Query psy1175
Match_columns 155
No_of_seqs 171 out of 969
Neff 4.1
Searched_HMMs 46136
Date Fri Aug 16 17:58:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1175.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1175hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3293|consensus 100.0 1.5E-28 3.2E-33 189.7 9.7 76 1-76 15-90 (134)
2 cd01724 Sm_D1 The eukaryotic S 99.9 1.6E-22 3.5E-27 147.3 8.3 68 1-69 14-82 (90)
3 cd01721 Sm_D3 The eukaryotic S 99.9 3.5E-22 7.6E-27 138.8 8.5 58 1-59 13-70 (70)
4 cd01723 LSm4 The eukaryotic Sm 99.9 5.1E-22 1.1E-26 139.7 8.6 63 1-63 14-76 (76)
5 cd01733 LSm10 The eukaryotic S 99.8 4.2E-21 9.1E-26 136.5 8.5 57 1-58 22-78 (78)
6 cd01725 LSm2 The eukaryotic Sm 99.8 4E-21 8.7E-26 137.1 8.3 64 1-64 14-78 (81)
7 KOG3428|consensus 99.8 1.4E-19 2.9E-24 136.9 7.9 90 1-92 15-105 (109)
8 KOG3172|consensus 99.8 2.6E-19 5.5E-24 136.0 8.7 62 1-63 18-79 (119)
9 cd01726 LSm6 The eukaryotic Sm 99.7 2.1E-17 4.5E-22 113.5 7.4 55 1-56 13-67 (67)
10 cd01722 Sm_F The eukaryotic Sm 99.7 8.1E-17 1.8E-21 111.0 7.6 55 1-56 14-68 (68)
11 smart00651 Sm snRNP Sm protein 99.7 2.7E-16 5.7E-21 105.9 7.5 57 1-57 11-67 (67)
12 KOG3448|consensus 99.7 2.7E-16 5.8E-21 116.0 7.8 73 1-73 15-88 (96)
13 PF01423 LSM: LSM domain ; In 99.6 5.4E-16 1.2E-20 104.5 6.2 57 1-57 11-67 (67)
14 PRK00737 small nuclear ribonuc 99.6 1.1E-15 2.4E-20 106.5 7.9 55 1-56 17-71 (72)
15 cd01731 archaeal_Sm1 The archa 99.6 1.3E-15 2.9E-20 104.5 7.9 55 1-56 13-67 (68)
16 cd00600 Sm_like The eukaryotic 99.6 3.2E-15 7E-20 99.1 7.8 55 1-56 9-63 (63)
17 COG1958 LSM1 Small nuclear rib 99.6 9.2E-15 2E-19 102.9 7.4 57 1-57 20-79 (79)
18 cd01719 Sm_G The eukaryotic Sm 99.6 1.7E-14 3.8E-19 101.0 7.6 59 1-60 13-71 (72)
19 KOG3482|consensus 99.5 6.9E-15 1.5E-19 105.2 4.5 55 1-56 21-75 (79)
20 cd01732 LSm5 The eukaryotic Sm 99.5 3.6E-14 7.8E-19 100.6 7.7 56 1-56 16-73 (76)
21 cd01729 LSm7 The eukaryotic Sm 99.4 6.8E-13 1.5E-17 94.8 7.5 59 1-59 15-80 (81)
22 cd01718 Sm_E The eukaryotic Sm 99.4 7.5E-13 1.6E-17 95.1 7.5 56 1-56 21-78 (79)
23 cd01720 Sm_D2 The eukaryotic S 99.4 2.6E-12 5.6E-17 93.5 7.5 57 1-57 17-85 (87)
24 cd01730 LSm3 The eukaryotic Sm 99.3 2.9E-12 6.4E-17 91.2 7.2 56 1-56 14-81 (82)
25 PTZ00138 small nuclear ribonuc 99.3 1.2E-11 2.7E-16 90.6 7.6 57 1-57 29-87 (89)
26 cd01717 Sm_B The eukaryotic Sm 99.3 1.2E-11 2.7E-16 87.3 7.1 57 1-57 13-78 (79)
27 cd01728 LSm1 The eukaryotic Sm 99.2 2.7E-11 5.8E-16 85.6 7.3 57 1-57 15-73 (74)
28 cd01727 LSm8 The eukaryotic Sm 99.2 3E-11 6.4E-16 84.5 7.4 59 1-59 12-73 (74)
29 KOG1783|consensus 99.2 1.3E-12 2.8E-17 93.5 -0.8 57 1-58 19-75 (77)
30 cd06168 LSm9 The eukaryotic Sm 99.1 3.6E-10 7.8E-15 80.1 7.2 57 1-57 13-74 (75)
31 KOG1780|consensus 98.9 1.4E-09 3.1E-14 78.1 4.8 56 1-57 17-72 (77)
32 KOG1775|consensus 98.5 2.7E-08 5.9E-13 72.1 1.7 55 1-55 20-76 (84)
33 KOG3460|consensus 98.4 6.1E-08 1.3E-12 71.3 1.2 60 1-60 18-89 (91)
34 KOG1774|consensus 98.3 9.1E-07 2E-11 64.9 3.6 56 2-57 28-85 (88)
35 KOG1781|consensus 97.4 2.1E-05 4.5E-10 59.6 -1.5 60 1-60 30-96 (108)
36 KOG3168|consensus 96.9 0.00013 2.9E-09 59.6 -1.4 60 1-60 17-85 (177)
37 KOG1784|consensus 96.5 0.0027 6E-08 47.5 3.2 72 1-72 13-87 (96)
38 KOG1782|consensus 96.4 0.00051 1.1E-08 53.7 -1.2 59 1-59 22-82 (129)
39 cd01739 LSm11_C The eukaryotic 95.7 0.0045 9.8E-08 43.7 1.0 27 9-35 23-49 (66)
40 PF14438 SM-ATX: Ataxin 2 SM d 94.9 0.051 1.1E-06 37.6 4.2 34 1-34 15-51 (77)
41 PF12701 LSM14: Scd6-like Sm d 92.6 0.65 1.4E-05 34.5 6.8 60 1-60 11-79 (96)
42 PTZ00034 40S ribosomal protein 92.3 0.068 1.5E-06 41.8 1.3 14 53-66 79-92 (124)
43 cd01716 Hfq Hfq, an abundant, 89.6 0.39 8.4E-06 33.3 2.9 23 1-23 14-36 (61)
44 KOG3459|consensus 89.5 0.061 1.3E-06 41.5 -1.3 56 1-56 39-106 (114)
45 TIGR02383 Hfq RNA chaperone Hf 89.1 0.43 9.4E-06 33.1 2.8 23 1-23 18-40 (61)
46 PRK00395 hfq RNA-binding prote 85.9 0.88 1.9E-05 33.1 2.9 23 1-23 22-44 (79)
47 PF05918 API5: Apoptosis inhib 76.7 0.8 1.7E-05 43.4 0.0 11 90-100 532-542 (556)
48 COG1923 Hfq Uncharacterized ho 76.7 2.7 5.8E-05 30.6 2.7 22 1-22 22-43 (77)
49 PF02237 BPL_C: Biotin protein 75.4 14 0.0003 23.4 5.6 42 1-48 6-48 (48)
50 cd01736 LSm14_N LSm14 (also kn 69.1 26 0.00055 25.3 6.2 53 2-54 10-72 (74)
51 PRK14091 RNA-binding protein H 65.6 6.7 0.00014 32.2 3.0 22 1-22 107-128 (165)
52 PRK14091 RNA-binding protein H 64.9 7 0.00015 32.1 3.0 22 1-22 27-48 (165)
53 KOG3293|consensus 62.2 15 0.00032 29.2 4.2 8 52-59 51-58 (134)
54 PRK10590 ATP-dependent RNA hel 59.0 13 0.00028 33.2 3.9 12 48-59 342-353 (456)
55 KOG1073|consensus 50.1 33 0.00071 31.3 4.9 59 1-59 12-80 (361)
56 KOG1690|consensus 50.1 11 0.00023 32.1 1.8 12 119-130 191-202 (215)
57 PF11095 Gemin7: Gem-associate 47.9 93 0.002 22.6 6.1 52 1-58 27-79 (80)
58 KOG3262|consensus 47.6 26 0.00055 29.8 3.6 8 79-86 164-171 (215)
59 PF13865 FoP_duplication: C-te 46.6 34 0.00074 23.9 3.6 9 106-114 37-45 (74)
60 PRK11625 Rho-binding antitermi 41.2 85 0.0019 22.9 5.1 21 1-23 26-46 (84)
61 PF06372 Gemin6: Gemin6 protei 36.9 1.6E+02 0.0035 24.0 6.6 53 1-61 20-73 (166)
62 PF11607 DUF3247: Protein of u 36.9 31 0.00067 26.3 2.3 16 1-16 31-46 (101)
63 PF15468 DUF4636: Domain of un 34.8 28 0.0006 30.1 2.0 16 112-127 40-55 (243)
64 PF07073 ROF: Modulator of Rho 32.7 21 0.00045 25.7 0.8 14 1-14 20-33 (80)
65 PHA02898 virion envelope prote 32.5 38 0.00083 25.4 2.2 21 110-130 9-30 (92)
66 PF03778 DUF321: Protein of un 32.2 13 0.00029 20.7 -0.2 6 150-155 7-12 (20)
67 cd01735 LSm12_N LSm12 belongs 31.1 1.8E+02 0.0039 20.0 5.4 26 1-26 9-34 (61)
68 PRK09718 hypothetical protein; 30.2 39 0.00085 32.2 2.3 47 101-150 18-64 (512)
69 PF13314 DUF4083: Domain of un 29.6 55 0.0012 22.7 2.4 12 113-124 5-16 (58)
70 TIGR02603 CxxCH_TIGR02603 puta 28.4 69 0.0015 24.1 3.1 20 1-20 60-79 (133)
71 PHA02680 ORF090 IMV phosphoryl 28.1 43 0.00092 25.1 1.8 16 116-131 15-31 (91)
72 KOG0921|consensus 27.3 58 0.0013 33.8 3.1 16 12-27 1075-1091(1282)
73 PF05398 PufQ: PufQ cytochrome 27.1 64 0.0014 23.3 2.5 27 111-137 18-44 (73)
74 PRK14639 hypothetical protein; 26.2 77 0.0017 24.7 3.0 20 1-20 91-110 (140)
75 TIGR02549 CRISPR_DxTHG CRISPR- 26.2 25 0.00054 20.7 0.2 10 146-155 3-12 (26)
76 PRK02001 hypothetical protein; 25.2 82 0.0018 25.1 3.1 25 1-26 93-117 (152)
77 PF11684 DUF3280: Protein of u 23.6 1.3E+02 0.0028 23.7 3.9 39 8-51 82-123 (140)
78 KOG3199|consensus 23.2 34 0.00074 29.5 0.6 44 23-69 185-228 (234)
79 PF14707 Sulfatase_C: C-termin 22.3 21 0.00046 26.8 -0.7 11 109-119 1-11 (131)
80 KOG2945|consensus 21.7 92 0.002 28.5 3.0 9 99-107 347-355 (365)
81 cd01734 YlxS_C YxlS is a Bacil 21.0 1.2E+02 0.0026 21.1 2.9 20 1-20 28-51 (83)
82 PHA03048 IMV membrane protein; 21.0 78 0.0017 23.8 2.0 21 111-131 10-31 (93)
83 PF05767 Pox_A14: Poxvirus vir 20.7 72 0.0016 24.0 1.8 17 115-131 14-31 (92)
No 1
>KOG3293|consensus
Probab=99.95 E-value=1.5e-28 Score=189.65 Aligned_cols=76 Identities=82% Similarity=1.400 Sum_probs=72.2
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCchhhhhHHHHHHhhhhcc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPDEIIDMVKEDQVQRTRQR 76 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPdeiid~~k~~~~~k~~~r 76 (155)
|.||||||++|.|.|++||.||||+|++|+++++||+.||.+++|||||++|+|+.+||+++|.+++|..++.+.|
T Consensus 15 mlvELKNget~nGhL~~cD~wMNl~L~~Vi~ts~Dgdkf~r~pEcYirGttIkylri~d~iid~vkee~~~~~~~r 90 (134)
T KOG3293|consen 15 MLVELKNGETYNGHLVNCDNWMNLHLREVICTSEDGDKFFRMPECYIRGTTIKYLRIPDEIIDKVKEECVSNNRNR 90 (134)
T ss_pred EEEEecCCCEecceeecchhhhhcchheeEEeccCCCceeecceeEEecceeEEEeccHHHHHHHHHHHHHhccch
Confidence 5799999999999999999999999999999999999999999999999999999999999999999988765544
No 2
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.88 E-value=1.6e-22 Score=147.33 Aligned_cols=68 Identities=31% Similarity=0.527 Sum_probs=62.4
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCchh-hhhHHHHH
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPDEI-IDMVKEDQ 69 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPdei-id~~k~~~ 69 (155)
|+||||||++|+|+|.+||.|||++|+||+++.+++.+. .++++||||++|+||++||++ ++....+.
