Query 008994
Match_columns 547
No_of_seqs 241 out of 360
Neff 4.1
Searched_HMMs 29240
Date Mon Mar 25 16:24:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008994.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/008994hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2fb7_A SM-like protein, LSM-14 100.0 1E-38 3.5E-43 274.4 9.1 84 7-91 11-94 (95)
2 2vxe_A CG10686-PA; EDC3, CAR-1 100.0 1.9E-37 6.6E-42 263.4 10.5 81 8-89 6-86 (88)
3 2vc8_A Enhancer of mRNA-decapp 99.3 7.8E-13 2.7E-17 111.6 6.0 69 8-89 2-71 (84)
4 2rm4_A CG6311-PB, DM EDC3; enh 97.4 0.00078 2.7E-08 58.5 9.7 68 10-90 7-75 (103)
5 4a53_A EDC3; RNA binding prote 97.2 0.00032 1.1E-08 63.3 4.8 61 9-89 6-66 (125)
6 3pgw_B SM B; protein-RNA compl 96.8 0.0023 7.9E-08 63.1 7.6 80 9-89 8-87 (231)
7 1d3b_B Protein (small nuclear 96.5 0.0037 1.3E-07 52.5 6.0 81 8-89 7-87 (91)
8 1y96_A Gemin6, SIP2, GEM-assoc 96.4 0.0061 2.1E-07 51.9 6.7 62 11-88 13-74 (86)
9 3s6n_G Small nuclear ribonucle 95.9 0.017 5.7E-07 47.2 6.5 69 7-86 6-74 (76)
10 1d3b_A Protein (small nuclear 95.8 0.022 7.6E-07 46.5 6.9 63 11-84 11-73 (75)
11 1b34_A Protein (small nuclear 95.8 0.013 4.4E-07 52.1 5.9 76 11-105 8-83 (119)
12 2y9a_D Small nuclear ribonucle 95.7 0.027 9.3E-07 50.7 7.7 75 11-104 11-85 (126)
13 1h64_1 SnRNP SM-like protein; 95.7 0.019 6.5E-07 46.5 6.0 65 11-86 10-74 (75)
14 1i4k_A Putative snRNP SM-like 95.6 0.02 6.7E-07 46.5 6.0 65 11-86 10-74 (77)
15 1i8f_A Putative snRNP SM-like 95.5 0.021 7.2E-07 47.0 6.0 63 11-85 17-79 (81)
16 2fwk_A U6 snRNA-associated SM- 95.4 0.018 6.1E-07 51.2 5.5 78 11-89 34-116 (121)
17 1th7_A SnRNP-2, small nuclear 95.4 0.034 1.2E-06 45.8 6.6 65 11-86 15-79 (81)
18 4emk_A U6 snRNA-associated SM- 95.2 0.054 1.9E-06 46.4 7.5 66 11-86 26-91 (94)
19 4emh_A Probable U6 snRNA-assoc 94.9 0.041 1.4E-06 48.1 6.1 66 11-86 22-87 (105)
20 2wax_B Enhancer of mRNA-decapp 94.8 0.0077 2.6E-07 45.5 1.1 24 406-429 17-40 (44)
21 1ljo_A Archaeal SM-like protei 94.6 0.057 2E-06 43.9 5.8 65 11-86 11-76 (77)
22 4emk_B U6 snRNA-associated SM- 94.4 0.076 2.6E-06 43.1 6.2 64 12-86 11-74 (75)
23 1mgq_A SM-like protein; LSM, R 94.1 0.075 2.6E-06 44.0 5.7 62 11-83 21-82 (83)
24 1m5q_A SMAP3, small nuclear ri 94.1 0.099 3.4E-06 47.3 6.9 61 12-87 7-67 (130)
25 1n9r_A SMF, small nuclear ribo 94.0 0.058 2E-06 46.0 4.8 64 11-85 27-91 (93)
26 4emk_C U6 snRNA-associated SM- 93.9 0.13 4.3E-06 45.5 7.0 72 11-86 29-100 (113)
27 3bw1_A SMX4 protein, U6 snRNA- 93.6 0.12 4.1E-06 44.1 6.1 72 11-86 16-87 (96)
28 3s6n_F Small nuclear ribonucle 92.3 0.18 6.2E-06 42.2 5.3 65 11-86 12-76 (86)
29 4emg_A Probable U6 snRNA-assoc 90.6 0.45 1.5E-05 40.4 6.1 70 12-83 16-89 (93)
30 3d3j_A Enhancer of mRNA-decapp 89.3 0.07 2.4E-06 54.1 0.0 23 408-430 1-23 (306)
31 4a53_A EDC3; RNA binding prote 87.4 0.051 1.8E-06 49.1 -2.1 27 403-429 97-123 (125)
32 3q2s_C Cleavage and polyadenyl 87.2 0.028 9.7E-07 53.9 -4.3 32 394-425 108-139 (229)
33 3s6n_E Small nuclear ribonucle 85.8 0.99 3.4E-05 38.4 5.0 63 12-84 23-89 (92)
34 1b34_B Protein (small nuclear 84.6 1.8 6.1E-05 38.0 6.3 74 12-86 34-113 (118)
35 3u5c_h Suppressor protein STM1 63.7 1.5 5E-05 44.4 0.0 17 407-423 115-131 (273)
36 3q2s_C Cleavage and polyadenyl 62.5 1.8 6.1E-05 41.4 0.4 11 408-418 82-92 (229)
37 1ycy_A Conserved hypothetical 62.2 7.5 0.00025 31.7 3.8 37 12-50 13-49 (71)
38 3pgw_S U1-70K; protein-RNA com 44.2 19 0.00065 37.7 4.6 31 394-424 140-170 (437)
39 1nz9_A Transcription antitermi 33.3 30 0.001 26.2 3.0 39 14-53 7-45 (58)
40 2e70_A Transcription elongatio 30.9 64 0.0022 26.5 4.7 38 9-46 15-52 (71)
41 2xzm_7 Plectin/S10 domain cont 21.7 25 0.00087 33.0 0.8 14 417-430 6-19 (162)
No 1
>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A
Probab=100.00 E-value=1e-38 Score=274.41 Aligned_cols=84 Identities=54% Similarity=0.894 Sum_probs=75.5
Q ss_pred CCCCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 7 KNAPESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 7 ~~~~~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
++...+|||++||||||+|||||||||+||.+++||+|+||||||||||+++ .+|||+++|||||+|||+|||||+||+
T Consensus 11 ~~~~~~~IGs~ISLISk~dIRYeGiL~~In~~~sTiaL~nVRsfGTEgR~~~-~~ipp~~~vyeyIvFrGsDIKDL~V~e 89 (95)
T 2fb7_A 11 PSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTD-RPIAPRDETFEYIIFRGSDIKDLTVCE 89 (95)
T ss_dssp -----CCSSEEEEEEETTTEEEEEEEEEEETTTTEEEEESCCCCSCCSSSCS-SCCCSCCCCSSCEEECSTTEEEEEESC
T ss_pred CCccCcccCCeEEEEECCCceEEEEEecccCccCEEEEEeeeEecccCCCCC-CccCCCCcceeEEEEcCCCcceEEEec
Confidence 5678999999999999999999999999999999999999999999999876 459999999999999999999999999
Q ss_pred CCCCC
Q 008994 87 SPPPQ 91 (547)
Q Consensus 87 ~p~~~ 91 (547)
.|+++
T Consensus 90 ~p~~~ 94 (95)
T 2fb7_A 90 PPKPI 94 (95)
T ss_dssp CSCSC
T ss_pred CCCCC
Confidence 87754
No 2
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=100.00 E-value=1.9e-37 Score=263.44 Aligned_cols=81 Identities=49% Similarity=0.790 Sum_probs=76.6
Q ss_pred CCCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccC
Q 008994 8 NAPESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSS 87 (547)
Q Consensus 8 ~~~~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~ 87 (547)
+..++|||++||||||+|||||||||+||.+++||+|+||||||||||+++ ++|||+++|||||+|||+|||||+||+.
