Query psy488
Match_columns 86
No_of_seqs 45 out of 47
Neff 3.9
Searched_HMMs 29240
Date Fri Aug 16 20:10:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy488.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/488hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1y96_B Gemin7, SIP3, GEM-assoc 100.0 1.8E-44 6.2E-49 239.3 8.5 81 5-86 3-83 (85)
2 1m5q_A SMAP3, small nuclear ri 96.5 0.0078 2.7E-07 41.3 6.5 63 22-85 1-63 (130)
3 1i4k_A Putative snRNP SM-like 96.5 0.008 2.7E-07 36.7 5.8 61 23-85 6-71 (77)
4 1d3b_A Protein (small nuclear 96.5 0.011 3.6E-07 36.5 6.4 62 22-85 6-72 (75)
5 1h64_1 SnRNP SM-like protein; 96.5 0.0098 3.3E-07 36.2 6.1 62 22-85 5-71 (75)
6 2y9a_D Small nuclear ribonucle 96.4 0.014 4.9E-07 39.8 7.0 63 22-86 6-73 (126)
7 1b34_A Protein (small nuclear 96.2 0.018 6.1E-07 38.5 6.8 63 22-86 3-70 (119)
8 4emk_B U6 snRNA-associated SM- 96.2 0.01 3.4E-07 36.4 5.1 61 23-85 6-71 (75)
9 3s6n_F Small nuclear ribonucle 96.2 0.014 4.9E-07 36.9 5.9 61 23-85 8-73 (86)
10 4emh_A Probable U6 snRNA-assoc 96.0 0.011 3.7E-07 39.2 5.0 62 22-85 17-84 (105)
11 3bw1_A SMX4 protein, U6 snRNA- 96.0 0.023 8E-07 36.5 6.2 63 21-85 10-84 (96)
12 1th7_A SnRNP-2, small nuclear 95.8 0.032 1.1E-06 34.5 6.1 63 21-85 9-76 (81)
13 1n9r_A SMF, small nuclear ribo 95.7 0.017 5.8E-07 37.3 4.8 67 17-85 17-89 (93)
14 1ljo_A Archaeal SM-like protei 95.7 0.034 1.2E-06 34.0 5.8 61 23-85 7-73 (77)
15 3s6n_G Small nuclear ribonucle 95.6 0.044 1.5E-06 33.6 6.2 60 24-85 7-71 (76)
16 1mgq_A SM-like protein; LSM, R 95.6 0.034 1.2E-06 34.6 5.6 63 21-85 15-82 (83)
17 1i8f_A Putative snRNP SM-like 95.4 0.055 1.9E-06 33.5 6.1 63 21-85 11-77 (81)
18 4emk_A U6 snRNA-associated SM- 94.9 0.076 2.6E-06 34.4 6.0 61 23-85 22-88 (94)
19 1d3b_B Protein (small nuclear 94.7 0.041 1.4E-06 34.5 4.0 59 25-85 8-81 (91)
20 2fwk_A U6 snRNA-associated SM- 93.6 0.18 6.2E-06 33.5 5.8 62 22-85 29-110 (121)
21 3pgw_B SM B; protein-RNA compl 92.7 0.27 9.2E-06 37.0 6.1 60 25-86 8-82 (231)
22 4emk_C U6 snRNA-associated SM- 91.9 0.44 1.5E-05 31.6 5.8 64 20-85 22-97 (113)
23 4emg_A Probable U6 snRNA-assoc 91.0 0.42 1.4E-05 30.5 4.8 61 23-85 11-89 (93)
24 1b34_B Protein (small nuclear 89.6 1.1 3.7E-05 29.5 6.0 62 22-85 28-110 (118)
25 3s6n_E Small nuclear ribonucle 88.6 0.66 2.2E-05 29.7 4.3 61 23-85 18-88 (92)
26 1y96_A Gemin6, SIP2, GEM-assoc 88.6 0.95 3.2E-05 29.3 5.0 39 25-63 11-49 (86)
27 3rux_A BIRA bifunctional prote 67.8 7.7 0.00026 28.4 4.6 47 29-83 222-268 (270)
28 2ylb_A Protein HFQ; RNA-bindin 67.8 10 0.00034 23.6 4.5 53 18-75 9-61 (74)
29 1kq1_A HFQ, HOST factor for Q 65.9 14 0.00048 23.1 5.0 54 18-75 7-60 (77)
30 2ej9_A Putative biotin ligase; 64.3 11 0.00037 26.9 4.7 30 29-58 190-219 (237)
31 2dxu_A Biotin--[acetyl-COA-car 63.9 5 0.00017 28.8 2.9 38 18-59 178-215 (235)
32 2y90_A Protein HFQ; RNA-bindin 61.6 18 0.00062 24.0 5.1 53 18-75 9-61 (104)
33 1u1s_A HFQ protein; SM-like ba 61.1 20 0.00067 22.9 5.0 53 18-75 7-59 (82)
34 3ahu_A Protein HFQ; SM-like mo 54.3 25 0.00085 22.2 4.6 42 17-59 10-51 (78)
35 2xvs_A Tetratricopeptide repea 48.3 7.7 0.00026 27.6 1.6 39 31-70 81-121 (166)
36 3bhp_A UPF0291 protein YNZC; N 46.5 18 0.00063 21.9 2.9 21 8-28 23-43 (60)
37 3bfm_A Biotin protein ligase-l 46.5 38 0.0013 23.8 5.1 42 18-69 182-223 (235)
38 2eay_A Biotin [acetyl-COA-carb 43.1 17 0.00057 25.9 2.7 29 29-59 186-214 (233)
39 3sb2_A Protein HFQ; SM-like, R 42.3 62 0.0021 20.3 5.1 53 18-75 8-60 (79)
40 1bia_A BIRA bifunctional prote 41.1 40 0.0014 24.8 4.6 30 29-59 271-300 (321)
41 2qtx_A Uncharacterized protein 39.4 40 0.0014 20.9 3.8 32 29-60 23-54 (71)
42 4a53_A EDC3; RNA binding prote 37.2 79 0.0027 21.7 5.3 51 28-84 9-59 (125)
43 2hep_A UPF0291 protein YNZC; S 32.1 27 0.00094 22.5 2.2 21 8-28 23-43 (85)
44 2jvd_A UPF0291 protein YNZC; s 29.6 39 0.0013 20.1 2.4 20 8-27 23-42 (54)
45 3rkx_A Biotin-[acetyl-COA-carb 28.2 64 0.0022 24.0 4.0 30 29-59 277-306 (323)
46 2e6z_A Transcription elongatio 28.1 34 0.0011 19.7 1.9 42 29-70 9-52 (59)
47 3d85_C IL-23 subunit, interleu 27.6 32 0.0011 24.7 2.1 23 7-29 131-153 (178)
48 1ib8_A Conserved protein SP14. 25.5 1.2E+02 0.0042 20.5 4.8 51 25-76 98-158 (164)
49 3hfo_A SSR3341 protein; HFQ, S 21.8 1.2E+02 0.0042 18.6 3.7 44 31-76 21-64 (70)
50 2qx2_A Sex pheromone staph-CAM 20.2 86 0.0029 24.4 3.4 38 13-52 169-213 (344)
No 1
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=100.00 E-value=1.8e-44 Score=239.34 Aligned_cols=81 Identities=32% Similarity=0.606 Sum_probs=77.9
Q ss_pred cCCCcHHHHHHHHHHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCccccceeeecCceeEE
Q psy488 5 RTSSRSDEEIAAEMREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHALLRVDDIVDI 84 (86)
Q Consensus 5 ~~~~~~eQ~aRa~LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~AlLR~~DIi~~ 84 (86)
...++++|+|||+|||||||+|++|.|+||+|+|||||+|+|+|+|+|+|++||+||+|+||||++|| |+|||+|||+|
T Consensus 3 ~~~~~~~Q~aRa~LReRfLr~l~~m~~~~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e-AlLR~~Dii~~ 81 (85)
T 1y96_B 3 ESLESQEQRARAALRERYLRSLLAMVGHQVSFTLHEGVRVAAHFGATDLDVANFYVSQLQTPIGVQAE-ALLRCSDIISY 81 (85)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEECCTTCCEEE-EEEEGGGEEEE
T ss_pred cccchHHHHHHHHHHHHHHHHHHHhCCCceEEEEeCCeEEEEEEEecCcccceeEhhhcCCCcccchh-hhhhcCCEEEE
Confidence 34567999999999999999999999999999999999999999999999999999999999999999 99999999999
Q ss_pred eC
Q psy488 85 EI 86 (86)
Q Consensus 85 ~~ 86 (86)
+|
T Consensus 82 sF 83 (85)
T 1y96_B 82 TF 83 (85)
T ss_dssp EE
T ss_pred Ee
Confidence 75
No 2
>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=96.53 E-value=0.0078 Score=41.30 Aligned_cols=63 Identities=14% Similarity=0.273 Sum_probs=49.4
Q ss_pred HHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCccccceeeecCceeEEe
Q psy488 22 FLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 22 fLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~AlLR~~DIi~~~ 85 (86)
|..+|..+.|++|.+.|.++..+.|+..++| +..|+..+|-.=-.|..-...+||++-|+.+.
