Query 034340
Match_columns 97
No_of_seqs 119 out of 1075
Neff 7.0
Searched_HMMs 29240
Date Mon Mar 25 21:24:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034340.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/034340hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4emg_A Probable U6 snRNA-assoc 99.9 4.7E-27 1.6E-31 148.5 9.9 90 5-94 3-92 (93)
2 1i8f_A Putative snRNP SM-like 99.9 9.4E-27 3.2E-31 143.5 9.6 80 1-94 1-80 (81)
3 1b34_B Protein (small nuclear 99.9 2E-26 6.9E-31 151.0 9.2 94 4-97 20-116 (118)
4 3bw1_A SMX4 protein, U6 snRNA- 99.9 1.7E-25 5.9E-30 142.0 10.7 82 8-95 7-88 (96)
5 1h64_1 SnRNP SM-like protein; 99.9 1.6E-25 5.3E-30 136.1 9.9 72 10-94 3-74 (75)
6 1i4k_A Putative snRNP SM-like 99.9 1.7E-25 5.9E-30 136.4 9.9 74 10-96 3-76 (77)
7 1ljo_A Archaeal SM-like protei 99.9 2.5E-25 8.5E-30 135.8 10.2 73 9-94 3-76 (77)
8 4emk_A U6 snRNA-associated SM- 99.9 2.6E-25 8.8E-30 140.9 10.4 78 6-95 15-92 (94)
9 3s6n_F Small nuclear ribonucle 99.9 5.1E-25 1.8E-29 137.3 10.6 75 8-95 3-77 (86)
10 1mgq_A SM-like protein; LSM, R 99.9 4.7E-25 1.6E-29 136.5 10.0 74 6-92 10-83 (83)
11 4emk_B U6 snRNA-associated SM- 99.9 1.3E-25 4.5E-30 136.6 7.4 73 10-95 3-75 (75)
12 1th7_A SnRNP-2, small nuclear 99.9 5.3E-25 1.8E-29 135.6 9.5 72 10-94 8-79 (81)
13 1d3b_A Protein (small nuclear 99.9 1.1E-24 3.9E-29 132.6 9.5 74 8-94 2-75 (75)
14 3s6n_E Small nuclear ribonucle 99.9 3.4E-25 1.2E-29 139.8 6.8 79 4-94 9-91 (92)
15 3s6n_G Small nuclear ribonucle 99.9 1.4E-24 4.8E-29 132.4 8.1 72 11-95 4-75 (76)
16 1d3b_B Protein (small nuclear 99.9 1.6E-24 5.6E-29 135.8 8.1 80 11-93 4-83 (91)
17 2fwk_A U6 snRNA-associated SM- 99.9 1.3E-24 4.6E-29 142.9 7.7 90 6-95 23-114 (121)
18 1n9r_A SMF, small nuclear ribo 99.9 3.1E-24 1E-28 135.6 8.8 74 8-94 18-92 (93)
19 4emk_C U6 snRNA-associated SM- 99.9 6.3E-24 2.1E-28 138.4 9.3 84 6-95 18-101 (113)
20 4emh_A Probable U6 snRNA-assoc 99.9 1.4E-23 4.9E-28 135.2 8.3 74 9-94 14-87 (105)
21 1b34_A Protein (small nuclear 99.9 7.3E-23 2.5E-27 134.3 8.8 72 11-95 2-73 (119)
22 3pgw_B SM B; protein-RNA compl 99.9 1.5E-22 5.1E-27 145.1 10.6 81 10-93 3-83 (231)
23 2y9a_D Small nuclear ribonucle 99.9 2.8E-22 9.4E-27 132.8 8.9 75 8-95 2-76 (126)
24 1m5q_A SMAP3, small nuclear ri 99.8 2.1E-20 7.3E-25 124.3 7.5 66 13-95 2-67 (130)
25 1y96_A Gemin6, SIP2, GEM-assoc 98.9 6.6E-09 2.3E-13 64.4 6.3 64 10-93 7-71 (86)
26 2qtx_A Uncharacterized protein 97.0 0.0011 3.7E-08 39.4 4.7 32 20-51 24-55 (71)
27 1u1s_A HFQ protein; SM-like ba 96.9 0.0019 6.6E-08 39.3 5.1 30 20-49 18-47 (82)
28 2ylb_A Protein HFQ; RNA-bindin 96.9 0.0018 6E-08 38.8 4.6 36 14-49 12-49 (74)
29 3sb2_A Protein HFQ; SM-like, R 96.8 0.0014 4.9E-08 39.6 3.9 29 20-48 19-47 (79)
30 3ahu_A Protein HFQ; SM-like mo 96.7 0.0035 1.2E-07 37.8 5.2 31 21-51 23-53 (78)
31 1kq1_A HFQ, HOST factor for Q 96.7 0.0049 1.7E-07 37.1 5.6 37 15-51 11-49 (77)
32 2y90_A Protein HFQ; RNA-bindin 96.3 0.008 2.7E-07 38.1 5.1 37 14-50 12-50 (104)
33 1y96_B Gemin7, SIP3, GEM-assoc 96.3 0.021 7.3E-07 34.8 6.8 65 11-93 19-84 (85)
34 2vxe_A CG10686-PA; EDC3, CAR-1 96.2 0.035 1.2E-06 34.1 7.6 72 18-93 10-82 (88)
35 2fb7_A SM-like protein, LSM-14 95.6 0.029 1E-06 34.9 5.4 77 12-92 10-87 (95)
36 1ycy_A Conserved hypothetical 95.5 0.094 3.2E-06 30.4 6.9 43 13-56 8-50 (71)
37 4a53_A EDC3; RNA binding prote 95.4 0.027 9.4E-07 36.6 4.9 37 17-54 8-46 (125)
38 3hfo_A SSR3341 protein; HFQ, S 94.6 0.07 2.4E-06 31.4 4.7 40 10-49 7-49 (70)
39 3hfn_A ASL2047 protein; HFQ, S 94.2 0.37 1.3E-05 28.4 7.2 39 11-49 10-51 (72)
40 2vc8_A Enhancer of mRNA-decapp 92.8 0.17 5.9E-06 30.7 4.2 38 16-53 4-43 (84)
41 3rux_A BIRA bifunctional prote 91.4 0.31 1.1E-05 34.9 5.0 33 20-52 223-255 (270)
42 1ib8_A Conserved protein SP14. 87.6 0.86 2.9E-05 30.4 4.5 31 18-49 101-135 (164)
43 2eay_A Biotin [acetyl-COA-carb 85.1 0.79 2.7E-05 32.0 3.5 30 20-51 187-216 (233)
44 2e12_A SM-like motif, hypothet 84.3 2 6.8E-05 26.4 4.5 22 17-38 22-45 (101)
45 1bia_A BIRA bifunctional prote 83.9 2.7 9.4E-05 30.4 6.0 32 20-52 272-303 (321)
46 2ej9_A Putative biotin ligase; 81.2 2.5 8.5E-05 29.5 4.8 31 20-51 191-221 (237)
47 2xk0_A Polycomb protein PCL; t 79.1 5.5 0.00019 23.1 4.9 42 17-58 15-57 (69)
48 2dxu_A Biotin--[acetyl-COA-car 78.7 1.9 6.6E-05 30.1 3.5 30 20-51 188-217 (235)
49 3bfm_A Biotin protein ligase-l 74.6 5.2 0.00018 27.6 4.8 28 20-52 193-220 (235)
50 2rm4_A CG6311-PB, DM EDC3; enh 74.5 12 0.00039 23.3 5.7 60 18-92 9-69 (103)
51 3rkx_A Biotin-[acetyl-COA-carb 74.0 4.4 0.00015 29.5 4.5 31 20-51 278-308 (323)
52 4hcz_A PHD finger protein 1; p 65.7 9.9 0.00034 21.3 3.7 38 20-57 6-46 (58)
53 1ky9_A Protease DO, DEGP, HTRA 56.6 16 0.00055 27.6 4.7 32 22-53 111-142 (448)
54 4a8c_A Periplasmic PH-dependen 56.2 17 0.00059 27.2 4.8 31 22-52 88-118 (436)
55 2qqr_A JMJC domain-containing 53.4 17 0.00059 23.0 3.7 23 20-42 8-30 (118)
56 2eqj_A Metal-response element- 52.3 23 0.00079 20.3 3.8 38 20-57 16-56 (66)
57 3fb9_A Uncharacterized protein 49.1 28 0.00095 21.1 4.0 29 13-41 17-49 (90)
58 1x4r_A PARP14 protein; WWE dom 48.4 0.81 2.8E-05 28.5 -3.1 19 35-53 34-52 (99)
59 1nvp_D Transcription initiatio 47.8 17 0.00059 22.7 3.0 27 29-55 52-81 (108)
60 3stj_A Protease DEGQ; serine p 47.6 24 0.00082 25.6 4.3 31 22-52 88-118 (345)
61 1nh2_D Transcription initiatio 45.7 19 0.00065 23.0 3.0 28 29-56 56-86 (121)
62 3pv2_A DEGQ; trypsin fold, PDZ 43.3 23 0.00079 26.7 3.7 31 22-52 102-132 (451)
63 3sti_A Protease DEGQ; serine p 42.9 30 0.001 23.9 4.0 31 22-52 88-118 (245)
64 2m0o_A PHD finger protein 1; t 41.3 15 0.00052 21.7 1.9 41 17-57 26-69 (79)
65 3lgi_A Protease DEGS; stress-s 39.2 44 0.0015 22.5 4.4 31 22-52 77-107 (237)
66 3tjo_A Serine protease HTRA1; 38.9 45 0.0016 22.5 4.4 32 22-53 87-118 (231)
67 1y8t_A Hypothetical protein RV 38.7 41 0.0014 23.8 4.3 32 22-53 64-95 (324)
68 1te0_A Protease DEGS; two doma 38.6 41 0.0014 23.8 4.3 32 22-53 66-97 (318)
69 1lcy_A HTRA2 serine protease; 37.6 45 0.0015 23.7 4.4 32 22-53 71-102 (325)
70 1sg5_A ORF, hypothetical prote 33.3 16 0.00053 21.8 1.1 18 20-37 24-41 (86)
71 3kl9_A PEPA, glutamyl aminopep 31.4 35 0.0012 25.0 3.0 22 19-40 97-118 (355)
72 3qo6_A Protease DO-like 1, chl 31.3 59 0.002 23.3 4.2 31 22-52 77-107 (348)
73 2e5q_A PHD finger protein 19; 30.8 62 0.0021 18.3 3.3 39 20-58 10-51 (63)
74 3qx1_A FAS-associated factor 1 30.8 32 0.0011 19.7 2.2 22 22-43 8-29 (84)
75 3num_A Serine protease HTRA1; 30.3 84 0.0029 22.3 4.8 31 22-52 70-100 (332)
76 4fln_A Protease DO-like 2, chl 30.0 50 0.0017 25.8 3.8 31 22-52 97-128 (539)
77 2e5p_A Protein PHF1, PHD finge 29.2 84 0.0029 18.0 3.8 39 20-58 12-53 (68)
78 2zbv_A Uncharacterized conserv 29.1 52 0.0018 23.4 3.5 20 31-50 167-186 (263)
79 2wr8_A Putative uncharacterize 29.0 49 0.0017 23.5 3.3 20 31-50 171-190 (259)
80 3tee_A Flagella basal BODY P-r 27.3 40 0.0014 23.2 2.5 22 19-40 169-190 (219)
81 2xdp_A Lysine-specific demethy 25.0 95 0.0032 19.7 3.8 22 20-41 67-88 (123)
82 2w5e_A Putative serine proteas 23.5 1.5E+02 0.0052 19.0 5.0 29 22-52 43-71 (163)
83 2dzk_A UBX domain-containing p 22.3 71 0.0024 19.3 2.8 21 22-42 14-34 (109)
84 1wj4_A KIAA0794 protein; UBX d 20.6 64 0.0022 20.1 2.3 22 22-43 44-65 (124)
85 1o9y_A HRCQ2; secretory protei 20.3 1.2E+02 0.0039 17.4 3.3 32 20-51 48-79 (84)
86 1l1j_A Heat shock protease HTR 20.0 36 0.0012 23.3 1.1 31 22-52 80-110 (239)
No 1
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=99.94 E-value=4.7e-27 Score=148.49 Aligned_cols=90 Identities=58% Similarity=0.976 Sum_probs=66.6
Q ss_pred cccccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcC
Q 034340 5 EESAVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRG 84 (97)
Q Consensus 5 ~~~~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG 84 (97)
+.+....|+++|+.+++++|+|+|++||.|.|+|.|||+||||+|+||.|++..++.+++..+.......+.+|.+||||
T Consensus 3 ~~~~~~~Pl~lL~~~~~~~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~v~iRG 82 (93)
T 4emg_A 3 SAQAVAEPLDLVRLSLDEIVYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFVRG 82 (93)
T ss_dssp ------CTTHHHHTTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEEC--------------CEEEEEEEEEECG
T ss_pred cccccCCCHHHHHHhCCCEEEEEECCCcEEEEEEEEECCcccEEeecEEEEEeccccCCccccccccccEeEeceEEECC
Confidence 34667899999999999999999999999999999999999999999999987543222100001124578999999999
Q ss_pred CcEEEEecCC
Q 034340 85 DGVILVSPPL 94 (97)
Q Consensus 85 ~~Iv~I~~~~ 94 (97)
+||++|+++.
