3hjl_A Flagellar motor switch protein FLIG; armadillo repeat motif, superhelix, conformational plasticit repeat, torque generation; 2.40A {Aquifex aeolicus}
Probab=46.23 E-value=3e+02 Score=29.31 Aligned_cols=26 Identities=27% Similarity=0.289 Sum_probs=13.8
Q ss_pred cchhHHHHHHHhhCCHHHHHHHHHHH
Q 004281 677 KYSSNVVEKCLKYGDDERRAHIIQEL 702 (764)
Q Consensus 677 K~GS~VVEK~L~~a~~k~Rk~Ii~eL 702 (764)
.-|...+=.+|...+....+.|+..|
T Consensus 197 ~gG~~~vA~ILN~~d~~~e~~il~~L 222 (329)
T 3hjl_A 197 LEGTAVAAELLNTLDKETRELILQSI 222 (329)
T ss_dssp CCHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred cccHHHHHHHHhcCChHHHHHHHHHH
Confidence 34455555555555555555555444
No 12
>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6, ankyrin reapeat, ANK RE calcium channel, calcium transport, calmodulin-binding; 1.70A {Mus musculus}
Probab=45.59 E-value=1.7e+02 Score=27.52 Aligned_cols=163 Identities=13% Similarity=0.093 Sum_probs=93.4
Q ss_pred hccCCCchHHHHHHhccChhhhHHHHhhhhhhhhh--hhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHh-hc---
Q 004281 566 IKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVE--LATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALIL-SQ--- 639 (764)
Q Consensus 566 ~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~--Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~L-a~--- 639 (764)
..|..|...+..+......+..+.+++.-..-... -..+..|...+..+......+..+.|++ .-..+ ..
T Consensus 32 ~~~~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~----~g~~~~~~~~~ 107 (232)
T 2rfa_A 32 QRGAMGETALHIAALYDNLEAAMVLMEAAPELVFEPMTSELYEGQTALHIAVINQNVNLVRALLA----RGASVSARATG 107 (232)
T ss_dssp CCCTTSCCHHHHHHHTTCHHHHHHHHHHCGGGGGCCCCSTTTTTCCHHHHHHHTTCHHHHHHHHH----TTCCTTCCCCS
T ss_pred cCCCCCCCHHHHHHHcCCHHHHHHHHHcCchhccccccccCCCCcCHHHHHHHcCCHHHHHHHHh----CCCCCCcccCC
Confidence 34677777777777776666555555532211110 2334567666666666555444333332 21111 11
Q ss_pred ----------CCCchHHHHHHHHhCChhhHHHHHHHHHHhhhc-cccCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhH
Q 004281 640 ----------DPFGNYVVQFVFELRLPWATMDILDQLEGNYGD-LSMQKYSSNVVEKCLKYGDDERRAHIIQELISNAHL 708 (764)
Q Consensus 640 ----------DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~ve-LS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L 708 (764)
|.+|...+......+.. .+++.|..+=.. -..+..|...+..+...+..+....+++.|+..+.-
T Consensus 108 ~~~~~~~~~~~~~g~t~L~~A~~~~~~----~~v~~Ll~~ga~~~~~d~~g~t~L~~A~~~~~~~~~~~i~~~Ll~~g~~ 183 (232)
T 2rfa_A 108 SVFHYRPHNLIYYGEHPLSFAACVGSE----EIVRLLIEHGADIRAQDSLGNTVLHILILQPNKTFACQMYNLLLSYDGG 183 (232)
T ss_dssp GGGSCCTTCSCCCCSSHHHHHHHHTCH----HHHHHHHHTTCCTTCCCTTSCCHHHHHHTCSCHHHHHHHHHHHHHTTCS
T ss_pred cceeecccccccCCCCHHHHHHHcCCH----HHHHHHHHCCCCCCCCCCCCCCHHHHHHHcCChHHHHHHHHHHHhcCCc
Confidence 23677777777776544 344444433222 245778888888888888877766777777764321
Q ss_pred HH-----hhcCCChhHHHHHHhhcCChhhHHHH
Q 004281 709 DQ-----VMLDPYGNYVIQAALQQSKGGVHSAL 736 (764)
Q Consensus 709 ~~-----La~DqyGNyVIQkLL~~~~~~~r~~L 736 (764)
.. -..|..|.-.+..+......+.-+.|
T Consensus 184 ~~~~~~~~~~~~~g~tpl~~A~~~g~~~~v~~L 216 (232)
