Query 034273
Match_columns 99
No_of_seqs 126 out of 1024
Neff 5.9
Searched_HMMs 29240
Date Mon Mar 25 20:05:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034273.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/034273hhsearch_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 99.9 9.8E-25 3.4E-29 148.3 6.9 88 12-99 17-114 (118)
2 4emg_A Probable U6 snRNA-assoc 99.8 6.6E-21 2.3E-25 124.8 8.0 79 19-98 6-92 (93)
3 3bw1_A SMX4 protein, U6 snRNA- 99.8 1.1E-20 3.9E-25 124.2 8.1 73 19-98 7-87 (96)
4 3s6n_E Small nuclear ribonucle 99.8 7.4E-21 2.5E-25 124.7 7.0 71 16-99 10-92 (92)
5 2fwk_A U6 snRNA-associated SM- 99.8 4E-21 1.4E-25 131.0 5.5 96 1-98 7-113 (121)
6 4emk_A U6 snRNA-associated SM- 99.8 4.9E-20 1.7E-24 121.3 7.8 68 18-98 16-91 (94)
7 1h64_1 SnRNP SM-like protein; 99.8 2E-19 6.8E-24 112.8 7.3 64 21-98 3-74 (75)
8 1i4k_A Putative snRNP SM-like 99.8 2.2E-19 7.4E-24 113.0 7.2 64 21-98 3-74 (77)
9 1mgq_A SM-like protein; LSM, R 99.8 3.2E-19 1.1E-23 114.2 7.7 63 20-96 13-83 (83)
10 1th7_A SnRNP-2, small nuclear 99.8 2.2E-19 7.4E-24 114.3 6.3 66 19-98 6-79 (81)
11 1d3b_B Protein (small nuclear 99.8 3.6E-19 1.2E-23 115.3 6.8 74 17-97 10-83 (91)
12 1ljo_A Archaeal SM-like protei 99.8 5.7E-19 2E-23 111.3 7.1 64 20-97 3-75 (77)
13 4emk_B U6 snRNA-associated SM- 99.8 2.5E-19 8.6E-24 112.7 5.2 64 21-98 3-74 (75)
14 1i8f_A Putative snRNP SM-like 99.8 1.1E-18 3.7E-23 111.2 7.3 64 20-98 9-80 (81)
15 1n9r_A SMF, small nuclear ribo 99.8 9.7E-19 3.3E-23 114.6 6.8 66 20-99 19-93 (93)
16 3pgw_B SM B; protein-RNA compl 99.8 8.1E-19 2.8E-23 131.1 6.8 79 11-96 4-82 (231)
17 4emk_C U6 snRNA-associated SM- 99.8 1.3E-18 4.4E-23 117.7 6.2 61 30-97 39-99 (113)
18 3s6n_F Small nuclear ribonucle 99.7 2.5E-18 8.6E-23 111.0 6.9 64 21-98 5-76 (86)
19 3s6n_G Small nuclear ribonucle 99.7 2.1E-18 7.2E-23 108.8 5.2 64 18-98 11-74 (76)
20 1d3b_A Protein (small nuclear 99.7 3.1E-17 1.1E-21 103.3 6.8 62 21-96 4-73 (75)
21 4emh_A Probable U6 snRNA-assoc 99.7 3.1E-17 1E-21 109.8 6.2 64 21-97 15-86 (105)
22 1b34_A Protein (small nuclear 99.7 7.2E-17 2.5E-21 109.7 6.9 55 30-98 18-72 (119)
23 2y9a_D Small nuclear ribonucle 99.6 1.5E-15 5.3E-20 104.4 7.0 63 21-97 4-74 (126)
24 1m5q_A SMAP3, small nuclear ri 99.6 8.2E-16 2.8E-20 106.2 4.2 51 30-98 16-66 (130)
25 1y96_A Gemin6, SIP2, GEM-assoc 94.7 0.02 6.8E-07 36.6 2.7 46 30-95 23-69 (86)
26 1u1s_A HFQ protein; SM-like ba 91.5 0.082 2.8E-06 33.5 1.8 24 30-53 25-48 (82)
27 2ylb_A Protein HFQ; RNA-bindin 90.4 0.12 4.2E-06 32.0 1.8 23 30-52 27-49 (74)
28 3sb2_A Protein HFQ; SM-like, R 89.8 0.14 5E-06 32.1 1.8 22 30-51 26-47 (79)
29 3ahu_A Protein HFQ; SM-like mo 89.8 0.2 6.9E-06 31.4 2.4 25 30-54 29-53 (78)
30 2qtx_A Uncharacterized protein 89.7 0.23 7.8E-06 30.6 2.6 25 30-54 31-55 (71)
31 2y90_A Protein HFQ; RNA-bindin 87.9 0.23 7.9E-06 32.7 1.8 25 30-54 27-51 (104)
32 1kq1_A HFQ, HOST factor for Q 86.4 0.48 1.7E-05 29.5 2.6 25 30-54 25-49 (77)
33 2vxe_A CG10686-PA; EDC3, CAR-1 83.5 6.6 0.00023 25.0 7.0 73 17-97 9-82 (88)
34 2fb7_A SM-like protein, LSM-14 69.3 8.5 0.00029 24.8 4.5 73 16-96 14-87 (95)