T Consensus 14 V~VeLKng~~~~G~L~~vD~~MNl~L~~a~~~~~~~~~~-~~~~v~IRG~nI~yi~lPd~l~~~~~l~~~ 82 (90)
T cd01724 14 VTIELKNGTIVHGTITGVDPSMNTHLKNVKLTLKGRNPV-PLDTLSIRGNNIRYFILPDSLNLDTLLVDS 82 (90)
T ss_pred EEEEECCCCEEEEEEEEEcCceeEEEEEEEEEcCCCcee-EcceEEEeCCEEEEEEcCCcCCcchhhhhc
Confidence 789999999999999999999999999999998887766 899999999999999999998 67766665
No 3
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.87 E-value=3.5e-22 Score=138.75 Aligned_cols=58 Identities=43% Similarity=0.799 Sum_probs=55.6
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPD 59 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPd 59 (155)
|+||||||.+|+|+|.+||.|||++|+||+++.++|+.. +++++||||++|+||++||
T Consensus 13 V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~~~~~~g~~~-~~~~v~IRG~nI~~v~lPd 70 (70)
T cd01721 13 VTVELKTGEVYRGKLIEAEDNMNCQLKDVTVTARDGRVS-QLEQVYIRGSKIRFFILPD 70 (70)
T ss_pred EEEEECCCcEEEEEEEEEcCCceeEEEEEEEECCCCcEe-EcCcEEEeCCEEEEEEeCC
Confidence 689999999999999999999999999999999999876 8899999999999999997
No 4
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.87 E-value=5.1e-22 Score=139.68 Aligned_cols=63 Identities=89% Similarity=1.620 Sum_probs=59.9
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCchhhh
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPDEIID 63 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPdeiid 63 (155)
|+||||||.+|+|+|.+||.|||++|+||++++++|++++.++++||||++|+||++||+++|
T Consensus 14 V~VeLkng~~~~G~L~~~D~~mNi~L~~~~~~~~~g~~~~~~~~v~IRG~~I~~i~~p~~~~~ 76 (76)
T cd01723 14 MLVELKNGETYNGHLVNCDNWMNIHLREVICTSKDGDKFWKMPECYIRGNTIKYLRVPDEIID 76 (76)
T ss_pred EEEEECCCCEEEEEEEEEcCCCceEEEeEEEECCCCcEeeeCCcEEEeCCEEEEEEcCHHHCC
Confidence 689999999999999999999999999999999999887788999999999999999999865
No 5
>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm10 is an SmD1-like protein which is thought to bind U7 snRNA along with LSm11 and five other Sm subunits to form a 7-member ring structure. LSm10 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=99.85 E-value=4.2e-21 Score=136.53 Aligned_cols=57 Identities=35% Similarity=0.655 Sum_probs=54.8
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecC
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIP 58 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LP 58 (155)
|+||||||.+|+|+|.+||+|||++|+||+++++++++. +++++||||++|+||++|
T Consensus 22 V~VeLKng~~~~G~L~~vD~~MNl~L~~~~~~~~~~~~~-~~~~v~IRG~nI~yI~lP 78 (78)
T cd01733 22 VTVELRNETTVTGRIASVDAFMNIRLAKVTIIDRNGKQV-QVEEIMVTGRNIRYVHIP 78 (78)
T ss_pred EEEEECCCCEEEEEEEEEcCCceeEEEEEEEEcCCCcee-ECCcEEEECCEEEEEEcC
Confidence 789999999999999999999999999999999888877 899999999999999998
No 6
>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm2 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.85 E-value=4e-21 Score=137.06 Aligned_cols=64 Identities=31% Similarity=0.657 Sum_probs=57.9
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCce-eccCCeEEEeCCeEEEEecCchhhhh
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDK-FWRMPECYIRGSMIKYLRIPDEIIDM 64 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~-~~~l~~ifIRGnnIRyI~LPdeiid~ 64 (155)
|+||||||++|+|+|.+||.|||++|+||+++++++.. ..+++++||||++|+||++||+++|.
T Consensus 14 V~VeLKng~~~~G~L~~vD~~MNi~L~n~~~~~~~~~~~~~~~~~v~IRG~~I~~I~lp~~~i~~ 78 (81)
T cd01725 14 VTVELKNDLSIRGTLHSVDQYLNIKLTNISVTDPEKYPHMLSVKNCFIRGSVVRYVQLPADEVDT 78 (81)
T ss_pred EEEEECCCcEEEEEEEEECCCcccEEEEEEEEcCCCcccccccCeEEEECCEEEEEEeChhHcCc
Confidence 68999999999999999999999999999999877643 34789999999999999999998764
No 7
>KOG3428|consensus
Probab=99.80 E-value=1.4e-19 Score=136.91 Aligned_cols=90 Identities=36% Similarity=0.615 Sum_probs=71.0
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCchh-hhhHHHHHHhhhhccCCC
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPDEI-IDMVKEDQVQRTRQRDSN 79 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPdei-id~~k~~~~~k~~~r~~~ 79 (155)
|+||||||++++|+|.++|.+||.+|.+|+.+.+ |++. +++.++|||++|||+++||++ +|....++.++-..+...
T Consensus 15 vtIeLkngt~v~G~I~~Vd~~Mn~~l~~v~~t~~-~~pv-~l~~lsirgnniRy~~lpD~l~ld~Llvd~~~~~~~~~~~ 92 (109)
T KOG3428|consen 15 VTIELKNGTIVHGTIDSVDVQMNTHLKHVKMTVK-GEPV-RLDTLSIRGNNIRYYILPDSLNLDTLLVDDAPRLHLRKNE 92 (109)
T ss_pred EEEEecCCcEEeeeEEEEEhhheeEEEEEEEecC-CCce-eEEEEEeecceEEEEEccCCcCcceeeeehhhhhhhhccc
Confidence 6899999999999999999999999999999986 4776 889999999999999999998 677776666554433332
Q ss_pred CCCCCCCCCCCCC
Q psy1175 80 RGGRGGSNQRGRG 92 (155)
Q Consensus 80 r~gRggg~~rgRG 92 (155)
+-+||.++++|||
T Consensus 93 ~~~rgrgrg~Grg 105 (109)
T KOG3428|consen 93 KVGRGRGRGRGRG 105 (109)
T ss_pred ccccccccccccC
Confidence 2334444444444
No 8
>KOG3172|consensus
Probab=99.80 E-value=2.6e-19 Score=135.99 Aligned_cols=62 Identities=39% Similarity=0.732 Sum_probs=58.7
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCchhhh
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPDEIID 63 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPdeiid 63 (155)
|++|+++|++|+|+|.++|++||++|+|+++|.+||... +++.+|||||+|||+.+||-+-+
T Consensus 18 Vt~Et~tGe~YRGkliEaeDnmNcql~di~vT~~dg~vs-~le~V~IRGS~IRFlvlPdmLKn 79 (119)
T KOG3172|consen 18 VTVETKTGEVYRGKLIEAEDNMNCQLRDITVTARDGRVS-QLEQVFIRGSKIRFLVLPDMLKN 79 (119)
T ss_pred EEEEecCCceeeeeeEEeccccccEEEEEEEEccCCcce-eeeeEEEecCeEEEEECchHhhc
Confidence 789999999999999999999999999999999999877 99999999999999999998743
No 9
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm6 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.72 E-value=2.1e-17 Score=113.51 Aligned_cols=55 Identities=29% Similarity=0.497 Sum_probs=49.3
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~ 56 (155)
|+||||||.+|+|+|.++|.|||++|+||+++.. ++..+.++.+||||++|+||.
T Consensus 13 V~V~Lk~g~~~~G~L~~~D~~mNlvL~~~~~~~~-~~~~~~~~~v~IRG~~I~~I~ 67 (67)
T cd01726 13 VVVKLNSGVDYRGILACLDGYMNIALEQTEEYVN-GQLKNKYGDAFIRGNNVLYIS 67 (67)
T ss_pred EEEEECCCCEEEEEEEEEccceeeEEeeEEEEeC-CceeeEeCCEEEECCEEEEEC
Confidence 6899999999999999999999999999999764 444448999999999999984
No 10
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Probab=99.69 E-value=8.1e-17 Score=111.00 Aligned_cols=55 Identities=35% Similarity=0.533 Sum_probs=49.2
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~ 56 (155)
|+||||||.+|.|+|.++|.|||++|+||+++. ++.....++++||||++|+||+
T Consensus 14 V~V~Lk~g~~~~G~L~~~D~~mNi~L~~~~e~~-~~~~~~~lg~~~IRG~~I~~i~ 68 (68)
T cd01722 14 VIVKLKWGMEYKGTLVSVDSYMNLQLANTEEYI-DGKSTGNLGEVLIRCNNVLYIR 68 (68)
T ss_pred EEEEECCCcEEEEEEEEECCCEEEEEeeEEEEe-CCccccCcCcEEEECCEEEEEC
Confidence 689999999999999999999999999999885 4444448999999999999984
No 11
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=99.67 E-value=2.7e-16 Score=105.86 Aligned_cols=57 Identities=42% Similarity=0.701 Sum_probs=51.2
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~L 57 (155)
|+|+|+||.++.|+|.++|.|||++|+||+++.++.....+++.+||||++|+||++
T Consensus 11 V~V~l~~g~~~~G~L~~~D~~~NlvL~~~~e~~~~~~~~~~~~~~~IrG~~I~~i~~ 67 (67)
T smart00651 11 VLVELKNGREYRGTLKGFDQFMNLVLEDVEETVKDGEKKRKLGLVFIRGNNIVYIIL 67 (67)
T ss_pred EEEEECCCcEEEEEEEEECccccEEEccEEEEecCCcEEeEeCCEEEcCCEEEEEeC
Confidence 689999999999999999999999999999998773333489999999999999974
No 12
>KOG3448|consensus
Probab=99.66 E-value=2.7e-16 Score=116.03 Aligned_cols=73 Identities=29% Similarity=0.596 Sum_probs=64.7
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCcee-ccCCeEEEeCCeEEEEecCchhhhhHHHHHHhhh
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKF-WRMPECYIRGSMIKYLRIPDEIIDMVKEDQVQRT 73 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~-~~l~~ifIRGnnIRyI~LPdeiid~~k~~~~~k~ 73 (155)
|+||||||..+.|+|.++|.|+|+.|.|+.+++++.-|. ..+..||||||.||||++|.+.+|.+..++..+.
