Query 008892
Match_columns 549
No_of_seqs 253 out of 360
Neff 4.1
Searched_HMMs 29240
Date Mon Mar 25 14:08:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008892.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/008892hhsearch_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-43 274.5 9.0 84 7-91 11-94 (95)
2 2vxe_A CG10686-PA; EDC3, CAR-1 100.0 2E-37 6.9E-42 263.4 10.7 82 7-89 5-86 (88)
3 2vc8_A Enhancer of mRNA-decapp 99.4 7E-13 2.4E-17 112.0 6.0 69 8-89 2-71 (84)
4 2rm4_A CG6311-PB, DM EDC3; enh 97.4 0.0012 4.1E-08 57.4 10.5 69 9-90 6-75 (103)
5 4a53_A EDC3; RNA binding prote 97.1 0.00048 1.7E-08 62.2 5.5 61 9-89 6-66 (125)
6 3pgw_B SM B; protein-RNA compl 96.8 0.0021 7.2E-08 63.5 7.6 80 9-89 8-87 (231)
7 1d3b_B Protein (small nuclear 96.6 0.0041 1.4E-07 52.2 6.4 81 8-89 7-87 (91)
8 1y96_A Gemin6, SIP2, GEM-assoc 96.4 0.0069 2.4E-07 51.6 6.6 62 11-88 13-74 (86)
9 3s6n_G Small nuclear ribonucle 95.9 0.015 5.1E-07 47.5 6.4 70 6-86 5-74 (76)
10 1d3b_A Protein (small nuclear 95.9 0.02 6.7E-07 46.8 6.9 63 11-84 11-73 (75)
11 2y9a_D Small nuclear ribonucle 95.7 0.026 8.8E-07 50.9 7.7 75 11-104 11-85 (126)
12 1h64_1 SnRNP SM-like protein; 95.7 0.017 5.8E-07 46.7 5.9 65 11-86 10-74 (75)
13 1i4k_A Putative snRNP SM-like 95.7 0.018 6.1E-07 46.8 5.9 65 11-86 10-74 (77)
14 1i8f_A Putative snRNP SM-like 95.6 0.019 6.5E-07 47.3 5.9 63 11-85 17-79 (81)
15 2fwk_A U6 snRNA-associated SM- 95.5 0.015 5.3E-07 51.6 5.5 78 11-89 34-116 (121)
16 1th7_A SnRNP-2, small nuclear 95.4 0.031 1E-06 46.0 6.5 65 11-86 15-79 (81)
17 1b34_A Protein (small nuclear 95.3 0.032 1.1E-06 49.5 6.8 76 11-105 8-83 (119)
18 4emk_A U6 snRNA-associated SM- 95.3 0.046 1.6E-06 46.9 7.5 66 11-86 26-91 (94)
19 4emh_A Probable U6 snRNA-assoc 95.0 0.036 1.2E-06 48.5 6.1 66 11-86 22-87 (105)
20 1ljo_A Archaeal SM-like protei 94.7 0.051 1.8E-06 44.2 5.8 65 11-86 11-76 (77)
21 4emk_B U6 snRNA-associated SM- 94.6 0.067 2.3E-06 43.4 6.2 65 11-86 10-74 (75)
22 1mgq_A SM-like protein; LSM, R 94.3 0.067 2.3E-06 44.3 5.6 62 11-83 21-82 (83)
23 1m5q_A SMAP3, small nuclear ri 94.2 0.09 3.1E-06 47.6 6.8 61 12-87 7-67 (130)
24 1n9r_A SMF, small nuclear ribo 94.2 0.049 1.7E-06 46.5 4.8 65 10-85 26-91 (93)
25 4emk_C U6 snRNA-associated SM- 94.1 0.11 3.9E-06 45.8 7.0 74 9-86 27-100 (113)
26 3bw1_A SMX4 protein, U6 snRNA- 93.8 0.1 3.5E-06 44.5 6.1 71 11-85 16-86 (96)
27 3s6n_F Small nuclear ribonucle 92.5 0.16 5.5E-06 42.5 5.2 65 11-86 12-76 (86)
28 4emg_A Probable U6 snRNA-assoc 91.1 0.37 1.3E-05 40.9 6.0 70 12-83 16-89 (93)
29 1h2v_Z 20 kDa nuclear CAP bind 89.9 0.075 2.6E-06 47.0 0.7 27 399-425 80-106 (156)
30 2wax_B Enhancer of mRNA-decapp 89.0 0.077 2.6E-06 40.2 0.1 24 408-431 17-40 (44)
31 3s6n_E Small nuclear ribonucle 86.3 0.88 3E-05 38.7 5.0 63 12-84 23-89 (92)
32 1b34_B Protein (small nuclear 85.3 1.9 6.6E-05 37.9 6.9 74 12-86 34-113 (118)
33 3q2s_C Cleavage and polyadenyl 82.9 0.07 2.4E-06 51.2 -3.8 29 398-426 110-138 (229)
34 3d3j_A Enhancer of mRNA-decapp 81.5 0.29 1E-05 49.6 0.0 23 410-432 1-23 (306)
35 4a53_A EDC3; RNA binding prote 73.9 0.26 8.8E-06 44.6 -2.7 31 400-431 93-123 (125)
36 1h2v_Z 20 kDa nuclear CAP bind 71.4 1.1 3.7E-05 39.5 0.8 15 408-422 51-65 (156)
37 3pgw_S U1-70K; protein-RNA com 66.2 4.5 0.00015 42.5 4.3 29 398-426 142-170 (437)
38 1ycy_A Conserved hypothetical 64.6 6.3 0.00022 32.1 3.8 37 12-50 13-49 (71)
39 3u5c_h Suppressor protein STM1 60.5 1.8 6.1E-05 43.7 0.0 19 408-426 114-132 (273)
40 3q2s_C Cleavage and polyadenyl 53.8 3 0.0001 39.8 0.3 15 407-421 79-93 (229)
41 1nz9_A Transcription antitermi 32.9 31 0.0011 26.2 3.0 39 14-53 7-45 (58)
42 2e70_A Transcription elongatio 29.4 71 0.0024 26.2 4.7 38 9-46 15-52 (71)
43 3u5c_h Suppressor protein STM1 28.6 12 0.00041 37.8 0.0 12 497-508 205-217 (273)
44 1x4e_A RNA binding motif, sing 27.6 18 0.00061 28.0 0.8 34 398-431 45-78 (85)
45 3p5t_L Cleavage and polyadenyl 26.9 18 0.00063 28.6 0.8 30 398-427 43-72 (90)