T Consensus 6 s~~~~yIGs~iSLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~-~~ipp~~~vy~yIvFrgsDIKdL~V~~~ 84 (88)
T 2vxe_A 6 SGGLPELGSKISLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQ-FQIAPQSQIYDYILFRGSDIKDIRVVNN 84 (88)
T ss_dssp CSSSCCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCS-SCCCCCCSCEEEEEEETTTEEEEEECCC
T ss_pred cCCCcccCCeEEEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCCC-cccCCCCceeeEEEEccCCccEEEEecc
Confidence 457999999999999999999999999999999999999999999999874 7899999999999999999999999986
Q ss_pred CC
Q 008994 88 PP 89 (547)
Q Consensus 88 p~ 89 (547)
.+
T Consensus 85 ~p 86 (88)
T 2vxe_A 85 HT 86 (88)
T ss_dssp CC
T ss_pred CC
Confidence 43
No 3
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=99.35 E-value=7.8e-13 Score=111.64 Aligned_cols=69 Identities=22% Similarity=0.341 Sum_probs=56.8
Q ss_pred CCCCCccCceeEEeecCCe-eEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 8 NAPESYIGSFISLISKYEI-RYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 8 ~~~~~~iGs~islISk~~I-RYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
+.++.|||+.|||.++.+| +|+|+|+.||+.++||+|+||-+= +. .+++.+ |+|++.||+||+|++
T Consensus 2 ~Ma~~~iGs~VSi~c~d~lGvYQG~i~~vd~~~~tItL~~~f~N--------G~-~~~s~e----Vtls~~DI~~L~ii~ 68 (84)
T 2vc8_A 2 AMATDWLGSIVSINCGDSLGVYQGRVSAVDQVSQTISLTRPFHN--------GV-KCLVPE----VTFRAGDITELKILE 68 (84)
T ss_dssp ---CTTTTCEEEEECCTTTCEEEEEEEEEETTTTEEEEEEEEET--------TE-ECSSSE----EEEEGGGCSEEEEEE
T ss_pred cccccccCCEEEEEECCCceEEEEEEEEeccCCCeEEEehhhhC--------CC-CCCCcE----EEEEecChhheEEEe
Confidence 4568999999999999999 999999999999999999999422 22 233343 999999999999998
Q ss_pred CCC
Q 008994 87 SPP 89 (547)
Q Consensus 87 ~p~ 89 (547)
.+.
T Consensus 69 ~~~ 71 (84)
T 2vc8_A 69 IPG 71 (84)
T ss_dssp CCC
T ss_pred cCC
Confidence 764
No 4
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=97.42 E-value=0.00078 Score=58.53 Aligned_cols=68 Identities=15% Similarity=0.326 Sum_probs=55.4
Q ss_pred CCCccCceeEEeecCCe-eEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCC
Q 008994 10 PESYIGSFISLISKYEI-RYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSP 88 (547)
Q Consensus 10 ~~~~iGs~islISk~~I-RYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~p 88 (547)
.+.|||+.|||-...++ -|.|.+..||.+ +|+|.+.-+=|--=|+. +- -|+|+..||++|.+++.+
T Consensus 7 ~edwiG~~VSI~C~d~LGVyQG~I~~V~~~--~ItL~kaFrNGiplk~~----------~~-EVtLsa~DI~~L~IIe~~ 73 (103)
T 2rm4_A 7 DQDWIGCAVSIACDEVLGVFQGLIKQISAE--EITIVRAFRNGVPLRKQ----------NA-EVVLKCTDIRSIDLIEPA 73 (103)
T ss_dssp SGGGTTCEEEEEECTTTCEEEEEEEEEETT--EEEEEEEEETTEECSCS----------SS-CEEEETTTEEEEEEEECC
T ss_pred ccceeceEEEEeeCCcceEeeEEEEEcccc--eeEEhhhhhcCcCcCCC----------Cc-eEEEEecchhheeeeccc
Confidence 46899999999999999 899999999965 69999877655533322 22 289999999999999976
Q ss_pred CC
Q 008994 89 PP 90 (547)
Q Consensus 89 ~~ 90 (547)
..
T Consensus 74 ~~ 75 (103)
T 2rm4_A 74 KQ 75 (103)
T ss_dssp CC
T ss_pred cc
Confidence 53
No 5
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=97.18 E-value=0.00032 Score=63.32 Aligned_cols=61 Identities=18% Similarity=0.298 Sum_probs=51.6
Q ss_pred CCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCC
Q 008994 9 APESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSP 88 (547)
Q Consensus 9 ~~~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~p 88 (547)
+..+|||++|.|.-|.+-+|.|+|..||...-|+-|+||.|=+ +.++.+||+||.|+..+
T Consensus 6 ~~sqFlGy~V~v~LkDgs~~qG~I~~vd~k~LtL~~~~a~~s~--------------------~~I~asdI~DLkVl~~~ 65 (125)
T 4a53_A 6 SVADFYGSNVEVLLNNDSKARGVITNFDSSNSILQLRLANDST--------------------KSIVTKDIKDLRILPKN 65 (125)
T ss_dssp CHHHHTTCEEEEEETTSCEEEEEEEEEETTTTEEEEEETTTEE--------------------EEEEGGGEEEEEECCSC
T ss_pred cHHHhcCceEEEEECCCCEeeEEEEeecCCeeEEecccccccc--------------------ceeecccccceeeeecc
Confidence 4578999999999999999999999999887777779993211 18899999999999875
Q ss_pred C
Q 008994 89 P 89 (547)
Q Consensus 89 ~ 89 (547)
.