T Consensus 1 f~~~L~~~igk~V~V~Lk~G~~~~G~L~~~D-~~MNlvL~d~~E~~~~~lg~v~IRG~nI~~I~ 63 (130)
T 1m5q_A 1 FVAELNNLLGREVQVVLSNGEVYKGVLHAVD-NQLNIVLANASNKAGEKFNRVFIMYRYIVHID 63 (130)
T ss_dssp CHHHHHHTTTSEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEECTTCCEEEEEEECGGGEEEEE
T ss_pred ChhHHHHhCCCeEEEEECCCcEEEEEEEEEc-ccceeEEeeEEEEcCCEeceEEEeCCeEEEEE
Confidence 5678899999999999999999999999999 66777777653112332223899999998764
No 3
>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=96.49 E-value=0.008 Score=36.68 Aligned_cols=61 Identities=10% Similarity=0.192 Sum_probs=46.4
Q ss_pred HHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-CC----cCccccceeeecCceeEEe
Q psy488 23 LKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-TP----IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 23 Lr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-TP----iGv~~e~AlLR~~DIi~~~ 85 (86)
+..|.++.|++|.+.|.++..+.|++.++|. ..|+..+|-. +. -..... .++|.+-|+.+.
T Consensus 6 ~~~L~~~~~~~V~V~L~~g~~~~G~L~~~D~-~mNlvL~d~~e~~~~~~~~~lg~-v~iRG~~I~~i~ 71 (77)
T 1i4k_A 6 LDVLNRSLKSPVIVRLKGGREFRGTLDGYDI-HMNLVLLDAEEIQNGEVVRKVGS-VVIRGDTVVFVS 71 (77)
T ss_dssp HHHHHTTTTSEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEEETTEEEEEEEE-EEECGGGEEEEE
T ss_pred HHHHHHhCCCEEEEEEcCCCEEEEEEEEEcC-CCCeEEeeEEEEecCCcEeECCE-EEECCCEEEEEE
Confidence 5677888999999999999999999999994 4666666542 21 112234 899999998774
No 4
>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=96.48 E-value=0.011 Score=36.53 Aligned_cols=62 Identities=15% Similarity=0.149 Sum_probs=48.5
Q ss_pred HHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-C----CcCccccceeeecCceeEEe
Q psy488 22 FLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-T----PIGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 22 fLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-T----PiGv~~e~AlLR~~DIi~~~ 85 (86)
.+.+|.++.|++|.+.|..+.++.|+..++| +.-|+..++-. | .....++ .++|.+-|..+.
T Consensus 6 P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D-~~MNl~L~~~~e~~~~~~~~~lg~-v~IRG~nI~~i~ 72 (75)
T 1d3b_A 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAE-DNMNCQMSNITVTYRDGRVAQLEQ-VYIRGCKIRFLI 72 (75)
T ss_dssp HHHHHHHTTTSEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEEEECTTSCEEEEEE-EEECGGGEEEEE
T ss_pred HHHHHHHhCCCEEEEEECCCcEEEEEEEEEc-cceeEEEEeEEEECCCCcEEEcCe-EEEeCCEEEEEE
Confidence 4788999999999999999999999999999 55677776642 2 1122335 899999987765
No 5
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=96.47 E-value=0.0098 Score=36.21 Aligned_cols=62 Identities=10% Similarity=0.127 Sum_probs=47.0
Q ss_pred HHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeeccc-CCCcC----ccccceeeecCceeEEe
Q psy488 22 FLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNL-KTPIG----TFHEHALLRVDDIVDIE 85 (86)
Q Consensus 22 fLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L-~TPiG----v~~e~AlLR~~DIi~~~ 85 (86)
-+..|.++.|++|.+.|.++..+.|++.++| +..|+..++- ++--| .... .++|.+-|+.+.
T Consensus 5 P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~~~~~lg~-v~iRG~~I~~i~ 71 (75)
T 1h64_1 5 PLDVIHRSLDKDVLVILKKGFEFRGRLIGYD-IHLNVVLADAEMIQDGEVVKRYGK-IVIRGDNVLAIS 71 (75)
T ss_dssp HHHHHHTTTTSEEEEEETTSEEEEEEEEEEC-TTCCEEEEEEEEEETTEEEEEEEE-EEECGGGEEEEE
T ss_pred HHHHHHHHCCCEEEEEECCCCEEEEEEEEEe-CCCCeEEeeEEEEeeCCceeECCE-EEECCCEEEEEE
Confidence 4678889999999999999999999999999 4556666554 22111 1224 799999998764
No 6
>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=96.36 E-value=0.014 Score=39.78 Aligned_cols=63 Identities=16% Similarity=0.177 Sum_probs=50.6
Q ss_pred HHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-C-CcC---ccccceeeecCceeEEeC
Q psy488 22 FLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-T-PIG---TFHEHALLRVDDIVDIEI 86 (86)
Q Consensus 22 fLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-T-PiG---v~~e~AlLR~~DIi~~~~ 86 (86)
.+.+|..+.|++|.+.|..+.++.|+..++| +..|+..+|-. | +=| ..++ .+||.+-|..|.+
T Consensus 6 P~~~L~~~~gk~V~VeLknG~~~~G~L~~~D-~~MNi~L~dv~e~~~~g~~~~l~~-v~IRGnnI~~I~l 73 (126)
T 2y9a_D 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAE-DNMNCQMSNITVTYRDGRVAQLEQ-VYIRGSKIRFLIL 73 (126)
T ss_dssp SHHHHHSCSSCEEEEEESSCCEEEEEEEEEC-TTSCEEEEEEEEECTTSCCEEEEE-EEECGGGEEEEEC
T ss_pred HHHHHHHhCCCEEEEEECCCcEEEEEEEEEc-CceEEEEeeEEEEcCCCcEeeccc-EEEeCCEEEEEEc
Confidence 3678899999999999999999999999999 56788877764 2 222 3345 8999999988764
No 7
>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=96.23 E-value=0.018 Score=38.52 Aligned_cols=63 Identities=17% Similarity=0.193 Sum_probs=49.0
Q ss_pred HHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-CCc----CccccceeeecCceeEEeC
Q psy488 22 FLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-TPI----GTFHEHALLRVDDIVDIEI 86 (86)
Q Consensus 22 fLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-TPi----Gv~~e~AlLR~~DIi~~~~ 86 (86)
.+.+|..+.|++|.+.|..+.++.|+..++| +..|+..+|-+ |.- ..... .+||.+-|+.|.+
T Consensus 3 p~~~L~~~~gk~V~V~Lk~g~~~~G~L~~~D-~~MNlvL~d~~e~~~~~~~~~lg~-v~IRG~nI~~I~~ 70 (119)
T 1b34_A 3 LVRFLMKLSHETVTIELKNGTQVHGTITGVD-VSMNTHLKAVKMTLKNREPVQLET-LSIRGNNIRYFIL 70 (119)
T ss_dssp HHHHHHTCTTCEEEEEETTCCEEEEEEEEEC-TTCCEEEEEEEEECTTSCCEEEEE-EEECGGGEEEEEC
T ss_pred hHHHHHHhCCCEEEEEEcCCCEEEEEEEEEc-ccceEEeccEEEecCCCceeEcce-EEEcCCeEEEEEe
Confidence 5788999999999999999999999999999 45677766653 211 12234 8999999988753
No 8
>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=96.21 E-value=0.01 Score=36.41 Aligned_cols=61 Identities=7% Similarity=0.179 Sum_probs=47.0
Q ss_pred HHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCc-----CccccceeeecCceeEEe
Q psy488 23 LKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPI-----GTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 23 Lr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPi-----Gv~~e~AlLR~~DIi~~~ 85 (86)
+.+|.++.|++|.+.|.++.++.|++.++|. ..|+..++-..-. ..... .+||.+-|+.+.
T Consensus 6 ~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~-~mNlvL~d~~e~~~~~~~~~lg~-v~iRG~~I~~i~ 71 (75)
T 4emk_B 6 NEFLNKVIGKKVLIRLSSGVDYKGILSCLDG-YMNLALERTEEYVNGKKTNVYGD-AFIRGNNVLYVS 71 (75)
T ss_dssp HHHHHHTTTSEEEEECTTSCEEEEEEEEECT-TCEEEEEEEEEEETTEEEEEEEE-EEEEGGGSSEEE
T ss_pred HHHHHHhCCCeEEEEEcCCcEEEEEEEEEcC-cceEEEccEEEEecCCcccEecE-EEEcCCeEEEEE
Confidence 5678888999999999999999999999996 5677776653321 12234 789998887663
No 9
>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=96.20 E-value=0.014 Score=36.93 Aligned_cols=61 Identities=16% Similarity=0.299 Sum_probs=48.4
Q ss_pred HHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCc-C----ccccceeeecCceeEEe
Q psy488 23 LKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPI-G----TFHEHALLRVDDIVDIE 85 (86)
Q Consensus 23 Lr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPi-G----v~~e~AlLR~~DIi~~~ 85 (86)
+.+|.++.|++|.+.|.++..+.|++.++|. ..|+..++-..-. | .... .+||.+-|+.+.
