Query 033960
Match_columns 107
No_of_seqs 103 out of 1090
Neff 6.4
Searched_HMMs 29240
Date Mon Mar 25 13:44:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033960.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/033960hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1b34_B Protein (small nuclear 100.0 1.8E-31 6.3E-36 182.0 9.0 106 2-107 9-114 (118)
2 4emg_A Probable U6 snRNA-assoc 99.9 1.4E-25 4.8E-30 147.4 9.5 85 18-105 7-91 (93)
3 3bw1_A SMX4 protein, U6 snRNA- 99.9 1.7E-24 5.8E-29 142.8 10.7 81 17-106 7-87 (96)
4 4emk_A U6 snRNA-associated SM- 99.9 2.2E-24 7.7E-29 142.1 10.7 76 16-106 16-91 (94)
5 2fwk_A U6 snRNA-associated SM- 99.9 3.4E-25 1.2E-29 151.6 7.0 88 15-106 23-113 (121)
6 1th7_A SnRNP-2, small nuclear 99.9 1.5E-24 5.1E-29 138.7 8.8 77 14-106 3-79 (81)
7 1i4k_A Putative snRNP SM-like 99.9 3.1E-24 1.1E-28 135.8 9.8 73 18-106 2-74 (77)
8 1h64_1 SnRNP SM-like protein; 99.9 3.5E-24 1.2E-28 135.1 9.9 73 18-106 2-74 (75)
9 1n9r_A SMF, small nuclear ribo 99.9 2.1E-24 7E-29 141.9 8.3 74 17-106 18-92 (93)
10 1mgq_A SM-like protein; LSM, R 99.9 9E-24 3.1E-28 135.8 9.7 71 18-104 13-83 (83)
11 1ljo_A Archaeal SM-like protei 99.9 1.1E-23 3.6E-28 133.5 9.9 73 18-106 3-76 (77)
12 1i8f_A Putative snRNP SM-like 99.9 1.4E-23 4.8E-28 134.3 10.0 73 17-106 8-80 (81)
13 4emk_B U6 snRNA-associated SM- 99.9 5.9E-24 2E-28 134.3 7.7 73 18-106 2-74 (75)
14 3s6n_E Small nuclear ribonucle 99.9 5.3E-24 1.8E-28 139.8 7.3 76 16-106 12-91 (92)
15 3s6n_F Small nuclear ribonucle 99.9 3.4E-23 1.2E-27 134.2 10.2 73 18-106 4-76 (86)
16 1d3b_B Protein (small nuclear 99.9 3.1E-23 1.1E-27 134.9 8.1 81 19-105 3-83 (91)
17 1d3b_A Protein (small nuclear 99.9 1.7E-22 6E-27 127.7 9.9 73 18-106 3-75 (75)
18 4emk_C U6 snRNA-associated SM- 99.9 1.3E-22 4.4E-27 137.5 9.2 81 17-106 20-100 (113)
19 3s6n_G Small nuclear ribonucle 99.9 9.6E-23 3.3E-27 129.1 8.0 71 20-106 4-74 (76)
20 4emh_A Probable U6 snRNA-assoc 99.9 7.2E-22 2.5E-26 132.4 8.4 74 18-106 14-87 (105)
21 3pgw_B SM B; protein-RNA compl 99.9 1.8E-21 6E-26 145.5 10.6 80 19-104 3-82 (231)
22 1b34_A Protein (small nuclear 99.9 1.9E-21 6.5E-26 132.6 9.2 72 19-106 1-72 (119)
23 2y9a_D Small nuclear ribonucle 99.8 5.5E-20 1.9E-24 126.7 9.6 72 19-106 4-75 (126)
24 1m5q_A SMAP3, small nuclear ri 99.8 2.3E-19 7.8E-24 124.2 8.1 65 22-106 2-66 (130)
25 1y96_A Gemin6, SIP2, GEM-assoc 98.3 7.7E-06 2.6E-10 52.6 8.7 63 18-103 6-69 (86)
26 1u1s_A HFQ protein; SM-like ba 97.4 0.00025 8.4E-09 45.2 4.6 38 23-60 10-47 (82)
27 2ylb_A Protein HFQ; RNA-bindin 97.3 0.00022 7.5E-09 44.6 3.9 38 23-60 12-49 (74)
28 3sb2_A Protein HFQ; SM-like, R 97.3 0.00035 1.2E-08 44.2 4.6 37 23-59 11-47 (79)
29 3ahu_A Protein HFQ; SM-like mo 97.2 0.00058 2E-08 43.1 4.5 39 24-62 15-53 (78)
30 2y90_A Protein HFQ; RNA-bindin 97.1 0.0006 2E-08 45.1 4.6 40 23-62 12-51 (104)
31 1kq1_A HFQ, HOST factor for Q 97.1 0.00094 3.2E-08 42.0 5.2 40 23-62 10-49 (77)
32 2qtx_A Uncharacterized protein 97.0 0.00085 2.9E-08 41.6 4.3 39 24-62 17-55 (71)
33 3hfo_A SSR3341 protein; HFQ, S 95.6 0.023 8E-07 34.9 4.8 42 19-60 7-49 (70)
34 3hfn_A ASL2047 protein; HFQ, S 95.4 0.041 1.4E-06 34.0 5.4 39 22-60 13-51 (72)
35 1ycy_A Conserved hypothetical 93.3 0.19 6.6E-06 30.4 4.9 41 24-67 10-50 (71)
36 2vxe_A CG10686-PA; EDC3, CAR-1 92.5 1.3 4.5E-05 28.2 9.6 70 28-104 11-81 (88)
37 2fb7_A SM-like protein, LSM-14 91.9 1.1 3.9E-05 28.9 7.5 77 21-104 10-87 (95)
38 4a53_A EDC3; RNA binding prote 90.5 0.43 1.5E-05 32.3 4.7 39 26-67 8-48 (125)
39 1y96_B Gemin7, SIP3, GEM-assoc 88.9 3.1 0.0001 26.3 8.0 63 22-105 21-84 (85)
40 1ib8_A Conserved protein SP14. 84.4 1.2 4E-05 31.0 4.1 33 25-60 99-135 (164)
41 2vc8_A Enhancer of mRNA-decapp 83.4 2.5 8.5E-05 26.6 4.9 37 26-64 5-43 (84)
42 3rux_A BIRA bifunctional prote 82.6 2.5 8.7E-05 31.3 5.5 34 30-63 222-255 (270)
43 2xk0_A Polycomb protein PCL; t 75.5 7.4 0.00025 23.6 5.0 40 30-69 17-57 (69)
44 2e12_A SM-like motif, hypothet 74.9 5.1 0.00017 25.7 4.4 25 25-49 21-45 (101)
45 4hcz_A PHD finger protein 1; p 64.0 12 0.0004 21.9 4.0 39 30-68 5-46 (58)
46 2dxu_A Biotin--[acetyl-COA-car 60.4 9.7 0.00033 27.4 3.9 30 31-62 188-217 (235)
47 2ej9_A Putative biotin ligase; 58.3 21 0.00072 25.6 5.5 42 20-62 176-221 (237)
48 4a8c_A Periplasmic PH-dependen 55.2 20 0.00068 27.9 5.2 35 29-63 84-118 (436)
49 1bia_A BIRA bifunctional prote 54.7 26 0.0009 26.0 5.7 34 28-62 269-302 (321)
50 1ky9_A Protease DO, DEGP, HTRA 53.5 19 0.00065 28.2 4.8 34 30-63 108-141 (448)
51 2eay_A Biotin [acetyl-COA-carb 53.3 13 0.00045 26.6 3.6 30 31-62 187-216 (233)
52 2rm4_A CG6311-PB, DM EDC3; enh 51.5 46 0.0016 21.4 5.7 38 26-66 8-46 (103)
53 1nvp_D Transcription initiatio 49.8 17 0.0006 23.6 3.4 27 40-66 52-81 (108)
54 3rkx_A Biotin-[acetyl-COA-carb 49.3 24 0.00083 26.5 4.7 32 30-62 277-308 (323)
55 1sg5_A ORF, hypothetical prote 48.6 9.4 0.00032 23.8 1.9 27 22-48 15-41 (86)
56 3bfm_A Biotin protein ligase-l 48.2 38 0.0013 24.0 5.4 28 30-62 192-219 (235)
57 1te0_A Protease DEGS; two doma 46.8 35 0.0012 25.1 5.2 34 30-63 63-96 (318)
58 1nh2_D Transcription initiatio 46.7 20 0.00069 23.8 3.4 29 39-67 55-86 (121)
59 3stj_A Protease DEGQ; serine p 46.6 27 0.00094 26.3 4.6 33 30-62 85-117 (345)
60 3by7_A Uncharacterized protein 45.4 58 0.002 20.8 8.0 65 36-105 7-75 (100)
61 3lgi_A Protease DEGS; stress-s 45.1 42 0.0014 23.5 5.2 34 29-62 73-106 (237)
62 1lcy_A HTRA2 serine protease; 44.3 40 0.0014 24.9 5.2 35 29-63 67-101 (325)
63 1x4r_A PARP14 protein; WWE dom 43.3 1.6 5.5E-05 28.3 -2.4 19 46-64 34-52 (99)
64 2m0o_A PHD finger protein 1; t 42.3 18 0.0006 22.4 2.4 40 29-68 27-69 (79)
65 3pv2_A DEGQ; trypsin fold, PDZ 42.2 27 0.00091 27.4 4.1 34 30-63 99-132 (451)
66 3sti_A Protease DEGQ; serine p 38.3 36 0.0012 24.4 4.0 31 32-62 87-117 (245)
67 3tjo_A Serine protease HTRA1; 37.0 52 0.0018 23.0 4.6 33 30-62 84-116 (231)
68 3qo6_A Protease DO-like 1, chl 35.4 63 0.0021 24.1 5.1 35 29-63 73-107 (348)
69 3fb9_A Uncharacterized protein 35.3 46 0.0016 20.9 3.6 26 24-51 19-48 (90)
70 2e5q_A PHD finger protein 19; 32.4 59 0.002 19.2 3.5 39 30-68 9-50 (63)
71 1y8t_A Hypothetical protein RV 30.9 53 0.0018 24.0 4.0 31 33-63 64-94 (324)
72 3num_A Serine protease HTRA1; 30.8 77 0.0026 23.3 4.9 33 30-62 67-99 (332)
73 2e5p_A Protein PHF1, PHD finge 28.3 92 0.0031 18.6 3.9 39 30-68 11-52 (68)
74 4fln_A Protease DO-like 2, chl 26.7 64 0.0022 26.2 4.0 33 30-62 94-127 (539)
75 2qqr_A JMJC domain-containing 26.6 67 0.0023 21.1 3.4 23 31-53 8-30 (118)
76 3mkv_A Putative amidohydrolase 26.5 6.8 0.00023 27.2 -1.6 25 32-56 398-422 (426)
77 1l1j_A Heat shock protease HTR 21.8 37 0.0013 24.1 1.5 32 32-63 79-110 (239)
78 4e0q_A COP9 signalosome comple 20.2 60 0.002 21.5 2.2 50 18-68 9-58 (141)
No 1
>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=99.97 E-value=1.8e-31 Score=182.02 Aligned_cols=106 Identities=82% Similarity=1.227 Sum_probs=67.0
Q ss_pred CCcChhhcccchhcccCCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccc
Q 033960 2 SRPMEEDNVKNEEEEFNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKAL 81 (107)
Q Consensus 2 ~~~~~~~~~~~e~~~~~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~ 81 (107)
||.++++.+++|++.+..+|+++|+.+++++++|.|+|++|+.|.|+|+|||+||||+|+||+|++...++++++.+..+
T Consensus 9 ~~~~~~~~~~~e~~~~~~~Pl~lL~~~~~~~k~V~V~Lk~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~ 88 (118)
T 1b34_B 9 SEMTPEELQKREEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSK 88 (118)
T ss_dssp -----------------CCHHHHHHHHHHHTCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEC---------------
T ss_pred hhcChhhhhhhhhhhcccChHHHHHHHhcCCcEEEEEECCCcEEEEEEEEeCCceEEEEeCEEEEEeccccccccccccc
Confidence 67778888999999999999999999996669999999999999999999999999999999999865433222211112
Q ss_pred cCcceeeeceEEEeCCcEEEEEeCCC
Q 033960 82 PVNKDRFISKMFLRGDSVIIVLRNPK 107 (107)
Q Consensus 82 ~~~~~r~lg~v~IRGd~Vv~Is~~~~ 107 (107)
...++|++|.+||||+||++|++.|+
T Consensus 89 ~~~~~r~lg~v~IRG~nVv~I~~~~~ 114 (118)
T 1b34_B 89 PVNKDRYISKMFLRGDSVIVVLRNPL 114 (118)
T ss_dssp ----CEEEEEEEECGGGEEEEEECCC
T ss_pred ccccccCcCeEEEcCCEEEEEEeCch
Confidence 22346789999999999999999875
No 2
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=99.93 E-value=1.4e-25 Score=147.40 Aligned_cols=85 Identities=29% Similarity=0.496 Sum_probs=65.4
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 97 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd 97 (107)
...|+++|+.++ +++|+|+|++|+.|.|+|+|||+||||+|+||+|++...+++++..+ ......++.+|.+||||+
T Consensus 7 ~~~Pl~lL~~~~--~~~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~-~~~~~~~r~lG~v~iRG~ 83 (93)
T 4emg_A 7 VAEPLDLVRLSL--DEIVYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDEETDKD-KALKTIRKHYEMLFVRGD 83 (93)
T ss_dssp --CTTHHHHTTT--TSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEEC---------------CEEEEEEEEEECGG
T ss_pred cCCCHHHHHHhC--CCEEEEEECCCcEEEEEEEEECCcccEEeecEEEEEeccccCCcccc-ccccccEeEeceEEECCC
Confidence 679999999999 99999999999999999999999999999999999875433221100 001123588999999999
Q ss_pred cEEEEEeC
Q 033960 98 SVIIVLRN 105 (107)
Q Consensus 98 ~Vv~Is~~ 105 (107)
||++|++.
