Query psy1140
Match_columns 142
No_of_seqs 132 out of 1016
Neff 4.0
Searched_HMMs 29240
Date Fri Aug 16 17:29:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1140.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/1140hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4emk_C U6 snRNA-associated SM- 99.8 2.4E-20 8.1E-25 137.7 8.2 72 3-74 37-111 (113)
2 3bw1_A SMX4 protein, U6 snRNA- 99.8 6.7E-20 2.3E-24 131.0 9.1 69 3-71 24-95 (96)
3 1h64_1 SnRNP SM-like protein; 99.8 2.7E-18 9.4E-23 116.6 8.9 58 3-64 18-75 (75)
4 1ljo_A Archaeal SM-like protei 99.7 4.6E-18 1.6E-22 116.2 8.7 59 2-64 18-77 (77)
5 3s6n_F Small nuclear ribonucle 99.7 4.6E-18 1.6E-22 119.5 8.6 62 2-67 19-80 (86)
6 1i4k_A Putative snRNP SM-like 99.7 5.8E-18 2E-22 115.3 8.8 59 3-65 18-76 (77)
7 4emk_B U6 snRNA-associated SM- 99.7 2.9E-18 9.8E-23 117.1 7.0 58 3-64 18-75 (75)
8 3s6n_G Small nuclear ribonucle 99.7 2.6E-18 8.9E-23 117.7 6.7 58 3-64 18-75 (76)
9 3s6n_E Small nuclear ribonucle 99.7 6.6E-18 2.2E-22 120.7 7.6 59 2-63 29-91 (92)
10 1d3b_B Protein (small nuclear 99.7 1E-17 3.6E-22 117.4 8.3 63 3-65 18-86 (91)
11 1th7_A SnRNP-2, small nuclear 99.7 1E-17 3.6E-22 115.6 8.1 58 3-64 23-80 (81)
12 4emg_A Probable U6 snRNA-assoc 99.7 1.4E-17 4.9E-22 118.6 8.2 60 3-62 23-91 (93)
13 4emk_A U6 snRNA-associated SM- 99.7 2.1E-17 7.2E-22 118.8 8.7 58 3-63 34-91 (94)
14 1i8f_A Putative snRNP SM-like 99.7 3E-17 1E-21 113.4 7.5 56 3-63 25-80 (81)
15 1mgq_A SM-like protein; LSM, R 99.7 5.9E-17 2E-21 112.6 8.6 55 3-61 29-83 (83)
16 1b34_B Protein (small nuclear 99.7 4.4E-17 1.5E-21 120.2 8.0 63 3-65 43-115 (118)
17 1n9r_A SMF, small nuclear ribo 99.7 5.8E-17 2E-21 115.8 8.2 58 2-63 34-92 (93)
18 2fwk_A U6 snRNA-associated SM- 99.7 2.7E-17 9.2E-22 121.9 5.4 64 3-66 42-116 (121)
19 4emh_A Probable U6 snRNA-assoc 99.7 2.5E-16 8.4E-21 115.1 8.0 64 2-68 29-92 (105)
20 1d3b_A Protein (small nuclear 99.6 8.6E-16 2.9E-20 105.2 8.1 58 2-63 18-75 (75)
21 3pgw_B SM B; protein-RNA compl 99.6 8.4E-16 2.9E-20 126.2 8.7 61 3-63 18-84 (231)
22 1b34_A Protein (small nuclear 99.6 8.8E-16 3E-20 113.6 7.7 59 2-64 15-73 (119)
23 1m5q_A SMAP3, small nuclear ri 99.5 6.8E-15 2.3E-19 111.1 6.1 56 2-65 13-68 (130)
24 2y9a_D Small nuclear ribonucle 99.5 5.5E-14 1.9E-18 105.6 8.2 59 2-64 18-76 (126)
25 1y96_A Gemin6, SIP2, GEM-assoc 96.3 0.011 3.7E-07 41.9 6.3 54 3-66 21-75 (86)
26 3ahu_A Protein HFQ; SM-like mo 88.8 0.57 2E-05 32.5 4.3 27 2-28 26-52 (78)
27 2qtx_A Uncharacterized protein 88.5 0.63 2.1E-05 31.8 4.3 28 2-29 28-55 (71)
28 2ylb_A Protein HFQ; RNA-bindin 86.8 0.63 2.2E-05 31.8 3.6 26 2-27 24-49 (74)
29 1u1s_A HFQ protein; SM-like ba 86.5 0.8 2.8E-05 32.1 4.0 27 2-28 22-48 (82)
30 1kq1_A HFQ, HOST factor for Q 83.3 1.6 5.5E-05 30.0 4.3 27 2-28 22-48 (77)
31 3sb2_A Protein HFQ; SM-like, R 82.5 1.6 5.4E-05 30.3 4.0 25 2-26 23-47 (79)
32 2y90_A Protein HFQ; RNA-bindin 77.3 3.1 0.00011 30.2 4.3 28 2-29 24-51 (104)
33 1ycy_A Conserved hypothetical 46.7 65 0.0022 21.8 6.0 50 3-61 20-69 (71)
34 3hfo_A SSR3341 protein; HFQ, S 22.3 1.4E+02 0.0046 20.0 4.4 25 3-27 25-49 (70)
35 3sft_A CHEB, chemotaxis respon 22.2 29 0.001 26.9 1.1 26 98-123 106-132 (193)
36 1chd_A CHEB methylesterase; ch 22.2 28 0.00095 27.3 1.0 25 98-122 108-133 (203)
37 3hfn_A ASL2047 protein; HFQ, S 21.7 93 0.0032 20.9 3.5 24 3-26 27-50 (72)
38 2vxe_A CG10686-PA; EDC3, CAR-1 20.3 2.3E+02 0.0077 19.8 5.5 62 3-64 17-84 (88)
39 1bia_A BIRA bifunctional prote 20.2 1.1E+02 0.0038 24.5 4.3 23 7-29 280-302 (321)
No 1
>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=99.82 E-value=2.4e-20 Score=137.74 Aligned_cols=72 Identities=32% Similarity=0.457 Sum_probs=52.7
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCC---CeeeEEeceEEEecCcEEEeeeCCCCCCCCCCCcc
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTA---GVEQVVLGLHIIRGDNIKIPTKISSSTRSPVPDPQ 74 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~---~~~~r~LGlvlIRGdNIVlIg~vDee~e~~v~~~~ 74 (142)
.|.+++||+|+|+|+|||+||||||+||+|++..+++ ...++.+|+++|||+||++|+++|.+++..+||.+
T Consensus 37 ~V~L~dGr~~~G~L~~fD~~mNLVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nIv~I~~~d~~ee~~~p~~~ 111 (113)