T Consensus 66 ~ 66 (125)
T 4a53_A 66 E 66 (125)
T ss_dssp C
T ss_pred c
Confidence 4
No 6
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A
Probab=96.80 E-value=0.0023 Score=63.13 Aligned_cols=80 Identities=16% Similarity=0.226 Sum_probs=61.0
Q ss_pred CCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCC
Q 008994 9 APESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSP 88 (547)
Q Consensus 9 ~~~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~p 88 (547)
.-..||+++|.|+-|.+-.|+|+|..+|. .--|.|+||.-|=++..+.+....--.+..+..|+.||..|.-|.|++.|
T Consensus 8 kL~klIdKrV~V~LkdGRel~GtLkgFDq-~MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGlV~IRGdnIV~Isve~pP 86 (231)
T 3pgw_B 8 KMLQHIDYRMRCILQDGRIFIGTFKAFDK-HMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEGPP 86 (231)
T ss_pred HHHHhcCCeEEEEECCCcEEEEEEEEEcc-cccEEecCEEEEEeccCcccccccccceeEeceEEECCCcEEEEEecCCC
Confidence 34679999999999999999999999996 56789999988764322111011112455788999999999999998865
Q ss_pred C
Q 008994 89 P 89 (547)
Q Consensus 89 ~ 89 (547)
+
T Consensus 87 p 87 (231)
T 3pgw_B 87 P 87 (231)
T ss_pred C
Confidence 4
No 7
>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A
Probab=96.54 E-value=0.0037 Score=52.49 Aligned_cols=81 Identities=16% Similarity=0.230 Sum_probs=59.8
Q ss_pred CCCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccC
Q 008994 8 NAPESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSS 87 (547)
Q Consensus 8 ~~~~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~ 87 (547)
..-..|||++|.+..+.+-.|+|+|..+| +.--|.|.||.-|-+.-........-.....+..|+.||..|.-|.+.+.
T Consensus 7 ~~L~~~~~k~V~V~l~~gr~~~G~L~~~D-~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~v~iRG~~I~~i~~~~~ 85 (91)
T 1d3b_B 7 SKMLQHIDYRMRCILQDGRIFIGTFKAFD-KHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEGP 85 (91)
T ss_dssp CCCGGGTTSEEEEEETTCCEEEEEEEECC-TTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEEEEEEEC
T ss_pred HHHHHHcCCcEEEEECCCeEEEEEEEEEC-CCCeEEecCEEEEeeccccccccccCccEeECCEEEECCCeEEEEEcCCC
Confidence 34578999999999999999999999999 55789999998775421110000001123357789999999999999886
Q ss_pred CC
Q 008994 88 PP 89 (547)
Q Consensus 88 p~ 89 (547)
|+
T Consensus 86 ~~ 87 (91)
T 1d3b_B 86 PP 87 (91)
T ss_dssp CC
T ss_pred CC
Confidence 65
No 8
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=96.43 E-value=0.0061 Score=51.93 Aligned_cols=62 Identities=16% Similarity=0.202 Sum_probs=53.4
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCC
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSP 88 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~p 88 (547)
..|||++|.++...+-.|+|+||.+|+..-.|.|.|. -| ++-|--++..|.-||++.|.+.+
T Consensus 13 ~~li~KeV~V~l~dg~~y~G~l~tvDp~s~sIvL~n~----~~------------~~~~~~~iI~G~aI~eI~v~~~~ 74 (86)
T 1y96_A 13 QDYIYKEVRVTASEKNEYKGWVLTTDPVSANIVLVNF----LE------------DGSMSVTGIMGHAVQTVETMNEG 74 (86)
T ss_dssp HHTTTCEEEEEETTTEEEEEEEEEECTTTCCEEEEEE----CT------------TSCEEEEEECGGGEEEEEEEECC
T ss_pred HhhcCCEEEEEEcCCCEEEEEEEEECCCceEEEEeec----cc------------CCeEEEEEEecceEEEEEEecch
Confidence 4799999999999999999999999999999999986 12 22346688899999999998754
No 9
>3s6n_G Small nuclear ribonucleoprotein G; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_G 2y9c_G 2y9d_G 3cw1_G 3pgw_G* 2y9a_G
Probab=95.86 E-value=0.017 Score=47.18 Aligned_cols=69 Identities=16% Similarity=0.219 Sum_probs=48.0
Q ss_pred CCCCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 7 KNAPESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 7 ~~~~~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
...-..+||++|.+.-|.+-.|+|+|..+| +.--|.|+||.-+-.++ ....++.++.||+.|.-+...|
T Consensus 6 ~~~L~~~~~k~V~V~Lk~gr~~~G~L~~~D-~~mNlvL~~~~e~~~~~----------~~~~lg~v~iRG~~I~~i~~~d 74 (76)
T 3s6n_G 6 PPELKKFMDKKLSLKLNGGRHVQGILRGFD-PFMNLVIDECVEMATSG----------QQNNIGMVVIRGNSIIMLEALE 74 (76)
T ss_dssp --------CCEEEEEETTTEEEEEEEEEEC-TTCCEEEEEEEECCCC--------------CBSSEEECSSSEEEEEC--
T ss_pred hHHHHHhCCCeEEEEECCCcEEEEEEEEEC-CcceEEEeceEEEccCC----------cEeEcCEEEECCCeEEEEEecc
Confidence 344578999999999999999999999999 46789999998764322 1235678999999998887654
No 10
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1
Probab=95.80 E-value=0.022 Score=46.48 Aligned_cols=63 Identities=19% Similarity=0.267 Sum_probs=52.7
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceee
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEV 84 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v 84 (547)
..++|++|.+.-|.+..|+|+|..+| +.=-|.|+||..+-.+|+ ..-++.|+.||+.|.-+.+
T Consensus 11 ~~~~g~~V~VeLk~g~~~~G~L~~~D-~~MNl~L~~~~e~~~~~~----------~~~lg~v~IRG~nI~~i~l 73 (75)
T 1d3b_A 11 HEAEGHIVTCETNTGEVYRGKLIEAE-DNMNCQMSNITVTYRDGR----------VAQLEQVYIRGCKIRFLIL 73 (75)
T ss_dssp HHTTTSEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEEEECTTSC----------EEEEEEEEECGGGEEEEEE
T ss_pred HHhCCCEEEEEECCCcEEEEEEEEEc-cceeEEEEeEEEECCCCc----------EEEcCeEEEeCCEEEEEEc
Confidence 35899999999999999999999999 456799999988753321 3467889999999998876
No 11
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A
Probab=95.79 E-value=0.013 Score=52.06 Aligned_cols=76 Identities=16% Similarity=0.158 Sum_probs=58.1
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCCCC
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSPPP 90 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~p~~ 90 (547)
..+||++|.|.-|.+..|+|+|..+| +.--|.|+||..+-.+ . ....++.|+.||+.|.-|.+.+.
T Consensus 8 ~~~~gk~V~V~Lk~g~~~~G~L~~~D-~~MNlvL~d~~e~~~~-----~-----~~~~lg~v~IRG~nI~~I~~pd~--- 73 (119)
T 1b34_A 8 MKLSHETVTIELKNGTQVHGTITGVD-VSMNTHLKAVKMTLKN-----R-----EPVQLETLSIRGNNIRYFILPDS--- 73 (119)
T ss_dssp HTCTTCEEEEEETTCCEEEEEEEEEC-TTCCEEEEEEEEECTT-----S-----CCEEEEEEEECGGGEEEEECCTT---
T ss_pred HHhCCCEEEEEEcCCCEEEEEEEEEc-ccceEEeccEEEecCC-----C-----ceeEcceEEEcCCeEEEEEeccc---
Confidence 35899999999999999999999999 4567899999987321 1 12467889999999998887542
Q ss_pred CCCccCCCCchhhhc
Q 008994 91 QKEEQIYQDPAIIQS 105 (547)
Q Consensus 91 ~~~~~~~~DPAI~~~ 105 (547)
+..|+.+++.