T Consensus 83 ~nVv~I~p~~ 92 (93)
T 4emg_A 83 DSVILIAPPR 92 (93)
T ss_dssp GGEEEEECCC
T ss_pred CeEEEEEecC
Confidence 9999999863
No 2
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A*
Probab=99.94 E-value=9.4e-27 Score=143.53 Aligned_cols=80 Identities=33% Similarity=0.523 Sum_probs=66.2
Q ss_pred CCcccccccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeE
Q 034340 1 MASEEESAVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFL 80 (97)
Q Consensus 1 ~~~~~~~~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v 80 (97)
||++.++....|+++|.++++++|+|+|+||+.|.|+|.|||+||||+|+||.|+ .. ...+.+|.+
T Consensus 1 m~~~~~~~~~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~-~~-------------~~~~~lg~v 66 (81)
T 1i8f_A 1 MASDISKCFATLGATLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEI-ID-------------GNVYKRGTM 66 (81)
T ss_dssp ---------CCHHHHHHTTTTSEEEEEEGGGEEEEEEEEEECTTCCEEEEEEEEE-ET-------------TEEEEEEEE
T ss_pred CCcccCccccchHHHHHHHCCCeEEEEEcCCcEEEEEEEEEcCCCeeEEccEEEE-cC-------------CcccCCCEE
Confidence 7888888899999999999999999999999999999999999999999999998 21 356889999
Q ss_pred EEcCCcEEEEecCC
Q 034340 81 FVRGDGVILVSPPL 94 (97)
Q Consensus 81 ~IRG~~Iv~I~~~~ 94 (97)
+|||++|++|++++
T Consensus 67 ~iRG~~I~~i~~~d 80 (81)
T 1i8f_A 67 VVRGENVLFISPVP 80 (81)
T ss_dssp EECGGGEEEEEECC
T ss_pred EECCCEEEEEEeCC
Confidence 99999999999875
No 3
>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=99.94 E-value=2e-26 Score=151.02 Aligned_cols=94 Identities=30% Similarity=0.482 Sum_probs=66.8
Q ss_pred ccccccCCcHHHHHHhC--CCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhh-eeeceeeEecCeE
Q 034340 4 EEESAVKEPLDLIRLSL--DERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYE-EIVRTTRRTVPFL 80 (97)
Q Consensus 4 ~~~~~~~~P~~lL~~~l--~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~-~~~~~~~r~lg~v 80 (97)
|+...+.+|+++|+.++ +++|+|+|++||.|.|+|.|||+||||+|+||.|++...+.++.+.+ .+.....+.+|.+
T Consensus 20 e~~~~~~~Pl~lL~~~~~~~k~V~V~Lk~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v 99 (118)
T 1b34_B 20 EEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKM 99 (118)
T ss_dssp ------CCHHHHHHHHHHHTCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEC-------------------CEEEEEE
T ss_pred hhhhcccChHHHHHHHhcCCcEEEEEECCCcEEEEEEEEeCCceEEEEeCEEEEEecccccccccccccccccccCcCeE
Confidence 67778899999999999 59999999999999999999999999999999999865332211100 0112346789999
Q ss_pred EEcCCcEEEEecCCCCC
Q 034340 81 FVRGDGVILVSPPLRTA 97 (97)
Q Consensus 81 ~IRG~~Iv~I~~~~~~~ 97 (97)
||||+||++|++++..|
T Consensus 100 ~IRG~nVv~I~~~~~~~ 116 (118)
T 1b34_B 100 FLRGDSVIVVLRNPLIA 116 (118)
T ss_dssp EECGGGEEEEEECCCCC
T ss_pred EEcCCEEEEEEeCchhh
Confidence 99999999999998754
No 4
>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=99.93 E-value=1.7e-25 Score=141.95 Aligned_cols=82 Identities=40% Similarity=0.779 Sum_probs=70.8
Q ss_pred ccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcE
Q 034340 8 AVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGV 87 (97)
Q Consensus 8 ~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~I 87 (97)
-+..|+++|..+++++|+|+|+|||.|.|+|.|||+||||+|+||.|++..++.++ .....+.+|.++|||+||
T Consensus 7 ~~~~p~~~L~~~i~k~V~V~Lk~gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~------~~~~~r~lG~v~IRG~nV 80 (96)
T 3bw1_A 7 HMETPLDLLKLNLDERVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEE------LSESERRCEMVFIRGDTV 80 (96)
T ss_dssp CCCCHHHHHGGGTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEEEEECCSTTC------CCEEEEEEEEEEECGGGE
T ss_pred hhhhHHHHHHHHCCCeEEEEECCCcEEEEEEEEECCCCcEEEcCEEEEeccccccc------cCcceeEcCEEEECCCEE
Confidence 36789999999999999999999999999999999999999999999987533210 124578999999999999
Q ss_pred EEEecCCC
Q 034340 88 ILVSPPLR 95 (97)
Q Consensus 88 v~I~~~~~ 95 (97)
++|++++.
T Consensus 81 v~I~~~d~ 88 (96)
T 3bw1_A 81 TLISTPSE 88 (96)
T ss_dssp EEEECCC-
T ss_pred EEEEecCc
Confidence 99998865
No 5
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=99.93 E-value=1.6e-25 Score=136.05 Aligned_cols=72 Identities=38% Similarity=0.632 Sum_probs=66.0
Q ss_pred CCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEE
Q 034340 10 KEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVIL 89 (97)
Q Consensus 10 ~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~ 89 (97)
..|+++|+++++++|+|+|+||+.|+|+|.|||+||||+|+||.|++.. ...+.+|.++|||++|++
T Consensus 3 ~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------------~~~~~lg~v~iRG~~I~~ 69 (75)
T 1h64_1 3 ERPLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDG-------------EVVKRYGKIVIRGDNVLA 69 (75)
T ss_dssp CCHHHHHHTTTTSEEEEEETTSEEEEEEEEEECTTCCEEEEEEEEEETT-------------EEEEEEEEEEECGGGEEE
T ss_pred chHHHHHHHHCCCEEEEEECCCCEEEEEEEEEeCCCCeEEeeEEEEeeC-------------CceeECCEEEECCCEEEE
Confidence 4799999999999999999999999999999999999999999998742 357889999999999999
Q ss_pred EecCC
Q 034340 90 VSPPL 94 (97)
Q Consensus 90 I~~~~ 94 (97)
|.+++
T Consensus 70 i~~~~ 74 (75)
T 1h64_1 70 ISPTE 74 (75)
T ss_dssp EEEC-
T ss_pred EEeCC
Confidence 99874
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=99.93 E-value=1.7e-25 Score=136.39 Aligned_cols=74 Identities=39% Similarity=0.667 Sum_probs=66.9
Q ss_pred CCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEE
Q 034340 10 KEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVIL 89 (97)
Q Consensus 10 ~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~ 89 (97)
..|+++|+++++++|+|+|+||+.|.|+|.|||+||||+|+||.|++.. ...+.+|.++|||++|++
T Consensus 3 ~~P~~~L~~~~~~~V~V~L~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------------~~~~~lg~v~iRG~~I~~ 69 (77)
T 1i4k_A 3 PRPLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNG-------------EVVRKVGSVVIRGDTVVF 69 (77)
T ss_dssp CCHHHHHHTTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEETT-------------EEEEEEEEEEECGGGEEE
T ss_pred ccHHHHHHHhCCCEEEEEEcCCCEEEEEEEEEcCCCCeEEeeEEEEecC-------------CcEeECCEEEECCCEEEE
Confidence 4799999999999999999999999999999999999999999998742 356889999999999999
Q ss_pred EecCCCC
Q 034340 90 VSPPLRT 96 (97)
Q Consensus 90 I~~~~~~ 96 (97)
|.+++-+
T Consensus 70 i~~~d~~ 76 (77)
T 1i4k_A 70 VSPAPGG 76 (77)
T ss_dssp EEECC--
T ss_pred EEeCCCC
Confidence 9998743
No 7
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1
Probab=99.93 E-value=2.5e-25 Score=135.84 Aligned_cols=73 Identities=23% Similarity=0.434 Sum_probs=66.7
Q ss_pred cCCcHHHHHHhCCCeEEEEEcCC-eEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcE
Q 034340 9 VKEPLDLIRLSLDERIYVKLRSD-RELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGV 87 (97)
Q Consensus 9 ~~~P~~lL~~~l~k~V~V~l~~g-r~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~I 87 (97)
+..|+++|.++++++|+|+|++| ++|+|+|.|||+||||+|+||.|++.. ...+.+|.++|||++|
T Consensus 3 m~~P~~~L~~~~~~~v~V~lk~g~~~~~G~L~~~D~~mNlvL~d~~e~~~~-------------~~~~~lg~v~iRG~nI 69 (77)
T 1ljo_A 3 MVLPNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGE-------------EKVRSLGEIVLRGNNV 69 (77)
T ss_dssp CCCHHHHHHHTTTSEEEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEETT-------------EEEEEEEEEEECGGGE
T ss_pred ccchHHHHHHHCCCEEEEEEeCCCEEEEEEEEEECCcceEEEeeEEEEecC-------------CcEeECCeEEEeCCeE
Confidence 56899999999999999999999 999999999999999999999998731 3578899999999999
Q ss_pred EEEecCC
Q 034340 88 ILVSPPL 94 (97)
Q Consensus 88 v~I~~~~ 94 (97)
++|.+++
T Consensus 70 ~~i~~~d 76 (77)
T 1ljo_A 70 VLIQPQE 76 (77)
T ss_dssp EEEEEC-
T ss_pred EEEEeCC
Confidence 9999875
No 8
>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=99.93 E-value=2.6e-25 Score=140.87 Aligned_cols=78 Identities=27% Similarity=0.479 Sum_probs=66.0
Q ss_pred ccccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCC
Q 034340 6 ESAVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGD 85 (97)
Q Consensus 6 ~~~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~ 85 (97)
...+..|+++|.++++++|+|+|++|++|+|+|.|||+||||+|+||+|++.. + ...+.+|.++|||+
T Consensus 15 ~~~~~~Pl~lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~~mNlvL~d~~E~~~~----~--------~~~~~lg~v~IRG~ 82 (94)
T 4emk_A 15 MSMTILPLELIDKCIGSNLWVIMKSEREFAGTLVGFDDYVNIVLKDVTEYDTV----T--------GVTEKHSEMLLNGN 82 (94)
T ss_dssp -----CHHHHHHHTTTSEEEEEESSSEEEEEEEEEECTTCCEEEEEEEEEETT----T--------CCEEEEEEEEECST
T ss_pred ccccccCHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeeeEEEEecC----C--------CcEeEcCEEEEcCC
Confidence 45677999999999999999999999999999999999999999999999731 1 24688999999999
Q ss_pred cEEEEecCCC
Q 034340 86 GVILVSPPLR 95 (97)
Q Consensus 86 ~Iv~I~~~~~ 95 (97)
||++|++...
