Query 011128
Match_columns 493
No_of_seqs 148 out of 200
Neff 3.1
Searched_HMMs 29240
Date Mon Mar 25 21:23:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011128.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/011128hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2fb7_A SM-like protein, LSM-14 100.0 2.3E-37 7.9E-42 262.7 8.2 72 14-86 11-83 (95)
2 2vxe_A CG10686-PA; EDC3, CAR-1 100.0 3.9E-36 1.3E-40 252.3 10.1 70 16-86 7-77 (88)
3 2vc8_A Enhancer of mRNA-decapp 99.3 3.5E-12 1.2E-16 106.7 5.6 60 15-86 2-62 (84)
4 3pgw_B SM B; protein-RNA compl 97.3 0.0051 1.8E-07 59.6 15.5 70 16-86 8-78 (231)
5 2rm4_A CG6311-PB, DM EDC3; enh 96.8 0.0033 1.1E-07 54.3 7.6 58 16-86 6-65 (103)
6 1i4k_A Putative snRNP SM-like 96.2 0.0047 1.6E-07 49.0 4.5 58 18-86 10-68 (77)
7 1y96_A Gemin6, SIP2, GEM-assoc 96.2 0.0095 3.3E-07 50.1 6.4 54 18-86 13-66 (86)
8 1i8f_A Putative snRNP SM-like 96.1 0.0051 1.7E-07 49.6 4.1 57 18-86 17-74 (81)
9 3s6n_G Small nuclear ribonucle 95.9 0.01 3.5E-07 47.3 5.4 60 16-86 8-68 (76)
10 1th7_A SnRNP-2, small nuclear 95.9 0.0074 2.5E-07 48.5 4.5 58 18-86 15-73 (81)
11 1d3b_B Protein (small nuclear 95.9 0.012 4E-07 48.1 5.7 70 16-86 8-78 (91)
12 4a53_A EDC3; RNA binding prote 95.7 0.0092 3.1E-07 53.3 4.4 52 16-86 6-57 (125)
13 1d3b_A Protein (small nuclear 95.6 0.014 4.9E-07 46.6 5.0 57 19-86 12-69 (75)
14 1h64_1 SnRNP SM-like protein; 95.5 0.012 4.2E-07 46.4 4.3 58 18-86 10-68 (75)
15 4emk_C U6 snRNA-associated SM- 95.3 0.026 9E-07 48.7 6.1 77 15-96 26-103 (113)
16 4emk_A U6 snRNA-associated SM- 94.9 0.047 1.6E-06 45.9 6.2 59 18-86 26-85 (94)
17 1mgq_A SM-like protein; LSM, R 94.9 0.021 7.3E-07 46.2 3.9 59 17-86 20-79 (83)
18 1b34_A Protein (small nuclear 94.8 0.041 1.4E-06 47.7 5.7 58 18-86 8-66 (119)
19 4emh_A Probable U6 snRNA-assoc 94.7 0.028 9.7E-07 48.1 4.4 59 18-86 22-81 (105)
20 4emk_B U6 snRNA-associated SM- 94.7 0.034 1.2E-06 44.1 4.5 58 18-86 10-68 (75)
21 1ljo_A Archaeal SM-like protei 94.6 0.03 1E-06 44.4 4.2 58 18-86 11-70 (77)
22 3bw1_A SMX4 protein, U6 snRNA- 94.4 0.049 1.7E-06 45.4 5.1 65 18-86 16-81 (96)
23 2fwk_A U6 snRNA-associated SM- 94.4 0.036 1.2E-06 48.1 4.4 68 18-86 34-107 (121)
24 1m5q_A SMAP3, small nuclear ri 94.2 0.093 3.2E-06 46.5 6.6 83 19-125 7-90 (130)
25 2y9a_D Small nuclear ribonucle 94.0 0.073 2.5E-06 47.0 5.7 58 18-86 11-69 (126)
26 3s6n_F Small nuclear ribonucle 93.9 0.035 1.2E-06 45.5 3.2 66 18-95 12-78 (86)
27 1n9r_A SMF, small nuclear ribo 93.7 0.037 1.3E-06 46.2 3.0 60 16-86 25-86 (93)
28 4emg_A Probable U6 snRNA-assoc 90.3 0.36 1.2E-05 40.1 5.1 68 18-86 15-86 (93)
29 1b34_B Protein (small nuclear 87.0 1.2 3.9E-05 38.4 6.1 67 19-86 34-107 (118)
30 3s6n_E Small nuclear ribonucle 86.4 0.5 1.7E-05 39.4 3.4 58 19-86 23-85 (92)
31 1ycy_A Conserved hypothetical 54.8 6.6 0.00022 32.0 2.4 41 19-61 13-55 (71)
32 1nz9_A Transcription antitermi 37.0 20 0.00069 26.7 2.5 38 21-59 7-45 (58)
33 2e70_A Transcription elongatio 27.0 52 0.0018 26.8 3.4 38 16-53 15-52 (71)
34 2hh3_A KH-type splicing regula 22.2 19 0.00064 30.3 0.0 8 460-467 98-105 (106)
35 3ml3_A Outer membrane protein 21.9 38 0.0013 32.1 2.0 27 73-115 145-171 (189)
No 1
>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A
Probab=100.00 E-value=2.3e-37 Score=262.72 Aligned_cols=72 Identities=47% Similarity=0.812 Sum_probs=65.6
Q ss_pred CCCCCccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 14 SGSADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 14 ~~~~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
++++++|||++||||||+|||||||||+||++++||+|+||| ||||||++++ +|||+++|||||+|||+|||
T Consensus 11 ~~~~~~~IGs~ISLISk~dIRYeGiL~~In~~~sTiaL~nVRsfGTEgR~~~~-~ipp~~~vyeyIvFrGsDIK 83 (95)
T 2fb7_A 11 PSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDR-PIAPRDETFEYIIFRGSDIK 83 (95)
T ss_dssp -----CCSSEEEEEEETTTEEEEEEEEEEETTTTEEEEESCCCCSCCSSSCSS-CCCSCCCCSSCEEECSTTEE
T ss_pred CCccCcccCCeEEEEECCCceEEEEEecccCccCEEEEEeeeEecccCCCCCC-ccCCCCcceeEEEEcCCCcc