T 2rfa_A 184 DHLKSLELVPNNQGLTPFKLAGVEGNIVMFQHL 216 (232)
T ss_dssp CSSCCGGGCCCTTSCCHHHHHHHHTCHHHHHHH
T ss_pred hhhhhhhccCCCCCCCHHHHHHHcCCHHHHHHH
Confidence 11 36788888888777776554433333
No 13
>2ilr_A Protein FACE, fanconi anemia group E protein; antiparallel helical hairpin, helical repeat, FANC repeat, oncoprotein; 2.00A {Homo sapiens}
Probab=41.68 E-value=82 Score=32.78 Aligned_cols=22 Identities=14% Similarity=0.169 Sum_probs=14.8
Q ss_pred HHHHhhhccCCHHHHHHHHHHHH
Q 004281 466 RFLQRKISEGTLEDIEKIFVEII 488 (764)
Q Consensus 466 RvLQklLe~as~eq~~~If~eL~ 488 (764)
.++| .|..+++.+.+.+.+++.
T Consensus 39 ~~l~-~L~~~sp~q~e~lc~~L~ 60 (264)
T 2ilr_A 39 VELQ-LLHECSPSQMDLLCAQLQ 60 (264)
T ss_dssp HHHH-GGGGCCHHHHHHHHHHHT
T ss_pred HHHH-HHHhCCHHHHHHHHHHHh
Confidence 3444 444588888888888763
No 14
>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1
Probab=30.09 E-value=3.6e+02 Score=25.59 Aligned_cols=159 Identities=13% Similarity=0.091 Sum_probs=83.4
Q ss_pred hccCCCchHHHHHHhccChhhhHHHHhhhhhhh-------hhhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhh
Q 004281 566 IKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNC-------VELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILS 638 (764)
Q Consensus 566 ~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~i-------v~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La 638 (764)
..|.+|...+..++.....+..+.+++.-..-- ..-..+..|...+..+......+..+.|++.. ....-.
T Consensus 100 ~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~--~~~~~~ 177 (285)
T 1wdy_A 100 ECDFYGFTAFMEAAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVLKILLDEM--GADVNA 177 (285)
T ss_dssp CBCTTCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCCCCHHHHHTTCCCCCHHHHHHHHTCHHHHHHHHHTS--CCCTTC
T ss_pred ccCcccCCHHHHHHHhCCHHHHHHHHHhCCCcccccccHHHHHhhccCCCcHHHHHHHcCCHHHHHHHHHhc--CCCCCc
Confidence 346667777776666655555555544311000 00011455666666655555444333333211 111224
Q ss_pred cCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhcc-ccCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCCh
Q 004281 639 QDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDL-SMQKYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYG 717 (764)
Q Consensus 639 ~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veL-S~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyG 717 (764)
.|..|...+...+..+.......+++.|..+=..+ ..++.|...+..+...+..+ +++.|+......--..|..|
T Consensus 178 ~~~~g~t~l~~a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~----~v~~Ll~~~g~~~~~~~~~g 253 (285)
T 1wdy_A 178 CDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLG----LVQRLLEQEHIEINDTDSDG 253 (285)
T ss_dssp CCTTSCCHHHHHHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTTCHH----HHHHHHHSSSCCTTCCCTTS
T ss_pred cCCCCCCHHHHHHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCCHH----HHHHHHhccCCCccccCCCC
Confidence 56778888888887766666667777776553333 34567777777777666544 34444431111123456667
Q ss_pred hHHHHHHhhcCCh
Q 004281 718 NYVIQAALQQSKG 730 (764)
Q Consensus 718 NyVIQkLL~~~~~ 730 (764)
.-.+..+......