T Consensus 83 nI~~i~p~~~ 92 (94)
T 4emk_A 83 GMCMLIPGGK 92 (94)
T ss_dssp TEEEEEECC-
T ss_pred EEEEEEeCCC
Confidence 9999998743
No 9
>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=99.92 E-value=5.1e-25 Score=137.33 Aligned_cols=75 Identities=20% Similarity=0.256 Sum_probs=67.2
Q ss_pred ccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcE
Q 034340 8 AVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGV 87 (97)
Q Consensus 8 ~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~I 87 (97)
....|+++|+++++++|+|+|++|+.|+|+|.|||+||||+|+||.|+... ...+.+|.++|||++|
T Consensus 3 ~~~~P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~g-------------~~~~~lg~v~IRG~nI 69 (86)
T 3s6n_F 3 LPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDG-------------ALSGHLGEVLIRCNNV 69 (86)
T ss_dssp CCCCHHHHHHHHTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEETT-------------EEEEEESSEEECGGGE
T ss_pred cCcCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEEcCceEEEEeeEEEEcCC-------------ceeeEccEEEEeCCeE
Confidence 356899999999999999999999999999999999999999999987521 2467899999999999
Q ss_pred EEEecCCC
Q 034340 88 ILVSPPLR 95 (97)
Q Consensus 88 v~I~~~~~ 95 (97)
++|.+++-
T Consensus 70 ~~i~~~d~ 77 (86)
T 3s6n_F 70 LYIRGVEE 77 (86)
T ss_dssp EEEEECC-
T ss_pred EEEEeCCc
Confidence 99999864
No 10
>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=99.92 E-value=4.7e-25 Score=136.49 Aligned_cols=74 Identities=36% Similarity=0.715 Sum_probs=67.2
Q ss_pred ccccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCC
Q 034340 6 ESAVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGD 85 (97)
Q Consensus 6 ~~~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~ 85 (97)
......|+++|+++++++|+|+|+||+.|.|+|.|||+||||+|+||.|++.. ...+.+|.++|||+
T Consensus 10 ~~~~~~P~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------------~~~~~lg~v~IRG~ 76 (83)
T 1mgq_A 10 RVNVQRPLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDG-------------EVTRRLGTVLIRGD 76 (83)
T ss_dssp CCCTTCTTHHHHHTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEETT-------------EEEEEEEEEEECGG
T ss_pred cccCcChHHHHHHhCCCEEEEEEcCCcEEEEEEEEECCCceeEEccEEEEecC-------------CcccCCCEEEECCC
Confidence 34467999999999999999999999999999999999999999999998742 35788999999999
Q ss_pred cEEEEec
Q 034340 86 GVILVSP 92 (97)
Q Consensus 86 ~Iv~I~~ 92 (97)
+|++|++
T Consensus 77 ~I~~i~p 83 (83)
T 1mgq_A 77 NIVYISP 83 (83)
T ss_dssp GEEEEEC
T ss_pred EEEEEEC
Confidence 9999975
No 11
>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=99.92 E-value=1.3e-25 Score=136.58 Aligned_cols=73 Identities=23% Similarity=0.398 Sum_probs=65.4
Q ss_pred CCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEE
Q 034340 10 KEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVIL 89 (97)
Q Consensus 10 ~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~ 89 (97)
..|+++|+++++++|+|+|+||++|+|+|.|||+||||+|+||.|+... ...+.+|.++|||++|++
T Consensus 3 ~~P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------------~~~~~lg~v~iRG~~I~~ 69 (75)
T 4emk_B 3 SSPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVNG-------------KKTNVYGDAFIRGNNVLY 69 (75)
T ss_dssp SHHHHHHHHTTTSEEEEECTTSCEEEEEEEEECTTCEEEEEEEEEEETT-------------EEEEEEEEEEEEGGGSSE
T ss_pred CchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCcceEEEccEEEEecC-------------CcccEecEEEEcCCeEEE
Confidence 5799999999999999999999999999999999999999999998631 346789999999999999
Q ss_pred EecCCC
Q 034340 90 VSPPLR 95 (97)
Q Consensus 90 I~~~~~ 95 (97)
|++.+|
T Consensus 70 i~~~~~ 75 (75)
T 4emk_B 70 VSALDD 75 (75)
T ss_dssp EEEC--
T ss_pred EEecCC
Confidence 998764
No 12
>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=99.92 E-value=5.3e-25 Score=135.59 Aligned_cols=72 Identities=36% Similarity=0.677 Sum_probs=65.9
Q ss_pred CCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEE
Q 034340 10 KEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVIL 89 (97)
Q Consensus 10 ~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~ 89 (97)
..|+++|+++++++|+|+|+||+.|.|+|.|||+||||+|+||.|++.. ...+.+|.++|||++|++
T Consensus 8 ~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------------~~~~~lg~v~iRG~~I~~ 74 (81)
T 1th7_A 8 ETAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSD-------------GSGKKLGTIVIRGDNVIL 74 (81)
T ss_dssp HHHHHHHHHHTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEECSS-------------SCEEEEEEEEECGGGEEE
T ss_pred cchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCCCCEEEccEEEEecC-------------CceeECCEEEECCCEEEE
Confidence 4799999999999999999999999999999999999999999998742 246889999999999999
Q ss_pred EecCC
Q 034340 90 VSPPL 94 (97)
Q Consensus 90 I~~~~ 94 (97)
|.+++
T Consensus 75 i~~~~ 79 (81)
T 1th7_A 75 ISPLQ 79 (81)
T ss_dssp EEEC-
T ss_pred EEecC
Confidence 99875
No 13
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1
Probab=99.92 E-value=1.1e-24 Score=132.61 Aligned_cols=74 Identities=12% Similarity=0.254 Sum_probs=65.9
Q ss_pred ccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcE
Q 034340 8 AVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGV 87 (97)
Q Consensus 8 ~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~I 87 (97)
....|+++|+.++|++|+|+|++|++|+|+|.|||.|||++|+||+|+... ...+.+|.++|||++|
T Consensus 2 ~~~~P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~e~~~~-------------~~~~~lg~v~IRG~nI 68 (75)
T 1d3b_A 2 SIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRD-------------GRVAQLEQVYIRGCKI 68 (75)
T ss_dssp --CCHHHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTT-------------SCEEEEEEEEECGGGE
T ss_pred CccCHHHHHHHhCCCEEEEEECCCcEEEEEEEEEccceeEEEEeEEEECCC-------------CcEEEcCeEEEeCCEE
Confidence 356899999999999999999999999999999999999999999998521 1367899999999999
Q ss_pred EEEecCC
Q 034340 88 ILVSPPL 94 (97)
Q Consensus 88 v~I~~~~ 94 (97)
.+|..|+
T Consensus 69 ~~i~lPd 75 (75)
T 1d3b_A 69 RFLILPD 75 (75)
T ss_dssp EEEEECC
T ss_pred EEEEcCC
Confidence 9999875
No 14
>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=99.92 E-value=3.4e-25 Score=139.80 Aligned_cols=79 Identities=20% Similarity=0.470 Sum_probs=66.9
Q ss_pred ccccccCCcHHHHHHhCCCeEEEEE----cCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCe
Q 034340 4 EEESAVKEPLDLIRLSLDERIYVKL----RSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPF 79 (97)
Q Consensus 4 ~~~~~~~~P~~lL~~~l~k~V~V~l----~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~ 79 (97)
+-++-+..|+++|.++++++|+|++ ++||+|+|+|.|||+||||+|+||+|++... ...+.+|.
T Consensus 9 ~~~~~m~~Pl~lL~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~------------~~~~~lg~ 76 (92)
T 3s6n_E 9 KVQKVMVQPINLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHSKT------------KSRKQLGR 76 (92)
T ss_dssp -----CCCHHHHHHHHHHHTCEEEEEESSSCSSEEEEEEEEECTTCCEEEEEEEEECSSS------------CCEEEEEE
T ss_pred ccceeccCCHHHHHHHhCCCEEEEEEEEecCCEEEEEEEEEEcCcCcEEEeeeEEEecCC------------CceeEcCe
Confidence 3456688999999999999999998 9999999999999999999999999986421 24688999
Q ss_pred EEEcCCcEEEEecCC
Q 034340 80 LFVRGDGVILVSPPL 94 (97)
Q Consensus 80 v~IRG~~Iv~I~~~~ 94 (97)
++|||+||++|++.+
T Consensus 77 v~iRG~nV~~i~~~~ 91 (92)
T 3s6n_E 77 IMLKGDNITLLQSVS 91 (92)
T ss_dssp EEECGGGEEEEEEC-
T ss_pred EEEeCCEEEEEEeCC
Confidence 999999999999875
No 15
>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=99.91 E-value=1.4e-24 Score=132.39 Aligned_cols=72 Identities=19% Similarity=0.481 Sum_probs=52.7
Q ss_pred CcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEEE
Q 034340 11 EPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVILV 90 (97)
Q Consensus 11 ~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~I 90 (97)
.|..+|++++|++|+|+|+|||.|+|+|.|||+||||+|+||.|++.. ...+.+|.++|||++|++|
T Consensus 4 ~~~~~L~~~~~k~V~V~Lk~gr~~~G~L~~~D~~mNlvL~~~~e~~~~-------------~~~~~lg~v~iRG~~I~~i 70 (76)
T 3s6n_G 4 AHPPELKKFMDKKLSLKLNGGRHVQGILRGFDPFMNLVIDECVEMATS-------------GQQNNIGMVVIRGNSIIML 70 (76)
T ss_dssp ----------CCEEEEEETTTEEEEEEEEEECTTCCEEEEEEEECCCC-----------------CBSSEEECSSSEEEE
T ss_pred cchHHHHHhCCCeEEEEECCCcEEEEEEEEECCcceEEEeceEEEccC-------------CcEeEcCEEEECCCeEEEE
Confidence 367899999999999999999999999999999999999999998642 2357899999999999999
Q ss_pred ecCCC
Q 034340 91 SPPLR 95 (97)
Q Consensus 91 ~~~~~ 95 (97)
++.++
T Consensus 71 ~~~d~ 75 (76)
T 3s6n_G 71 EALER 75 (76)
T ss_dssp EC---
T ss_pred EeccC
Confidence 98875
No 16
>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=99.91 E-value=1.6e-24 Score=135.80 Aligned_cols=80 Identities=21% Similarity=0.412 Sum_probs=64.9
Q ss_pred CcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEEE
Q 034340 11 EPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVILV 90 (97)
Q Consensus 11 ~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~I 90 (97)
+|...|.++++++|+|+|+|||.|.|+|.|||+||||+|+||.|++...+.++ +.......+.+|.++|||++|++|
T Consensus 4 ~~~~~L~~~~~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~---~~~~~~~~~~lg~v~iRG~~I~~i 80 (91)
T 1d3b_B 4 GKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNS---KQAEREEKRVLGLVLLRGENLVSM 80 (91)
T ss_dssp ---CCCGGGTTSEEEEEETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSST---TSCCEEEEEEEEEEEECGGGEEEE
T ss_pred ChhHHHHHHcCCcEEEEECCCeEEEEEEEEECCCCeEEecCEEEEeecccccc---ccccCccEeECCEEEECCCeEEEE
Confidence 57788999999999999999999999999999999999999999875432211 011135678999999999999999
Q ss_pred ecC
Q 034340 91 SPP 93 (97)
Q Consensus 91 ~~~ 93 (97)
+++
T Consensus 81 ~~~ 83 (91)
T 1d3b_B 81 TVE 83 (91)
T ss_dssp EEE
T ss_pred EcC
Confidence 876
No 17
>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=99.91 E-value=1.3e-24 Score=142.92 Aligned_cols=90 Identities=27% Similarity=0.487 Sum_probs=69.1
Q ss_pred ccccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcch--hheeeceeeEecCeEEEc
Q 034340 6 ESAVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDET--YEEIVRTTRRTVPFLFVR 83 (97)
Q Consensus 6 ~~~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~--~~~~~~~~~r~lg~v~IR 83 (97)
+.....|+++|.++++++|+|+|+|||.|+|+|.|||+||||+|+||.|++.....++.. .........+.+|++|||
T Consensus 23 ~~~~~~Pl~lL~~~l~k~V~V~Lk~Gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IR 102 (121)
T 2fwk_A 23 GGNIILPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLS 102 (121)
T ss_dssp -CCCCCHHHHHHHTBTSBCEEEETTTEEECCEEEEECTTCCEEEESCCEEEC---------------CEECCCCSEEEEC
T ss_pred cccccCcHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeceEEEEEeccccccccccCcccccccceEcceEEEC
Confidence 335679999999999999999999999999999999999999999999998542111000 000011237899999999
Q ss_pred CCcEEEEecCCC
Q 034340 84 GDGVILVSPPLR 95 (97)
Q Consensus 84 G~~Iv~I~~~~~ 95 (97)
|++|++|.+.+.
T Consensus 103 G~nVv~I~~~~~ 114 (121)
T 2fwk_A 103 GNNVAMLVPGGD 114 (121)
T ss_dssp GGGEEEEESSSC
T ss_pred CCEEEEEEecCC
Confidence 999999998754
No 18
>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=99.91 E-value=3.1e-24 Score=135.63 Aligned_cols=74 Identities=26% Similarity=0.403 Sum_probs=61.0
Q ss_pred ccCCcHHHHHHhCCCeEEEEEcCC-eEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCc
Q 034340 8 AVKEPLDLIRLSLDERIYVKLRSD-RELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDG 86 (97)
Q Consensus 8 ~~~~P~~lL~~~l~k~V~V~l~~g-r~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~ 86 (97)
....|+.+|..+++++|+|+|++| ++|+|+|.|||+||||+|+||.|++.. ...+.+|.++|||++
T Consensus 18 ~~~~P~~~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D~~MNlvL~d~~E~~~~-------------~~~~~lg~v~IRG~n 84 (93)
T 1n9r_A 18 QPVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAG-------------VSHGTLGEIFIRCNN 84 (93)
T ss_dssp --------CGGGTTSEEEEEESSTTEEEEEEEEECCTTTCEEEEEEEEEETT-------------EEEEECCSEEECGGG
T ss_pred ccCChHHHHHHhCCCEEEEEEcCCCEEEEEEEEEEccccEEEEeeEEEEcCC-------------CeEeEcCEEEEcCCe
Confidence 346899999999999999999999 999999999999999999999998631 346789999999999
Q ss_pred EEEEecCC
Q 034340 87 VILVSPPL 94 (97)
Q Consensus 87 Iv~I~~~~ 94 (97)
|++|.+++
T Consensus 85 I~~I~~~~ 92 (93)
T 1n9r_A 85 VLYIRELP 92 (93)
T ss_dssp EEEEEECC
T ss_pred EEEEEeCC
Confidence 99999876
No 19
>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=99.90 E-value=6.3e-24 Score=138.40 Aligned_cols=84 Identities=30% Similarity=0.450 Sum_probs=57.4
Q ss_pred ccccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCC
Q 034340 6 ESAVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGD 85 (97)
Q Consensus 6 ~~~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~ 85 (97)
++.+..|+..|.++++++|+|+|+|||.|.|+|.|||+||||+|+||.|++.... + . ......+.+|.++|||+
T Consensus 18 ~~~kke~i~~L~~~l~k~V~V~L~dGr~~~G~L~~fD~~mNLVL~d~~E~~~~~~--~--~--~~~~~~r~lG~v~IRG~ 91 (113)
T 4emk_C 18 ERPRKESILDLSRYQDQRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPE--D--G--KLTGAIRKLGLVVVRGT 91 (113)
T ss_dssp --------------CCSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEC---------------CCEEEEEEEEECTT
T ss_pred cCCccchHHHHHHHcCCcEEEEEeCCeEEEEEEEEEcCcccEEEeeEEEEEcCCC--C--c--ccccceeEccEEEECCC
Confidence 3444678888899999999999999999999999999999999999999976421 0 0 11246789999999999
Q ss_pred cEEEEecCCC
Q 034340 86 GVILVSPPLR 95 (97)
Q Consensus 86 ~Iv~I~~~~~ 95 (97)
||++|++++-
T Consensus 92 nIv~I~~~d~ 101 (113)
T 4emk_C 92 TLVLIAPMDG 101 (113)
T ss_dssp TEEEEEECC-
T ss_pred eEEEEEecCc
Confidence 9999998753
No 20
>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=99.90 E-value=1.4e-23 Score=135.20 Aligned_cols=74 Identities=20% Similarity=0.347 Sum_probs=54.5
Q ss_pred cCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEE
Q 034340 9 VKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVI 88 (97)
Q Consensus 9 ~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv 88 (97)
...|+.+|+.+++++|+|+|++|++|+|+|.|||+||||+|+||+|++.. + ...+.+|.++|||++|+
T Consensus 14 ~~~p~~lL~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~e~~~d----g--------~~~~~lg~v~IRG~nI~ 81 (105)
T 4emh_A 14 PMLPLTLLNATQGRPILVELKNGETFNGHLENCDNYMNLTLREVIRTMPD----G--------DKFFRLPECYIRGNNIK 81 (105)
T ss_dssp ------------CCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTT----S--------CEEEEEEEEEECGGGEE
T ss_pred CCcHHHHHHHhCCCEEEEEECCCCEEEEEEEEEcCCceEEEEEEEEEccC----C--------ceeeEcCeEEEeCCeEE
Confidence 45799999999999999999999999999999999999999999998532 1 24678999999999999
Q ss_pred EEecCC
Q 034340 89 LVSPPL 94 (97)
Q Consensus 89 ~I~~~~ 94 (97)
+|.+++
T Consensus 82 ~I~~pd 87 (105)
T 4emh_A 82 YLRIQD 87 (105)
T ss_dssp EEEC--
T ss_pred EEecCH
Confidence 999885
No 21
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A
Probab=99.88 E-value=7.3e-23 Score=134.31 Aligned_cols=72 Identities=15% Similarity=0.258 Sum_probs=65.4
Q ss_pred CcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEEE
Q 034340 11 EPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVILV 90 (97)
Q Consensus 11 ~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~I 90 (97)
.|+.+|+++++++|+|+|++|++|.|+|.+||+||||+|+||+|+... ...+.+|.+||||+||++|
T Consensus 2 ~p~~~L~~~~gk~V~V~Lk~g~~~~G~L~~~D~~MNlvL~d~~e~~~~-------------~~~~~lg~v~IRG~nI~~I 68 (119)
T 1b34_A 2 KLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKN-------------REPVQLETLSIRGNNIRYF 68 (119)
T ss_dssp CHHHHHHTCTTCEEEEEETTCCEEEEEEEEECTTCCEEEEEEEEECTT-------------SCCEEEEEEEECGGGEEEE
T ss_pred ChHHHHHHhCCCEEEEEEcCCCEEEEEEEEEcccceEEeccEEEecCC-------------CceeEcceEEEcCCeEEEE
Confidence 599999999999999999999999999999999999999999998521 2357899999999999999
Q ss_pred ecCCC
Q 034340 91 SPPLR 95 (97)
Q Consensus 91 ~~~~~ 95 (97)
.+++.