Confidence 457899999999999999999999999999999999999999 9999999875 59999999999999999999
No 2
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=100.00 E-value=3.9e-36 Score=252.30 Aligned_cols=70 Identities=44% Similarity=0.758 Sum_probs=67.6
Q ss_pred CCCccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 16 SADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 16 ~~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|||++||||||+|||||||||+||.+++||+|+||| ||||||+++ ++|||+++|||||+|||+|||
T Consensus 7 ~~~~yIGs~iSLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~-~~ipp~~~vy~yIvFrgsDIK 77 (88)
T 2vxe_A 7 GGLPELGSKISLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQ-FQIAPQSQIYDYILFRGSDIK 77 (88)
T ss_dssp SSSCCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCS-SCCCCCCSCEEEEEEETTTEE
T ss_pred CCCcccCCeEEEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCCC-cccCCCCceeeEEEEccCCcc
Confidence 4699999999999999999999999999999999999999 999999976 579999999999999999999
No 3
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=99.27 E-value=3.5e-12 Score=106.65 Aligned_cols=60 Identities=22% Similarity=0.421 Sum_probs=48.9
Q ss_pred CCCCccccceEEEEecCCc-eeEEEeeeecCCCCeeEecccccccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 15 GSADSYIGSLISLTSKSEI-RYEGVLFNINTEESSIGLRNDRLEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 15 ~~~~~yIGskISLISKsdI-RYEGiL~~Id~e~sTIaL~nVRfGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
+.++.||||.|||.++.+| +|+|+|++||++++||+|+|| | | ++. .+++.+ |+||+.||+
T Consensus 2 ~Ma~~~iGs~VSi~c~d~lGvYQG~i~~vd~~~~tItL~~~-f----~--NG~-~~~s~e----Vtls~~DI~ 62 (84)
T 2vc8_A 2 AMATDWLGSIVSINCGDSLGVYQGRVSAVDQVSQTISLTRP-F----H--NGV-KCLVPE----VTFRAGDIT 62 (84)
T ss_dssp ---CTTTTCEEEEECCTTTCEEEEEEEEEETTTTEEEEEEE-E----E--TTE-ECSSSE----EEEEGGGCS
T ss_pred cccccccCCEEEEEECCCceEEEEEEEEeccCCCeEEEehh-h----h--CCC-CCCCcE----EEEEecChh
Confidence 4568999999999999999 999999999999999999999 4 2 222 233333 999999999
No 4
>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=97.34 E-value=0.0051 Score=59.57 Aligned_cols=70 Identities=9% Similarity=0.109 Sum_probs=52.9
Q ss_pred CCCccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 16 SADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 16 ~~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
...+||+++|.++-|.+-.|+|+|..+|. .--|.|+||. |-++..+.+....-..+..+..|+.||+.|.
T Consensus 8 kL~klIdKrV~V~LkdGRel~GtLkgFDq-~MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGlV~IRGdnIV 78 (231)
T 3pgw_B 8 KMLQHIDYRMRCILQDGRIFIGTFKAFDK-HMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLV 78 (231)
T ss_pred HHHHhcCCeEEEEECCCcEEEEEEEEEcc-cccEEecCEEEEEeccCcccccccccceeEeceEEECCCcEE
Confidence 45689999999999999999999999995 6788999999 7653222111111123455778999999999
No 5
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=96.81 E-value=0.0033 Score=54.34 Aligned_cols=58 Identities=16% Similarity=0.336 Sum_probs=45.7
Q ss_pred CCCccccceEEEEecCCc-eeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 16 SADSYIGSLISLTSKSEI-RYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 16 ~~~~yIGskISLISKsdI-RYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..+.|||+.+|+-...++ -|.|.+..||. .+|+|.+.- =|--=|+.. =| ++|+..||+
T Consensus 6 ~~edwiG~~VSI~C~d~LGVyQG~I~~V~~--~~ItL~kaFrNGiplk~~~----------~E-VtLsa~DI~ 65 (103)
T 2rm4_A 6 TDQDWIGCAVSIACDEVLGVFQGLIKQISA--EEITIVRAFRNGVPLRKQN----------AE-VVLKCTDIR 65 (103)
T ss_dssp CSGGGTTCEEEEEECTTTCEEEEEEEEEET--TEEEEEEEEETTEECSCSS----------SC-EEEETTTEE
T ss_pred cccceeceEEEEeeCCcceEeeEEEEEccc--ceeEEhhhhhcCcCcCCCC----------ce-EEEEecchh
Confidence 346899999999999999 99999999996 459998755 444333322 22 899999999
No 6
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A*
Probab=96.20 E-value=0.0047 Score=48.96 Aligned_cols=58 Identities=12% Similarity=0.186 Sum_probs=48.3
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|++|.+.-|.+-.|+|+|..+| +.--+.|+|+. +-.+++ ..-++.++.||+.|.
