Query 045948
Match_columns 184
No_of_seqs 104 out of 1126
Neff 4.1
Searched_HMMs 29240
Date Mon Mar 25 12:18:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045948.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/045948hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3s6n_E Small nuclear ribonucle 99.9 4.9E-25 1.7E-29 164.1 8.3 84 4-87 8-91 (92)
2 1i8f_A Putative snRNP SM-like 99.9 4.6E-23 1.6E-27 148.5 7.9 81 1-88 1-81 (81)
3 1mgq_A SM-like protein; LSM, R 99.9 8.8E-22 3E-26 142.6 8.5 78 1-85 6-83 (83)
4 1ljo_A Archaeal SM-like protei 99.9 1.3E-21 4.4E-26 139.4 8.2 75 9-88 2-77 (77)
5 4emk_A U6 snRNA-associated SM- 99.8 2.8E-21 9.6E-26 144.5 9.6 77 7-87 15-91 (94)
6 4emk_C U6 snRNA-associated SM- 99.8 4E-21 1.4E-25 147.6 8.5 89 7-102 18-112 (113)
7 1i4k_A Putative snRNP SM-like 99.8 4.3E-21 1.5E-25 136.2 7.8 73 12-89 4-76 (77)
8 3s6n_F Small nuclear ribonucle 99.8 7E-21 2.4E-25 139.4 8.7 75 11-90 5-79 (86)
9 1th7_A SnRNP-2, small nuclear 99.8 6.4E-21 2.2E-25 137.1 8.4 74 10-88 7-80 (81)
10 2fwk_A U6 snRNA-associated SM- 99.8 2.3E-21 8E-26 149.7 6.3 83 7-93 23-120 (121)
11 1h64_1 SnRNP SM-like protein; 99.8 7.7E-21 2.6E-25 134.6 8.0 71 12-87 4-74 (75)
12 4emk_B U6 snRNA-associated SM- 99.8 4.2E-21 1.4E-25 136.5 6.0 73 11-88 3-75 (75)
13 3bw1_A SMX4 protein, U6 snRNA- 99.8 1.1E-20 3.7E-25 140.6 7.7 78 8-89 6-89 (96)
14 1d3b_A Protein (small nuclear 99.8 1.6E-20 5.6E-25 134.0 8.1 72 11-87 4-75 (75)
15 1n9r_A SMF, small nuclear ribo 99.8 1.1E-20 3.9E-25 140.5 7.4 76 7-87 16-92 (93)
16 4emg_A Probable U6 snRNA-assoc 99.8 2.2E-20 7.5E-25 138.6 8.2 75 8-86 5-91 (93)
17 4emh_A Probable U6 snRNA-assoc 99.8 5.7E-20 2E-24 139.8 6.9 76 10-89 14-89 (105)
18 3s6n_G Small nuclear ribonucle 99.8 1.5E-19 5.3E-24 128.9 7.1 71 13-88 5-75 (76)
19 1b34_B Protein (small nuclear 99.8 1.5E-19 5E-24 138.9 7.1 79 9-89 24-115 (118)
20 1b34_A Protein (small nuclear 99.8 6.1E-19 2.1E-23 136.0 7.3 74 11-89 1-74 (119)
21 1d3b_B Protein (small nuclear 99.8 7E-19 2.4E-23 128.5 6.6 74 12-89 4-86 (91)
22 2y9a_D Small nuclear ribonucle 99.7 4.9E-18 1.7E-22 132.9 7.7 74 11-89 4-77 (126)
23 3pgw_B SM B; protein-RNA compl 99.7 3.4E-17 1.2E-21 139.8 10.9 74 11-88 3-85 (231)
24 1m5q_A SMAP3, small nuclear ri 99.6 5.3E-16 1.8E-20 121.9 6.4 66 15-89 3-68 (130)
25 1y96_A Gemin6, SIP2, GEM-assoc 97.8 7.5E-05 2.6E-09 55.2 7.4 67 11-89 7-74 (86)
26 1u1s_A HFQ protein; SM-like ba 96.6 0.002 6.9E-08 47.3 4.1 58 15-88 10-67 (82)
27 3ahu_A Protein HFQ; SM-like mo 96.5 0.0018 6.1E-08 47.1 3.4 37 15-53 14-50 (78)
28 3sb2_A Protein HFQ; SM-like, R 96.5 0.0025 8.4E-08 46.4 4.1 61 14-90 10-70 (79)
29 2ylb_A Protein HFQ; RNA-bindin 96.5 0.0021 7.1E-08 46.1 3.4 58 15-88 12-69 (74)
30 1kq1_A HFQ, HOST factor for Q 96.5 0.0022 7.6E-08 46.3 3.6 37 15-53 10-46 (77)
31 2y90_A Protein HFQ; RNA-bindin 96.3 0.0033 1.1E-07 47.9 4.1 59 15-89 12-70 (104)
32 2qtx_A Uncharacterized protein 96.1 0.0029 1E-07 45.2 2.6 36 16-53 17-52 (71)
33 3hfn_A ASL2047 protein; HFQ, S 93.3 0.28 9.6E-06 35.0 6.6 63 10-86 8-71 (72)
34 3hfo_A SSR3341 protein; HFQ, S 91.1 0.42 1.4E-05 33.9 5.3 41 11-53 7-48 (70)
35 2vxe_A CG10686-PA; EDC3, CAR-1 86.5 4.3 0.00015 29.9 8.1 67 19-89 10-85 (88)
36 2fb7_A SM-like protein, LSM-14 81.2 3.1 0.00011 31.1 5.5 68 17-88 14-90 (95)
37 1ycy_A Conserved hypothetical 70.4 18 0.0006 25.6 6.6 58 16-83 10-67 (71)
38 1ib8_A Conserved protein SP14. 70.1 3.4 0.00012 32.6 3.4 45 2-49 85-131 (164)
39 1y96_B Gemin7, SIP3, GEM-assoc 58.1 31 0.0011 25.2 6.3 62 14-85 21-83 (85)
40 2vc8_A Enhancer of mRNA-decapp 56.2 38 0.0013 24.7 6.4 61 19-87 6-68 (84)
41 1bia_A BIRA bifunctional prote 38.2 63 0.0022 27.2 6.1 45 25-77 274-318 (321)
42 3rux_A BIRA bifunctional prote 37.3 47 0.0016 27.6 5.1 31 25-57 225-255 (270)
43 2xk0_A Polycomb protein PCL; t 36.1 92 0.0031 21.9 5.6 35 26-62 21-56 (69)
44 4a53_A EDC3; RNA binding prote 35.6 32 0.0011 26.7 3.5 54 18-87 8-63 (125)
45 2eay_A Biotin [acetyl-COA-carb 30.6 32 0.0011 27.9 2.9 44 25-77 189-232 (233)
46 2ej9_A Putative biotin ligase; 24.1 1.1E+02 0.0039 24.7 5.1 29 25-56 193-221 (237)
No 1
>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=99.91 E-value=4.9e-25 Score=164.06 Aligned_cols=84 Identities=69% Similarity=1.134 Sum_probs=72.6
Q ss_pred ccccceecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEE
Q 045948 4 TKVQRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLM 83 (184)
Q Consensus 4 ~~~~~~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I 83 (184)
+++||+|..|+++|.++++++.+|.++++.++||+++|+|+|||+|||++|+|++|+..++++++.+|.++||||||++|
T Consensus 8 ~~~~~~m~~Pl~lL~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~~~~~~lg~v~iRG~nV~~i 87 (92)
T 3s6n_E 8 QKVQKVMVQPINLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHSKTKSRKQLGRIMLKGDNITLL 87 (92)
T ss_dssp ------CCCHHHHHHHHHHHTCEEEEEESSSCSSEEEEEEEEECTTCCEEEEEEEEECSSSCCEEEEEEEEECGGGEEEE
T ss_pred CccceeccCCHHHHHHHhCCCEEEEEEEEecCCEEEEEEEEEEcCcCcEEEeeeEEEecCCCceeEcCeEEEeCCEEEEE
Confidence 46688999999999999999988888888889999999999999999999999999965677889999999999999999
Q ss_pred EecC
Q 045948 84 MNTY 87 (184)
Q Consensus 84 ~~~d 87 (184)
++.|
T Consensus 88 ~~~~ 91 (92)
T 3s6n_E 88 QSVS 91 (92)
T ss_dssp EEC-
T ss_pred EeCC
Confidence 9865
No 2
>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=99.88 E-value=4.6e-23 Score=148.55 Aligned_cols=81 Identities=21% Similarity=0.342 Sum_probs=66.1
Q ss_pred CCcccccceecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcE
Q 045948 1 MASTKVQRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNI 80 (184)
Q Consensus 1 ms~~~~~~~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNV 80 (184)
|||+ .||.+..|+++|+++++++ |.|++++ ||+++|+|+|||+|||++|+|++|+ +++..+.+|.++|||+||
T Consensus 1 m~~~-~~~~~~~P~~~L~~~~~~~--V~V~l~~--g~~~~G~L~~~D~~mNlvL~d~~e~--~~~~~~~lg~v~iRG~~I 73 (81)
T 1i8f_A 1 MASD-ISKCFATLGATLQDSIGKQ--VLVKLRD--SHEIRGILRSFDQHVNLLLEDAEEI--IDGNVYKRGTMVVRGENV 73 (81)
