Query 035338
Match_columns 67
No_of_seqs 109 out of 1065
Neff 6.4
Searched_HMMs 29240
Date Mon Mar 25 18:15:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035338.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/035338hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3s6n_G Small nuclear ribonucle 99.8 2.4E-20 8.2E-25 107.0 4.9 66 1-67 1-75 (76)
2 4emk_A U6 snRNA-associated SM- 99.8 6.7E-20 2.3E-24 109.5 6.6 63 5-67 24-92 (94)
3 1h64_1 SnRNP SM-like protein; 99.8 8.3E-20 2.8E-24 104.1 6.2 61 5-66 8-74 (75)
4 4emk_B U6 snRNA-associated SM- 99.8 4.5E-20 1.6E-24 105.5 4.6 65 1-66 1-74 (75)
5 1i4k_A Putative snRNP SM-like 99.8 2.1E-19 7.3E-24 102.8 6.4 61 5-66 8-74 (77)
6 3bw1_A SMX4 protein, U6 snRNA- 99.8 2.5E-19 8.6E-24 106.8 6.6 62 5-66 14-87 (96)
7 1ljo_A Archaeal SM-like protei 99.8 2.8E-19 9.7E-24 102.4 6.2 61 5-66 9-76 (77)
8 1th7_A SnRNP-2, small nuclear 99.8 5.1E-19 1.7E-23 102.3 6.0 61 5-66 13-79 (81)
9 1d3b_B Protein (small nuclear 99.8 5.9E-19 2E-23 103.7 5.8 62 5-66 8-84 (91)
10 1i8f_A Putative snRNP SM-like 99.8 8.5E-19 2.9E-23 101.5 6.2 60 5-66 15-80 (81)
11 3s6n_E Small nuclear ribonucle 99.8 3E-19 1E-23 106.2 4.3 61 6-66 21-91 (92)
12 4emk_C U6 snRNA-associated SM- 99.8 7.4E-19 2.5E-23 107.8 6.2 62 5-66 27-100 (113)
13 1n9r_A SMF, small nuclear ribo 99.8 1.1E-18 3.8E-23 103.8 6.6 61 5-66 25-92 (93)
14 3s6n_F Small nuclear ribonucle 99.8 1.1E-18 3.8E-23 102.3 6.4 61 5-66 10-76 (86)
15 1mgq_A SM-like protein; LSM, R 99.7 1.6E-18 5.6E-23 100.7 5.7 59 5-64 19-83 (83)
16 1d3b_A Protein (small nuclear 99.7 2.3E-18 7.7E-23 98.7 6.1 61 5-66 9-75 (75)
17 4emh_A Probable U6 snRNA-assoc 99.7 2E-18 6.9E-23 104.8 5.2 61 6-66 21-87 (105)
18 2fwk_A U6 snRNA-associated SM- 99.7 2.5E-18 8.6E-23 106.1 4.4 62 6-67 33-114 (121)
19 4emg_A Probable U6 snRNA-assoc 99.7 6.9E-18 2.3E-22 100.2 5.8 60 6-65 14-91 (93)
20 3pgw_B SM B; protein-RNA compl 99.7 1.1E-17 3.8E-22 113.0 7.3 62 5-66 8-84 (231)
21 1b34_A Protein (small nuclear 99.7 1.1E-17 3.9E-22 103.0 5.5 61 5-66 6-72 (119)
22 1b34_B Protein (small nuclear 99.7 3.7E-17 1.3E-21 100.4 4.5 62 6-67 32-114 (118)
23 2y9a_D Small nuclear ribonucle 99.6 1.9E-16 6.6E-21 98.7 5.5 61 5-66 9-75 (126)
24 1m5q_A SMAP3, small nuclear ri 99.6 6.9E-16 2.3E-20 96.6 3.8 57 5-66 4-66 (130)
25 1y96_A Gemin6, SIP2, GEM-assoc 96.5 0.0027 9.2E-08 37.0 3.6 56 4-66 10-72 (86)
26 3ahu_A Protein HFQ; SM-like mo 45.3 12 0.00042 20.9 1.8 25 11-35 23-53 (78)
27 2qtx_A Uncharacterized protein 44.4 12 0.00042 20.6 1.8 26 10-35 24-55 (71)
28 1u1s_A HFQ protein; SM-like ba 42.3 14 0.00049 20.9 1.8 25 11-35 19-49 (82)
29 2ylb_A Protein HFQ; RNA-bindin 35.6 22 0.00074 19.6 1.8 24 11-34 21-50 (74)
30 1kq1_A HFQ, HOST factor for Q 34.7 21 0.00073 19.8 1.8 25 11-35 19-49 (77)
31 2qs8_A XAA-Pro dipeptidase; am 33.2 49 0.0017 21.8 3.7 40 25-64 3-42 (418)
32 3mkv_A Putative amidohydrolase 32.0 43 0.0015 20.5 3.1 35 30-64 5-39 (426)
33 3sb2_A Protein HFQ; SM-like, R 30.3 28 0.00095 19.5 1.8 22 11-32 20-47 (79)
34 3feq_A Putative amidohydrolase 28.5 1.1E+02 0.0036 20.0 4.7 36 29-64 4-39 (423)
35 2c5m_A CTP synthase; cytidine 26.7 15 0.00052 25.4 0.2 37 24-60 60-111 (294)
36 2y90_A Protein HFQ; RNA-bindin 26.2 35 0.0012 20.1 1.8 25 11-35 21-51 (104)
37 2kaf_A Non-structural protein 21.7 61 0.0021 17.3 2.0 19 44-62 23-42 (67)
38 1x4r_A PARP14 protein; WWE dom 21.1 4.1 0.00014 23.9 -3.0 14 24-37 39-52 (99)
No 1
>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=99.81 E-value=2.4e-20 Score=107.02 Aligned_cols=66 Identities=23% Similarity=0.545 Sum_probs=46.4
Q ss_pred CChh---hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcCC
Q 035338 1 MAST---KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTGK 67 (67)
Q Consensus 1 ms~~---~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~~ 67 (67)
||.. .|++++++++.|.+++++. |||+|||++|+||+|+. .+++.+.+|.++|||+||++|++.|.