T Consensus 10 ~~~~~~~V~V~L~~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~~----------~~~lg~v~iRG~~I~ 68 (77)
T 1i4k_A 10 NRSLKSPVIVRLKGGREFRGTLDGYD-IHMNLVLLDAEEIQNGEV----------VRKVGSVVIRGDTVV 68 (77)
T ss_dssp HTTTTSEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEEEEETTEE----------EEEEEEEEECGGGEE
T ss_pred HHhCCCEEEEEEcCCCEEEEEEEEEc-CCCCeEEeeEEEEecCCc----------EeECCEEEECCCEEE
Confidence 46899999999999999999999999 56788999998 654322 223678999999998
No 7
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=96.18 E-value=0.0095 Score=50.05 Aligned_cols=54 Identities=19% Similarity=0.252 Sum_probs=45.5
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccccccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDRLEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVRfGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..|||+++.++...+=.|+|+||++|+..-.|.|.|. -| ++-|--++-.|.-||
T Consensus 13 ~~li~KeV~V~l~dg~~y~G~l~tvDp~s~sIvL~n~---~~------------~~~~~~~iI~G~aI~ 66 (86)
T 1y96_A 13 QDYIYKEVRVTASEKNEYKGWVLTTDPVSANIVLVNF---LE------------DGSMSVTGIMGHAVQ 66 (86)
T ss_dssp HHTTTCEEEEEETTTEEEEEEEEEECTTTCCEEEEEE---CT------------TSCEEEEEECGGGEE
T ss_pred HhhcCCEEEEEEcCCCEEEEEEEEECCCceEEEEeec---cc------------CCeEEEEEEecceEE
Confidence 4699999999999999999999999999999999985 12 122566777888888
No 8
>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=96.06 E-value=0.0051 Score=49.56 Aligned_cols=57 Identities=12% Similarity=0.240 Sum_probs=48.0
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..|+|++|.+.-|.+-.|+|+|..+| +.--+.|+|+. + ++. ...-+..++.||+.|.
T Consensus 17 ~~~~~~~V~V~l~~g~~~~G~L~~~D-~~mNlvL~d~~e~--~~~---------~~~~lg~v~iRG~~I~ 74 (81)
T 1i8f_A 17 QDSIGKQVLVKLRDSHEIRGILRSFD-QHVNLLLEDAEEI--IDG---------NVYKRGTMVVRGENVL 74 (81)
T ss_dssp HTTTTSEEEEEEGGGEEEEEEEEEEC-TTCCEEEEEEEEE--ETT---------EEEEEEEEEECGGGEE
T ss_pred HHHCCCeEEEEEcCCcEEEEEEEEEc-CCCeeEEccEEEE--cCC---------cccCCCEEEECCCEEE
Confidence 57899999999999999999999999 56789999999 8 221 1233778999999998
No 9
>3s6n_G Small nuclear ribonucleoprotein G; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_G 2y9c_G 2y9d_G 3cw1_G 3pgw_G* 2y9a_G
Probab=95.94 E-value=0.01 Score=47.34 Aligned_cols=60 Identities=13% Similarity=0.264 Sum_probs=43.8
Q ss_pred CCCccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 16 SADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 16 ~~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
.-..|+|++|.+.-|.+-.|+|+|..+| +.--+.|+|+. +-.++. ...++.++.||+.|.
T Consensus 8 ~L~~~~~k~V~V~Lk~gr~~~G~L~~~D-~~mNlvL~~~~e~~~~~~----------~~~lg~v~iRG~~I~ 68 (76)
T 3s6n_G 8 ELKKFMDKKLSLKLNGGRHVQGILRGFD-PFMNLVIDECVEMATSGQ----------QNNIGMVVIRGNSII 68 (76)
T ss_dssp ------CCEEEEEETTTEEEEEEEEEEC-TTCCEEEEEEEECCCC--------------CBSSEEECSSSEE
T ss_pred HHHHhCCCeEEEEECCCcEEEEEEEEEC-CcceEEEeceEEEccCCc----------EeEcCEEEECCCeEE
Confidence 4578999999999999999999999999 56788999998 643321 123667999999998
No 10
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1
Probab=95.94 E-value=0.0074 Score=48.53 Aligned_cols=58 Identities=17% Similarity=0.350 Sum_probs=48.3
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|++|.+.-|.+-.|+|+|..+| +.--+.|+|+. +-.+++ ..-++.++.||+.|.
T Consensus 15 ~~~~~~~V~V~l~~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~~----------~~~lg~v~iRG~~I~ 73 (81)
T 1th7_A 15 AESLNNLVLVKLKGNKEVRGMLRSYD-QHMNLVLSDSEEIQSDGS----------GKKLGTIVIRGDNVI 73 (81)
T ss_dssp HHHTTSEEEEEETTTEEEEEEEEEEC-TTCCEEEEEEEEECSSSC----------EEEEEEEEECGGGEE
T ss_pred HHhCCCeEEEEEcCCcEEEEEEEEEc-CCCCEEEccEEEEecCCc----------eeECCEEEECCCEEE
Confidence 46899999999999999999999999 56788999998 654321 233778999999998
No 11
>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=95.92 E-value=0.012 Score=48.12 Aligned_cols=70 Identities=9% Similarity=0.114 Sum_probs=50.9
Q ss_pred CCCccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 16 SADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 16 ~~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
.-..|||++|.+.-|.+-.|+|+|..+| +.--|.|+|+. |-++-......+--....-+..++.||+.|.