T Consensus 15 V~VeLKnd~~i~GtL~svDqyLNlkL~di~v~d~~kyPhm~Sv~ncfIRGSvvrYv~l~kd~vdtqll~da~R~ 88 (96)
T KOG3448|consen 15 VVVELKNDLSICGTLHSVDQYLNLKLTDISVTDPDKYPHMLSVKNCFIRGSVVRYVQLPKDAVDTQLLQDAARR 88 (96)
T ss_pred EEEEEcCCcEEEEEecccchhheeEEeeeEeeCcccCCCeeeeeeEEEeccEEEEEEeChhHHHHHHHHHHHHH
Confidence 789999999999999999999999999999999776543 4578999999999999999999888877776553
No 13
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins. In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....
Probab=99.63 E-value=5.4e-16 Score=104.54 Aligned_cols=57 Identities=42% Similarity=0.700 Sum_probs=51.7
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~L 57 (155)
|+|+|+||.+|+|+|.++|.|||++|+||+++.+++.....++.+||||++|+||++
T Consensus 11 V~V~l~~g~~~~G~L~~~D~~~Nl~L~~~~~~~~~~~~~~~~~~~~irG~~I~~I~~ 67 (67)
T PF01423_consen 11 VRVELKNGRTYRGTLVSFDQFMNLVLSDVTETIKNGPEKRSLGLVFIRGSNIRYISL 67 (67)
T ss_dssp EEEEETTSEEEEEEEEEEETTEEEEEEEEEEEETTESEEEEEEEEEEEGGGEEEEEE
T ss_pred EEEEEeCCEEEEEEEEEeechheEEeeeEEEEECCCCcEeECcEEEEECCEEEEEEC
Confidence 689999999999999999999999999999998776333488999999999999985
No 14
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=99.63 E-value=1.1e-15 Score=106.51 Aligned_cols=55 Identities=31% Similarity=0.527 Sum_probs=49.6
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~ 56 (155)
|+|+||||.+|.|+|.++|.|||++|+||+++. +++....++.++|||++|.||.
T Consensus 17 V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~-~~~~~~~lg~v~iRG~~V~~i~ 71 (72)
T PRK00737 17 VLVRLKGGREFRGELQGYDIHMNLVLDNAEEIQ-DGEVVRKLGKVVIRGDNVVYVS 71 (72)
T ss_pred EEEEECCCCEEEEEEEEEcccceeEEeeEEEEc-CCCeEeEcCcEEEeCCEEEEEc
Confidence 689999999999999999999999999999985 4444558999999999999985
No 15
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences. They function to mediate RNA-RNA interactions and RNA biogenesis. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. Eukaryotic Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6). Since archaebacteria do not have any splicing apparatus, Sm proteins of archaebacteria may play a more general role. Archaeal Lsm proteins are likely to represent the ancestral Sm domain.
Probab=99.63 E-value=1.3e-15 Score=104.50 Aligned_cols=55 Identities=25% Similarity=0.399 Sum_probs=50.1
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~ 56 (155)
|+|+||||.+|.|+|.++|.|||++|+||+++..++... .++.++|||++|.||.
T Consensus 13 V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~-~lg~~~iRG~~I~~i~ 67 (68)
T cd01731 13 VLVKLKGGKEVRGRLKSYDQHMNLVLEDAEEIDDGEPVR-KYGRVVIRGDNVLFIS 67 (68)
T ss_pred EEEEECCCCEEEEEEEEECCcceEEEeeEEEEecCCeEe-EcCcEEEeCCEEEEEc
Confidence 689999999999999999999999999999987665444 8899999999999985
No 16
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.61 E-value=3.2e-15 Score=99.09 Aligned_cols=55 Identities=35% Similarity=0.530 Sum_probs=50.6
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~ 56 (155)
|+|+|+||.+|.|+|.++|.|||+.|+||+++.+++++. .++.+||||++|+||+
T Consensus 9 V~V~l~~g~~~~G~L~~~D~~~Ni~L~~~~~~~~~~~~~-~~~~~~irG~~I~~I~ 63 (63)
T cd00600 9 VRVELKDGRVLEGVLVAFDKYMNLVLDDVEETIKEGKKR-VLGLVLIRGDNVRLVT 63 (63)
T ss_pred EEEEECCCcEEEEEEEEECCCCCEEECCEEEEecCCcEE-ECCeEEEECCEEEEEC
Confidence 689999999999999999999999999999998765554 8999999999999985
No 17
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription]
Probab=99.57 E-value=9.2e-15 Score=102.90 Aligned_cols=57 Identities=40% Similarity=0.552 Sum_probs=48.6
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcC-CCce--eccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSR-DGDK--FWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~-dG~~--~~~l~~ifIRGnnIRyI~L 57 (155)
|.|+||||.+|.|+|.++|.|||++|+||+++.. ++.. ....++++|||++|+||..
T Consensus 20 V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~IRG~~I~~I~~ 79 (79)
T COG1958 20 VLVKLKNGREYRGTLVGFDQYMNLVLDDVEEIISHDGEKNVRRLGGEVLIRGDNIVLISP 79 (79)
T ss_pred EEEEECCCCEEEEEEEEEccceeEEEeceEEEeccCCccccceeccEEEEECCcEEEEeC
Confidence 6899999999999999999999999999999874 4543 2234599999999999863
No 18
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit G binds subunits E and F to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.55 E-value=1.7e-14 Score=101.00 Aligned_cols=59 Identities=22% Similarity=0.344 Sum_probs=51.7
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCch
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPDE 60 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPde 60 (155)
|.|+|++|.+|.|+|.++|.|||++|+||+++..+.+ ...++.++|||++|.+|..-|+
T Consensus 13 V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~E~~~~~~-~~~lg~v~IRG~~I~~i~~~~~ 71 (72)
T cd01719 13 LSLKLNGNRKVSGILRGFDPFMNLVLDDAVEVNSGGE-KNNIGMVVIRGNSIVMLEALER 71 (72)
T ss_pred EEEEECCCeEEEEEEEEEcccccEEeccEEEEccCCc-eeEeceEEECCCEEEEEEcccc
Confidence 6899999999999999999999999999999864433 3488999999999999986544
No 19
>KOG3482|consensus
Probab=99.53 E-value=6.9e-15 Score=105.24 Aligned_cols=55 Identities=36% Similarity=0.545 Sum_probs=51.2
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~ 56 (155)
|.|+||+|.+|.|+|+++|.|||++|.++++.. +|.....+++++||+|||.||.
T Consensus 21 V~vkLKwg~eYkG~LvsvD~YmNlqL~~~eE~i-dG~~~g~lGEilIRCNNvlyi~ 75 (79)
T KOG3482|consen 21 VLVKLKWGQEYKGTLVSVDNYMNLQLANAEEYI-DGVSTGNLGEILIRCNNVLYIR 75 (79)
T ss_pred EEEEEecCcEEEEEEEEecchhheehhhhhhhh-cccccccceeEEEEeccEEEEe
Confidence 689999999999999999999999999999964 7877779999999999999995
No 20
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.53 E-value=3.6e-14 Score=100.62 Aligned_cols=56 Identities=21% Similarity=0.426 Sum_probs=49.8
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEc--CCCceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTS--RDGDKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~--~dG~~~~~l~~ifIRGnnIRyI~ 56 (155)
|+|+|++|.+|.|+|.++|.|||++|+||++.. ++++...+++.++|||++|.+|+
T Consensus 16 V~V~l~~gr~~~G~L~g~D~~mNlvL~da~E~~~~~~~~~~~~lg~v~iRG~nV~~i~ 73 (76)
T cd01732 16 IWIVMKSDKEFVGTLLGFDDYVNMVLEDVTEYEITPEGRKITKLDQILLNGNNICMLV 73 (76)
T ss_pred EEEEECCCeEEEEEEEEeccceEEEEccEEEEEEcCCCceeeEcCeEEEeCCeEEEEE
Confidence 689999999999999999999999999998875 44444458999999999999987
No 21
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm7 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.42 E-value=6.8e-13 Score=94.78 Aligned_cols=59 Identities=24% Similarity=0.351 Sum_probs=49.9
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCC-------ceeccCCeEEEeCCeEEEEecCc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDG-------DKFWRMPECYIRGSMIKYLRIPD 59 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG-------~~~~~l~~ifIRGnnIRyI~LPd 59 (155)
|.|.|++|.+|.|+|.++|.|||++|++|++...+. +....++.++|||+||.+|...+
T Consensus 15 V~V~l~~gr~~~G~L~~~D~~mNlvL~~~~E~~~~~~~~~~~~~~~~~lG~v~iRG~nV~~i~~~~ 80 (81)
T cd01729 15 IRVKFQGGREVTGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDKTRQLGLVVCRGTSVVLISPVD 80 (81)
T ss_pred EEEEECCCcEEEEEEEEEcCcccEEecCEEEEEccCCcccccccceeEccEEEEcCCEEEEEecCC
Confidence 679999999999999999999999999999875432 12236899999999999987553
No 22
>cd01718 Sm_E The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit E binds subunits F and G to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.41 E-value=7.5e-13 Score=95.06 Aligned_cols=56 Identities=14% Similarity=0.220 Sum_probs=47.9
Q ss_pred CEEEec--CCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELK--NGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELK--NG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~ 56 (155)
|.|.|+ +|.++.|+|.++|.|||++|+||++....++....++.++|||+||.+|+
T Consensus 21 V~V~l~~~~g~~~~G~L~gfD~~mNlvL~d~~E~~~~~~~~~~lG~iliRGnnV~~I~ 78 (79)
T cd01718 21 VQIWLYEQTDLRIEGVIIGFDEYMNLVLDDAEEVHLKTKTRKPLGRILLKGDNITLIQ 78 (79)
T ss_pred EEEEEEeCCCcEEEEEEEEEccceeEEEcCEEEEecCCceEeEcCcEEEeCCEEEEEc
Confidence 567777 89999999999999999999999988643333347899999999999987
No 23
>cd01720 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D2 heterodimerizes with subunit D1 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing D2, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.36 E-value=2.6e-12 Score=93.54 Aligned_cols=57 Identities=18% Similarity=0.230 Sum_probs=47.9
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCc------------eeccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGD------------KFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~------------~~~~l~~ifIRGnnIRyI~L 57 (155)
|.|.||+|.++.|+|.++|.|||+.|+||+++..... ....++.+||||++|.||.-
T Consensus 17 V~V~lr~~r~~~G~L~~fD~hmNlvL~d~~E~~~~~~k~~~~~~~~~~~~~r~lg~v~iRGd~Vv~Is~ 85 (87)
T cd01720 17 VLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKTGKGKKAKPVNKDRFISKMFLRGDSVILVLR 85 (87)
T ss_pred EEEEEcCCCEEEEEEEEecCccEEEEcceEEEeeccccccccccccceeeeeEcccEEEeCCEEEEEec
Confidence 6799999999999999999999999999998643211 12357999999999999764
No 24
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm3 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.35 E-value=2.9e-12 Score=91.24 Aligned_cols=56 Identities=21% Similarity=0.345 Sum_probs=47.5
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCC------------ceeccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDG------------DKFWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG------------~~~~~l~~ifIRGnnIRyI~ 56 (155)
|.|+|++|.+|.|+|.++|.|||++|+||++..... +....++.+||||++|.+|.