35 1nvp_D Transcription initiatio 57.5 15 0.00053 23.9 4.2 27 31-57 51-80 (108)
36 3hfo_A SSR3341 protein; HFQ, S 55.3 6.1 0.00021 24.0 1.8 24 30-53 27-50 (70)
37 1nh2_D Transcription initiatio 54.3 17 0.00059 24.2 4.1 28 31-58 55-85 (121)
38 1x4r_A PARP14 protein; WWE dom 49.5 1.1 3.7E-05 29.2 -2.5 35 22-56 18-52 (99)
39 3hfn_A ASL2047 protein; HFQ, S 44.2 12 0.00039 22.9 1.8 23 30-52 29-51 (72)
40 4e0q_A COP9 signalosome comple 28.8 64 0.0022 21.2 3.7 41 20-60 9-58 (141)
41 1ycy_A Conserved hypothetical 25.1 1.2E+02 0.004 18.2 4.6 24 35-59 27-50 (71)
42 2zbv_A Uncharacterized conserv 23.1 66 0.0023 23.7 3.2 20 34-53 167-186 (263)
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=99.91 E-value=9.8e-25 Score=148.27 Aligned_cols=88 Identities=82% Similarity=1.281 Sum_probs=56.4
Q ss_pred CccccccccCCChhhhhhhh----------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeee
Q 034273 12 GKTEEEEFNTGPLSVLMMSV----------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFI 81 (99)
Q Consensus 12 ~~~~~~~~~~~Pl~vL~~~l----------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~l 81 (99)
++||+++++.+|+++|..++ ++|+.+.|+|+|||+||||+|+||+|++...++.+++....+...++|++
T Consensus 17 ~~~e~~~~~~~Pl~lL~~~~~~~k~V~V~Lk~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~l 96 (118)
T 1b34_B 17 QKREEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYI 96 (118)
T ss_dssp ---------CCHHHHHHHHHHHTCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEC-------------------CEEE
T ss_pred hhhhhhhcccChHHHHHHHhcCCcEEEEEECCCcEEEEEEEEeCCceEEEEeCEEEEEecccccccccccccccccccCc
Confidence 57899999999999998875 78999999999999999999999999986543332221111223446889
Q ss_pred ceEEEeCCcEEEEEeCCC
Q 034273 82 SKMFLRGDSVIIVLRNPK 99 (99)
Q Consensus 82 g~i~IRGdnVv~V~~~p~ 99 (99)
|.+||||+||++|++.|+
T Consensus 97 g~v~IRG~nVv~I~~~~~ 114 (118)
T 1b34_B 97 SKMFLRGDSVIVVLRNPL 114 (118)
T ss_dssp EEEEECGGGEEEEEECCC
T ss_pred CeEEEcCCEEEEEEeCch
Confidence 999999999999999874
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=99.84 E-value=6.6e-21 Score=124.82 Aligned_cols=79 Identities=29% Similarity=0.476 Sum_probs=56.2
Q ss_pred ccCCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCc
Q 034273 19 FNTGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 90 (99)
Q Consensus 19 ~~~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdn 90 (99)
....|+.+|+.++ ++|+.+.|+|+|||+||||+|+||+|++...+++++..+ ......+|++|++||||+|
T Consensus 6 ~~~~Pl~lL~~~~~~~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~-~~~~~~~r~lG~v~iRG~n 84 (93)
T 4emg_A 6 AVAEPLDLVRLSLDEIVYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDEETDKD-KALKTIRKHYEMLFVRGDS 84 (93)
T ss_dssp ---CTTHHHHTTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEEC---------------CEEEEEEEEEECGGG
T ss_pred ccCCCHHHHHHhCCCEEEEEECCCcEEEEEEEEECCcccEEeecEEEEEeccccCCcccc-ccccccEeEeceEEECCCe
Confidence 3468999998864 899999999999999999999999999875443321100 0011235899999999999
Q ss_pred EEEEEeCC
Q 034273 91 VIIVLRNP 98 (99)
Q Consensus 91 Vv~V~~~p 98 (99)
|++|+|.-
T Consensus 85 Vv~I~p~~ 92 (93)