T 4emk_C 37 QATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTLVLIAPMDGSEEIPNPFVQ 111 (113)
T ss_dssp EEEETTSCEEEEEEEEECTTCCEEEEEEEEEC---------CCEEEEEEEEECTTTEEEEEECC-----------
T ss_pred EEEEeCCeEEEEEEEEEcCcccEEEeeEEEEEcCCCCcccccceeEccEEEECCCeEEEEEecCccccccCcccc
Confidence 6899999999999999999999999999998754321 24689999999999999999999999998888754
No 2
>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=99.81 E-value=6.7e-20 Score=131.04 Aligned_cols=69 Identities=25% Similarity=0.374 Sum_probs=57.0
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCC---CeeeEEeceEEEecCcEEEeeeCCCCCCCCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTA---GVEQVVLGLHIIRGDNIKIPTKISSSTRSPVP 71 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~---~~~~r~LGlvlIRGdNIVlIg~vDee~e~~v~ 71 (142)
.|.+++||+|+|+|+|||+||||||+||+|++..+++ +...+.+|.++|||+||++|++.+++++.+++
T Consensus 24 ~V~Lk~gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nVv~I~~~d~~~d~~~~ 95 (96)
T 3bw1_A 24 YIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEELSESERRCEMVFIRGDTVTLISTPSEDDDGAVE 95 (96)
T ss_dssp EEEEGGGCEEEEEEEEECTTCCEEEEEEEEEEECCSTTCCCEEEEEEEEEEECGGGEEEEECCC-----CCC
T ss_pred EEEECCCcEEEEEEEEECCCCcEEEcCEEEEeccccccccCcceeEcCEEEECCCEEEEEEecCcccccccc
Confidence 6899999999999999999999999999999865432 35688999999999999999999998887765
No 3
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=99.76 E-value=2.7e-18 Score=116.61 Aligned_cols=58 Identities=26% Similarity=0.371 Sum_probs=52.1
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISS 64 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDe 64 (142)
+|.+++||+|.|+|+|||+|||++|+||+|+. .+...+.+|.++|||+||++|++.|+
T Consensus 18 ~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~----~~~~~~~lg~v~iRG~~I~~i~~~~e 75 (75)
T 1h64_1 18 LVILKKGFEFRGRLIGYDIHLNVVLADAEMIQ----DGEVVKRYGKIVIRGDNVLAISPTEE 75 (75)
T ss_dssp EEEETTSEEEEEEEEEECTTCCEEEEEEEEEE----TTEEEEEEEEEEECGGGEEEEEEC--
T ss_pred EEEECCCCEEEEEEEEEeCCCCeEEeeEEEEe----eCCceeECCEEEECCCEEEEEEeCCC
Confidence 68999999999999999999999999999987 23578899999999999999999874
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=99.75 E-value=4.6e-18 Score=116.20 Aligned_cols=59 Identities=20% Similarity=0.293 Sum_probs=52.5
Q ss_pred eEEEEcCC-eEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCC
Q psy1140 2 TTFTILSL-IFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISS 64 (142)
Q Consensus 2 ~~~~l~sG-R~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDe 64 (142)
.+|.+++| |+|.|+|+|||+|||++|+||+|+. .+...+.+|.++|||+||++|++.|+
T Consensus 18 v~V~lk~g~~~~~G~L~~~D~~mNlvL~d~~e~~----~~~~~~~lg~v~iRG~nI~~i~~~de 77 (77)
T 1ljo_A 18 IRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECK----GEEKVRSLGEIVLRGNNVVLIQPQEE 77 (77)
T ss_dssp EEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEE----TTEEEEEEEEEEECGGGEEEEEEC--
T ss_pred EEEEEeCCCEEEEEEEEEECCcceEEEeeEEEEe----cCCcEeECCeEEEeCCeEEEEEeCCC
Confidence 47899999 9999999999999999999999987 23568899999999999999999874
No 5
>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=99.75 E-value=4.6e-18 Score=119.51 Aligned_cols=62 Identities=19% Similarity=0.254 Sum_probs=53.3
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCCCCC
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISSSTR 67 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDee~e 67 (142)
.+|.|++||+|+|+|+|||+|||++|+||+|+. ++...+.+|.++|||+||++|++.|++++
T Consensus 19 V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~----~g~~~~~lg~v~IRG~nI~~i~~~d~~~~ 80 (86)
T 3s6n_F 19 VMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYI----DGALSGHLGEVLIRCNNVLYIRGVEEEEE 80 (86)
T ss_dssp EEEEETTSCEEEEEEEEECTTCCEEEEEEEEEE----TTEEEEEESSEEECGGGEEEEEECC----
T ss_pred EEEEEcCCeEEEEEEEEEcCceEEEEeeEEEEc----CCceeeEccEEEEeCCeEEEEEeCCcccc
Confidence 368899999999999999999999999999976 34567899999999999999999998764
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=99.74 E-value=5.8e-18 Score=115.30 Aligned_cols=59 Identities=27% Similarity=0.397 Sum_probs=52.9
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISSS 65 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDee 65 (142)
+|.|++||+|.|+|+|||+|||++|+||+|+.. +...+.+|.++|||+||++|++.|+.