T ss_dssp ----------CCHHHHHHTTTTSE--EEEEEGG--GEEEEEEEEEECTTCCEEEEEEEEE--ETTEEEEEEEEEECGGGE
T ss_pred CCcc-cCccccchHHHHHHHCCCe--EEEEEcC--CcEEEEEEEEEcCCCeeEEccEEEE--cCCcccCCCEEEECCCEE
Confidence 8884 4999999999999999964 9998875 6999999999999999999999998 667889999999999999
Q ss_pred EEEEecCC
Q 045948 81 TLMMNTYV 88 (184)
Q Consensus 81 v~I~~~d~ 88 (184)
++|.++|+
T Consensus 74 ~~i~~~dg 81 (81)
T 1i8f_A 74 LFISPVPG 81 (81)
T ss_dssp EEEEECC-
T ss_pred EEEEeCCC
Confidence 99999874
No 3
>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=99.86 E-value=8.8e-22 Score=142.60 Aligned_cols=78 Identities=32% Similarity=0.499 Sum_probs=67.1
Q ss_pred CCcccccceecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcE
Q 045948 1 MASTKVQRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNI 80 (184)
Q Consensus 1 ms~~~~~~~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNV 80 (184)
||+ | ++....|+++|+++++++ |.|+++ +|++++|+|+|||+|||++|+|++|+. +++..+.+|.++|||+||
T Consensus 6 ms~-~-~~~~~~P~~~L~~~~~~~--V~V~Lk--~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~IRG~~I 78 (83)
T 1mgq_A 6 VSS-Q-RVNVQRPLDALGNSLNSP--VIIKLK--GDREFRGVLKSFDLHMNLVLNDAEELE-DGEVTRRLGTVLIRGDNI 78 (83)
T ss_dssp ------CCCTTCTTHHHHHTTTSE--EEEEET--TTEEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEEEEEEECGGGE
T ss_pred ccc-c-cccCcChHHHHHHhCCCE--EEEEEc--CCcEEEEEEEEECCCceeEEccEEEEe-cCCcccCCCEEEECCCEE
Confidence 887 4 677899999999999965 888886 569999999999999999999999994 567888999999999999
Q ss_pred EEEEe
Q 045948 81 TLMMN 85 (184)
Q Consensus 81 v~I~~ 85 (184)
++|.+
T Consensus 79 ~~i~p 83 (83)
T 1mgq_A 79 VYISP 83 (83)
T ss_dssp EEEEC
T ss_pred EEEEC
Confidence 99975
No 4
>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=99.85 E-value=1.3e-21 Score=139.37 Aligned_cols=75 Identities=27% Similarity=0.481 Sum_probs=66.8
Q ss_pred eecCccHHHHHHhcCCceEEEEEEeCCC-eEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecC
Q 045948 9 IMTQPINLIFRFLQSKARIQIWLFEQKD-LRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTY 87 (184)
Q Consensus 9 ~m~~PL~lL~k~L~Kr~~V~V~LK~~~G-r~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d 87 (184)
.|..|+++|+++++++ |+|+++ +| ++++|+|+|||+|||++|+|++|+. ++++.+.+|.++|||+||++|.++|
T Consensus 2 ~m~~P~~~L~~~~~~~--v~V~lk--~g~~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~nI~~i~~~d 76 (77)
T 1ljo_A 2 AMVLPNQMVKSMVGKI--IRVEMK--GEENQLVGKLEGVDDYMNLYLTNAMECK-GEEKVRSLGEIVLRGNNVVLIQPQE 76 (77)
T ss_dssp CCCCHHHHHHHTTTSE--EEEEET--TCSSEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEEEEEEECGGGEEEEEEC-
T ss_pred CccchHHHHHHHCCCE--EEEEEe--CCCEEEEEEEEEECCcceEEEeeEEEEe-cCCcEeECCeEEEeCCeEEEEEeCC
Confidence 4789999999999975 888775 67 9999999999999999999999994 6778899999999999999999987
Q ss_pred C
Q 045948 88 V 88 (184)
Q Consensus 88 ~ 88 (184)
+
T Consensus 77 e 77 (77)
T 1ljo_A 77 E 77 (77)
T ss_dssp -
T ss_pred C
Confidence 3
No 5
>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=99.85 E-value=2.8e-21 Score=144.51 Aligned_cols=77 Identities=21% Similarity=0.460 Sum_probs=65.6
Q ss_pred cceecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEec
Q 045948 7 QRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNT 86 (184)
Q Consensus 7 ~~~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~ 86 (184)
++.+..|+++|+++++++ |.|+++ +||+++|+|+|||+||||+|+||+|+..++++++.+|.++|||+||++|.+.
T Consensus 15 ~~~~~~Pl~lL~~~l~k~--V~V~Lk--~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~~~~~~lg~v~IRG~nI~~i~p~ 90 (94)
T 4emk_A 15 MSMTILPLELIDKCIGSN--LWVIMK--SEREFAGTLVGFDDYVNIVLKDVTEYDTVTGVTEKHSEMLLNGNGMCMLIPG 90 (94)
T ss_dssp -----CHHHHHHHTTTSE--EEEEES--SSEEEEEEEEEECTTCCEEEEEEEEEETTTCCEEEEEEEEECSTTEEEEEEC
T ss_pred ccccccCHHHHHHHcCCe--EEEEEC--CCcEEEEEEEEEcccCCeEeeeEEEEecCCCcEeEcCEEEEcCCEEEEEEeC
Confidence 457889999999999975 888776 5699999999999999999999999964677889999999999999999986
Q ss_pred C
Q 045948 87 Y 87 (184)
Q Consensus 87 d 87 (184)
.
T Consensus 91 ~ 91 (94)
T 4emk_A 91 G 91 (94)
T ss_dssp C
T ss_pred C
Confidence 4
No 6
>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=99.84 E-value=4e-21 Score=147.59 Aligned_cols=89 Identities=26% Similarity=0.425 Sum_probs=55.1
Q ss_pred cceecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecC------cceeecCeEEEeCCcE
Q 045948 7 QRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKK------KSRKPLGRILLKGDNI 80 (184)
Q Consensus 7 ~~~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg------~~~r~LG~v~IRGdNV 80 (184)
++....|+..|.++++++ |.|+++ +||+++|+|+|||+||||||+||+|++.++ ...+.+|.++|||+||
T Consensus 18 ~~~kke~i~~L~~~l~k~--V~V~L~--dGr~~~G~L~~fD~~mNLVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nI 93 (113)
T 4emk_C 18 ERPRKESILDLSRYQDQR--IQATFT--GGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTL 93 (113)
T ss_dssp --------------CCSE--EEEEET--TSCEEEEEEEEECTTCCEEEEEEEEEC---------CCEEEEEEEEECTTTE
T ss_pred cCCccchHHHHHHHcCCc--EEEEEe--CCeEEEEEEEEEcCcccEEEeeEEEEEcCCCCcccccceeEccEEEECCCeE
Confidence 345667888889999976 777775 679999999999999999999999996542 4688999999999999
Q ss_pred EEEEecCCCccccccCCCcccC
Q 045948 81 TLMMNTYVNSFSFSLSPPLITQ 102 (184)
Q Consensus 81 v~I~~~d~~~~~~s~~~P~i~~ 102 (184)
++|++.|+.. .+.+||+++
T Consensus 94 v~I~~~d~~e---e~~~p~~~~ 112 (113)
T 4emk_C 94 VLIAPMDGSE---EIPNPFVQA 112 (113)
T ss_dssp EEEEECC---------------
T ss_pred EEEEecCccc---cccCccccC
Confidence 9999999775 678999886
No 7
>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=99.84 E-value=4.3e-21 Score=136.23 Aligned_cols=73 Identities=26% Similarity=0.476 Sum_probs=65.2
Q ss_pred CccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCC
Q 045948 12 QPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVN 89 (184)
Q Consensus 12 ~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~ 89 (184)
.|+++|+++++++ |.|+++ +|++++|+|+|||+|||++|+|++|++ .+.+.+.+|.++|||+||++|.++|+.