T 4emg_A 85 VILIAPPR 92 (93)
T ss_dssp EEEEECCC
T ss_pred EEEEEecC
Confidence 99999853
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=99.83 E-value=1.1e-20 Score=124.16 Aligned_cols=73 Identities=29% Similarity=0.552 Sum_probs=59.3
Q ss_pred ccCCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCc
Q 034273 19 FNTGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 90 (99)
Q Consensus 19 ~~~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdn 90 (99)
.++.|+..|...+ ++||.+.|+|+|||+||||+|+||+|++...++... ....|.+|.+||||+|
T Consensus 7 ~~~~p~~~L~~~i~k~V~V~Lk~gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~-------~~~~r~lG~v~IRG~n 79 (96)
T 3bw1_A 7 HMETPLDLLKLNLDERVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEEL-------SESERRCEMVFIRGDT 79 (96)
T ss_dssp CCCCHHHHHGGGTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEEEEECCSTTCC-------CEEEEEEEEEEECGGG
T ss_pred hhhhHHHHHHHHCCCeEEEEECCCcEEEEEEEEECCCCcEEEcCEEEEecccccccc-------CcceeEcCEEEECCCE
Confidence 4667888887665 899999999999999999999999999875432110 1235789999999999
Q ss_pred EEEEEeCC
Q 034273 91 VIIVLRNP 98 (99)
Q Consensus 91 Vv~V~~~p 98 (99)
|++|++.+
T Consensus 80 Vv~I~~~d 87 (96)
T 3bw1_A 80 VTLISTPS 87 (96)
T ss_dssp EEEEECCC
T ss_pred EEEEEecC
Confidence 99999875
No 4
>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=99.83 E-value=7.4e-21 Score=124.66 Aligned_cols=71 Identities=18% Similarity=0.446 Sum_probs=57.2
Q ss_pred cccccCCChhhhhhhh------------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeece
Q 034273 16 EEEFNTGPLSVLMMSV------------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISK 83 (99)
Q Consensus 16 ~~~~~~~Pl~vL~~~l------------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~ 83 (99)
....+..|+++|..++ ++|++++|+|+|||+||||+|+||+|++.. +. ..+.+|.
T Consensus 10 ~~~~m~~Pl~lL~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~~mNlvL~d~~E~~~~------~~-------~~~~lg~ 76 (92)
T 3s6n_E 10 VQKVMVQPINLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHSK------TK-------SRKQLGR 76 (92)
T ss_dssp ----CCCHHHHHHHHHHHTCEEEEEESSSCSSEEEEEEEEECTTCCEEEEEEEEECSS------SC-------CEEEEEE
T ss_pred cceeccCCHHHHHHHhCCCEEEEEEEEecCCEEEEEEEEEEcCcCcEEEeeeEEEecC------CC-------ceeEcCe
Confidence 3457889999998775 789999999999999999999999998742 11 2478999
Q ss_pred EEEeCCcEEEEEeCCC
Q 034273 84 MFLRGDSVIIVLRNPK 99 (99)
Q Consensus 84 i~IRGdnVv~V~~~p~ 99 (99)
+||||+||++|++.+|
T Consensus 77 v~iRG~nV~~i~~~~~ 92 (92)
T 3s6n_E 77 IMLKGDNITLLQSVSN 92 (92)
T ss_dssp EEECGGGEEEEEEC--
T ss_pred EEEeCCEEEEEEeCCC
Confidence 9999999999999876
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=99.83 E-value=4e-21 Score=130.98 Aligned_cols=96 Identities=23% Similarity=0.346 Sum_probs=58.4
Q ss_pred CCCcccccccCCccccccccCCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCC---CCc
Q 034273 1 MSRAMDEDTTGGKTEEEEFNTGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTG---KGK 69 (99)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~---~~~ 69 (99)
||.+|.-.+.+..-.-......|+.+|...+ ++||++.|+|+|||+||||+|+||+|++...++.. .+.