T Consensus 18 ~V~L~~g~~~~G~L~~~D~~mNlvL~d~~e~~~----~~~~~~lg~v~iRG~~I~~i~~~d~~ 76 (77)
T 1i4k_A 18 IVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQN----GEVVRKVGSVVIRGDTVVFVSPAPGG 76 (77)
T ss_dssp EEEETTSCEEEEEEEEECTTCCEEEEEEEEEET----TEEEEEEEEEEECGGGEEEEEECC--
T ss_pred EEEEcCCCEEEEEEEEEcCCCCeEEeeEEEEec----CCcEeECCEEEECCCEEEEEEeCCCC
Confidence 689999999999999999999999999999872 35788999999999999999998764
No 7
>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=99.74 E-value=2.9e-18 Score=117.07 Aligned_cols=58 Identities=26% Similarity=0.411 Sum_probs=51.9
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISS 64 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDe 64 (142)
+|.+++||+|.|+|+|||+|||++|+||+|+. ++...+.+|.++|||+||++|+++|.
T Consensus 18 ~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~----~~~~~~~lg~v~iRG~~I~~i~~~~~ 75 (75)
T 4emk_B 18 LIRLSSGVDYKGILSCLDGYMNLALERTEEYV----NGKKTNVYGDAFIRGNNVLYVSALDD 75 (75)
T ss_dssp EEECTTSCEEEEEEEEECTTCEEEEEEEEEEE----TTEEEEEEEEEEEEGGGSSEEEEC--
T ss_pred EEEEcCCcEEEEEEEEEcCcceEEEccEEEEe----cCCcccEecEEEEcCCeEEEEEecCC
Confidence 68899999999999999999999999999986 34568899999999999999999863
No 8
>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=99.74 E-value=2.6e-18 Score=117.73 Aligned_cols=58 Identities=28% Similarity=0.483 Sum_probs=48.2
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISS 64 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDe 64 (142)
+|.+++||+|+|+|+|||+|||++|+||+|+... .+++.+|.++|||+||++|+++|.
T Consensus 18 ~V~Lk~gr~~~G~L~~~D~~mNlvL~~~~e~~~~----~~~~~lg~v~iRG~~I~~i~~~d~ 75 (76)
T 3s6n_G 18 SLKLNGGRHVQGILRGFDPFMNLVIDECVEMATS----GQQNNIGMVVIRGNSIIMLEALER 75 (76)
T ss_dssp EEEETTTEEEEEEEEEECTTCCEEEEEEEECCCC--------CBSSEEECSSSEEEEEC---
T ss_pred EEEECCCcEEEEEEEEECCcceEEEeceEEEccC----CcEeEcCEEEECCCeEEEEEeccC
Confidence 6899999999999999999999999999998632 357899999999999999999874
No 9
>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=99.73 E-value=6.6e-18 Score=120.74 Aligned_cols=59 Identities=27% Similarity=0.488 Sum_probs=51.9
Q ss_pred eEEEE----cCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCC
Q psy1140 2 TTFTI----LSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKIS 63 (142)
Q Consensus 2 ~~~~l----~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vD 63 (142)
.+|.| ++||+|+|+|+|||+||||||+||+|+... +..++.+|.++|||+||++|++.+
T Consensus 29 v~V~l~~~~~~gr~~~G~L~gfD~~mNlvL~d~~E~~~~---~~~~~~lg~v~iRG~nV~~i~~~~ 91 (92)
T 3s6n_E 29 SRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHSK---TKSRKQLGRIMLKGDNITLLQSVS 91 (92)
T ss_dssp CEEEEEESSSCSSEEEEEEEEECTTCCEEEEEEEEECSS---SCCEEEEEEEEECGGGEEEEEEC-
T ss_pred EEEEEEEEecCCEEEEEEEEEEcCcCcEEEeeeEEEecC---CCceeEcCeEEEeCCEEEEEEeCC
Confidence 36778 999999999999999999999999998643 246889999999999999999875
No 10
>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=99.73 E-value=1e-17 Score=117.38 Aligned_cols=63 Identities=33% Similarity=0.446 Sum_probs=53.7
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEec-CC-----CCeeeEEeceEEEecCcEEEeeeCCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYS-PT-----AGVEQVVLGLHIIRGDNIKIPTKISSS 65 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~-~~-----~~~~~r~LGlvlIRGdNIVlIg~vDee 65 (142)
+|.+++||+|+|+|+|||+||||||+||+|.... ++ ++...+.+|.++|||+||++|+..+.-
T Consensus 18 ~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~v~iRG~~I~~i~~~~~~ 86 (91)
T 1d3b_B 18 RCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEGPP 86 (91)
T ss_dssp EEEETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEEEEEEECC
T ss_pred EEEECCCeEEEEEEEEECCCCeEEecCEEEEeeccccccccccCccEeECCEEEECCCeEEEEEcCCCC
Confidence 6899999999999999999999999999996432 11 235688999999999999999986643
No 11
>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=99.73 E-value=1e-17 Score=115.57 Aligned_cols=58 Identities=28% Similarity=0.420 Sum_probs=51.6
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISS 64 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDe 64 (142)
+|.+++||+|.|+|+|||+|||+||+||+|+.. +...+.+|.++|||+||++|++.|+
T Consensus 23 ~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~----~~~~~~lg~v~iRG~~I~~i~~~~~ 80 (81)
T 1th7_A 23 LVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQS----DGSGKKLGTIVIRGDNVILISPLQT 80 (81)
T ss_dssp EEEETTTEEEEEEEEEECTTCCEEEEEEEEECS----SSCEEEEEEEEECGGGEEEEEEC--
T ss_pred EEEEcCCcEEEEEEEEEcCCCCEEEccEEEEec----CCceeECCEEEECCCEEEEEEecCC
Confidence 689999999999999999999999999999862 2467899999999999999999874
No 12
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=99.72 E-value=1.4e-17 Score=118.63 Aligned_cols=60 Identities=18% Similarity=0.268 Sum_probs=51.0
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCC-CC--------eeeEEeceEEEecCcEEEeeeC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPT-AG--------VEQVVLGLHIIRGDNIKIPTKI 62 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~-~~--------~~~r~LGlvlIRGdNIVlIg~v 62 (142)
+|.+++||+|.|+|+|||+||||||+||+|++.... ++ ..++.+|+++|||+||++|++.