T Consensus 4 ~P~~~L~~~~~~~--V~V~L~--~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~d~~ 76 (77)
T 1i4k_A 4 RPLDVLNRSLKSP--VIVRLK--GGREFRGTLDGYDIHMNLVLLDAEEIQ-NGEVVRKVGSVVIRGDTVVFVSPAPGG 76 (77)
T ss_dssp CHHHHHHTTTTSE--EEEEET--TSCEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEEEEEEECGGGEEEEEECC--
T ss_pred cHHHHHHHhCCCE--EEEEEc--CCCEEEEEEEEEcCCCCeEEeeEEEEe-cCCcEeECCEEEECCCEEEEEEeCCCC
Confidence 7999999999965 888886 469999999999999999999999994 567788999999999999999998865
No 8
>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=99.84 E-value=7e-21 Score=139.37 Aligned_cols=75 Identities=19% Similarity=0.334 Sum_probs=66.2
Q ss_pred cCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCCc
Q 045948 11 TQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVNS 90 (184)
Q Consensus 11 ~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~~ 90 (184)
..|+++|+++++++ |+|+++ +|++++|+|+|||+|||++|+||+|+ .++++.+.+|.++|||+||++|.++|+..
T Consensus 5 ~~P~~~L~~~~~k~--V~V~Lk--~g~~~~G~L~~~D~~mNlvL~d~~e~-~~g~~~~~lg~v~IRG~nI~~i~~~d~~~ 79 (86)
T 3s6n_F 5 LNPKPFLNGLTGKP--VMVKLK--WGMEYKGYLVSVDGYMNMQLANTEEY-IDGALSGHLGEVLIRCNNVLYIRGVEEEE 79 (86)
T ss_dssp CCHHHHHHHHTTSE--EEEEET--TSCEEEEEEEEECTTCCEEEEEEEEE-ETTEEEEEESSEEECGGGEEEEEECC---
T ss_pred cCcHHHHHHhCCCe--EEEEEc--CCeEEEEEEEEEcCceEEEEeeEEEE-cCCceeeEccEEEEeCCeEEEEEeCCccc
Confidence 57999999999975 888886 46999999999999999999999998 57777889999999999999999998653
No 9
>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=99.84 E-value=6.4e-21 Score=137.12 Aligned_cols=74 Identities=27% Similarity=0.448 Sum_probs=65.4
Q ss_pred ecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCC
Q 045948 10 MTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYV 88 (184)
Q Consensus 10 m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~ 88 (184)
...|+++|+++++++ |.|+++ +|++++|+|+|||+|||++|+|++|++ .+++.+.+|.++|||+||++|.++|+
T Consensus 7 ~~~P~~~L~~~~~~~--V~V~l~--~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~~~ 80 (81)
T 1th7_A 7 AETAHKVLAESLNNL--VLVKLK--GNKEVRGMLRSYDQHMNLVLSDSEEIQ-SDGSGKKLGTIVIRGDNVILISPLQT 80 (81)
T ss_dssp CHHHHHHHHHHTTSE--EEEEET--TTEEEEEEEEEECTTCCEEEEEEEEEC-SSSCEEEEEEEEECGGGEEEEEEC--
T ss_pred ccchHHHHHHhCCCe--EEEEEc--CCcEEEEEEEEEcCCCCEEEccEEEEe-cCCceeECCEEEECCCEEEEEEecCC
Confidence 368999999999965 888886 569999999999999999999999994 56678899999999999999999875
No 10
>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=99.84 E-value=2.3e-21 Score=149.71 Aligned_cols=83 Identities=33% Similarity=0.544 Sum_probs=66.5
Q ss_pred cceecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEec---------Ccc-----eeecCe
Q 045948 7 QRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVK---------KKS-----RKPLGR 72 (184)
Q Consensus 7 ~~~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~d---------g~~-----~r~LG~ 72 (184)
++.+..|+++|+++++++ |.|+++ +||+++|+|+|||+||||+|+|++|++.+ ++. .+.+|.
T Consensus 23 ~~~~~~Pl~lL~~~l~k~--V~V~Lk--~Gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~ 98 (121)
T 2fwk_A 23 GGNIILPLALIDKCIGNR--IYVVMK--GDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLET 98 (121)
T ss_dssp -CCCCCHHHHHHHTBTSB--CEEEET--TTEEECCEEEEECTTCCEEEESCCEEEC---------------CEECCCCSE
T ss_pred cccccCcHHHHHHHcCCe--EEEEEC--CCcEEEEEEEEEcccCCeEeceEEEEEeccccccccccCcccccccceEcce
Confidence 347889999999999976 777665 67999999999999999999999999743 334 788999
Q ss_pred EEEeCCcEEEEEecCCC-cccc
Q 045948 73 ILLKGDNITLMMNTYVN-SFSF 93 (184)
Q Consensus 73 v~IRGdNVv~I~~~d~~-~~~~ 93 (184)
++|||+||++|.+.++. .++|
T Consensus 99 v~IRG~nVv~I~~~~~~~~~~~ 120 (121)
T 2fwk_A 99 ILLSGNNVAMLVPGGDPDSFNF 120 (121)
T ss_dssp EEECGGGEEEEESSSCC-----
T ss_pred EEECCCEEEEEEecCCCCCcCc
Confidence 99999999999998743 4444
No 11
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=99.83 E-value=7.7e-21 Score=134.56 Aligned_cols=71 Identities=32% Similarity=0.607 Sum_probs=64.2
Q ss_pred CccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecC
Q 045948 12 QPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTY 87 (184)
Q Consensus 12 ~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d 87 (184)
.|+++|+++++++ |.|+++ +|++++|+|+|||+|||++|+|++|+. ++...+.+|.++|||+||++|.++|
T Consensus 4 ~P~~~L~~~~~~~--V~V~l~--~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~~ 74 (75)
T 1h64_1 4 RPLDVIHRSLDKD--VLVILK--KGFEFRGRLIGYDIHLNVVLADAEMIQ-DGEVVKRYGKIVIRGDNVLAISPTE 74 (75)
T ss_dssp CHHHHHHTTTTSE--EEEEET--TSEEEEEEEEEECTTCCEEEEEEEEEE-TTEEEEEEEEEEECGGGEEEEEEC-
T ss_pred hHHHHHHHHCCCE--EEEEEC--CCCEEEEEEEEEeCCCCeEEeeEEEEe-eCCceeECCEEEECCCEEEEEEeCC
Confidence 6999999999965 888886 569999999999999999999999994 5678899999999999999999876
No 12
>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=99.83 E-value=4.2e-21 Score=136.51 Aligned_cols=73 Identities=25% Similarity=0.424 Sum_probs=64.7
Q ss_pred cCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCC
Q 045948 11 TQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYV 88 (184)
Q Consensus 11 ~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~ 88 (184)
..|+++|+++++++ |+|+++ +|++++|+|+|||+|||++|+|++|+ .++++.+.+|.++|||+||++|++.|+
T Consensus 3 ~~P~~~L~~~~~k~--V~V~Lk--~g~~~~G~L~~~D~~mNlvL~d~~e~-~~~~~~~~lg~v~iRG~~I~~i~~~~~ 75 (75)
T 4emk_B 3 SSPNEFLNKVIGKK--VLIRLS--SGVDYKGILSCLDGYMNLALERTEEY-VNGKKTNVYGDAFIRGNNVLYVSALDD 75 (75)
T ss_dssp SHHHHHHHHTTTSE--EEEECT--TSCEEEEEEEEECTTCEEEEEEEEEE-ETTEEEEEEEEEEEEGGGSSEEEEC--
T ss_pred CchHHHHHHhCCCe--EEEEEc--CCcEEEEEEEEEcCcceEEEccEEEE-ecCCcccEecEEEEcCCeEEEEEecCC
Confidence 36999999999965 888876 56999999999999999999999998 577788999999999999999998763
No 13
>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=99.83 E-value=1.1e-20 Score=140.64 Aligned_cols=78 Identities=24% Similarity=0.391 Sum_probs=67.9
Q ss_pred ceecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEec------CcceeecCeEEEeCCcEE
Q 045948 8 RIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVK------KKSRKPLGRILLKGDNIT 81 (184)
Q Consensus 8 ~~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~d------g~~~r~LG~v~IRGdNVv 81 (184)
.-|+.|+++|+++++++ |.|+++ +||+++|+|+|||+||||+|+||+|++.+ +...+.+|.++|||+||+
T Consensus 6 ~~~~~p~~~L~~~i~k~--V~V~Lk--~gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nVv 81 (96)
T 3bw1_A 6 HHMETPLDLLKLNLDER--VYIKLR--GARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEELSESERRCEMVFIRGDTVT 81 (96)
T ss_dssp CCCCCHHHHHGGGTTSE--EEEEEG--GGCEEEEEEEEECTTCCEEEEEEEEEEECCSTTCCCEEEEEEEEEEECGGGEE
T ss_pred hhhhhHHHHHHHHCCCe--EEEEEC--CCcEEEEEEEEECCCCcEEEcCEEEEeccccccccCcceeEcCEEEECCCEEE
Confidence 46899999999999976 888876 46999999999999999999999999754 345788999999999999
Q ss_pred EEEecCCC
Q 045948 82 LMMNTYVN 89 (184)
Q Consensus 82 ~I~~~d~~ 89 (184)
+|.+++..