T Consensus 254 ~t~l~~A~~~~~~ 266 (285)
T 1wdy_A 254 KTALLLAVELKLK 266 (285)
T ss_dssp CCHHHHHHHTTCH
T ss_pred CcHHHHHHHcCcH
Confidence 6666666655443
No 15
>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A
Probab=26.44 E-value=3.3e+02 Score=25.39 Aligned_cols=55 Identities=11% Similarity=0.080 Sum_probs=29.5
Q ss_pred cCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHH-hhcCCchhHHHHHHHhhcCHH
Q 004281 460 KDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVE-LMTDPFGNYLVQKLLEVCNED 514 (764)
Q Consensus 460 ~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~e-Ls~D~yGNhVVQKLLE~~s~e 514 (764)
+|..|.-.|..+...++.+..+.+++.+...-.. -..|..|...+...+..+..+
T Consensus 5 ~d~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~ 60 (241)
T 1k1a_A 5 ADEDGDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPS 60 (241)
T ss_dssp --CTTCCHHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHH
T ss_pred cCCCCCcHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHH
Confidence 4666667777777777776666655543321111 124555666665555555544
No 16
>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A
Probab=23.44 E-value=4.4e+02 Score=24.30 Aligned_cols=152 Identities=14% Similarity=0.111 Sum_probs=64.1
Q ss_pred ccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcCChHHHHHHHHHHHHh---HHHhhcCCCc
Q 004281 567 KNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSN---ALILSQDPFG 643 (764)
Q Consensus 567 ~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~---l~~La~DqyG 643 (764)
.|..|...+..++.....+..+.+++.-..--.....+..|...+..+......+ ++..+... ...-..+..|
T Consensus 32 ~~~~g~t~L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~----~~~~Ll~~g~~~~~~~~~~~g 107 (228)
T 2dzn_A 32 KDQDGRIPLHWSVSFQAHEITSFLLSKMENVNLDDYPDDSGWTPFHIACSVGNLE----VVKSLYDRPLKPDLNKITNQG 107 (228)
T ss_dssp CCTTSCCHHHHHHHTTCHHHHHHHHHTCTTCCGGGCCCTTSCCHHHHHHHHCCHH----HHHHHHSSSSCCCTTCCCTTC
T ss_pred CCCCCCCHHHHHHHcCCHHHHHHHHhccccccccccCCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCcccccCCcCC
Confidence 4566666666666655555444444432111111113445555555544444333 22222221 1122334555
Q ss_pred hHHHHHHHHhCChhhHHHHHHHHHHhhhc-cccCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHH
Q 004281 644 NYVVQFVFELRLPWATMDILDQLEGNYGD-LSMQKYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQ 722 (764)
Q Consensus 644 NyVIQ~LLe~~~~~~r~~II~~L~g~~ve-LS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQ 722 (764)
...+...+..+..+ +++.|..+=.. -..++.|...+..+...+.. .+++.|+..+...--..|..|+-.+.
T Consensus 108 ~t~L~~A~~~~~~~----~~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~----~~v~~Ll~~g~~~~~~~d~~g~t~L~ 179 (228)
T 2dzn_A 108 VTCLHLAVGKKWFE----VSQFLIENGASVRIKDKFNQIPLHRAASVGSL----KLIELLCGLGKSAVNWQDKQGWTPLF 179 (228)
T ss_dssp CCHHHHHHHTTCHH----HHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCH----HHHHHHHTTTCCCSCCCCTTSCCHHH
T ss_pred CCHHHHHHHcCCHh----HHHHHHHcCCCccccCCCCCCHHHHHHHcCCH----HHHHHHHhcCcccccCcCCCCCCHHH
Confidence 55555555543332 33333222111 12344555555555544443 23344433221111234555555555
Q ss_pred HHhhcCCh
Q 004281 723 AALQQSKG 730 (764)
Q Consensus 723 kLL~~~~~ 730 (764)
.+......