T Consensus 23 ~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~v~iRG~nVv~I~p~ 91 (93)
T 4emg_A 23 YVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFVRGDSVILIAPP 91 (93)
T ss_dssp EEEETTTEEEEEEEEEECTTCCEEEEEEEEEEC--------------CEEEEEEEEEECGGGEEEEECC
T ss_pred EEEECCCcEEEEEEEEECCcccEEeecEEEEEeccccCCccccccccccEeEeceEEECCCeEEEEEec
Confidence 688999999999999999999999999999975421 11 3579999999999999999873
No 13
>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=99.72 E-value=2.1e-17 Score=118.76 Aligned_cols=58 Identities=24% Similarity=0.215 Sum_probs=52.1
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKIS 63 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vD 63 (142)
+|.+++||+|+|+|+|||+||||||+||+|+... +..++.+|.++|||+||++|++..
T Consensus 34 ~V~Lk~gr~~~G~L~gfD~~mNlvL~d~~E~~~~---~~~~~~lg~v~IRG~nI~~i~p~~ 91 (94)
T 4emk_A 34 WVIMKSEREFAGTLVGFDDYVNIVLKDVTEYDTV---TGVTEKHSEMLLNGNGMCMLIPGG 91 (94)
T ss_dssp EEEESSSEEEEEEEEEECTTCCEEEEEEEEEETT---TCCEEEEEEEEECSTTEEEEEECC
T ss_pred EEEECCCcEEEEEEEEEcccCCeEeeeEEEEecC---CCcEeEcCEEEEcCCEEEEEEeCC
Confidence 6889999999999999999999999999998722 245889999999999999999864
No 14
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A*
Probab=99.70 E-value=3e-17 Score=113.41 Aligned_cols=56 Identities=23% Similarity=0.411 Sum_probs=51.4
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKIS 63 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vD 63 (142)
+|.|++||+|.|+|+|||+|||+||+||+|+ . + ...+.+|.++|||+||++|++.|
T Consensus 25 ~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~--~--~-~~~~~lg~v~iRG~~I~~i~~~d 80 (81)
T 1i8f_A 25 LVKLRDSHEIRGILRSFDQHVNLLLEDAEEI--I--D-GNVYKRGTMVVRGENVLFISPVP 80 (81)
T ss_dssp EEEEGGGEEEEEEEEEECTTCCEEEEEEEEE--E--T-TEEEEEEEEEECGGGEEEEEECC
T ss_pred EEEEcCCcEEEEEEEEEcCCCeeEEccEEEE--c--C-CcccCCCEEEECCCEEEEEEeCC
Confidence 6899999999999999999999999999998 2 2 46889999999999999999876
No 15
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A
Probab=99.70 E-value=5.9e-17 Score=112.55 Aligned_cols=55 Identities=35% Similarity=0.487 Sum_probs=50.6
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeee
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTK 61 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~ 61 (142)
+|.|++||+|.|+|+|||+|||++|+||+|+. .+...+.+|.++|||+||++|.+
T Consensus 29 ~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~----~~~~~~~lg~v~IRG~~I~~i~p 83 (83)
T 1mgq_A 29 IIKLKGDREFRGVLKSFDLHMNLVLNDAEELE----DGEVTRRLGTVLIRGDNIVYISP 83 (83)
T ss_dssp EEEETTTEEEEEEEEEECTTCCEEEEEEEEEE----TTEEEEEEEEEEECGGGEEEEEC
T ss_pred EEEEcCCcEEEEEEEEECCCceeEEccEEEEe----cCCcccCCCEEEECCCEEEEEEC
Confidence 68999999999999999999999999999987 23578899999999999999975
No 16
>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=99.69 E-value=4.4e-17 Score=120.16 Aligned_cols=63 Identities=17% Similarity=0.265 Sum_probs=50.4
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecC-CC--C-------eeeEEeceEEEecCcEEEeeeCCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSP-TA--G-------VEQVVLGLHIIRGDNIKIPTKISSS 65 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~-~~--~-------~~~r~LGlvlIRGdNIVlIg~vDee 65 (142)
+|.|++||.|.|+|+|||+||||||+||+|++... ++ + ..++.+|.++|||+||++|++.+..