T Consensus 82 ~I~~~d~~ 89 (96)
T 3bw1_A 82 LISTPSED 89 (96)
T ss_dssp EEECCC--
T ss_pred EEEecCcc
Confidence 99998754
No 14
>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=99.82 E-value=1.6e-20 Score=134.01 Aligned_cols=72 Identities=13% Similarity=0.180 Sum_probs=64.8
Q ss_pred cCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecC
Q 045948 11 TQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTY 87 (184)
Q Consensus 11 ~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d 87 (184)
..|+++|+++++++ |+|++| +|++++|+|+|||+|||++|+|++|+. ++.+.+.+|.++|||+||.+|..||
T Consensus 4 ~~P~~~L~~~~g~~--V~VeLk--~g~~~~G~L~~~D~~MNl~L~~~~e~~-~~~~~~~lg~v~IRG~nI~~i~lPd 75 (75)
T 1d3b_A 4 GVPIKVLHEAEGHI--VTCETN--TGEVYRGKLIEAEDNMNCQMSNITVTY-RDGRVAQLEQVYIRGCKIRFLILPD 75 (75)
T ss_dssp CCHHHHHHHTTTSE--EEEEET--TSCEEEEEEEEECTTCCEEEEEEEEEC-TTSCEEEEEEEEECGGGEEEEEECC
T ss_pred cCHHHHHHHhCCCE--EEEEEC--CCcEEEEEEEEEccceeEEEEeEEEEC-CCCcEEEcCeEEEeCCEEEEEEcCC
Confidence 57999999999965 999887 469999999999999999999999984 4446889999999999999999876
No 15
>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=99.82 E-value=1.1e-20 Score=140.48 Aligned_cols=76 Identities=24% Similarity=0.377 Sum_probs=60.5
Q ss_pred cceecCccHHHHHHhcCCceEEEEEEeCCC-eEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEe
Q 045948 7 QRIMTQPINLIFRFLQSKARIQIWLFEQKD-LRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMN 85 (184)
Q Consensus 7 ~~~m~~PL~lL~k~L~Kr~~V~V~LK~~~G-r~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~ 85 (184)
......|+++|+++++++ |+|+++ +| ++++|+|+|||+|||++|+|++|+ .++++.+.+|.++|||+||++|.+
T Consensus 16 ~~~~~~P~~~L~~~i~k~--V~V~Lk--~g~~~~~G~L~~~D~~MNlvL~d~~E~-~~~~~~~~lg~v~IRG~nI~~I~~ 90 (93)
T 1n9r_A 16 AMQPVNPKPFLKGLVNHR--VGVKLK--FNSTEYRGTLVSTDNYFNLQLNEAEEF-VAGVSHGTLGEIFIRCNNVLYIRE 90 (93)
T ss_dssp ----------CGGGTTSE--EEEEES--STTEEEEEEEEECCTTTCEEEEEEEEE-ETTEEEEECCSEEECGGGEEEEEE
T ss_pred ccccCChHHHHHHhCCCE--EEEEEc--CCCEEEEEEEEEEccccEEEEeeEEEE-cCCCeEeEcCEEEEcCCeEEEEEe
Confidence 346679999999999965 999887 46 999999999999999999999998 477788999999999999999998
Q ss_pred cC
Q 045948 86 TY 87 (184)
Q Consensus 86 ~d 87 (184)
++
T Consensus 91 ~~ 92 (93)
T 1n9r_A 91 LP 92 (93)
T ss_dssp CC
T ss_pred CC
Confidence 75
No 16
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=99.82 E-value=2.2e-20 Score=138.63 Aligned_cols=75 Identities=27% Similarity=0.499 Sum_probs=62.4
Q ss_pred ceecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEec----C--------cceeecCeEEE
Q 045948 8 RIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVK----K--------KSRKPLGRILL 75 (184)
Q Consensus 8 ~~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~d----g--------~~~r~LG~v~I 75 (184)
..+..|+++|+++++++ |.|+++ +||+++|+|+|||+||||+|+|++|++.+ + ..++.+|.++|
T Consensus 5 ~~~~~Pl~lL~~~~~~~--V~V~l~--~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~v~i 80 (93)
T 4emg_A 5 QAVAEPLDLVRLSLDEI--VYVKLR--GDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFV 80 (93)
T ss_dssp ----CTTHHHHTTTTSE--EEEEET--TTEEEEEEEEEECTTCCEEEEEEEEEEC--------------CEEEEEEEEEE
T ss_pred cccCCCHHHHHHhCCCE--EEEEEC--CCcEEEEEEEEECCcccEEeecEEEEEeccccCCccccccccccEeEeceEEE
Confidence 35679999999999975 888775 67999999999999999999999999752 2 24789999999
Q ss_pred eCCcEEEEEec
Q 045948 76 KGDNITLMMNT 86 (184)
Q Consensus 76 RGdNVv~I~~~ 86 (184)
||+||++|+++
T Consensus 81 RG~nVv~I~p~ 91 (93)
T 4emg_A 81 RGDSVILIAPP 91 (93)
T ss_dssp CGGGEEEEECC
T ss_pred CCCeEEEEEec
Confidence 99999999975
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=99.80 E-value=5.7e-20 Score=139.82 Aligned_cols=76 Identities=21% Similarity=0.211 Sum_probs=55.2
Q ss_pred ecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCC
Q 045948 10 MTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVN 89 (184)
Q Consensus 10 m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~ 89 (184)
--.|+++|+++++++ |+|++| +|++++|+|+|||+|||++|+|++|+..++++.+.+|.++|||+||++|..+|..
T Consensus 14 ~~~p~~lL~~~igk~--V~V~Lk--~G~~~~G~L~~~D~~MNlvL~d~~e~~~dg~~~~~lg~v~IRG~nI~~I~~pd~l 89 (105)
T 4emh_A 14 PMLPLTLLNATQGRP--ILVELK--NGETFNGHLENCDNYMNLTLREVIRTMPDGDKFFRLPECYIRGNNIKYLRIQDEV 89 (105)
T ss_dssp ------------CCE--EEEEET--TSCEEEEEEEEECTTCCEEEEEEEEECTTSCEEEEEEEEEECGGGEEEEEC----
T ss_pred CCcHHHHHHHhCCCE--EEEEEC--CCCEEEEEEEEEcCCceEEEEEEEEEccCCceeeEcCeEEEeCCeEEEEecCHHH
Confidence 347999999999975 999887 4699999999999999999999999966777788999999999999999998844
No 18
>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=99.79 E-value=1.5e-19 Score=128.88 Aligned_cols=71 Identities=24% Similarity=0.482 Sum_probs=50.3
Q ss_pred ccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCC
Q 045948 13 PINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYV 88 (184)
Q Consensus 13 PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~ 88 (184)
|-++|+++++++ |.|+++ +||+++|+|+|||+|||++|+|++|+. ++++.+.+|.++|||+||++|++.|+
T Consensus 5 ~~~~L~~~~~k~--V~V~Lk--~gr~~~G~L~~~D~~mNlvL~~~~e~~-~~~~~~~lg~v~iRG~~I~~i~~~d~ 75 (76)
T 3s6n_G 5 HPPELKKFMDKK--LSLKLN--GGRHVQGILRGFDPFMNLVIDECVEMA-TSGQQNNIGMVVIRGNSIIMLEALER 75 (76)
T ss_dssp ---------CCE--EEEEET--TTEEEEEEEEEECTTCCEEEEEEEECC-CC----CBSSEEECSSSEEEEEC---
T ss_pred chHHHHHhCCCe--EEEEEC--CCcEEEEEEEEECCcceEEEeceEEEc-cCCcEeEcCEEEECCCeEEEEEeccC
Confidence 567899999976 888776 569999999999999999999999984 45577899999999999999999874
No 19
>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=99.79 E-value=1.5e-19 Score=138.95 Aligned_cols=79 Identities=18% Similarity=0.415 Sum_probs=63.5
Q ss_pred eecCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEec------C-------cceeecCeEEE
Q 045948 9 IMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVK------K-------KSRKPLGRILL 75 (184)
Q Consensus 9 ~m~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~d------g-------~~~r~LG~v~I 75 (184)
.+.+|+++|++++++.++|.|+++ +||++.|+|+|||+||||+|+|++|++.. + +.++.+|.++|
T Consensus 24 ~~~~Pl~lL~~~~~~~k~V~V~Lk--~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~I 101 (118)
T 1b34_B 24 FNTGPLSVLTQSVKNNTQVLINCR--NNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFL 101 (118)
T ss_dssp --CCHHHHHHHHHHHTCEEEEEET--TSCEEEEEEEEECTTCCEEEEEEEEC-------------------CEEEEEEEE
T ss_pred cccChHHHHHHHhcCCcEEEEEEC--CCcEEEEEEEEeCCceEEEEeCEEEEEecccccccccccccccccccCcCeEEE
Confidence 578999999999974346999886 56999999999999999999999998632 1 12567999999
Q ss_pred eCCcEEEEEecCCC
Q 045948 76 KGDNITLMMNTYVN 89 (184)
Q Consensus 76 RGdNVv~I~~~d~~ 89 (184)
|||||++|.+.+..