T Consensus 8 ~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~-~mNlvL~d~~e~~~g~~~~~lg~-v~IRG~nI~~i~ 73 (86)
T 3s6n_F 8 KPFLNGLTGKPVMVKLKWGMEYKGYLVSVDG-YMNMQLANTEEYIDGALSGHLGE-VLIRCNNVLYIR 73 (86)
T ss_dssp HHHHHHHTTSEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEEETTEEEEEESS-EEECGGGEEEEE
T ss_pred HHHHHHhCCCeEEEEEcCCeEEEEEEEEEcC-ceEEEEeeEEEEcCCceeeEccE-EEEeCCeEEEEE
Confidence 5677888999999999999999999999996 5677777765322 2 2235 899999998764
No 10
>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=96.04 E-value=0.011 Score=39.20 Aligned_cols=62 Identities=15% Similarity=0.292 Sum_probs=42.4
Q ss_pred HHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-CC-cC----ccccceeeecCceeEEe
Q psy488 22 FLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-TP-IG----TFHEHALLRVDDIVDIE 85 (86)
Q Consensus 22 fLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-TP-iG----v~~e~AlLR~~DIi~~~ 85 (86)
-+.+|.++.|++|.+.|.++.++.|+..++|. ..|+..++-. |. =| .... .+||.+-|..+.
T Consensus 17 p~~lL~~~igk~V~V~Lk~G~~~~G~L~~~D~-~MNlvL~d~~e~~~dg~~~~~lg~-v~IRG~nI~~I~ 84 (105)
T 4emh_A 17 PLTLLNATQGRPILVELKNGETFNGHLENCDN-YMNLTLREVIRTMPDGDKFFRLPE-CYIRGNNIKYLR 84 (105)
T ss_dssp ---------CCEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEECTTSCEEEEEEE-EEECGGGEEEEE
T ss_pred HHHHHHHhCCCEEEEEECCCCEEEEEEEEEcC-CceEEEEEEEEEccCCceeeEcCe-EEEeCCeEEEEe
Confidence 36678889999999999999999999999996 5588877754 32 22 3345 899999998775
No 11
>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=95.97 E-value=0.023 Score=36.51 Aligned_cols=63 Identities=13% Similarity=0.076 Sum_probs=47.9
Q ss_pred HHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-CC-----------cCccccceeeecCceeEEe
Q psy488 21 KFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-TP-----------IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 21 rfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-TP-----------iGv~~e~AlLR~~DIi~~~ 85 (86)
-++..|.+..|++|.+.|.++..+.|++.|+|. ..|+..++-. +. -..... .+||..-|+++.
T Consensus 10 ~p~~~L~~~i~k~V~V~Lk~gr~~~G~L~~fD~-~mNlVL~d~~E~~~~~~~~~~~~~~r~lG~-v~IRG~nVv~I~ 84 (96)
T 3bw1_A 10 TPLDLLKLNLDERVYIKLRGARTLVGTLQAFDS-HCNIVLSDAVETIYQLNNEELSESERRCEM-VFIRGDTVTLIS 84 (96)
T ss_dssp CHHHHHGGGTTSEEEEEEGGGCEEEEEEEEECT-TCCEEEEEEEEEEECCSTTCCCEEEEEEEE-EEECGGGEEEEE
T ss_pred hHHHHHHHHCCCeEEEEECCCcEEEEEEEEECC-CCcEEEcCEEEEeccccccccCcceeEcCE-EEECCCEEEEEE
Confidence 367889999999999999999999999999995 4566655532 11 111234 789999998874
No 12
>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=95.81 E-value=0.032 Score=34.48 Aligned_cols=63 Identities=8% Similarity=0.101 Sum_probs=48.1
Q ss_pred HHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-CC----cCccccceeeecCceeEEe
Q psy488 21 KFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-TP----IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 21 rfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-TP----iGv~~e~AlLR~~DIi~~~ 85 (86)
.-+..|....|++|.+.|.++.++.|++.++|. ..|+..+|-. +. -..... .+||..-|+.+.
T Consensus 9 ~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~-~mNlvL~d~~e~~~~~~~~~lg~-v~iRG~~I~~i~ 76 (81)
T 1th7_A 9 TAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQ-HMNLVLSDSEEIQSDGSGKKLGT-IVIRGDNVILIS 76 (81)
T ss_dssp HHHHHHHHHTTSEEEEEETTTEEEEEEEEEECT-TCCEEEEEEEEECSSSCEEEEEE-EEECGGGEEEEE
T ss_pred chHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcC-CCCEEEccEEEEecCCceeECCE-EEECCCEEEEEE
Confidence 456788888999999999999999999999995 4566666542 21 122334 899999998774
No 13
>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=95.75 E-value=0.017 Score=37.25 Aligned_cols=67 Identities=12% Similarity=0.142 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHhcCCCceEEEeecC-cEEEEEEeeecCCcceeeecccC-CC----cCccccceeeecCceeEEe
Q psy488 17 EMREKFLKAMSSLSGQPCTINMFER-TVVTAEFQGTNSDLTEFYVRNLK-TP----IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 17 ~LRerfLr~l~~~~gk~v~f~m~E~-t~V~a~F~a~d~d~~~f~Vs~L~-TP----iGv~~e~AlLR~~DIi~~~ 85 (86)
+....-+.+|.++.|++|.+.|.++ .++.|+..++| +..|+..++-. +. ...... .+||.+-|+.+.
T Consensus 17 ~~~~~P~~~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D-~~MNlvL~d~~E~~~~~~~~~lg~-v~IRG~nI~~I~ 89 (93)
T 1n9r_A 17 MQPVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTD-NYFNLQLNEAEEFVAGVSHGTLGE-IFIRCNNVLYIR 89 (93)
T ss_dssp ---------CGGGTTSEEEEEESSTTEEEEEEEEECC-TTTCEEEEEEEEEETTEEEEECCS-EEECGGGEEEEE
T ss_pred cccCChHHHHHHhCCCEEEEEEcCCCEEEEEEEEEEc-cccEEEEeeEEEEcCCCeEeEcCE-EEEcCCeEEEEE
Confidence 3345667888899999999999999 99999999999 55677666553 21 112335 899999998764
No 14
>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=95.68 E-value=0.034 Score=33.95 Aligned_cols=61 Identities=20% Similarity=0.387 Sum_probs=46.7
Q ss_pred HHHHHhcCCCceEEEeecC-cEEEEEEeeecCCcceeeecccC-CC----cCccccceeeecCceeEEe
Q psy488 23 LKAMSSLSGQPCTINMFER-TVVTAEFQGTNSDLTEFYVRNLK-TP----IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 23 Lr~l~~~~gk~v~f~m~E~-t~V~a~F~a~d~d~~~f~Vs~L~-TP----iGv~~e~AlLR~~DIi~~~ 85 (86)
+.+|.++.|+++.+.|.++ .++.|++.++| +..|+..++-. +. -..... .+||.+-|+.+.
T Consensus 7 ~~~L~~~~~~~v~V~lk~g~~~~~G~L~~~D-~~mNlvL~d~~e~~~~~~~~~lg~-v~iRG~nI~~i~ 73 (77)
T 1ljo_A 7 NQMVKSMVGKIIRVEMKGEENQLVGKLEGVD-DYMNLYLTNAMECKGEEKVRSLGE-IVLRGNNVVLIQ 73 (77)
T ss_dssp HHHHHHTTTSEEEEEETTCSSEEEEEEEEEC-TTCCEEEEEEEEEETTEEEEEEEE-EEECGGGEEEEE
T ss_pred HHHHHHHCCCEEEEEEeCCCEEEEEEEEEEC-CcceEEEeeEEEEecCCcEeECCe-EEEeCCeEEEEE
Confidence 5678889999999999999 99999999999 55676666652 11 111234 789999998764
No 15
>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=95.63 E-value=0.044 Score=33.61 Aligned_cols=60 Identities=8% Similarity=0.192 Sum_probs=40.5
Q ss_pred HHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-CC----cCccccceeeecCceeEEe
Q psy488 24 KAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-TP----IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 24 r~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-TP----iGv~~e~AlLR~~DIi~~~ 85 (86)
.+|.++.|+++.+.|.++..+.|++.++|. ..|+..++-. +. -..... .++|.+-|+.+.