T Consensus 14 V~V~l~~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lg~~~iRGd~Vv~i~ 81 (82)
T cd01730 14 VYVKLRGDRELRGRLHAYDQHLNMILGDVEETITTVEIDEETYEEIVKTTKRNIPMLFVRGDSVILVS 81 (82)
T ss_pred EEEEECCCCEEEEEEEEEccceEEeccceEEEeecccccccccccccceeEEEcCeEEEeCCEEEEEC
Confidence 689999999999999999999999999999874221 12346899999999999975
No 25
>PTZ00138 small nuclear ribonucleoprotein; Provisional
Probab=99.29 E-value=1.2e-11 Score=90.65 Aligned_cols=57 Identities=14% Similarity=0.225 Sum_probs=47.6
Q ss_pred CEEEecC--CcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKN--GETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKN--G~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~L 57 (155)
|.|.+++ +.+|.|+|.++|.|||++|+||++...+++....++.++|||++|.+|+.
T Consensus 29 V~i~l~~~~~r~~~G~L~gfD~~mNlVL~d~~E~~~~~~~~~~lG~ilIRGnnV~~I~~ 87 (89)
T PTZ00138 29 VQIWLYDHPNLRIEGKILGFDEYMNMVLDDAEEVYTKKNTRKDLGRILLKGDNITLIMA 87 (89)
T ss_pred EEEEEEeCCCcEEEEEEEEEcccceEEEccEEEEecCCceeeEcCeEEEcCCEEEEEEc
Confidence 4667766 58999999999999999999999886444344478999999999999864
No 26
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit B heterodimerizes with subunit D3 and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.28 E-value=1.2e-11 Score=87.26 Aligned_cols=57 Identities=19% Similarity=0.339 Sum_probs=48.2
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCC---------CceeccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRD---------GDKFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~d---------G~~~~~l~~ifIRGnnIRyI~L 57 (155)
|.|.|++|..+.|+|.++|.|||++|+||+++... ++....++.++|||++|.+|.+
T Consensus 13 V~V~l~dgR~~~G~L~~~D~~~NlVL~~~~E~~~~~~~~~~~~~~~~~r~lG~v~iRG~~Vv~i~v 78 (79)
T cd01717 13 LRVTLQDGRQFVGQFLAFDKHMNLVLSDCEEFRKVKKKKSKNSEREEKRTLGLVLLRGENIVSMTV 78 (79)
T ss_pred EEEEECCCcEEEEEEEEEcCccCEEcCCEEEEEeccccccccccCcceeEeeeEEEcCCEEEEEEE
Confidence 67999999999999999999999999999986421 1222368999999999999875
No 27
>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm1 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.25 E-value=2.7e-11 Score=85.65 Aligned_cols=57 Identities=25% Similarity=0.288 Sum_probs=47.7
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCc--eeccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGD--KFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~--~~~~l~~ifIRGnnIRyI~L 57 (155)
|.|.|++|..|.|+|.++|.|||+.|+||++...+++ ....++.++|||++|.+|.+
T Consensus 15 v~V~l~~gr~~~G~L~~fD~~~NlvL~d~~E~~~~~~~~~~~~lG~~viRG~~V~~ig~ 73 (74)
T cd01728 15 VVVLLRDGRKLIGILRSFDQFANLVLQDTVERIYVGDKYGDIPRGIFIIRGENVVLLGE 73 (74)
T ss_pred EEEEEcCCeEEEEEEEEECCcccEEecceEEEEecCCccceeEeeEEEEECCEEEEEEc
Confidence 6799999999999999999999999999987643332 12267899999999998864
No 28
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm8 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.24 E-value=3e-11 Score=84.49 Aligned_cols=59 Identities=22% Similarity=0.162 Sum_probs=49.7
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcC---CCceeccCCeEEEeCCeEEEEecCc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSR---DGDKFWRMPECYIRGSMIKYLRIPD 59 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~---dG~~~~~l~~ifIRGnnIRyI~LPd 59 (155)
|.|.|++|..|.|+|.++|.|||+.|++|++... ++.....++.++|||++|.+|..-|
T Consensus 12 V~V~l~dgr~~~G~L~~~D~~~NlvL~~~~E~~~~~~~~~~~~~lG~~~iRG~~I~~i~~~d 73 (74)
T cd01727 12 VSVITVDGRVIVGTLKGFDQATNLILDDSHERVYSSDEGVEQVVLGLYIIRGDNIAVVGEID 73 (74)
T ss_pred EEEEECCCcEEEEEEEEEccccCEEccceEEEEecCCCCceeeEeceEEECCCEEEEEEccC
Confidence 5789999999999999999999999999988642 2322336899999999999988654
No 29
>KOG1783|consensus
Probab=99.21 E-value=1.3e-12 Score=93.46 Aligned_cols=57 Identities=30% Similarity=0.507 Sum_probs=52.3
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecC
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIP 58 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LP 58 (155)
|.|+|.+|..|+|+|.+.|.|||+.|+.+++.. +|+...+++..||||++|.||...
T Consensus 19 V~VKl~sgvdyrG~l~~lDgymNiaLe~tee~~-ngql~n~ygdaFirGnnVlyIs~~ 75 (77)
T KOG1783|consen 19 VVVKLNSGVDYRGTLVCLDGYMNIALESTEEYV-NGQLKNKYGDAFIRGNNVLYISTQ 75 (77)
T ss_pred EEEEecCCccccceehhhhhHHHHHHHHHHHHh-cCcccccccceeeccccEEEEEec
Confidence 689999999999999999999999999999876 777666899999999999999875
No 30
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm9 proteins have a single Sm-like domain structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.10 E-value=3.6e-10 Score=80.09 Aligned_cols=57 Identities=19% Similarity=0.167 Sum_probs=49.2
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCC-----CceeccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRD-----GDKFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~d-----G~~~~~l~~ifIRGnnIRyI~L 57 (155)
|.|.|++|..+.|+|.++|.+||+.|+||.++... ......++.++|||++|..|++
T Consensus 13 v~V~l~dgR~~~G~l~~~D~~~NivL~~~~E~~~~~~~~~~~~~r~lGlv~IrG~~Iv~i~v 74 (75)
T cd06168 13 MRIHMTDGRTLVGVFLCTDRDCNIILGSAQEYRPPPDSFSPTEPRVLGLVMIPGHHIVSIEV 74 (75)
T ss_pred EEEEEcCCeEEEEEEEEEcCCCcEEecCcEEEEcccCccCCccEEEeeeEEEeCCeEEEEEE
Confidence 57999999999999999999999999999998533 1223378999999999999875
No 31
>KOG1780|consensus
Probab=98.93 E-value=1.4e-09 Score=78.05 Aligned_cols=56 Identities=32% Similarity=0.491 Sum_probs=50.0
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEec
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~L 57 (155)
+.+.|..+..++|+|.++|.|||++|+++++.+.+++.. .++..+|||++|..+.-
T Consensus 17 i~lklnG~r~v~GiLrGyD~FmNiVlde~vE~~~~~~~~-~ig~~vIrgnsiv~~ea 72 (77)
T KOG1780|consen 17 IVLKLNGGRKVTGILRGYDPFMNIVLDETVEPNGDGDKN-NIGMVVIRGNSIVMVEA 72 (77)
T ss_pred EEEEeCCCcEEEEEEeccchHHhhhhhhceeecCcCCcc-eeeeEEEeccEEEEEee
Confidence 467888999999999999999999999999998888766 78999999999987654
No 32
>KOG1775|consensus
Probab=98.55 E-value=2.7e-08 Score=72.09 Aligned_cols=55 Identities=22% Similarity=0.474 Sum_probs=50.0
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEE--cCCCceeccCCeEEEeCCeEEEE
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICT--SRDGDKFWRMPECYIRGSMIKYL 55 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t--~~dG~~~~~l~~ifIRGnnIRyI 55 (155)
|.|-+|++.++.|+|.++|+|.|+.|+||+++ +++|+...+++++++.||+|-.+
T Consensus 20 i~iimksdkE~~GtL~GFDd~VNmvLeDvtEye~~~egr~~tk~~~iLLnGNni~mL 76 (84)
T KOG1775|consen 20 IWIIMKSDKEFVGTLVGFDDFVNMVLEDVTEYEITPEGRRMTKLDQILLNGNNITML 76 (84)
T ss_pred EEEEEccCceeeeEEechHHHHHHHHHhhhheeeCCCcceeeeeeeeeecCCcEEEE
Confidence 57889999999999999999999999999865 57888888999999999999864
No 33
>KOG3460|consensus
Probab=98.44 E-value=6.1e-08 Score=71.27 Aligned_cols=60 Identities=22% Similarity=0.309 Sum_probs=48.5
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEE--cCCCce----------eccCCeEEEeCCeEEEEecCch
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICT--SRDGDK----------FWRMPECYIRGSMIKYLRIPDE 60 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t--~~dG~~----------~~~l~~ifIRGnnIRyI~LPde 60 (155)
|-|+|+++.+++|+|..+|.++|+.|.||+++ +-+++. ...++.+||||.+|.+|..|-.