T Consensus 102 RG~nVv~I~~~~~~ 115 (118)
T 1b34_B 102 RGDSVIVVLRNPLI 115 (118)
T ss_dssp CGGGEEEEEECCCC
T ss_pred cCCEEEEEEeCchh
Confidence 99999999998753
No 20
>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=99.76 E-value=6.1e-19 Score=135.98 Aligned_cols=74 Identities=19% Similarity=0.328 Sum_probs=65.8
Q ss_pred cCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCC
Q 045948 11 TQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVN 89 (184)
Q Consensus 11 ~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~ 89 (184)
+.|+++|+++++++ |+|+|+ +|++|+|+|+|||+|||++|+||+|+ .++.+.+.+|.++||||||++|.++|.-
T Consensus 1 M~p~~~L~~~~gk~--V~V~Lk--~g~~~~G~L~~~D~~MNlvL~d~~e~-~~~~~~~~lg~v~IRG~nI~~I~~pd~l 74 (119)
T 1b34_A 1 MKLVRFLMKLSHET--VTIELK--NGTQVHGTITGVDVSMNTHLKAVKMT-LKNREPVQLETLSIRGNNIRYFILPDSL 74 (119)
T ss_dssp -CHHHHHHTCTTCE--EEEEET--TCCEEEEEEEEECTTCCEEEEEEEEE-CTTSCCEEEEEEEECGGGEEEEECCTTC
T ss_pred CChHHHHHHhCCCE--EEEEEc--CCCEEEEEEEEEcccceEEeccEEEe-cCCCceeEcceEEEcCCeEEEEEecccc
Confidence 36999999999965 999886 56999999999999999999999998 4556778999999999999999999863
No 21
>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=99.76 E-value=7e-19 Score=128.50 Aligned_cols=74 Identities=22% Similarity=0.372 Sum_probs=61.8
Q ss_pred CccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEe---------cCcceeecCeEEEeCCcEEE
Q 045948 12 QPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSV---------KKKSRKPLGRILLKGDNITL 82 (184)
Q Consensus 12 ~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~---------dg~~~r~LG~v~IRGdNVv~ 82 (184)
.|...|.++++++ |.|+++ +||+++|+|+|||+||||+|+||+|++. ++...+.+|.++|||+||++
T Consensus 4 ~~~~~L~~~~~k~--V~V~l~--~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~v~iRG~~I~~ 79 (91)
T 1d3b_B 4 GKSSKMLQHIDYR--MRCILQ--DGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVS 79 (91)
T ss_dssp ---CCCGGGTTSE--EEEEET--TCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEE
T ss_pred ChhHHHHHHcCCc--EEEEEC--CCeEEEEEEEEECCCCeEEecCEEEEeeccccccccccCccEeECCEEEECCCeEEE
Confidence 4677889999976 888775 6799999999999999999999999753 23467899999999999999
Q ss_pred EEecCCC
Q 045948 83 MMNTYVN 89 (184)
Q Consensus 83 I~~~d~~ 89 (184)
|...++.
T Consensus 80 i~~~~~~ 86 (91)
T 1d3b_B 80 MTVEGPP 86 (91)
T ss_dssp EEEEECC
T ss_pred EEcCCCC
Confidence 9998754
No 22
>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=99.73 E-value=4.9e-18 Score=132.91 Aligned_cols=74 Identities=12% Similarity=0.185 Sum_probs=65.4
Q ss_pred cCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCC
Q 045948 11 TQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVN 89 (184)
Q Consensus 11 ~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~ 89 (184)
..|+++|+++++++ |+|+||+ |++|+|+|.+||+|||++|+|++|+. ++.+...++.++|||+||.+|..+|.-
T Consensus 4 ~~P~~~L~~~~gk~--V~VeLkn--G~~~~G~L~~~D~~MNi~L~dv~e~~-~~g~~~~l~~v~IRGnnI~~I~lpd~l 77 (126)
T 2y9a_D 4 GVPIKVLHEAEGHI--VTCETNT--GEVYRGKLIEAEDNMNCQMSNITVTY-RDGRVAQLEQVYIRGSKIRFLILPDML 77 (126)
T ss_dssp CCSHHHHHSCSSCE--EEEEESS--CCEEEEEEEEECTTSCEEEEEEEEEC-TTSCCEEEEEEEECGGGEEEEECCSSC
T ss_pred ccHHHHHHHhCCCE--EEEEECC--CcEEEEEEEEEcCceEEEEeeEEEEc-CCCcEeecccEEEeCCEEEEEEccccc
Confidence 57999999999965 9999875 59999999999999999999999984 334578999999999999999988743
No 23
>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=99.71 E-value=3.4e-17 Score=139.78 Aligned_cols=74 Identities=22% Similarity=0.376 Sum_probs=63.6
Q ss_pred cCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEe---------cCcceeecCeEEEeCCcEE
Q 045948 11 TQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSV---------KKKSRKPLGRILLKGDNIT 81 (184)
Q Consensus 11 ~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~---------dg~~~r~LG~v~IRGdNVv 81 (184)
.++-..|.++++|+ |.|+++ +||+|+|+|++||+||||||+|++|++. ++++++++|.++||||||+
T Consensus 3 v~k~~kL~klIdKr--V~V~Lk--dGRel~GtLkgFDq~MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGlV~IRGdnIV 78 (231)
T 3pgw_B 3 VGKSSKMLQHIDYR--MRCILQ--DGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLV 78 (231)
T ss_pred cCchHHHHHhcCCe--EEEEEC--CCcEEEEEEEEEcccccEEecCEEEEEeccCcccccccccceeEeceEEECCCcEE
Confidence 35667889999987 777775 5699999999999999999999999863 1347899999999999999
Q ss_pred EEEecCC
Q 045948 82 LMMNTYV 88 (184)
Q Consensus 82 ~I~~~d~ 88 (184)
+|+..++
T Consensus 79 ~Isve~p 85 (231)
T 3pgw_B 79 SMTVEGP 85 (231)
T ss_pred EEEecCC
Confidence 9998763
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=99.61 E-value=5.3e-16 Score=121.92 Aligned_cols=66 Identities=18% Similarity=0.222 Sum_probs=58.5
Q ss_pred HHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCC
Q 045948 15 NLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVN 89 (184)
Q Consensus 15 ~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~ 89 (184)
++|+++++++ |+|+|+ +|++++|+|+|||+|||++|+|++|+ + .+.+|.++|||+||++|.++|+.
T Consensus 3 ~~L~~~igk~--V~V~Lk--~G~~~~G~L~~~D~~MNlvL~d~~E~--~---~~~lg~v~IRG~nI~~I~~~d~~ 68 (130)
T 1m5q_A 3 AELNNLLGRE--VQVVLS--NGEVYKGVLHAVDNQLNIVLANASNK--A---GEKFNRVFIMYRYIVHIDSTERR 68 (130)
T ss_dssp HHHHHTTTSE--EEEEET--TSCEEEEEEEEECTTCCEEEEEEECT--T---CCEEEEEEECGGGEEEEEECCCC
T ss_pred hHHHHhCCCe--EEEEEC--CCcEEEEEEEEEcccceeEEeeEEEE--c---CCEeceEEEeCCeEEEEEcCCcc
Confidence 5789999975 888886 56999999999999999999999997 2 36899999999999999998854
No 25
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=97.78 E-value=7.5e-05 Score=55.16 Aligned_cols=67 Identities=10% Similarity=0.170 Sum_probs=53.9
Q ss_pred cCccHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEc-CccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCC
Q 045948 11 TQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFD-EYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVN 89 (184)
Q Consensus 11 ~~PL~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD-~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~ 89 (184)
..|+++ +.+++|+ |.|.+ .+|+.|+|.|.+|| .-.|++|.|+. +......++|-|..|.-|...++.