T Consensus 8 ~L~~~~~k~V~V~l~~gr~~~G~L~~~D-~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~v~iRG~~I~ 78 (91)
T 1d3b_B 8 KMLQHIDYRMRCILQDGRIFIGTFKAFD-KHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLV 78 (91)
T ss_dssp CCGGGTTSEEEEEETTCCEEEEEEEECC-TTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEE
T ss_pred HHHHHcCCcEEEEECCCeEEEEEEEEEC-CCCeEEecCEEEEeeccccccccccCccEeECCEEEECCCeEE
Confidence 5678999999999999999999999999 56788999998 7543111100000011233677999999999
No 12
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=95.66 E-value=0.0092 Score=53.31 Aligned_cols=52 Identities=23% Similarity=0.296 Sum_probs=44.3
Q ss_pred CCCccccceEEEEecCCceeEEEeeeecCCCCeeEecccccccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 16 SADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDRLEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 16 ~~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVRfGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
+..+|||++|.|.-|.+-+|.|+|..||...-|+.|+||+. ..+.++++||+
T Consensus 6 ~~sqFlGy~V~v~LkDgs~~qG~I~~vd~k~LtL~~~~a~~-------------------s~~~I~asdI~ 57 (125)
T 4a53_A 6 SVADFYGSNVEVLLNNDSKARGVITNFDSSNSILQLRLAND-------------------STKSIVTKDIK 57 (125)
T ss_dssp CHHHHTTCEEEEEETTSCEEEEEEEEEETTTTEEEEEETTT-------------------EEEEEEGGGEE
T ss_pred cHHHhcCceEEEEECCCCEeeEEEEeecCCeeEEecccccc-------------------ccceeeccccc
Confidence 56799999999999999999999999998877777799841 11278999999
No 13
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1
Probab=95.64 E-value=0.014 Score=46.58 Aligned_cols=57 Identities=18% Similarity=0.310 Sum_probs=47.8
Q ss_pred ccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 19 SYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 19 ~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
.++|++|.+.-|.+.+|+|+|..+| +.=-+.|+||. +-.+|+ ..-++.++-||+.|.
T Consensus 12 ~~~g~~V~VeLk~g~~~~G~L~~~D-~~MNl~L~~~~e~~~~~~----------~~~lg~v~IRG~nI~ 69 (75)
T 1d3b_A 12 EAEGHIVTCETNTGEVYRGKLIEAE-DNMNCQMSNITVTYRDGR----------VAQLEQVYIRGCKIR 69 (75)
T ss_dssp HTTTSEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEEEECTTSC----------EEEEEEEEECGGGEE
T ss_pred HhCCCEEEEEECCCcEEEEEEEEEc-cceeEEEEeEEEECCCCc----------EEEcCeEEEeCCEEE
Confidence 5799999999999999999999999 56678999999 653332 234788999999998
No 14
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=95.54 E-value=0.012 Score=46.42 Aligned_cols=58 Identities=16% Similarity=0.269 Sum_probs=48.0
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|++|.+.-|.+-.|+|+|..+| +.--+.|+|+. +-.+++ ..-++.++.||+.|.
T Consensus 10 ~~~~~~~V~V~l~~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~~----------~~~lg~v~iRG~~I~ 68 (75)
T 1h64_1 10 HRSLDKDVLVILKKGFEFRGRLIGYD-IHLNVVLADAEMIQDGEV----------VKRYGKIVIRGDNVL 68 (75)
T ss_dssp HTTTTSEEEEEETTSEEEEEEEEEEC-TTCCEEEEEEEEEETTEE----------EEEEEEEEECGGGEE
T ss_pred HHHCCCEEEEEECCCCEEEEEEEEEe-CCCCeEEeeEEEEeeCCc----------eeECCEEEECCCEEE
Confidence 46899999999999999999999999 56788999998 654321 223678999999998
No 15
>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=95.34 E-value=0.026 Score=48.74 Aligned_cols=77 Identities=13% Similarity=0.173 Sum_probs=49.7
Q ss_pred CCCCccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCccccccccc
Q 011128 15 GSADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIKHCLLTIT 93 (493)
Q Consensus 15 ~~~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK~~~~~~~ 93 (493)
..-..|||++|.++-+.+-.|+|+|..+|. .--|.|.|+. |-++.. +...--....+..|+.||..|. ++.-++
T Consensus 26 ~~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 26 LDLSRYQDQRIQATFTGGRQITGILKGFDQ-LMNLVLDDVEEQLRNPE---DGKLTGAIRKLGLVVVRGTTLV-LIAPMD 100 (113)
T ss_dssp ------CCSEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEEC------------CCEEEEEEEEECTTTEE-EEEECC
T ss_pred HHHHHHcCCcEEEEEeCCeEEEEEEEEEcC-cccEEEeeEEEEEcCCC---CcccccceeEccEEEECCCeEE-EEEecC
Confidence 455689999999999999999999999995 6789999998 654321 0011123445778999999999 555555
Q ss_pred ccC
Q 011128 94 GDA 96 (493)
Q Consensus 94 g~~ 96 (493)
|+.
T Consensus 101 ~~e 103 (113)
T 4emk_C 101 GSE 103 (113)
T ss_dssp ---
T ss_pred ccc
Confidence 543
No 16
>4emk_A U6 snRNA-associated SM-like protein LSM5; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_A
Probab=94.89 E-value=0.047 Score=45.92 Aligned_cols=59 Identities=22% Similarity=0.296 Sum_probs=49.1
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..|+|++|.+.-|.+-+|+|+|..+|. ---+.|+|+. +-+++. ....+..|+.||+.|.
T Consensus 26 ~~~l~k~V~V~Lk~gr~~~G~L~gfD~-~mNlvL~d~~E~~~~~~---------~~~~lg~v~IRG~nI~ 85 (94)
T 4emk_A 26 DKCIGSNLWVIMKSEREFAGTLVGFDD-YVNIVLKDVTEYDTVTG---------VTEKHSEMLLNGNGMC 85 (94)
T ss_dssp HHTTTSEEEEEESSSEEEEEEEEEECT-TCCEEEEEEEEEETTTC---------CEEEEEEEEECSTTEE
T ss_pred HHHcCCeEEEEECCCcEEEEEEEEEcc-cCCeEeeeEEEEecCCC---------cEeEcCEEEEcCCEEE
Confidence 468999999999999999999999995 6778999998 764321 1345788999999998
No 17
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A
Probab=94.87 E-value=0.021 Score=46.19 Aligned_cols=59 Identities=20% Similarity=0.327 Sum_probs=48.5
Q ss_pred CCccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 17 ADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 17 ~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
-..++|++|.+.-|.+-.|+|+|..+| +.--+.|+|+. +-.+++ ..-++.++.||+.|.