T Consensus 1 ms~~~~~~L~~~~~k~V~V~Lk~gr~~~G~L~~~D~~mNlvL~~~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~d~ 75 (76)
T 3s6n_G 1 MSKAHPPELKKFMDKKLSLKLNGGRHVQGILRGFDPFMNLVIDECVEMA-TSGQQNNIGMVVIRGNSIIMLEALER 75 (76)
T ss_dssp -------------CCEEEEEETTTEEEEEEEEEECTTCCEEEEEEEECC-CC----CBSSEEECSSSEEEEEC---
T ss_pred CCCcchHHHHHhCCCeEEEEECCCcEEEEEEEEECCcceEEEeceEEEc-cCCcEeEcCEEEECCCeEEEEEeccC
Confidence 5553 7999999999999999877 99999999999999985 55578899999999999999999874
No 2
>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=99.80 E-value=6.7e-20 Score=109.48 Aligned_cols=63 Identities=24% Similarity=0.519 Sum_probs=56.5
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcCC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTGK 67 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~~ 67 (67)
=|.++++++|.|.+++++. |||+||||+|+||+|+..++++.+.+|.++|||+||++|++.++
T Consensus 24 lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~~~~~~lg~v~IRG~nI~~i~p~~~ 92 (94)
T 4emk_A 24 LIDKCIGSNLWVIMKSEREFAGTLVGFDDYVNIVLKDVTEYDTVTGVTEKHSEMLLNGNGMCMLIPGGK 92 (94)
T ss_dssp HHHHTTTSEEEEEESSSEEEEEEEEEECTTCCEEEEEEEEEETTTCCEEEEEEEEECSTTEEEEEECC-
T ss_pred HHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeeeEEEEecCCCcEeEcCEEEEcCCEEEEEEeCCC
Confidence 3688999999999999877 99999999999999996456778999999999999999998764
No 3
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=99.80 E-value=8.3e-20 Score=104.14 Aligned_cols=61 Identities=28% Similarity=0.484 Sum_probs=56.0
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|++++++++.|.+++++. |||+|||++|+||+|++ .+.+.+.+|.++|||+||++|++.+
T Consensus 8 ~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~~ 74 (75)
T 1h64_1 8 VIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQ-DGEVVKRYGKIVIRGDNVLAISPTE 74 (75)
T ss_dssp HHHTTTTSEEEEEETTSEEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEEEEEEECGGGEEEEEEC-
T ss_pred HHHHHCCCEEEEEECCCCEEEEEEEEEeCCCCeEEeeEEEEe-eCCceeECCEEEECCCEEEEEEeCC
Confidence 6889999999999999877 99999999999999996 6678899999999999999999876
No 4
>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=99.80 E-value=4.5e-20 Score=105.53 Aligned_cols=65 Identities=20% Similarity=0.358 Sum_probs=58.0
Q ss_pred CChh---hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 1 MAST---KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 1 ms~~---~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
||.. .|++++++++.|.+++++. |||+|||++|+||+|+. ++++.+.+|.++|||+||++|++.|
T Consensus 1 m~~~P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~~ 74 (75)
T 4emk_B 1 MDSSPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYV-NGKKTNVYGDAFIRGNNVLYVSALD 74 (75)
T ss_dssp CCSHHHHHHHHTTTSEEEEECTTSCEEEEEEEEECTTCEEEEEEEEEEE-TTEEEEEEEEEEEEGGGSSEEEEC-
T ss_pred CCCchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCcceEEEccEEEEe-cCCcccEecEEEEcCCeEEEEEecC
Confidence 5653 6889999999999999877 99999999999999985 6777899999999999999999976
No 5
>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=99.79 E-value=2.1e-19 Score=102.76 Aligned_cols=61 Identities=26% Similarity=0.498 Sum_probs=56.4
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|++++++++.|.+++++. +||+|||++|+||+|++ .+.+.+.+|.++|||+||++|.+.+
T Consensus 8 ~L~~~~~~~V~V~L~~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~d 74 (77)
T 1i4k_A 8 VLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQ-NGEVVRKVGSVVIRGDTVVFVSPAP 74 (77)
T ss_dssp HHHTTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEEEEEEECGGGEEEEEECC
T ss_pred HHHHhCCCEEEEEEcCCCEEEEEEEEEcCCCCeEEeeEEEEe-cCCcEeECCEEEECCCEEEEEEeCC
Confidence 6889999999999999877 99999999999999996 5668889999999999999999876
No 6
>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=99.79 E-value=2.5e-19 Score=106.83 Aligned_cols=62 Identities=21% Similarity=0.386 Sum_probs=56.1
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEec------CceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIK------KNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~------~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|++++++++.|.+++++. |||+||||+|+||+|++.. +...+.+|.++|||+||++|++.+
T Consensus 14 ~L~~~i~k~V~V~Lk~gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nVv~I~~~d 87 (96)
T 3bw1_A 14 LLKLNLDERVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEELSESERRCEMVFIRGDTVTLISTPS 87 (96)
T ss_dssp HHGGGTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEEEEECCSTTCCCEEEEEEEEEEECGGGEEEEECCC
T ss_pred HHHHHCCCeEEEEECCCcEEEEEEEEECCCCcEEEcCEEEEeccccccccCcceeEcCEEEECCCEEEEEEecC
Confidence 6899999999999999888 9999999999999999753 345788999999999999999876
No 7
>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=99.78 E-value=2.8e-19 Score=102.44 Aligned_cols=61 Identities=30% Similarity=0.518 Sum_probs=55.9