T Consensus 7 ~~L~~~~~k~V~V~Lk~gr~~~G~L~~~D~-~mNlvL~~~~e~~~~~~~~~lg~-v~iRG~~I~~i~ 71 (76)
T 3s6n_G 7 PELKKFMDKKLSLKLNGGRHVQGILRGFDP-FMNLVIDECVEMATSGQQNNIGM-VVIRGNSIIMLE 71 (76)
T ss_dssp -------CCEEEEEETTTEEEEEEEEEECT-TCCEEEEEEEECCCC----CBSS-EEECSSSEEEEE
T ss_pred HHHHHhCCCeEEEEECCCcEEEEEEEEECC-cceEEEeceEEEccCCcEeEcCE-EEECCCeEEEEE
Confidence 456778899999999999999999999994 6677766642 11 122235 899999998875
No 16
>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=95.56 E-value=0.034 Score=34.62 Aligned_cols=63 Identities=16% Similarity=0.209 Sum_probs=47.4
Q ss_pred HHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-CC----cCccccceeeecCceeEEe
Q psy488 21 KFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-TP----IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 21 rfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-TP----iGv~~e~AlLR~~DIi~~~ 85 (86)
.-+.+|..+.|++|.+.|.++..+.|++.++|. ..|+..+|-. +. -..... .++|.+-|+.+.
T Consensus 15 ~P~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~-~mNlvL~d~~e~~~~~~~~~lg~-v~IRG~~I~~i~ 82 (83)
T 1mgq_A 15 RPLDALGNSLNSPVIIKLKGDREFRGVLKSFDL-HMNLVLNDAEELEDGEVTRRLGT-VLIRGDNIVYIS 82 (83)
T ss_dssp CTTHHHHHTTTSEEEEEETTTEEEEEEEEEECT-TCCEEEEEEEEEETTEEEEEEEE-EEECGGGEEEEE
T ss_pred ChHHHHHHhCCCEEEEEEcCCcEEEEEEEEECC-CceeEEccEEEEecCCcccCCCE-EEECCCEEEEEE
Confidence 345677888899999999999999999999994 5677666642 21 112234 799999998764
No 17
>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=95.39 E-value=0.055 Score=33.48 Aligned_cols=63 Identities=5% Similarity=0.134 Sum_probs=47.3
Q ss_pred HHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-C---CcCccccceeeecCceeEEe
Q psy488 21 KFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-T---PIGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 21 rfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-T---PiGv~~e~AlLR~~DIi~~~ 85 (86)
.-+..|....|++|.+.|.++..+.|++.++|. ..|+..+|-. + .-..... .+||..-|+.+.
T Consensus 11 ~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~-~mNlvL~d~~e~~~~~~~~lg~-v~iRG~~I~~i~ 77 (81)
T 1i8f_A 11 TLGATLQDSIGKQVLVKLRDSHEIRGILRSFDQ-HVNLLLEDAEEIIDGNVYKRGT-MVVRGENVLFIS 77 (81)
T ss_dssp CHHHHHHTTTTSEEEEEEGGGEEEEEEEEEECT-TCCEEEEEEEEEETTEEEEEEE-EEECGGGEEEEE
T ss_pred chHHHHHHHCCCeEEEEEcCCcEEEEEEEEEcC-CCeeEEccEEEEcCCcccCCCE-EEECCCEEEEEE
Confidence 456778888999999999999999999999994 4566665542 2 1111234 799999998774
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=94.94 E-value=0.076 Score=34.43 Aligned_cols=61 Identities=13% Similarity=0.175 Sum_probs=45.9
Q ss_pred HHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-----CC-cCccccceeeecCceeEEe
Q psy488 23 LKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-----TP-IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 23 Lr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-----TP-iGv~~e~AlLR~~DIi~~~ 85 (86)
|.+|.+..|++|.+.|.++.++.|++.++|. ..|+..+|-+ +. -..... .+||.+-|+.+.
T Consensus 22 l~lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~-~mNlvL~d~~E~~~~~~~~~~lg~-v~IRG~nI~~i~ 88 (94)
T 4emk_A 22 LELIDKCIGSNLWVIMKSEREFAGTLVGFDD-YVNIVLKDVTEYDTVTGVTEKHSE-MLLNGNGMCMLI 88 (94)
T ss_dssp HHHHHHTTTSEEEEEESSSEEEEEEEEEECT-TCCEEEEEEEEEETTTCCEEEEEE-EEECSTTEEEEE
T ss_pred HHHHHHHcCCeEEEEECCCcEEEEEEEEEcc-cCCeEeeeEEEEecCCCcEeEcCE-EEEcCCEEEEEE
Confidence 5778889999999999999999999999995 5566655531 11 112234 899999988763
No 19
>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=94.66 E-value=0.041 Score=34.51 Aligned_cols=59 Identities=10% Similarity=0.115 Sum_probs=43.8
Q ss_pred HHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCC---C--------cC----ccccceeeecCceeEEe
Q psy488 25 AMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKT---P--------IG----TFHEHALLRVDDIVDIE 85 (86)
Q Consensus 25 ~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~T---P--------iG----v~~e~AlLR~~DIi~~~ 85 (86)
.|.++.|++|.+.|.++..+.|++.|+|. ..|+..++-.- . -+ .... .+||..-|+++.
T Consensus 8 ~L~~~~~k~V~V~l~~gr~~~G~L~~~D~-~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~-v~iRG~~I~~i~ 81 (91)
T 1d3b_B 8 KMLQHIDYRMRCILQDGRIFIGTFKAFDK-HMNLILCDCDEFRKIKPKNSKQAEREEKRVLGL-VLLRGENLVSMT 81 (91)
T ss_dssp CCGGGTTSEEEEEETTCCEEEEEEEECCT-TCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEE-EEECGGGEEEEE
T ss_pred HHHHHcCCcEEEEECCCeEEEEEEEEECC-CCeEEecCEEEEeeccccccccccCccEeECCE-EEECCCeEEEEE
Confidence 35678899999999999999999999995 45666655321 1 11 1234 789999998875
No 20
>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=93.65 E-value=0.18 Score=33.54 Aligned_cols=62 Identities=10% Similarity=0.141 Sum_probs=46.1
Q ss_pred HHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC-C----------CcC---------ccccceeeecCce
Q psy488 22 FLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-T----------PIG---------TFHEHALLRVDDI 81 (86)
Q Consensus 22 fLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-T----------PiG---------v~~e~AlLR~~DI 81 (86)
=|.+|....|++|.+.|.++..+.|++.|+| ...|+..++-+ + |-| .... .+||..-|
T Consensus 29 Pl~lL~~~l~k~V~V~Lk~Gr~~~G~L~~fD-~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~-v~IRG~nV 106 (121)
T 2fwk_A 29 PLALIDKCIGNRIYVVMKGDKEFSGVLRGFD-EYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLET-ILLSGNNV 106 (121)
T ss_dssp HHHHHHHTBTSBCEEEETTTEEECCEEEEEC-TTCCEEEESCCEEEC---------------CEECCCCSE-EEECGGGE
T ss_pred cHHHHHHHcCCeEEEEECCCcEEEEEEEEEc-ccCCeEeceEEEEEeccccccccccCcccccccceEcce-EEECCCEE
Confidence 4677788899999999999999999999999 44566655542 1 112 2234 79999999
Q ss_pred eEEe
Q psy488 82 VDIE 85 (86)
Q Consensus 82 i~~~ 85 (86)
+.+.
T Consensus 107 v~I~ 110 (121)
T 2fwk_A 107 AMLV 110 (121)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 8874
No 21
>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=92.72 E-value=0.27 Score=36.97 Aligned_cols=60 Identities=10% Similarity=0.158 Sum_probs=43.7
Q ss_pred HHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCC---------------CcCccccceeeecCceeEEeC
Q psy488 25 AMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKT---------------PIGTFHEHALLRVDDIVDIEI 86 (86)
Q Consensus 25 ~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~T---------------PiGv~~e~AlLR~~DIi~~~~ 86 (86)
.|+++.||+|.+.|.++.++.|+|+++|.. .|+..+|-+= --..... .+||...|++|.+
T Consensus 8 kL~klIdKrV~V~LkdGRel~GtLkgFDq~-MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGl-V~IRGdnIV~Isv 82 (231)
T 3pgw_B 8 KMLQHIDYRMRCILQDGRIFIGTFKAFDKH-MNLILCDCDEFRKIKPKNSKQAEREEKRVLGL-VLLRGENLVSMTV 82 (231)
T ss_pred HHHHhcCCeEEEEECCCcEEEEEEEEEccc-ccEEecCEEEEEeccCcccccccccceeEece-EEECCCcEEEEEe
Confidence 467789999999999999999999999964 4554444211 0111223 7899999998864
No 22
>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=91.90 E-value=0.44 Score=31.58 Aligned_cols=64 Identities=14% Similarity=0.207 Sum_probs=39.6
Q ss_pred HHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccC----CC--------cCccccceeeecCceeEEe
Q psy488 20 EKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK----TP--------IGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 20 erfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~----TP--------iGv~~e~AlLR~~DIi~~~ 85 (86)
...+..|.++.|++|.+.|.++..+.|++.|+|.. .|+..++-. .| -..... .+||..-|+++.