T Consensus 7 ~~p~el-~~li~Ke--V~V~l--~dg~~y~G~l~tvDp~s~sIvL~n~~-------~~~~~~~~iI~G~aI~eI~v~~~~ 74 (86)
T 1y96_A 7 KGPLEW-QDYIYKE--VRVTA--SEKNEYKGWVLTTDPVSANIVLVNFL-------EDGSMSVTGIMGHAVQTVETMNEG 74 (86)
T ss_dssp SCHHHH-HHTTTCE--EEEEE--TTTEEEEEEEEEECTTTCCEEEEEEC-------TTSCEEEEEECGGGEEEEEEEECC
T ss_pred CCHHHH-HhhcCCE--EEEEE--cCCCEEEEEEEEECCCceEEEEeecc-------cCCeEEEEEEecceEEEEEEecch
Confidence 468855 8899987 77766 56799999999999 99999999981 123357799999999998887644
No 26
>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=96.60 E-value=0.002 Score=47.25 Aligned_cols=58 Identities=14% Similarity=0.356 Sum_probs=42.0
Q ss_pred HHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCC
Q 045948 15 NLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYV 88 (184)
Q Consensus 15 ~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~ 88 (184)
.+|+.+..++.+|+|.|. +|..++|.++|||+|+=+.-.+ +..+|==..|..|.+..+
T Consensus 10 ~fLn~lrk~~~~Vtv~L~--NG~~l~G~I~~fD~ftVlL~~~--------------~qqLVYKHAISTI~p~~~ 67 (82)
T 1u1s_A 10 PYLNTLRKERVPVSIYLV--NGIKLQGQIESFDQFVILLKNT--------------VSQMVYKHAISTVVPSRP 67 (82)
T ss_dssp HHHHHHHHTTCCEEEEET--TSCEEEEEEEEECSSEEEEESS--------------SCEEEEGGGEEEEEESSC
T ss_pred HHHHHHHHcCCcEEEEEe--CCcEEEEEEEEEcceEEEEecC--------------ceEEEEeeeeEEEeeccc
Confidence 478888888999999997 4699999999999998555211 123444456666666553
No 27
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=96.52 E-value=0.0018 Score=47.07 Aligned_cols=37 Identities=16% Similarity=0.575 Sum_probs=31.9
Q ss_pred HHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceE
Q 045948 15 NLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLV 53 (184)
Q Consensus 15 ~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLV 53 (184)
.+|+.+..++.+|+|.|. +|..++|.+.|||+|+=+.
T Consensus 14 ~fLn~lrk~~~~Vtv~L~--nG~~l~G~I~~fD~f~VlL 50 (78)
T 3ahu_A 14 QFLNQIRKENTYVTVFLL--NGFQLRGQVKGFDNFTVLL 50 (78)
T ss_dssp HHHHHHHHHTCCEEEEET--TSCEEEEEEEEECSSEEEE
T ss_pred HHHHHHHHcCCcEEEEEe--CCeEEEEEEEEEcceEEEE
Confidence 467888888899999997 4699999999999998655
No 28
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=96.51 E-value=0.0025 Score=46.40 Aligned_cols=61 Identities=13% Similarity=0.327 Sum_probs=46.1
Q ss_pred cHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCCc
Q 045948 14 INLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVNS 90 (184)
Q Consensus 14 L~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~~ 90 (184)
-.+|+.+..++.+|+|.|.+ |..++|.+.+||+|+=+. ++ | ...+|-=..|..|.+..+.+
T Consensus 10 d~fLn~lrk~k~~VtI~Lvn--G~~L~G~I~~fD~f~VlL-~~-------g------~~qLIYKhAISTI~P~~~v~ 70 (79)
T 3sb2_A 10 DPFLNALRKEHVPVSIYLVN--GIKLQGHVESFDQYVVLL-RN-------T------VTQMVYKHAISTVVPARAVN 70 (79)
T ss_dssp HHHHHHHHHTTCCEEEEETT--SCEEEEEEEEECSSEEEE-ES-------S------SEEEEEGGGEEEEEESSCCC
T ss_pred HHHHHHHHhcCCeEEEEEeC--CCEEEEEEEEECCcEEEE-EC-------C------ceEEEEeeeEEEEeecCcee
Confidence 35788999999999999975 599999999999998554 21 1 12456667888888876543
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=96.46 E-value=0.0021 Score=46.10 Aligned_cols=58 Identities=14% Similarity=0.362 Sum_probs=44.3
Q ss_pred HHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCC
Q 045948 15 NLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYV 88 (184)
Q Consensus 15 ~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~ 88 (184)
.+|+.+..++.+|+|.|. +|..++|++.+||+|+=+.- +. ...+|-=..|..|.+..+
T Consensus 12 ~~L~~lrk~k~~Vti~L~--nG~~l~G~I~~fD~f~vlL~-~~-------------~~~LIYKhAIsTI~p~~~ 69 (74)
T 2ylb_A 12 PFLNALRRERVPVSIYLV--NGIKLQGQIESFDQFVILLK-NT-------------VSQMVYKHAISTVVPSRP 69 (74)
T ss_dssp HHHHHHHHHTCCEEEEET--TSCEEEEEEEEECSSEEEEE-SS-------------SEEEEEGGGEEEEEESSC
T ss_pred HHHHHHHhcCCcEEEEEe--CCCEEEEEEEEECCcEEEEE-CC-------------ceEEEEeeeEEEEeEccc
Confidence 578889888899999997 46999999999999985442 21 235666677888877653
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=96.46 E-value=0.0022 Score=46.30 Aligned_cols=37 Identities=14% Similarity=0.468 Sum_probs=32.0
Q ss_pred HHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceE
Q 045948 15 NLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLV 53 (184)
Q Consensus 15 ~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLV 53 (184)
.+|+.+..++.+|+|.|. +|..++|++.+||+|+=+.
T Consensus 10 ~fLn~lrk~k~~VtI~L~--nG~~l~G~I~~fD~f~VlL 46 (77)
T 1kq1_A 10 KALENFKANQTEVTVFFL--NGFQMKGVIEEYDKYVVSL 46 (77)
T ss_dssp HHHHHHHHHTCEEEEEET--TSCEEEEEEEEECSSEEEE
T ss_pred HHHHHHHhcCCeEEEEEe--CCCEEEEEEEEECCcEEEE
Confidence 478888888899999997 4599999999999998555
No 31
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=96.34 E-value=0.0033 Score=47.90 Aligned_cols=59 Identities=14% Similarity=0.348 Sum_probs=44.7
Q ss_pred HHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecCCC
Q 045948 15 NLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTYVN 89 (184)
Q Consensus 15 ~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d~~ 89 (184)
.+|+.+..++.+|+|.|.+ |..++|++.+||+|+=+.-++ ...+|-=..|..|.+..+.
T Consensus 12 ~fLn~lrk~k~~VtI~LvN--G~~L~G~I~~fD~f~VlL~~~--------------kqqLIYKHAISTI~p~~~v 70 (104)
T 2y90_A 12 PFLNALRRERVPVSIYLVN--GIKLQGQIESFDQFVILLKNT--------------VSQMVYKHAISTVVPSRPV 70 (104)
T ss_dssp HHHHHHHHTTCCEEEEETT--SCEEEEEEEEECSSEEEEESS--------------SEEEEEGGGEEEEEESSCC
T ss_pred HHHHHHHhcCCcEEEEEeC--CCEEEEEEEEECCcEEEEECC--------------ceEEEEeeeeEEEeecccc
Confidence 5789999999999999974 599999999999998554322 2245555777777776644
No 32
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=96.10 E-value=0.0029 Score=45.20 Aligned_cols=36 Identities=14% Similarity=0.318 Sum_probs=30.4
Q ss_pred HHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceE
Q 045948 16 LIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLV 53 (184)
Q Consensus 16 lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLV 53 (184)
+|+....++.+|+|.|. +|..++|.++|||+|+=+.
T Consensus 17 fLn~~r~~~~~Vtv~L~--NG~~l~G~I~~fD~ftVll 52 (71)
T 2qtx_A 17 FEYARRLNGKKVKIFLR--NGEVLDAEVTGVSNYEIMV 52 (71)
T ss_dssp CCGGGGGTTCEEEEEET--TSCEEEEEEEEECSSEEEE
T ss_pred HHHHHHHcCCcEEEEEe--CCeEEEEEEEEEcceEEEE
Confidence 45666788899999997 4699999999999998655
No 33
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=93.25 E-value=0.28 Score=34.96 Aligned_cols=63 Identities=19% Similarity=0.256 Sum_probs=44.6
Q ss_pred ecCc-cHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEEEec
Q 045948 10 MTQP-INLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNT 86 (184)
Q Consensus 10 m~~P-L~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~ 86 (184)
...| .+.|++++.++.+|.|+|. +|..++|++.-+|.|.=..-++. + ...+|.-..|.+|.+.