Q ss_pred hhhccccCcEEEEEccc-cc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFL-QS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~-~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|.+++++++.|.++++ +. |||+|||++|+||+|++ ++++.+.+|.++|||+||++|++.|
T Consensus 9 ~L~~~~~~~v~V~lk~g~~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~nI~~i~~~d 76 (77)
T 1ljo_A 9 MVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECK-GEEKVRSLGEIVLRGNNVVLIQPQE 76 (77)
T ss_dssp HHHHTTTSEEEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEEEEEEECGGGEEEEEEC-
T ss_pred HHHHHCCCEEEEEEeCCCEEEEEEEEEECCcceEEEeeEEEEe-cCCcEeECCeEEEeCCeEEEEEeCC
Confidence 58899999999999999 66 99999999999999996 6778899999999999999999876
No 8
>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=99.77 E-value=5.1e-19 Score=102.31 Aligned_cols=61 Identities=28% Similarity=0.495 Sum_probs=55.7
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|++++++++.|.+++++. +||+|||++|+||+|++ .+++.+.+|.++|||+||++|.+.+
T Consensus 13 ~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~~ 79 (81)
T 1th7_A 13 VLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQ-SDGSGKKLGTIVIRGDNVILISPLQ 79 (81)
T ss_dssp HHHHHTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEC-SSSCEEEEEEEEECGGGEEEEEEC-
T ss_pred HHHHhCCCeEEEEEcCCcEEEEEEEEEcCCCCEEEccEEEEe-cCCceeECCEEEECCCEEEEEEecC
Confidence 6889999999999999877 99999999999999995 5667899999999999999999875
No 9
>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=99.77 E-value=5.9e-19 Score=103.72 Aligned_cols=62 Identities=29% Similarity=0.493 Sum_probs=55.3
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEe---------cCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHI---------KKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~---------~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|.+++++++.|.+++++. |||+|||++|+||+|++. .+.+.+.+|.++|||+||++|++.+
T Consensus 8 ~L~~~~~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~v~iRG~~I~~i~~~~ 84 (91)
T 1d3b_B 8 KMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEG 84 (91)
T ss_dssp CCGGGTTSEEEEEETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEEEEEEE
T ss_pred HHHHHcCCcEEEEECCCeEEEEEEEEECCCCeEEecCEEEEeeccccccccccCccEeECCEEEECCCeEEEEEcCC
Confidence 7999999999999999887 999999999999999752 2346889999999999999998764
No 10
>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=99.76 E-value=8.5e-19 Score=101.46 Aligned_cols=60 Identities=23% Similarity=0.426 Sum_probs=55.4
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|.+++++++.|.+++++. +||+|||++|+||+|+ ++++.+.+|.++|||+||++|++.+
T Consensus 15 ~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~--~~~~~~~lg~v~iRG~~I~~i~~~d 80 (81)
T 1i8f_A 15 TLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEI--IDGNVYKRGTMVVRGENVLFISPVP 80 (81)
T ss_dssp HHHTTTTSEEEEEEGGGEEEEEEEEEECTTCCEEEEEEEEE--ETTEEEEEEEEEECGGGEEEEEECC
T ss_pred HHHHHCCCeEEEEEcCCcEEEEEEEEEcCCCeeEEccEEEE--cCCcccCCCEEEECCCEEEEEEeCC
Confidence 5789999999999999877 9999999999999998 5678899999999999999999876
No 11
>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=99.76 E-value=3e-19 Score=106.22 Aligned_cols=61 Identities=52% Similarity=0.824 Sum_probs=51.0
Q ss_pred hhccccCcEEEEE----ccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 6 VQRIMTQPINLIF----RFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 6 l~~~m~~pi~v~~----~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
|.+++++++.|.+ ++++. |||+|||++|+||+|+..++++.+.+|.++|||+||++|++.+
T Consensus 21 L~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~~~~~~lg~v~iRG~nV~~i~~~~ 91 (92)
T 3s6n_E 21 IFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHSKTKSRKQLGRIMLKGDNITLLQSVS 91 (92)
T ss_dssp HHHHHHHTCEEEEEESSSCSSEEEEEEEEECTTCCEEEEEEEEECSSSCCEEEEEEEEECGGGEEEEEEC-
T ss_pred HHHHhCCCEEEEEEEEecCCEEEEEEEEEEcCcCcEEEeeeEEEecCCCceeEcCeEEEeCCEEEEEEeCC
Confidence 4566667777776 77666 9999999999999999655677889999999999999999876
No 12
>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=99.76 E-value=7.4e-19 Score=107.77 Aligned_cols=62 Identities=32% Similarity=0.498 Sum_probs=50.8
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecC------ceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKK------NTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~------~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|.++++++|.|.+++++. |||+||||||+||+|++... .+.+.+|.++|||+||++|++.|
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 DLSRYQDQRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTLVLIAPMD 100 (113)
T ss_dssp -----CCSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEC---------CCEEEEEEEEECTTTEEEEEECC