T Consensus 74 -----l~~d~~l~~~ 83 (119)
T 1b34_A 74 -----LPLDTLLVDV 83 (119)
T ss_dssp -----CCHHHHTC--
T ss_pred -----cccchhHhhh
Confidence 3456666653
No 12
>2y9a_D Small nuclear ribonucleoprotein SM D3; splicing-RNA complex, PRE-mRNA splicing, spliceosome, snRNP biogenesis, SM site, SM fold, heteromeric heptameric ring; 3.60A {Homo sapiens} PDB: 2y9b_D 2y9c_D 2y9d_D 3pgw_Z* 3cw1_D
Probab=95.69 E-value=0.027 Score=50.71 Aligned_cols=75 Identities=19% Similarity=0.253 Sum_probs=59.8
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCCCC
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSPPP 90 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~p~~ 90 (547)
..++|++|.|.-|.+.-|.|+|..+|. .=-|.|+||..+-.+|. ..-++.|+.||+.|.-|.+.+.
T Consensus 11 ~~~~gk~V~VeLknG~~~~G~L~~~D~-~MNi~L~dv~e~~~~g~----------~~~l~~v~IRGnnI~~I~lpd~--- 76 (126)
T 2y9a_D 11 HEAEGHIVTCETNTGEVYRGKLIEAED-NMNCQMSNITVTYRDGR----------VAQLEQVYIRGSKIRFLILPDM--- 76 (126)
T ss_dssp HSCSSCEEEEEESSCCEEEEEEEEECT-TSCEEEEEEEEECTTSC----------CEEEEEEEECGGGEEEEECCSS---
T ss_pred HHhCCCEEEEEECCCcEEEEEEEEEcC-ceEEEEeeEEEEcCCCc----------EeecccEEEeCCEEEEEEcccc---
Confidence 468999999999999999999999995 57899999998753331 2467889999999999887442
Q ss_pred CCCccCCCCchhhh
Q 008994 91 QKEEQIYQDPAIIQ 104 (547)
Q Consensus 91 ~~~~~~~~DPAI~~ 104 (547)
+.+||.+..
T Consensus 77 -----l~~~~~l~~ 85 (126)
T 2y9a_D 77 -----LKNAPMLKS 85 (126)
T ss_dssp -----CSSSSHHHH
T ss_pred -----ccchHHhhh
Confidence 445666654
No 13
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=95.67 E-value=0.019 Score=46.47 Aligned_cols=65 Identities=15% Similarity=0.216 Sum_probs=52.7
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..++|++|.+..|.+-.|+|+|..+| +.--|.|+||..+-.++ ...-++.++.||+.|.-+...+
T Consensus 10 ~~~~~~~V~V~l~~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~----------~~~~lg~v~iRG~~I~~i~~~~ 74 (75)
T 1h64_1 10 HRSLDKDVLVILKKGFEFRGRLIGYD-IHLNVVLADAEMIQDGE----------VVKRYGKIVIRGDNVLAISPTE 74 (75)
T ss_dssp HTTTTSEEEEEETTSEEEEEEEEEEC-TTCCEEEEEEEEEETTE----------EEEEEEEEEECGGGEEEEEEC-
T ss_pred HHHCCCEEEEEECCCCEEEEEEEEEe-CCCCeEEeeEEEEeeCC----------ceeECCEEEECCCEEEEEEeCC
Confidence 46899999999999999999999999 56789999998775421 2335678999999998877543
No 14
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A*
Probab=95.64 E-value=0.02 Score=46.52 Aligned_cols=65 Identities=11% Similarity=0.085 Sum_probs=53.3
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..++|++|.+.-|.+-.|+|+|..+| +.--|.|+||..+-.++ ...-++.|+.||+.|.-+...+
T Consensus 10 ~~~~~~~V~V~L~~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~----------~~~~lg~v~iRG~~I~~i~~~d 74 (77)
T 1i4k_A 10 NRSLKSPVIVRLKGGREFRGTLDGYD-IHMNLVLLDAEEIQNGE----------VVRKVGSVVIRGDTVVFVSPAP 74 (77)
T ss_dssp HTTTTSEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEEEEETTE----------EEEEEEEEEECGGGEEEEEECC
T ss_pred HHhCCCEEEEEEcCCCEEEEEEEEEc-CCCCeEEeeEEEEecCC----------cEeECCEEEECCCEEEEEEeCC
Confidence 46899999999999999999999999 55789999998775431 2235778999999998887643
No 15
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A*
Probab=95.55 E-value=0.021 Score=47.05 Aligned_cols=63 Identities=11% Similarity=0.157 Sum_probs=52.5
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeec
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVK 85 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~ 85 (547)
..++|++|.+.-+.+-.|+|+|..+| +.--|.|+||.-+ ++. ...-++.++.||+.|.-|...
T Consensus 17 ~~~~~~~V~V~l~~g~~~~G~L~~~D-~~mNlvL~d~~e~--~~~---------~~~~lg~v~iRG~~I~~i~~~ 79 (81)
T 1i8f_A 17 QDSIGKQVLVKLRDSHEIRGILRSFD-QHVNLLLEDAEEI--IDG---------NVYKRGTMVVRGENVLFISPV 79 (81)
T ss_dssp HTTTTSEEEEEEGGGEEEEEEEEEEC-TTCCEEEEEEEEE--ETT---------EEEEEEEEEECGGGEEEEEEC
T ss_pred HHHCCCeEEEEEcCCcEEEEEEEEEc-CCCeeEEccEEEE--cCC---------cccCCCEEEECCCEEEEEEeC
Confidence 47899999999999999999999999 5578999999998 221 234578899999999887654
No 16
>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1 PDB: 3pgg_A
Probab=95.42 E-value=0.018 Score=51.19 Aligned_cols=78 Identities=22% Similarity=0.346 Sum_probs=55.7
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCC----CCC-CCCCccccceEEEecCCccceeec
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKD----GPQ-VLPSEKVYEYILFRGSDIKDLEVK 85 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~----~~~-Ipp~~~vy~yIvFrgsDIKDL~v~ 85 (547)
..+||++|.|.-+.+-.|+|+|..+| +.--|.|.||.-+-++.++.+ +.+ +-.....+..|+.||..|.-|...