T Consensus 18 VyVKlr~drel~G~L~afD~HlNmvL~d~eetit~~e~~E~~~e~~~k~~~r~~emlFvRGd~Vilvspp~~ 89 (91)
T KOG3460|consen 18 VYVKLRSDRELRGTLHAFDEHLNMVLGDVEETITTVEIDEDTYEEIVKTTKRTVEMLFVRGDGVILVSPPLR 89 (91)
T ss_pred EEEEecCChhhhcchhhhHHhhhhhhhhhhheEEEeeccchhHHHHHhhhhcceeEEEEeCCeEEEEcCccc
Confidence 56999999999999999999999999998754 222221 1246799999999999988743
No 34
>KOG1774|consensus
Probab=98.26 E-value=9.1e-07 Score=64.86 Aligned_cols=56 Identities=18% Similarity=0.270 Sum_probs=44.0
Q ss_pred EEEecC--CcEEEEEEEEeccccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEec
Q psy1175 2 LVELKN--GETYNGHLVNCDHWMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRI 57 (155)
Q Consensus 2 tVELKN--G~~y~GtL~svD~~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~L 57 (155)
.|=|.. +..+.|.++++|.|||++|++|++.+...+.-..++.++++|.||-.|.-
T Consensus 28 qIWl~eq~~~rieG~IvGFDEyMNvVlD~aeev~~k~~~rk~lGRilLKGDnItli~~ 85 (88)
T KOG1774|consen 28 QIWLFEQVGLRIEGRIVGFDEYMNLVLDDAEEVHSKTKSRKELGRILLKGDNITLIQS 85 (88)
T ss_pred EEEEEeccCcEEeEEEechHHhhhhhhcchhhccccccCCCccccEEEcCCcEEEEee
Confidence 344544 67899999999999999999999876433222367999999999998763
No 35
>KOG1781|consensus
Probab=97.38 E-value=2.1e-05 Score=59.57 Aligned_cols=60 Identities=22% Similarity=0.339 Sum_probs=49.4
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCC-------ceeccCCeEEEeCCeEEEEecCch
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDG-------DKFWRMPECYIRGSMIKYLRIPDE 60 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG-------~~~~~l~~ifIRGnnIRyI~LPde 60 (155)
|.|++..|.+++|+|.++|..||++|++++++-+|- +...+++-+.+||..+..|...|-
T Consensus 30 Irvkf~GGr~~sGiLkGyDqLlNlVLDd~vEylrdpdd~~~~~~~tR~LGLvV~RGTalvlisp~dG 96 (108)
T KOG1781|consen 30 IRVKFTGGREASGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDETRKLGLVVCRGTALVLISPADG 96 (108)
T ss_pred eEEEeecCceeeeehhhHHHHHHHHHHHHHHHhcCCCCccchhhhhheeeeEEEcccEEEEEcCCcc
Confidence 568899999999999999999999999998764331 222468999999999998877664
No 36
>KOG3168|consensus
Probab=96.89 E-value=0.00013 Score=59.56 Aligned_cols=60 Identities=25% Similarity=0.387 Sum_probs=48.6
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEc---------CCCceeccCCeEEEeCCeEEEEecCch
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTS---------RDGDKFWRMPECYIRGSMIKYLRIPDE 60 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~---------~dG~~~~~l~~ifIRGnnIRyI~LPde 60 (155)
+.|-+++|.++.|.+..+|.+||+.|.|+++.- .++++..-+.-|.+||.+|....+.+.
T Consensus 17 ~rv~~qDgr~~ig~~~afDkhmNlvl~dceE~r~~k~k~~~~~~~eEkr~lgLvllRgenIvs~tVegp 85 (177)
T KOG3168|consen 17 MRVRLQDGRTFIGQFKAFDKHMNLVLQDCEEFRKIKPKNRKMTDGEEKRVLGLVLLRGENIVSMTVEGP 85 (177)
T ss_pred EEEEeccCceeechhhhhHHHHHHHHHHHHHHhccccccccccccceeeEEEEEEecCCcEEEEeccCC
Confidence 358899999999999999999999999887532 234444467899999999999887653
No 37
>KOG1784|consensus
Probab=96.48 E-value=0.0027 Score=47.49 Aligned_cols=72 Identities=21% Similarity=0.163 Sum_probs=55.7
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEc---CCCceeccCCeEEEeCCeEEEEecCchhhhhHHHHHHhh
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTS---RDGDKFWRMPECYIRGSMIKYLRIPDEIIDMVKEDQVQR 72 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~---~dG~~~~~l~~ifIRGnnIRyI~LPdeiid~~k~~~~~k 72 (155)
|.|-..+|..+-|.|.++|..-|+.|+++-+.. ..|.....++-..|||.||-.|-.-||-+|......+.|
T Consensus 13 V~vIt~DGr~ivgsLkGFDq~tNlii~~~heRi~s~~~gv~q~~lGlyiirgeNva~ig~iDEe~d~~ld~tkir 87 (96)
T KOG1784|consen 13 VSVITNDGRVIVGSLKGFDQTTNLIIDESHERIFSETEGVEQIVLGLYIIRGENVAVIGEIDEELDSRLDLTKIR 87 (96)
T ss_pred EEEEecCCeEEEEEeccccccceeeehhhHhhhhhhhcchhheeeEEEEEecCccceeeecchhhhhhhhhhhcc
Confidence 456778999999999999999999999986431 234333367889999999999998888777665554444
No 38
>KOG1782|consensus
Probab=96.39 E-value=0.00051 Score=53.72 Aligned_cols=59 Identities=31% Similarity=0.371 Sum_probs=46.5
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCCcee--ccCCeEEEeCCeEEEEecCc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDGDKF--WRMPECYIRGSMIKYLRIPD 59 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG~~~--~~l~~ifIRGnnIRyI~LPd 59 (155)
+.|-|++|....|.|.|+|.|-|++|++|++-.--++.. ...+-..|||.||..+-.-|
T Consensus 22 llVlLRDGR~L~G~LRSfDQFaNlvL~~~iERi~v~~~Y~di~~glfiIRGENVvllGeid 82 (129)
T KOG1782|consen 22 LLVLLRDGRKLIGVLRSFDQFANLVLQGVIERIFVGNKYCDIPRGLFIIRGENVVLLGEID 82 (129)
T ss_pred EEEEEecCcchhhhhhhHHHHHHHHHHhhhhheeecceecccCceEEEEecCcEEEEecCC
Confidence 468899999999999999999999999987643223322 13467899999999886544
No 39
>cd01739 LSm11_C The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm11 is an SmD2 - like subunit which binds U7 snRNA along with LSm10 and five other Sm subunits to form a 7-member ring structure. LSm11 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=95.69 E-value=0.0045 Score=43.70 Aligned_cols=27 Identities=33% Similarity=0.414 Sum_probs=23.7
Q ss_pred cEEEEEEEEeccccceEEeeEEEEcCC
Q psy1175 9 ETYNGHLVNCDHWMNINLREVICTSRD 35 (155)
Q Consensus 9 ~~y~GtL~svD~~MNL~LknV~~t~~d 35 (155)
-.++|.|+.+|.||||.|.||+++-..
T Consensus 23 G~~~G~lvAFDK~wNm~L~DV~E~y~~ 49 (66)
T cd01739 23 GVCSGFLVAFDKFWNMALVDVDETYRK 49 (66)
T ss_pred cEEEEEEEeeeeehhheehhhhhhhcc
Confidence 378999999999999999999987533
No 40
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=94.87 E-value=0.051 Score=37.62 Aligned_cols=34 Identities=21% Similarity=0.311 Sum_probs=27.3
Q ss_pred CEEEecCCcEEEEEEEEecc---ccceEEeeEEEEcC
Q psy1175 1 MLVELKNGETYNGHLVNCDH---WMNINLREVICTSR 34 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~---~MNL~LknV~~t~~ 34 (155)
|.|.+|||..|+|++.+++. -+-+.|+-+.....
T Consensus 15 V~V~~~~G~~yeGif~s~s~~~~~~~vvLk~a~~~~~ 51 (77)
T PF14438_consen 15 VEVTTKNGSVYEGIFHSASPESNEFDVVLKMARKVPK 51 (77)
T ss_dssp EEEEETTS-EEEEEEEEE-T---T--EEEEEEEETTS
T ss_pred EEEEECCCCEEEEEEEeCCCcccceeEEEEeeeeccc
Confidence 67999999999999999999 89999999998753
No 41
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A.
Probab=92.59 E-value=0.65 Score=34.52 Aligned_cols=60 Identities=25% Similarity=0.230 Sum_probs=47.1
Q ss_pred CEEEecCCcEEEEEEEEecc-ccceEEeeEEEEcCCCce--------eccCCeEEEeCCeEEEEecCch
Q psy1175 1 MLVELKNGETYNGHLVNCDH-WMNINLREVICTSRDGDK--------FWRMPECYIRGSMIKYLRIPDE 60 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~-~MNL~LknV~~t~~dG~~--------~~~l~~ifIRGnnIRyI~LPde 60 (155)
|.+..|++..|+|+|..+|. -=.+.|++|....-+|.+ ...++.+..||+-|+-+.+-+.
T Consensus 11 ISlisk~~iRYeG~L~~Id~~~sTItL~nVr~~GtE~R~~~~~ipp~~~v~~~I~Fr~sDIkdL~v~e~ 79 (96)
T PF12701_consen 11 ISLISKSDIRYEGILYSIDTEDSTITLKNVRSFGTEGRPTDREIPPSDEVYDYIVFRGSDIKDLKVIEP 79 (96)
T ss_dssp EEEEETTTEEEEEEEEEEETTTTEEEEEEEEETTETTSS-SS---C-CSSSSEEEEETTTEEEEEECE-
T ss_pred EEEEECCCcEEEEEEEEEcCCCCEEEeeeeeecCcCCCCcCcccCCCCceeeEEEEEccccceEEEEcC
Confidence 45778899999999999998 679999999986433320 1246899999999999988664
No 42
>PTZ00034 40S ribosomal protein S10; Provisional
Probab=92.30 E-value=0.068 Score=41.83 Aligned_cols=14 Identities=21% Similarity=0.672 Sum_probs=10.2
Q ss_pred EEEecCchhhhhHH
Q psy1175 53 KYLRIPDEIIDMVK 66 (155)
Q Consensus 53 RyI~LPdeiid~~k 66 (155)
.|++||++++....
T Consensus 79 ~yL~LP~eivP~T~ 92 (124)
T PTZ00034 79 TYLHLPPDVFPATH 92 (124)
T ss_pred HHhCCCcccCchhh
Confidence 36899999876543
No 43
>cd01716 Hfq Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that modulate the stability or translation efficiency of RNA transcripts. Hfq binds preferentially to unstructured A/U-rich RNA sequences and is similar to the eukaryotic Sm proteins in both sequence and structure. Hfq forms a homo-hexameric ring similar to the heptameric ring of the Sm proteins.
Probab=89.60 E-value=0.39 Score=33.28 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=21.3
Q ss_pred CEEEecCCcEEEEEEEEeccccc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMN 23 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MN 23 (155)
|+|-|.||..+.|.+.++|.|+=
T Consensus 14 Vtv~L~NG~~l~G~I~~fD~ftV 36 (61)
T cd01716 14 VTIYLVNGVQLKGQIESFDNFTV 36 (61)
T ss_pred EEEEEeCCcEEEEEEEEEcceEE
Confidence 68999999999999999999963
No 44
>KOG3459|consensus
Probab=89.51 E-value=0.061 Score=41.48 Aligned_cols=56 Identities=20% Similarity=0.274 Sum_probs=43.3
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEc------CCCce------eccCCeEEEeCCeEEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTS------RDGDK------FWRMPECYIRGSMIKYLR 56 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~------~dG~~------~~~l~~ifIRGnnIRyI~ 56 (155)
|.|-++|...+-|.+..+|-+-|+.|++|.+.- .+|+. ...++.+||||.+|..+.
T Consensus 39 vLi~cRnn~k~l~Rv~afdrhcnmvlenvkelwte~~ks~kgkk~~~~~~~r~isK~flRGdsvI~v~ 106 (114)
T KOG3459|consen 39 VLINCRNNVKLLGRVKAFDRHCNMVLENVKELWTEVPKSGKGKKAKPVNKDRFISKMFLRGDSVILVL 106 (114)
T ss_pred eEEEecccHHHHhhhhhhhccccchhhcHHHHCCccccCCCcccCCccchhhhhheeeecCCeEEEEE
Confidence 578899999999999999999999999997531 13332 224689999998876543
No 45
>TIGR02383 Hfq RNA chaperone Hfq. This model represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria. It helps pair regulatory noncoding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA. It appears also to protect RNase E recognition sites (A/U-rich sequences with adjacent stem-loop structures) from cleavage. Being pleiotropic, it differs in some of its activities in different species. Hfq binds the non-coding regulatory RNA DsrA (see Rfam RF00014) in the few species known to have it: Escherichia coli, Shigella flexneri, Salmonella spp. In Azorhizobium caulinodans, an hfq mutant is unable to express nifA, and Hfq is called NrfA, for nif regulatory factor (see PubMed:8197116). The name hfq reflects phenomenology as a host factor for phage Q-beta RNA replication.