46 2jvr_A Nucleolar protein 3; RN 25.9 19 0.00064 30.8 0.7 31 399-429 66-96 (111)
47 1x5s_A Cold-inducible RNA-bind 21.2 31 0.0011 27.5 1.2 30 398-427 52-81 (102)
48 2fc9_A NCL protein; structure 20.3 39 0.0013 27.0 1.6 32 397-428 50-81 (101)
49 2cqb_A Peptidyl-prolyl CIS-tra 20.3 34 0.0012 27.3 1.2 31 398-428 52-82 (102)
50 2fc8_A NCL protein; structure 20.3 26 0.00087 28.1 0.4 31 398-428 52-82 (102)
51 3beg_B Splicing factor, argini 20.2 27 0.00093 29.1 0.6 26 401-426 52-77 (115)
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=274.55 Aligned_cols=84 Identities=54% Similarity=0.894 Sum_probs=75.5
Q ss_pred CCCCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 7 KNAPESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 7 ~~~~~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
++...+|||++||||||+|||||||||+||.+++||+|+||||||||||+++ .+|||+++|||||+|||+|||||+|||
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 008892 87 SPPPQ 91 (549)
Q Consensus 87 ~p~~~ 91 (549)
.|+++
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=2e-37 Score=263.43 Aligned_cols=82 Identities=49% Similarity=0.775 Sum_probs=77.0
Q ss_pred CCCCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 7 KNAPESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 7 ~~~~~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
-+..++|||++||||||+|||||||||+||.+++||+|+||||||||||+++ ++|||+++|||||+|||+|||||+||+
T Consensus 5 ~s~~~~yIGs~iSLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~-~~ipp~~~vy~yIvFrgsDIKdL~V~~ 83 (88)
T 2vxe_A 5 MSGGLPELGSKISLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQ-FQIAPQSQIYDYILFRGSDIKDIRVVN 83 (88)
T ss_dssp SCSSSCCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCS-SCCCCCCSCEEEEEEETTTEEEEEECC
T ss_pred ccCCCcccCCeEEEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCCC-cccCCCCceeeEEEEccCCccEEEEec
Confidence 3567999999999999999999999999999999999999999999999874 689999999999999999999999998
Q ss_pred CCC
Q 008892 87 SPP 89 (549)
Q Consensus 87 ~p~ 89 (549)
..+
T Consensus 84 ~~p 86 (88)
T 2vxe_A 84 NHT 86 (88)
T ss_dssp CCC
T ss_pred cCC
Confidence 643
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=7e-13 Score=112.00 Aligned_cols=69 Identities=22% Similarity=0.341 Sum_probs=56.8
Q ss_pred CCCCCccCceeEEeecCCe-eEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 8 NAPESYIGSFISLISKYEI-RYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 8 ~~~~~~IGs~isLISk~~I-RYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
+.++.|||+.|||.++.+| +|+|+|+.||+.++||+|+||-+= +. .+++.+ |+|++.||+||+|++
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 4578999999999999999 999999999999999999999422 22 233333 999999999999998
Q ss_pred CCC
Q 008892 87 SPP 89 (549)
Q Consensus 87 ~p~ 89 (549)
.+.
T Consensus 69 ~~~ 71 (84)
T 2vc8_A 69 IPG 71 (84)
T ss_dssp CCC
T ss_pred cCC
Confidence 754
No 4
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=97.39 E-value=0.0012 Score=57.40 Aligned_cols=69 Identities=16% Similarity=0.354 Sum_probs=55.7
Q ss_pred CCCCccCceeEEeecCCe-eEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccC
Q 008892 9 APESYIGSFISLISKYEI-RYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSS 87 (549)
Q Consensus 9 ~~~~~IGs~isLISk~~I-RYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~~ 87 (549)
..+.|||+.|||-...++ -|.|.+..||.+ +|+|.+.-+=|--=|+ ++-| ++|+..||++|.+++.
T Consensus 6 ~~edwiG~~VSI~C~d~LGVyQG~I~~V~~~--~ItL~kaFrNGiplk~----------~~~E-VtLsa~DI~~L~IIe~ 72 (103)
T 2rm4_A 6 TDQDWIGCAVSIACDEVLGVFQGLIKQISAE--EITIVRAFRNGVPLRK----------QNAE-VVLKCTDIRSIDLIEP 72 (103)
T ss_dssp CSGGGTTCEEEEEECTTTCEEEEEEEEEETT--EEEEEEEEETTEECSC----------SSSC-EEEETTTEEEEEEEEC
T ss_pred cccceeceEEEEeeCCcceEeeEEEEEcccc--eeEEhhhhhcCcCcCC----------CCce-EEEEecchhheeeecc
Confidence 457899999999999999 899999999965 6999987765543332 2222 8999999999999997
Q ss_pred CCC
Q 008892 88 PPP 90 (549)
Q Consensus 88 p~~ 90 (549)
+..