T Consensus 43 ~V~Lk~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~nVv~I~~~~~~ 115 (118)
T 1b34_B 43 LINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNPLI 115 (118)
T ss_dssp EEEETTSCEEEEEEEEECTTCCEEEEEEEEC-------------------CEEEEEEEECGGGEEEEEECCCC
T ss_pred EEEECCCcEEEEEEEEeCCceEEEEeCEEEEEecccccccccccccccccccCcCeEEEcCCEEEEEEeCchh
Confidence 58899999999999999999999999999986432 11 1 1267899999999999999998753
No 17
>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=99.69 E-value=5.8e-17 Score=115.78 Aligned_cols=58 Identities=28% Similarity=0.351 Sum_probs=52.7
Q ss_pred eEEEEcCC-eEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCC
Q psy1140 2 TTFTILSL-IFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKIS 63 (142)
Q Consensus 2 ~~~~l~sG-R~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vD 63 (142)
.+|.|++| |+|.|+|+|||+|||++|+||+|+. ++...+.+|.++|||+||++|++.+
T Consensus 34 V~V~Lk~g~~~~~G~L~~~D~~MNlvL~d~~E~~----~~~~~~~lg~v~IRG~nI~~I~~~~ 92 (93)
T 1n9r_A 34 VGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFV----AGVSHGTLGEIFIRCNNVLYIRELP 92 (93)
T ss_dssp EEEEESSTTEEEEEEEEECCTTTCEEEEEEEEEE----TTEEEEECCSEEECGGGEEEEEECC
T ss_pred EEEEEcCCCEEEEEEEEEEccccEEEEeeEEEEc----CCCeEeEcCEEEEcCCeEEEEEeCC
Confidence 36899999 9999999999999999999999986 3456889999999999999999875
No 18
>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1 PDB: 3pgg_A
Probab=99.68 E-value=2.7e-17 Score=121.89 Aligned_cols=64 Identities=22% Similarity=0.361 Sum_probs=52.3
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecC--C----CCee-----eEEeceEEEecCcEEEeeeCCCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSP--T----AGVE-----QVVLGLHIIRGDNIKIPTKISSST 66 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~--~----~~~~-----~r~LGlvlIRGdNIVlIg~vDee~ 66 (142)
+|.+++||+|+|+|+|||+||||||+||+|+.... + ++.. ++.+|.++|||+||++|++.++-.
T Consensus 42 ~V~Lk~Gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IRG~nVv~I~~~~~~~ 116 (121)
T 2fwk_A 42 YVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNVAMLVPGGDPD 116 (121)
T ss_dssp EEEETTTEEECCEEEEECTTCCEEEESCCEEEC---------------CEECCCCSEEEECGGGEEEEESSSCC-
T ss_pred EEEECCCcEEEEEEEEEcccCCeEeceEEEEEeccccccccccCcccccccceEcceEEECCCEEEEEEecCCCC
Confidence 68999999999999999999999999999987531 1 1223 788999999999999999977654
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=99.65 E-value=2.5e-16 Score=115.14 Aligned_cols=64 Identities=22% Similarity=0.213 Sum_probs=51.3
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCCCCCC
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISSSTRS 68 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDee~e~ 68 (142)
.+|.|++||+|.|+|+|||+||||+|+||+|... ++...+.+|.++|||+||.+|...|+..+.
T Consensus 29 V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~e~~~---dg~~~~~lg~v~IRG~nI~~I~~pd~l~d~ 92 (105)
T 4emh_A 29 ILVELKNGETFNGHLENCDNYMNLTLREVIRTMP---DGDKFFRLPECYIRGNNIKYLRIQDEVLSQ 92 (105)
T ss_dssp EEEEETTSCEEEEEEEEECTTCCEEEEEEEEECT---TSCEEEEEEEEEECGGGEEEEEC-------
T ss_pred EEEEECCCCEEEEEEEEEcCCceEEEEEEEEEcc---CCceeeEcCeEEEeCCeEEEEecCHHHhhh
Confidence 3789999999999999999999999999999742 334678999999999999999998876643
No 20
>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=99.63 E-value=8.6e-16 Score=105.21 Aligned_cols=58 Identities=16% Similarity=0.098 Sum_probs=51.2
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCC
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKIS 63 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vD 63 (142)
.+|.|++|++|.|+|.|||+|||++|+||+|... + .+.+.+|.++|||+||.+|...|
T Consensus 18 V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~e~~~---~-~~~~~lg~v~IRG~nI~~i~lPd 75 (75)
T 1d3b_A 18 VTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYR---D-GRVAQLEQVYIRGCKIRFLILPD 75 (75)
T ss_dssp EEEEETTSCEEEEEEEEECTTCCEEEEEEEEECT---T-SCEEEEEEEEECGGGEEEEEECC
T ss_pred EEEEECCCcEEEEEEEEEccceeEEEEeEEEECC---C-CcEEEcCeEEEeCCEEEEEEcCC
Confidence 3789999999999999999999999999999752 2 24789999999999999998754
No 21
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A
Probab=99.62 E-value=8.4e-16 Score=126.17 Aligned_cols=61 Identities=34% Similarity=0.467 Sum_probs=52.8
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEe-cCC-----CCeeeEEeceEEEecCcEEEeeeCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVY-SPT-----AGVEQVVLGLHIIRGDNIKIPTKIS 63 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~-~~~-----~~~~~r~LGlvlIRGdNIVlIg~vD 63 (142)
.|.|++||+|+|+|+|||+||||||+||+|++. .++ +..+++.+|+++||||||++|+..+
T Consensus 18 ~V~LkdGRel~GtLkgFDq~MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGlV~IRGdnIV~Isve~ 84 (231)
T 3pgw_B 18 RCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEG 84 (231)
T ss_pred EEEECCCcEEEEEEEEEcccccEEecCEEEEEeccCcccccccccceeEeceEEECCCcEEEEEecC
Confidence 689999999999999999999999999999864 221 2357899999999999999998643
No 22
>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=99.62 E-value=8.8e-16 Score=113.60 Aligned_cols=59 Identities=27% Similarity=0.282 Sum_probs=52.5
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCC
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISS 64 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDe 64 (142)
.+|.|++|++|+|+|.|||+||||||+||+|... +...+.+|.++|||+||++|.+.|.