T Consensus 180 ~A~~~~~~ 187 (228)
T 2dzn_A 180 HALAEGHG 187 (228)
T ss_dssp HHHHTTCH
T ss_pred HHHHcCCH
Confidence 55554443
No 17
>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6, ankyrin reapeat, ANK RE calcium channel, calcium transport, calmodulin-binding; 1.70A {Mus musculus}
Probab=22.90 E-value=4.3e+02 Score=24.57 Aligned_cols=130 Identities=13% Similarity=0.045 Sum_probs=71.0
Q ss_pred ccCCCchHHHHHHhccChhhhHHHHhhhhhhhh----------hhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHH
Q 004281 567 KNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCV----------ELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALI 636 (764)
Q Consensus 567 ~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv----------~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~ 636 (764)
.|..|...+..++.....+..+.+++.-..--. .-..+.+|...+..+......+..+.|++. .+..
T Consensus 71 ~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~---ga~~ 147 (232)
T 2rfa_A 71 ELYEGQTALHIAVINQNVNLVRALLARGASVSARATGSVFHYRPHNLIYYGEHPLSFAACVGSEEIVRLLIEH---GADI 147 (232)
T ss_dssp TTTTTCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCCSGGGSCCTTCSCCCCSSHHHHHHHHTCHHHHHHHHHT---TCCT
T ss_pred cCCCCcCHHHHHHHcCCHHHHHHHHhCCCCCCcccCCcceeecccccccCCCCHHHHHHHcCCHHHHHHHHHC---CCCC
Confidence 345666666666655555544544443110000 000123566666655555544433333321 1222
Q ss_pred hhcCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhc-------cccCcchhHHHHHHHhhCCHHHHHHHH
Q 004281 637 LSQDPFGNYVVQFVFELRLPWATMDILDQLEGNYGD-------LSMQKYSSNVVEKCLKYGDDERRAHII 699 (764)
Q Consensus 637 La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~ve-------LS~~K~GS~VVEK~L~~a~~k~Rk~Ii 699 (764)
-+.|..|.-.+...+..+..+....+++.|..+-.. -..++.|...+.-+...+..+..+.++
T Consensus 148 ~~~d~~g~t~L~~A~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~~~~~~~g~tpl~~A~~~g~~~~v~~Ll 217 (232)
T 2rfa_A 148 RAQDSLGNTVLHILILQPNKTFACQMYNLLLSYDGGDHLKSLELVPNNQGLTPFKLAGVEGNIVMFQHLM 217 (232)
T ss_dssp TCCCTTSCCHHHHHHTCSCHHHHHHHHHHHHHTTCSCSSCCGGGCCCTTSCCHHHHHHHHTCHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHcCChHHHHHHHHHHHhcCCchhhhhhhccCCCCCCCHHHHHHHcCCHHHHHHHH
Confidence 356888988888888887666666666777654332 256778877777777766654444333
No 18
>2ilr_A Protein FACE, fanconi anemia group E protein; antiparallel helical hairpin, helical repeat, FANC repeat, oncoprotein; 2.00A {Homo sapiens}
Probab=22.73 E-value=6.5e+02 Score=26.01 Aligned_cols=165 Identities=13% Similarity=0.069 Sum_probs=82.2
Q ss_pred HHHHHHhhcCHHHHHHHHHHHHHhhhhHHhhh-hHHHHHHHHhcC--ChHHHHH-HHHHhhhhhhhhhccCCCchHHH-H
Q 004281 503 LVQKLLEVCNEDQRMQILQAITRKAGDLVRIS-TRAVQKVIETLK--SPEQFSL-VVSSLKPGIVTLIKNMNGNHVAQ-R 577 (764)
Q Consensus 503 VVQKLLE~~s~eqr~~Ii~~I~~~~g~Ll~ls-~rVVQKlIe~~~--t~eq~~~-IveeL~~~i~~L~~Dq~GNhVIQ-k 577 (764)
..-+++..|++.|.+.+.+++.- ..+-+-+ ....+.++.... +-..... +-..+.+.+..+ ..-++.++. .