T Consensus 73 ~~~ 75 (103)
T 2rm4_A 73 AKQ 75 (103)
T ss_dssp CCC
T ss_pred ccc
Confidence 653
No 5
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=97.13 E-value=0.00048 Score=62.17 Aligned_cols=61 Identities=18% Similarity=0.298 Sum_probs=51.6
Q ss_pred CCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCC
Q 008892 9 APESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSP 88 (549)
Q Consensus 9 ~~~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~~p 88 (549)
+..+|||++|.|.-|.+-+|.|+|..||...-|+-|+||.+=+ +.++.+||+||+|+..+
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 008892 89 P 89 (549)
Q Consensus 89 ~ 89 (549)
.
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=96.84 E-value=0.0021 Score=63.46 Aligned_cols=80 Identities=16% Similarity=0.226 Sum_probs=61.1
Q ss_pred CCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCC
Q 008892 9 APESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSP 88 (549)
Q Consensus 9 ~~~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~~p 88 (549)
...+||+++|.|+-|.+-.|+|+|..+|. .--|.|+||.-|=++..+.+....--.+..+..|+.||+.|.-|.|++.|
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 44679999999999999999999999995 56789999988764322111011112455788999999999999998865
Q ss_pred C
Q 008892 89 P 89 (549)
Q Consensus 89 ~ 89 (549)
+
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=96.55 E-value=0.0041 Score=52.22 Aligned_cols=81 Identities=16% Similarity=0.230 Sum_probs=59.9
Q ss_pred CCCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccC
Q 008892 8 NAPESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSS 87 (549)
Q Consensus 8 ~~~~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~~ 87 (549)
..-..|||++|.+..+.+-.|+|+|..+| +.--|.|.||.-|-+.-........-.....+..|+.||+.|.-|.+.+.
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 008892 88 PP 89 (549)
Q Consensus 88 p~ 89 (549)
|+
T Consensus 86 ~~ 87 (91)
T 1d3b_B 86 PP 87 (91)
T ss_dssp CC
T ss_pred CC
Confidence 55
No 8
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=96.36 E-value=0.0069 Score=51.63 Aligned_cols=62 Identities=16% Similarity=0.202 Sum_probs=53.3
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCC
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSP 88 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~~p 88 (549)
..|||++|.++...+-.|+|+||.+|+..-.|.|.|. -| ++-|--++..|.-||++.|.+.+
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=95.94 E-value=0.015 Score=47.53 Aligned_cols=70 Identities=16% Similarity=0.215 Sum_probs=48.0
Q ss_pred CCCCCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeec
Q 008892 6 TKNAPESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVK 85 (549)
Q Consensus 6 ~~~~~~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~ 85 (549)
....-..|||++|.+.-|.+-.|+|+|..+| +.--|.|+||.-+-.++ ....++.++.||+.|.-+...
T Consensus 5 ~~~~L~~~~~k~V~V~Lk~gr~~~G~L~~~D-~~mNlvL~~~~e~~~~~----------~~~~lg~v~iRG~~I~~i~~~ 73 (76)
T 3s6n_G 5 HPPELKKFMDKKLSLKLNGGRHVQGILRGFD-PFMNLVIDECVEMATSG----------QQNNIGMVVIRGNSIIMLEAL 73 (76)
T ss_dssp ---------CCEEEEEETTTEEEEEEEEEEC-TTCCEEEEEEEECCCC--------------CBSSEEECSSSEEEEEC-
T ss_pred chHHHHHhCCCeEEEEECCCcEEEEEEEEEC-CcceEEEeceEEEccCC----------cEeEcCEEEECCCeEEEEEec
Confidence 3345578999999999999999999999999 46789999998764322 123567899999999988765
Q ss_pred c
Q 008892 86 S 86 (549)
Q Consensus 86 ~ 86 (549)
|
T Consensus 74 d 74 (76)
T 3s6n_G 74 E 74 (76)
T ss_dssp -
T ss_pred c
Confidence 4
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=95.87 E-value=0.02 Score=46.83 Aligned_cols=63 Identities=19% Similarity=0.267 Sum_probs=52.8
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceee
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEV 84 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v 84 (549)
..++|++|.+.-|.+.+|+|+|..+| +.=-|.|+||..+-.+|+ ..-++.|+.||+.|.-+.+
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 45899999999999999999999999 456799999988753321 3467889999999998876
No 11
>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=95.72 E-value=0.026 Score=50.90 Aligned_cols=75 Identities=19% Similarity=0.253 Sum_probs=59.9
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCCCC
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSPPP 90 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~~p~~ 90 (549)
..++|++|.|.-|.+.-|.|+|..+|. .=-|.|+||..+-.+|. ..-++.|+.||+.|.-|.+.+.
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 57899999998853331 2467889999999999887542
Q ss_pred CCCccCCCCchhhh
Q 008892 91 QKEEQIYQDPAIIQ 104 (549)
Q Consensus 91 ~~~~~~~~DPAI~~ 104 (549)
+.+||.+..
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 12
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=95.72 E-value=0.017 Score=46.75 Aligned_cols=65 Identities=15% Similarity=0.216 Sum_probs=52.7
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
..++|++|.+..|.+-.|+|+|..+| +.--|.|+||..+-.++ ...-++.++.||+.|.-+...+
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 2335678999999998876543
No 13
>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=95.69 E-value=0.018 Score=46.80 Aligned_cols=65 Identities=11% Similarity=0.085 Sum_probs=53.4
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
..++|++|.+.-|.+-.|+|+|..+| +.--|.|+||.-+-.++ ...-++.|+.||+.|.-+...+
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 55789999998775432 2235678999999998887643
No 14
>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=95.61 E-value=0.019 Score=47.33 Aligned_cols=63 Identities=11% Similarity=0.157 Sum_probs=52.5
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeec
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVK 85 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~ 85 (549)
..++|++|.+.-+.+-.|+|+|..+| +.--|.|+||.-+ ++. ...-++.++.||+.|.-|...