T Consensus 34 ~~~l~k~V~V~Lk~Gr~~~G~L~~fD-~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IRG~nVv~I~~~ 112 (121)
T 2fwk_A 34 DKCIGNRIYVVMKGDKEFSGVLRGFD-EYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNVAMLVPG 112 (121)
T ss_dssp HHTBTSBCEEEETTTEEECCEEEEEC-TTCCEEEESCCEEEC---------------CEECCCCSEEEECGGGEEEEESS
T ss_pred HHHcCCeEEEEECCCcEEEEEEEEEc-ccCCeEeceEEEEEeccccccccccCcccccccceEcceEEECCCEEEEEEec
Confidence 36899999999999999999999999 557899999988876422111 100 000134578899999999988877
Q ss_pred cCCC
Q 008994 86 SSPP 89 (547)
Q Consensus 86 ~~p~ 89 (547)
+.|+
T Consensus 113 ~~~~ 116 (121)
T 2fwk_A 113 GDPD 116 (121)
T ss_dssp SCC-
T ss_pred CCCC
Confidence 6544
No 17
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1
Probab=95.36 E-value=0.034 Score=45.75 Aligned_cols=65 Identities=15% Similarity=0.237 Sum_probs=53.1
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..++|++|.+.-|.+-.|+|+|..+| +.--|.|+||..+-.++ ...-++.|+.||+.|.-|...+
T Consensus 15 ~~~~~~~V~V~l~~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~----------~~~~lg~v~iRG~~I~~i~~~~ 79 (81)
T 1th7_A 15 AESLNNLVLVKLKGNKEVRGMLRSYD-QHMNLVLSDSEEIQSDG----------SGKKLGTIVIRGDNVILISPLQ 79 (81)
T ss_dssp HHHTTSEEEEEETTTEEEEEEEEEEC-TTCCEEEEEEEEECSSS----------CEEEEEEEEECGGGEEEEEEC-
T ss_pred HHhCCCeEEEEEcCCcEEEEEEEEEc-CCCCEEEccEEEEecCC----------ceeECCEEEECCCEEEEEEecC
Confidence 35899999999999999999999999 55789999998776432 1245788999999999887654
No 18
>4emk_A U6 snRNA-associated SM-like protein LSM5; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_A
Probab=95.19 E-value=0.054 Score=46.45 Aligned_cols=66 Identities=24% Similarity=0.267 Sum_probs=54.0
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..|+|++|.|.-|.+-+|+|+|..+|. ---|.|+||..+-+++ . ....++.|+.||+.|.-|....
T Consensus 26 ~~~l~k~V~V~Lk~gr~~~G~L~gfD~-~mNlvL~d~~E~~~~~-----~----~~~~lg~v~IRG~nI~~i~p~~ 91 (94)
T 4emk_A 26 DKCIGSNLWVIMKSEREFAGTLVGFDD-YVNIVLKDVTEYDTVT-----G----VTEKHSEMLLNGNGMCMLIPGG 91 (94)
T ss_dssp HHTTTSEEEEEESSSEEEEEEEEEECT-TCCEEEEEEEEEETTT-----C----CEEEEEEEEECSTTEEEEEECC
T ss_pred HHHcCCeEEEEECCCcEEEEEEEEEcc-cCCeEeeeEEEEecCC-----C----cEeEcCEEEEcCCEEEEEEeCC
Confidence 368999999999999999999999995 5678999998876421 1 2456789999999998877543
No 19
>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA decay, PRE-mRNA splicing, LSM proteins, RNA BI protein; 2.20A {Schizosaccharomyces pombe}
Probab=94.91 E-value=0.041 Score=48.07 Aligned_cols=66 Identities=20% Similarity=0.181 Sum_probs=50.0
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..+||++|.+.-|.+..|+|+|..+|. ---|.|+||..+-.+|. ...-++.|+.||+.|.-|.+.+
T Consensus 22 ~~~igk~V~V~Lk~G~~~~G~L~~~D~-~MNlvL~d~~e~~~dg~---------~~~~lg~v~IRG~nI~~I~~pd 87 (105)
T 4emh_A 22 NATQGRPILVELKNGETFNGHLENCDN-YMNLTLREVIRTMPDGD---------KFFRLPECYIRGNNIKYLRIQD 87 (105)
T ss_dssp ----CCEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEECTTSC---------EEEEEEEEEECGGGEEEEEC--
T ss_pred HHhCCCEEEEEECCCCEEEEEEEEEcC-CceEEEEEEEEEccCCc---------eeeEcCeEEEeCCeEEEEecCH
Confidence 578999999999999999999999996 56799999987743331 1235789999999999888744
No 20
>2wax_B Enhancer of mRNA-decapping protein 3; DEAD-box protein, nucleotide-binding, RCK, miRNA, P-bodies, helicase, RNA-binding, proto-oncogene; HET: CXS; 2.30A {Homo sapiens} PDB: 2way_B
Probab=94.82 E-value=0.0077 Score=45.54 Aligned_cols=24 Identities=29% Similarity=0.487 Sum_probs=22.2
Q ss_pred CchhhHHHHHhhhchhhhhhhccc
Q 008994 406 TEEFDFEAMNEKFKKDEVWGYLGK 429 (547)
Q Consensus 406 ~~DFDFeaaNaKFnKeei~~~lgK 429 (547)
.+|||||..-++|+|+.|+.++.+
T Consensus 17 ~~dFDFE~NLalFdKq~Vf~~~~~ 40 (44)
T 2wax_B 17 DTDFDFEGNLALFDKAAVFEEIDT 40 (44)
T ss_dssp SSCCCHHHHHTTCCHHHHHHHHHH
T ss_pred cccccHHHHHHHHhHHHHHHHHhc
Confidence 799999999999999999988865
No 21
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1
Probab=94.59 E-value=0.057 Score=43.90 Aligned_cols=65 Identities=20% Similarity=0.238 Sum_probs=52.3
Q ss_pred CCccCceeEEeecCC-eeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYE-IRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~-IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..++|++|.+.-|.+ -.|+|+|..+| +.--|.|+||..+-..+ ...-++.|+.||+.|.-+...+
T Consensus 11 ~~~~~~~v~V~lk~g~~~~~G~L~~~D-~~mNlvL~d~~e~~~~~----------~~~~lg~v~iRG~nI~~i~~~d 76 (77)
T 1ljo_A 11 KSMVGKIIRVEMKGEENQLVGKLEGVD-DYMNLYLTNAMECKGEE----------KVRSLGEIVLRGNNVVLIQPQE 76 (77)
T ss_dssp HHTTTSEEEEEETTCSSEEEEEEEEEC-TTCCEEEEEEEEEETTE----------EEEEEEEEEECGGGEEEEEEC-
T ss_pred HHHCCCEEEEEEeCCCEEEEEEEEEEC-CcceEEEeeEEEEecCC----------cEeECCeEEEeCCeEEEEEeCC
Confidence 358999999999999 99999999999 55789999998775311 1335788999999998877643
No 22
>4emk_B U6 snRNA-associated SM-like protein LSM6; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_B
Probab=94.44 E-value=0.076 Score=43.10 Aligned_cols=64 Identities=19% Similarity=0.349 Sum_probs=51.0
Q ss_pred CccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 12 SYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 12 ~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
.++|++|.+.-|.+-.|+|+|..+|. .--|.|+||.-+=. | . ....++.|+.||+.|.-+...+
T Consensus 11 ~~~~k~V~V~Lk~g~~~~G~L~~~D~-~mNlvL~d~~e~~~-~-----~----~~~~lg~v~iRG~~I~~i~~~~ 74 (75)
T 4emk_B 11 KVIGKKVLIRLSSGVDYKGILSCLDG-YMNLALERTEEYVN-G-----K----KTNVYGDAFIRGNNVLYVSALD 74 (75)
T ss_dssp HTTTSEEEEECTTSCEEEEEEEEECT-TCEEEEEEEEEEET-T-----E----EEEEEEEEEEEGGGSSEEEEC-
T ss_pred HhCCCeEEEEEcCCcEEEEEEEEEcC-cceEEEccEEEEec-C-----C----cccEecEEEEcCCeEEEEEecC
Confidence 58999999999999999999999996 57899999876531 1 1 1236788999999998876543
No 23
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A
Probab=94.12 E-value=0.075 Score=43.99 Aligned_cols=62 Identities=16% Similarity=0.245 Sum_probs=50.7
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCcccee
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLE 83 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~ 83 (547)
..++|++|.+.-|.+-.|+|+|..+| +.--|.|+||..+-.++ ...-++.|+.||+.|.-|.