T Consensus 20 L~~~~~~~V~V~Lk~g~~~~G~L~~~D-~~mNlvL~d~~e~~~~~~----------~~~lg~v~IRG~~I~ 79 (83)
T 1mgq_A 20 LGNSLNSPVIIKLKGDREFRGVLKSFD-LHMNLVLNDAEELEDGEV----------TRRLGTVLIRGDNIV 79 (83)
T ss_dssp HHHTTTSEEEEEETTTEEEEEEEEEEC-TTCCEEEEEEEEEETTEE----------EEEEEEEEECGGGEE
T ss_pred HHHhCCCEEEEEEcCCcEEEEEEEEEC-CCceeEEccEEEEecCCc----------ccCCCEEEECCCEEE
Confidence 357899999999999999999999999 56788999998 654321 223778999999987
No 18
>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=94.79 E-value=0.041 Score=47.66 Aligned_cols=58 Identities=12% Similarity=0.193 Sum_probs=47.9
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|++|.+.-|.+..|+|+|..+| +.--|.|+||. +-.++ . ..-++.|+.||+.|.
T Consensus 8 ~~~~gk~V~V~Lk~g~~~~G~L~~~D-~~MNlvL~d~~e~~~~~-----~-----~~~lg~v~IRG~nI~ 66 (119)
T 1b34_A 8 MKLSHETVTIELKNGTQVHGTITGVD-VSMNTHLKAVKMTLKNR-----E-----PVQLETLSIRGNNIR 66 (119)
T ss_dssp HTCTTCEEEEEETTCCEEEEEEEEEC-TTCCEEEEEEEEECTTS-----C-----CEEEEEEEECGGGEE
T ss_pred HHhCCCEEEEEEcCCCEEEEEEEEEc-ccceEEeccEEEecCCC-----c-----eeEcceEEEcCCeEE
Confidence 35899999999999999999999999 56788999999 63211 1 245788999999999
No 19
>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA decay, PRE-mRNA splicing, LSM proteins, RNA BI protein; 2.20A {Schizosaccharomyces pombe}
Probab=94.69 E-value=0.028 Score=48.12 Aligned_cols=59 Identities=22% Similarity=0.228 Sum_probs=45.8
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|++|.+.-|.+-.|+|+|..+|. .--|.|+||. +-.+|.+ ..-++.|+.||+.|.
T Consensus 22 ~~~igk~V~V~Lk~G~~~~G~L~~~D~-~MNlvL~d~~e~~~dg~~---------~~~lg~v~IRG~nI~ 81 (105)
T 4emh_A 22 NATQGRPILVELKNGETFNGHLENCDN-YMNLTLREVIRTMPDGDK---------FFRLPECYIRGNNIK 81 (105)
T ss_dssp ----CCEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEECTTSCE---------EEEEEEEEECGGGEE
T ss_pred HHhCCCEEEEEECCCCEEEEEEEEEcC-CceEEEEEEEEEccCCce---------eeEcCeEEEeCCeEE
Confidence 578999999999999999999999995 6678999998 6444321 123788999999999
No 20
>4emk_B U6 snRNA-associated SM-like protein LSM6; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_B
Probab=94.66 E-value=0.034 Score=44.13 Aligned_cols=58 Identities=19% Similarity=0.433 Sum_probs=47.3
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|++|.+.-|.+-.|+|+|..+|. .--+.|+|+. +-. |. ....++.++.||+.|.
T Consensus 10 ~~~~~k~V~V~Lk~g~~~~G~L~~~D~-~mNlvL~d~~e~~~-~~---------~~~~lg~v~iRG~~I~ 68 (75)
T 4emk_B 10 NKVIGKKVLIRLSSGVDYKGILSCLDG-YMNLALERTEEYVN-GK---------KTNVYGDAFIRGNNVL 68 (75)
T ss_dssp HHTTTSEEEEECTTSCEEEEEEEEECT-TCEEEEEEEEEEET-TE---------EEEEEEEEEEEGGGSS
T ss_pred HHhCCCeEEEEEcCCcEEEEEEEEEcC-cceEEEccEEEEec-CC---------cccEecEEEEcCCeEE
Confidence 358999999999999999999999995 6788999988 632 21 1224778999999998
No 21
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1
Probab=94.65 E-value=0.03 Score=44.45 Aligned_cols=58 Identities=21% Similarity=0.324 Sum_probs=47.7
Q ss_pred CccccceEEEEecCC-ceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSE-IRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsd-IRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..|+|++|.+.-|.+ -+|+|+|..+| +.--+.|+|+. +-..++ ..-++.++.||+.|.
T Consensus 11 ~~~~~~~v~V~lk~g~~~~~G~L~~~D-~~mNlvL~d~~e~~~~~~----------~~~lg~v~iRG~nI~ 70 (77)
T 1ljo_A 11 KSMVGKIIRVEMKGEENQLVGKLEGVD-DYMNLYLTNAMECKGEEK----------VRSLGEIVLRGNNVV 70 (77)
T ss_dssp HHTTTSEEEEEETTCSSEEEEEEEEEC-TTCCEEEEEEEEEETTEE----------EEEEEEEEECGGGEE
T ss_pred HHHCCCEEEEEEeCCCEEEEEEEEEEC-CcceEEEeeEEEEecCCc----------EeECCeEEEeCCeEE
Confidence 358999999999999 99999999999 56788999998 653211 223778999999998
No 22
>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=94.40 E-value=0.049 Score=45.41 Aligned_cols=65 Identities=12% Similarity=0.197 Sum_probs=49.3
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..+||++|.+.-|.+-.|+|+|..+| +---|.|.|+. +-++..+.. .-....-+..++.||+.|.