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 57899999999999999999999999 5578999999998 221 134578899999999887654
No 15
>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=95.54 E-value=0.015 Score=51.61 Aligned_cols=78 Identities=22% Similarity=0.346 Sum_probs=55.7
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCC----CCC-CCCCccccceEEEecCCccceeec
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKD----GPQ-VLPSEKVYEYILFRGSDIKDLEVK 85 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~----~~~-Ipps~~vy~yIvFrgsDIKDL~v~ 85 (549)
..+||++|.|.-+.+-.|+|+|..+| +.--|.|.||.-+-++.++.+ +.+ +-.....+..|+.||+.|.-|...
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 46899999999999999999999999 557899999988876422211 100 000134578899999999988877
Q ss_pred cCCC
Q 008892 86 SSPP 89 (549)
Q Consensus 86 ~~p~ 89 (549)
+.|+
T Consensus 113 ~~~~ 116 (121)
T 2fwk_A 113 GDPD 116 (121)
T ss_dssp SCC-
T ss_pred CCCC
Confidence 6544
No 16
>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=95.43 E-value=0.031 Score=46.04 Aligned_cols=65 Identities=15% Similarity=0.237 Sum_probs=53.1
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
..++|++|.+.-|.+-.|+|+|..+| +.--|.|+||..+-.++ ...-++.|+.||+.|.-+...+
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 46899999999999999999999999 55789999998776432 1245788999999999887654
No 17
>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=95.35 E-value=0.032 Score=49.47 Aligned_cols=76 Identities=16% Similarity=0.158 Sum_probs=58.1
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccCCCC
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSSPPP 90 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~~p~~ 90 (549)
..+||++|.|.-|.+..|+|+|..+| +.--|.|+||..+-.+ . ....++.|+.||+.|.-|.+.+.
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 36899999999999999999999999 4567899999987321 1 12467889999999998887542
Q ss_pred CCCccCCCCchhhhc
Q 008892 91 QKEEQIYQDPAIIQS 105 (549)
Q Consensus 91 ~~~~~~~~DPAI~~~ 105 (549)
+..|+.+++.
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 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=95.32 E-value=0.046 Score=46.90 Aligned_cols=66 Identities=24% Similarity=0.267 Sum_probs=54.0
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
..|+|++|.+.-|.+-+|+|+|..+|. ---|.|+||..+-+++ . ....++.|+.||+.|.-|....
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 5678999998886421 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=95.03 E-value=0.036 Score=48.46 Aligned_cols=66 Identities=20% Similarity=0.181 Sum_probs=50.0
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
..+||++|.+.-|.+..|+|+|..+|. ---|.|+||..+-.+|. ...-++.|+.||+.|.-|.+.+
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 1235789999999999988744
No 20
>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=94.69 E-value=0.051 Score=44.20 Aligned_cols=65 Identities=20% Similarity=0.238 Sum_probs=52.3
Q ss_pred CCccCceeEEeecCC-eeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 11 ESYIGSFISLISKYE-IRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 11 ~~~IGs~isLISk~~-IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
..++|++|.+.-|.+ -.|+|+|..+| +.--|.|+||..+-..+ ...-++.|+.||+.|.-+...+
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 21
>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=94.58 E-value=0.067 Score=43.45 Aligned_cols=65 Identities=18% Similarity=0.349 Sum_probs=51.4
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
..++|++|.+.-|.+-.|+|+|..+|. .--|.|+||.-+=. | . ....++.|+.||+.|.-+...+
T Consensus 10 ~~~~~k~V~V~Lk~g~~~~G~L~~~D~-~mNlvL~d~~e~~~-~-----~----~~~~lg~v~iRG~~I~~i~~~~ 74 (75)
T 4emk_B 10 NKVIGKKVLIRLSSGVDYKGILSCLDG-YMNLALERTEEYVN-G-----K----KTNVYGDAFIRGNNVLYVSALD 74 (75)
T ss_dssp HHTTTSEEEEECTTSCEEEEEEEEECT-TCEEEEEEEEEEET-T-----E----EEEEEEEEEEEGGGSSEEEEC-
T ss_pred HHhCCCeEEEEEcCCcEEEEEEEEEcC-cceEEEccEEEEec-C-----C----cccEecEEEEcCCeEEEEEecC
Confidence 358999999999999999999999996 57899999876531 1 1 1235788999999999876543
No 22
>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=94.26 E-value=0.067 Score=44.33 Aligned_cols=62 Identities=16% Similarity=0.245 Sum_probs=50.8
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCcccee
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLE 83 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~ 83 (549)
..++|++|.+.-|.+-.|+|+|..+| +.--|.|+||..+-.++ ...-++.++.||+.|.-+.
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 56899999999999999999999999 55789999998875431 2235788999999997653
No 23
>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=94.21 E-value=0.09 Score=47.58 Aligned_cols=61 Identities=16% Similarity=0.275 Sum_probs=52.6
Q ss_pred CccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeeccC
Q 008892 12 SYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKSS 87 (549)
Q Consensus 12 ~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~~ 87 (549)
.++|++|.+.-|.+..|+|+|..+| +.--|.|+||..+ .+ .-|+.|+.||+.|.-|.+.+.
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 21 356789999999999888664
No 24
>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=94.20 E-value=0.049 Score=46.48 Aligned_cols=65 Identities=15% Similarity=0.251 Sum_probs=52.1
Q ss_pred CCCccCceeEEeecCC-eeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeec
Q 008892 10 PESYIGSFISLISKYE-IRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVK 85 (549)
Q Consensus 10 ~~~~IGs~isLISk~~-IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~ 85 (549)
-..++|++|.+.-|.+ ..|+|+|..+| +---|.|+||..+- +|. ...-++.|+.||+.|.-|...