T ss_pred HHHHHcCCcEEEEEeCCeEEEEEEEEEcCcccEEEeeEEEEEcCCCCcccccceeEccEEEECCCeEEEEEecC
Confidence 5899999999999999887 99999999999999996432 46889999999999999999876
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=99.76 E-value=1.1e-18 Score=103.81 Aligned_cols=61 Identities=21% Similarity=0.421 Sum_probs=55.6
Q ss_pred hhhccccCcEEEEEccc-cc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFL-QS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~-~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
-|+++++++|.|.++++ +. |||+|||++|+||+|++ ++++.+.+|.++|||+||++|.+.+
T Consensus 25 ~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D~~MNlvL~d~~E~~-~~~~~~~lg~v~IRG~nI~~I~~~~ 92 (93)
T 1n9r_A 25 FLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFV-AGVSHGTLGEIFIRCNNVLYIRELP 92 (93)
T ss_dssp -CGGGTTSEEEEEESSTTEEEEEEEEECCTTTCEEEEEEEEEE-TTEEEEECCSEEECGGGEEEEEECC
T ss_pred HHHHhCCCEEEEEEcCCCEEEEEEEEEEccccEEEEeeEEEEc-CCCeEeEcCEEEEcCCeEEEEEeCC
Confidence 47889999999999999 66 99999999999999995 6778899999999999999999875
No 14
>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=99.76 E-value=1.1e-18 Score=102.32 Aligned_cols=61 Identities=20% Similarity=0.380 Sum_probs=55.9
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
-|+++++++|.|.+++++. |||+|||++|+||+|+. ++++.+.+|.++|||+||++|.+.+
T Consensus 10 ~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~-~g~~~~~lg~v~IRG~nI~~i~~~d 76 (86)
T 3s6n_F 10 FLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYI-DGALSGHLGEVLIRCNNVLYIRGVE 76 (86)
T ss_dssp HHHHHTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEESSEEECGGGEEEEEECC
T ss_pred HHHHhCCCeEEEEEcCCeEEEEEEEEEcCceEEEEeeEEEEc-CCceeeEccEEEEeCCeEEEEEeCC
Confidence 5789999999999999877 99999999999999984 6667889999999999999999876
No 15
>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=99.75 E-value=1.6e-18 Score=100.72 Aligned_cols=59 Identities=32% Similarity=0.553 Sum_probs=54.2
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEE
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMN 64 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~ 64 (67)
.|++++++++.|.+++++. +||+|||++|+||+|++ .+++.+.+|.++|||+||++|+|
T Consensus 19 ~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~IRG~~I~~i~p 83 (83)
T 1mgq_A 19 ALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELE-DGEVTRRLGTVLIRGDNIVYISP 83 (83)
T ss_dssp HHHHTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEEEEEEECGGGEEEEEC
T ss_pred HHHHhCCCEEEEEEcCCcEEEEEEEEECCCceeEEccEEEEe-cCCcccCCCEEEECCCEEEEEEC
Confidence 5789999999999999877 99999999999999996 66788999999999999999975
No 16
>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=99.75 E-value=2.3e-18 Score=98.68 Aligned_cols=61 Identities=8% Similarity=0.117 Sum_probs=54.8
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
=|++++++++.|.++++.. |||+|||++|+||+|+. ++++.+.+|.++|||+||.+|...|
T Consensus 9 ~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~e~~-~~~~~~~lg~v~IRG~nI~~i~lPd 75 (75)
T 1d3b_A 9 VLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTY-RDGRVAQLEQVYIRGCKIRFLILPD 75 (75)
T ss_dssp HHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEC-TTSCEEEEEEEEECGGGEEEEEECC
T ss_pred HHHHhCCCEEEEEECCCcEEEEEEEEEccceeEEEEeEEEEC-CCCcEEEcCeEEEeCCEEEEEEcCC
Confidence 3688999999999999877 99999999999999985 5557889999999999999998865
No 17
>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=99.74 E-value=2e-18 Score=104.78 Aligned_cols=61 Identities=20% Similarity=0.279 Sum_probs=49.8
Q ss_pred hhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 6 VQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 6 l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
|+++++++|.|.+++++. |||+||||+|+||+|+..++++.+.+|.++|||+||++|.+.+
T Consensus 21 L~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~e~~~dg~~~~~lg~v~IRG~nI~~I~~pd 87 (105)
T 4emh_A 21 LNATQGRPILVELKNGETFNGHLENCDNYMNLTLREVIRTMPDGDKFFRLPECYIRGNNIKYLRIQD 87 (105)
T ss_dssp -----CCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTTSCEEEEEEEEEECGGGEEEEEC--
T ss_pred HHHhCCCEEEEEECCCCEEEEEEEEEcCCceEEEEEEEEEccCCceeeEcCeEEEeCCeEEEEecCH
Confidence 788999999999999877 9999999999999998645667889999999999999999865
No 18
>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=99.73 E-value=2.5e-18 Score=106.13 Aligned_cols=62 Identities=32% Similarity=0.625 Sum_probs=52.9
Q ss_pred hhccccCcEEEEEccccc------cccceecEEEccEEEEEec---------Cce-----eeecCeEEEeCCcEEEEEEc
Q 035338 6 VQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIK---------KNT-----RKPLGRILLKGDNITLMMNT 65 (67)
Q Consensus 6 l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~---------~~~-----~~~~g~~~iRG~nV~~i~~~ 65 (67)
|.++++++|.|.+++++. |||+||||+|+||+|++.+ +.. .+.+|.++|||+||++|.+.