T Consensus 8 t~lPsvR~lQ~~Ik~k~~V~I~L~--tGd~l~G~i~WQD~~cl~L~~~~-~-----------~~~LI~R~AI~~Ikp~ 71 (72)
T 3hfn_A 8 TSLPSIRQLQNLIKQAAPVEIKLV--TGDAITGRVLWQDPTCVCIADEN-S-----------RQTTIWKQAIAYLQPK 71 (72)
T ss_dssp -CHHHHHHHHHHHSSCCEEEEEET--TSCEEEEEEEEECSSEEEEEC---------------CEEEEEGGGEEEEEEC
T ss_pred CCCCcHHHHHHHHhhCceEEEEec--CCCEEEEEEEEECCCEEEEEcCC-C-----------CeEEEEeeeeEEEEeC
Confidence 4456 7899999999989999885 56999999999999874443321 1 1256666777777653
No 34
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=91.13 E-value=0.42 Score=33.90 Aligned_cols=41 Identities=15% Similarity=0.110 Sum_probs=34.6
Q ss_pred cCc-cHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceE
Q 045948 11 TQP-INLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLV 53 (184)
Q Consensus 11 ~~P-L~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLV 53 (184)
..| ...|++++.++.+|.|+|. +|..++|++.-+|.|.=..
T Consensus 7 ~lPsvR~lQ~~ik~k~~V~I~L~--tG~~l~G~i~WQD~~cl~L 48 (70)
T 3hfo_A 7 GLPSVRQVQLLIKDQTPVEIKLL--TGDSLFGTIRWQDTDGLGL 48 (70)
T ss_dssp SCHHHHHHHHHHHHTCEEEEEET--TSCEEEEEEEEECSSEEEE
T ss_pred CCCcHHHHHHHHhhCceEEEEec--CCCEEEEEEEEeCCCEEEE
Confidence 456 7889999999989999886 5699999999999987544
No 35
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=86.47 E-value=4.3 Score=29.91 Aligned_cols=67 Identities=24% Similarity=0.344 Sum_probs=49.7
Q ss_pred HHhcCCceEEEEEEeCCCeEEEEEEEEEcCc-cceEEceeEEEEecCc--------ceeecCeEEEeCCcEEEEEecCCC
Q 045948 19 RFLQSKARIQIWLFEQKDLRIEGRIIGFDEY-MNLVLDEAEEVSVKKK--------SRKPLGRILLKGDNITLMMNTYVN 89 (184)
Q Consensus 19 k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~-MNLVLeDa~E~~~dg~--------~~r~LG~v~IRGdNVv~I~~~d~~ 89 (184)
.|++++ + .|..+.+..|+|+|...|.. --+.|+|+.-+..+|. ....++.++.||+.|.-+...+..
T Consensus 10 ~yIGs~--i--SLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~~~ipp~~~vy~yIvFrgsDIKdL~V~~~~ 85 (88)
T 2vxe_A 10 PELGSK--I--SLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQFQIAPQSQIYDYILFRGSDIKDIRVVNNH 85 (88)
T ss_dssp CCTTCE--E--EEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCSSCCCCCCSCEEEEEEETTTEEEEEECCCC
T ss_pred cccCCe--E--EEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCCCcccCCCCceeeEEEEccCCccEEEEeccC
Confidence 478876 4 44556779999999999976 4577999888765432 234567899999999988776543
No 36
>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=81.17 E-value=3.1 Score=31.05 Aligned_cols=68 Identities=18% Similarity=0.298 Sum_probs=48.9
Q ss_pred HHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCc-cceEEceeEEEEecCc--------ceeecCeEEEeCCcEEEEEecC
Q 045948 17 IFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEY-MNLVLDEAEEVSVKKK--------SRKPLGRILLKGDNITLMMNTY 87 (184)
Q Consensus 17 L~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~-MNLVLeDa~E~~~dg~--------~~r~LG~v~IRGdNVv~I~~~d 87 (184)
-..+++++ + .|..+.+..|+|+|...|.- --+.|+|+.-+..+|. ....++.++.||+.|.-+...+
T Consensus 14 ~~~~IGs~--I--SLISk~dIRYeGiL~~In~~~sTiaL~nVRsfGTEgR~~~~~ipp~~~vyeyIvFrGsDIKDL~V~e 89 (95)
T 2fb7_A 14 GTPYIGSK--I--SLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIAPRDETFEYIIFRGSDIKDLTVCE 89 (95)
T ss_dssp --CCSSEE--E--EEEETTTEEEEEEEEEEETTTTEEEEESCCCCSCCSSSCSSCCCSCCCCSSCEEECSTTEEEEEESC
T ss_pred cCcccCCe--E--EEEECCCceEEEEEecccCccCEEEEEeeeEecccCCCCCCccCCCCcceeEEEEcCCCcceEEEec
Confidence 35788976 4 44556779999999999954 5577888876654432 2345789999999999888765
Q ss_pred C
Q 045948 88 V 88 (184)
Q Consensus 88 ~ 88 (184)
+
T Consensus 90 ~ 90 (95)
T 2fb7_A 90 P 90 (95)
T ss_dssp C
T ss_pred C
Confidence 3
No 37
>1ycy_A Conserved hypothetical protein; structural genomics, southeast collaboratory for structural genomics, secsg, protein structure initiative; 2.80A {Pyrococcus furiosus} SCOP: b.38.1.4
Probab=70.41 E-value=18 Score=25.56 Aligned_cols=58 Identities=17% Similarity=0.327 Sum_probs=34.1
Q ss_pred HHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeCCcEEEE
Q 045948 16 LIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLM 83 (184)
Q Consensus 16 lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I 83 (184)
.|.++-++| |-+-+ ++...|+|+|.-||+-. +.|+|++.+. |.+ -..+++|=|.|--|
T Consensus 10 tL~~WKg~r--vAv~v--g~ehSFtGiledFDeEv-iLL~dV~D~~--GNk---~k~liv~idDinWi 67 (71)
T 1ycy_A 10 VLKEWKGHK--VAVSV--GGDHSFTGTLEDFDEEV-ILLKDVVDVI--GNR---GKQMLIGLEDINWI 67 (71)
T ss_dssp HHHHHTTSE--EEEEE--C----CEEEEEEECSSE-EEEEEEEETT--EEE---EEEEEEEGGGEEEE
T ss_pred HHHHhCCcE--EEEEe--cCcceeeeehhhcCcce-eehhhHHHHh--ccc---cceeEEEeccceEE
Confidence 456666766 44443 67789999999999975 6788988762 222 12355555555444
No 38
>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=70.12 E-value=3.4 Score=32.62 Aligned_cols=45 Identities=20% Similarity=0.329 Sum_probs=30.5
Q ss_pred CcccccceecCccHHHHHHhcCCceEEEEEEe--CCCeEEEEEEEEEcCc
Q 045948 2 ASTKVQRIMTQPINLIFRFLQSKARIQIWLFE--QKDLRIEGRIIGFDEY 49 (184)
Q Consensus 2 s~~~~~~~m~~PL~lL~k~L~Kr~~V~V~LK~--~~Gr~i~G~LvgfD~~ 49 (184)
||--.+|+...|-++ .+++++. |.|+++. ++.+.++|+|.++|+-
T Consensus 85 SSPGldRpL~~~~df-~r~~G~~--V~V~l~~~~~g~k~~~G~L~~~~~~ 131 (164)
T 1ib8_A 85 TSPGLERPLKTKDAV-AGAVGKY--IHVGLYQAIDKQKVFEGTLLAFEED 131 (164)
T ss_dssp ECCSSSSCCSSHHHH-HHHCSEE--EEEECSSCSSSCSEEEEEEEEEETT
T ss_pred eCCCCCCCCCCHHHH-HHhCCcE--EEEEEecccCCceEEEEEEEEEeCC
Confidence 443445566666655 5788865 7776632 3458999999999874
No 39
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=58.14 E-value=31 Score=25.18 Aligned_cols=62 Identities=13% Similarity=0.191 Sum_probs=42.3
Q ss_pred cHHHHHHhcCCceEEEEEEeCCCeEEEEEEEEEcCcc-ceEEceeEEEEecCcceeecCeEEEeCCcEEEEEe
Q 045948 14 INLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYM-NLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMN 85 (184)
Q Consensus 14 L~lL~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~M-NLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~ 85 (184)
|.+|..+.++ +|.+.+.. +.+..|+..++|... |+..+|- ++ .-..++..++|+.-|+.++.