T Consensus 26 L~~~i~k~V~V~Lk~g~~~~~G~L~~~D-~~MNlvL~d~~E~~-~~~---------~~~~lg~v~IRG~nI~~I~~~ 91 (93)
T 1n9r_A 26 LKGLVNHRVGVKLKFNSTEYRGTLVSTD-NYFNLQLNEAEEFV-AGV---------SHGTLGEIFIRCNNVLYIREL 91 (93)
T ss_dssp CGGGTTSEEEEEESSTTEEEEEEEEECC-TTTCEEEEEEEEEE-TTE---------EEEECCSEEECGGGEEEEEEC
T ss_pred HHHhCCCEEEEEEcCCCEEEEEEEEEEc-cccEEEEeeEEEEc-CCC---------eEeEcCEEEEcCCeEEEEEeC
Confidence 3678999999999999 99999999999 55789999998773 211 112467899999999887654
No 25
>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=94.06 E-value=0.11 Score=45.75 Aligned_cols=74 Identities=11% Similarity=0.082 Sum_probs=52.0
Q ss_pred CCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 9 APESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 9 ~~~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
.-..|||++|.++.+.+-.|+|+|..+|. .--|.|.||.-|=++.- +..+--....+..|+.||..|.-|...+
T Consensus 27 ~L~~~l~k~V~V~L~dGr~~~G~L~~fD~-~mNLVL~d~~E~~~~~~---~~~~~~~~r~lG~v~IRG~nIv~I~~~d 100 (113)
T 4emk_C 27 DLSRYQDQRIQATFTGGRQITGILKGFDQ-LMNLVLDDVEEQLRNPE---DGKLTGAIRKLGLVVVRGTTLVLIAPMD 100 (113)
T ss_dssp -----CCSEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEEC------------CCEEEEEEEEECTTTEEEEEECC
T ss_pred HHHHHcCCcEEEEEeCCeEEEEEEEEEcC-cccEEEeeEEEEEcCCC---CcccccceeEccEEEECCCeEEEEEecC
Confidence 34679999999999999999999999996 56799999987754311 1011123456789999999999887654
No 26
>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=93.82 E-value=0.1 Score=44.49 Aligned_cols=71 Identities=13% Similarity=0.141 Sum_probs=53.6
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeec
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVK 85 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~ 85 (549)
..+||++|.++.|.+-.|+|+|..+| +---|.|.||.-|=++..+. . .-....-+..|+.||+.|.-|...
T Consensus 16 ~~~i~k~V~V~Lk~gr~~~G~L~~fD-~~mNlVL~d~~E~~~~~~~~--~-~~~~~r~lG~v~IRG~nVv~I~~~ 86 (96)
T 3bw1_A 16 KLNLDERVYIKLRGARTLVGTLQAFD-SHCNIVLSDAVETIYQLNNE--E-LSESERRCEMVFIRGDTVTLISTP 86 (96)
T ss_dssp GGGTTSEEEEEEGGGCEEEEEEEEEC-TTCCEEEEEEEEEEECCSTT--C-CCEEEEEEEEEEECGGGEEEEECC
T ss_pred HHHCCCeEEEEECCCcEEEEEEEEEC-CCCcEEEcCEEEEecccccc--c-cCcceeEcCEEEECCCEEEEEEec
Confidence 46899999999999999999999999 45789999998775432211 0 111223467899999999877654
No 27
>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=92.52 E-value=0.16 Score=42.50 Aligned_cols=65 Identities=15% Similarity=0.253 Sum_probs=52.0
Q ss_pred CCccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceeecc
Q 008892 11 ESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEVKS 86 (549)
Q Consensus 11 ~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v~~ 86 (549)
..+||++|.+.-|.+-.|+|+|..+|. .--|.|+||.-|= +| . ....++.|+.||+.|.-|...+
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 368999999999999999999999996 5678999998552 11 1 1234678999999999988755
No 28
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=91.13 E-value=0.37 Score=40.90 Aligned_cols=70 Identities=13% Similarity=0.153 Sum_probs=51.0
Q ss_pred CccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCC----CCCCCccccceEEEecCCcccee
Q 008892 12 SYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGP----QVLPSEKVYEYILFRGSDIKDLE 83 (549)
Q Consensus 12 ~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~----~Ipps~~vy~yIvFrgsDIKDL~ 83 (549)
.+||++|.+.-+.+-.|+|+|..+|. .--|.|.||..+-++-.+ ++. ..-.....+..|+.||..|.-|.