T Consensus 22 ke~i~~L~~~l~k~V~V~L~dGr~~~G~L~~fD~~-mNLVL~d~~E~~~~~~~~~~~~~~r~lG~-v~IRG~nIv~I~ 97 (113)
T 4emk_C 22 KESILDLSRYQDQRIQATFTGGRQITGILKGFDQL-MNLVLDDVEEQLRNPEDGKLTGAIRKLGL-VVVRGTTLVLIA 97 (113)
T ss_dssp ----------CCSEEEEEETTSCEEEEEEEEECTT-CCEEEEEEEEEC---------CCEEEEEE-EEECTTTEEEEE
T ss_pred cchHHHHHHHcCCcEEEEEeCCeEEEEEEEEEcCc-ccEEEeeEEEEEcCCCCcccccceeEccE-EEECCCeEEEEE
Confidence 34666778889999999999999999999999965 455544421 11 112234 789999998774
No 23
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=91.03 E-value=0.42 Score=30.49 Aligned_cols=61 Identities=7% Similarity=0.127 Sum_probs=43.8
Q ss_pred HHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCc------C------------ccccceeeecCceeEE
Q psy488 23 LKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPI------G------------TFHEHALLRVDDIVDI 84 (86)
Q Consensus 23 Lr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPi------G------------v~~e~AlLR~~DIi~~ 84 (86)
|.+|....|++|.+.|.++..+.|++.|+|. ..|+..++-.=-+ | .... .+||..-|+++
T Consensus 11 l~lL~~~~~~~V~V~l~~gr~~~G~L~~~D~-~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~-v~iRG~nVv~I 88 (93)
T 4emg_A 11 LDLVRLSLDEIVYVKLRGDRELNGRLHAYDE-HLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEM-LFVRGDSVILI 88 (93)
T ss_dssp THHHHTTTTSEEEEEETTTEEEEEEEEEECT-TCCEEEEEEEEEEC--------------CEEEEEEE-EEECGGGEEEE
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEECC-cccEEeecEEEEEeccccCCccccccccccEeEece-EEECCCeEEEE
Confidence 4566677899999999999999999999996 4566655432100 1 1223 78999998877
Q ss_pred e
Q psy488 85 E 85 (86)
Q Consensus 85 ~ 85 (86)
.
T Consensus 89 ~ 89 (93)
T 4emg_A 89 A 89 (93)
T ss_dssp E
T ss_pred E
Confidence 4
No 24
>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=89.62 E-value=1.1 Score=29.54 Aligned_cols=62 Identities=13% Similarity=0.139 Sum_probs=44.5
Q ss_pred HHHHHHhcC--CCceEEEeecCcEEEEEEeeecCCcceeeecccC-CC----cC--------------ccccceeeecCc
Q psy488 22 FLKAMSSLS--GQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLK-TP----IG--------------TFHEHALLRVDD 80 (86)
Q Consensus 22 fLr~l~~~~--gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-TP----iG--------------v~~e~AlLR~~D 80 (86)
=|.+|.... |++|.+.|.++..+.|++.|+| ...|+..+|-. +- -+ .... .+||..-
T Consensus 28 Pl~lL~~~~~~~k~V~V~Lk~gr~~~G~L~~fD-~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~-v~IRG~n 105 (118)
T 1b34_B 28 PLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFD-RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISK-MFLRGDS 105 (118)
T ss_dssp HHHHHHHHHHHTCEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEEEC-------------------CEEEEE-EEECGGG
T ss_pred hHHHHHHHhcCCcEEEEEECCCcEEEEEEEEeC-CceEEEEeCEEEEEecccccccccccccccccccCcCe-EEEcCCE
Confidence 345666665 6999999999999999999999 55666665543 21 11 1334 8999999
Q ss_pred eeEEe
Q psy488 81 IVDIE 85 (86)
Q Consensus 81 Ii~~~ 85 (86)
|+.+.
T Consensus 106 Vv~I~ 110 (118)
T 1b34_B 106 VIVVL 110 (118)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 98764
No 25
>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=88.62 E-value=0.66 Score=29.71 Aligned_cols=61 Identities=8% Similarity=0.130 Sum_probs=44.6
Q ss_pred HHHHHhcCCCceEEEe----ecCcEEEEEEeeecCCcceeeecccC-C-----CcCccccceeeecCceeEEe
Q psy488 23 LKAMSSLSGQPCTINM----FERTVVTAEFQGTNSDLTEFYVRNLK-T-----PIGTFHEHALLRVDDIVDIE 85 (86)
Q Consensus 23 Lr~l~~~~gk~v~f~m----~E~t~V~a~F~a~d~d~~~f~Vs~L~-T-----PiGv~~e~AlLR~~DIi~~~ 85 (86)
|.+|.+..++++.+.+ .++.++.|++.++|. ..|+..+|-+ + +-..... .+||..-|+.+.
T Consensus 18 l~lL~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~-~mNlvL~d~~E~~~~~~~~~~lg~-v~iRG~nV~~i~ 88 (92)
T 3s6n_E 18 INLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDE-YMNLVLDDAEEIHSKTKSRKQLGR-IMLKGDNITLLQ 88 (92)
T ss_dssp HHHHHHHHHHTCEEEEEESSSCSSEEEEEEEEECT-TCCEEEEEEEEECSSSCCEEEEEE-EEECGGGEEEEE
T ss_pred HHHHHHHhCCCEEEEEEEEecCCEEEEEEEEEEcC-cCcEEEeeeEEEecCCCceeEcCe-EEEeCCEEEEEE
Confidence 4566677788988888 899999999999995 5677666532 1 1223345 899999988764
No 26
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=88.58 E-value=0.95 Score=29.28 Aligned_cols=39 Identities=8% Similarity=-0.003 Sum_probs=36.3
Q ss_pred HHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeeccc
Q psy488 25 AMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNL 63 (86)
Q Consensus 25 ~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L 63 (86)
-|..+.||.|.+++.|+.+-+|.--++|+...++...|.
T Consensus 11 el~~li~KeV~V~l~dg~~y~G~l~tvDp~s~sIvL~n~ 49 (86)
T 1y96_A 11 EWQDYIYKEVRVTASEKNEYKGWVLTTDPVSANIVLVNF 49 (86)
T ss_dssp HHHHTTTCEEEEEETTTEEEEEEEEEECTTTCCEEEEEE
T ss_pred HHHhhcCCEEEEEEcCCCEEEEEEEEECCCceEEEEeec
Confidence 578899999999999999999999999999999888876
No 27
>3rux_A BIRA bifunctional protein; biotin-protein ligase, ligase-ligase inhibitor complex; HET: BS5; 1.70A {Mycobacterium tuberculosis} PDB: 3l1a_A 3l2z_A 2cgh_A
Probab=67.80 E-value=7.7 Score=28.39 Aligned_cols=47 Identities=11% Similarity=0.092 Sum_probs=34.6
Q ss_pred cCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCccccceeeecCceeE
Q psy488 29 LSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHALLRVDDIVD 83 (86)
Q Consensus 29 ~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~AlLR~~DIi~ 83 (86)
..|++|.+.+.++..++|++.+.|.++.-.. +|+ |-. + .+...||+.