T Consensus 69 ~~pd~ 73 (119)
T 1b34_A 69 ILPDS 73 (119)
T ss_dssp ECCTT
T ss_pred Eeccc
Confidence 99864
No 22
>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=99.88 E-value=1.5e-22 Score=145.13 Aligned_cols=81 Identities=21% Similarity=0.400 Sum_probs=67.6
Q ss_pred CCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEE
Q 034340 10 KEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVIL 89 (97)
Q Consensus 10 ~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~ 89 (97)
.++...|.++++++|+|+|+|||+|+|+|+|||+||||+|+||+|++...++++ ++......+++|++||||+||++
T Consensus 3 v~k~~kL~klIdKrV~V~LkdGRel~GtLkgFDq~MNLVL~Da~E~~~ik~k~~---k~~~~~~~R~LGlV~IRGdnIV~ 79 (231)
T 3pgw_B 3 VGKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNS---KQAEREEKRVLGLVLLRGENLVS 79 (231)
T ss_pred cCchHHHHHhcCCeEEEEECCCcEEEEEEEEEcccccEEecCEEEEEeccCccc---ccccccceeEeceEEECCCcEEE
Confidence 467788999999999999999999999999999999999999999975332221 11223578999999999999999
Q ss_pred EecC
Q 034340 90 VSPP 93 (97)
Q Consensus 90 I~~~ 93 (97)
|+..
T Consensus 80 Isve 83 (231)
T 3pgw_B 80 MTVE 83 (231)
T ss_pred EEec
Confidence 9865
No 23
>2y9a_D Small nuclear ribonucleoprotein SM D3; splicing-RNA complex, PRE-mRNA splicing, spliceosome, snRNP biogenesis, SM site, SM fold, heteromeric heptameric ring; 3.60A {Homo sapiens} PDB: 2y9b_D 2y9c_D 2y9d_D 3pgw_Z* 3cw1_D
Probab=99.87 E-value=2.8e-22 Score=132.81 Aligned_cols=75 Identities=12% Similarity=0.260 Sum_probs=66.0
Q ss_pred ccCCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcE
Q 034340 8 AVKEPLDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGV 87 (97)
Q Consensus 8 ~~~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~I 87 (97)
....|+++|+.+++++|+|+|++|++|+|+|.+||.||||+|+||+|+... .....++.+||||++|
T Consensus 2 ~~~~P~~~L~~~~gk~V~VeLknG~~~~G~L~~~D~~MNi~L~dv~e~~~~-------------g~~~~l~~v~IRGnnI 68 (126)
T 2y9a_D 2 SIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRD-------------GRVAQLEQVYIRGSKI 68 (126)
T ss_dssp --CCSHHHHHSCSSCEEEEEESSCCEEEEEEEEECTTSCEEEEEEEEECTT-------------SCCEEEEEEEECGGGE
T ss_pred CcccHHHHHHHhCCCEEEEEECCCcEEEEEEEEEcCceEEEEeeEEEEcCC-------------CcEeecccEEEeCCEE
Confidence 356899999999999999999999999999999999999999999997421 1357899999999999
Q ss_pred EEEecCCC
Q 034340 88 ILVSPPLR 95 (97)
Q Consensus 88 v~I~~~~~ 95 (97)
.+|.+++.
T Consensus 69 ~~I~lpd~ 76 (126)
T 2y9a_D 69 RFLILPDM 76 (126)
T ss_dssp EEEECCSS
T ss_pred EEEEcccc
Confidence 99998863
No 24
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1
Probab=99.82 E-value=2.1e-20 Score=124.28 Aligned_cols=66 Identities=20% Similarity=0.309 Sum_probs=59.8
Q ss_pred HHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEEEec
Q 034340 13 LDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVILVSP 92 (97)
Q Consensus 13 ~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~I~~ 92 (97)
.++|+.++|++|+|+|++|+.|.|+|.|||+||||+|+||.|+. .+.+|.++|||+||++|.+
T Consensus 2 ~~~L~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~E~~-----------------~~~lg~v~IRG~nI~~I~~ 64 (130)
T 1m5q_A 2 VAELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKA-----------------GEKFNRVFIMYRYIVHIDS 64 (130)
T ss_dssp HHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEECTT-----------------CCEEEEEEECGGGEEEEEE
T ss_pred hhHHHHhCCCeEEEEECCCcEEEEEEEEEcccceeEEeeEEEEc-----------------CCEeceEEEeCCeEEEEEc
Confidence 46899999999999999999999999999999999999999861 2568999999999999998
Q ss_pred CCC
Q 034340 93 PLR 95 (97)
Q Consensus 93 ~~~ 95 (97)
++.
T Consensus 65 ~d~ 67 (130)
T 1m5q_A 65 TER 67 (130)
T ss_dssp CCC
T ss_pred CCc
Confidence 753
No 25
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=98.85 E-value=6.6e-09 Score=64.36 Aligned_cols=64 Identities=22% Similarity=0.266 Sum_probs=52.4
Q ss_pred CCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEEC-CccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEE
Q 034340 10 KEPLDLIRLSLDERIYVKLRSDRELRGKLHAYD-QHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVI 88 (97)
Q Consensus 10 ~~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD-~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv 88 (97)
.+|.. |..++||.|.|+|.||++|+|.|.+|| ...|++|.|+.+ + .....++|.|..|.
T Consensus 7 ~~p~e-l~~li~KeV~V~l~dg~~y~G~l~tvDp~s~sIvL~n~~~--------~-----------~~~~~~iI~G~aI~ 66 (86)
T 1y96_A 7 KGPLE-WQDYIYKEVRVTASEKNEYKGWVLTTDPVSANIVLVNFLE--------D-----------GSMSVTGIMGHAVQ 66 (86)
T ss_dssp SCHHH-HHHTTTCEEEEEETTTEEEEEEEEEECTTTCCEEEEEECT--------T-----------SCEEEEEECGGGEE
T ss_pred CCHHH-HHhhcCCEEEEEEcCCCEEEEEEEEECCCceEEEEeeccc--------C-----------CeEEEEEEecceEE
Confidence 56775 555699999999999999999999999 889999999811 1 11358899999999
Q ss_pred EEecC
Q 034340 89 LVSPP 93 (97)
Q Consensus 89 ~I~~~ 93 (97)
.|...
T Consensus 67 eI~v~ 71 (86)
T 1y96_A 67 TVETM 71 (86)
T ss_dssp EEEEE
T ss_pred EEEEe
Confidence 88654
No 26
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=97.04 E-value=0.0011 Score=39.42 Aligned_cols=32 Identities=13% Similarity=0.125 Sum_probs=27.6
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEec
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGD 51 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d 51 (97)
-+.+|+|.|.+|-.++|.+.+||+|+=++-.+
T Consensus 24 ~~~~Vtv~L~NG~~l~G~I~~fD~ftVll~~~ 55 (71)
T 2qtx_A 24 NGKKVKIFLRNGEVLDAEVTGVSNYEIMVKVG 55 (71)
T ss_dssp TTCEEEEEETTSCEEEEEEEEECSSEEEEEET
T ss_pred cCCcEEEEEeCCeEEEEEEEEEcceEEEEEeC
Confidence 45799999999999999999999998666444
No 27
>1u1s_A HFQ protein; SM-like bacterial protein, riken structural genomics/proteomics initiative, RSGI, structural genomics, RNA binding protein; 1.60A {Pseudomonas aeruginosa} SCOP: b.38.1.2 PDB: 1u1t_A 3qui_A* 3m4g_A 3inz_A
Probab=96.92 E-value=0.0019 Score=39.32 Aligned_cols=30 Identities=17% Similarity=0.345 Sum_probs=26.5
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEE
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMIL 49 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL 49 (97)
-..+|+|.|.+|-.++|.+.+||+|+=|+-
T Consensus 18 ~~~~Vtv~L~NG~~l~G~I~~fD~ftVlL~ 47 (82)
T 1u1s_A 18 ERVPVSIYLVNGIKLQGQIESFDQFVILLK 47 (82)
T ss_dssp TTCCEEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred cCCcEEEEEeCCcEEEEEEEEEcceEEEEe
Confidence 367999999999999999999999985554
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=96.87 E-value=0.0018 Score=38.76 Aligned_cols=36 Identities=14% Similarity=0.303 Sum_probs=29.5
Q ss_pred HHHHHhC--CCeEEEEEcCCeEEEEEEEEECCccCeEE
Q 034340 14 DLIRLSL--DERIYVKLRSDRELRGKLHAYDQHLNMIL 49 (97)
Q Consensus 14 ~lL~~~l--~k~V~V~l~~gr~i~G~L~~fD~~mNlvL 49 (97)
.+|+.+. ..+|.|.|.+|..++|.+.+||+|+=++-
T Consensus 12 ~~L~~lrk~k~~Vti~L~nG~~l~G~I~~fD~f~vlL~ 49 (74)
T 2ylb_A 12 PFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK 49 (74)
T ss_dssp HHHHHHHHHTCCEEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred HHHHHHHhcCCcEEEEEeCCCEEEEEEEEECCcEEEEE
Confidence 4555554 57999999999999999999999985553
No 29
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=96.81 E-value=0.0014 Score=39.65 Aligned_cols=29 Identities=17% Similarity=0.350 Sum_probs=25.8
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeE
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMI 48 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlv 48 (97)
-..+|.|.|.+|-.++|.+.+||+|+=++
T Consensus 19 ~k~~VtI~LvnG~~L~G~I~~fD~f~VlL 47 (79)
T 3sb2_A 19 EHVPVSIYLVNGIKLQGHVESFDQYVVLL 47 (79)
T ss_dssp TTCCEEEEETTSCEEEEEEEEECSSEEEE
T ss_pred cCCeEEEEEeCCCEEEEEEEEECCcEEEE
Confidence 35689999999999999999999998554
No 30
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=96.73 E-value=0.0035 Score=37.83 Aligned_cols=31 Identities=19% Similarity=0.382 Sum_probs=27.2
Q ss_pred CCeEEEEEcCCeEEEEEEEEECCccCeEEec
Q 034340 21 DERIYVKLRSDRELRGKLHAYDQHLNMILGD 51 (97)
Q Consensus 21 ~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d 51 (97)
..+|+|.|.+|..++|.+.+||+|+=++-.+
T Consensus 23 ~~~Vtv~L~nG~~l~G~I~~fD~f~VlL~~~ 53 (78)
T 3ahu_A 23 NTYVTVFLLNGFQLRGQVKGFDNFTVLLESE 53 (78)
T ss_dssp TCCEEEEETTSCEEEEEEEEECSSEEEEESS
T ss_pred CCcEEEEEeCCeEEEEEEEEEcceEEEEEEC
Confidence 6799999999999999999999998666433
No 31
>1kq1_A HFQ, HOST factor for Q beta; hexamer, RNA binding protein, translational regulator, SM motif; 1.55A {Staphylococcus aureus} SCOP: b.38.1.2 PDB: 1kq2_A
Probab=96.68 E-value=0.0049 Score=37.07 Aligned_cols=37 Identities=11% Similarity=0.187 Sum_probs=30.0
Q ss_pred HHHHhC--CCeEEEEEcCCeEEEEEEEEECCccCeEEec
Q 034340 15 LIRLSL--DERIYVKLRSDRELRGKLHAYDQHLNMILGD 51 (97)
Q Consensus 15 lL~~~l--~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d 51 (97)
+|+.+. ..+|.|.|.+|-.++|.+.+||+|+=++-.+
T Consensus 11 fLn~lrk~k~~VtI~L~nG~~l~G~I~~fD~f~VlL~~~ 49 (77)
T 1kq1_A 11 ALENFKANQTEVTVFFLNGFQMKGVIEEYDKYVVSLNSQ 49 (77)
T ss_dssp HHHHHHHHTCEEEEEETTSCEEEEEEEEECSSEEEEEET
T ss_pred HHHHHHhcCCeEEEEEeCCCEEEEEEEEECCcEEEEEEC
Confidence 445544 5799999999999999999999998666443
No 32
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=96.31 E-value=0.008 Score=38.08 Aligned_cols=37 Identities=14% Similarity=0.299 Sum_probs=29.3
Q ss_pred HHHHHhC--CCeEEEEEcCCeEEEEEEEEECCccCeEEe
Q 034340 14 DLIRLSL--DERIYVKLRSDRELRGKLHAYDQHLNMILG 50 (97)
Q Consensus 14 ~lL~~~l--~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~ 50 (97)
.+|+.+. ..+|.|.|.+|-.++|.+.+||+|+=|+-.