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 29
>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X
Probab=89.92 E-value=0.075 Score=47.04 Aligned_cols=27 Identities=7% Similarity=0.108 Sum_probs=17.3
Q ss_pred ccccCCCCCCchhhHHHHHHhhchhhh
Q 008892 399 QSQYSTTKFTEEFDFEAMNEKFKKDEV 425 (549)
Q Consensus 399 ~~~~~~~kf~~dFDFesaN~kFnK~ei 425 (549)
.++|++++|.+..|.+.|.+.+|..+|
T Consensus 80 ~~g~afV~f~~~~~A~~Ai~~l~g~~~ 106 (156)
T 1h2v_Z 80 ACGFCFVEYYSRADAENAMRYINGTRL 106 (156)
T ss_dssp EEEEEEEEESSHHHHHHHHHHTTTSEE
T ss_pred cceEEEEEECCHHHHHHHHHHhCCCEE
Confidence 456677777777777776666665444
No 30
>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=89.04 E-value=0.077 Score=40.17 Aligned_cols=24 Identities=29% Similarity=0.487 Sum_probs=21.8
Q ss_pred CchhhHHHHHHhhchhhhhhcccc
Q 008892 408 TEEFDFEAMNEKFKKDEVWGYLGK 431 (549)
Q Consensus 408 ~~dFDFesaN~kFnK~ei~~~lgK 431 (549)
++|||||...++|+|..|+.++.+
T Consensus 17 ~~dFDFE~NLalFdKq~Vf~~~~~ 40 (44)
T 2wax_B 17 DTDFDFEGNLALFDKAAVFEEIDT 40 (44)
T ss_dssp SSCCCHHHHHTTCCHHHHHHHHHH
T ss_pred cccccHHHHHHHHhHHHHHHHHhc
Confidence 799999999999999999987754
No 31
>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=86.31 E-value=0.88 Score=38.70 Aligned_cols=63 Identities=19% Similarity=0.344 Sum_probs=47.8
Q ss_pred CccCceeE----EeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCCCCCCCCCCccccceEEEecCCccceee
Q 008892 12 SYIGSFIS----LISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYILFRGSDIKDLEV 84 (549)
Q Consensus 12 ~~IGs~is----LISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~~Ipps~~vy~yIvFrgsDIKDL~v 84 (549)
.||++++. |+.|.+.+|+|+|..+|. ---|.|.|+..|=.++. ....+.-|+.||+.|.-|.-
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 46777754 455999999999999995 67899999987754321 23457889999999987653
No 32
>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=85.33 E-value=1.9 Score=37.88 Aligned_cols=74 Identities=15% Similarity=0.233 Sum_probs=49.8
Q ss_pred Ccc--CceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccCCCCC-CCCC---CCCCccccceEEEecCCccceeec
Q 008892 12 SYI--GSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKK-DGPQ---VLPSEKVYEYILFRGSDIKDLEVK 85 (549)
Q Consensus 12 ~~I--Gs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~-~~~~---Ipps~~vy~yIvFrgsDIKDL~v~ 85 (549)
.++ |++|.+.-+.+-.|+|+|..+| +.--|.|.||.-+-++..+. .+.+ .--.+..+..|+.||+.|.-|...
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 355 5999999999999999999999 66789999998775432110 0100 001123478899999999877664
Q ss_pred c
Q 008892 86 S 86 (549)
Q Consensus 86 ~ 86 (549)
+
T Consensus 113 ~ 113 (118)
T 1b34_B 113 P 113 (118)
T ss_dssp C
T ss_pred c
Confidence 3
No 33
>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=82.90 E-value=0.07 Score=51.21 Aligned_cols=29 Identities=10% Similarity=0.145 Sum_probs=24.2
Q ss_pred cccccCCCCCCchhhHHHHHHhhchhhhh
Q 008892 398 SQSQYSTTKFTEEFDFEAMNEKFKKDEVW 426 (549)
Q Consensus 398 ~~~~~~~~kf~~dFDFesaN~kFnK~ei~ 426 (549)
..++|++++|++..|.+.|.+++|..+|.
T Consensus 110 ~skGfaFV~f~~~~~a~~Ai~~lng~~~~ 138 (229)
T 3q2s_C 110 QSKGFALVGVGSEASSKKLMDLLPKRELH 138 (229)
T ss_dssp CEEEEEEEEESCTTHHHHHHTTSTTSCBT
T ss_pred ccceEEEEEECCHHHHHHHHHHcCCCeEC
Confidence 35789999999999999999988876664
No 34
>3d3j_A Enhancer of mRNA-decapping protein 3; HEDC3, phosphoprotein, protein binding; 2.80A {Homo sapiens}
Probab=81.46 E-value=0.29 Score=49.57 Aligned_cols=23 Identities=30% Similarity=0.478 Sum_probs=0.0
Q ss_pred hhhHHHHHHhhchhhhhhccccc
Q 008892 410 EFDFEAMNEKFKKDEVWGYLGKA 432 (549)
Q Consensus 410 dFDFesaN~kFnK~ei~~~lgK~ 432 (549)
|||||+..++|+|..+|.++.+.
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 79999999999999999999765
No 35
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=73.88 E-value=0.26 Score=44.63 Aligned_cols=31 Identities=35% Similarity=0.612 Sum_probs=24.4
Q ss_pred cccCCCCCCchhhHHHHHHhhchhhhhhcccc
Q 008892 400 SQYSTTKFTEEFDFEAMNEKFKKDEVWGYLGK 431 (549)
Q Consensus 400 ~~~~~~kf~~dFDFesaN~kFnK~ei~~~lgK 431 (549)
.++ ....++||||+...++|||.+|-.+|.+
T Consensus 93 ~~w-~~d~~~dFDFq~nL~~FnKk~vF~ql~~ 123 (125)
T 4a53_A 93 NKW-SMDCDEEFDFAANLEKFDKKQVFAEFRE 123 (125)
T ss_dssp SSC-CSSSSSCCCCTBTTBCSSTTCCSSCCCS
T ss_pred cCc-ccccccccchhhhHHhhhHHHHHHHHhh
Confidence 344 3367899999999999999998766643
No 36
>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X
Probab=71.38 E-value=1.1 Score=39.47 Aligned_cols=15 Identities=20% Similarity=0.025 Sum_probs=10.9
Q ss_pred CchhhHHHHHHhhch
Q 008892 408 TEEFDFEAMNEKFKK 422 (549)
Q Consensus 408 ~~dFDFesaN~kFnK 422 (549)
.++.|++....+|.+
T Consensus 51 ~t~~~l~~~F~~~G~ 65 (156)
T 1h2v_Z 51 TTEEQIYELFSKSGD 65 (156)
T ss_dssp CCHHHHHHHHGGGSC
T ss_pred CCHHHHHHHHHhcCC
Confidence 467778888888854
No 37
>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=66.15 E-value=4.5 Score=42.47 Aligned_cols=29 Identities=10% Similarity=0.186 Sum_probs=24.6
Q ss_pred cccccCCCCCCchhhHHHHHHhhchhhhh
Q 008892 398 SQSQYSTTKFTEEFDFEAMNEKFKKDEVW 426 (549)
Q Consensus 398 ~~~~~~~~kf~~dFDFesaN~kFnK~ei~ 426 (549)
..+||++++|.+..|.+.|.+++|..+|.