T Consensus 222 ~~g~~V~v~~~~~~~~~G~~~gId~~G~L~v----~~~-~g~-~--~i~sGeV~~ 268 (270)
T 3rux_A 222 TIGSRVRVELPGGQDVVGIARDIDDQGRLCL----DVG-GRT-V--VVSAGDVVH 268 (270)
T ss_dssp STTSEEEEECTTSCEEEEEEEEECTTSCEEE----EET-TEE-E--EESSCEEEE
T ss_pred ccCCEEEEEECCCeEEEEEEEEECCCCeEEE----EEC-CCE-E--EEEEEEEEE
Confidence 4799999988778889999999999987654 344 222 2 356777754
No 28
>2ylb_A Protein HFQ; RNA-binding protein, LSM protein, RNA chaperone; 1.15A {Salmonella enterica subsp} PDB: 2yht_A 1hk9_A 2ylc_A* 3gib_A* 3rer_A* 3qo3_A* 3res_A*
Probab=67.79 E-value=10 Score=23.62 Aligned_cols=53 Identities=11% Similarity=0.260 Sum_probs=39.8
Q ss_pred HHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCcccccee
Q psy488 18 MREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHAL 75 (86)
Q Consensus 18 LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~Al 75 (86)
|-+.||..+.+ .+.||++.|-.+..+.|+..+.|...-... .+ -|.=++|+ ||
T Consensus 9 lQd~~L~~lrk-~k~~Vti~L~nG~~l~G~I~~fD~f~vlL~-~~--~~~LIYKh-AI 61 (74)
T 2ylb_A 9 LQDPFLNALRR-ERVPVSIYLVNGIKLQGQIESFDQFVILLK-NT--VSQMVYKH-AI 61 (74)
T ss_dssp CHHHHHHHHHH-HTCCEEEEETTSCEEEEEEEEECSSEEEEE-SS--SEEEEEGG-GE
T ss_pred cHHHHHHHHHh-cCCcEEEEEeCCCEEEEEEEEECCcEEEEE-CC--ceEEEEee-eE
Confidence 45667776643 578999999999999999999998876655 22 55556666 65
No 29
>1kq1_A HFQ, HOST factor for Q beta; hexamer, RNA binding protein, translational regulator, SM motif; 1.55A {Staphylococcus aureus} SCOP: b.38.1.2 PDB: 1kq2_A
Probab=65.92 E-value=14 Score=23.14 Aligned_cols=54 Identities=7% Similarity=0.152 Sum_probs=40.2
Q ss_pred HHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCcccccee
Q psy488 18 MREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHAL 75 (86)
Q Consensus 18 LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~Al 75 (86)
|-+.||..+-+ .+.||+|.|-.+..+.|+..+.|...-...+.. -|.=++|+ ||
T Consensus 7 lQd~fLn~lrk-~k~~VtI~L~nG~~l~G~I~~fD~f~VlL~~~g--~~qLIYKh-AI 60 (77)
T 1kq1_A 7 IQDKALENFKA-NQTEVTVFFLNGFQMKGVIEEYDKYVVSLNSQG--KQHLIYKH-AI 60 (77)
T ss_dssp HHHHHHHHHHH-HTCEEEEEETTSCEEEEEEEEECSSEEEEEETT--EEEEEEGG-GE
T ss_pred cHHHHHHHHHh-cCCeEEEEEeCCCEEEEEEEEECCcEEEEEECC--eeEEEEee-eE
Confidence 56677777644 578999999999999999999998877665532 33445555 54
No 30
>2ej9_A Putative biotin ligase; biotin biosynthesis, monomer, X-RAY diffraction, structural genomics, NPPSFA; HET: BTN; 2.00A {Methanocaldococcus jannaschii}
Probab=64.26 E-value=11 Score=26.89 Aligned_cols=30 Identities=13% Similarity=0.163 Sum_probs=26.0
Q ss_pred cCCCceEEEeecCcEEEEEEeeecCCccee
Q psy488 29 LSGQPCTINMFERTVVTAEFQGTNSDLTEF 58 (86)
Q Consensus 29 ~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f 58 (86)
..|++|.+...++..++|++.+.|.|+.-.
T Consensus 190 ~~g~~V~v~~~~~~~~~G~~~gId~~G~L~ 219 (237)
T 2ej9_A 190 TIGKQVKILLSNNEIITGKVYDIDFDGIVL 219 (237)
T ss_dssp STTCEEEEEETTSCEEEEEEEEECSSEEEE
T ss_pred ccCCEEEEEECCCeEEEEEEEEECCCCeEE
Confidence 589999999887766999999999998765
No 31
>2dxu_A Biotin--[acetyl-COA-carboxylase] ligase; biotin biosynthesis, dimer, X-RAY diffraction, structural genomics, NPPSFA; HET: BT5; 1.28A {Pyrococcus horikoshii} PDB: 2dzc_A 2ejg_A* 2e3y_A* 2e41_A* 2e64_A 2ejf_A* 2zgw_A* 1wqw_A* 1wpy_A* 1wq7_A 1wnl_A* 1x01_A* 2dkg_A* 2dth_A* 2dti_A* 2dto_A* 2fyk_A* 2djz_A* 2hni_A 2e10_A ...
Probab=63.88 E-value=5 Score=28.76 Aligned_cols=38 Identities=8% Similarity=-0.157 Sum_probs=26.2
Q ss_pred HHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceee
Q psy488 18 MREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFY 59 (86)
Q Consensus 18 LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~ 59 (86)
++++|.+.+. .|++|.+...++ ++|++.+.|.|+.-..
T Consensus 178 ~~~~~~~~~~--~g~~V~v~~~~~--~~G~~~gId~~G~L~v 215 (235)
T 2dxu_A 178 ILNLVRDNMI--LGVRVKILGDGS--FEGIAEDIDDFGRLII 215 (235)
T ss_dssp HHHHHHHHBC--CSSEEEC----C--CEEEEEEECTTSCEEE
T ss_pred HHHHHHHhcc--cCCeEEEEECCe--EEEEEEEECCCCEEEE
Confidence 4555554443 799999988776 9999999999987653
No 32
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=61.61 E-value=18 Score=24.04 Aligned_cols=53 Identities=11% Similarity=0.260 Sum_probs=39.7
Q ss_pred HHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCcccccee
Q psy488 18 MREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHAL 75 (86)
Q Consensus 18 LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~Al 75 (86)
|-+.||..+.+ ...||+|.|-.+..+.|+..++|...-.+. .. -+.=++|. ||
T Consensus 9 lQd~fLn~lrk-~k~~VtI~LvNG~~L~G~I~~fD~f~VlL~-~~--kqqLIYKH-AI 61 (104)
T 2y90_A 9 LQDPFLNALRR-ERVPVSIYLVNGIKLQGQIESFDQFVILLK-NT--VSQMVYKH-AI 61 (104)
T ss_dssp CHHHHHHHHHH-TTCCEEEEETTSCEEEEEEEEECSSEEEEE-SS--SEEEEEGG-GE
T ss_pred cHHHHHHHHHh-cCCcEEEEEeCCCEEEEEEEEECCcEEEEE-CC--ceEEEEee-ee
Confidence 55677777644 567999999999999999999998776554 22 45556666 65
No 33
>1u1s_A HFQ protein; SM-like bacterial protein, riken structural genomics/proteomics initiative, RSGI, structural genomics, RNA binding protein; 1.60A {Pseudomonas aeruginosa} SCOP: b.38.1.2 PDB: 1u1t_A 3qui_A* 3m4g_A 3inz_A
Probab=61.07 E-value=20 Score=22.93 Aligned_cols=53 Identities=9% Similarity=0.236 Sum_probs=37.0
Q ss_pred HHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCcccccee
Q psy488 18 MREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHAL 75 (86)
Q Consensus 18 LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~Al 75 (86)
|-+.||..+- -.+.||+|.|-.+..+.|...++|-..--.- += -+.-++|. ||
T Consensus 7 lQd~fLn~lr-k~~~~Vtv~L~NG~~l~G~I~~fD~ftVlL~--~~-~qqLVYKH-AI 59 (82)
T 1u1s_A 7 LQDPYLNTLR-KERVPVSIYLVNGIKLQGQIESFDQFVILLK--NT-VSQMVYKH-AI 59 (82)
T ss_dssp CHHHHHHHHH-HTTCCEEEEETTSCEEEEEEEEECSSEEEEE--SS-SCEEEEGG-GE
T ss_pred hHHHHHHHHH-HcCCcEEEEEeCCcEEEEEEEEEcceEEEEe--cC-ceEEEEee-ee
Confidence 4456776653 3678999999999999999999997654433 21 33445555 54
No 34
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=54.28 E-value=25 Score=22.17 Aligned_cols=42 Identities=10% Similarity=0.204 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceee
Q psy488 17 EMREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFY 59 (86)
Q Consensus 17 ~LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~ 59 (86)
-|-+.||..+- -.+.||+|.|-.+..+.|...++|-..--..
T Consensus 10 nlQd~fLn~lr-k~~~~Vtv~L~nG~~l~G~I~~fD~f~VlL~ 51 (78)
T 3ahu_A 10 NIQDQFLNQIR-KENTYVTVFLLNGFQLRGQVKGFDNFTVLLE 51 (78)
T ss_dssp CHHHHHHHHHH-HHTCCEEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred ChHHHHHHHHH-HcCCcEEEEEeCCeEEEEEEEEEcceEEEEE
Confidence 35677777664 3578999999999999999999997654443
No 35
>2xvs_A Tetratricopeptide repeat protein 5; antitumor protein, P53 cofactor, stress-response; 1.80A {Homo sapiens}
Probab=48.32 E-value=7.7 Score=27.61 Aligned_cols=39 Identities=23% Similarity=0.188 Sum_probs=29.4
Q ss_pred CCceEEEeecCcEEEEEEeeecCCcceeeec--ccCCCcCcc
Q psy488 31 GQPCTINMFERTVVTAEFQGTNSDLTEFYVR--NLKTPIGTF 70 (86)
Q Consensus 31 gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs--~L~TPiGv~ 70 (86)
||-+-+-.||++ |.-.|..+|.++++|.|+ ||.--+|+.