T Consensus 12 ~fLn~lrk~k~~VtI~LvNG~~L~G~I~~fD~f~VlL~~ 50 (104)
T 2y90_A 12 PFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN 50 (104)
T ss_dssp HHHHHHHHTTCCEEEEETTSCEEEEEEEEECSSEEEEES
T ss_pred HHHHHHHhcCCcEEEEEeCCCEEEEEEEEECCcEEEEEC
Confidence 3444443 459999999999999999999999865543
No 33
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=96.29 E-value=0.021 Score=34.83 Aligned_cols=65 Identities=11% Similarity=0.107 Sum_probs=50.2
Q ss_pred CcHHHHHHhCCCeEEEEEcCCeEEEEEEEEEC-CccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEE
Q 034340 11 EPLDLIRLSLDERIYVKLRSDRELRGKLHAYD-QHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVIL 89 (97)
Q Consensus 11 ~P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD-~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~ 89 (97)
.-+.+|..+.|++|.+.+.++-++.|++.|+| ...|+..++-. + | --.++..++|+..|++
T Consensus 19 RfLr~l~~m~~~~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~-T----P-------------iGv~~eAlLR~~Dii~ 80 (85)
T 1y96_B 19 RYLRSLLAMVGHQVSFTLHEGVRVAAHFGATDLDVANFYVSQLQ-T----P-------------IGVQAEALLRCSDIIS 80 (85)
T ss_dssp HHHHHHHHHTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEC-C----T-------------TCCEEEEEEEGGGEEE
T ss_pred HHHHHHHHhCCCceEEEEeCCeEEEEEEEecCcccceeEhhhcC-C----C-------------cccchhhhhhcCCEEE
Confidence 34667777789999999999999999999999 45788766532 1 0 1225688999999999
Q ss_pred EecC
Q 034340 90 VSPP 93 (97)
Q Consensus 90 I~~~ 93 (97)
++..
T Consensus 81 ~sF~ 84 (85)
T 1y96_B 81 YTFK 84 (85)
T ss_dssp EEEC
T ss_pred EEec
Confidence 8753
No 34
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=96.23 E-value=0.035 Score=34.07 Aligned_cols=72 Identities=17% Similarity=0.219 Sum_probs=51.4
Q ss_pred HhCCCeEEEEEcCCeEEEEEEEEECC-ccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEEEecC
Q 034340 18 LSLDERIYVKLRSDRELRGKLHAYDQ-HLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVILVSPP 93 (97)
Q Consensus 18 ~~l~k~V~V~l~~gr~i~G~L~~fD~-~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~I~~~ 93 (97)
.|+|+++.+..+.+-.|+|+|...|. ..-+.|.|+.-+-+..... ..+.+ .....+..++.||+.|--+...
T Consensus 10 ~yIGs~iSLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~---~~~ip-p~~~vy~yIvFrgsDIKdL~V~ 82 (88)
T 2vxe_A 10 PELGSKISLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDT---QFQIA-PQSQIYDYILFRGSDIKDIRVV 82 (88)
T ss_dssp CCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCC---SSCCC-CCCSCEEEEEEETTTEEEEEEC
T ss_pred cccCCeEEEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCC---CcccC-CCCceeeEEEEccCCccEEEEe
Confidence 36899999999999999999999994 4688999988765432110 00001 1223357899999999877654
No 35
>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A
Probab=95.63 E-value=0.029 Score=34.90 Aligned_cols=77 Identities=14% Similarity=0.163 Sum_probs=51.4
Q ss_pred cHHHHHHhCCCeEEEEEcCCeEEEEEEEEEC-CccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEEE
Q 034340 12 PLDLIRLSLDERIYVKLRSDRELRGKLHAYD-QHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVILV 90 (97)
Q Consensus 12 P~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD-~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~I 90 (97)
|..--..|+|+++.+..+.+-.|+|+|..+| +..-+.|.||.-+-+.....+ ..--.....+..++.||+.|--+
T Consensus 10 ~~~~~~~~IGs~ISLISk~dIRYeGiL~~In~~~sTiaL~nVRsfGTEgR~~~----~~ipp~~~vyeyIvFrGsDIKDL 85 (95)
T 2fb7_A 10 DPSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTD----RPIAPRDETFEYIIFRGSDIKDL 85 (95)
T ss_dssp ------CCSSEEEEEEETTTEEEEEEEEEEETTTTEEEEESCCCCSCCSSSCS----SCCCSCCCCSSCEEECSTTEEEE
T ss_pred CCCccCcccCCeEEEEECCCceEEEEEecccCccCEEEEEeeeEecccCCCCC----CccCCCCcceeEEEEcCCCcceE
Confidence 3444566799999999999999999999999 456788999876544321110 00011233467899999999876
Q ss_pred ec
Q 034340 91 SP 92 (97)
Q Consensus 91 ~~ 92 (97)
..
T Consensus 86 ~V 87 (95)
T 2fb7_A 86 TV 87 (95)
T ss_dssp EE
T ss_pred EE
Confidence 54
No 36
>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=95.53 E-value=0.094 Score=30.42 Aligned_cols=43 Identities=21% Similarity=0.474 Sum_probs=33.4
Q ss_pred HHHHHHhCCCeEEEEEcCCeEEEEEEEEECCccCeEEeceEEEE
Q 034340 13 LDLIRLSLDERIYVKLRSDRELRGKLHAYDQHLNMILGDVEEVV 56 (97)
Q Consensus 13 ~~lL~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~e~~ 56 (97)
-..|..+.|++|-+.......|+|+|.-||.-. +.|.|++.+.
T Consensus 8 dktL~~WKg~rvAv~vg~ehSFtGiledFDeEv-iLL~dV~D~~ 50 (71)
T 1ycy_A 8 EKVLKEWKGHKVAVSVGGDHSFTGTLEDFDEEV-ILLKDVVDVI 50 (71)
T ss_dssp HHHHHHHTTSEEEEEEC----CEEEEEEECSSE-EEEEEEEETT
T ss_pred HHHHHHhCCcEEEEEecCcceeeeehhhcCcce-eehhhHHHHh
Confidence 356888999999999999999999999999864 6788888764
No 37
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=95.42 E-value=0.027 Score=36.60 Aligned_cols=37 Identities=24% Similarity=0.302 Sum_probs=31.2
Q ss_pred HHhCCCeEEEEEcCCeEEEEEEEEECCccCeEE--eceEE
Q 034340 17 RLSLDERIYVKLRSDRELRGKLHAYDQHLNMIL--GDVEE 54 (97)
Q Consensus 17 ~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL--~d~~e 54 (97)
..++|..|.|+|+||..++|++..+|. -+|+| ++|..
T Consensus 8 sqFlGy~V~v~LkDgs~~qG~I~~vd~-k~LtL~~~~a~~ 46 (125)
T 4a53_A 8 ADFYGSNVEVLLNNDSKARGVITNFDS-SNSILQLRLAND 46 (125)
T ss_dssp HHHTTCEEEEEETTSCEEEEEEEEEET-TTTEEEEEETTT
T ss_pred HHhcCceEEEEECCCCEeeEEEEeecC-CeeEEecccccc
Confidence 467999999999999999999999984 46666 88743
No 38
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=94.61 E-value=0.07 Score=31.42 Aligned_cols=40 Identities=18% Similarity=0.225 Sum_probs=33.0
Q ss_pred CCc-HHHHHHhCC--CeEEEEEcCCeEEEEEEEEECCccCeEE
Q 034340 10 KEP-LDLIRLSLD--ERIYVKLRSDRELRGKLHAYDQHLNMIL 49 (97)
Q Consensus 10 ~~P-~~lL~~~l~--k~V~V~l~~gr~i~G~L~~fD~~mNlvL 49 (97)
..| ...|+.++. ..|.|.|.+|..++|.+.-+|.|+=++-
T Consensus 7 ~lPsvR~lQ~~ik~k~~V~I~L~tG~~l~G~i~WQD~~cl~L~ 49 (70)
T 3hfo_A 7 GLPSVRQVQLLIKDQTPVEIKLLTGDSLFGTIRWQDTDGLGLV 49 (70)
T ss_dssp SCHHHHHHHHHHHHTCEEEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred CCCcHHHHHHHHhhCceEEEEecCCCEEEEEEEEeCCCEEEEE
Confidence 456 677888774 6999999999999999999999875543
No 39
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=94.16 E-value=0.37 Score=28.40 Aligned_cols=39 Identities=15% Similarity=0.226 Sum_probs=32.4
Q ss_pred Cc-HHHHHHhCC--CeEEEEEcCCeEEEEEEEEECCccCeEE
Q 034340 11 EP-LDLIRLSLD--ERIYVKLRSDRELRGKLHAYDQHLNMIL 49 (97)
Q Consensus 11 ~P-~~lL~~~l~--k~V~V~l~~gr~i~G~L~~fD~~mNlvL 49 (97)
.| ...|+.++. ..|.|.|.+|..++|.+.-+|.++=++.
T Consensus 10 lPsvR~lQ~~Ik~k~~V~I~L~tGd~l~G~i~WQD~~cl~L~ 51 (72)
T 3hfn_A 10 LPSIRQLQNLIKQAAPVEIKLVTGDAITGRVLWQDPTCVCIA 51 (72)
T ss_dssp HHHHHHHHHHHSSCCEEEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred CCcHHHHHHHHhhCceEEEEecCCCEEEEEEEEECCCEEEEE
Confidence 45 677888875 6999999999999999999999874443
No 40
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=92.76 E-value=0.17 Score=30.69 Aligned_cols=38 Identities=16% Similarity=0.079 Sum_probs=33.8
Q ss_pred HHHhCCCeEEEEEcCCe-EEEEEEEEECCc-cCeEEeceE
Q 034340 16 IRLSLDERIYVKLRSDR-ELRGKLHAYDQH-LNMILGDVE 53 (97)
Q Consensus 16 L~~~l~k~V~V~l~~gr-~i~G~L~~fD~~-mNlvL~d~~ 53 (97)
-..|+|+.|.+...+.- .|+|.|..+|.. -||.|.++.
T Consensus 4 a~~~iGs~VSi~c~d~lGvYQG~i~~vd~~~~tItL~~~f 43 (84)
T 2vc8_A 4 ATDWLGSIVSINCGDSLGVYQGRVSAVDQVSQTISLTRPF 43 (84)
T ss_dssp -CTTTTCEEEEECCTTTCEEEEEEEEEETTTTEEEEEEEE
T ss_pred cccccCCEEEEEECCCceEEEEEEEEeccCCCeEEEehhh
Confidence 35789999999999998 999999999976 689999994
No 41
>3rux_A BIRA bifunctional protein; biotin-protein ligase, ligase-ligase inhibitor complex; HET: BS5; 1.70A {Mycobacterium tuberculosis} PDB: 3l1a_A 3l2z_A 2cgh_A
Probab=91.43 E-value=0.31 Score=34.95 Aligned_cols=33 Identities=18% Similarity=0.269 Sum_probs=29.7
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
+|++|++.+.+|..+.|+..|+|....|+|...
T Consensus 223 ~g~~V~v~~~~~~~~~G~~~gId~~G~L~v~~~ 255 (270)
T 3rux_A 223 IGSRVRVELPGGQDVVGIARDIDDQGRLCLDVG 255 (270)
T ss_dssp TTSEEEEECTTSCEEEEEEEEECTTSCEEEEET
T ss_pred cCCEEEEEECCCeEEEEEEEEECCCCeEEEEEC
Confidence 479999998889999999999999999999754
No 42
>1ib8_A Conserved protein SP14.3; nucleic acid binding protein, ribosomal protein, essential gene, structural genomics; NMR {Streptococcus pneumoniae} SCOP: b.38.2.1 d.52.4.1
Probab=87.60 E-value=0.86 Score=30.44 Aligned_cols=31 Identities=19% Similarity=0.399 Sum_probs=24.6
Q ss_pred HhCCCeEEEEE----cCCeEEEEEEEEECCccCeEE
Q 034340 18 LSLDERIYVKL----RSDRELRGKLHAYDQHLNMIL 49 (97)
Q Consensus 18 ~~l~k~V~V~l----~~gr~i~G~L~~fD~~mNlvL 49 (97)
+++|+.|.|+| .+.+.|+|+|.++|.- .+.|
T Consensus 101 r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~-~v~l 135 (164)
T 1ib8_A 101 GAVGKYIHVGLYQAIDKQKVFEGTLLAFEED-ELTM 135 (164)
T ss_dssp HHCSEEEEEECSSCSSSCSEEEEEEEEEETT-EEEE
T ss_pred HhCCcEEEEEEecccCCceEEEEEEEEEeCC-EEEE
Confidence 44899999999 4559999999999864 3444
No 43
>2eay_A Biotin [acetyl-COA-carboxylase] ligase; biotin biosynthesis, dimer, X-RAY diffraction, structural genomics, NPPSFA; 1.95A {Aquifex aeolicus} PDB: 3efs_A* 3fjp_A 3efr_A*
Probab=85.12 E-value=0.79 Score=31.98 Aligned_cols=30 Identities=17% Similarity=0.223 Sum_probs=25.8
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEec
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGD 51 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d 51 (97)
+|++|++...++ +.|+..++|....|++.+
T Consensus 187 ~g~~V~v~~~~~--~~G~~~gId~~G~L~v~~ 216 (233)
T 2eay_A 187 LGEEVKLLGEGK--ITGKLVGLSEKGGALILT 216 (233)
T ss_dssp TTSEEEETTEEE--EEEEEEEECTTSCEEEEE
T ss_pred cCCEEEEEECCe--EEEEEEEECCCCeEEEEE
Confidence 578999876554 999999999999999975
No 44
>2e12_A SM-like motif, hypothetical protein XCC3642; novel SM-like motif, LSM motif, X- RAY crystallography, translation; 1.70A {Xanthomonas campestris PV}
Probab=84.29 E-value=2 Score=26.41 Aligned_cols=22 Identities=27% Similarity=0.443 Sum_probs=17.8
Q ss_pred HHhCC--CeEEEEEcCCeEEEEEE
Q 034340 17 RLSLD--ERIYVKLRSDRELRGKL 38 (97)
Q Consensus 17 ~~~l~--k~V~V~l~~gr~i~G~L 38 (97)
...++ .+|+++|.||+.+.|++
T Consensus 22 ~~~LdGq~~v~i~l~DGs~l~GTv 45 (101)
T 2e12_A 22 VKLLDGQERVRIELDDGSMIAGTV 45 (101)
T ss_dssp HHTSCTTCEEEEEETTSCEEEEEE
T ss_pred HHhhCCeeEEEEEEcCCCeEeeee
Confidence 33354 69999999999999974
No 45
>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=83.89 E-value=2.7 Score=30.40 Aligned_cols=32 Identities=16% Similarity=0.313 Sum_probs=27.4
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
+|++|++... +..+.|+..|+|....|++.+.