T Consensus 142 ~~kG~aFV~F~~~e~A~~Ai~~lng~~i~ 170 (437)
T 3pgw_S 142 KPRGYAFIEYEHERDMHSAYKHADGKKID 170 (437)
T ss_pred CccceEEEeeccHHHHHHHHHHcCCCEEC
Confidence 35799999999999999999999876654
No 38
>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=64.62 E-value=6.3 Score=32.10 Aligned_cols=37 Identities=19% Similarity=0.270 Sum_probs=29.7
Q ss_pred CccCceeEEeecCCeeEEEEeeeecCCCCeEEeccceec
Q 008892 12 SYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSF 50 (549)
Q Consensus 12 ~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsf 50 (549)
.+.|+||-|--.++..|.|||...|-| .|-|+||.-|
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 467999999999999999999998887 9999999765
No 39
>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=60.55 E-value=1.8 Score=43.73 Aligned_cols=19 Identities=16% Similarity=0.086 Sum_probs=13.5
Q ss_pred CchhhHHHHHHhhchhhhh
Q 008892 408 TEEFDFEAMNEKFKKDEVW 426 (549)
Q Consensus 408 ~~dFDFesaN~kFnK~ei~ 426 (549)
+.+++.|.+-+..-+.|+.
T Consensus 114 ~~El~dE~age~~A~~E~~ 132 (273)
T 3u5c_h 114 KKELSAEKEAQADAAAEIA 132 (273)
T ss_dssp GGHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhhhhhhhhh
Confidence 5678888777777766653
No 40
>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=53.80 E-value=3 Score=39.76 Aligned_cols=15 Identities=13% Similarity=0.222 Sum_probs=12.2
Q ss_pred CCchhhHHHHHHhhc
Q 008892 407 FTEEFDFEAMNEKFK 421 (549)
Q Consensus 407 f~~dFDFesaN~kFn 421 (549)
-.++.|++....+|.
T Consensus 79 ~~te~~L~~~F~~~G 93 (229)
T 3q2s_C 79 WTTDEDLTEAVHSLG 93 (229)
T ss_dssp TCCHHHHHHHHHTTT
T ss_pred CCCHHHHHHHHHHHC
Confidence 357889999999986
No 41
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4
Probab=32.94 E-value=31 Score=26.16 Aligned_cols=39 Identities=21% Similarity=0.342 Sum_probs=33.0
Q ss_pred cCceeEEeecCCeeEEEEeeeecCCCCeEEeccceecccC
Q 008892 14 IGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTE 53 (549)
Q Consensus 14 IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~nVrsfGTE 53 (549)
.|.++.+++=.---++|++..||.++..+.+. |..||.|
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 68889999888778999999999998777775 7788854
No 42
>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=29.35 E-value=71 Score=26.20 Aligned_cols=38 Identities=16% Similarity=0.214 Sum_probs=33.4
Q ss_pred CCCCccCceeEEeecCCeeEEEEeeeecCCCCeEEecc
Q 008892 9 APESYIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKN 46 (549)
Q Consensus 9 ~~~~~IGs~isLISk~~IRYeGiL~~Id~~~sTi~L~n 46 (549)
.-+.+||+.|.|+.=----|-||+..++-....|-|.-
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 47899999999999888899999999998888887753
No 43
>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=28.57 E-value=12 Score=37.80 Aligned_cols=12 Identities=25% Similarity=0.235 Sum_probs=0.0
Q ss_pred cccccc-cccccc
Q 008892 497 MRLDTE-TFGNFQ 508 (549)
Q Consensus 497 rklNtE-TFG~~s 508 (549)
..|+.+ +|-...
T Consensus 205 ~~Leid~~F~~~~ 217 (273)
T 3u5c_h 205 EYLEFDATFVESN 217 (273)
T ss_dssp -------------
T ss_pred eEEEecCEEcCCC
Confidence 456666 665544
No 44
>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=27.55 E-value=18 Score=27.98 Aligned_cols=34 Identities=15% Similarity=0.130 Sum_probs=28.8
Q ss_pred cccccCCCCCCchhhHHHHHHhhchhhhhhcccc
Q 008892 398 SQSQYSTTKFTEEFDFEAMNEKFKKDEVWGYLGK 431 (549)
Q Consensus 398 ~~~~~~~~kf~~dFDFesaN~kFnK~ei~~~lgK 431 (549)
..++|++++|.+..|.+.|.+.+|..++.+...|
T Consensus 45 ~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~ 78 (85)
T 1x4e_A 45 KCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK 78 (85)
T ss_dssp SCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred CcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEe
Confidence 4689999999999999999999998877655544
No 45
>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C
Probab=26.92 E-value=18 Score=28.56 Aligned_cols=30 Identities=13% Similarity=0.213 Sum_probs=25.1
Q ss_pred cccccCCCCCCchhhHHHHHHhhchhhhhh
Q 008892 398 SQSQYSTTKFTEEFDFEAMNEKFKKDEVWG 427 (549)
Q Consensus 398 ~~~~~~~~kf~~dFDFesaN~kFnK~ei~~ 427 (549)
..+||++++|.+..|.+.|.+.+|..++.+
T Consensus 43 ~~kG~afV~f~~~~~a~~Ai~~l~g~~~~g 72 (90)
T 3p5t_L 43 QSKGFALVGVGSEASSKKLMDLLPKRELHG 72 (90)
T ss_dssp CEEEEEEECC-CHHHHHHHHHHGGGSCSSS
T ss_pred ccCcEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence 357999999999999999999999877653
No 46
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A
Probab=25.94 E-value=19 Score=30.75 Aligned_cols=31 Identities=16% Similarity=0.112 Sum_probs=27.2
Q ss_pred ccccCCCCCCchhhHHHHHHhhchhhhhhcc
Q 008892 399 QSQYSTTKFTEEFDFEAMNEKFKKDEVWGYL 429 (549)
Q Consensus 399 ~~~~~~~kf~~dFDFesaN~kFnK~ei~~~l 429 (549)
.+||++++|++..|.+.|.+++|..++.+..