T Consensus 15 V~V~Lk~g~~~~G~L~~~D~~MNlvL~d~~e~~~----~~~~~~lg~v~IRG~nI~~I~~pd~ 73 (119)
T 1b34_A 15 VTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLK----NREPVQLETLSIRGNNIRYFILPDS 73 (119)
T ss_dssp EEEEETTCCEEEEEEEEECTTCCEEEEEEEEECT----TSCCEEEEEEEECGGGEEEEECCTT
T ss_pred EEEEEcCCCEEEEEEEEEcccceEEeccEEEecC----CCceeEcceEEEcCCeEEEEEeccc
Confidence 3789999999999999999999999999999752 2346899999999999999998775
No 23
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1
Probab=99.54 E-value=6.8e-15 Score=111.08 Aligned_cols=56 Identities=14% Similarity=0.185 Sum_probs=50.5
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCCC
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISSS 65 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDee 65 (142)
.+|.|++||+|.|+|+|||+|||++|+||+|+. .+.+|.++|||+||++|++.|+.
T Consensus 13 V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~E~~--------~~~lg~v~IRG~nI~~I~~~d~~ 68 (130)
T 1m5q_A 13 VQVVLSNGEVYKGVLHAVDNQLNIVLANASNKA--------GEKFNRVFIMYRYIVHIDSTERR 68 (130)
T ss_dssp EEEEETTSCEEEEEEEEECTTCCEEEEEEECTT--------CCEEEEEEECGGGEEEEEECCCC
T ss_pred EEEEECCCcEEEEEEEEEcccceeEEeeEEEEc--------CCEeceEEEeCCeEEEEEcCCcc
Confidence 368999999999999999999999999999962 25789999999999999998765
No 24
>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=99.50 E-value=5.5e-14 Score=105.61 Aligned_cols=59 Identities=17% Similarity=0.165 Sum_probs=51.6
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCC
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISS 64 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDe 64 (142)
.+|.|++|++|.|+|.+||+|||++|+||+|... ++ +...+|.++|||+||.+|...|.
T Consensus 18 V~VeLknG~~~~G~L~~~D~~MNi~L~dv~e~~~---~g-~~~~l~~v~IRGnnI~~I~lpd~ 76 (126)
T 2y9a_D 18 VTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYR---DG-RVAQLEQVYIRGSKIRFLILPDM 76 (126)
T ss_dssp EEEEESSCCEEEEEEEEECTTSCEEEEEEEEECT---TS-CCEEEEEEEECGGGEEEEECCSS
T ss_pred EEEEECCCcEEEEEEEEEcCceEEEEeeEEEEcC---CC-cEeecccEEEeCCEEEEEEcccc
Confidence 4789999999999999999999999999999752 22 47799999999999999996553
No 25
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=96.29 E-value=0.011 Score=41.87 Aligned_cols=54 Identities=19% Similarity=0.216 Sum_probs=42.9
Q ss_pred EEEEcCCeEEEEEEEEec-ceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeeeCCCCC
Q psy1140 3 TFTILSLIFFQGTLKGFD-QTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTKISSST 66 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFD-qfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~vDee~ 66 (142)
.|++.+|++|.|+|.+|| .-.|+||.++-| ++ ..-..+|-|..|.-|..+++..
T Consensus 21 ~V~l~dg~~y~G~l~tvDp~s~sIvL~n~~~------~~----~~~~~iI~G~aI~eI~v~~~~~ 75 (86)
T 1y96_A 21 RVTASEKNEYKGWVLTTDPVSANIVLVNFLE------DG----SMSVTGIMGHAVQTVETMNEGD 75 (86)
T ss_dssp EEEETTTEEEEEEEEEECTTTCCEEEEEECT------TS----CEEEEEECGGGEEEEEEEECCC
T ss_pred EEEEcCCCEEEEEEEEECCCceEEEEeeccc------CC----eEEEEEEecceEEEEEEecchh
Confidence 589999999999999999 999999998811 11 2367889999998887655443
No 26
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=88.77 E-value=0.57 Score=32.47 Aligned_cols=27 Identities=26% Similarity=0.427 Sum_probs=23.8
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEec
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILD 28 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~ 28 (142)
.||-|.+|-.+.|.+.|||+|+=++-.