T Consensus 81 gKVv~~i~~e~~-vP~~f~~vD~~g~c~avsVYNl~~~~G~~ 121 (166)
T 2xvs_A 81 GKVVFSLTTEEK-VPFTFGLVDSDGPCYAVMVYNIVQSWGVL 121 (166)
T ss_dssp EEEEEEECCTTC-CSEEEEEESSSSCCEEEEECCCCSSCCCC
T ss_pred EEEEEEecCCCC-CceEEEEECCCCCEEEEEEEeccCCcceE
Confidence 455556666666 889999999999999987 666666543
No 36
>3bhp_A UPF0291 protein YNZC; NESG, SR384, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; 2.01A {Bacillus subtilis}
Probab=46.54 E-value=18 Score=21.90 Aligned_cols=21 Identities=19% Similarity=0.491 Sum_probs=16.2
Q ss_pred CcHHHHHHHHHHHHHHHHHHh
Q psy488 8 SRSDEEIAAEMREKFLKAMSS 28 (86)
Q Consensus 8 ~~~eQ~aRa~LRerfLr~l~~ 28 (86)
..+|..=|+.||+.||..+-+
T Consensus 23 T~eEk~EQ~~LR~eYl~~fR~ 43 (60)
T 3bhp_A 23 TEEEKAEQQKLRQEYLKGFRS 43 (60)
T ss_dssp CHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHH
Confidence 346677788999999987654
No 37
>3bfm_A Biotin protein ligase-like protein of unknown FUN; structural genomics, joint center for structural genomics, J protein structure initiative; HET: 2PE; 1.70A {Silicibacter SP}
Probab=46.48 E-value=38 Score=23.78 Aligned_cols=42 Identities=14% Similarity=0.192 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCc
Q psy488 18 MREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGT 69 (86)
Q Consensus 18 LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv 69 (86)
++++|.+.+ ...|++|.+ ++ ++|++.+.|.++.-.. +|+=|.
T Consensus 182 ~~~~~~~~~-~~~g~~V~v---~~--~~G~~~gId~~G~L~v----~~~~G~ 223 (235)
T 3bfm_A 182 IHGEWRGLA-HGMGEARTE---AG--RSGTFLGVDEDFGMLL----RDETTT 223 (235)
T ss_dssp HHHHHHHHB-TTTTSEEEE---TT--EEEEEEEECTTCCEEE----ECSSCE
T ss_pred HHHHHHHHH-hhcCCEEEE---Ee--EEEEEEEECCCCeEEE----EeCCCe
Confidence 344443332 357999999 33 9999999999988763 455453
No 38
>2eay_A Biotin [acetyl-COA-carboxylase] ligase; biotin biosynthesis, dimer, X-RAY diffraction, structural genomics, NPPSFA; 1.95A {Aquifex aeolicus} PDB: 3efs_A* 3fjp_A 3efr_A*
Probab=43.14 E-value=17 Score=25.85 Aligned_cols=29 Identities=10% Similarity=0.124 Sum_probs=24.3
Q ss_pred cCCCceEEEeecCcEEEEEEeeecCCcceee
Q psy488 29 LSGQPCTINMFERTVVTAEFQGTNSDLTEFY 59 (86)
Q Consensus 29 ~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~ 59 (86)
..|++|.+...++ ++|++.+.|.|+.-..
T Consensus 186 ~~g~~V~v~~~~~--~~G~~~gId~~G~L~v 214 (233)
T 2eay_A 186 YLGEEVKLLGEGK--ITGKLVGLSEKGGALI 214 (233)
T ss_dssp TTTSEEEETTEEE--EEEEEEEECTTSCEEE
T ss_pred ccCCEEEEEECCe--EEEEEEEECCCCeEEE
Confidence 4799999987665 9999999999987654
No 39
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=42.27 E-value=62 Score=20.32 Aligned_cols=53 Identities=11% Similarity=0.260 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCcccccee
Q psy488 18 MREKFLKAMSSLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHAL 75 (86)
Q Consensus 18 LRerfLr~l~~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~Al 75 (86)
|-+.||..+-+ ...||++.|-.+..+.|+..+.|...-... .. -+.=++|+ ||
T Consensus 8 lQd~fLn~lrk-~k~~VtI~LvnG~~L~G~I~~fD~f~VlL~-~g--~~qLIYKh-AI 60 (79)
T 3sb2_A 8 LQDPFLNALRK-EHVPVSIYLVNGIKLQGHVESFDQYVVLLR-NT--VTQMVYKH-AI 60 (79)
T ss_dssp THHHHHHHHHH-TTCCEEEEETTSCEEEEEEEEECSSEEEEE-SS--SEEEEEGG-GE
T ss_pred hHHHHHHHHHh-cCCeEEEEEeCCCEEEEEEEEECCcEEEEE-CC--ceEEEEee-eE
Confidence 45667776654 577999999999999999999998876662 22 24445655 65
No 40
>1bia_A BIRA bifunctional protein; transcription regulation; 2.30A {Escherichia coli} SCOP: a.4.5.1 b.34.1.1 d.104.1.2 PDB: 1bib_A* 1hxd_A* 2ewn_A*
Probab=41.09 E-value=40 Score=24.77 Aligned_cols=30 Identities=7% Similarity=0.113 Sum_probs=24.7
Q ss_pred cCCCceEEEeecCcEEEEEEeeecCCcceee
Q psy488 29 LSGQPCTINMFERTVVTAEFQGTNSDLTEFY 59 (86)
Q Consensus 29 ~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~ 59 (86)
..|++|.+...+ ..+.|++.+.|.++.-..
T Consensus 271 ~~g~~V~v~~~~-~~~~G~~~gid~~G~L~v 300 (321)
T 1bia_A 271 FINRPVKLIIGD-KEIFGISRGIDKQGALLL 300 (321)
T ss_dssp TTTSEEEEEETT-EEEEEEEEEECTTSCEEE
T ss_pred hcCCEEEEEECC-cEEEEEEEEECCCCeEEE
Confidence 479999998654 479999999999987653
No 41
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=39.45 E-value=40 Score=20.85 Aligned_cols=32 Identities=25% Similarity=0.269 Sum_probs=26.5
Q ss_pred cCCCceEEEeecCcEEEEEEeeecCCcceeee
Q psy488 29 LSGQPCTINMFERTVVTAEFQGTNSDLTEFYV 60 (86)
Q Consensus 29 ~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~V 60 (86)
-.+.||++.|-.+..+.|+..++|...--.-+
T Consensus 23 ~~~~~Vtv~L~NG~~l~G~I~~fD~ftVll~~ 54 (71)
T 2qtx_A 23 LNGKKVKIFLRNGEVLDAEVTGVSNYEIMVKV 54 (71)
T ss_dssp GTTCEEEEEETTSCEEEEEEEEECSSEEEEEE
T ss_pred HcCCcEEEEEeCCeEEEEEEEEEcceEEEEEe
Confidence 46789999999999999999999976544433
No 42
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=37.23 E-value=79 Score=21.67 Aligned_cols=51 Identities=12% Similarity=0.138 Sum_probs=39.0
Q ss_pred hcCCCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCccccceeeecCceeEE
Q psy488 28 SLSGQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHALLRVDDIVDI 84 (86)
Q Consensus 28 ~~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~AlLR~~DIi~~ 84 (86)
.-.|-.|.++|.+++...|+.-.+|....-.+.++--++.. -++.+||-.+
T Consensus 9 qFlGy~V~v~LkDgs~~qG~I~~vd~k~LtL~~~~a~~s~~------~I~asdI~DL 59 (125)
T 4a53_A 9 DFYGSNVEVLLNNDSKARGVITNFDSSNSILQLRLANDSTK------SIVTKDIKDL 59 (125)
T ss_dssp HHTTCEEEEEETTSCEEEEEEEEEETTTTEEEEEETTTEEE------EEEGGGEEEE
T ss_pred HhcCceEEEEECCCCEeeEEEEeecCCeeEEeccccccccc------eeecccccce
Confidence 34688999999999999999999887777776687755444 5667776443
No 43
>2hep_A UPF0291 protein YNZC; SR384, structure, autostructure, northeast structural genomics consortium, PSI-1, protein structure initiative, NESG; NMR {Bacillus subtilis} SCOP: a.2.21.1
Probab=32.09 E-value=27 Score=22.47 Aligned_cols=21 Identities=19% Similarity=0.491 Sum_probs=15.9
Q ss_pred CcHHHHHHHHHHHHHHHHHHh
Q psy488 8 SRSDEEIAAEMREKFLKAMSS 28 (86)
Q Consensus 8 ~~~eQ~aRa~LRerfLr~l~~ 28 (86)
..+|..=|+.||+.||..+-+
T Consensus 23 T~eEk~EQ~~LR~eYl~~fR~ 43 (85)
T 2hep_A 23 TEEEKAEQQKLRQEYLKGFRS 43 (85)
T ss_dssp CHHHHHHHHHHHHHHHHHCC-
T ss_pred CHHHHHHHHHHHHHHHHHHHH
Confidence 346677788999999987654
No 44
>2jvd_A UPF0291 protein YNZC; solution structure, construct optimization, cytoplasm, structural genomics, unknown function, PSI-2; NMR {Bacillus subtilis}
Probab=29.57 E-value=39 Score=20.06 Aligned_cols=20 Identities=15% Similarity=0.479 Sum_probs=15.1
Q ss_pred CcHHHHHHHHHHHHHHHHHH
Q psy488 8 SRSDEEIAAEMREKFLKAMS 27 (86)
Q Consensus 8 ~~~eQ~aRa~LRerfLr~l~ 27 (86)
..+|..=|+.||+.||..+-
T Consensus 23 T~eEk~EQ~~LR~eYl~~fR 42 (54)
T 2jvd_A 23 TEEEKAEQQKLRQEYLKGFR 42 (54)
T ss_dssp CHHHHHHHHHHHHHHHTTCC
T ss_pred CHHHHHHHHHHHHHHHHHHH
Confidence 34667778899999997653
No 45
>3rkx_A Biotin-[acetyl-COA-carboxylase] ligase; biotin protein ligase, 3 domains, enzyme DNA binding, biotin coupling domains; 2.10A {Staphylococcus aureus} PDB: 3rir_A* 3rkw_A 3rky_A* 3v7c_A* 3v7s_A* 3v8j_A 3v7r_A 3v8k_A* 3v8l_A* 4dq2_A*
Probab=28.21 E-value=64 Score=23.98 Aligned_cols=30 Identities=3% Similarity=-0.117 Sum_probs=24.0
Q ss_pred cCCCceEEEeecCcEEEEEEeeecCCcceee
Q psy488 29 LSGQPCTINMFERTVVTAEFQGTNSDLTEFY 59 (86)
Q Consensus 29 ~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~ 59 (86)
..|++|.+...+ ..++|++.+.|.++.-..