T Consensus 66 ~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~ 96 (111)
T 2jvr_A 66 FDGTGALEFPSEEILVEALERLNNIEFRGSV 96 (111)
T ss_dssp SSCCEEEEESSHHHHHHHHHHTTTEEETTEE
T ss_pred CCCEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence 5799999999999999999999988876443
No 47
>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=21.19 E-value=31 Score=27.52 Aligned_cols=30 Identities=13% Similarity=0.087 Sum_probs=25.9
Q ss_pred cccccCCCCCCchhhHHHHHHhhchhhhhh
Q 008892 398 SQSQYSTTKFTEEFDFEAMNEKFKKDEVWG 427 (549)
Q Consensus 398 ~~~~~~~~kf~~dFDFesaN~kFnK~ei~~ 427 (549)
..++|++++|.+..|.+.|.+++|..++.+
T Consensus 52 ~~~g~afV~f~~~~~A~~A~~~l~g~~~~g 81 (102)
T 1x5s_A 52 RSRGFGFVTFENIDDAKDAMMAMNGKSVDG 81 (102)
T ss_dssp SCCSEEEEECSSHHHHHHHHHHHTTCCTTS
T ss_pred CcccEEEEEECCHHHHHHHHHHhCCCEECC
Confidence 367899999999999999999998776643
No 48
>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=20.33 E-value=39 Score=26.95 Aligned_cols=32 Identities=19% Similarity=0.176 Sum_probs=27.3
Q ss_pred ccccccCCCCCCchhhHHHHHHhhchhhhhhc
Q 008892 397 QSQSQYSTTKFTEEFDFEAMNEKFKKDEVWGY 428 (549)
Q Consensus 397 ~~~~~~~~~kf~~dFDFesaN~kFnK~ei~~~ 428 (549)
...++|++++|.+..|.+.|.+.+|..++.++
T Consensus 50 g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~ 81 (101)
T 2fc9_A 50 GKSKGYAFIEFASFEDAKEALNSCNKREIEGR 81 (101)
T ss_dssp SCBCSEEEEECSSHHHHHHHHHHTSSEEETTE
T ss_pred CCEeeEEEEEECCHHHHHHHHHHhCCCEeCCe
Confidence 34789999999999999999999998776543
No 49
>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=20.31 E-value=34 Score=27.32 Aligned_cols=31 Identities=16% Similarity=0.305 Sum_probs=26.8
Q ss_pred cccccCCCCCCchhhHHHHHHhhchhhhhhc
Q 008892 398 SQSQYSTTKFTEEFDFEAMNEKFKKDEVWGY 428 (549)
Q Consensus 398 ~~~~~~~~kf~~dFDFesaN~kFnK~ei~~~ 428 (549)
..++|++++|.+..|.+.|.+.+|...+.+.
T Consensus 52 ~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~ 82 (102)
T 2cqb_A 52 KHRGFAFVEFELAEDAAAAIDNMNESELFGR 82 (102)
T ss_dssp CCSSEEEECCSSHHHHHHHHHHHTTEEETTE
T ss_pred CcceEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence 4689999999999999999999988776544
No 50
>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=20.27 E-value=26 Score=28.05 Aligned_cols=31 Identities=26% Similarity=0.347 Sum_probs=26.4
Q ss_pred cccccCCCCCCchhhHHHHHHhhchhhhhhc
Q 008892 398 SQSQYSTTKFTEEFDFEAMNEKFKKDEVWGY 428 (549)
Q Consensus 398 ~~~~~~~~kf~~dFDFesaN~kFnK~ei~~~ 428 (549)
..++|++++|.+..|.+.|.+.+|..++.+.
T Consensus 52 ~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~ 82 (102)
T 2fc8_A 52 SSKGFGFVDFNSEEDAKAAKEAMEDGEIDGN 82 (102)
T ss_dssp SEEEEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred CcCcEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence 3579999999999999999999988776543
No 51
>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A
Probab=20.18 E-value=27 Score=29.13 Aligned_cols=26 Identities=12% Similarity=0.144 Sum_probs=23.6
Q ss_pred ccCCCCCCchhhHHHHHHhhchhhhh
Q 008892 401 QYSTTKFTEEFDFEAMNEKFKKDEVW 426 (549)
Q Consensus 401 ~~~~~kf~~dFDFesaN~kFnK~ei~ 426 (549)
+|++++|++..|.+.|.+++|..++.
T Consensus 52 g~afV~f~~~~~a~~Ai~~l~g~~~~ 77 (115)
T 3beg_B 52 GTGVVEFVRKEDMTYAVRKLDNTKFR 77 (115)
T ss_dssp SEEEEEESSHHHHHHHHHHHTTCBCC
T ss_pred CEEEEEECCHHHHHHHHHHhCCCEEC
Confidence 99999999999999999999876664
Done!