T Consensus 84 nVv~I~p~ 91 (93)
T 4emg_A 84 SVILIAPP 91 (93)
T ss_dssp GEEEEECC
T ss_pred eEEEEEec
Confidence 99999985
No 3
>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=99.92 E-value=1.7e-24 Score=142.82 Aligned_cols=81 Identities=30% Similarity=0.561 Sum_probs=69.5
Q ss_pred cCCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeC
Q 033960 17 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRG 96 (107)
Q Consensus 17 ~~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG 96 (107)
....|+++|..++ +++|+|+|++||.+.|+|+|||+||||+|+||+|++...+++.. ....+.+|.+||||
T Consensus 7 ~~~~p~~~L~~~i--~k~V~V~Lk~gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~-------~~~~r~lG~v~IRG 77 (96)
T 3bw1_A 7 HMETPLDLLKLNL--DERVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEEL-------SESERRCEMVFIRG 77 (96)
T ss_dssp CCCCHHHHHGGGT--TSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEEEEECCSTTCC-------CEEEEEEEEEEECG
T ss_pred hhhhHHHHHHHHC--CCeEEEEECCCcEEEEEEEEECCCCcEEEcCEEEEecccccccc-------CcceeEcCEEEECC
Confidence 4678999999999 99999999999999999999999999999999999865322100 12357899999999
Q ss_pred CcEEEEEeCC
Q 033960 97 DSVIIVLRNP 106 (107)
Q Consensus 97 d~Vv~Is~~~ 106 (107)
+||++|++.+
T Consensus 78 ~nVv~I~~~d 87 (96)
T 3bw1_A 78 DTVTLISTPS 87 (96)
T ss_dssp GGEEEEECCC
T ss_pred CEEEEEEecC
Confidence 9999999876
No 4
>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=99.91 E-value=2.2e-24 Score=142.11 Aligned_cols=76 Identities=20% Similarity=0.350 Sum_probs=65.0
Q ss_pred ccCCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEe
Q 033960 16 EFNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLR 95 (107)
Q Consensus 16 ~~~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IR 95 (107)
.....|+++|.+++ +++|.|+|++|+.|.|+|+|||+||||+|+||+|++.. +. ..+.+|.++||
T Consensus 16 ~~~~~Pl~lL~~~l--~k~V~V~Lk~gr~~~G~L~gfD~~mNlvL~d~~E~~~~----~~---------~~~~lg~v~IR 80 (94)
T 4emk_A 16 SMTILPLELIDKCI--GSNLWVIMKSEREFAGTLVGFDDYVNIVLKDVTEYDTV----TG---------VTEKHSEMLLN 80 (94)
T ss_dssp ----CHHHHHHHTT--TSEEEEEESSSEEEEEEEEEECTTCCEEEEEEEEEETT----TC---------CEEEEEEEEEC
T ss_pred cccccCHHHHHHHc--CCeEEEEECCCcEEEEEEEEEcccCCeEeeeEEEEecC----CC---------cEeEcCEEEEc
Confidence 45789999999999 99999999999999999999999999999999999731 11 13679999999
Q ss_pred CCcEEEEEeCC
Q 033960 96 GDSVIIVLRNP 106 (107)
Q Consensus 96 Gd~Vv~Is~~~ 106 (107)
|+||++|++..
T Consensus 81 G~nI~~i~p~~ 91 (94)
T 4emk_A 81 GNGMCMLIPGG 91 (94)
T ss_dssp STTEEEEEECC
T ss_pred CCEEEEEEeCC
Confidence 99999999864
No 5
>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=3.4e-25 Score=151.57 Aligned_cols=88 Identities=22% Similarity=0.337 Sum_probs=68.3
Q ss_pred cccCCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCC---CCccccccCcceeeece
Q 033960 15 EEFNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTG---KGKKKALPVNKDRFISK 91 (107)
Q Consensus 15 ~~~~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~---~~~~~~~~~~~~r~lg~ 91 (107)
.....+|+++|.+++ +++|+|+|++||.+.|+|+|||+||||+|+||+|++...+.+. ++.. +...+.+.+|.
T Consensus 23 ~~~~~~Pl~lL~~~l--~k~V~V~Lk~Gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~g~~--~~~~~~r~lG~ 98 (121)
T 2fwk_A 23 GGNIILPLALIDKCI--GNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKK--LKRVMVNRLET 98 (121)
T ss_dssp -CCCCCHHHHHHHTB--TSBCEEEETTTEEECCEEEEECTTCCEEEESCCEEEC-----------------CEECCCCSE
T ss_pred cccccCcHHHHHHHc--CCeEEEEECCCcEEEEEEEEEcccCCeEeceEEEEEeccccccccccCcc--cccccceEcce
Confidence 345789999999999 9999999999999999999999999999999999986421110 1111 00112578999
Q ss_pred EEEeCCcEEEEEeCC
Q 033960 92 MFLRGDSVIIVLRNP 106 (107)
Q Consensus 92 v~IRGd~Vv~Is~~~ 106 (107)
+||||++|++|++.+
T Consensus 99 v~IRG~nVv~I~~~~ 113 (121)
T 2fwk_A 99 ILLSGNNVAMLVPGG 113 (121)
T ss_dssp EEECGGGEEEEESSS
T ss_pred EEECCCEEEEEEecC
Confidence 999999999999865
No 6
>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=99.91 E-value=1.5e-24 Score=138.74 Aligned_cols=77 Identities=29% Similarity=0.509 Sum_probs=67.5
Q ss_pred hcccCCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEE
Q 033960 14 EEEFNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMF 93 (107)
Q Consensus 14 ~~~~~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~ 93 (107)
++.....|+++|++++ +++|+|+|+||+.+.|+|+|||+||||+|+||+|++.. + ..+.+|.+|
T Consensus 3 m~~~~~~P~~~L~~~~--~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~------~--------~~~~lg~v~ 66 (81)
T 1th7_A 3 MNFLAETAHKVLAESL--NNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSD------G--------SGKKLGTIV 66 (81)
T ss_dssp CCTTCHHHHHHHHHHT--TSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEECSS------S--------CEEEEEEEE
T ss_pred ccccccchHHHHHHhC--CCeEEEEEcCCcEEEEEEEEEcCCCCEEEccEEEEecC------C--------ceeECCEEE
Confidence 3455678999999999 99999999999999999999999999999999999731 1 236899999
Q ss_pred EeCCcEEEEEeCC
Q 033960 94 LRGDSVIIVLRNP 106 (107)
Q Consensus 94 IRGd~Vv~Is~~~ 106 (107)
|||++|++|.+.+
T Consensus 67 iRG~~I~~i~~~~ 79 (81)
T 1th7_A 67 IRGDNVILISPLQ 79 (81)
T ss_dssp ECGGGEEEEEEC-
T ss_pred ECCCEEEEEEecC
Confidence 9999999999864
No 7
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A*
Probab=99.91 E-value=3.1e-24 Score=135.79 Aligned_cols=73 Identities=27% Similarity=0.503 Sum_probs=65.4
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 97 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd 97 (107)
+..|+++|++++ +++|+|+|++|+.+.|+|+|||+||||+|+||+|++.. + ..+++|.+||||+
T Consensus 2 ~~~P~~~L~~~~--~~~V~V~L~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~------~--------~~~~lg~v~iRG~ 65 (77)
T 1i4k_A 2 PPRPLDVLNRSL--KSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNG------E--------VVRKVGSVVIRGD 65 (77)
T ss_dssp -CCHHHHHHTTT--TSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEETT------E--------EEEEEEEEEECGG
T ss_pred CccHHHHHHHhC--CCEEEEEEcCCCEEEEEEEEEcCCCCeEEeeEEEEecC------C--------cEeECCEEEECCC
Confidence 358999999999 99999999999999999999999999999999999731 1 2368999999999
Q ss_pred cEEEEEeCC
Q 033960 98 SVIIVLRNP 106 (107)
Q Consensus 98 ~Vv~Is~~~ 106 (107)
+|++|.+.+
T Consensus 66 ~I~~i~~~d 74 (77)
T 1i4k_A 66 TVVFVSPAP 74 (77)
T ss_dssp GEEEEEECC
T ss_pred EEEEEEeCC
Confidence 999999865
No 8
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=99.91 E-value=3.5e-24 Score=135.06 Aligned_cols=73 Identities=25% Similarity=0.409 Sum_probs=64.8
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 97 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd 97 (107)
+..|+++|++++ +++|+|+|+||+.+.|+|+|||+||||+|+||+|++.. + ..+.+|.+||||+
T Consensus 2 ~~~P~~~L~~~~--~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~------~--------~~~~lg~v~iRG~ 65 (75)
T 1h64_1 2 AERPLDVIHRSL--DKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDG------E--------VVKRYGKIVIRGD 65 (75)
T ss_dssp -CCHHHHHHTTT--TSEEEEEETTSEEEEEEEEEECTTCCEEEEEEEEEETT------E--------EEEEEEEEEECGG
T ss_pred CchHHHHHHHHC--CCEEEEEECCCCEEEEEEEEEeCCCCeEEeeEEEEeeC------C--------ceeECCEEEECCC
Confidence 358999999999 99999999999999999999999999999999999731 1 2368999999999
Q ss_pred cEEEEEeCC
Q 033960 98 SVIIVLRNP 106 (107)
Q Consensus 98 ~Vv~Is~~~ 106 (107)
+|++|.+.+
T Consensus 66 ~I~~i~~~~ 74 (75)
T 1h64_1 66 NVLAISPTE 74 (75)
T ss_dssp GEEEEEEC-
T ss_pred EEEEEEeCC
Confidence 999999864
No 9
>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=2.1e-24 Score=141.91 Aligned_cols=74 Identities=22% Similarity=0.317 Sum_probs=59.7
Q ss_pred cCCCcHHHHHhhhcCCcEEEEEecCC-eEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEe
Q 033960 17 FNTGPLSVLMMSVKNNTQVLINCRNN-KKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLR 95 (107)
Q Consensus 17 ~~~~Pl~~L~~~~~~~krV~V~lr~g-r~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IR 95 (107)
....|+++|.+++ +++|.|+|++| ++|+|+|+|||+||||+|+||+|++. ++ ..+.+|.+|||
T Consensus 18 ~~~~P~~~L~~~i--~k~V~V~Lk~g~~~~~G~L~~~D~~MNlvL~d~~E~~~-----~~---------~~~~lg~v~IR 81 (93)
T 1n9r_A 18 QPVNPKPFLKGLV--NHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVA-----GV---------SHGTLGEIFIR 81 (93)
T ss_dssp --------CGGGT--TSEEEEEESSTTEEEEEEEEECCTTTCEEEEEEEEEET-----TE---------EEEECCSEEEC
T ss_pred ccCChHHHHHHhC--CCEEEEEEcCCCEEEEEEEEEEccccEEEEeeEEEEcC-----CC---------eEeEcCEEEEc
Confidence 3789999999999 99999999999 99999999999999999999999962 11 13679999999
Q ss_pred CCcEEEEEeCC
Q 033960 96 GDSVIIVLRNP 106 (107)
Q Consensus 96 Gd~Vv~Is~~~ 106 (107)
|++|++|.+.+
T Consensus 82 G~nI~~I~~~~ 92 (93)
T 1n9r_A 82 CNNVLYIRELP 92 (93)
T ss_dssp GGGEEEEEECC
T ss_pred CCeEEEEEeCC
Confidence 99999999875
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=99.90 E-value=9e-24 Score=135.83 Aligned_cols=71 Identities=27% Similarity=0.516 Sum_probs=64.7
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 97 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd 97 (107)
...|+.+|.+++ +++|+|+|++|+.+.|+|+|||+||||+|+||+|++.. + ..+.+|.+||||+
T Consensus 13 ~~~P~~~L~~~~--~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~------~--------~~~~lg~v~IRG~ 76 (83)
T 1mgq_A 13 VQRPLDALGNSL--NSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDG------E--------VTRRLGTVLIRGD 76 (83)
T ss_dssp TTCTTHHHHHTT--TSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEETT------E--------EEEEEEEEEECGG
T ss_pred CcChHHHHHHhC--CCEEEEEEcCCcEEEEEEEEECCCceeEEccEEEEecC------C--------cccCCCEEEECCC
Confidence 678999999999 99999999999999999999999999999999999731 1 2368999999999
Q ss_pred cEEEEEe
Q 033960 98 SVIIVLR 104 (107)
Q Consensus 98 ~Vv~Is~ 104 (107)
+|++|+|
T Consensus 77 ~I~~i~p 83 (83)
T 1mgq_A 77 NIVYISP 83 (83)
T ss_dssp GEEEEEC
T ss_pred EEEEEEC
Confidence 9999985
No 11
>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=99.90 E-value=1.1e-23 Score=133.51 Aligned_cols=73 Identities=21% Similarity=0.352 Sum_probs=65.2
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCC-eEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNN-KKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRG 96 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~g-r~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG 96 (107)
...|+++|.+++ +++|+|+|++| +.+.|+|+|||+||||+|+||+|++. ++ ..+.+|.+||||
T Consensus 3 m~~P~~~L~~~~--~~~v~V~lk~g~~~~~G~L~~~D~~mNlvL~d~~e~~~-----~~---------~~~~lg~v~iRG 66 (77)
T 1ljo_A 3 MVLPNQMVKSMV--GKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKG-----EE---------KVRSLGEIVLRG 66 (77)
T ss_dssp CCCHHHHHHHTT--TSEEEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEET-----TE---------EEEEEEEEEECG
T ss_pred ccchHHHHHHHC--CCEEEEEEeCCCEEEEEEEEEECCcceEEEeeEEEEec-----CC---------cEeECCeEEEeC
Confidence 468999999999 99999999999 99999999999999999999999973 11 236899999999
Q ss_pred CcEEEEEeCC
Q 033960 97 DSVIIVLRNP 106 (107)
Q Consensus 97 d~Vv~Is~~~ 106 (107)
+||++|++..