T Consensus 39 ~~l~~L~~~sp~q~e~lc~~L~l--~~lsd~~l~~lc~~ll~ls~dlS~~~a~v~~~~l~LPkil~L--~~~ASR~L~sa 114 (264)
T 2ilr_A 39 VELQLLHECSPSQMDLLCAQLQL--PQLSDLGLLRLCTWLLALSPDLSLSNATVLTRSLFLGRILSL--TSSASRLLTTA 114 (264)
T ss_dssp HHHHGGGGCCHHHHHHHHHHHTG--GGCCHHHHHHHHHHHHHCSSCCCHHHHHHHHHHHHHHHHHHC--SSCCCHHHHHH
T ss_pred HHHHHHHhCCHHHHHHHHHHHhh--ccCCHHHHHHHHHHHHcCCcchhhhhHHHHHHHHHHHHHHhc--cCcchhHHHHH
Confidence 55566777999998888877631 1111111 344445555321 1112222 333445777666 555666654 3
Q ss_pred HHhccChhhhHHHHhhhh-hhhhhhhcCcccchhhhhhhh--cCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhC
Q 004281 578 CLLYLLPEYSKFLFQATT-NNCVELATDRHGCCVIQKCLT--HSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELR 654 (764)
Q Consensus 578 lLe~lspe~~~~IieaL~-~~iv~Ls~dkyGSrVVQkiLe--~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~ 654 (764)
+.+++ ..+-..+++++. .-+..-..+..=+.++.++++ ...++.+..++..+. .+.=+..---|+|.+++..
T Consensus 115 l~~f~-k~~p~a~~~all~PLL~~~~~g~~Q~eLi~rlik~e~l~p~~~~lll~~iL----~l~WtE~~~~Vlq~lL~~k 189 (264)
T 2ilr_A 115 LTSFA-AKYTYPVCSALLDPVLQAPGTGPAQTELLCCLVKMESLEPDAQVLMLGQIL----ELPWKEETFLVLQSLLERQ 189 (264)
T ss_dssp HHHHH-HHSHHHHHHHHHHHHHHSTTCCHHHHHHHHHHHHCTTSCHHHHHHHHHHHH----HSCCCHHHHHHHHHHHTTC
T ss_pred HHHHH-HhCcHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHH----hccchHHHHHHHHHHHhcC
Confidence 33333 222233334332 333333334445677777774 445566666666664 3444555556899999864
Q ss_pred ---ChhhHHHHHHHHHHhhhccccC
Q 004281 655 ---LPWATMDILDQLEGNYGDLSMQ 676 (764)
Q Consensus 655 ---~~~~r~~II~~L~g~~veLS~~ 676 (764)
+++....++..|.+.-..++.+
T Consensus 190 ~~L~~~~i~~Lv~~L~~~a~~~skS 214 (264)
T 2ilr_A 190 VEMTPEKFSVLMEKLCKKGLAATTS 214 (264)
T ss_dssp CCCCHHHHHHHHHHHHC-----CCS
T ss_pred CCCCHHHHHHHHHHHHHHhHHhhcc
Confidence 2334444445554444444433
No 19
>2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule, XMAP215, STU2, DIS1, microtubule associated protein, structural protein; 1.90A {Caenorhabditis elegans}
Probab=22.53 E-value=6.4e+02 Score=25.85 Aligned_cols=54 Identities=17% Similarity=0.080 Sum_probs=32.1
Q ss_pred HHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhh
Q 004281 681 NVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRP 742 (764)
Q Consensus 681 ~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~ 742 (764)
..|-+++.-.+...|..-+..+.. +...+.|. |. +.+...+++.+..|-+.++.
T Consensus 210 ~~ia~ll~D~d~~VR~aAl~~lve---~y~~~Gd~----v~-k~lg~L~~~~~~~l~er~~r 263 (266)
T 2of3_A 210 KTVAPFVGDKDVNVRNAAINVLVA---CFKFEGDQ----MW-KAAGRMADKDKSLVEERIKR 263 (266)
T ss_dssp HHHGGGGGCSSHHHHHHHHHHHHH---HHHHHTTH----HH-HHHCCCCHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHH---HHHHhhHH----HH-HHHhcCCHHHHHHHHHHHhh
Confidence 346667777777888887776653 23344333 33 34455566677777766653
No 20
>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A
Probab=21.18 E-value=3.1e+02 Score=25.55 Aligned_cols=154 Identities=14% Similarity=0.121 Sum_probs=78.0
Q ss_pred hccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcCChHHHHHHHHHHHH-hHHHhhcCCCch
Q 004281 566 IKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLTHSEGEQRHRLVSKITS-NALILSQDPFGN 644 (764)
Q Consensus 566 ~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~-~l~~La~DqyGN 644 (764)
..|..|...+..++.....+..+.+++.-. ---..+..|...+..+......+....|++.... ....-..+..|.