T Consensus 26 Vtv~L~nG~~l~G~I~~fD~f~VlL~~ 52 (78)
T 3ahu_A 26 VTVFLLNGFQLRGQVKGFDNFTVLLES 52 (78)
T ss_dssp EEEEETTSCEEEEEEEEECSSEEEEES
T ss_pred EEEEEeCCeEEEEEEEEEcceEEEEEE
Confidence 478899999999999999999977753
No 27
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=88.49 E-value=0.63 Score=31.78 Aligned_cols=28 Identities=4% Similarity=0.000 Sum_probs=24.1
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEecc
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILDD 29 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~d 29 (142)
.||-|.+|-.+.|.++|||+|+=++-.+
T Consensus 28 Vtv~L~NG~~l~G~I~~fD~ftVll~~~ 55 (71)
T 2qtx_A 28 VKIFLRNGEVLDAEVTGVSNYEIMVKVG 55 (71)
T ss_dssp EEEEETTSCEEEEEEEEECSSEEEEEET
T ss_pred EEEEEeCCeEEEEEEEEEcceEEEEEeC
Confidence 3788999999999999999999777544
No 28
>2ylb_A Protein HFQ; RNA-binding protein, LSM protein, RNA chaperone; 1.15A {Salmonella enterica subsp} PDB: 2yht_A 1hk9_A 2ylc_A* 3gib_A* 3rer_A* 3qo3_A* 3res_A*
Probab=86.85 E-value=0.63 Score=31.78 Aligned_cols=26 Identities=23% Similarity=0.438 Sum_probs=22.8
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEe
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIIL 27 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL 27 (142)
.||-|.+|-.+.|.+++||+|+=++-
T Consensus 24 Vti~L~nG~~l~G~I~~fD~f~vlL~ 49 (74)
T 2ylb_A 24 VSIYLVNGIKLQGQIESFDQFVILLK 49 (74)
T ss_dssp EEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred EEEEEeCCCEEEEEEEEECCcEEEEE
Confidence 37889999999999999999986664
No 29
>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=86.53 E-value=0.8 Score=32.08 Aligned_cols=27 Identities=22% Similarity=0.449 Sum_probs=23.7
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEec
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILD 28 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~ 28 (142)
.||-|.+|-.+.|.++|||+|+=++-.
T Consensus 22 Vtv~L~NG~~l~G~I~~fD~ftVlL~~ 48 (82)
T 1u1s_A 22 VSIYLVNGIKLQGQIESFDQFVILLKN 48 (82)
T ss_dssp EEEEETTSCEEEEEEEEECSSEEEEES
T ss_pred EEEEEeCCcEEEEEEEEEcceEEEEec
Confidence 478899999999999999999977653
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=83.28 E-value=1.6 Score=29.97 Aligned_cols=27 Identities=15% Similarity=0.273 Sum_probs=23.4
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEec
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILD 28 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~ 28 (142)
.||-|..|-.+.|.+.+||+|+=++-.
T Consensus 22 VtI~L~nG~~l~G~I~~fD~f~VlL~~ 48 (77)
T 1kq1_A 22 VTVFFLNGFQMKGVIEEYDKYVVSLNS 48 (77)
T ss_dssp EEEEETTSCEEEEEEEEECSSEEEEEE
T ss_pred EEEEEeCCCEEEEEEEEECCcEEEEEE
Confidence 368899999999999999999877653
No 31
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=82.50 E-value=1.6 Score=30.30 Aligned_cols=25 Identities=24% Similarity=0.478 Sum_probs=22.5
Q ss_pred eEEEEcCCeEEEEEEEEecceecEE
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINII 26 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLV 26 (142)
.|+-|..|-.+.|.+.+||+|+=++
T Consensus 23 VtI~LvnG~~L~G~I~~fD~f~VlL 47 (79)
T 3sb2_A 23 VSIYLVNGIKLQGHVESFDQYVVLL 47 (79)
T ss_dssp EEEEETTSCEEEEEEEEECSSEEEE
T ss_pred EEEEEeCCCEEEEEEEEECCcEEEE
Confidence 4788999999999999999998665
No 32
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=77.34 E-value=3.1 Score=30.24 Aligned_cols=28 Identities=21% Similarity=0.433 Sum_probs=24.1
Q ss_pred eEEEEcCCeEEEEEEEEecceecEEecc
Q psy1140 2 TTFTILSLIFFQGTLKGFDQTINIILDD 29 (142)
Q Consensus 2 ~~~~l~sGR~ivG~L~gFDqfmNLVL~d 29 (142)
.||-|..|-.+.|++++||+|+=++-++
T Consensus 24 VtI~LvNG~~L~G~I~~fD~f~VlL~~~ 51 (104)
T 2y90_A 24 VSIYLVNGIKLQGQIESFDQFVILLKNT 51 (104)
T ss_dssp EEEEETTSCEEEEEEEEECSSEEEEESS
T ss_pred EEEEEeCCCEEEEEEEEECCcEEEEECC
Confidence 3788999999999999999999777544
No 33
>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=46.74 E-value=65 Score=21.80 Aligned_cols=50 Identities=22% Similarity=0.260 Sum_probs=29.9
Q ss_pred EEEEcCCeEEEEEEEEecceecEEecceEEEEecCCCCeeeEEeceEEEecCcEEEeee
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIKIPTK 61 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL~davEri~~~~~~~~~r~LGlvlIRGdNIVlIg~ 61 (142)
.+.+.|...|+|+|.-||+-. +.|.|++.+. . ..--.++++=|.|-.|-.