T Consensus 67 ~nI~~i~~~d 76 (77)
T 1ljo_A 67 NNVVLIQPQE 76 (77)
T ss_dssp GGEEEEEEC-
T ss_pred CeEEEEEeCC
Confidence 9999999864
No 12
>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=99.90 E-value=1.4e-23 Score=134.27 Aligned_cols=73 Identities=27% Similarity=0.446 Sum_probs=64.8
Q ss_pred cCCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeC
Q 033960 17 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRG 96 (107)
Q Consensus 17 ~~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG 96 (107)
....|+++|.+++ +++|+|+|++|+.+.|+|+|||+||||+|+||+|+ . +. ..+.+|.+||||
T Consensus 8 ~~~~P~~~L~~~~--~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~-~-----~~---------~~~~lg~v~iRG 70 (81)
T 1i8f_A 8 CFATLGATLQDSI--GKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEI-I-----DG---------NVYKRGTMVVRG 70 (81)
T ss_dssp --CCHHHHHHTTT--TSEEEEEEGGGEEEEEEEEEECTTCCEEEEEEEEE-E-----TT---------EEEEEEEEEECG
T ss_pred cccchHHHHHHHC--CCeEEEEEcCCcEEEEEEEEEcCCCeeEEccEEEE-c-----CC---------cccCCCEEEECC
Confidence 3679999999999 99999999999999999999999999999999999 2 11 236899999999
Q ss_pred CcEEEEEeCC
Q 033960 97 DSVIIVLRNP 106 (107)
Q Consensus 97 d~Vv~Is~~~ 106 (107)
++|++|++.+
T Consensus 71 ~~I~~i~~~d 80 (81)
T 1i8f_A 71 ENVLFISPVP 80 (81)
T ss_dssp GGEEEEEECC
T ss_pred CEEEEEEeCC
Confidence 9999999865
No 13
>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=99.90 E-value=5.9e-24 Score=134.30 Aligned_cols=73 Identities=26% Similarity=0.395 Sum_probs=64.6
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 97 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd 97 (107)
+..|+++|++++ +++|+|+|++|+.+.|+|+|||+||||+|+||+|++. ++ ..+.+|.++|||+
T Consensus 2 ~~~P~~~L~~~~--~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~-----~~---------~~~~lg~v~iRG~ 65 (75)
T 4emk_B 2 DSSPNEFLNKVI--GKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVN-----GK---------KTNVYGDAFIRGN 65 (75)
T ss_dssp CSHHHHHHHHTT--TSEEEEECTTSCEEEEEEEEECTTCEEEEEEEEEEET-----TE---------EEEEEEEEEEEGG
T ss_pred CCchHHHHHHhC--CCeEEEEEcCCcEEEEEEEEEcCcceEEEccEEEEec-----CC---------cccEecEEEEcCC
Confidence 357999999999 9999999999999999999999999999999999862 11 1367999999999
Q ss_pred cEEEEEeCC
Q 033960 98 SVIIVLRNP 106 (107)
Q Consensus 98 ~Vv~Is~~~ 106 (107)
+|++|++..
T Consensus 66 ~I~~i~~~~ 74 (75)
T 4emk_B 66 NVLYVSALD 74 (75)
T ss_dssp GSSEEEEC-
T ss_pred eEEEEEecC
Confidence 999999864
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=99.90 E-value=5.3e-24 Score=139.80 Aligned_cols=76 Identities=18% Similarity=0.434 Sum_probs=65.3
Q ss_pred ccCCCcHHHHHhhhcCCcEEEEEe----cCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeece
Q 033960 16 EFNTGPLSVLMMSVKNNTQVLINC----RNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISK 91 (107)
Q Consensus 16 ~~~~~Pl~~L~~~~~~~krV~V~l----r~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~ 91 (107)
+....|+++|.+++ +++|+|++ ++|+++.|+|+|||+||||+|+||+|++.. ++ ..+.+|.
T Consensus 12 ~~m~~Pl~lL~~~l--~~~v~V~l~~~~~~gr~~~G~L~gfD~~mNlvL~d~~E~~~~----~~---------~~~~lg~ 76 (92)
T 3s6n_E 12 KVMVQPINLIFRYL--QNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHSK----TK---------SRKQLGR 76 (92)
T ss_dssp --CCCHHHHHHHHH--HHTCEEEEEESSSCSSEEEEEEEEECTTCCEEEEEEEEECSS----SC---------CEEEEEE
T ss_pred eeccCCHHHHHHHh--CCCEEEEEEEEecCCEEEEEEEEEEcCcCcEEEeeeEEEecC----CC---------ceeEcCe
Confidence 45789999999999 88888888 999999999999999999999999999742 11 2368999
Q ss_pred EEEeCCcEEEEEeCC
Q 033960 92 MFLRGDSVIIVLRNP 106 (107)
Q Consensus 92 v~IRGd~Vv~Is~~~ 106 (107)
+||||+||++|++.+
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 999999999999876
No 15
>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=99.90 E-value=3.4e-23 Score=134.18 Aligned_cols=73 Identities=18% Similarity=0.240 Sum_probs=65.3
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 97 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd 97 (107)
...|+++|++++ +++|+|+|++|+.|.|+|+|||+||||+|+||+|+.. ++ ..+.+|.+||||+
T Consensus 4 ~~~P~~~L~~~~--~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~-----g~---------~~~~lg~v~IRG~ 67 (86)
T 3s6n_F 4 PLNPKPFLNGLT--GKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYID-----GA---------LSGHLGEVLIRCN 67 (86)
T ss_dssp CCCHHHHHHHHT--TSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEET-----TE---------EEEEESSEEECGG
T ss_pred CcCcHHHHHHhC--CCeEEEEEcCCeEEEEEEEEEcCceEEEEeeEEEEcC-----Cc---------eeeEccEEEEeCC
Confidence 467999999999 9999999999999999999999999999999998852 11 1367999999999
Q ss_pred cEEEEEeCC
Q 033960 98 SVIIVLRNP 106 (107)
Q Consensus 98 ~Vv~Is~~~ 106 (107)
||++|++.+
T Consensus 68 nI~~i~~~d 76 (86)
T 3s6n_F 68 NVLYIRGVE 76 (86)
T ss_dssp GEEEEEECC
T ss_pred eEEEEEeCC
Confidence 999999875
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=99.89 E-value=3.1e-23 Score=134.94 Aligned_cols=81 Identities=21% Similarity=0.426 Sum_probs=63.1
Q ss_pred CCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCc
Q 033960 19 TGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 98 (107)
Q Consensus 19 ~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~ 98 (107)
.+|.+.|.+++ +++|+|+|++||.+.|+|+|||+||||+|+||+|++...+.+++. ......+.+|.+||||++
T Consensus 3 ~~~~~~L~~~~--~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~----~~~~~~~~lg~v~iRG~~ 76 (91)
T 1d3b_B 3 VGKSSKMLQHI--DYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQ----AEREEKRVLGLVLLRGEN 76 (91)
T ss_dssp ----CCCGGGT--TSEEEEEETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTS----CCEEEEEEEEEEEECGGG
T ss_pred CChhHHHHHHc--CCcEEEEECCCeEEEEEEEEECCCCeEEecCEEEEeecccccccc----ccCccEeECCEEEECCCe
Confidence 45677899999 999999999999999999999999999999999987542211110 011245789999999999
Q ss_pred EEEEEeC
Q 033960 99 VIIVLRN 105 (107)
Q Consensus 99 Vv~Is~~ 105 (107)
|++|++.