T Consensus 41 ~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~---~~~~~~~~g~t~l~~A~~~~~~~~~~~Ll~~~~~~~~~~~~~~~~g~ 117 (241)
T 1k1a_A 41 IYNNLRQTPLHLAVITTLPSVVRLLVTAGA---SPMALDRHGQTAAHLACEHRSPTCLRALLDSAAPGTLDLEARNYDGL 117 (241)
T ss_dssp CCCTTSCCHHHHHHHTTCHHHHHHHHHTTC---CTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHSCTTSCCTTCCCTTSC
T ss_pred cccccCCCHHHHHHHcCCHHHHHHHHHcCC---CccccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCccccccccCcCCC
Confidence 346667777777776666555555544211 1112355666666666665554433333322110 001223466777
Q ss_pred HHHHHHHHhCChhhHHHHHHHHHHhhhccc-cC-cchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHH
Q 004281 645 YVVQFVFELRLPWATMDILDQLEGNYGDLS-MQ-KYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQ 722 (764)
Q Consensus 645 yVIQ~LLe~~~~~~r~~II~~L~g~~veLS-~~-K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQ 722 (764)
..+...+..+.. .+++.|..+-..+. .+ +.|...+..+...+..+ +++.|+..+ ..--..|..|.-.+.
T Consensus 118 t~L~~A~~~~~~----~~~~~Ll~~g~~~~~~~~~~g~t~L~~A~~~~~~~----~v~~Ll~~g-~~~~~~~~~g~t~L~ 188 (241)
T 1k1a_A 118 TALHVAVNTECQ----ETVQLLLERGADIDAVDIKSGRSPLIHAVENNSLS----MVQLLLQHG-ANVNAQMYSGSSALH 188 (241)
T ss_dssp CHHHHHHHHTCH----HHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHH----HHHHHHHTT-CCTTCBCTTSCBHHH
T ss_pred cHHHHHHHcCCH----HHHHHHHHcCCCcccccccCCCcHHHHHHHcCCHH----HHHHHHHcC-CCCCCcCCCCCCHHH
Confidence 777776665433 34444444333322 22 56766676666666543 334443321 112345677777777
Q ss_pred HHhhcCChh
Q 004281 723 AALQQSKGG 731 (764)
Q Consensus 723 kLL~~~~~~ 731 (764)
.+......+
T Consensus 189 ~A~~~~~~~ 197 (241)
T 1k1a_A 189 SASGRGLLP 197 (241)
T ss_dssp HHHHHTCHH
T ss_pred HHHHcCCHH
Confidence 766655433
No 21
>4fhr_B Flagellar motor switch protein FLIG; motor protein; 1.93A {Thermotoga maritima} PDB: 1lkv_X 3ajc_A 1qc7_A 3soh_B
Probab=20.75 E-value=6.3e+02 Score=25.07 Aligned_cols=23 Identities=13% Similarity=0.001 Sum_probs=10.9
Q ss_pred HHHHHHHHhCChhhHHHHHHHHH
Q 004281 645 YVVQFVFELRLPWATMDILDQLE 667 (764)
Q Consensus 645 yVIQ~LLe~~~~~~r~~II~~L~ 667 (764)
-.+-.+|...+....+.|++.|.
T Consensus 88 ~~~A~IlN~~~~~~e~~il~~L~ 110 (216)
T 4fhr_B 88 DTAAEIMNNLDRTTEKKIMDKLV 110 (216)
T ss_dssp HHHHHHHHHSCHHHHHHHHHHHH
T ss_pred HHHHHHHHcCChhHHHHHHHHHH
Confidence 34444555444444444444443
Done!