T Consensus 272 ~g~~V~v~~~-~~~~~G~~~gid~~G~L~v~~~ 303 (321)
T 1bia_A 272 INRPVKLIIG-DKEIFGISRGIDKQGALLLEQD 303 (321)
T ss_dssp TTSEEEEEET-TEEEEEEEEEECTTSCEEEEET
T ss_pred cCCEEEEEEC-CcEEEEEEEEECCCCeEEEEEC
Confidence 5799999865 5589999999999999999753
No 46
>2ej9_A Putative biotin ligase; biotin biosynthesis, monomer, X-RAY diffraction, structural genomics, NPPSFA; HET: BTN; 2.00A {Methanocaldococcus jannaschii}
Probab=81.19 E-value=2.5 Score=29.45 Aligned_cols=31 Identities=16% Similarity=0.319 Sum_probs=27.7
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEec
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGD 51 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d 51 (97)
+|++|++...++..+.|+..++|....|+ .+
T Consensus 191 ~g~~V~v~~~~~~~~~G~~~gId~~G~L~-~~ 221 (237)
T 2ej9_A 191 IGKQVKILLSNNEIITGKVYDIDFDGIVL-GT 221 (237)
T ss_dssp TTCEEEEEETTSCEEEEEEEEECSSEEEE-EE
T ss_pred cCCEEEEEECCCeEEEEEEEEECCCCeEE-Ec
Confidence 57999999888877999999999999998 64
No 47
>2xk0_A Polycomb protein PCL; transcription, aromatic CAGE; NMR {Drosophila melanogaster}
Probab=79.10 E-value=5.5 Score=23.13 Aligned_cols=42 Identities=19% Similarity=0.285 Sum_probs=31.3
Q ss_pred HHhCCCeEEEEEcCCeEEEEEEEEECCccCeE-EeceEEEEee
Q 034340 17 RLSLDERIYVKLRSDRELRGKLHAYDQHLNMI-LGDVEEVVTT 58 (97)
Q Consensus 17 ~~~l~k~V~V~l~~gr~i~G~L~~fD~~mNlv-L~d~~e~~~~ 58 (97)
...++.-|.++-+||+.|-|+++...+.-=|| ..|-.++|..
T Consensus 15 ~~~~geDVL~rw~DG~fYLGtIVd~~~~~ClV~FeD~S~~Wv~ 57 (69)
T 2xk0_A 15 TYALQEDVFIKCNDGRFYLGTIIDQTSDQYLIRFDDQSEQWCE 57 (69)
T ss_dssp CCCTTCEEEEECTTSCEEEEEEEEECSSCEEEEETTCCEEEEC
T ss_pred ccccCCeEEEEecCCCEEEEEEEecCCceEEEEecCCcceeee
Confidence 34467899999999999999997776554443 4676777654
No 48
>2dxu_A Biotin--[acetyl-COA-carboxylase] ligase; biotin biosynthesis, dimer, X-RAY diffraction, structural genomics, NPPSFA; HET: BT5; 1.28A {Pyrococcus horikoshii} PDB: 2dzc_A 2ejg_A* 2e3y_A* 2e41_A* 2e64_A 2ejf_A* 2zgw_A* 1wqw_A* 1wpy_A* 1wq7_A 1wnl_A* 1x01_A* 2dkg_A* 2dth_A* 2dti_A* 2dto_A* 2fyk_A* 2djz_A* 2hni_A 2e10_A ...
Probab=78.74 E-value=1.9 Score=30.05 Aligned_cols=30 Identities=17% Similarity=0.182 Sum_probs=23.9
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEec
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGD 51 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d 51 (97)
+|++|++...++ +.|+..++|....|++.+
T Consensus 188 ~g~~V~v~~~~~--~~G~~~gId~~G~L~v~~ 217 (235)
T 2dxu_A 188 LGVRVKILGDGS--FEGIAEDIDDFGRLIIRL 217 (235)
T ss_dssp CSSEEEC----C--CEEEEEEECTTSCEEEEC
T ss_pred cCCeEEEEECCe--EEEEEEEECCCCEEEEEE
Confidence 689999987776 999999999999999975
No 49
>3bfm_A Biotin protein ligase-like protein of unknown FUN; structural genomics, joint center for structural genomics, J protein structure initiative; HET: 2PE; 1.70A {Silicibacter SP}
Probab=74.57 E-value=5.2 Score=27.61 Aligned_cols=28 Identities=21% Similarity=0.321 Sum_probs=24.4
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
+|++|++ +| +.|+..|+|....|++...
T Consensus 193 ~g~~V~v---~~--~~G~~~gId~~G~L~v~~~ 220 (235)
T 3bfm_A 193 MGEARTE---AG--RSGTFLGVDEDFGMLLRDE 220 (235)
T ss_dssp TTSEEEE---TT--EEEEEEEECTTCCEEEECS
T ss_pred cCCEEEE---Ee--EEEEEEEECCCCeEEEEeC
Confidence 5799999 45 9999999999999999753
No 50
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=74.49 E-value=12 Score=23.25 Aligned_cols=60 Identities=3% Similarity=-0.035 Sum_probs=42.6
Q ss_pred HhCCCeEEEEEcCCe-EEEEEEEEECCccCeEEeceEEEEeecccCcchhheeeceeeEecCeEEEcCCcEEEEec
Q 034340 18 LSLDERIYVKLRSDR-ELRGKLHAYDQHLNMILGDVEEVVTTVEIDDETYEEIVRTTRRTVPFLFVRGDGVILVSP 92 (97)
Q Consensus 18 ~~l~k~V~V~l~~gr-~i~G~L~~fD~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~~Iv~I~~ 92 (97)
.|+|+-|.|...+-- .|+|.+..+|+ -+|.|.++...-. .-+.....+.++...|..+..
T Consensus 9 dwiG~~VSI~C~d~LGVyQG~I~~V~~-~~ItL~kaFrNGi--------------plk~~~~EVtLsa~DI~~L~I 69 (103)
T 2rm4_A 9 DWIGCAVSIACDEVLGVFQGLIKQISA-EEITIVRAFRNGV--------------PLRKQNAEVVLKCTDIRSIDL 69 (103)
T ss_dssp GGTTCEEEEEECTTTCEEEEEEEEEET-TEEEEEEEEETTE--------------ECSCSSSCEEEETTTEEEEEE
T ss_pred ceeceEEEEeeCCcceEeeEEEEEccc-ceeEEhhhhhcCc--------------CcCCCCceEEEEecchhheee
Confidence 689999999999986 99999999996 4499988764211 012334566677766665543
No 51
>3rkx_A Biotin-[acetyl-COA-carboxylase] ligase; biotin protein ligase, 3 domains, enzyme DNA binding, biotin coupling domains; 2.10A {Staphylococcus aureus} PDB: 3rir_A* 3rkw_A 3rky_A* 3v7c_A* 3v7s_A* 3v8j_A 3v7r_A 3v8k_A* 3v8l_A* 4dq2_A*
Probab=74.01 E-value=4.4 Score=29.55 Aligned_cols=31 Identities=16% Similarity=0.327 Sum_probs=26.0
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEec
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGD 51 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d 51 (97)
+|++|++... +..+.|+..|+|....|+|.+
T Consensus 278 ~g~~V~v~~~-~~~~~G~~~gId~~G~Llv~~ 308 (323)
T 3rkx_A 278 WNRTLLFTEN-DKQFKGQAIDLDYDGYLIVRD 308 (323)
T ss_dssp SSSCEEEECC--CEEEEEEEEECTTSCEEEEE
T ss_pred cCCEEEEEEC-CeEEEEEEEEECCCCEEEEEE
Confidence 4789999764 567999999999999999974
No 52
>4hcz_A PHD finger protein 1; protein-peptide complex, tudor, histone binding, H3K36ME3, N nucleus, transcription; HET: M3L; 1.85A {Homo sapiens}
Probab=65.66 E-value=9.9 Score=21.31 Aligned_cols=38 Identities=8% Similarity=0.100 Sum_probs=29.3
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCcc---CeEEeceEEEEe
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHL---NMILGDVEEVVT 57 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~m---NlvL~d~~e~~~ 57 (97)
.|.-|.+.-+||+.|-|++..+|+.- =+...|-.+.|.
T Consensus 6 ~GedVLarwsDG~fYlGtI~~V~~~~~~clV~F~D~s~~W~ 46 (58)
T 4hcz_A 6 EGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLV 46 (58)
T ss_dssp TTCEEEEECTTSCEEEEEEEEEETTTTEEEEEETTSCEEEE
T ss_pred cCCEEEEEecCCCEEeEEEEEEecCCCEEEEEEcCCCeEEE
Confidence 46789999999999999999998653 344466666664
No 53
>1ky9_A Protease DO, DEGP, HTRA; protein quality control, serine protease, trypsin, chaperone, PDZ, ATP-independent, temperature-regulated, periplasm; 2.80A {Escherichia coli} SCOP: b.36.1.4 b.47.1.1 PDB: 3ou0_A 4a8d_A 3otp_A 3mh7_A 3mh4_A 3mh5_A* 3mh6_A* 3cs0_A 2zle_A
Probab=56.58 E-value=16 Score=27.58 Aligned_cols=32 Identities=22% Similarity=0.332 Sum_probs=28.0
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEeceE
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDVE 53 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~ 53 (97)
..+.|.+.||+.+.+.+.++|...+|-|-...
T Consensus 111 ~~i~V~~~dg~~~~a~vv~~d~~~DlAvlkv~ 142 (448)
T 1ky9_A 111 TVIKVQLSDGRKFDAKMVGKDPRSDIALIQIQ 142 (448)
T ss_dssp EEEEEEETTSCEEEEEEEEEETTTTEEEEEES
T ss_pred CEEEEEECCCCEEEEEEEEEcCCCCEEEEEec
Confidence 47999999999999999999999998876543
No 54
>4a8c_A Periplasmic PH-dependent serine endoprotease DEGQ; chaperone, hydrolase; 7.50A {Escherichia coli} PDB: 4a8a_A 4a8b_A 4a9g_A
Probab=56.23 E-value=17 Score=27.23 Aligned_cols=31 Identities=26% Similarity=0.456 Sum_probs=27.8
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+.||+.+.+.+.++|...+|-|=..
T Consensus 88 ~~i~V~~~dg~~~~a~vv~~d~~~DlAllkv 118 (436)
T 4a8c_A 88 QKISIQLNDGREFDAKLIGSDDQSDIALLQI 118 (436)
T ss_pred CEEEEEeCCCCEEEEEEEEEcCCCCEEEEEe
Confidence 5899999999999999999999999887655
No 55
>2qqr_A JMJC domain-containing histone demethylation protein 3A; histone lysine demethylase, tandem hybrid tudor domains, metal binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2qqs_A* 2gfa_A* 2gf7_A*
Probab=53.41 E-value=17 Score=23.05 Aligned_cols=23 Identities=9% Similarity=0.153 Sum_probs=20.9
Q ss_pred CCCeEEEEEcCCeEEEEEEEEEC
Q 034340 20 LDERIYVKLRSDRELRGKLHAYD 42 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD 42 (97)
+|.+|+.+-++|+.|.|++.+..
T Consensus 8 vGq~V~akh~ngryy~~~V~~~~ 30 (118)
T 2qqr_A 8 AGQKVISKHKNGRFYQCEVVRLT 30 (118)
T ss_dssp TTCEEEEECTTSSEEEEEEEEEE
T ss_pred cCCEEEEECCCCCEEeEEEEEEe
Confidence 68999999999999999988875
No 56
>2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus}
Probab=52.25 E-value=23 Score=20.26 Aligned_cols=38 Identities=8% Similarity=0.073 Sum_probs=28.7
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCc---cCeEEeceEEEEe
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQH---LNMILGDVEEVVT 57 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~---mNlvL~d~~e~~~ 57 (97)
.|.-|+..-.||+.|.|++..+++. +=+...|-.++|.
T Consensus 16 vGddVLA~wtDGl~Y~gtI~~V~~~~gtC~V~F~D~s~~w~ 56 (66)
T 2eqj_A 16 EGQDVLARWSDGLFYLGTIKKINILKQSCFIIFEDSSKSWV 56 (66)
T ss_dssp TTCEEEEECTTSCEEEEEEEEEETTTTEEEEEETTTEEEEE
T ss_pred CCCEEEEEEccCcEEEeEEEEEccCCcEEEEEEccCCEEEE
Confidence 5778999999999999999999975 2333356666554
No 57
>3fb9_A Uncharacterized protein; unknown function, structural genomics, MCSG, PSI2, protein S initiative; 1.80A {Streptococcus pneumoniae}
Probab=49.09 E-value=28 Score=21.08 Aligned_cols=29 Identities=21% Similarity=0.224 Sum_probs=23.3
Q ss_pred HHHHHHhCCCeEEEEEcCCe----EEEEEEEEE
Q 034340 13 LDLIRLSLDERIYVKLRSDR----ELRGKLHAY 41 (97)
Q Consensus 13 ~~lL~~~l~k~V~V~l~~gr----~i~G~L~~f 41 (97)
..-|...+|++|.++.+.|| +-.|+|...