T Consensus 21 ~~~~~~~V~V~Lk~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~----------~~~~lg~v~IRG~~I~~i~ 82 (83)
T 1mgq_A 21 GNSLNSPVIIKLKGDREFRGVLKSFD-LHMNLVLNDAEELEDGE----------VTRRLGTVLIRGDNIVYIS 82 (83)
T ss_dssp HHTTTSEEEEEETTTEEEEEEEEEEC-TTCCEEEEEEEEEETTE----------EEEEEEEEEECGGGEEEEE
T ss_pred HHhCCCEEEEEEcCCcEEEEEEEEEC-CCceeEEccEEEEecCC----------cccCCCEEEECCCEEEEEE
Confidence 46899999999999999999999999 55789999998875431 2235788999999997653
No 24
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1
Probab=94.11 E-value=0.099 Score=47.31 Aligned_cols=61 Identities=16% Similarity=0.275 Sum_probs=52.6
Q ss_pred CccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccC
Q 008994 12 SYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSS 87 (547)
Q Consensus 12 ~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~~ 87 (547)
.++|++|.+.-|.+..|+|+|..+| +.--|.|+||..+ .+ .-|+.|+.||+.|.-|.+.+.
T Consensus 7 ~~igk~V~V~Lk~G~~~~G~L~~~D-~~MNlvL~d~~E~--~~------------~~lg~v~IRG~nI~~I~~~d~ 67 (130)
T 1m5q_A 7 NLLGREVQVVLSNGEVYKGVLHAVD-NQLNIVLANASNK--AG------------EKFNRVFIMYRYIVHIDSTER 67 (130)
T ss_dssp HTTTSEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEECT--TC------------CEEEEEEECGGGEEEEEECCC
T ss_pred HhCCCeEEEEECCCcEEEEEEEEEc-ccceeEEeeEEEE--cC------------CEeceEEEeCCeEEEEEcCCc
Confidence 5899999999999999999999999 5678999999886 11 356789999999999888664
No 25
>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein F; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A
Probab=94.00 E-value=0.058 Score=46.00 Aligned_cols=64 Identities=16% Similarity=0.267 Sum_probs=51.6
Q ss_pred CCccCceeEEeecCC-eeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeec
Q 008994 11 ESYIGSFISLISKYE-IRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVK 85 (547)
Q Consensus 11 ~~~iGs~islISk~~-IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~ 85 (547)
..++|++|.+.-|.+ ..|+|+|..+| +---|.|+||..+- +|. ...-++.|+.||+.|.-|...
T Consensus 27 ~~~i~k~V~V~Lk~g~~~~~G~L~~~D-~~MNlvL~d~~E~~-~~~---------~~~~lg~v~IRG~nI~~I~~~ 91 (93)
T 1n9r_A 27 KGLVNHRVGVKLKFNSTEYRGTLVSTD-NYFNLQLNEAEEFV-AGV---------SHGTLGEIFIRCNNVLYIREL 91 (93)
T ss_dssp GGGTTSEEEEEESSTTEEEEEEEEECC-TTTCEEEEEEEEEE-TTE---------EEEECCSEEECGGGEEEEEEC
T ss_pred HHhCCCEEEEEEcCCCEEEEEEEEEEc-cccEEEEeeEEEEc-CCC---------eEeEcCEEEEcCCeEEEEEeC
Confidence 578999999999999 99999999999 55789999998773 111 112467899999999887654
No 26
>4emk_C U6 snRNA-associated SM-like protein LSM7; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_C
Probab=93.95 E-value=0.13 Score=45.48 Aligned_cols=72 Identities=11% Similarity=0.096 Sum_probs=52.0
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..|||++|.++.+.+-.|+|+|..+|. .--|.|.||.-|=++.- +..+--....+..|+.||..|.-|...+
T Consensus 29 ~~~l~k~V~V~L~dGr~~~G~L~~fD~-~mNLVL~d~~E~~~~~~---~~~~~~~~r~lG~v~IRG~nIv~I~~~d 100 (113)
T 4emk_C 29 SRYQDQRIQATFTGGRQITGILKGFDQ-LMNLVLDDVEEQLRNPE---DGKLTGAIRKLGLVVVRGTTLVLIAPMD 100 (113)
T ss_dssp ---CCSEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEEC------------CCEEEEEEEEECTTTEEEEEECC
T ss_pred HHHcCCcEEEEEeCCeEEEEEEEEEcC-cccEEEeeEEEEEcCCC---CcccccceeEccEEEECCCeEEEEEecC
Confidence 578999999999999999999999996 56799999987754311 1011123456789999999999887655
No 27
>3bw1_A SMX4 protein, U6 snRNA-associated SM-like protein LSM3; RNA-binding protein, SM protein, ring, HOMO octamer, mRNA processing; 2.50A {Saccharomyces cerevisiae}
Probab=93.62 E-value=0.12 Score=44.09 Aligned_cols=72 Identities=14% Similarity=0.149 Sum_probs=53.9
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..+||++|.++.|.+-.|+|+|..+| +---|.|.||..|=++.-.. . .-....-+..|+.||..|.-|...+
T Consensus 16 ~~~i~k~V~V~Lk~gr~~~G~L~~fD-~~mNlVL~d~~E~~~~~~~~--~-~~~~~r~lG~v~IRG~nVv~I~~~d 87 (96)
T 3bw1_A 16 KLNLDERVYIKLRGARTLVGTLQAFD-SHCNIVLSDAVETIYQLNNE--E-LSESERRCEMVFIRGDTVTLISTPS 87 (96)
T ss_dssp GGGTTSEEEEEEGGGCEEEEEEEEEC-TTCCEEEEEEEEEEECCSTT--C-CCEEEEEEEEEEECGGGEEEEECCC
T ss_pred HHHCCCeEEEEECCCcEEEEEEEEEC-CCCcEEEcCEEEEecccccc--c-cCcceeEcCEEEECCCEEEEEEecC
Confidence 46899999999999999999999999 45789999998775432211 0 1112334678999999998776543
No 28
>3s6n_F Small nuclear ribonucleoprotein F; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_F 2y9c_F 2y9d_F 3cw1_F 3pgw_F* 2y9a_F
Probab=92.32 E-value=0.18 Score=42.18 Aligned_cols=65 Identities=15% Similarity=0.253 Sum_probs=51.9
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008994 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (547)
Q Consensus 11 ~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v~~ 86 (547)
..+||++|.+.-|.+-.|+|+|..+|. .--|.|+||.-|= +| . ....++.|+.||+.|.-|...+
T Consensus 12 ~~~~~k~V~V~Lk~g~~~~G~L~~~D~-~mNlvL~d~~e~~-~g-----~----~~~~lg~v~IRG~nI~~i~~~d 76 (86)
T 3s6n_F 12 NGLTGKPVMVKLKWGMEYKGYLVSVDG-YMNMQLANTEEYI-DG-----A----LSGHLGEVLIRCNNVLYIRGVE 76 (86)
T ss_dssp HHHTTSEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEEE-TT-----E----EEEEESSEEECGGGEEEEEECC
T ss_pred HHhCCCeEEEEEcCCeEEEEEEEEEcC-ceEEEEeeEEEEc-CC-----c----eeeEccEEEEeCCeEEEEEeCC
Confidence 358999999999999999999999996 5678999998552 11 1 1234678999999999988755
No 29
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=90.64 E-value=0.45 Score=40.38 Aligned_cols=70 Identities=13% Similarity=0.153 Sum_probs=50.9
Q ss_pred CccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCC----CCCCCccccceEEEecCCcccee
Q 008994 12 SYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGP----QVLPSEKVYEYILFRGSDIKDLE 83 (547)
Q Consensus 12 ~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~----~Ipp~~~vy~yIvFrgsDIKDL~ 83 (547)
.+||++|.+.-+.+-.|+|+|..+|. .--|.|.||..+-++-.+ ++. ..-.....+..|+.||..|.-|.