T Consensus 77 I~~i~~~ 83 (91)
T 1d3b_B 77 LVSMTVE 83 (91)
T ss_dssp EEEEEEE
T ss_pred EEEEEcC
Confidence 9999864
No 17
>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=99.88 E-value=1.7e-22 Score=127.73 Aligned_cols=73 Identities=14% Similarity=0.249 Sum_probs=64.2
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 97 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd 97 (107)
...|+.+|+.++ +++|.|+|++|++++|+|.|||+|||++|+||+|+.. + + ..+++|.+||||+
T Consensus 3 ~~~P~~~L~~~~--g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~e~~~----~--~--------~~~~lg~v~IRG~ 66 (75)
T 1d3b_A 3 IGVPIKVLHEAE--GHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYR----D--G--------RVAQLEQVYIRGC 66 (75)
T ss_dssp -CCHHHHHHHTT--TSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECT----T--S--------CEEEEEEEEECGG
T ss_pred ccCHHHHHHHhC--CCEEEEEECCCcEEEEEEEEEccceeEEEEeEEEECC----C--C--------cEEEcCeEEEeCC
Confidence 357999999999 9999999999999999999999999999999999852 1 1 1357999999999
Q ss_pred cEEEEEeCC
Q 033960 98 SVIIVLRNP 106 (107)
Q Consensus 98 ~Vv~Is~~~ 106 (107)
+|.+|+.++
T Consensus 67 nI~~i~lPd 75 (75)
T 1d3b_A 67 KIRFLILPD 75 (75)
T ss_dssp GEEEEEECC
T ss_pred EEEEEEcCC
Confidence 999998753
No 18
>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=99.88 E-value=1.3e-22 Score=137.53 Aligned_cols=81 Identities=15% Similarity=0.253 Sum_probs=56.2
Q ss_pred cCCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeC
Q 033960 17 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRG 96 (107)
Q Consensus 17 ~~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG 96 (107)
-...|+..|.+++ +++|+|+|+|||.|.|+|+|||+||||+|+||+|++... ++. ......+.+|.+||||
T Consensus 20 ~kke~i~~L~~~l--~k~V~V~L~dGr~~~G~L~~fD~~mNLVL~d~~E~~~~~----~~~---~~~~~~r~lG~v~IRG 90 (113)
T 4emk_C 20 PRKESILDLSRYQ--DQRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNP----EDG---KLTGAIRKLGLVVVRG 90 (113)
T ss_dssp ------------C--CSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEC----------------CCEEEEEEEEECT
T ss_pred CccchHHHHHHHc--CCcEEEEEeCCeEEEEEEEEEcCcccEEEeeEEEEEcCC----CCc---ccccceeEccEEEECC
Confidence 3567888999999 999999999999999999999999999999999998531 110 0112457899999999
Q ss_pred CcEEEEEeCC
Q 033960 97 DSVIIVLRNP 106 (107)
Q Consensus 97 d~Vv~Is~~~ 106 (107)
++|++|++..
T Consensus 91 ~nIv~I~~~d 100 (113)
T 4emk_C 91 TTLVLIAPMD 100 (113)
T ss_dssp TTEEEEEECC
T ss_pred CeEEEEEecC
Confidence 9999999864
No 19
>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=99.88 E-value=9.6e-23 Score=129.07 Aligned_cols=71 Identities=23% Similarity=0.387 Sum_probs=52.4
Q ss_pred CcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCcE
Q 033960 20 GPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSV 99 (107)
Q Consensus 20 ~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~V 99 (107)
.|-++|.+++ +++|+|+|++|+.+.|+|+|||+||||+|+||+|++.. + ..+.+|.++|||++|
T Consensus 4 ~~~~~L~~~~--~k~V~V~Lk~gr~~~G~L~~~D~~mNlvL~~~~e~~~~----~----------~~~~lg~v~iRG~~I 67 (76)
T 3s6n_G 4 AHPPELKKFM--DKKLSLKLNGGRHVQGILRGFDPFMNLVIDECVEMATS----G----------QQNNIGMVVIRGNSI 67 (76)
T ss_dssp ------------CCEEEEEETTTEEEEEEEEEECTTCCEEEEEEEECCCC------------------CBSSEEECSSSE
T ss_pred cchHHHHHhC--CCeEEEEECCCcEEEEEEEEECCcceEEEeceEEEccC----C----------cEeEcCEEEECCCeE
Confidence 3567999999 99999999999999999999999999999999999642 1 125799999999999
Q ss_pred EEEEeCC
Q 033960 100 IIVLRNP 106 (107)
Q Consensus 100 v~Is~~~ 106 (107)
++|++..
T Consensus 68 ~~i~~~d 74 (76)
T 3s6n_G 68 IMLEALE 74 (76)
T ss_dssp EEEEC--
T ss_pred EEEEecc
Confidence 9999764
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=99.86 E-value=7.2e-22 Score=132.39 Aligned_cols=74 Identities=19% Similarity=0.324 Sum_probs=53.6
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 97 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd 97 (107)
...|+.+|++++ +++|.|+|++|++|.|+|+|||+||||+|+||+|++. +++ ..+.+|.+||||+
T Consensus 14 ~~~p~~lL~~~i--gk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~e~~~----dg~---------~~~~lg~v~IRG~ 78 (105)
T 4emh_A 14 PMLPLTLLNATQ--GRPILVELKNGETFNGHLENCDNYMNLTLREVIRTMP----DGD---------KFFRLPECYIRGN 78 (105)
T ss_dssp --------------CCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECT----TSC---------EEEEEEEEEECGG
T ss_pred CCcHHHHHHHhC--CCEEEEEECCCCEEEEEEEEEcCCceEEEEEEEEEcc----CCc---------eeeEcCeEEEeCC
Confidence 356899999999 9999999999999999999999999999999999853 221 1367999999999
Q ss_pred cEEEEEeCC
Q 033960 98 SVIIVLRNP 106 (107)
Q Consensus 98 ~Vv~Is~~~ 106 (107)
+|++|+..+
T Consensus 79 nI~~I~~pd 87 (105)
T 4emh_A 79 NIKYLRIQD 87 (105)
T ss_dssp GEEEEEC--
T ss_pred eEEEEecCH
Confidence 999998764
No 21
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A
Probab=99.86 E-value=1.8e-21 Score=145.53 Aligned_cols=80 Identities=21% Similarity=0.428 Sum_probs=65.8
Q ss_pred CCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCc
Q 033960 19 TGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 98 (107)
Q Consensus 19 ~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~ 98 (107)
.++-..|.+++ +++|+|+|+|||+|+|+|++||+||||+|+||+|++...+++++. .....++++|++||||||
T Consensus 3 v~k~~kL~klI--dKrV~V~LkdGRel~GtLkgFDq~MNLVL~Da~E~~~ik~k~~k~----~~~~~~R~LGlV~IRGdn 76 (231)
T 3pgw_B 3 VGKSSKMLQHI--DYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQ----AEREEKRVLGLVLLRGEN 76 (231)
T ss_pred cCchHHHHHhc--CCeEEEEECCCcEEEEEEEEEcccccEEecCEEEEEeccCccccc----ccccceeEeceEEECCCc
Confidence 46677899999 999999999999999999999999999999999998533222111 011346899999999999
Q ss_pred EEEEEe
Q 033960 99 VIIVLR 104 (107)
Q Consensus 99 Vv~Is~ 104 (107)
|++|+.
T Consensus 77 IV~Isv 82 (231)
T 3pgw_B 77 LVSMTV 82 (231)
T ss_pred EEEEEe
Confidence 999984
No 22
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A
Probab=99.86 E-value=1.9e-21 Score=132.65 Aligned_cols=72 Identities=17% Similarity=0.242 Sum_probs=63.4
Q ss_pred CCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCc
Q 033960 19 TGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 98 (107)
Q Consensus 19 ~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~ 98 (107)
+.|+.+|+.++ +++|.|+|++|++|.|+|.+||+||||+|+||+|+.. + + ..+.+|.+||||+|
T Consensus 1 M~p~~~L~~~~--gk~V~V~Lk~g~~~~G~L~~~D~~MNlvL~d~~e~~~----~--~--------~~~~lg~v~IRG~n 64 (119)
T 1b34_A 1 MKLVRFLMKLS--HETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLK----N--R--------EPVQLETLSIRGNN 64 (119)
T ss_dssp -CHHHHHHTCT--TCEEEEEETTCCEEEEEEEEECTTCCEEEEEEEEECT----T--S--------CCEEEEEEEECGGG
T ss_pred CChHHHHHHhC--CCEEEEEEcCCCEEEEEEEEEcccceEEeccEEEecC----C--C--------ceeEcceEEEcCCe
Confidence 36999999999 9999999999999999999999999999999999852 1 1 12579999999999
Q ss_pred EEEEEeCC
Q 033960 99 VIIVLRNP 106 (107)
Q Consensus 99 Vv~Is~~~ 106 (107)
|++|+..+
T Consensus 65 I~~I~~pd 72 (119)
T 1b34_A 65 IRYFILPD 72 (119)
T ss_dssp EEEEECCT
T ss_pred EEEEEecc
Confidence 99999764
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=99.82 E-value=5.5e-20 Score=126.75 Aligned_cols=72 Identities=14% Similarity=0.283 Sum_probs=63.8
Q ss_pred CCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCc
Q 033960 19 TGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 98 (107)
Q Consensus 19 ~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~ 98 (107)
..|+.+|+.++ +++|.|+|++|++|.|+|.+||+||||+|+||+|+.. +++ ..+++.+||||++
T Consensus 4 ~~P~~~L~~~~--gk~V~VeLknG~~~~G~L~~~D~~MNi~L~dv~e~~~----~g~----------~~~l~~v~IRGnn 67 (126)
T 2y9a_D 4 GVPIKVLHEAE--GHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYR----DGR----------VAQLEQVYIRGSK 67 (126)
T ss_dssp CCSHHHHHSCS--SCEEEEEESSCCEEEEEEEEECTTSCEEEEEEEEECT----TSC----------CEEEEEEEECGGG
T ss_pred ccHHHHHHHhC--CCEEEEEECCCcEEEEEEEEEcCceEEEEeeEEEEcC----CCc----------EeecccEEEeCCE
Confidence 57999999999 9999999999999999999999999999999999852 111 2579999999999
Q ss_pred EEEEEeCC
Q 033960 99 VIIVLRNP 106 (107)
Q Consensus 99 Vv~Is~~~ 106 (107)
|++|...+
T Consensus 68 I~~I~lpd 75 (126)
T 2y9a_D 68 IRFLILPD 75 (126)
T ss_dssp EEEEECCS
T ss_pred EEEEEccc
Confidence 99998653
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=99.79 E-value=2.3e-19 Score=124.22 Aligned_cols=65 Identities=18% Similarity=0.243 Sum_probs=58.6
Q ss_pred HHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCcEEE
Q 033960 22 LSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVII 101 (107)
Q Consensus 22 l~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~Vv~ 101 (107)
.++|..++ +++|.|+|++|+.+.|+|+|||+||||+|+||+|+. + +.+|.+||||+||++
T Consensus 2 ~~~L~~~i--gk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~E~~--------~----------~~lg~v~IRG~nI~~ 61 (130)
T 1m5q_A 2 VAELNNLL--GREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKA--------G----------EKFNRVFIMYRYIVH 61 (130)
T ss_dssp HHHHHHTT--TSEEEEEETTSCEEEEEEEEECTTCCEEEEEEECTT--------C----------CEEEEEEECGGGEEE
T ss_pred hhHHHHhC--CCeEEEEECCCcEEEEEEEEEcccceeEEeeEEEEc--------C----------CEeceEEEeCCeEEE
Confidence 36899999 999999999999999999999999999999999862 1 359999999999999
Q ss_pred EEeCC
Q 033960 102 VLRNP 106 (107)
Q Consensus 102 Is~~~ 106 (107)
|.+.+
T Consensus 62 I~~~d 66 (130)
T 1m5q_A 62 IDSTE 66 (130)
T ss_dssp EEECC
T ss_pred EEcCC
Confidence 99764
No 25
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=98.26 E-value=7.7e-06 Score=52.62 Aligned_cols=63 Identities=24% Similarity=0.260 Sum_probs=51.4
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEec-CccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeC
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFD-RHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRG 96 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD-~hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG 96 (107)
...|+. |..++ +|.|.|.|.+|++++|.|.+|| ...|++|.|+ . +++ ....++|-|
T Consensus 6 ~~~p~e-l~~li--~KeV~V~l~dg~~y~G~l~tvDp~s~sIvL~n~----~----~~~------------~~~~~iI~G 62 (86)
T 1y96_A 6 KKGPLE-WQDYI--YKEVRVTASEKNEYKGWVLTTDPVSANIVLVNF----L----EDG------------SMSVTGIMG 62 (86)
T ss_dssp HSCHHH-HHHTT--TCEEEEEETTTEEEEEEEEEECTTTCCEEEEEE----C----TTS------------CEEEEEECG
T ss_pred hCCHHH-HHhhc--CCEEEEEEcCCCEEEEEEEEECCCceEEEEeec----c----cCC------------eEEEEEEec
Confidence 457774 57888 9999999999999999999999 9999999987 1 111 256888999
Q ss_pred CcEEEEE
Q 033960 97 DSVIIVL 103 (107)
Q Consensus 97 d~Vv~Is 103 (107)
..|.-|-
T Consensus 63 ~aI~eI~ 69 (86)
T 1y96_A 63 HAVQTVE 69 (86)
T ss_dssp GGEEEEE
T ss_pred ceEEEEE
Confidence 9887664
No 26
>1u1s_A HFQ protein; SM-like bacterial protein, riken structural genomics/proteomics initiative, RSGI, structural genomics, RNA binding protein; 1.60A {Pseudomonas aeruginosa} SCOP: b.38.1.2 PDB: 1u1t_A 3qui_A* 3m4g_A 3inz_A
Probab=97.37 E-value=0.00025 Score=45.17 Aligned_cols=38 Identities=26% Similarity=0.301 Sum_probs=33.3