T Consensus 33 L~~~l~k~V~V~Lk~Gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IRG~nVv~I~~~ 112 (121)
T 2fwk_A 33 IDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNVAMLVPG 112 (121)
T ss_dssp HHHTBTSBCEEEETTTEEECCEEEEECTTCCEEEESCCEEEC---------------CEECCCCSEEEECGGGEEEEESS
T ss_pred HHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeceEEEEEeccccccccccCcccccccceEcceEEECCCEEEEEEec
Confidence 478999999999999877 9999999999999999742 223 68899999999999999986
Q ss_pred CC
Q 035338 66 GK 67 (67)
Q Consensus 66 ~~ 67 (67)
++
T Consensus 113 ~~ 114 (121)
T 2fwk_A 113 GD 114 (121)
T ss_dssp SC
T ss_pred CC
Confidence 53
No 19
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=99.72 E-value=6.9e-18 Score=100.23 Aligned_cols=60 Identities=27% Similarity=0.440 Sum_probs=51.9
Q ss_pred hhccccCcEEEEEccccc------cccceecEEEccEEEEEec----C--------ceeeecCeEEEeCCcEEEEEEc
Q 035338 6 VQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIK----K--------NTRKPLGRILLKGDNITLMMNT 65 (67)
Q Consensus 6 l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~----~--------~~~~~~g~~~iRG~nV~~i~~~ 65 (67)
|+..+++++.|.+++++. |||+||||+|+||+|++.. + .+++.+|.++|||+||++|++.
T Consensus 14 L~~~~~~~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~v~iRG~nVv~I~p~ 91 (93)
T 4emg_A 14 VRLSLDEIVYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFVRGDSVILIAPP 91 (93)
T ss_dssp HHTTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEEC--------------CEEEEEEEEEECGGGEEEEECC
T ss_pred HHHhCCCEEEEEECCCcEEEEEEEEECCcccEEeecEEEEEeccccCCccccccccccEeEeceEEECCCeEEEEEec
Confidence 456689999999999877 9999999999999999742 2 2578999999999999999985
No 20
>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=99.72 E-value=1.1e-17 Score=113.01 Aligned_cols=62 Identities=29% Similarity=0.493 Sum_probs=55.6
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEe---------cCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHI---------KKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~---------~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
+|+++++++|.|.+++.+. +||+||||||+||+|++. .+++++.+|+++|||+||++|+..+
T Consensus 8 kL~klIdKrV~V~LkdGRel~GtLkgFDq~MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGlV~IRGdnIV~Isve~ 84 (231)
T 3pgw_B 8 KMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEG 84 (231)
T ss_pred HHHHhcCCeEEEEECCCcEEEEEEEEEcccccEEecCEEEEEeccCcccccccccceeEeceEEECCCcEEEEEecC
Confidence 8999999999999999888 999999999999999963 1347899999999999999998654
No 21
>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=99.71 E-value=1.1e-17 Score=103.02 Aligned_cols=61 Identities=16% Similarity=0.256 Sum_probs=55.2
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
-|+++++++|.|.+++... +||+||||+|+||+|+. .+.+...+|.++|||+||++|.+.|
T Consensus 6 ~L~~~~gk~V~V~Lk~g~~~~G~L~~~D~~MNlvL~d~~e~~-~~~~~~~lg~v~IRG~nI~~I~~pd 72 (119)
T 1b34_A 6 FLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTL-KNREPVQLETLSIRGNNIRYFILPD 72 (119)
T ss_dssp HHHTCTTCEEEEEETTCCEEEEEEEEECTTCCEEEEEEEEEC-TTSCCEEEEEEEECGGGEEEEECCT
T ss_pred HHHHhCCCEEEEEEcCCCEEEEEEEEEcccceEEeccEEEec-CCCceeEcceEEEcCCeEEEEEecc
Confidence 4789999999999999877 99999999999999995 5567789999999999999999876
No 22
>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=99.67 E-value=3.7e-17 Score=100.44 Aligned_cols=62 Identities=18% Similarity=0.400 Sum_probs=50.1
Q ss_pred hhccc--cCcEEEEEccccc------cccceecEEEccEEEEEecC-------------ceeeecCeEEEeCCcEEEEEE
Q 035338 6 VQRIM--TQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKK-------------NTRKPLGRILLKGDNITLMMN 64 (67)
Q Consensus 6 l~~~m--~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~-------------~~~~~~g~~~iRG~nV~~i~~ 64 (67)
|.+++ +++|.|.+++++. |||+||||+|+||+|++... .+.+.+|.++|||+||++|++
T Consensus 32 L~~~~~~~k~V~V~Lk~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~nVv~I~~ 111 (118)
T 1b34_B 32 LTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLR 111 (118)