T Consensus 16 ~~~~~~V~V~l~~gr~~~G~L~~~D~-~mNlvL~d~~E~~~~~~~-~~~~~~~~~~~~~r~lG~v~iRG~nVv~I~ 89 (93)
T 4emg_A 16 LSLDEIVYVKLRGDRELNGRLHAYDE-HLNMVLGDAEEIVTIFDD-EETDKDKALKTIRKHYEMLFVRGDSVILIA 89 (93)
T ss_dssp TTTTSEEEEEETTTEEEEEEEEEECT-TCCEEEEEEEEEEC---------------CEEEEEEEEEECGGGEEEEE
T ss_pred HhCCCEEEEEECCCcEEEEEEEEECC-cccEEeecEEEEEecccc-CCccccccccccEeEeceEEECCCeEEEEE
Confidence 46999999999999999999999995 578999999988664111 110 01123456889999999987654
No 30
>3d3j_A Enhancer of mRNA-decapping protein 3; HEDC3, phosphoprotein, protein binding; 2.80A {Homo sapiens}
Probab=89.32 E-value=0.07 Score=54.12 Aligned_cols=23 Identities=30% Similarity=0.478 Sum_probs=0.0
Q ss_pred hhhHHHHHhhhchhhhhhhcccc
Q 008994 408 EFDFEAMNEKFKKDEVWGYLGKA 430 (547)
Q Consensus 408 DFDFeaaNaKFnKeei~~~lgK~ 430 (547)
|||||+.-++|||+.||.++.+.
T Consensus 1 dfdf~~nl~~fdk~~vf~e~~~~ 23 (306)
T 3d3j_A 1 DFDFEGNLALFDKAAVFEEIDTY 23 (306)
T ss_dssp -----------------------
T ss_pred CcchhHHHHHhhhHHHHHHHhcc
Confidence 89999999999999999999775
No 31
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=87.44 E-value=0.051 Score=49.09 Aligned_cols=27 Identities=41% Similarity=0.604 Sum_probs=23.1
Q ss_pred CCCCchhhHHHHHhhhchhhhhhhccc
Q 008994 403 TKFTEEFDFEAMNEKFKKDEVWGYLGK 429 (547)
Q Consensus 403 ~kf~~DFDFeaaNaKFnKeei~~~lgK 429 (547)
...++||||+..-+||||.+|-.+|.+
T Consensus 97 ~d~~~dFDFq~nL~~FnKk~vF~ql~~ 123 (125)
T 4a53_A 97 MDCDEEFDFAANLEKFDKKQVFAEFRE 123 (125)
T ss_dssp SSSSSCCCCTBTTBCSSTTCCSSCCCS
T ss_pred cccccccchhhhHHhhhHHHHHHHHhh
Confidence 368899999999999999999876643
No 32
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C
Probab=87.22 E-value=0.028 Score=53.94 Aligned_cols=32 Identities=13% Similarity=0.176 Sum_probs=25.7
Q ss_pred CCCCCCCCCCCCCchhhHHHHHhhhchhhhhh
Q 008994 394 PNLQSQYSTTKFTEEFDFEAMNEKFKKDEVWG 425 (547)
Q Consensus 394 ~~~~~~~~~~kf~~DFDFeaaNaKFnKeei~~ 425 (547)
.-+.|+++|++|++.-|-+.|-+++|..+|.+
T Consensus 108 tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~G 139 (229)
T 3q2s_C 108 NGQSKGFALVGVGSEASSKKLMDLLPKRELHG 139 (229)
T ss_dssp TCCEEEEEEEEESCTTHHHHHHTTSTTSCBTT
T ss_pred CCccceEEEEEECCHHHHHHHHHHcCCCeECC
Confidence 44667899999999999999888888766643
No 33
>3s6n_E Small nuclear ribonucleoprotein E; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_E 2y9c_E 2y9d_E 3cw1_E 3pgw_E* 2y9a_E
Probab=85.80 E-value=0.99 Score=38.37 Aligned_cols=63 Identities=19% Similarity=0.344 Sum_probs=47.8
Q ss_pred CccCceeE----EeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceee
Q 008994 12 SYIGSFIS----LISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEV 84 (547)
Q Consensus 12 ~~iGs~is----lISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipp~~~vy~yIvFrgsDIKDL~v 84 (547)
.||++++. |+.|.+.+|+|+|..+|. .--|.|.|+..|=.++. ....+..|+.||..|.-|.-
T Consensus 23 ~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~-~mNlvL~d~~E~~~~~~---------~~~~lg~v~iRG~nV~~i~~ 89 (92)
T 3s6n_E 23 RYLQNRSRIQVWLYEQVNMRIEGCIIGFDE-YMNLVLDDAEEIHSKTK---------SRKQLGRIMLKGDNITLLQS 89 (92)
T ss_dssp HHHHHTCEEEEEESSSCSSEEEEEEEEECT-TCCEEEEEEEEECSSSC---------CEEEEEEEEECGGGEEEEEE
T ss_pred HHhCCCEEEEEEEEecCCEEEEEEEEEEcC-cCcEEEeeeEEEecCCC---------ceeEcCeEEEeCCEEEEEEe
Confidence 46777755 455999999999999995 67899999987754321 23457889999999987654
No 34
>1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_C 2y9b_C 2y9c_C 2y9d_C 3cw1_C 3pgw_Y* 3s6n_B
Probab=84.55 E-value=1.8 Score=38.05 Aligned_cols=74 Identities=15% Similarity=0.233 Sum_probs=49.7
Q ss_pred Ccc--CceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCC-CCCC---CCCCccccceEEEecCCccceeec
Q 008994 12 SYI--GSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKK-DGPQ---VLPSEKVYEYILFRGSDIKDLEVK 85 (547)
Q Consensus 12 ~~i--Gs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~-~~~~---Ipp~~~vy~yIvFrgsDIKDL~v~ 85 (547)
.++ +++|.+.-+.+-.|+|+|..+| +.--|.|.||..+-++.... .+.+ .--.+..+..|+.||+.|.-|...