Probab=89.11 E-value=0.43 Score=33.12 Aligned_cols=23 Identities=26% Similarity=0.345 Sum_probs=21.3
Q ss_pred CEEEecCCcEEEEEEEEeccccc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMN 23 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MN 23 (155)
|+|-|.||..+.|.+.++|.|+=
T Consensus 18 Vti~L~nG~~l~G~I~~fD~ftV 40 (61)
T TIGR02383 18 VTVFLVNGVQLKGVIESFDNFTV 40 (61)
T ss_pred EEEEEeCCcEEEEEEEEEeeeEE
Confidence 68999999999999999999963
No 46
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=85.87 E-value=0.88 Score=33.15 Aligned_cols=23 Identities=22% Similarity=0.424 Sum_probs=21.3
Q ss_pred CEEEecCCcEEEEEEEEeccccc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMN 23 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MN 23 (155)
|+|-|.||..+.|.+.++|.|.=
T Consensus 22 VtifL~NG~~l~G~I~~fD~ftV 44 (79)
T PRK00395 22 VTIYLVNGIKLQGQIESFDNFVV 44 (79)
T ss_pred EEEEEeCCcEEEEEEEEEccEEE
Confidence 68999999999999999999963
No 47
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=76.70 E-value=0.8 Score=43.43 Aligned_cols=11 Identities=64% Similarity=1.036 Sum_probs=0.0
Q ss_pred CCCCCCCCCCC
Q psy1175 90 GRGGHNMRGMR 100 (155)
Q Consensus 90 gRG~~~~r~~~ 100 (155)
||||+++||.+
T Consensus 532 ~~g~gr~rg~~ 542 (556)
T PF05918_consen 532 GRGGGRGRGRR 542 (556)
T ss_dssp -----------
T ss_pred CCCCCCCCCCC
Confidence 33333333333
No 48
>COG1923 Hfq Uncharacterized host factor I protein [General function prediction only]
Probab=76.68 E-value=2.7 Score=30.59 Aligned_cols=22 Identities=23% Similarity=0.425 Sum_probs=20.4
Q ss_pred CEEEecCCcEEEEEEEEecccc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWM 22 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~M 22 (155)
|+|-|-||....|.+.++|.|-
T Consensus 22 VtIfLvNG~~L~G~V~sfD~f~ 43 (77)
T COG1923 22 VTIFLVNGFKLQGQVESFDNFV 43 (77)
T ss_pred EEEEEEcCEEEEEEEEeeeeEE
Confidence 6899999999999999999983
No 49
>PF02237 BPL_C: Biotin protein ligase C terminal domain; InterPro: IPR003142 This C-terminal domain has an SH3-like barrel fold, the function of which is unknown. It is found associated with prokaryotic bifunctional transcriptional repressors [] and eukaryotic enzymes involved in biotin utilization [, ]. In Escherichia coli the biotin operon repressor (BirA) is a bifunctional protein. BirA acts both as the acetyl-coA carboxylase biotin holoenzyme synthetase (6.3.4.15 from EC) and as the biotin operon repressor. DNA sequence analysis of mutations indicates that the helix-turn-helix DNA binding region is located at the N terminus while mutations affecting enzyme function, although mapping over a large region, are found mainly in the central part of the protein's primary sequence [].; GO: 0006464 protein modification process; PDB: 3RUX_A 2CGH_A 3L1A_B 3L2Z_A 1HXD_A 1BIB_A 2EWN_B 1BIA_A 2EJ9_A 3FJP_A ....
Probab=75.42 E-value=14 Score=23.44 Aligned_cols=42 Identities=19% Similarity=0.157 Sum_probs=29.1
Q ss_pred CEEEecCCcEEEEEEEEeccccceEEeeEEEEcCCC-ceeccCCeEEEe
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINLREVICTSRDG-DKFWRMPECYIR 48 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~LknV~~t~~dG-~~~~~l~~ifIR 48 (155)
|+|++ ++..++|+...+|+.=.|.++. ++| .....-+++++|
T Consensus 6 V~v~~-~~~~~~G~~~gId~~G~L~v~~-----~~g~~~~i~sGdv~~r 48 (48)
T PF02237_consen 6 VRVET-GDGEIEGIAEGIDDDGALLVRT-----EDGSIRTISSGDVSLR 48 (48)
T ss_dssp EEEEE-TSCEEEEEEEEEETTSEEEEEE-----TTEEEEEESSSEEEEE
T ss_pred EEEEE-CCeEEEEEEEEECCCCEEEEEE-----CCCCEEEEEEEEEEeC
Confidence 45666 6778899999999999998875 334 122244666665
No 50
>cd01736 LSm14_N LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold, containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet, that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm14 has an uncharacterized C-terminal domain containing a conserved DFDF box. In Xenopus laevis, LSm14 is an oocyte-specific constituent of ribonucleoprotein particles.
Probab=69.11 E-value=26 Score=25.27 Aligned_cols=53 Identities=25% Similarity=0.183 Sum_probs=38.3
Q ss_pred EEEecCCcEEEEEEEEeccc-cceEEeeEEEEcCCCcee---------ccCCeEEEeCCeEEE
Q psy1175 2 LVELKNGETYNGHLVNCDHW-MNINLREVICTSRDGDKF---------WRMPECYIRGSMIKY 54 (155)
Q Consensus 2 tVELKNG~~y~GtL~svD~~-MNL~LknV~~t~~dG~~~---------~~l~~ifIRGnnIRy 54 (155)
.+--|++.-|.|+|.++|.- =-+.|+||....-+|.+. .-++.+.-||+.|+=
T Consensus 10 sLISk~~iRYeGiL~~In~~~sTi~L~nVr~fGTEgR~~~~~~ipp~~~vyd~IvFrgsDIkD 72 (74)
T cd01736 10 SLISKSDIRYEGILYTINTEDSTIALKNVRSFGTEGRPTDGPEIPPSDEVYDYIVFRGSDIKD 72 (74)
T ss_pred EEEecCCcEEEEEEEeeccccCEEEeeeeEeecccCCCCCCCccCCCCcceeEEEEcCCcccc
Confidence 34558899999999999985 468899998765444221 134678888888763
No 51
>PRK14091 RNA-binding protein Hfq; Provisional
Probab=65.60 E-value=6.7 Score=32.17 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=20.9
Q ss_pred CEEEecCCcEEEEEEEEecccc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWM 22 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~M 22 (155)
|+|-|.||..++|.+.++|.|.
T Consensus 107 VtvfL~NG~~l~G~I~~fD~ft 128 (165)
T PRK14091 107 VTMFLVNGVMLQGEIAAFDLFC 128 (165)
T ss_pred EEEEEecCcEEEEEEEEEcceE
Confidence 6899999999999999999995
No 52
>PRK14091 RNA-binding protein Hfq; Provisional
Probab=64.89 E-value=7 Score=32.06 Aligned_cols=22 Identities=18% Similarity=0.267 Sum_probs=20.8
Q ss_pred CEEEecCCcEEEEEEEEecccc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWM 22 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~M 22 (155)
|+|-|.||..++|.+.++|.|.
T Consensus 27 VtvfL~nG~rl~G~I~~fD~ft 48 (165)
T PRK14091 27 VTMFLVKGVKLQGIITWFDNFS 48 (165)
T ss_pred EEEEEecCcEEEEEEEEEcceE
Confidence 6899999999999999999995
No 53
>KOG3293|consensus
Probab=62.23 E-value=15 Score=29.19 Aligned_cols=8 Identities=38% Similarity=0.999 Sum_probs=5.4
Q ss_pred EEEEecCc
Q psy1175 52 IKYLRIPD 59 (155)
Q Consensus 52 IRyI~LPd 59 (155)
=+|+.+|+
T Consensus 51 dkf~r~pE 58 (134)
T KOG3293|consen 51 DKFFRMPE 58 (134)
T ss_pred Cceeecce
Confidence 35677777
No 54
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=58.99 E-value=13 Score=33.20 Aligned_cols=12 Identities=8% Similarity=0.376 Sum_probs=6.1
Q ss_pred eCCeEEEEecCc
Q psy1175 48 RGSMIKYLRIPD 59 (155)
Q Consensus 48 RGnnIRyI~LPd 59 (155)
.|..|.++...|
T Consensus 342 ~G~ai~l~~~~d 353 (456)
T PRK10590 342 TGEALSLVCVDE 353 (456)
T ss_pred CeeEEEEecHHH
Confidence 455566554443
No 55
>KOG1073|consensus
Probab=50.11 E-value=33 Score=31.30 Aligned_cols=59 Identities=25% Similarity=0.248 Sum_probs=42.8
Q ss_pred CEEEecCCcEEEEEEEEeccc-cceEEeeEEEEcCCCcee--------c-cCCeEEEeCCeEEEEecCc
Q psy1175 1 MLVELKNGETYNGHLVNCDHW-MNINLREVICTSRDGDKF--------W-RMPECYIRGSMIKYLRIPD 59 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~-MNL~LknV~~t~~dG~~~--------~-~l~~ifIRGnnIRyI~LPd 59 (155)
|.+--|++.-|+|+|..+|.- =-|-|++|.....+|.+. . .++.|.-||+.|+=+.+-+
T Consensus 12 ISLISk~DIRYEGILy~in~qdSTlgLqnVRsfGTEgRk~~~pq~p~~~kVy~YIlFRGSDIKDL~V~~ 80 (361)
T KOG1073|consen 12 ISLISKNDIRYEGILYTINLQDSTLGLQNVRSFGTEGRKTDGPQVPPDDKVYDYILFRGSDIKDLIVQE 80 (361)
T ss_pred eEEeecccceeeeEEEeccccccceehhheeecccccCCCCCCcCCCCccceeeEEecCcccceeeecc
Confidence 345568999999999999874 578999996654333211 1 3578999999999666554
No 56
>KOG1690|consensus
Probab=50.09 E-value=11 Score=32.12 Aligned_cols=12 Identities=50% Similarity=1.118 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHH
Q psy1175 119 GIILLITCLFQM 130 (155)
Q Consensus 119 ~~~~~~~~~~~~ 130 (155)
-+||++||.|||
T Consensus 191 ~vvL~~tc~wQm 202 (215)
T KOG1690|consen 191 LVVLLVTCIWQM 202 (215)
T ss_pred HHHHHHHHHHHH
Confidence 468999999999
No 57
>PF11095 Gemin7: Gem-associated protein 7 (Gemin7); InterPro: IPR020338 Gem-associated protein 7 (Gemin7) is a component of the survival of motor neuron complex, which functions in the assembly of spliceosomal small nuclear ribonucleoproteins. Gemin7 interacts with several Sm proteins of spliceosomal small nuclear ribonucleoproteins, especially SmE []. Gem-associated protein 7 is found in the nucleoplasm, in nuclear "gems" (Gemini of Cajal bodies), and in the cytoplasm. Three transcript variants encoding the same protein have been found for this gene [].; GO: 0032797 SMN complex; PDB: 1Y96_D.