T ss_dssp HHHHHHHTCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEC-------------------CEEEEEEEECGGGEEEEEE
T ss_pred HHHHhcCCcEEEEEECCCcEEEEEEEEeCCceEEEEeCEEEEEecccccccccccccccccccCcCeEEEcCCEEEEEEe
Confidence 56777 4999999999877 99999999999999986321 125579999999999999998
Q ss_pred cCC
Q 035338 65 TGK 67 (67)
Q Consensus 65 ~~~ 67 (67)
.++
T Consensus 112 ~~~ 114 (118)
T 1b34_B 112 NPL 114 (118)
T ss_dssp CCC
T ss_pred Cch
Confidence 764
No 23
>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=99.64 E-value=1.9e-16 Score=98.67 Aligned_cols=61 Identities=8% Similarity=0.138 Sum_probs=54.6
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
-|+++++++|.|.+++... +||+|||++|+||+|+. ..++...++.+||||+||.+|++.|
T Consensus 9 ~L~~~~gk~V~VeLknG~~~~G~L~~~D~~MNi~L~dv~e~~-~~g~~~~l~~v~IRGnnI~~I~lpd 75 (126)
T 2y9a_D 9 VLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTY-RDGRVAQLEQVYIRGSKIRFLILPD 75 (126)
T ss_dssp HHHSCSSCEEEEEESSCCEEEEEEEEECTTSCEEEEEEEEEC-TTSCCEEEEEEEECGGGEEEEECCS
T ss_pred HHHHhCCCEEEEEECCCcEEEEEEEEEcCceEEEEeeEEEEc-CCCcEeecccEEEeCCEEEEEEccc
Confidence 5789999999999999877 99999999999999985 4446889999999999999999765
No 24
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1
Probab=99.59 E-value=6.9e-16 Score=96.58 Aligned_cols=57 Identities=14% Similarity=0.289 Sum_probs=51.5
Q ss_pred hhhccccCcEEEEEccccc------cccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 5 KVQRIMTQPINLIFRFLQS------GFDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 5 ~l~~~m~~pi~v~~~~~~~------~~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
.|++++++++.|.+++++. |||+|||++|+||+|+. .+.+|.++|||+||++|.+.+
T Consensus 4 ~L~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~E~~-----~~~lg~v~IRG~nI~~I~~~d 66 (130)
T 1m5q_A 4 ELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKA-----GEKFNRVFIMYRYIVHIDSTE 66 (130)
T ss_dssp HHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEECTT-----CCEEEEEEECGGGEEEEEECC
T ss_pred HHHHhCCCeEEEEECCCcEEEEEEEEEcccceeEEeeEEEEc-----CCEeceEEEeCCeEEEEEcCC
Confidence 4789999999999999877 99999999999999972 267899999999999999876
No 25
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=96.53 E-value=0.0027 Score=36.96 Aligned_cols=56 Identities=11% Similarity=0.060 Sum_probs=45.4
Q ss_pred hhhhccccCcEEEEEccccc------ccc-ceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEEcC
Q 035338 4 TKVQRIMTQPINLIFRFLQS------GFD-EYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMNTG 66 (67)
Q Consensus 4 ~~l~~~m~~pi~v~~~~~~~------~~D-~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~~~ 66 (67)
-+|+.+++|.+.|.+.+++. +|| .-.|++|.+|. .+ ..+..++|-|.-|.-|...+
T Consensus 10 ~el~~li~KeV~V~l~dg~~y~G~l~tvDp~s~sIvL~n~~----~~---~~~~~~iI~G~aI~eI~v~~ 72 (86)
T 1y96_A 10 LEWQDYIYKEVRVTASEKNEYKGWVLTTDPVSANIVLVNFL----ED---GSMSVTGIMGHAVQTVETMN 72 (86)
T ss_dssp HHHHHTTTCEEEEEETTTEEEEEEEEEECTTTCCEEEEEEC----TT---SCEEEEEECGGGEEEEEEEE
T ss_pred HHHHhhcCCEEEEEEcCCCEEEEEEEEECCCceEEEEeecc----cC---CeEEEEEEecceEEEEEEec
Confidence 47899999999999999876 999 99999999981 12 23357899999998887543
No 26
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=45.27 E-value=12 Score=20.93 Aligned_cols=25 Identities=16% Similarity=0.287 Sum_probs=19.0
Q ss_pred cCcEEEEEccccc------cccceecEEEcc
Q 035338 11 TQPINLIFRFLQS------GFDEYMNLVLDD 35 (67)
Q Consensus 11 ~~pi~v~~~~~~~------~~D~~mNlvL~d 35 (67)
..|+.+.+.++-. +||+|+=+.-.+
T Consensus 23 ~~~Vtv~L~nG~~l~G~I~~fD~f~VlL~~~ 53 (78)
T 3ahu_A 23 NTYVTVFLLNGFQLRGQVKGFDNFTVLLESE 53 (78)
T ss_dssp TCCEEEEETTSCEEEEEEEEECSSEEEEESS
T ss_pred CCcEEEEEeCCeEEEEEEEEEcceEEEEEEC
Confidence 6788888887655 999998666533
No 27
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=44.40 E-value=12 Score=20.56 Aligned_cols=26 Identities=15% Similarity=0.227 Sum_probs=18.8
Q ss_pred ccCcEEEEEccccc------cccceecEEEcc
Q 035338 10 MTQPINLIFRFLQS------GFDEYMNLVLDD 35 (67)