Q ss_pred HHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEe
Q 033960 23 SVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVL 60 (107)
Q Consensus 23 ~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL 60 (107)
.+|....+++.+|.|.|.+|-.+.|.+++||+|+=|+-
T Consensus 10 ~fLn~lrk~~~~Vtv~L~NG~~l~G~I~~fD~ftVlL~ 47 (82)
T 1u1s_A 10 PYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLK 47 (82)
T ss_dssp HHHHHHHHTTCCEEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred HHHHHHHHcCCcEEEEEeCCcEEEEEEEEEcceEEEEe
Confidence 37777777899999999999999999999999986554
No 27
>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=97.33 E-value=0.00022 Score=44.57 Aligned_cols=38 Identities=24% Similarity=0.307 Sum_probs=33.5
Q ss_pred HHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEe
Q 033960 23 SVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVL 60 (107)
Q Consensus 23 ~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL 60 (107)
.+|..+.+++.+|.|.|.+|-.+.|.+.+||+|+=++-
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 47888888899999999999999999999999985544
No 28
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=97.29 E-value=0.00035 Score=44.19 Aligned_cols=37 Identities=30% Similarity=0.328 Sum_probs=33.1
Q ss_pred HHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceE
Q 033960 23 SVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMV 59 (107)
Q Consensus 23 ~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlv 59 (107)
.+|..+.+++.+|.|.|.+|-.+.|.+.+||+|+=++
T Consensus 11 ~fLn~lrk~k~~VtI~LvnG~~L~G~I~~fD~f~VlL 47 (79)
T 3sb2_A 11 PFLNALRKEHVPVSIYLVNGIKLQGHVESFDQYVVLL 47 (79)
T ss_dssp HHHHHHHHTTCCEEEEETTSCEEEEEEEEECSSEEEE
T ss_pred HHHHHHHhcCCeEEEEEeCCCEEEEEEEEECCcEEEE
Confidence 4778888889999999999999999999999998554
No 29
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=97.15 E-value=0.00058 Score=43.07 Aligned_cols=39 Identities=28% Similarity=0.302 Sum_probs=33.4
Q ss_pred HHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 24 VLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 24 ~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
+|..+.+++.+|.|.|.+|-.+.|.+.+||+|+=++-.+
T Consensus 15 fLn~lrk~~~~Vtv~L~nG~~l~G~I~~fD~f~VlL~~~ 53 (78)
T 3ahu_A 15 FLNQIRKENTYVTVFLLNGFQLRGQVKGFDNFTVLLESE 53 (78)
T ss_dssp HHHHHHHHTCCEEEEETTSCEEEEEEEEECSSEEEEESS
T ss_pred HHHHHHHcCCcEEEEEeCCeEEEEEEEEEcceEEEEEEC
Confidence 677777778999999999999999999999998655433
No 30
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=97.13 E-value=0.0006 Score=45.15 Aligned_cols=40 Identities=23% Similarity=0.303 Sum_probs=34.8
Q ss_pred HHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 23 SVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 23 ~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
.+|..+.+++.+|.|.|.+|-.+.|.+++||+|+=|+-++
T Consensus 12 ~fLn~lrk~k~~VtI~LvNG~~L~G~I~~fD~f~VlL~~~ 51 (104)
T 2y90_A 12 PFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNT 51 (104)
T ss_dssp HHHHHHHHTTCCEEEEETTSCEEEEEEEEECSSEEEEESS
T ss_pred HHHHHHHhcCCcEEEEEeCCCEEEEEEEEECCcEEEEECC
Confidence 4788888889999999999999999999999998655543
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=97.12 E-value=0.00094 Score=41.96 Aligned_cols=40 Identities=18% Similarity=0.173 Sum_probs=34.4
Q ss_pred HHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 23 SVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 23 ~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
.+|..+.+++.+|.|.|.+|-.+.|.+.+||+|+=++-.+
T Consensus 10 ~fLn~lrk~k~~VtI~L~nG~~l~G~I~~fD~f~VlL~~~ 49 (77)
T 1kq1_A 10 KALENFKANQTEVTVFFLNGFQMKGVIEEYDKYVVSLNSQ 49 (77)
T ss_dssp HHHHHHHHHTCEEEEEETTSCEEEEEEEEECSSEEEEEET
T ss_pred HHHHHHHhcCCeEEEEEeCCCEEEEEEEEECCcEEEEEEC
Confidence 3677777789999999999999999999999998665544
No 32
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=97.03 E-value=0.00085 Score=41.59 Aligned_cols=39 Identities=23% Similarity=0.076 Sum_probs=33.0
Q ss_pred HHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 24 VLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 24 ~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
+|.....++.+|.|.|.+|-.+.|.+++||+|+=++-.+
T Consensus 17 fLn~~r~~~~~Vtv~L~NG~~l~G~I~~fD~ftVll~~~ 55 (71)
T 2qtx_A 17 FEYARRLNGKKVKIFLRNGEVLDAEVTGVSNYEIMVKVG 55 (71)
T ss_dssp CCGGGGGTTCEEEEEETTSCEEEEEEEEECSSEEEEEET
T ss_pred HHHHHHHcCCcEEEEEeCCeEEEEEEEEEcceEEEEEeC
Confidence 456667779999999999999999999999998665443
No 33
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=95.61 E-value=0.023 Score=34.94 Aligned_cols=42 Identities=21% Similarity=0.259 Sum_probs=36.6
Q ss_pred CCc-HHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEe
Q 033960 19 TGP-LSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVL 60 (107)
Q Consensus 19 ~~P-l~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL 60 (107)
..| ...|+.++++...|.|+|-+|..+.|.+.-+|.|+=++.
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 344 678999999999999999999999999999999985443
No 34
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=95.38 E-value=0.041 Score=34.01 Aligned_cols=39 Identities=23% Similarity=0.270 Sum_probs=35.2
Q ss_pred HHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEe
Q 033960 22 LSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVL 60 (107)
Q Consensus 22 l~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL 60 (107)
...|+.++++...|.|+|-+|..+.|.+.-+|.|+=++.
T Consensus 13 vR~lQ~~Ik~k~~V~I~L~tGd~l~G~i~WQD~~cl~L~ 51 (72)
T 3hfn_A 13 IRQLQNLIKQAAPVEIKLVTGDAITGRVLWQDPTCVCIA 51 (72)
T ss_dssp HHHHHHHHSSCCEEEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred HHHHHHHHhhCceEEEEecCCCEEEEEEEEECCCEEEEE
Confidence 678999999999999999999999999999999984443
No 35
>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=93.33 E-value=0.19 Score=30.43 Aligned_cols=41 Identities=20% Similarity=0.377 Sum_probs=32.6
Q ss_pred HHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEe
Q 033960 24 VLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMW 67 (107)
Q Consensus 24 ~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~ 67 (107)
.|.+|. ++||-|-.-+...|+|+|.-||.-. |.|+||+.+.
T Consensus 10 tL~~WK--g~rvAv~vg~ehSFtGiledFDeEv-iLL~dV~D~~ 50 (71)
T 1ycy_A 10 VLKEWK--GHKVAVSVGGDHSFTGTLEDFDEEV-ILLKDVVDVI 50 (71)
T ss_dssp HHHHHT--TSEEEEEEC----CEEEEEEECSSE-EEEEEEEETT
T ss_pred HHHHhC--CcEEEEEecCcceeeeehhhcCcce-eehhhHHHHh
Confidence 678887 9999999999999999999999975 7789988764
No 36
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=92.46 E-value=1.3 Score=28.17 Aligned_cols=70 Identities=17% Similarity=0.345 Sum_probs=51.5
Q ss_pred hhcCCcEEEEEecCCeEEEEEEEEecCc-cceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCcEEEEEe
Q 033960 28 SVKNNTQVLINCRNNKKLLGRVRAFDRH-CNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVLR 104 (107)
Q Consensus 28 ~~~~~krV~V~lr~gr~i~G~L~~fD~h-mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~Vv~Is~ 104 (107)
++ |++|.+..+.+-.|.|+|...|.. .-+.|.||.-+.++..+.+ .. .+ ....-+..++.||+.|--+.-
T Consensus 11 yI--Gs~iSLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~---~~-ip-p~~~vy~yIvFrgsDIKdL~V 81 (88)
T 2vxe_A 11 EL--GSKISLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQ---FQ-IA-PQSQIYDYILFRGSDIKDIRV 81 (88)
T ss_dssp CT--TCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCS---SC-CC-CCCSCEEEEEEETTTEEEEEE
T ss_pred cc--CCeEEEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCCC---cc-cC-CCCceeeEEEEccCCccEEEE
Confidence 46 999999999999999999999965 6788999987766422111 11 11 223457899999999877653
No 37
>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=91.87 E-value=1.1 Score=28.86 Aligned_cols=77 Identities=16% Similarity=0.185 Sum_probs=51.9
Q ss_pred cHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecC-ccceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCcE
Q 033960 21 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDR-HCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSV 99 (107)
Q Consensus 21 Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~-hmNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~V 99 (107)
|-..-..++ |++|.+..+.+-.|.|+|...|. -.-+.|.||.-+.++..+. .+. .+ ....-+..++.||+.|
T Consensus 10 ~~~~~~~~I--Gs~ISLISk~dIRYeGiL~~In~~~sTiaL~nVRsfGTEgR~~-~~~---ip-p~~~vyeyIvFrGsDI 82 (95)
T 2fb7_A 10 DPSGGTPYI--GSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPT-DRP---IA-PRDETFEYIIFRGSDI 82 (95)
T ss_dssp ------CCS--SEEEEEEETTTEEEEEEEEEEETTTTEEEEESCCCCSCCSSSC-SSC---CC-SCCCCSSCEEECSTTE
T ss_pred CCCccCccc--CCeEEEEECCCceEEEEEecccCccCEEEEEeeeEecccCCCC-CCc---cC-CCCcceeEEEEcCCCc
Confidence 333445677 99999999999999999999985 5678899987666542211 110 11 2234579999999999
Q ss_pred EEEEe
Q 033960 100 IIVLR 104 (107)
Q Consensus 100 v~Is~ 104 (107)
--++-
T Consensus 83 KDL~V 87 (95)
T 2fb7_A 83 KDLTV 87 (95)
T ss_dssp EEEEE
T ss_pred ceEEE
Confidence 77653
No 38
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=90.54 E-value=0.43 Score=32.25 Aligned_cols=39 Identities=21% Similarity=0.210 Sum_probs=32.0
Q ss_pred HhhhcCCcEEEEEecCCeEEEEEEEEecCccceEe--eceEEEe
Q 033960 26 MMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVL--ENVREMW 67 (107)
Q Consensus 26 ~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL--~d~~E~~ 67 (107)
..++ |+.|.|.|++|..++|++..+|. =+|.| ++|...+
T Consensus 8 sqFl--Gy~V~v~LkDgs~~qG~I~~vd~-k~LtL~~~~a~~s~ 48 (125)
T 4a53_A 8 ADFY--GSNVEVLLNNDSKARGVITNFDS-SNSILQLRLANDST 48 (125)
T ss_dssp HHHT--TCEEEEEETTSCEEEEEEEEEET-TTTEEEEEETTTEE
T ss_pred HHhc--CceEEEEECCCCEeeEEEEeecC-CeeEEecccccccc
Confidence 5677 99999999999999999999984 46777 8875443
No 39
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=88.85 E-value=3.1 Score=26.28 Aligned_cols=63 Identities=19% Similarity=0.246 Sum_probs=47.0
Q ss_pred HHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCcc-ceEeeceEEEeeccCCCCCCccccccCcceeeeceEEEeCCcEE
Q 033960 22 LSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHC-NMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVI 100 (107)
Q Consensus 22 l~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hm-NlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRGd~Vv 100 (107)
|.+|.... +++|.+.+..+-++.|.+.|+|... |+..++- ++ | - ..++..++|+..|+
T Consensus 21 Lr~l~~m~--~~~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L-~T----P---i-----------Gv~~eAlLR~~Dii 79 (85)
T 1y96_B 21 LRSLLAMV--GHQVSFTLHEGVRVAAHFGATDLDVANFYVSQL-QT----P---I-----------GVQAEALLRCSDII 79 (85)
T ss_dssp HHHHHHHT--TSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEE-CC----T---T-----------CCEEEEEEEGGGEE
T ss_pred HHHHHHhC--CCceEEEEeCCeEEEEEEEecCcccceeEhhhc-CC----C---c-----------ccchhhhhhcCCEE
Confidence 55666666 9999999999999999999999754 4444331 11 1 1 13778999999999
Q ss_pred EEEeC
Q 033960 101 IVLRN 105 (107)
Q Consensus 101 ~Is~~ 105 (107)
+++-.