T Consensus 277 ~~g~~V~v~~~~-~~~~G~~~gId~~G~Llv 306 (323)
T 3rkx_A 277 IWNRTLLFTEND-KQFKGQAIDLDYDGYLIV 306 (323)
T ss_dssp CSSSCEEEECC--CEEEEEEEEECTTSCEEE
T ss_pred hcCCEEEEEECC-eEEEEEEEEECCCCEEEE
Confidence 479999998654 569999999999987653
No 46
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=28.07 E-value=34 Score=19.72 Aligned_cols=42 Identities=10% Similarity=0.066 Sum_probs=32.2
Q ss_pred cCCCceEEEeecCcEEEEEEeeecCCcceeeec--ccCCCcCcc
Q psy488 29 LSGQPCTINMFERTVVTAEFQGTNSDLTEFYVR--NLKTPIGTF 70 (86)
Q Consensus 29 ~~gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs--~L~TPiGv~ 70 (86)
..|..|++.--+=.-..|++...|.+-..+.|+ .++||+-+-
T Consensus 9 ~~GD~V~V~~Gpf~g~~G~V~evd~e~v~V~v~~fg~~tpvel~ 52 (59)
T 2e6z_A 9 QPGDNVEVCEGELINLQGKILSVDGNKITIMPKHEDLKDMLEFP 52 (59)
T ss_dssp CTTSEEEECSSTTTTCEEEECCCBTTEEEEEECCSSCCSCEEEE
T ss_pred CCCCEEEEeecCCCCCEEEEEEEeCCEEEEEEEecCCCceEEEc
Confidence 356677777666677899999999987777787 788887554
No 47
>3d85_C IL-23 subunit, interleukin-23 subunit P19; FAB, immune system/cytokine complex; 1.90A {Homo sapiens} PDB: 3d87_A* 3qwr_B* 3duh_C*
Probab=27.60 E-value=32 Score=24.74 Aligned_cols=23 Identities=22% Similarity=0.186 Sum_probs=20.2
Q ss_pred CCcHHHHHHHHHHHHHHHHHHhc
Q psy488 7 SSRSDEEIAAEMREKFLKAMSSL 29 (86)
Q Consensus 7 ~~~~eQ~aRa~LRerfLr~l~~~ 29 (86)
-++.+|+.|-.||-+.||+|++.
T Consensus 131 ~~psq~wqr~llr~kilrslqaf 153 (178)
T 3d85_C 131 LSPSQPWQRLLLRFKILRSLQAF 153 (178)
T ss_dssp CCCCCHHHHHHHHHHHHHHHHHH
T ss_pred CCCcchHHHHHHHHHHHHHHHHH
Confidence 36778999999999999999875
No 48
>1ib8_A Conserved protein SP14.3; nucleic acid binding protein, ribosomal protein, essential gene, structural genomics; NMR {Streptococcus pneumoniae} SCOP: b.38.2.1 d.52.4.1
Probab=25.47 E-value=1.2e+02 Score=20.54 Aligned_cols=51 Identities=14% Similarity=0.236 Sum_probs=34.5
Q ss_pred HHHhcCCCceEEEee----cCcEEEEEEeeecCCcceeeec------ccCCCcCccccceee
Q psy488 25 AMSSLSGQPCTINMF----ERTVVTAEFQGTNSDLTEFYVR------NLKTPIGTFHEHALL 76 (86)
Q Consensus 25 ~l~~~~gk~v~f~m~----E~t~V~a~F~a~d~d~~~f~Vs------~L~TPiGv~~e~AlL 76 (86)
-+....|+.|.+.++ .+...+|+..+.|-+.-.+.+. ...=|+.-+.. |-|
T Consensus 98 df~r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~~v~l~~~~k~~~~~~~i~~~~I~k-a~l 158 (164)
T 1ib8_A 98 AVAGAVGKYIHVGLYQAIDKQKVFEGTLLAFEEDELTMEYMDKTRKKTVQIPYSLVSK-ARL 158 (164)
T ss_dssp HHHHHCSEEEEEECSSCSSSCSEEEEEEEEEETTEEEEEEECSSCEEEEEECSSCCSS-CEE
T ss_pred HHHHhCCcEEEEEEecccCCceEEEEEEEEEeCCEEEEEEecccCCeEEEEEHHHCcE-EEE
Confidence 344568999999995 4478999999998776555543 23345555555 544
No 49
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=21.80 E-value=1.2e+02 Score=18.56 Aligned_cols=44 Identities=9% Similarity=0.064 Sum_probs=34.2
Q ss_pred CCceEEEeecCcEEEEEEeeecCCcceeeecccCCCcCccccceee
Q psy488 31 GQPCTINMFERTVVTAEFQGTNSDLTEFYVRNLKTPIGTFHEHALL 76 (86)
Q Consensus 31 gk~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~TPiGv~~e~AlL 76 (86)
..+|+|.|-.+..+.|+..--|.++....=++ .-|.=+.++ ||.
T Consensus 21 k~~V~I~L~tG~~l~G~i~WQD~~cl~L~~~~-~~~~LI~r~-AI~ 64 (70)
T 3hfo_A 21 QTPVEIKLLTGDSLFGTIRWQDTDGLGLVDDS-ERSTIVRLA-AIA 64 (70)
T ss_dssp TCEEEEEETTSCEEEEEEEEECSSEEEEECTT-CCEEEEEGG-GEE
T ss_pred CceEEEEecCCCEEEEEEEEeCCCEEEEEcCC-CCeEEEEee-eeE
Confidence 57999999999999999999999988875444 345555555 663
No 50
>2qx2_A Sex pheromone staph-CAM373; structural genomics, PSI-2, protein structure initiative, M center for structural genomics, MCSG; 1.90A {Staphylococcus aureus subsp}
Probab=20.21 E-value=86 Score=24.44 Aligned_cols=38 Identities=16% Similarity=0.323 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHhcCCCceEEEeecCcE----EEEEE--ee-ec
Q psy488 13 EIAAEMREKFLKAMSSLSGQPCTINMFERTV----VTAEF--QG-TN 52 (86)
Q Consensus 13 ~aRa~LRerfLr~l~~~~gk~v~f~m~E~t~----V~a~F--~a-~d 52 (86)
-|+..| .+||....+.+-|+.|.||.... |.|.| .| ++
T Consensus 169 ~A~~il--~~lR~~~~lk~VPI~ialY~q~~~~s~vpG~fi~~a~~~ 213 (344)
T 2qx2_A 169 MASEIL--SRLRENDDLKDIPIHFAIYKQSSEDSITPGEFITQATAE 213 (344)
T ss_dssp HHHHHH--HHHHTSGGGSSSCEEEEEEECCCTTCSSCCEEEEEEEEC
T ss_pred HHHHHH--HHHHhhcccCCCCEEEEEEecCCCCCCcCceeEEEEEec
Confidence 344344 77777767888899999998765 88899 65 44
Done!