T Consensus 16 ~~~i~k~V~V~Lk~gr~~~G~L~~fD-~~mNlVL~d~~E~~~~~~~~~---~~~~~r~lG~v~IRG~nVv 81 (96)
T 3bw1_A 16 KLNLDERVYIKLRGARTLVGTLQAFD-SHCNIVLSDAVETIYQLNNEE---LSESERRCEMVFIRGDTVT 81 (96)
T ss_dssp GGGTTSEEEEEEGGGCEEEEEEEEEC-TTCCEEEEEEEEEEECCSTTC---CCEEEEEEEEEEECGGGEE
T ss_pred HHHCCCeEEEEECCCcEEEEEEEEEC-CCCcEEEcCEEEEeccccccc---cCcceeEcCEEEECCCEEE
Confidence 57899999999999999999999999 56788999998 654332110 1111233677999999998
No 23
>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=94.39 E-value=0.036 Score=48.09 Aligned_cols=68 Identities=24% Similarity=0.314 Sum_probs=48.8
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCC----CCC-CCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKI----GPQ-VPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~----~~~-IPPsd~VyeyIvFRGSDIK 86 (493)
..|||++|.+.-|.+-.|+|+|..+| +.--|.|+||. +-++.++.+ +.+ .-....-+..|+.||+.|.
T Consensus 34 ~~~l~k~V~V~Lk~Gr~~~G~L~~fD-~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IRG~nVv 107 (121)
T 2fwk_A 34 DKCIGNRIYVVMKGDKEFSGVLRGFD-EYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNVA 107 (121)
T ss_dssp HHTBTSBCEEEETTTEEECCEEEEEC-TTCCEEEESCCEEEC---------------CEECCCCSEEEECGGGEE
T ss_pred HHHcCCeEEEEECCCcEEEEEEEEEc-ccCCeEeceEEEEEeccccccccccCcccccccceEcceEEECCCEEE
Confidence 47899999999999999999999999 57889999999 765422211 100 0001334678999999998
No 24
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1
Probab=94.17 E-value=0.093 Score=46.52 Aligned_cols=83 Identities=12% Similarity=0.113 Sum_probs=59.3
Q ss_pred ccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcccccccccccCC
Q 011128 19 SYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIKHCLLTITGDAI 97 (493)
Q Consensus 19 ~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK~~~~~~~g~~~ 97 (493)
.++|++|.+.-|.+-.|+|+|..+| +.--+.|+|+. + ++ .-|+.|+.||+.|. .|.-.|..
T Consensus 7 ~~igk~V~V~Lk~G~~~~G~L~~~D-~~MNlvL~d~~E~--~~------------~~lg~v~IRG~nI~---~I~~~d~~ 68 (130)
T 1m5q_A 7 NLLGREVQVVLSNGEVYKGVLHAVD-NQLNIVLANASNK--AG------------EKFNRVFIMYRYIV---HIDSTERR 68 (130)
T ss_dssp HTTTSEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEECT--TC------------CEEEEEEECGGGEE---EEEECCCC
T ss_pred HhCCCeEEEEECCCcEEEEEEEEEc-ccceeEEeeEEEE--cC------------CEeceEEEeCCeEE---EEEcCCcc
Confidence 5899999999999999999999999 56788999998 6 21 34788999999998 33333322
Q ss_pred CCCCcccccccchhhccccCCCCceEec
Q 011128 98 SGPRLSQTRDWTLRSVIRKDIQDLQVKS 125 (493)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~~Dl~v~~ 125 (493)
.|....+|.+.|. ..-+.++.+
T Consensus 69 --~d~~~f~~~~~r~----~pg~vk~~~ 90 (130)
T 1m5q_A 69 --IDMREFAKQAEKI----FPGMVKYIE 90 (130)
T ss_dssp --CCHHHHHHHHHHH----STTCEEEET
T ss_pred --cCHHHHHHHHhhc----CCCceeeee
Confidence 4444555555443 344555543
No 25
>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=94.05 E-value=0.073 Score=46.95 Aligned_cols=58 Identities=19% Similarity=0.303 Sum_probs=48.9
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|++|.+.-|.+..|.|+|..+|. .=-|.|+||. +-.+|. ..-|+.++-||+.|.