T Consensus 80 ~~sF~ 84 (85)
T 1y96_B 80 SYTFK 84 (85)
T ss_dssp EEEEC
T ss_pred EEEec
Confidence 99854
No 40
>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=84.39 E-value=1.2 Score=30.96 Aligned_cols=33 Identities=15% Similarity=0.303 Sum_probs=25.5
Q ss_pred HHhhhcCCcEEEEEec----CCeEEEEEEEEecCccceEe
Q 033960 25 LMMSVKNNTQVLINCR----NNKKLLGRVRAFDRHCNMVL 60 (107)
Q Consensus 25 L~~~~~~~krV~V~lr----~gr~i~G~L~~fD~hmNlvL 60 (107)
+.++. |+.|.|.++ +.+.+.|+|.++|.- .+.|
T Consensus 99 f~r~~--G~~V~V~l~~~~~g~k~~~G~L~~~~~~-~v~l 135 (164)
T 1ib8_A 99 VAGAV--GKYIHVGLYQAIDKQKVFEGTLLAFEED-ELTM 135 (164)
T ss_dssp HHHHC--SEEEEEECSSCSSSCSEEEEEEEEEETT-EEEE
T ss_pred HHHhC--CcEEEEEEecccCCceEEEEEEEEEeCC-EEEE
Confidence 35666 999999994 458999999999875 3444
No 41
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=83.39 E-value=2.5 Score=26.64 Aligned_cols=37 Identities=27% Similarity=0.292 Sum_probs=33.1
Q ss_pred HhhhcCCcEEEEEecCCe-EEEEEEEEecCc-cceEeeceE
Q 033960 26 MMSVKNNTQVLINCRNNK-KLLGRVRAFDRH-CNMVLENVR 64 (107)
Q Consensus 26 ~~~~~~~krV~V~lr~gr-~i~G~L~~fD~h-mNlvL~d~~ 64 (107)
.+|+ |+.|.+..+++- .|.|.|..+|.+ -||.|.+|.
T Consensus 5 ~~~i--Gs~VSi~c~d~lGvYQG~i~~vd~~~~tItL~~~f 43 (84)
T 2vc8_A 5 TDWL--GSIVSINCGDSLGVYQGRVSAVDQVSQTISLTRPF 43 (84)
T ss_dssp CTTT--TCEEEEECCTTTCEEEEEEEEEETTTTEEEEEEEE
T ss_pred cccc--CCEEEEEECCCceEEEEEEEEeccCCCeEEEehhh
Confidence 4678 999999999997 999999999987 479999984
No 42
>3rux_A BIRA bifunctional protein; biotin-protein ligase, ligase-ligase inhibitor complex; HET: BS5; 1.70A {Mycobacterium tuberculosis} PDB: 3l1a_A 3l2z_A 2cgh_A
Probab=82.59 E-value=2.5 Score=31.25 Aligned_cols=34 Identities=15% Similarity=0.271 Sum_probs=30.1
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
..|++|+|...++..+.|+..|.|..-.|+|+..
T Consensus 222 ~~g~~V~v~~~~~~~~~G~~~gId~~G~L~v~~~ 255 (270)
T 3rux_A 222 TIGSRVRVELPGGQDVVGIARDIDDQGRLCLDVG 255 (270)
T ss_dssp STTSEEEEECTTSCEEEEEEEEECTTSCEEEEET
T ss_pred ccCCEEEEEECCCeEEEEEEEEECCCCeEEEEEC
Confidence 4489999998888999999999999999999653
No 43
>2xk0_A Polycomb protein PCL; transcription, aromatic CAGE; NMR {Drosophila melanogaster}
Probab=75.54 E-value=7.4 Score=23.56 Aligned_cols=40 Identities=20% Similarity=0.447 Sum_probs=32.1
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEe-eceEEEeec
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVL-ENVREMWTE 69 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL-~d~~E~~~~ 69 (107)
..+..|.++-.||+.|-|+++...+.-=+|. +|-.|.|..
T Consensus 17 ~~geDVL~rw~DG~fYLGtIVd~~~~~ClV~FeD~S~~Wv~ 57 (69)
T 2xk0_A 17 ALQEDVFIKCNDGRFYLGTIIDQTSDQYLIRFDDQSEQWCE 57 (69)
T ss_dssp CTTCEEEEECTTSCEEEEEEEEECSSCEEEEETTCCEEEEC
T ss_pred ccCCeEEEEecCCCEEEEEEEecCCceEEEEecCCcceeee
Confidence 4599999999999999999987777666655 676777753
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=74.92 E-value=5.1 Score=25.68 Aligned_cols=25 Identities=16% Similarity=0.258 Sum_probs=20.5
Q ss_pred HHhhhcCCcEEEEEecCCeEEEEEE
Q 033960 25 LMMSVKNNTQVLINCRNNKKLLGRV 49 (107)
Q Consensus 25 L~~~~~~~krV~V~lr~gr~i~G~L 49 (107)
+...+.-..+|++.|.||+.+.||+
T Consensus 21 ~~~~LdGq~~v~i~l~DGs~l~GTv 45 (101)
T 2e12_A 21 WVKLLDGQERVRIELDDGSMIAGTV 45 (101)
T ss_dssp HHHTSCTTCEEEEEETTSCEEEEEE
T ss_pred HHHhhCCeeEEEEEEcCCCeEeeee
Confidence 3444455789999999999999997
No 45
>4hcz_A PHD finger protein 1; protein-peptide complex, tudor, histone binding, H3K36ME3, N nucleus, transcription; HET: M3L; 1.85A {Homo sapiens}
Probab=63.96 E-value=12 Score=21.94 Aligned_cols=39 Identities=15% Similarity=0.212 Sum_probs=30.0
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCcc---ceEeeceEEEee
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHC---NMVLENVREMWT 68 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hm---NlvL~d~~E~~~ 68 (107)
..|.-|.+.-.||+.|-|+++.+|..- =+...|-.+.|.
T Consensus 5 ~~GedVLarwsDG~fYlGtI~~V~~~~~~clV~F~D~s~~W~ 46 (58)
T 4hcz_A 5 WEGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLV 46 (58)
T ss_dssp CTTCEEEEECTTSCEEEEEEEEEETTTTEEEEEETTSCEEEE
T ss_pred ccCCEEEEEecCCCEEeEEEEEEecCCCEEEEEEcCCCeEEE
Confidence 348899999999999999999988763 334466666664
No 46
>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=60.37 E-value=9.7 Score=27.43 Aligned_cols=30 Identities=13% Similarity=0.152 Sum_probs=23.9
Q ss_pred CCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 31 NNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 31 ~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
.+++|+|...++ +.|+..|.|..-.|++++
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 699999987766 999999999999999965
No 47
>2ej9_A Putative biotin ligase; biotin biosynthesis, monomer, X-RAY diffraction, structural genomics, NPPSFA; HET: BTN; 2.00A {Methanocaldococcus jannaschii}
Probab=58.27 E-value=21 Score=25.55 Aligned_cols=42 Identities=21% Similarity=0.172 Sum_probs=32.2
Q ss_pred CcHHHHHhhh----cCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 20 GPLSVLMMSV----KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 20 ~Pl~~L~~~~----~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
+.-.++..|. -.+++|+|...++..+.|+..|.|..-.|+ ++
T Consensus 176 g~~~~~~~~~~~~~~~g~~V~v~~~~~~~~~G~~~gId~~G~L~-~~ 221 (237)
T 2ej9_A 176 DDYEILKKYKKYSITIGKQVKILLSNNEIITGKVYDIDFDGIVL-GT 221 (237)
T ss_dssp CHHHHHHHHHHHBSSTTCEEEEEETTSCEEEEEEEEECSSEEEE-EE
T ss_pred CHHHHHHHHHHhhCccCCEEEEEECCCeEEEEEEEEECCCCeEE-Ec
Confidence 3334444443 359999999887766999999999999999 64
No 48
>4a8c_A Periplasmic PH-dependent serine endoprotease DEGQ; chaperone, hydrolase; 7.50A {Escherichia coli} PDB: 4a8a_A 4a8b_A 4a9g_A
Probab=55.23 E-value=20 Score=27.89 Aligned_cols=35 Identities=9% Similarity=0.293 Sum_probs=29.8
Q ss_pred hcCCcEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 29 VKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 29 ~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
+....++.|.+.+|+.+.++++++|....|.|=.+
T Consensus 84 v~~a~~i~V~~~dg~~~~a~vv~~d~~~DlAllkv 118 (436)
T 4a8c_A 84 INQAQKISIQLNDGREFDAKLIGSDDQSDIALLQI 118 (436)
T ss_pred hCCCCEEEEEeCCCCEEEEEEEEEcCCCCEEEEEe
Confidence 34457899999999999999999999999988544
No 49
>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=54.70 E-value=26 Score=26.04 Aligned_cols=34 Identities=24% Similarity=0.343 Sum_probs=28.4
Q ss_pred hhcCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 28 SVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 28 ~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
+.-.|++|+|... +..+.|+..|.|..-.|++++
T Consensus 269 ~~~~g~~V~v~~~-~~~~~G~~~gid~~G~L~v~~ 302 (321)
T 1bia_A 269 DNFINRPVKLIIG-DKEIFGISRGIDKQGALLLEQ 302 (321)
T ss_dssp BTTTTSEEEEEET-TEEEEEEEEEECTTSCEEEEE
T ss_pred hhhcCCEEEEEEC-CcEEEEEEEEECCCCeEEEEE
Confidence 3345999999865 568999999999999999964
No 50
>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=53.52 E-value=19 Score=28.23 Aligned_cols=34 Identities=15% Similarity=0.286 Sum_probs=28.9
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
.....|.|.+.+|+.+.++++++|....|.|=.+
T Consensus 108 ~~a~~i~V~~~dg~~~~a~vv~~d~~~DlAvlkv 141 (448)
T 1ky9_A 108 DNATVIKVQLSDGRKFDAKMVGKDPRSDIALIQI 141 (448)
T ss_dssp TTEEEEEEEETTSCEEEEEEEEEETTTTEEEEEE
T ss_pred CCCCEEEEEECCCCEEEEEEEEEcCCCCEEEEEe
Confidence 3346899999999999999999999999987543
No 51
>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=53.34 E-value=13 Score=26.59 Aligned_cols=30 Identities=7% Similarity=0.161 Sum_probs=26.1
Q ss_pred CCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 31 NNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 31 ~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
.+++|+|...++ +.|+..|.|..-.|++++
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 599999976654 999999999999999964
No 52
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=51.48 E-value=46 Score=21.43 Aligned_cols=38 Identities=11% Similarity=0.130 Sum_probs=32.0
Q ss_pred HhhhcCCcEEEEEecCCe-EEEEEEEEecCccceEeeceEEE
Q 033960 26 MMSVKNNTQVLINCRNNK-KLLGRVRAFDRHCNMVLENVREM 66 (107)
Q Consensus 26 ~~~~~~~krV~V~lr~gr-~i~G~L~~fD~hmNlvL~d~~E~ 66 (107)
..|+ |+-|.|...+.- .|.|.+...|+ -+|.|.+|..-
T Consensus 8 edwi--G~~VSI~C~d~LGVyQG~I~~V~~-~~ItL~kaFrN 46 (103)
T 2rm4_A 8 QDWI--GCAVSIACDEVLGVFQGLIKQISA-EEITIVRAFRN 46 (103)
T ss_dssp GGGT--TCEEEEEECTTTCEEEEEEEEEET-TEEEEEEEEET
T ss_pred ccee--ceEEEEeeCCcceEeeEEEEEccc-ceeEEhhhhhc
Confidence 3688 999999999984 99999999996 45999887643
No 53
>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=49.80 E-value=17 Score=23.60 Aligned_cols=27 Identities=30% Similarity=0.375 Sum_probs=20.9
Q ss_pred cCCeEEEEEE---EEecCccceEeeceEEE
Q 033960 40 RNNKKLLGRV---RAFDRHCNMVLENVREM 66 (107)
Q Consensus 40 r~gr~i~G~L---~~fD~hmNlvL~d~~E~ 66 (107)
++...+.|.| +-.|+.|.++|.|++=.