Q Consensus 10 m~~pi~v~~~~~~~------~~D~~mNlvL~d 35 (67)
-..|+.+.+.++-. +||+|+=+.-.+
T Consensus 24 ~~~~Vtv~L~NG~~l~G~I~~fD~ftVll~~~ 55 (71)
T 2qtx_A 24 NGKKVKIFLRNGEVLDAEVTGVSNYEIMVKVG 55 (71)
T ss_dssp TTCEEEEEETTSCEEEEEEEEECSSEEEEEET
T ss_pred cCCcEEEEEeCCeEEEEEEEEEcceEEEEEeC
Confidence 36788888877644 999998665433
No 28
>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=42.30 E-value=14 Score=20.87 Aligned_cols=25 Identities=16% Similarity=0.352 Sum_probs=18.9
Q ss_pred cCcEEEEEccccc------cccceecEEEcc
Q 035338 11 TQPINLIFRFLQS------GFDEYMNLVLDD 35 (67)
Q Consensus 11 ~~pi~v~~~~~~~------~~D~~mNlvL~d 35 (67)
..|+.+.+.++-. +||+|+=+.-.+
T Consensus 19 ~~~Vtv~L~NG~~l~G~I~~fD~ftVlL~~~ 49 (82)
T 1u1s_A 19 RVPVSIYLVNGIKLQGQIESFDQFVILLKNT 49 (82)
T ss_dssp TCCEEEEETTSCEEEEEEEEECSSEEEEESS
T ss_pred CCcEEEEEeCCcEEEEEEEEEcceEEEEecC
Confidence 6788888877654 999999666544
No 29
>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=35.57 E-value=22 Score=19.59 Aligned_cols=24 Identities=17% Similarity=0.367 Sum_probs=18.2
Q ss_pred cCcEEEEEccccc------cccceecEEEc
Q 035338 11 TQPINLIFRFLQS------GFDEYMNLVLD 34 (67)
Q Consensus 11 ~~pi~v~~~~~~~------~~D~~mNlvL~ 34 (67)
..|+.+.+.++-. +||+|+=+.-+
T Consensus 21 k~~Vti~L~nG~~l~G~I~~fD~f~vlL~~ 50 (74)
T 2ylb_A 21 RVPVSIYLVNGIKLQGQIESFDQFVILLKN 50 (74)
T ss_dssp TCCEEEEETTSCEEEEEEEEECSSEEEEES
T ss_pred CCcEEEEEeCCCEEEEEEEEECCcEEEEEC
Confidence 6788888887655 99999865543
No 30
>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=34.73 E-value=21 Score=19.77 Aligned_cols=25 Identities=12% Similarity=0.219 Sum_probs=18.7
Q ss_pred cCcEEEEEccccc------cccceecEEEcc
Q 035338 11 TQPINLIFRFLQS------GFDEYMNLVLDD 35 (67)
Q Consensus 11 ~~pi~v~~~~~~~------~~D~~mNlvL~d 35 (67)
..|+.+.+..+-. +||+|+=+.-.+
T Consensus 19 k~~VtI~L~nG~~l~G~I~~fD~f~VlL~~~ 49 (77)
T 1kq1_A 19 QTEVTVFFLNGFQMKGVIEEYDKYVVSLNSQ 49 (77)
T ss_dssp TCEEEEEETTSCEEEEEEEEECSSEEEEEET
T ss_pred CCeEEEEEeCCCEEEEEEEEECCcEEEEEEC
Confidence 6788888877654 999998666543
No 31
>2qs8_A XAA-Pro dipeptidase; amidohydrolase, TIM barrel, protein structure initiative, PSI-2, NYSGXRC, structural genomics; 2.33A {Alteromonas macleodii} SCOP: b.92.1.9 c.1.9.18
Probab=33.24 E-value=49 Score=21.84 Aligned_cols=40 Identities=13% Similarity=0.166 Sum_probs=23.7
Q ss_pred ccceecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEE
Q 035338 25 FDEYMNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMN 64 (67)
Q Consensus 25 ~D~~mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~ 64 (67)
.|..|.+++.++.-+...+.....-+.++|+|+.|..|.+
T Consensus 3 ~~~~~~~li~n~~v~~~~~~~~~~~~~v~I~~g~I~~vg~ 42 (418)
T 2qs8_A 3 LDVDSKTLIHAGKLIDGKSDQVQSRISIVIDGNIISDIKK 42 (418)
T ss_dssp ----CCEEEEEEEECCSSCSSCEEEEEEEEETTEEEEEEE
T ss_pred CCCCccEEEEeeEEEeCCCCccccCcEEEEECCEEEEEeC
Confidence 4566778888876653222222334689999999988865
No 32
>3mkv_A Putative amidohydrolase; sargasso SEA, structural genomics, protein structure initiat NEW YORK structural genomix research consortium, nysgxrc; HET: KCX; 2.40A {Undefined}
Probab=32.01 E-value=43 Score=20.52 Aligned_cols=35 Identities=9% Similarity=0.045 Sum_probs=22.4
Q ss_pred cEEEccEEEEEecCceeeecCeEEEeCCcEEEEEE
Q 035338 30 NLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMN 64 (67)
Q Consensus 30 NlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~ 64 (67)
.++|.++.-+...+.+...-+.++|+++.|..|.+
T Consensus 5 ~lli~ng~i~d~~~~~~~~~~dV~I~~G~I~~Ig~ 39 (426)
T 3mkv_A 5 TFLFRNGALLDPDHPDLLQGFEILIEDGFIREVSD 39 (426)
T ss_dssp EEEEEEEEECCTTSSSCEEEEEEEEETTEEEEEES
T ss_pred cEEEECeEEEeCCCCcEecCcEEEEECCEEEEecC
Confidence 46777776543222233344679999999988865
No 33
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=30.33 E-value=28 Score=19.46 Aligned_cols=22 Identities=23% Similarity=0.446 Sum_probs=17.3
Q ss_pred cCcEEEEEccccc------cccceecEE
Q 035338 11 TQPINLIFRFLQS------GFDEYMNLV 32 (67)
Q Consensus 11 ~~pi~v~~~~~~~------~~D~~mNlv 32 (67)
..|+.+.+..+-. +||+|+=+.