T Consensus 21 Lr~l~~m~~~--~v~f~m~E--~t~V~a~F~a~d~d~~~f~Vs~L-~T-----PiGv~~eAlLR~~Dii~~sF 83 (85)
T 1y96_B 21 LRSLLAMVGH--QVSFTLHE--GVRVAAHFGATDLDVANFYVSQL-QT-----PIGVQAEALLRCSDIISYTF 83 (85)
T ss_dssp HHHHHHHTTS--EEEEEEGG--GCEEEEEEEEECTTCCEEEEEEE-CC-----TTCCEEEEEEEGGGEEEEEE
T ss_pred HHHHHHhCCC--ceEEEEeC--CeEEEEEEEecCcccceeEhhhc-CC-----CcccchhhhhhcCCEEEEEe
Confidence 5566666664 68887765 489999999999754 4433331 21 12235688999999998864
No 40
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=56.18 E-value=38 Score=24.68 Aligned_cols=61 Identities=16% Similarity=0.187 Sum_probs=45.0
Q ss_pred HHhcCCceEEEEEEeCCCe-EEEEEEEEEcCc-cceEEceeEEEEecCcceeecCeEEEeCCcEEEEEecC
Q 045948 19 RFLQSKARIQIWLFEQKDL-RIEGRIIGFDEY-MNLVLDEAEEVSVKKKSRKPLGRILLKGDNITLMMNTY 87 (184)
Q Consensus 19 k~L~Kr~~V~V~LK~~~Gr-~i~G~LvgfD~~-MNLVLeDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d 87 (184)
+++++. |.|..+ ++- .|+|.+..+|.. -|+.|.++ + ..|. +.....+.+|+.-|.-+...+
T Consensus 6 ~~iGs~--VSi~c~--d~lGvYQG~i~~vd~~~~tItL~~~--f-~NG~-~~~s~eVtls~~DI~~L~ii~ 68 (84)
T 2vc8_A 6 DWLGSI--VSINCG--DSLGVYQGRVSAVDQVSQTISLTRP--F-HNGV-KCLVPEVTFRAGDITELKILE 68 (84)
T ss_dssp TTTTCE--EEEECC--TTTCEEEEEEEEEETTTTEEEEEEE--E-ETTE-ECSSSEEEEEGGGCSEEEEEE
T ss_pred cccCCE--EEEEEC--CCceEEEEEEEEeccCCCeEEEehh--h-hCCC-CCCCcEEEEEecChhheEEEe
Confidence 578865 777665 445 899999999987 47999999 2 4554 445567999999877666654
No 41
>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=38.17 E-value=63 Score=27.20 Aligned_cols=45 Identities=22% Similarity=0.225 Sum_probs=30.9
Q ss_pred ceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeC
Q 045948 25 ARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKG 77 (184)
Q Consensus 25 ~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRG 77 (184)
++|.+.. ++..++|+.+|+|+.=.|++++... .+.-.-|.+.+|+
T Consensus 274 ~~V~v~~---~~~~~~G~~~gid~~G~L~v~~~~g-----~~~~~~Gev~~r~ 318 (321)
T 1bia_A 274 RPVKLII---GDKEIFGISRGIDKQGALLLEQDGI-----IKPWMGGEISLRS 318 (321)
T ss_dssp SEEEEEE---TTEEEEEEEEEECTTSCEEEEETTE-----EEEESSCEEEEC-
T ss_pred CEEEEEE---CCcEEEEEEEEECCCCeEEEEECCC-----EEEEEeeeEEEec
Confidence 4677753 4578999999999999999975322 1223456777764
No 42
>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=37.30 E-value=47 Score=27.65 Aligned_cols=31 Identities=23% Similarity=0.294 Sum_probs=24.7
Q ss_pred ceEEEEEEeCCCeEEEEEEEEEcCccceEEcee
Q 045948 25 ARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEA 57 (184)
Q Consensus 25 ~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa 57 (184)
++|++.. .+|+.++|+.+|+|+.=.|++++.
T Consensus 225 ~~V~v~~--~~~~~~~G~~~gId~~G~L~v~~~ 255 (270)
T 3rux_A 225 SRVRVEL--PGGQDVVGIARDIDDQGRLCLDVG 255 (270)
T ss_dssp SEEEEEC--TTSCEEEEEEEEECTTSCEEEEET
T ss_pred CEEEEEE--CCCeEEEEEEEEECCCCeEEEEEC
Confidence 4576643 356889999999999999999764
No 43
>2xk0_A Polycomb protein PCL; transcription, aromatic CAGE; NMR {Drosophila melanogaster}
Probab=36.06 E-value=92 Score=21.88 Aligned_cols=35 Identities=20% Similarity=0.081 Sum_probs=23.3
Q ss_pred eEEEEEEeCCCeEEEEEEEEEcCccceEE-ceeEEEEe
Q 045948 26 RIQIWLFEQKDLRIEGRIIGFDEYMNLVL-DEAEEVSV 62 (184)
Q Consensus 26 ~V~V~LK~~~Gr~i~G~LvgfD~~MNLVL-eDa~E~~~ 62 (184)
.|.+ +..||+.|-|+++...+.-=+|. +|-.|.|-
T Consensus 21 DVL~--rw~DG~fYLGtIVd~~~~~ClV~FeD~S~~Wv 56 (69)
T 2xk0_A 21 DVFI--KCNDGRFYLGTIIDQTSDQYLIRFDDQSEQWC 56 (69)
T ss_dssp EEEE--ECTTSCEEEEEEEEECSSCEEEEETTCCEEEE
T ss_pred eEEE--EecCCCEEEEEEEecCCceEEEEecCCcceee
Confidence 4776 56789999999976665544444 55555554
No 44
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=35.57 E-value=32 Score=26.72 Aligned_cols=54 Identities=22% Similarity=0.272 Sum_probs=38.7
Q ss_pred HHHhcCCceEEEEEEeCCCeEEEEEEEEEcCccceEE--ceeEEEEecCcceeecCeEEEeCCcEEEEEecC
Q 045948 18 FRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVL--DEAEEVSVKKKSRKPLGRILLKGDNITLMMNTY 87 (184)
Q Consensus 18 ~k~L~Kr~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVL--eDa~E~~~dg~~~r~LG~v~IRGdNVv~I~~~d 87 (184)
.+|++.. |.|.|+ +|..++|++..+|. =+|.| .||..-+ .-|+...|.-+...+
T Consensus 8 sqFlGy~--V~v~Lk--Dgs~~qG~I~~vd~-k~LtL~~~~a~~s~-----------~~I~asdI~DLkVl~ 63 (125)
T 4a53_A 8 ADFYGSN--VEVLLN--NDSKARGVITNFDS-SNSILQLRLANDST-----------KSIVTKDIKDLRILP 63 (125)
T ss_dssp HHHTTCE--EEEEET--TSCEEEEEEEEEET-TTTEEEEEETTTEE-----------EEEEGGGEEEEEECC
T ss_pred HHhcCce--EEEEEC--CCCEeeEEEEeecC-CeeEEecccccccc-----------ceeecccccceeeee
Confidence 6789976 888886 56899999999985 46777 8874321 167777776555544
No 45
>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=30.63 E-value=32 Score=27.93 Aligned_cols=44 Identities=16% Similarity=0.260 Sum_probs=28.9
Q ss_pred ceEEEEEEeCCCeEEEEEEEEEcCccceEEceeEEEEecCcceeecCeEEEeC
Q 045948 25 ARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDEAEEVSVKKKSRKPLGRILLKG 77 (184)
Q Consensus 25 ~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeDa~E~~~dg~~~r~LG~v~IRG 77 (184)
++|.+.. ++. ++|+.+|+|+.=.|++++... .+.-.-|.+.+|+
T Consensus 189 ~~V~v~~---~~~-~~G~~~gId~~G~L~v~~~~G-----~~~~~~Gev~~r~ 232 (233)
T 2eay_A 189 EEVKLLG---EGK-ITGKLVGLSEKGGALILTEEG-----IKEILSGEFSLRR 232 (233)
T ss_dssp SEEEETT---EEE-EEEEEEEECTTSCEEEEETTE-----EEEECSCCEEEC-
T ss_pred CEEEEEE---CCe-EEEEEEEECCCCeEEEEECCC-----eEEEEEeEEEEec
Confidence 4577743 235 999999999999999975322 2222356676664
No 46
>2ej9_A Putative biotin ligase; biotin biosynthesis, monomer, X-RAY diffraction, structural genomics, NPPSFA; HET: BTN; 2.00A {Methanocaldococcus jannaschii}
Probab=24.15 E-value=1.1e+02 Score=24.65 Aligned_cols=29 Identities=17% Similarity=0.266 Sum_probs=22.3
Q ss_pred ceEEEEEEeCCCeEEEEEEEEEcCccceEEce
Q 045948 25 ARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDE 56 (184)
Q Consensus 25 ~~V~V~LK~~~Gr~i~G~LvgfD~~MNLVLeD 56 (184)
++|.+.. +++..++|+.+|+|+.=.|+ ++
T Consensus 193 ~~V~v~~--~~~~~~~G~~~gId~~G~L~-~~ 221 (237)
T 2ej9_A 193 KQVKILL--SNNEIITGKVYDIDFDGIVL-GT 221 (237)
T ss_dssp CEEEEEE--TTSCEEEEEEEEECSSEEEE-EE
T ss_pred CEEEEEE--CCCeEEEEEEEEECCCCeEE-Ec
Confidence 4677754 44444999999999999998 65
Done!