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 4456788877 56699999999998633
No 54
>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=49.30 E-value=24 Score=26.50 Aligned_cols=32 Identities=16% Similarity=0.283 Sum_probs=26.5
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
-.|++|+|... +..+.|+..|.|..-.|+|++
T Consensus 277 ~~g~~V~v~~~-~~~~~G~~~gId~~G~Llv~~ 308 (323)
T 3rkx_A 277 IWNRTLLFTEN-DKQFKGQAIDLDYDGYLIVRD 308 (323)
T ss_dssp CSSSCEEEECC--CEEEEEEEEECTTSCEEEEE
T ss_pred hcCCEEEEEEC-CeEEEEEEEEECCCCEEEEEE
Confidence 44889999764 567999999999999999964
No 55
>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=48.59 E-value=9.4 Score=23.80 Aligned_cols=27 Identities=11% Similarity=0.295 Sum_probs=22.3
Q ss_pred HHHHHhhhcCCcEEEEEecCCeEEEEE
Q 033960 22 LSVLMMSVKNNTQVLINCRNNKKLLGR 48 (107)
Q Consensus 22 l~~L~~~~~~~krV~V~lr~gr~i~G~ 48 (107)
-+.|.-+...+.++.|.++||..+.|+
T Consensus 15 yD~LElAc~~~~~l~l~l~dGe~~~g~ 41 (86)
T 1sg5_A 15 YDNLELACQHHLMLTLELKDGEKLQAK 41 (86)
T ss_dssp HHHHHHHHTTTTCEEEECTTTCCEEES
T ss_pred hhHHHHHHHcCCeEEEEEeCCCEEEEE
Confidence 356777777799999999999988884
No 56
>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=48.16 E-value=38 Score=24.04 Aligned_cols=28 Identities=14% Similarity=0.113 Sum_probs=24.3
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
-.+++|+| ++ +.|+..|.|..-.|+++.
T Consensus 192 ~~g~~V~v---~~--~~G~~~gId~~G~L~v~~ 219 (235)
T 3bfm_A 192 GMGEARTE---AG--RSGTFLGVDEDFGMLLRD 219 (235)
T ss_dssp TTTSEEEE---TT--EEEEEEEECTTCCEEEEC
T ss_pred hcCCEEEE---Ee--EEEEEEEECCCCeEEEEe
Confidence 35899999 44 999999999999999964
No 57
>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=46.80 E-value=35 Score=25.05 Aligned_cols=34 Identities=6% Similarity=0.190 Sum_probs=28.3
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
.....+.|.+.+|+.+.+.+.+||...+|.|=.+
T Consensus 63 ~~~~~i~V~~~~g~~~~a~v~~~d~~~DlAllk~ 96 (318)
T 1te0_A 63 NDADQIIVALQDGRVFEALLVGSDSLTDLAVLII 96 (318)
T ss_dssp TTCSEEEEECTTSCEEEEEEEEEETTTTEEEEEC
T ss_pred CCCCEEEEEeCCCCEEEEEEEEeCCCceEEEEEE
Confidence 3345789999999999999999999999888443
No 58
>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=46.69 E-value=20 Score=23.80 Aligned_cols=29 Identities=10% Similarity=0.172 Sum_probs=22.0
Q ss_pred ecCCeEEEEEE---EEecCccceEeeceEEEe
Q 033960 39 CRNNKKLLGRV---RAFDRHCNMVLENVREMW 67 (107)
Q Consensus 39 lr~gr~i~G~L---~~fD~hmNlvL~d~~E~~ 67 (107)
+++...+.|.| +-.|+.|.++|.|++=..
T Consensus 55 vksk~sfKG~L~tYrfcDnVWtfilkd~~fk~ 86 (121)
T 1nh2_D 55 TQSKLTVKGNLDTYGFCDDVWTFIVKNCQVTV 86 (121)
T ss_dssp CCCEEEEEEEEEEEEEETTEEEEEEEEEEEEE
T ss_pred hccCCeEEeeeccccccCcEEEEEEeceEEEe
Confidence 34556778887 556999999999997543
No 59
>3stj_A Protease DEGQ; serine protease, PDZ domain, protease, chaperone, DEGP, DEGQ hydrolase; 2.60A {Escherichia coli}
Probab=46.61 E-value=27 Score=26.27 Aligned_cols=33 Identities=9% Similarity=0.248 Sum_probs=28.2
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
....++.|.+.+|+.+.+++.++|....|.|=.
T Consensus 85 ~~~~~i~V~~~dg~~~~a~vv~~d~~~DlAlLk 117 (345)
T 3stj_A 85 NQAQKISIQLNDGREFDAKLIGSDDQSDIALLQ 117 (345)
T ss_dssp TTEEEEEEECTTSCEEEEEEEEEETTTTEEEEE
T ss_pred CCCCEEEEEeCCCcEEEEEEEEEcCCCCEEEEE
Confidence 334688999999999999999999999988744
No 60
>3by7_A Uncharacterized protein; metagenomics, structural genomics, joint center for structur genomics, JCSG, protein structure initiative; 2.60A {Uncultured marine organism}
Probab=45.39 E-value=58 Score=20.85 Aligned_cols=65 Identities=9% Similarity=0.151 Sum_probs=44.2
Q ss_pred EEEecCCeEEEEEEEEecCccceEeeceEEEeeccCCCCCC----ccccccCcceeeeceEEEeCCcEEEEEeC
Q 033960 36 LINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKG----KKKALPVNKDRFISKMFLRGDSVIIVLRN 105 (107)
Q Consensus 36 ~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~~~~~~~~~----~~~~~~~~~~r~lg~v~IRGd~Vv~Is~~ 105 (107)
.|+|++|.++.|.+.--|.. +.++|..+.+.....++++ ...+.+.. .-..++||.+.|++++..
T Consensus 7 iiRlvSGEEIia~v~et~~~--i~i~nPv~V~~~~~e~gk~~gigF~pW~pls---de~~~ii~~~~ViT~~e~ 75 (100)
T 3by7_A 7 IMRLVTGEDIIGNISESQGL--ITIKKAFVIIPMQATPGKPVQLVLSPWQPYT---DDKEIVIDDSKVITITSP 75 (100)
T ss_dssp EEEETTSCEEEEEEEEETTE--EEEEEEEEEEEEC-----CCEEEEEESCTTB---CCSEEEEEGGGEEEEECB
T ss_pred EEEecCccceeEEEEecCce--EEEECCEEEEEeecCCCcceeEeeecccccC---cCceEEEchhhEEEEEeC
Confidence 47899999999999876664 8889999888542111111 12223322 256899999999999864
No 61
>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=45.08 E-value=42 Score=23.46 Aligned_cols=34 Identities=6% Similarity=0.225 Sum_probs=28.7
Q ss_pred hcCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 29 VKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 29 ~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
+.....+.|.+.+|+.+.+.+.++|....|.|=.
T Consensus 73 v~~~~~~~V~~~~g~~~~a~vv~~d~~~DlAll~ 106 (237)
T 3lgi_A 73 INDADQIIVALQDGRVFEALLVGSDSLTDLAVLK 106 (237)
T ss_dssp HTTCSEEEEECTTSCEEEEEEEEEETTTTEEEEE
T ss_pred cCCCCEEEEEeCCCCEEEEEEEEEcCCCCEEEEE
Confidence 3445689999999999999999999999888743
No 62
>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=44.29 E-value=40 Score=24.90 Aligned_cols=35 Identities=14% Similarity=0.168 Sum_probs=28.9
Q ss_pred hcCCcEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 29 VKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 29 ~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
+.....+.|.+.+|+.+.+++.++|....|.|=.+
T Consensus 67 v~~~~~i~V~~~~g~~~~a~v~~~d~~~DlAllkl 101 (325)
T 1lcy_A 67 VADRRRVRVRLLSGDTYEAVVTAVDPVADIATLRI 101 (325)
T ss_dssp HTTCSEEEEECTTSCEEEEEEEEEETTTTEEEEEC
T ss_pred cCCCCEEEEEeCCCCEEEEEEEEECCCCCEEEEEE
Confidence 34456899999999999999999999999887443
No 63
>1x4r_A PARP14 protein; WWE domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}
Probab=43.34 E-value=1.6 Score=28.27 Aligned_cols=19 Identities=32% Similarity=0.366 Sum_probs=16.8
Q ss_pred EEEEEEecCccceEeeceE
Q 033960 46 LGRVRAFDRHCNMVLENVR 64 (107)
Q Consensus 46 ~G~L~~fD~hmNlvL~d~~ 64 (107)
.|++..||+-.||.|++|.
T Consensus 34 ~~~~~~FDk~TNl~LEeA~ 52 (99)
T 1x4r_A 34 KNITQCFDKMTNMKLEVAW 52 (99)
T ss_dssp SSCEEECCTTHHHHHHHHH
T ss_pred CCeEeechHHHHHHHHHHH
Confidence 4678999999999999875
No 64
>2m0o_A PHD finger protein 1; tudor domain, H3K36ME3 binding, peptide binding protein; HET: M3L; NMR {Homo sapiens}
Probab=42.27 E-value=18 Score=22.40 Aligned_cols=40 Identities=18% Similarity=0.336 Sum_probs=31.0
Q ss_pred hcCCcEEEEEecCCeEEEEEEEEecCc---cceEeeceEEEee
Q 033960 29 VKNNTQVLINCRNNKKLLGRVRAFDRH---CNMVLENVREMWT 68 (107)
Q Consensus 29 ~~~~krV~V~lr~gr~i~G~L~~fD~h---mNlvL~d~~E~~~ 68 (107)
+..|.-|.++-+||+.|-|+++..|.. +=+...|-.+.|.
T Consensus 27 f~eGeDVLarwsDGlfYLGTI~kV~~~~e~ClV~F~D~S~~W~ 69 (79)
T 2m0o_A 27 LWEGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLV 69 (79)
T ss_dssp CCTTCEEEBCCTTSCCCEEEEEEEETTTTEEEEEETTSCEEEE
T ss_pred eccCCEEEEEecCCCEEeEEEEEeccCCCEEEEEEcCCCeEEE
Confidence 356999999999999999999988864 3344466666664
No 65
>3pv2_A DEGQ; trypsin fold, PDZ domain, chaperone protease, hydrolase; 2.15A {Legionella fallonii} PDB: 3pv3_A 3pv5_A 3pv4_A
Probab=42.18 E-value=27 Score=27.40 Aligned_cols=34 Identities=12% Similarity=0.332 Sum_probs=28.8
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
.....+.|.+.+|+.+.++++++|....|.|=.+
T Consensus 99 ~~a~~i~V~~~dg~~~~a~vv~~d~~~DlAlLkv 132 (451)
T 3pv2_A 99 RNASLITVTLQDGRRLKARLIGGDSETDLAVLKI 132 (451)
T ss_dssp TTEEEEEEECTTSCEEECEEEEEETTTTEEEEEC
T ss_pred CCCCEEEEEEcCCCEEEEEEEecCcCCcEEEEEE
Confidence 3346789999999999999999999999988544
No 66
>3sti_A Protease DEGQ; serine protease, PDZ domain, chaperone, hydrolase; 2.60A {Escherichia coli}
Probab=38.30 E-value=36 Score=24.36 Aligned_cols=31 Identities=10% Similarity=0.248 Sum_probs=26.0
Q ss_pred CcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 32 NTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 32 ~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
..++.|.+.+|+.+.+.++++|....|.|=.