T Consensus 20 k~~VtI~LvnG~~L~G~I~~fD~f~VlL 47 (79)
T 3sb2_A 20 HVPVSIYLVNGIKLQGHVESFDQYVVLL 47 (79)
T ss_dssp TCCEEEEETTSCEEEEEEEEECSSEEEE
T ss_pred CCeEEEEEeCCCEEEEEEEEECCcEEEE
Confidence 5678888877755 999998665
No 34
>3feq_A Putative amidohydrolase; unknown source, sargasso SEA, structural GEN protein structure initiative, PSI; 2.63A {Unidentified} PDB: 3lwy_A* 3n2c_A*
Probab=28.47 E-value=1.1e+02 Score=20.03 Aligned_cols=36 Identities=11% Similarity=0.254 Sum_probs=24.2
Q ss_pred ecEEEccEEEEEecCceeeecCeEEEeCCcEEEEEE
Q 035338 29 MNLVLDDAEEVHIKKNTRKPLGRILLKGDNITLMMN 64 (67)
Q Consensus 29 mNlvL~da~e~~~~~~~~~~~g~~~iRG~nV~~i~~ 64 (67)
+.++|.++.-+...+.+...-+.++|+++-|..|.+
T Consensus 4 ~~~~i~n~~v~~~~~~~~~~~~~v~I~~g~I~~vg~ 39 (423)
T 3feq_A 4 TITVLQGGNVLDLERGVLLEHHHVVIDGERIVEVTD 39 (423)
T ss_dssp CEEEEEEEEEEETTTTEEEEEEEEEEETTEEEEEEC
T ss_pred eEEEEEccEEEeCCCCcccCCceEEEECCEEEEecC
Confidence 356777777664333344445788999999888865
No 35
>2c5m_A CTP synthase; cytidine 5-prime triphosphate synthetase, CTP synthetase, UTP, glutamine, amidotransferase, ligase, phosphorylation; 2.80A {Homo sapiens} PDB: 2vo1_A 3ihl_A*
Probab=26.75 E-value=15 Score=25.36 Aligned_cols=37 Identities=41% Similarity=0.578 Sum_probs=11.1
Q ss_pred cccceec--------------EEEccEEEEEec-CceeeecCeEEEeCCcEE
Q 035338 24 GFDEYMN--------------LVLDDAEEVHIK-KNTRKPLGRILLKGDNIT 60 (67)
Q Consensus 24 ~~D~~mN--------------lvL~da~e~~~~-~~~~~~~g~~~iRG~nV~ 60 (67)
-+|.|+| .|++|-.|...+ |.=+|+++.-+-|-+||.
T Consensus 60 KiDPYlNvD~GTMsP~qHGEVfVtdDG~EtDLDLGhYERFl~~~lt~~nNiT 111 (294)
T 2c5m_A 60 KIDPYINIDAGTFSPYEHGEVFVLDDGGEVDLDLGNYERFLDIRLTKDNNLT 111 (294)
T ss_dssp EEECBCCCCC-----------------------------------CCTTEEE
T ss_pred ecCCceeecCCCCCccccceEEEecCCccccccccchhhhcCCCCccccccc
Confidence 6899999 788888887544 455777777777777764
No 36
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=26.24 E-value=35 Score=20.05 Aligned_cols=25 Identities=16% Similarity=0.352 Sum_probs=18.6
Q ss_pred cCcEEEEEccccc------cccceecEEEcc
Q 035338 11 TQPINLIFRFLQS------GFDEYMNLVLDD 35 (67)
Q Consensus 11 ~~pi~v~~~~~~~------~~D~~mNlvL~d 35 (67)
..||.+.+..+-. +||+|+=|+-++
T Consensus 21 k~~VtI~LvNG~~L~G~I~~fD~f~VlL~~~ 51 (104)
T 2y90_A 21 RVPVSIYLVNGIKLQGQIESFDQFVILLKNT 51 (104)
T ss_dssp TCCEEEEETTSCEEEEEEEEECSSEEEEESS
T ss_pred CCcEEEEEeCCCEEEEEEEEECCcEEEEECC
Confidence 4588888877644 999999766655
No 37
>2kaf_A Non-structural protein 3; SARS-unique domain-C, automation in structure determination, viral protein; NMR {Sars coronavirus}
Probab=21.74 E-value=61 Score=17.32 Aligned_cols=19 Identities=37% Similarity=0.592 Sum_probs=13.1
Q ss_pred ceeeecCe-EEEeCCcEEEE
Q 035338 44 NTRKPLGR-ILLKGDNITLM 62 (67)
Q Consensus 44 ~~~~~~g~-~~iRG~nV~~i 62 (67)
++...+|. .+=||+.|++-
T Consensus 23 gqrtelgveflkRGdkivyh 42 (67)
T 2kaf_A 23 GQRTELGVEFLKRGDKIVYH 42 (67)
T ss_dssp CCEETTEEEEEEETTEEEEE
T ss_pred cccchhhhhhhhcCCeeeee
Confidence 45666774 44599998874
No 38
>1x4r_A PARP14 protein; WWE domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}
Probab=21.07 E-value=4.1 Score=23.91 Aligned_cols=14 Identities=36% Similarity=0.404 Sum_probs=13.2
Q ss_pred cccceecEEEccEE
Q 035338 24 GFDEYMNLVLDDAE 37 (67)
Q Consensus 24 ~~D~~mNlvL~da~ 37 (67)
+||.-.|+.|++|.
T Consensus 39 ~FDk~TNl~LEeA~ 52 (99)
T 1x4r_A 39 CFDKMTNMKLEVAW 52 (99)
T ss_dssp ECCTTHHHHHHHHH
T ss_pred echHHHHHHHHHHH
Confidence 99999999999886
Done!