Probab=47.86 E-value=93 Score=22.61 Aligned_cols=52 Identities=19% Similarity=0.272 Sum_probs=38.6
Q ss_pred CEEEecCCcEEEEEEEEeccc-cceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecC
Q psy1175 1 MLVELKNGETYNGHLVNCDHW-MNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIP 58 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~-MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LP 58 (155)
|.+.|+...++.|+...+|.. .|+..++- .+|=| ..++..+|.+-|..+++.
T Consensus 27 v~f~l~e~t~V~a~F~a~d~~~~~f~Vs~L--~TPlG----v~~eAlLR~~DVi~~~f~ 79 (80)
T PF11095_consen 27 VEFTLHENTTVSARFGACDIDVSNFQVSNL--QTPLG----VQPEALLRCSDVISISFD 79 (80)
T ss_dssp EEEEEGGG-EEEEEEEEE-TTS-EEEEEEE--ETTTT----EEEEEEEEGGGEEEEEE-
T ss_pred eEEEEeCCeEEEEEEEEecCchheEEhhhc--CCCcc----cChhheeecCCEEEEEec
Confidence 468899999999999999986 58887663 34444 458899999999988764
No 58
>KOG3262|consensus
Probab=47.64 E-value=26 Score=29.78 Aligned_cols=8 Identities=75% Similarity=1.523 Sum_probs=3.4
Q ss_pred CCCCCCCC
Q psy1175 79 NRGGRGGS 86 (155)
Q Consensus 79 ~r~gRggg 86 (155)
.+++|+++
T Consensus 164 ~rGgRg~~ 171 (215)
T KOG3262|consen 164 GRGGRGGG 171 (215)
T ss_pred CcCCCCCC
Confidence 34444443
No 59
>PF13865 FoP_duplication: C-terminal duplication domain of Friend of PRMT1
Probab=46.56 E-value=34 Score=23.93 Aligned_cols=9 Identities=44% Similarity=0.637 Sum_probs=4.0
Q ss_pred CCCCCccch
Q psy1175 106 KPTLNRNEL 114 (155)
Q Consensus 106 ~~~~~~~~~ 114 (155)
+|.....||
T Consensus 37 ~~~kT~EeL 45 (74)
T PF13865_consen 37 KPPKTAEEL 45 (74)
T ss_pred CCCCCHHHH
Confidence 444444444
No 60
>PRK11625 Rho-binding antiterminator; Provisional
Probab=41.18 E-value=85 Score=22.88 Aligned_cols=21 Identities=29% Similarity=0.401 Sum_probs=16.2
Q ss_pred CEEEecCCcEEEEEEEEeccccc
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMN 23 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MN 23 (155)
|.++||+|+++.|+.. |-+-+
T Consensus 26 l~l~l~dGe~~~g~A~--D~~~~ 46 (84)
T PRK11625 26 LTLELKDGEVLQAKAS--DLVSR 46 (84)
T ss_pred EEEEECCCCEEEEEEE--eeecC
Confidence 5789999999999984 44433
No 61
>PF06372 Gemin6: Gemin6 protein; InterPro: IPR009422 This family consists of several mammalian Gemin6 proteins. The exact function of Gemin6 is unknown but it has been found to form part of the Survival of motor neuron complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles [].; GO: 0000245 spliceosome assembly, 0005634 nucleus; PDB: 1Y96_A.
Probab=36.92 E-value=1.6e+02 Score=23.99 Aligned_cols=53 Identities=25% Similarity=0.311 Sum_probs=35.5
Q ss_pred CEEEecCCcEEEEEEEEecc-ccceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCchh
Q psy1175 1 MLVELKNGETYNGHLVNCDH-WMNINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPDEI 61 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~-~MNL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPdei 61 (155)
|.|.+.+ .++.|-|..+|+ .-+++|-+..+ +++. .--+|=|..|+.|.+-++-
T Consensus 20 VkV~~~d-~~~~G~v~TiDPVS~siVL~~~~e---~~~~----sv~~I~ghaVk~vevl~~~ 73 (166)
T PF06372_consen 20 VKVTLSD-KEYKGWVYTIDPVSASIVLVNFQE---DGKR----SVKVIMGHAVKSVEVLSEG 73 (166)
T ss_dssp EEEEETT-EEEEEEEEEE-TTT--EEEEEE-T---TS-E----EEEEE-GGGEEEEEEEE--
T ss_pred EEEEEec-cEEEEEEEEeCCCCCeEEEEEccc---CCce----eEEEEEccceEEEEEccCC
Confidence 6789999 999999999999 66888854322 3432 2368999999999887753
No 62
>PF11607 DUF3247: Protein of unknown function (DUF3247); InterPro: IPR021649 This family of proteins is the protein product of the gene XC5848 from Xanthomonas campestris. The protein has no known function however its structure has been determined. The protein adopts a Lsm fold however differences with the fold were observed at the N-terminal and internal regions []. ; PDB: 2E12_B.
Probab=36.91 E-value=31 Score=26.26 Aligned_cols=16 Identities=25% Similarity=0.534 Sum_probs=13.4
Q ss_pred CEEEecCCcEEEEEEE
Q psy1175 1 MLVELKNGETYNGHLV 16 (155)
Q Consensus 1 VtVELKNG~~y~GtL~ 16 (155)
|.++|++|+.+.|++.
T Consensus 31 V~l~L~DGs~l~Gtv~ 46 (101)
T PF11607_consen 31 VELELDDGSMLRGTVA 46 (101)
T ss_dssp EEEEETTS-EEEEEEC
T ss_pred EEEEEcCCCeeeeeec
Confidence 5789999999999985
No 63
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=34.84 E-value=28 Score=30.12 Aligned_cols=16 Identities=31% Similarity=0.584 Sum_probs=10.9
Q ss_pred cchhhhhhHHHHHHHH
Q psy1175 112 NELFYYCGIILLITCL 127 (155)
Q Consensus 112 ~~~~~~~~~~~~~~~~ 127 (155)
+-||+||.|||++..+
T Consensus 40 ~fLlWyfviilvLm~~ 55 (243)
T PF15468_consen 40 SFLLWYFVIILVLMFF 55 (243)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3588888887765443
No 64
>PF07073 ROF: Modulator of Rho-dependent transcription termination (ROF); InterPro: IPR009778 This family consists of several bacterial modulator of Rho-dependent transcription termination (ROF) proteins. ROF binds transcription termination factor Rho and inhibits Rho-dependent termination in vivo [].; PDB: 1SG5_A.
Probab=32.74 E-value=21 Score=25.74 Aligned_cols=14 Identities=36% Similarity=0.672 Sum_probs=9.9
Q ss_pred CEEEecCCcEEEEE
Q psy1175 1 MLVELKNGETYNGH 14 (155)
Q Consensus 1 VtVELKNG~~y~Gt 14 (155)
|.++||||+.+.|+
T Consensus 20 v~L~l~dG~~~~g~ 33 (80)
T PF07073_consen 20 VKLTLKDGEQIEGK 33 (80)
T ss_dssp EEEE-TTT--EEES
T ss_pred EEEEEeCCCEEEEE
Confidence 57999999999998
No 65
>PHA02898 virion envelope protein; Provisional
Probab=32.49 E-value=38 Score=25.41 Aligned_cols=21 Identities=43% Similarity=0.691 Sum_probs=14.7
Q ss_pred CccchhhhhhHHHHHH-HHHHH
Q psy1175 110 NRNELFYYCGIILLIT-CLFQM 130 (155)
Q Consensus 110 ~~~~~~~~~~~~~~~~-~~~~~ 130 (155)
||-.--.+|||+||+. |.|..
T Consensus 9 N~~s~vli~GIiLL~~ACIfAf 30 (92)
T PHA02898 9 NRPSYVVAFGIILLIVACICAY 30 (92)
T ss_pred cCcchHHHHHHHHHHHHHHHhe
Confidence 4445567899999874 77754
No 66
>PF03778 DUF321: Protein of unknown function (DUF321) ; InterPro: IPR005529 This entry represents a group of tandem repeats, found in Arabidopsis species, whose sequence is distantly related to the FARP (FMRFamide) group of neuropeptides (IPR002544 from INTERPRO). The function of these repeats is not known, being mostly found in uncharacterised proetins, but they are also present in the nuclear migration protein NUM1 [].
Probab=32.22 E-value=13 Score=20.71 Aligned_cols=6 Identities=83% Similarity=1.658 Sum_probs=4.9
Q ss_pred cccccC
Q psy1175 150 NHGFCF 155 (155)
Q Consensus 150 ~~~~~~ 155 (155)
||||+|
T Consensus 7 N~gftF 12 (20)
T PF03778_consen 7 NHGFTF 12 (20)
T ss_pred ecCEEE
Confidence 789876
No 67
>cd01735 LSm12_N LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.
Probab=31.07 E-value=1.8e+02 Score=20.01 Aligned_cols=26 Identities=12% Similarity=0.059 Sum_probs=21.7
Q ss_pred CEEEecCCcEEEEEEEEeccccceEE
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINL 26 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~L 26 (155)
|.++.-.|++++|.+..+|.--++.+
T Consensus 9 V~~kTc~g~~ieGEV~afD~~tk~lI 34 (61)
T cd01735 9 VSCRTCFEQRLQGEVVAFDYPSKMLI 34 (61)
T ss_pred EEEEecCCceEEEEEEEecCCCcEEE
Confidence 46778889999999999999866553
No 68
>PRK09718 hypothetical protein; Validated
Probab=30.25 E-value=39 Score=32.18 Aligned_cols=47 Identities=32% Similarity=0.440 Sum_probs=35.3
Q ss_pred CCCCCCCCCCccchhhhhhHHHHHHHHHHHhhhhcccceeEEEeeeeccc
Q psy1175 101 ANNAPKPTLNRNELFYYCGIILLITCLFQMLKSQVDLNMLRVMTMTTDIN 150 (155)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 150 (155)
+|=.++|++||....|..-|.|-| -|--...-.+||.|-.....||-
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~ 64 (512)
T PRK09718 18 RNFNGGPGLNRENFIYISNIFLNI---KQRNEKNHSINMFREVSISGDIV 64 (512)
T ss_pred hhcCCCCCcCccceEEehHhhhhh---HhhcccccchhheeEeeeccceE
Confidence 344578999998888877776654 35555566789999999888873
No 69
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=29.62 E-value=55 Score=22.67 Aligned_cols=12 Identities=50% Similarity=0.991 Sum_probs=7.5
Q ss_pred chhhhhhHHHHH
Q psy1175 113 ELFYYCGIILLI 124 (155)
Q Consensus 113 ~~~~~~~~~~~~ 124 (155)
.+.|||++|.++
T Consensus 5 ~~Iy~~~Vi~l~ 16 (58)
T PF13314_consen 5 DLIYYILVIILI 16 (58)
T ss_pred HHHHHHHHHHHH
Confidence 467999554443
No 70
>TIGR02603 CxxCH_TIGR02603 putative heme-binding domain, Pirellula/Verrucomicrobium type. This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).
Probab=28.39 E-value=69 Score=24.11 Aligned_cols=20 Identities=25% Similarity=0.351 Sum_probs=16.9
Q ss_pred CEEEecCCcEEEEEEEEecc
Q psy1175 1 MLVELKNGETYNGHLVNCDH 20 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~ 20 (155)
+.|.+++|.++.|.+.+=|.