T Consensus 11 ~~~~gk~V~VeLknG~~~~G~L~~~D~-~MNi~L~dv~e~~~~g~----------~~~l~~v~IRGnnI~ 69 (126)
T 2y9a_D 11 HEAEGHIVTCETNTGEVYRGKLIEAED-NMNCQMSNITVTYRDGR----------VAQLEQVYIRGSKIR 69 (126)
T ss_dssp HSCSSCEEEEEESSCCEEEEEEEEECT-TSCEEEEEEEEECTTSC----------CEEEEEEEECGGGEE
T ss_pred HHhCCCEEEEEECCCcEEEEEEEEEcC-ceEEEEeeEEEEcCCCc----------EeecccEEEeCCEEE
Confidence 368999999999999999999999994 6788999999 654332 234788999999999
No 26
>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=93.91 E-value=0.035 Score=45.52 Aligned_cols=66 Identities=15% Similarity=0.276 Sum_probs=49.3
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCccccccccccc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIKHCLLTITGD 95 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK~~~~~~~g~ 95 (493)
..++|++|.+.-|.+-.|+|+|..+|. .--+.|+||. +- +|. ...-++.++.||+.|. ++...+++
T Consensus 12 ~~~~~k~V~V~Lk~g~~~~G~L~~~D~-~mNlvL~d~~e~~-~g~---------~~~~lg~v~IRG~nI~-~i~~~d~~ 78 (86)
T 3s6n_F 12 NGLTGKPVMVKLKWGMEYKGYLVSVDG-YMNMQLANTEEYI-DGA---------LSGHLGEVLIRCNNVL-YIRGVEEE 78 (86)
T ss_dssp HHHTTSEEEEEETTSCEEEEEEEEECT-TCCEEEEEEEEEE-TTE---------EEEEESSEEECGGGEE-EEEECC--
T ss_pred HHhCCCeEEEEEcCCeEEEEEEEEEcC-ceEEEEeeEEEEc-CCc---------eeeEccEEEEeCCeEE-EEEeCCcc
Confidence 358999999999999999999999996 6678999998 63 111 0123567999999999 44444443
No 27
>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=93.70 E-value=0.037 Score=46.18 Aligned_cols=60 Identities=13% Similarity=0.228 Sum_probs=47.6
Q ss_pred CCCccccceEEEEecCC-ceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 16 SADSYIGSLISLTSKSE-IRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 16 ~~~~yIGskISLISKsd-IRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
.-..++|++|.+.-|.+ ..|+|+|..+| +.--+.|+|+. +- +|.+ ..-++.++.||+.|.
T Consensus 25 ~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D-~~MNlvL~d~~E~~-~~~~---------~~~lg~v~IRG~nI~ 86 (93)
T 1n9r_A 25 FLKGLVNHRVGVKLKFNSTEYRGTLVSTD-NYFNLQLNEAEEFV-AGVS---------HGTLGEIFIRCNNVL 86 (93)
T ss_dssp -CGGGTTSEEEEEESSTTEEEEEEEEECC-TTTCEEEEEEEEEE-TTEE---------EEECCSEEECGGGEE
T ss_pred HHHHhCCCEEEEEEcCCCEEEEEEEEEEc-cccEEEEeeEEEEc-CCCe---------EeEcCEEEEcCCeEE
Confidence 45678999999999999 99999999999 56788999998 63 2211 113567999999998
No 28
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=90.33 E-value=0.36 Score=40.07 Aligned_cols=68 Identities=12% Similarity=0.232 Sum_probs=48.1
Q ss_pred CccccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCC-CC--CCCCCCCceeEEEEecCCcc
Q 011128 18 DSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKI-GP--QVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 18 ~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~-~~--~IPPsd~VyeyIvFRGSDIK 86 (493)
..++|++|.+.-|.+-.|+|+|..+|. .--+.|+|+. +-++-.+.+ .. ..-.....+..++.||..|.
T Consensus 15 ~~~~~~~V~V~l~~gr~~~G~L~~~D~-~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~v~iRG~nVv 86 (93)
T 4emg_A 15 RLSLDEIVYVKLRGDRELNGRLHAYDE-HLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFVRGDSVI 86 (93)
T ss_dssp HTTTTSEEEEEETTTEEEEEEEEEECT-TCCEEEEEEEEEEC--------------CEEEEEEEEEECGGGEE
T ss_pred HHhCCCEEEEEECCCcEEEEEEEEECC-cccEEeecEEEEEeccccCCccccccccccEeEeceEEECCCeEE
Confidence 345999999999999999999999995 6789999999 765411100 00 01122345788999999987
No 29
>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=86.98 E-value=1.2 Score=38.39 Aligned_cols=67 Identities=10% Similarity=0.228 Sum_probs=45.3
Q ss_pred ccc--cceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccCCCCC-CCCC---CCCCCCceeEEEEecCCcc
Q 011128 19 SYI--GSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEK-IGPQ---VPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 19 ~yI--GskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~-~~~~---IPPsd~VyeyIvFRGSDIK 86 (493)
.++ |++|.+.-+.+-.|+|+|..+| +.--+.|.||. +-++..+. .+.+ .--.+..+..|+.||+.|.
T Consensus 34 ~~~~~~k~V~V~Lk~gr~~~G~L~~fD-~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~nVv 107 (118)
T 1b34_B 34 QSVKNNTQVLINCRNNKKLLGRVKAFD-RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVI 107 (118)
T ss_dssp HHHHHTCEEEEEETTSCEEEEEEEEEC-TTCCEEEEEEEEC-------------------CEEEEEEEECGGGEE
T ss_pred HHhcCCcEEEEEECCCcEEEEEEEEeC-CceEEEEeCEEEEEecccccccccccccccccccCcCeEEEcCCEEE
Confidence 456 5999999999999999999999 67889999998 65432111 0100 0011234788999999998
No 30
>3s6n_E Small nuclear ribonucleoprotein E; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_E 2y9c_E 2y9d_E 3cw1_E 3pgw_E* 2y9a_E
Probab=86.35 E-value=0.5 Score=39.44 Aligned_cols=58 Identities=19% Similarity=0.387 Sum_probs=44.5
Q ss_pred ccccceEEE----EecCCceeEEEeeeecCCCCeeEecccc-cccCCCCCCCCCCCCCCCceeEEEEecCCcc
Q 011128 19 SYIGSLISL----TSKSEIRYEGVLFNINTEESSIGLRNDR-LEQKGEEKIGPQVPPSDKIYEYILFRGSDIK 86 (493)
Q Consensus 19 ~yIGskISL----ISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTEgR~~~~~~IPPsd~VyeyIvFRGSDIK 86 (493)
.|+++++.+ +.|.+.+|+|+|..+|. ---|.|+|+. +-+++. ....+.-++.||+.|.