T Consensus 34 ~~~~~~k~V~V~Lk~gr~~~G~L~~fD-~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~nVv~I~~~ 112 (118)
T 1b34_B 34 QSVKNNTQVLINCRNNKKLLGRVKAFD-RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRN 112 (118)
T ss_dssp HHHHHTCEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEEEC-------------------CEEEEEEEECGGGEEEEEEC
T ss_pred HHhcCCcEEEEEECCCcEEEEEEEEeC-CceEEEEeCEEEEEecccccccccccccccccccCcCeEEEcCCEEEEEEeC
Confidence 345 5999999999999999999999 66789999998775432110 0000 001123478899999999877664
Q ss_pred c
Q 008994 86 S 86 (547)
Q Consensus 86 ~ 86 (547)
+
T Consensus 113 ~ 113 (118)
T 1b34_B 113 P 113 (118)
T ss_dssp C
T ss_pred c
Confidence 3
No 35
>3u5c_h Suppressor protein STM1; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_h
Probab=63.69 E-value=1.5 Score=44.37 Aligned_cols=17 Identities=18% Similarity=0.165 Sum_probs=8.6
Q ss_pred chhhHHHHHhhhchhhh
Q 008994 407 EEFDFEAMNEKFKKDEV 423 (547)
Q Consensus 407 ~DFDFeaaNaKFnKeei 423 (547)
.+++.|.+=+.--+.|+
T Consensus 115 ~El~dE~age~~A~~E~ 131 (273)
T 3u5c_h 115 KELSAEKEAQADAAAEI 131 (273)
T ss_dssp GHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhhhhh
Confidence 45666655444444443
No 36
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C
Probab=62.48 E-value=1.8 Score=41.36 Aligned_cols=11 Identities=9% Similarity=0.154 Sum_probs=4.3
Q ss_pred hhhHHHHHhhh
Q 008994 408 EFDFEAMNEKF 418 (547)
Q Consensus 408 DFDFeaaNaKF 418 (547)
+-|....=++|
T Consensus 82 e~~L~~~F~~~ 92 (229)
T 3q2s_C 82 DEDLTEAVHSL 92 (229)
T ss_dssp HHHHHHHHHTT
T ss_pred HHHHHHHHHHH
Confidence 33444433333
No 37
>1ycy_A Conserved hypothetical protein; structural genomics, southeast collaboratory for structural genomics, secsg, protein structure initiative; 2.80A {Pyrococcus furiosus} SCOP: b.38.1.4
Probab=62.15 E-value=7.5 Score=31.66 Aligned_cols=37 Identities=19% Similarity=0.270 Sum_probs=29.6
Q ss_pred CccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceec
Q 008994 12 SYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSF 50 (547)
Q Consensus 12 ~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsf 50 (547)
.+.|+||-|--.++..|.|||...|-| .|-|+||.-|
T Consensus 13 ~WKg~rvAv~vg~ehSFtGiledFDeE--viLL~dV~D~ 49 (71)
T 1ycy_A 13 EWKGHKVAVSVGGDHSFTGTLEDFDEE--VILLKDVVDV 49 (71)
T ss_dssp HHTTSEEEEEEC----CEEEEEEECSS--EEEEEEEEET
T ss_pred HhCCcEEEEEecCcceeeeehhhcCcc--eeehhhHHHH
Confidence 467999999999999999999998877 9999999765
No 38
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Probab=44.17 E-value=19 Score=37.71 Aligned_cols=31 Identities=10% Similarity=0.159 Sum_probs=25.5
Q ss_pred CCCCCCCCCCCCCchhhHHHHHhhhchhhhh
Q 008994 394 PNLQSQYSTTKFTEEFDFEAMNEKFKKDEVW 424 (547)
Q Consensus 394 ~~~~~~~~~~kf~~DFDFeaaNaKFnKeei~ 424 (547)
.-+.++++|++|.+.-|.+.|-++||..+|.
T Consensus 140 tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~ 170 (437)
T 3pgw_S 140 SGKPRGYAFIEYEHERDMHSAYKHADGKKID 170 (437)
T ss_pred CCCccceEEEeeccHHHHHHHHHHcCCCEEC
Confidence 4456789999999999999998888876664
No 39
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4
Probab=33.31 E-value=30 Score=26.21 Aligned_cols=39 Identities=21% Similarity=0.342 Sum_probs=33.0
Q ss_pred cCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccC
Q 008994 14 IGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTE 53 (547)
Q Consensus 14 iGs~islISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTE 53 (547)
.|.++.+++=.---++|++..||.+...+.+. |..||.|
T Consensus 7 ~Gd~V~V~~Gpf~g~~g~v~~v~~~k~~v~V~-v~~~Gr~ 45 (58)
T 1nz9_A 7 EGDQVRVVSGPFADFTGTVTEINPERGKVKVM-VTIFGRE 45 (58)
T ss_dssp TTCEEEECSGGGTTCEEEEEEEETTTTEEEEE-EESSSSE
T ss_pred CCCEEEEeecCCCCcEEEEEEEcCCCCEEEEE-EEeCCCE
Confidence 68899999888888999999999998777775 7788854
No 40
>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=30.90 E-value=64 Score=26.47 Aligned_cols=38 Identities=16% Similarity=0.214 Sum_probs=33.6
Q ss_pred CCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEecc
Q 008994 9 APESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKN 46 (547)
Q Consensus 9 ~~~~~iGs~islISk~~IRYeGiL~~Id~~~sTi~L~n 46 (547)
.-+.+||+.|.|+.=----|-||+..++-....|-|.-
T Consensus 15 grd~liGktV~I~kGpyKG~~GiVkd~t~~~~RVELhs 52 (71)
T 2e70_A 15 RDNELIGQTVRISQGPYKGYIGVVKDATESTARVELHS 52 (71)
T ss_dssp CTTSSTTSEEEECSSTTTTCEEEEEEECSSCEEEEESS
T ss_pred CccccCCCEEEEeccCCCCeEEEEEECCCCeEEEEecC
Confidence 47899999999999888899999999998888888753
No 41
>2xzm_7 Plectin/S10 domain containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_7
Probab=21.65 E-value=25 Score=32.96 Aligned_cols=14 Identities=21% Similarity=0.145 Sum_probs=6.7
Q ss_pred hhchhhhhhhcccc
Q 008994 417 KFKKDEVWGYLGKA 430 (547)
Q Consensus 417 KFnKeei~~~lgK~ 430 (547)
|.|+..|-.+|=|+
T Consensus 6 K~nR~~IYe~LFke 19 (162)
T 2xzm_7 6 KATKIRIYKQLLQD 19 (162)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHhhc
Confidence 34455555555443
Done!