T Consensus 60 ~~v~~~dG~~~~G~~~~e~~ 79 (133)
T TIGR02603 60 YRVTLKDGRILSGIVASETA 79 (133)
T ss_pred EEEEECCCCEEEEEEEecCC
Confidence 36899999999999988543
No 71
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=28.14 E-value=43 Score=25.12 Aligned_cols=16 Identities=38% Similarity=1.140 Sum_probs=11.3
Q ss_pred hhhhHHHHHH-HHHHHh
Q psy1175 116 YYCGIILLIT-CLFQML 131 (155)
Q Consensus 116 ~~~~~~~~~~-~~~~~~ 131 (155)
.+|||+||+. |.|...
T Consensus 15 li~GIiLL~~ACIFAfi 31 (91)
T PHA02680 15 LICGVLLLTAACVFAFV 31 (91)
T ss_pred HHHHHHHHHHHHHHhhh
Confidence 4799998874 776543
No 72
>KOG0921|consensus
Probab=27.32 E-value=58 Score=33.82 Aligned_cols=16 Identities=25% Similarity=0.941 Sum_probs=10.5
Q ss_pred EEE-EEEeccccceEEe
Q psy1175 12 NGH-LVNCDHWMNINLR 27 (155)
Q Consensus 12 ~Gt-L~svD~~MNL~Lk 27 (155)
-|. |+-||+|.++.++
T Consensus 1075 dgq~IV~VDdWIklqIs 1091 (1282)
T KOG0921|consen 1075 DGQGIVRVDDWIKLQIS 1091 (1282)
T ss_pred cCcceEEeeceeeEecc
Confidence 344 6677777777665
No 73
>PF05398 PufQ: PufQ cytochrome subunit; InterPro: IPR008800 This family consists of bacterial PufQ proteins. PufQ is required for bacteriochlorophyll biosynthesis serving a regulatory function in the formation of photosynthetic complexes [].; GO: 0015979 photosynthesis, 0030494 bacteriochlorophyll biosynthetic process
Probab=27.07 E-value=64 Score=23.26 Aligned_cols=27 Identities=26% Similarity=0.466 Sum_probs=21.6
Q ss_pred ccchhhhhhHHHHHHHHHHHhhhhccc
Q psy1175 111 RNELFYYCGIILLITCLFQMLKSQVDL 137 (155)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 137 (155)
|.|..-|.++|++.+..|-+|---+.+
T Consensus 18 k~Ef~vYFalIflaAlP~a~l~W~~~~ 44 (73)
T PF05398_consen 18 KAEFYVYFALIFLAALPFATLTWAYAL 44 (73)
T ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 489999999999999888887655443
No 74
>PRK14639 hypothetical protein; Provisional
Probab=26.25 E-value=77 Score=24.66 Aligned_cols=20 Identities=20% Similarity=0.516 Sum_probs=18.0
Q ss_pred CEEEecCCcEEEEEEEEecc
Q psy1175 1 MLVELKNGETYNGHLVNCDH 20 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~ 20 (155)
|.|.|++...+.|+|.++|+
T Consensus 91 v~v~l~~~~~~~G~L~~~~~ 110 (140)
T PRK14639 91 VKITTNEKEKFEGKIVSVDD 110 (140)
T ss_pred EEEEECCCcEEEEEEEEEeC
Confidence 56788899999999999998
No 75
>TIGR02549 CRISPR_DxTHG CRISPR-associated DxTHG motif protein. This model describes a short region highly conserved between two otherwise substantially different CRISPR-associated (cas) proteins, TIGR02221 and TIGR01987. This region includes the motif [VIL]-D-x-[ST]-H-[GS].
Probab=26.22 E-value=25 Score=20.68 Aligned_cols=10 Identities=50% Similarity=1.039 Sum_probs=7.5
Q ss_pred eecccccccC
Q psy1175 146 TTDINHGFCF 155 (155)
Q Consensus 146 ~~~~~~~~~~ 155 (155)
.-||.|||-+
T Consensus 3 ilDiTHGfr~ 12 (26)
T TIGR02549 3 ILDVTHGFNF 12 (26)
T ss_pred EEEecCcccc
Confidence 4599999853
No 76
>PRK02001 hypothetical protein; Validated
Probab=25.24 E-value=82 Score=25.06 Aligned_cols=25 Identities=36% Similarity=0.498 Sum_probs=20.1
Q ss_pred CEEEecCCcEEEEEEEEeccccceEE
Q psy1175 1 MLVELKNGETYNGHLVNCDHWMNINL 26 (155)
Q Consensus 1 VtVELKNG~~y~GtL~svD~~MNL~L 26 (155)
|.|.|+++..+.|+|.++|+- +++|
T Consensus 93 v~V~l~~~~~~~G~L~~~~~~-~i~l 117 (152)
T PRK02001 93 LEVLTKNGKKIEGELKSADEN-DITL 117 (152)
T ss_pred EEEEECCCCEEEEEEEEEeCC-EEEE
Confidence 467888999999999999985 3444
No 77
>PF11684 DUF3280: Protein of unknown function (DUF2380); InterPro: IPR021698 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=23.57 E-value=1.3e+02 Score=23.65 Aligned_cols=39 Identities=26% Similarity=0.369 Sum_probs=28.4
Q ss_pred CcEEEEEEEEecc---ccceEEeeEEEEcCCCceeccCCeEEEeCCe
Q psy1175 8 GETYNGHLVNCDH---WMNINLREVICTSRDGDKFWRMPECYIRGSM 51 (155)
Q Consensus 8 G~~y~GtL~svD~---~MNL~LknV~~t~~dG~~~~~l~~ifIRGnn 51 (155)
+-.+.|.+..+-. +||+.+.|| +.|+.. .-..+-|||++
T Consensus 82 d~~lvG~VqKvS~Lil~~~~~v~Dv----~tg~~v-~~~~~diRgnt 123 (140)
T PF11684_consen 82 DYVLVGEVQKVSNLILNMNVYVRDV----ETGKVV-RGRSVDIRGNT 123 (140)
T ss_pred CEEEEEEEechhhhheeeeEEEEEC----CCCCEE-eeeeeeEecCc
Confidence 4567777777665 789999887 356665 55778899886
No 78
>KOG3199|consensus
Probab=23.19 E-value=34 Score=29.48 Aligned_cols=44 Identities=20% Similarity=0.454 Sum_probs=32.3
Q ss_pred ceEEeeEEEEcCCCceeccCCeEEEeCCeEEEEecCchhhhhHHHHH
Q psy1175 23 NINLREVICTSRDGDKFWRMPECYIRGSMIKYLRIPDEIIDMVKEDQ 69 (155)
Q Consensus 23 NL~LknV~~t~~dG~~~~~l~~ifIRGnnIRyI~LPdeiid~~k~~~ 69 (155)
|++.+|..+. ++-...++..+.=||.+|+| .+||.+++.+++.+
T Consensus 185 ~l~ikn~~~~--N~ISStklr~ai~r~~SVkY-l~PD~Vi~yI~~h~ 228 (234)
T KOG3199|consen 185 ILHIKNEIVP--NDISSTKLRQAIRRGQSVKY-LTPDSVIEYIREHN 228 (234)
T ss_pred eEEEeeeeec--CCcchHHHHHHHHcCCeeEe-eCcHHHHHHHHHhh
Confidence 6777776664 33334477888889999999 78999888876653
No 79
>PF14707 Sulfatase_C: C-terminal region of aryl-sulfatase; PDB: 1P49_A 1E33_P 1E1Z_P 1N2K_A 1N2L_A 1E2S_P 1E3C_P 1AUK_A.
Probab=22.30 E-value=21 Score=26.79 Aligned_cols=11 Identities=55% Similarity=1.253 Sum_probs=6.9
Q ss_pred CCccchhhhhh
Q psy1175 109 LNRNELFYYCG 119 (155)
Q Consensus 109 ~~~~~~~~~~~ 119 (155)
|.|+.+||||+
T Consensus 1 Spr~~~fyy~~ 11 (131)
T PF14707_consen 1 SPREFFFYYCG 11 (131)
T ss_dssp -S-SEEEEEET
T ss_pred CCCCeEEEeCC
Confidence 45778888876
No 80
>KOG2945|consensus
Probab=21.70 E-value=92 Score=28.50 Aligned_cols=9 Identities=33% Similarity=0.372 Sum_probs=4.1
Q ss_pred CCCCCCCCC
Q psy1175 99 MRANNAPKP 107 (155)
Q Consensus 99 ~~~~~~~~~ 107 (155)
.+++.+|.+
T Consensus 347 ~~~~~aP~~ 355 (365)
T KOG2945|consen 347 RRQAAAPAV 355 (365)
T ss_pred ccccCCCCC
Confidence 334455543
No 81
>cd01734 YlxS_C YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix and a five-stranded beta-sheet. This CD represents the C-terminal domain which has a fold similar to the Sm fold of proteins like Sm-D3.
Probab=21.04 E-value=1.2e+02 Score=21.14 Aligned_cols=20 Identities=30% Similarity=0.662 Sum_probs=15.8
Q ss_pred CEEEec---CC-cEEEEEEEEecc
Q psy1175 1 MLVELK---NG-ETYNGHLVNCDH 20 (155)
Q Consensus 1 VtVELK---NG-~~y~GtL~svD~ 20 (155)
|.|+++ +| ..+.|.|.++|+
T Consensus 28 v~v~~~~~~~~~~~~~G~L~~~~~ 51 (83)
T cd01734 28 VHVKLYQPIDGQKEFEGTLLGVDD 51 (83)
T ss_pred EEEEEEcccCCeEEEEEEEEeEeC
Confidence 456676 55 589999999998
No 82
>PHA03048 IMV membrane protein; Provisional
Probab=20.98 E-value=78 Score=23.82 Aligned_cols=21 Identities=33% Similarity=0.585 Sum_probs=13.7
Q ss_pred ccchhhhhhHHHHH-HHHHHHh
Q psy1175 111 RNELFYYCGIILLI-TCLFQML 131 (155)
Q Consensus 111 ~~~~~~~~~~~~~~-~~~~~~~ 131 (155)
+-.--.+|||+||+ .|.|...
T Consensus 10 y~S~vli~GIiLL~~aCIfAfi 31 (93)
T PHA03048 10 YFSTALIGGIILLAASCIFAFV 31 (93)
T ss_pred ccchHHHHHHHHHHHHHHHhhh
Confidence 33344579999987 4777543
No 83
>PF05767 Pox_A14: Poxvirus virion envelope protein A14; InterPro: IPR008785 This family consists of several Poxvirus virion envelope protein A14-like sequences. A14 is a component of the virion membrane and has been found to be an H1 phosphatase substrate in vivo and in vitro. A14 is hyperphosphorylated on serine residues in the absence of H1 expression [].; GO: 0019031 viral envelope
Probab=20.69 E-value=72 Score=23.96 Aligned_cols=17 Identities=47% Similarity=0.981 Sum_probs=11.9
Q ss_pred hhhhhHHHHHH-HHHHHh
Q psy1175 115 FYYCGIILLIT-CLFQML 131 (155)
Q Consensus 115 ~~~~~~~~~~~-~~~~~~ 131 (155)
-.+|||+||+. |.|...
T Consensus 14 vli~GiiLL~~aCIfAfi 31 (92)
T PF05767_consen 14 VLIGGIILLIAACIFAFI 31 (92)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 45799998874 776543
Done!