T Consensus 23 ~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~-~mNlvL~d~~E~~~~~~---------~~~~lg~v~iRG~nV~ 85 (92)
T 3s6n_E 23 RYLQNRSRIQVWLYEQVNMRIEGCIIGFDE-YMNLVLDDAEEIHSKTK---------SRKQLGRIMLKGDNIT 85 (92)
T ss_dssp HHHHHTCEEEEEESSSCSSEEEEEEEEECT-TCCEEEEEEEEECSSSC---------CEEEEEEEEECGGGEE
T ss_pred HHhCCCEEEEEEEEecCCEEEEEEEEEEcC-cCcEEEeeeEEEecCCC---------ceeEcCeEEEeCCEEE
Confidence 577888554 45999999999999995 7788999988 654321 1234678999999998
No 31
>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=54.84 E-value=6.6 Score=31.97 Aligned_cols=41 Identities=15% Similarity=0.372 Sum_probs=32.3
Q ss_pred ccccceEEEEecCCceeEEEeeeecCCCCeeEecccc--cccCCC
Q 011128 19 SYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR--LEQKGE 61 (493)
Q Consensus 19 ~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR--fGTEgR 61 (493)
.+.|+||-+--.++..|.|||-..|. -+|-|+||. -|..|+
T Consensus 13 ~WKg~rvAv~vg~ehSFtGiledFDe--EviLL~dV~D~~GNk~k 55 (71)
T 1ycy_A 13 EWKGHKVAVSVGGDHSFTGTLEDFDE--EVILLKDVVDVIGNRGK 55 (71)
T ss_dssp HHTTSEEEEEEC----CEEEEEEECS--SEEEEEEEEETTEEEEE
T ss_pred HhCCcEEEEEecCcceeeeehhhcCc--ceeehhhHHHHhccccc
Confidence 57899999999999999999999885 689999999 676665
No 32
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4
Probab=37.05 E-value=20 Score=26.65 Aligned_cols=38 Identities=16% Similarity=0.277 Sum_probs=31.8
Q ss_pred ccceEEEEecCCceeEEEeeeecCCCCeeEecccc-cccC
Q 011128 21 IGSLISLTSKSEIRYEGVLFNINTEESSIGLRNDR-LEQK 59 (493)
Q Consensus 21 IGskISLISKsdIRYEGiL~~Id~e~sTIaL~nVR-fGTE 59 (493)
.|.++.+++=.---+||++..||.++..+.+. |. ||.|
T Consensus 7 ~Gd~V~V~~Gpf~g~~g~v~~v~~~k~~v~V~-v~~~Gr~ 45 (58)
T 1nz9_A 7 EGDQVRVVSGPFADFTGTVTEINPERGKVKVM-VTIFGRE 45 (58)
T ss_dssp TTCEEEECSGGGTTCEEEEEEEETTTTEEEEE-EESSSSE
T ss_pred CCCEEEEeecCCCCcEEEEEEEcCCCCEEEEE-EEeCCCE
Confidence 68888888888778999999999998887764 77 8865
No 33
>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=26.95 E-value=52 Score=26.75 Aligned_cols=38 Identities=16% Similarity=0.322 Sum_probs=33.7
Q ss_pred CCCccccceEEEEecCCceeEEEeeeecCCCCeeEecc
Q 011128 16 SADSYIGSLISLTSKSEIRYEGVLFNINTEESSIGLRN 53 (493)
Q Consensus 16 ~~~~yIGskISLISKsdIRYEGiL~~Id~e~sTIaL~n 53 (493)
.-+++||+.|.++.=----|-||+.+++-....|-|.-
T Consensus 15 grd~liGktV~I~kGpyKG~~GiVkd~t~~~~RVELhs 52 (71)
T 2e70_A 15 RDNELIGQTVRISQGPYKGYIGVVKDATESTARVELHS 52 (71)
T ss_dssp CTTSSTTSEEEECSSTTTTCEEEEEEECSSCEEEEESS
T ss_pred CccccCCCEEEEeccCCCCeEEEEEECCCCeEEEEecC
Confidence 46899999999999988999999999998888888854
No 34
>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens}
Probab=22.18 E-value=19 Score=30.28 Aligned_cols=8 Identities=88% Similarity=1.747 Sum_probs=0.0
Q ss_pred CCCCcccC
Q 011128 460 GRGRGRGR 467 (493)
Q Consensus 460 ~rgrgrgr 467 (493)
||+||||+
T Consensus 98 ~~~~~~~~ 105 (106)
T 2hh3_A 98 GRGRGRGQ 105 (106)
T ss_dssp --------
T ss_pred CCCCCCCC
Confidence 44444443
No 35
>3ml3_A Outer membrane protein ICSA autotransporter; beta helix, beta sandwich, protein transport; 2.00A {Shigella flexneri}
Probab=21.88 E-value=38 Score=32.06 Aligned_cols=27 Identities=30% Similarity=0.507 Sum_probs=19.5
Q ss_pred CceeEEEEecCCcccccccccccCCCCCCcccccccchhhccc
Q 011128 73 KIYEYILFRGSDIKHCLLTITGDAISGPRLSQTRDWTLRSVIR 115 (493)
Q Consensus 73 ~VyeyIvFRGSDIK~~~~~~~g~~~~~~~~~~~~~~~~~~~~~ 115 (493)
-.|||.+|||..-. ..-.||-||+-++
T Consensus 145 GAYeY~L~kgg~~~----------------~~~~nWYL~S~~~ 171 (189)
T 3ml3_A 145 GSYDYRLKQGTASG----------------LNTNKWYLTSQMD 171 (189)
T ss_dssp TTEEEEEEESCTTS----------------CCTTEEEEEEEEC
T ss_pred ccEEEEEEcCCCCC----------------CCCCCeEEecCCC
Confidence 35999999986422 2246999999764
Done!