T Consensus 17 K~~l~~~vG~~V~l~An~GRkK~~er~GvL~et 49 (90)
T 3fb9_A 17 KEEIKAHEGQVVEMTLENGRKRQKNRLGKLIEV 49 (90)
T ss_dssp HHHHHHTTTSEEEEEECCSSSCCSCEEEEEEEE
T ss_pred HHHHHHcCCCEEEEEecCCcccEEEEEEEEEEe
Confidence 45577789999999999997 566888765
No 58
>1x4r_A PARP14 protein; WWE domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}
Probab=48.39 E-value=0.81 Score=28.50 Aligned_cols=19 Identities=21% Similarity=0.216 Sum_probs=16.6
Q ss_pred EEEEEEECCccCeEEeceE
Q 034340 35 RGKLHAYDQHLNMILGDVE 53 (97)
Q Consensus 35 ~G~L~~fD~~mNlvL~d~~ 53 (97)
-|++.+||+-.||.|.+|.
T Consensus 34 ~~~~~~FDk~TNl~LEeA~ 52 (99)
T 1x4r_A 34 KNITQCFDKMTNMKLEVAW 52 (99)
T ss_dssp SSCEEECCTTHHHHHHHHH
T ss_pred CCeEeechHHHHHHHHHHH
Confidence 3568999999999999886
No 59
>1nvp_D Transcription initiation factor IIA gamma chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} SCOP: a.32.1.1 b.56.1.1
Probab=47.81 E-value=17 Score=22.68 Aligned_cols=27 Identities=37% Similarity=0.609 Sum_probs=20.5
Q ss_pred cCCeEEEEEEEEE---CCccCeEEeceEEE
Q 034340 29 RSDRELRGKLHAY---DQHLNMILGDVEEV 55 (97)
Q Consensus 29 ~~gr~i~G~L~~f---D~~mNlvL~d~~e~ 55 (97)
++...|.|.|.-| |..|.++|.|+.=.
T Consensus 52 ksk~sfKG~L~tYrfcDnVWTf~lkd~~fk 81 (108)
T 1nvp_D 52 RNRVNFRGSLNTYRFCDNVWTFVLNDVEFR 81 (108)
T ss_dssp CCEEEEEEEEEEEEEETTEEEEEEEEEEEE
T ss_pred ccCCeEeeccCCccccCcEEEEEEeceEEE
Confidence 3457778877554 99999999998743
No 60
>3stj_A Protease DEGQ; serine protease, PDZ domain, protease, chaperone, DEGP, DEGQ hydrolase; 2.60A {Escherichia coli}
Probab=47.65 E-value=24 Score=25.62 Aligned_cols=31 Identities=26% Similarity=0.456 Sum_probs=27.0
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+.||+.+.+.+.++|....|-|=..
T Consensus 88 ~~i~V~~~dg~~~~a~vv~~d~~~DlAlLkv 118 (345)
T 3stj_A 88 QKISIQLNDGREFDAKLIGSDDQSDIALLQI 118 (345)
T ss_dssp EEEEEECTTSCEEEEEEEEEETTTTEEEEEE
T ss_pred CEEEEEeCCCcEEEEEEEEEcCCCCEEEEEE
Confidence 4788999999999999999999988877544
No 61
>1nh2_D Transcription initiation factor IIA small chain; transcription/DNA; HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP: a.32.1.1 b.56.1.1 PDB: 1ytf_D* 1rm1_B
Probab=45.69 E-value=19 Score=22.98 Aligned_cols=28 Identities=25% Similarity=0.497 Sum_probs=21.4
Q ss_pred cCCeEEEEEEEEE---CCccCeEEeceEEEE
Q 034340 29 RSDRELRGKLHAY---DQHLNMILGDVEEVV 56 (97)
Q Consensus 29 ~~gr~i~G~L~~f---D~~mNlvL~d~~e~~ 56 (97)
++...|.|.|.-| |..|.++|.|+.=..
T Consensus 56 ksk~sfKG~L~tYrfcDnVWtfilkd~~fk~ 86 (121)
T 1nh2_D 56 QSKLTVKGNLDTYGFCDDVWTFIVKNCQVTV 86 (121)
T ss_dssp CCEEEEEEEEEEEEEETTEEEEEEEEEEEEE
T ss_pred ccCCeEEeeeccccccCcEEEEEEeceEEEe
Confidence 3457777877655 999999999997543
No 62
>3pv2_A DEGQ; trypsin fold, PDZ domain, chaperone protease, hydrolase; 2.15A {Legionella fallonii} PDB: 3pv3_A 3pv5_A 3pv4_A
Probab=43.27 E-value=23 Score=26.74 Aligned_cols=31 Identities=23% Similarity=0.348 Sum_probs=27.4
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+.||+.+.+.+.++|...+|-|-..
T Consensus 102 ~~i~V~~~dg~~~~a~vv~~d~~~DlAlLkv 132 (451)
T 3pv2_A 102 SLITVTLQDGRRLKARLIGGDSETDLAVLKI 132 (451)
T ss_dssp EEEEEECTTSCEEECEEEEEETTTTEEEEEC
T ss_pred CEEEEEEcCCCEEEEEEEecCcCCcEEEEEE
Confidence 4789999999999999999999999877654
No 63
>3sti_A Protease DEGQ; serine protease, PDZ domain, chaperone, hydrolase; 2.60A {Escherichia coli}
Probab=42.89 E-value=30 Score=23.91 Aligned_cols=31 Identities=26% Similarity=0.456 Sum_probs=26.4
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+.+|+.+.+.+.+.|....|-|-..
T Consensus 88 ~~i~V~~~dg~~~~a~vv~~d~~~DlAlLkv 118 (245)
T 3sti_A 88 QKISIQLNDGREFDAKLIGSDDQSDIALLQI 118 (245)
T ss_dssp -CEEEECTTSCEEEEEEEEEETTTTEEEEEE
T ss_pred CEEEEEECCCCEEEEEEEEecCCCCEEEEEe
Confidence 4789999999999999999999888876544
No 64
>2m0o_A PHD finger protein 1; tudor domain, H3K36ME3 binding, peptide binding protein; HET: M3L; NMR {Homo sapiens}
Probab=41.31 E-value=15 Score=21.71 Aligned_cols=41 Identities=12% Similarity=0.142 Sum_probs=30.9
Q ss_pred HHhCCCeEEEEEcCCeEEEEEEEEECCc---cCeEEeceEEEEe
Q 034340 17 RLSLDERIYVKLRSDRELRGKLHAYDQH---LNMILGDVEEVVT 57 (97)
Q Consensus 17 ~~~l~k~V~V~l~~gr~i~G~L~~fD~~---mNlvL~d~~e~~~ 57 (97)
....|.-|.++-+||+.|-|++..+|.. +=+...|-.++|.
T Consensus 26 ~f~eGeDVLarwsDGlfYLGTI~kV~~~~e~ClV~F~D~S~~W~ 69 (79)
T 2m0o_A 26 RLWEGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLV 69 (79)
T ss_dssp CCCTTCEEEBCCTTSCCCEEEEEEEETTTTEEEEEETTSCEEEE
T ss_pred eeccCCEEEEEecCCCEEeEEEEEeccCCCEEEEEEcCCCeEEE
Confidence 3446789999999999999999988864 3344566666664
No 65
>3lgi_A Protease DEGS; stress-sensor, HTRA, PDZ OMP, hydrolase, serine PR; 1.65A {Escherichia coli} PDB: 2qf3_A 2qf0_A 2rce_A* 3lh3_A* 3b8j_A 2qgr_A 3lh1_A 3lgy_A 3lgu_A 3lgv_A 3lgw_A 3lgt_A 2r3u_A
Probab=39.25 E-value=44 Score=22.49 Aligned_cols=31 Identities=19% Similarity=0.299 Sum_probs=26.9
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+.+|+.+.+.+.++|....|-|=..
T Consensus 77 ~~~~V~~~~g~~~~a~vv~~d~~~DlAll~l 107 (237)
T 3lgi_A 77 DQIIVALQDGRVFEALLVGSDSLTDLAVLKI 107 (237)
T ss_dssp SEEEEECTTSCEEEEEEEEEETTTTEEEEEC
T ss_pred CEEEEEeCCCCEEEEEEEEEcCCCCEEEEEe
Confidence 5789999999999999999999888876544
No 66
>3tjo_A Serine protease HTRA1; peptidase, hydrolase; HET: BOG; 2.30A {Homo sapiens} PDB: 3tjn_A 3nwu_A
Probab=38.86 E-value=45 Score=22.47 Aligned_cols=32 Identities=19% Similarity=0.411 Sum_probs=27.5
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEeceE
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDVE 53 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~ 53 (97)
..+.|.+.+|+.+.+.+.++|....|-|-...
T Consensus 87 ~~i~V~~~~g~~~~a~v~~~d~~~DlAlL~l~ 118 (231)
T 3tjo_A 87 HRVKVELKNGATYEAKIKDVDEKADIALIKID 118 (231)
T ss_dssp SEEEEECTTSCEEEEEEEEEETTTTEEEEECC
T ss_pred ceEEEEcCCCCEEEEEEEEecCCCCEEEEEec
Confidence 58999999999999999999998888775443
No 67
>1y8t_A Hypothetical protein RV0983; serine protease, structural genomics, PSI, protein structure initiative; 2.00A {Mycobacterium tuberculosis} SCOP: b.36.1.4 b.47.1.1 PDB: 2z9i_A
Probab=38.71 E-value=41 Score=23.78 Aligned_cols=32 Identities=13% Similarity=0.111 Sum_probs=27.3
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEeceE
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDVE 53 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~ 53 (97)
..+.|.+.+|+.+.+.+.++|...+|-|-...
T Consensus 64 ~~i~V~~~~g~~~~a~vv~~d~~~DlAllkl~ 95 (324)
T 1y8t_A 64 PKTTVTFSDGRTAPFTVVGADPTSDIAVVRVQ 95 (324)
T ss_dssp CEEEEEETTCCEECEEEEECCTTTTEEEEEEC
T ss_pred eEEEEEeCCCCEEEEEEEEeCCCCCEEEEEEC
Confidence 48999999999999999999998888775443
No 68
>1te0_A Protease DEGS; two domains, serine protease, PDZ, alpha-beta protein, hydro; 2.20A {Escherichia coli} SCOP: b.36.1.4 b.47.1.1 PDB: 3gdv_A* 3gcn_A* 3gds_A* 3gdu_A* 3gco_A* 1sot_A 1soz_A 1vcw_A 2r3y_A
Probab=38.57 E-value=41 Score=23.77 Aligned_cols=32 Identities=19% Similarity=0.258 Sum_probs=27.2
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEeceE
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDVE 53 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~ 53 (97)
..+.|.+.+|+.+.+.+.++|...+|-|-...
T Consensus 66 ~~i~V~~~~g~~~~a~v~~~d~~~DlAllk~~ 97 (318)
T 1te0_A 66 DQIIVALQDGRVFEALLVGSDSLTDLAVLIIK 97 (318)
T ss_dssp SEEEEECTTSCEEEEEEEEEETTTTEEEEECC
T ss_pred CEEEEEeCCCCEEEEEEEEeCCCceEEEEEEe
Confidence 46899999999999999999999888775443
No 69
>1lcy_A HTRA2 serine protease; apoptosis, PDZ domain, caspase activation, binding, hydrolase; 2.00A {Homo sapiens} SCOP: b.36.1.4 b.47.1.1
Probab=37.61 E-value=45 Score=23.72 Aligned_cols=32 Identities=19% Similarity=0.233 Sum_probs=27.3
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEeceE
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDVE 53 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~~ 53 (97)
..+.|.+.+|+.+.+.+.++|....|-|-...
T Consensus 71 ~~i~V~~~~g~~~~a~v~~~d~~~DlAllkl~ 102 (325)
T 1lcy_A 71 RRVRVRLLSGDTYEAVVTAVDPVADIATLRIQ 102 (325)
T ss_dssp SEEEEECTTSCEEEEEEEEEETTTTEEEEECC
T ss_pred CEEEEEeCCCCEEEEEEEEECCCCCEEEEEEc
Confidence 57899999999999999999998888775543
No 70
>1sg5_A ORF, hypothetical protein; A+B protein, montreal-kingston bacterial structural genomics initiative, BSGI, structural genomics, transcription; NMR {Escherichia coli} SCOP: b.137.1.2
Probab=33.28 E-value=16 Score=21.85 Aligned_cols=18 Identities=17% Similarity=0.298 Sum_probs=15.7
Q ss_pred CCCeEEEEEcCCeEEEEE
Q 034340 20 LDERIYVKLRSDRELRGK 37 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~ 37 (97)
.+.+++|+++||..+.|+
T Consensus 24 ~~~~l~l~l~dGe~~~g~ 41 (86)
T 1sg5_A 24 HHLMLTLELKDGEKLQAK 41 (86)
T ss_dssp TTTCEEEECTTTCCEEES
T ss_pred cCCeEEEEEeCCCEEEEE
Confidence 357999999999999985
No 71
>3kl9_A PEPA, glutamyl aminopeptidase; tetrahedral aminopeptidase, S specificity, metallopeptidase M42, hydrolas; 2.70A {Streptococcus pneumoniae}
Probab=31.40 E-value=35 Score=24.96 Aligned_cols=22 Identities=14% Similarity=0.074 Sum_probs=18.3
Q ss_pred hCCCeEEEEEcCCeEEEEEEEE
Q 034340 19 SLDERIYVKLRSDRELRGKLHA 40 (97)
Q Consensus 19 ~l~k~V~V~l~~gr~i~G~L~~ 40 (97)
+.+++|+|.+++|..|.|++-.