T Consensus 20 Av~vg~ehSFtGiledFDeEv-iLL~dV~D~~-G-------Nk~k~liv~idDinWimL 69 (71)
T 1ycy_A 20 AVSVGGDHSFTGTLEDFDEEV-ILLKDVVDVI-G-------NRGKQMLIGLEDINWIML 69 (71)
T ss_dssp EEEEC----CEEEEEEECSSE-EEEEEEEETT-E-------EEEEEEEEEGGGEEEEEE
T ss_pred EEEecCcceeeeehhhcCcce-eehhhHHHHh-c-------cccceeEEEeccceEEEe
Confidence 467888999999999999976 5567777653 1 112345666666655543
No 34
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=22.34 E-value=1.4e+02 Score=19.98 Aligned_cols=25 Identities=16% Similarity=0.042 Sum_probs=21.2
Q ss_pred EEEEcCCeEEEEEEEEecceecEEe
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINIIL 27 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLVL 27 (142)
++-|..|-.++|.+.-+|+|.=++-
T Consensus 25 ~I~L~tG~~l~G~i~WQD~~cl~L~ 49 (70)
T 3hfo_A 25 EIKLLTGDSLFGTIRWQDTDGLGLV 49 (70)
T ss_dssp EEEETTSCEEEEEEEEECSSEEEEE
T ss_pred EEEecCCCEEEEEEEEeCCCEEEEE
Confidence 5778999999999999999865543
No 35
>3sft_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; modified doubly-wound/fold, chemoreceptor; 2.15A {Thermotoga maritima}
Probab=22.23 E-value=29 Score=26.91 Aligned_cols=26 Identities=31% Similarity=0.376 Sum_probs=17.5
Q ss_pred cccCCchhhhhhh-hhhhhhhhhhhhh
Q psy1140 98 FGYRPSVDVLHLS-ASALKVESMAFIM 123 (142)
Q Consensus 98 ~~~~~~~~~~~~~-~~~~~~~~~~~~~ 123 (142)
.+|||+||++--| |+..+.+..+.|+
T Consensus 106 ~~~rPsiD~lF~S~A~~~g~~~igViL 132 (193)
T 3sft_A 106 NNVRPAVDFTLDKAAEIYKSKTIAVIL 132 (193)
T ss_dssp SSCSSCHHHHHHHHHHHHGGGEEEEEC
T ss_pred CCCCCCHHHHHHHHHHHhCCCEEEEEE
Confidence 4789999998655 4445666555543
No 36
>1chd_A CHEB methylesterase; chemotaxis protein, serine hydrolase, carboxyl methylesteras; 1.75A {Salmonella typhimurium} SCOP: c.40.1.1
Probab=22.15 E-value=28 Score=27.26 Aligned_cols=25 Identities=40% Similarity=0.395 Sum_probs=16.5
Q ss_pred cccCCchhhhhhh-hhhhhhhhhhhh
Q psy1140 98 FGYRPSVDVLHLS-ASALKVESMAFI 122 (142)
Q Consensus 98 ~~~~~~~~~~~~~-~~~~~~~~~~~~ 122 (142)
.||||+||++--| |++.+.+..+.|
T Consensus 108 ~~~rPsiD~lF~S~A~~~g~~aigVi 133 (203)
T 1chd_A 108 NRHRPSVDVLFHSVAKHAGRNAVGVI 133 (203)
T ss_dssp TTBSSCHHHHHHHHHHHTGGGEEEEE
T ss_pred CCCCCCccHHHHHHHHhcCCCEEEEE
Confidence 4789999987655 344455655544
No 37
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=21.73 E-value=93 Score=20.90 Aligned_cols=24 Identities=17% Similarity=0.054 Sum_probs=20.4
Q ss_pred EEEEcCCeEEEEEEEEecceecEE
Q psy1140 3 TFTILSLIFFQGTLKGFDQTINII 26 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmNLV 26 (142)
++-|..|-.++|.+.-+|+|.=.+
T Consensus 27 ~I~L~tGd~l~G~i~WQD~~cl~L 50 (72)
T 3hfn_A 27 EIKLVTGDAITGRVLWQDPTCVCI 50 (72)
T ss_dssp EEEETTSCEEEEEEEEECSSEEEE
T ss_pred EEEecCCCEEEEEEEEECCCEEEE
Confidence 577899999999999999985444
No 38
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=20.35 E-value=2.3e+02 Score=19.78 Aligned_cols=62 Identities=16% Similarity=0.140 Sum_probs=40.7
Q ss_pred EEEEcCCeEEEEEEEEecceec-EEecceEEEEecCC--CC---eeeEEeceEEEecCcEEEeeeCCC
Q psy1140 3 TFTILSLIFFQGTLKGFDQTIN-IILDDSHERVYSPT--AG---VEQVVLGLHIIRGDNIKIPTKISS 64 (142)
Q Consensus 3 ~~~l~sGR~ivG~L~gFDqfmN-LVL~davEri~~~~--~~---~~~r~LGlvlIRGdNIVlIg~vDe 64 (142)
++.-+++-.|+|+|..+|..-. +.|.++..+=..+. +. -.......++.||..|--+.-.+.
T Consensus 17 SLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~~~ipp~~~vy~yIvFrgsDIKdL~V~~~ 84 (88)
T 2vxe_A 17 SLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQFQIAPQSQIYDYILFRGSDIKDIRVVNN 84 (88)
T ss_dssp EEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCSSCCCCCCSCEEEEEEETTTEEEEEECCC
T ss_pred EEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCCCcccCCCCceeeEEEEccCCccEEEEecc
Confidence 3456788899999999997644 55666554311110 10 123456889999999998876554
No 39
>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=20.24 E-value=1.1e+02 Score=24.52 Aligned_cols=23 Identities=17% Similarity=0.297 Sum_probs=20.3
Q ss_pred cCCeEEEEEEEEecceecEEecc
Q psy1140 7 LSLIFFQGTLKGFDQTINIILDD 29 (142)
Q Consensus 7 ~sGR~ivG~L~gFDqfmNLVL~d 29 (142)
.+++.+.|+..|+|....|++..
T Consensus 280 ~~~~~~~G~~~gid~~G~L~v~~ 302 (321)
T 1bia_A 280 IGDKEIFGISRGIDKQGALLLEQ 302 (321)
T ss_dssp ETTEEEEEEEEEECTTSCEEEEE
T ss_pred ECCcEEEEEEEEECCCCeEEEEE
Confidence 46778999999999999999864
Done!