T Consensus 87 a~~i~V~~~dg~~~~a~vv~~d~~~DlAlLk 117 (245)
T 3sti_A 87 AQKISIQLNDGREFDAKLIGSDDQSDIALLQ 117 (245)
T ss_dssp --CEEEECTTSCEEEEEEEEEETTTTEEEEE
T ss_pred CCEEEEEECCCCEEEEEEEEecCCCCEEEEE
Confidence 4578899999999999999999999888744
No 67
>3tjo_A Serine protease HTRA1; peptidase, hydrolase; HET: BOG; 2.30A {Homo sapiens} PDB: 3tjn_A 3nwu_A
Probab=37.04 E-value=52 Score=22.99 Aligned_cols=33 Identities=15% Similarity=0.359 Sum_probs=28.2
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
.....+.|.+.+++.+.+.+.++|....|.|=.
T Consensus 84 ~~~~~i~V~~~~g~~~~a~v~~~d~~~DlAlL~ 116 (231)
T 3tjo_A 84 TNKHRVKVELKNGATYEAKIKDVDEKADIALIK 116 (231)
T ss_dssp CSSSEEEEECTTSCEEEEEEEEEETTTTEEEEE
T ss_pred cCCceEEEEcCCCCEEEEEEEEecCCCCEEEEE
Confidence 335789999999999999999999999888844
No 68
>3qo6_A Protease DO-like 1, chloroplastic; protease, HTRA, PH-sensor, hydrolase, photosynthesis; 2.50A {Arabidopsis thaliana}
Probab=35.36 E-value=63 Score=24.07 Aligned_cols=35 Identities=9% Similarity=0.313 Sum_probs=29.1
Q ss_pred hcCCcEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 29 VKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 29 ~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
+.....+.|.+.+++.+.+.+.++|....|.|=..
T Consensus 73 v~~~~~i~V~~~~g~~~~a~~v~~d~~~DlAlLkl 107 (348)
T 3qo6_A 73 IRGASDLRVTLADQTTFDAKVVGFDQDKDVAVLRI 107 (348)
T ss_dssp HTTCSEEEEECTTSCEEEEEEEEEEGGGTEEEEEC
T ss_pred hCCCcEEEEEECCCCEEEEEEEEEcCcCCEEEEEE
Confidence 34456899999999999999999999998887443
No 69
>3fb9_A Uncharacterized protein; unknown function, structural genomics, MCSG, PSI2, protein S initiative; 1.80A {Streptococcus pneumoniae}
Probab=35.33 E-value=46 Score=20.94 Aligned_cols=26 Identities=15% Similarity=0.211 Sum_probs=21.1
Q ss_pred HHHhhhcCCcEEEEEecCCe----EEEEEEEE
Q 033960 24 VLMMSVKNNTQVLINCRNNK----KLLGRVRA 51 (107)
Q Consensus 24 ~L~~~~~~~krV~V~lr~gr----~i~G~L~~ 51 (107)
-|...+ |++|.++.+.|| +-.|+|..
T Consensus 19 ~l~~~v--G~~V~l~An~GRkK~~er~GvL~e 48 (90)
T 3fb9_A 19 EIKAHE--GQVVEMTLENGRKRQKNRLGKLIE 48 (90)
T ss_dssp HHHHTT--TSEEEEEECCSSSCCSCEEEEEEE
T ss_pred HHHHcC--CCEEEEEecCCcccEEEEEEEEEE
Confidence 456677 999999999998 46898864
No 70
>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=32.36 E-value=59 Score=19.17 Aligned_cols=39 Identities=18% Similarity=0.453 Sum_probs=30.6
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCc---cceEeeceEEEee
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRH---CNMVLENVREMWT 68 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~h---mNlvL~d~~E~~~ 68 (107)
+.+.-|...=.||+.|-|+++..|.+ +=+...|-.++|.
T Consensus 9 ~eGqdVLarWsDGlfYlgtV~kV~~~~~~ClV~FeD~s~~wv 50 (63)
T 2e5q_A 9 TEGQYVLCRWTDGLYYLGKIKRVSSSKQSCLVTFEDNSKYWV 50 (63)
T ss_dssp CTTCEEEEECTTSCEEEEEECCCCSTTSEEEEEETTSCEEEE
T ss_pred ecCCEEEEEecCCCEEEEEEEEEecCCCEEEEEEccCceeEE
Confidence 45889999999999999999999954 4445567667764
No 71
>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=30.94 E-value=53 Score=24.02 Aligned_cols=31 Identities=10% Similarity=0.120 Sum_probs=26.9
Q ss_pred cEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 33 TQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 33 krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
..+.|.+.+++.+.+++.+||....|.|=..
T Consensus 64 ~~i~V~~~~g~~~~a~vv~~d~~~DlAllkl 94 (324)
T 1y8t_A 64 PKTTVTFSDGRTAPFTVVGADPTSDIAVVRV 94 (324)
T ss_dssp CEEEEEETTCCEECEEEEECCTTTTEEEEEE
T ss_pred eEEEEEeCCCCEEEEEEEEeCCCCCEEEEEE
Confidence 4899999999999999999999999888443
No 72
>3num_A Serine protease HTRA1; DEGP, hydrolase; 2.75A {Homo sapiens} PDB: 3nzi_A 2ytw_A 2joa_A
Probab=30.80 E-value=77 Score=23.30 Aligned_cols=33 Identities=15% Similarity=0.359 Sum_probs=28.1
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCccceEeec
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d 62 (107)
.....+.|.+.+++.+.+.+.++|....|.|=.
T Consensus 67 ~~~~~i~V~~~~g~~~~a~~~~~d~~~DlAlL~ 99 (332)
T 3num_A 67 TNKHRVKVELKNGATYEAKIKDVDEKADIALIK 99 (332)
T ss_dssp CTTSEEEEEETTSCEEEEEEEEEETTTTEEEEE
T ss_pred CCCCEEEEEECCCCEEEEEEEEecCCCCeEEEE
Confidence 335689999999999999999999999988743
No 73
>2e5p_A Protein PHF1, PHD finger protein 1; tudor domain, PHF1 protein, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=28.30 E-value=92 Score=18.60 Aligned_cols=39 Identities=15% Similarity=0.212 Sum_probs=30.3
Q ss_pred cCCcEEEEEecCCeEEEEEEEEecCcc---ceEeeceEEEee
Q 033960 30 KNNTQVLINCRNNKKLLGRVRAFDRHC---NMVLENVREMWT 68 (107)
Q Consensus 30 ~~~krV~V~lr~gr~i~G~L~~fD~hm---NlvL~d~~E~~~ 68 (107)
..+.-|...=.||+.|-|+++..|.+- =+...|-.++|.
T Consensus 11 ~eGqdVLarWsDGlfYlGtV~kV~~~~~~ClV~FeD~s~~wv 52 (68)
T 2e5p_A 11 WEGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLV 52 (68)
T ss_dssp CTTCEEEEECTTSSEEEEEEEEEETTTTEEEEEETTTEEEEE
T ss_pred ccCCEEEEEecCCcEEEeEEEEEecCCcEEEEEEccCCeeee
Confidence 458899999999999999999999543 334467777775
No 74
>4fln_A Protease DO-like 2, chloroplastic; protease, DEG, PDZ, hydrolase; 2.80A {Arabidopsis thaliana}
Probab=26.69 E-value=64 Score=26.19 Aligned_cols=33 Identities=24% Similarity=0.484 Sum_probs=27.5
Q ss_pred cCCcEEEEEec-CCeEEEEEEEEecCccceEeec
Q 033960 30 KNNTQVLINCR-NNKKLLGRVRAFDRHCNMVLEN 62 (107)
Q Consensus 30 ~~~krV~V~lr-~gr~i~G~L~~fD~hmNlvL~d 62 (107)
+....|.|.+. +|+.+.++++++|....|.|=.
T Consensus 94 ~~a~~i~V~~~~dg~~~~A~vv~~D~~~DLAvLk 127 (539)
T 4fln_A 94 EHDTQVKVKRRGDDRKYVAKVLVRGVDCDIALLS 127 (539)
T ss_dssp TTEEEEEEECTTCCCCEEEEEEEEETTTTEEEEE
T ss_pred CCCCeEEEEEccCCEEEEEEEEEECCCCCEEEEE
Confidence 34567889886 8999999999999999988743
No 75
>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=26.62 E-value=67 Score=21.10 Aligned_cols=23 Identities=13% Similarity=0.167 Sum_probs=19.8
Q ss_pred CCcEEEEEecCCeEEEEEEEEec
Q 033960 31 NNTQVLINCRNNKKLLGRVRAFD 53 (107)
Q Consensus 31 ~~krV~V~lr~gr~i~G~L~~fD 53 (107)
.|.+|..+-++|+.+.|++.+..
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 39999999999999999986643
No 76
>3mkv_A Putative amidohydrolase; sargasso SEA, structural genomics, protein structure initiat NEW YORK structural genomix research consortium, nysgxrc; HET: KCX; 2.40A {Undefined}
Probab=26.54 E-value=6.8 Score=27.23 Aligned_cols=25 Identities=4% Similarity=0.288 Sum_probs=15.4
Q ss_pred CcEEEEEecCCeEEEEEEEEecCcc
Q 033960 32 NTQVLINCRNNKKLLGRVRAFDRHC 56 (107)
Q Consensus 32 ~krV~V~lr~gr~i~G~L~~fD~hm 56 (107)
..+|.-.+++|+.+...|.|.|.|-
T Consensus 398 ~~~v~~Vi~~G~vv~~~l~g~~G~~ 422 (426)
T 3mkv_A 398 GEHIPLVMKDGRLFVNELEGHEGHH 422 (426)
T ss_dssp STTCCEEEETTEEEEECCC------
T ss_pred CCCccEEEECCEEEECCccCCCCCC
Confidence 4557777889999999999988873
No 77
>1l1j_A Heat shock protease HTRA; hydrolase, serine proteinase; 2.80A {Thermotoga maritima} SCOP: b.47.1.1
Probab=21.78 E-value=37 Score=24.10 Aligned_cols=32 Identities=6% Similarity=0.097 Sum_probs=26.3
Q ss_pred CcEEEEEecCCeEEEEEEEEecCccceEeece
Q 033960 32 NTQVLINCRNNKKLLGRVRAFDRHCNMVLENV 63 (107)
Q Consensus 32 ~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~ 63 (107)
...+.|.+.+|+.+.+++.++|....|.|=..
T Consensus 79 ~~~i~V~~~~g~~~~a~vv~~d~~~DlAllkl 110 (239)
T 1l1j_A 79 ADNITVTMLDGSKYDAEYIGGDEELDIAVIKI 110 (239)
T ss_dssp CSSCEEECTTSCEEEBCCCEEETTTTEEEEEB
T ss_pred CCEEEEEECCCCEEEEEEEEEcCCCCEEEEEE
Confidence 45678889999999999999999888887433
No 78
>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster}
Probab=20.20 E-value=60 Score=21.46 Aligned_cols=50 Identities=18% Similarity=0.210 Sum_probs=30.8
Q ss_pred CCCcHHHHHhhhcCCcEEEEEecCCeEEEEEEEEecCccceEeeceEEEee
Q 033960 18 NTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWT 68 (107)
Q Consensus 18 ~~~Pl~~L~~~~~~~krV~V~lr~gr~i~G~L~~fD~hmNlvL~d~~E~~~ 68 (107)
..-|+.+|+-.- .-.|.+..--....+.|.|.|.+.--.+.+.||.+.-.
T Consensus 9 ~ihplvll~I~d-H~~R~~~~~g~~~~V~G~LLG~~~~~~veV~nsF~~p~ 58 (141)
T 4e0q_A 9 SLHPLVIMNISE-HWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKT 58 (141)
T ss_dssp EECHHHHHHHHH-HHHCC------CCEEEEEEEEEEETTEEEEEEEEECCE
T ss_pred EEecHHHHHHHH-HHhhhcccCCCCcEEEEEEEEEEeCCEEEEEEEEEecc
Confidence 456777765432 01121111112468999999999888899999988754
Done!