T Consensus 97 ~~~~~v~i~t~~g~~~~Gvig~ 118 (355)
T 3kl9_A 97 VSSQRFKLLTRDGHEIPVISGS 118 (355)
T ss_dssp CSSCEEEEECTTSCEEEEEEC-
T ss_pred cCCCEEEEEcCCCCEEEEEEeC
Confidence 4679999999999999998743
No 72
>3qo6_A Protease DO-like 1, chloroplastic; protease, HTRA, PH-sensor, hydrolase, photosynthesis; 2.50A {Arabidopsis thaliana}
Probab=31.33 E-value=59 Score=23.35 Aligned_cols=31 Identities=16% Similarity=0.309 Sum_probs=27.1
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+.+|+.+.+.+.++|....|-|=..
T Consensus 77 ~~i~V~~~~g~~~~a~~v~~d~~~DlAlLkl 107 (348)
T 3qo6_A 77 SDLRVTLADQTTFDAKVVGFDQDKDVAVLRI 107 (348)
T ss_dssp SEEEEECTTSCEEEEEEEEEEGGGTEEEEEC
T ss_pred cEEEEEECCCCEEEEEEEEEcCcCCEEEEEE
Confidence 5799999999999999999999988877544
No 73
>2e5q_A PHD finger protein 19; tudor domain, isoform B, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=30.81 E-value=62 Score=18.27 Aligned_cols=39 Identities=8% Similarity=0.038 Sum_probs=29.9
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCc---cCeEEeceEEEEee
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQH---LNMILGDVEEVVTT 58 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~---mNlvL~d~~e~~~~ 58 (97)
.+.-|...-+||+.|-|++..+|.. +=+...|-.++|..
T Consensus 10 eGqdVLarWsDGlfYlgtV~kV~~~~~~ClV~FeD~s~~wv~ 51 (63)
T 2e5q_A 10 EGQYVLCRWTDGLYYLGKIKRVSSSKQSCLVTFEDNSKYWVL 51 (63)
T ss_dssp TTCEEEEECTTSCEEEEEECCCCSTTSEEEEEETTSCEEEEE
T ss_pred cCCEEEEEecCCCEEEEEEEEEecCCCEEEEEEccCceeEEE
Confidence 4678888999999999999999955 44455676666653
No 74
>3qx1_A FAS-associated factor 1; UBX, protein binding, P97 binding; 1.60A {Homo sapiens} PDB: 3qwz_B* 3qc8_B 3qca_A 3qq8_B 3r3m_B 1h8c_A
Probab=30.78 E-value=32 Score=19.66 Aligned_cols=22 Identities=14% Similarity=0.255 Sum_probs=18.4
Q ss_pred CeEEEEEcCCeEEEEEEEEECC
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQ 43 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~ 43 (97)
.+|+|++-||..+.+.+..-|.
T Consensus 8 ~~i~iRlpdG~r~~~~F~~~~t 29 (84)
T 3qx1_A 8 SKLRIRTPSGEFLERRFLASNK 29 (84)
T ss_dssp EEEEEECTTSCEEEEEEETTSB
T ss_pred EEEEEECCCCCEEEEEeCCCCC
Confidence 4899999999999999876554
No 75
>3num_A Serine protease HTRA1; DEGP, hydrolase; 2.75A {Homo sapiens} PDB: 3nzi_A 2ytw_A 2joa_A
Probab=30.31 E-value=84 Score=22.26 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=27.0
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+.+|+.+.+.+.++|....|-|=..
T Consensus 70 ~~i~V~~~~g~~~~a~~~~~d~~~DlAlL~l 100 (332)
T 3num_A 70 HRVKVELKNGATYEAKIKDVDEKADIALIKI 100 (332)
T ss_dssp SEEEEEETTSCEEEEEEEEEETTTTEEEEEE
T ss_pred CEEEEEECCCCEEEEEEEEecCCCCeEEEEE
Confidence 5799999999999999999999888877544
No 76
>4fln_A Protease DO-like 2, chloroplastic; protease, DEG, PDZ, hydrolase; 2.80A {Arabidopsis thaliana}
Probab=29.96 E-value=50 Score=25.83 Aligned_cols=31 Identities=26% Similarity=0.296 Sum_probs=26.1
Q ss_pred CeEEEEEc-CCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLR-SDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~-~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+. ||+.|.+.+.++|....|-|-.+
T Consensus 97 ~~i~V~~~~dg~~~~A~vv~~D~~~DLAvLkv 128 (539)
T 4fln_A 97 TQVKVKRRGDDRKYVAKVLVRGVDCDIALLSV 128 (539)
T ss_dssp EEEEEECTTCCCCEEEEEEEEETTTTEEEEEE
T ss_pred CeEEEEEccCCEEEEEEEEEECCCCCEEEEEE
Confidence 47888885 89999999999999998876543
No 77
>2e5p_A Protein PHF1, PHD finger protein 1; tudor domain, PHF1 protein, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=29.24 E-value=84 Score=17.96 Aligned_cols=39 Identities=8% Similarity=0.086 Sum_probs=30.0
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCcc---CeEEeceEEEEee
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHL---NMILGDVEEVVTT 58 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~m---NlvL~d~~e~~~~ 58 (97)
.+.-|...-+||+.|-|++..+|.+- =+...|-.++|..
T Consensus 12 eGqdVLarWsDGlfYlGtV~kV~~~~~~ClV~FeD~s~~wv~ 53 (68)
T 2e5p_A 12 EGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLVL 53 (68)
T ss_dssp TTCEEEEECTTSSEEEEEEEEEETTTTEEEEEETTTEEEEEE
T ss_pred cCCEEEEEecCCcEEEeEEEEEecCCcEEEEEEccCCeeeee
Confidence 46788899999999999999999543 3444677777653
No 78
>2zbv_A Uncharacterized conserved protein; NPPSFA, national project protein structural and functional analyses; HET: ADN; 2.05A {Thermotoga maritima} PDB: 2zbu_A*
Probab=29.09 E-value=52 Score=23.41 Aligned_cols=20 Identities=15% Similarity=0.218 Sum_probs=17.0
Q ss_pred CeEEEEEEEEECCccCeEEe
Q 034340 31 DRELRGKLHAYDQHLNMILG 50 (97)
Q Consensus 31 gr~i~G~L~~fD~~mNlvL~ 50 (97)
+..+.|.+.-+|.|.|++..
T Consensus 167 ~~~i~g~V~~iD~FGN~iTn 186 (263)
T 2zbv_A 167 NEKVIGEVAIVDTFGNVSTN 186 (263)
T ss_dssp TTEEEEEEEEECTTCCEEEE
T ss_pred CCeEEEEEEEEcccCChhhc
Confidence 45689999999999999853
No 79
>2wr8_A Putative uncharacterized protein PH0463; transferase, SAM, SAM hydroxide adenosyltransferase (DUF-62) water activation; HET: SAH; 1.77A {Pyrococcus horikoshii} PDB: 1wu8_A*
Probab=28.95 E-value=49 Score=23.53 Aligned_cols=20 Identities=25% Similarity=0.089 Sum_probs=17.1
Q ss_pred CeEEEEEEEEECCccCeEEe
Q 034340 31 DRELRGKLHAYDQHLNMILG 50 (97)
Q Consensus 31 gr~i~G~L~~fD~~mNlvL~ 50 (97)
+..+.|.+.-+|.|.|++..
T Consensus 171 ~~~i~g~V~~iD~FGN~iTn 190 (259)
T 2wr8_A 171 GDVWILKVIYIDDFGNVILN 190 (259)
T ss_dssp TTEEEEEEEEECTTCCEEES
T ss_pred CCeEEEEEEEEcccCChhhc
Confidence 45689999999999999764
No 80
>3tee_A Flagella basal BODY P-ring formation protein FLGA; chaperone, flagellar P-ring formation, flagellar FLGI protei periplasmic protein; 1.95A {Salmonella typhimurium}
Probab=27.35 E-value=40 Score=23.16 Aligned_cols=22 Identities=14% Similarity=0.356 Sum_probs=17.8
Q ss_pred hCCCeEEEEEcCCeEEEEEEEE
Q 034340 19 SLDERIYVKLRSDRELRGKLHA 40 (97)
Q Consensus 19 ~l~k~V~V~l~~gr~i~G~L~~ 40 (97)
.+|..|+|.+..|+.+.|+..+
T Consensus 169 ~~Gd~IrVr~~Sgkiv~g~V~~ 190 (219)
T 3tee_A 169 AVAQNARVRMTSGQIVSGTVDS 190 (219)
T ss_dssp CTTSEEEEEETTSCEEEEEECT
T ss_pred CCCCEEEEECCCCCEEEEEEec
Confidence 3678899999999999998544
No 81
>2xdp_A Lysine-specific demethylase 4C; oxidoreductase, histone modification; 1.56A {Homo sapiens}
Probab=24.97 E-value=95 Score=19.66 Aligned_cols=22 Identities=18% Similarity=0.108 Sum_probs=20.2
Q ss_pred CCCeEEEEEcCCeEEEEEEEEE
Q 034340 20 LDERIYVKLRSDRELRGKLHAY 41 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~f 41 (97)
.|..|.|.-.||..|.|++.|.
T Consensus 67 ~G~~V~V~W~DG~~y~a~f~g~ 88 (123)
T 2xdp_A 67 EGEVVQVKWPDGKLYGAKYFGS 88 (123)
T ss_dssp TTCEEEEECTTSCEEEEEEEEE
T ss_pred CCCEEEEEcCCCCEEeEEEeee
Confidence 5789999999999999999887
No 82
>2w5e_A Putative serine protease; coiled coil, transmembrane, thiol protease, RNA replication, ribosomal frameshifting, catalytic triad, membrane; 2.00A {Human astrovirus 1}
Probab=23.48 E-value=1.5e+02 Score=18.97 Aligned_cols=29 Identities=10% Similarity=0.070 Sum_probs=23.0
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+ ||+.+..++. +|....|-|-..
T Consensus 43 ~~i~V~~-dg~~~~a~vv-~d~~~DlAlLkv 71 (163)
T 2w5e_A 43 TFVNVCY-EGLMYEAKVR-YMPEKDIAFITC 71 (163)
T ss_dssp SEEEEEE-TTEEEEEEEE-ECCSSSEEEEEC
T ss_pred ceEEEEE-CCEEEEEEEE-EECCCCEEEEEe
Confidence 5778888 9999999999 888777765433
No 83
>2dzk_A UBX domain-containing protein 2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} PDB: 2kxj_A
Probab=22.33 E-value=71 Score=19.29 Aligned_cols=21 Identities=14% Similarity=0.257 Sum_probs=17.8
Q ss_pred CeEEEEEcCCeEEEEEEEEEC
Q 034340 22 ERIYVKLRSDRELRGKLHAYD 42 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD 42 (97)
.+|+|+|-||..+++++..-|
T Consensus 14 t~IqIRlpdG~rl~~rF~~~~ 34 (109)
T 2dzk_A 14 ARIQFRLPDGSSFTNQFPSDA 34 (109)
T ss_dssp EEEEEECSSSCEEEEEECTTS
T ss_pred EEEEEECCCCCEEEEEeCCCC
Confidence 589999999999999976544
No 84
>1wj4_A KIAA0794 protein; UBX domain, beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.2
Probab=20.56 E-value=64 Score=20.09 Aligned_cols=22 Identities=5% Similarity=0.125 Sum_probs=18.8
Q ss_pred CeEEEEEcCCeEEEEEEEEECC
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQ 43 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~ 43 (97)
.+|+|+|-||..++++|..-|.
T Consensus 44 t~IqIRlPdG~rl~~rF~~~~t 65 (124)
T 1wj4_A 44 AQLMLRYPDGKREQITLPEQAK 65 (124)
T ss_dssp EEEEEECTTSCEEEEEEETTSC
T ss_pred EEEEEECCCCCEEEEEeCCCCC
Confidence 5899999999999999877664
No 85
>1o9y_A HRCQ2; secretory protein, HRP, type III secretion system, phytopathogenicity; 2.29A {Pseudomonas syringae} SCOP: b.139.1.1
Probab=20.31 E-value=1.2e+02 Score=17.45 Aligned_cols=32 Identities=9% Similarity=0.046 Sum_probs=25.3
Q ss_pred CCCeEEEEEcCCeEEEEEEEEECCccCeEEec
Q 034340 20 LDERIYVKLRSDRELRGKLHAYDQHLNMILGD 51 (97)
Q Consensus 20 l~k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d 51 (97)
.+..|.+...+--.++|.+.-++..+=+.+.+
T Consensus 48 ~~e~v~i~vng~~~~~ge~g~~~~~~avrI~~ 79 (84)
T 1o9y_A 48 SPGHATLCHGEQVVAEGELVDVEGRLGLQITR 79 (84)
T ss_dssp CTTEEEEEETTEEEEEEEEEEETTEEEEEEEE
T ss_pred CCCCEEEEECCEEEEEEEEEEECCEEEEEEEE
Confidence 45788898888899999999998866665544
No 86
>1l1j_A Heat shock protease HTRA; hydrolase, serine proteinase; 2.80A {Thermotoga maritima} SCOP: b.47.1.1
Probab=20.02 E-value=36 Score=23.30 Aligned_cols=31 Identities=13% Similarity=0.239 Sum_probs=25.9
Q ss_pred CeEEEEEcCCeEEEEEEEEECCccCeEEece
Q 034340 22 ERIYVKLRSDRELRGKLHAYDQHLNMILGDV 52 (97)
Q Consensus 22 k~V~V~l~~gr~i~G~L~~fD~~mNlvL~d~ 52 (97)
..+.|.+.+|+.+.+.+.++|....|-|-..
T Consensus 80 ~~i~V~~~~g~~~~a~vv~~d~~~DlAllkl 110 (239)
T 1l1j_A 80 DNITVTMLDGSKYDAEYIGGDEELDIAVIKI 110 (239)
T ss_dssp SSCEEECTTSCEEEBCCCEEETTTTEEEEEB
T ss_pred CEEEEEECCCCEEEEEEEEEcCCCCEEEEEE
Confidence 4678889999999999999998888876544
Done!