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~Pl~lL~~~l~k~V~V~Lk~Gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~g~ 86 (121)
T 2fwk_A 7 MSETPANKSQGGSNQKGGNIILPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNK 86 (121)
T ss_dssp -----------------CCCCCHHHHHHHTBTSBCEEEETTTEEECCEEEEECTTCCEEEESCCEEEC------------
T ss_pred hhhhhhccCccccccccccccCcHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeceEEEEEeccccccccccCc
Confidence 4555554332211012335679999998775 89999999999999999999999999986421110 011
Q ss_pred cccccCcceeeeceEEEeCCcEEEEEeCC
Q 034273 70 KKALPVNKDRFISKMFLRGDSVIIVLRNP 98 (99)
Q Consensus 70 ~~~~~~~~~r~lg~i~IRGdnVv~V~~~p 98 (99)
.. ...+.+.+|++||||+||++|++.+
T Consensus 87 ~~--~~~~~r~lG~v~IRG~nVv~I~~~~ 113 (121)
T 2fwk_A 87 KL--KRVMVNRLETILLSGNNVAMLVPGG 113 (121)
T ss_dssp -----CEECCCCSEEEECGGGEEEEESSS
T ss_pred cc--ccccceEcceEEECCCEEEEEEecC
Confidence 10 0112578999999999999999865
No 6
>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=99.81 E-value=4.9e-20 Score=121.27 Aligned_cols=68 Identities=24% Similarity=0.367 Sum_probs=55.7
Q ss_pred cccCCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCC
Q 034273 18 EFNTGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGD 89 (99)
Q Consensus 18 ~~~~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGd 89 (99)
..+..|+.+|..++ ++|+++.|+|+|||+||||+|+||+|++.. +. ..+.+|.+||||+
T Consensus 16 ~~~~~Pl~lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~~mNlvL~d~~E~~~~------~~-------~~~~lg~v~IRG~ 82 (94)
T 4emk_A 16 SMTILPLELIDKCIGSNLWVIMKSEREFAGTLVGFDDYVNIVLKDVTEYDTV------TG-------VTEKHSEMLLNGN 82 (94)
T ss_dssp ----CHHHHHHHTTTSEEEEEESSSEEEEEEEEEECTTCCEEEEEEEEEETT------TC-------CEEEEEEEEECST
T ss_pred cccccCHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeeeEEEEecC------CC-------cEeEcCEEEEcCC
Confidence 45678999998885 899999999999999999999999999731 11 1478999999999
Q ss_pred cEEEEEeCC
Q 034273 90 SVIIVLRNP 98 (99)
Q Consensus 90 nVv~V~~~p 98 (99)
||++|++..
T Consensus 83 nI~~i~p~~ 91 (94)
T 4emk_A 83 GMCMLIPGG 91 (94)
T ss_dssp TEEEEEECC
T ss_pred EEEEEEeCC
Confidence 999999864
No 7
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=99.79 E-value=2e-19 Score=112.82 Aligned_cols=64 Identities=27% Similarity=0.440 Sum_probs=53.8
Q ss_pred CCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEE
Q 034273 21 TGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVI 92 (99)
Q Consensus 21 ~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv 92 (99)
..|+.+|...+ ++|+.+.|+|+|||+||||+|+||+|++.. . ..+.+|.+||||+||+
T Consensus 3 ~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------~-------~~~~lg~v~iRG~~I~ 68 (75)
T 1h64_1 3 ERPLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDG-------E-------VVKRYGKIVIRGDNVL 68 (75)
T ss_dssp CCHHHHHHTTTTSEEEEEETTSEEEEEEEEEECTTCCEEEEEEEEEETT-------E-------EEEEEEEEEECGGGEE
T ss_pred chHHHHHHHHCCCEEEEEECCCCEEEEEEEEEeCCCCeEEeeEEEEeeC-------C-------ceeECCEEEECCCEEE
Confidence 46777777664 899999999999999999999999998741 1 2478999999999999
Q ss_pred EEEeCC
Q 034273 93 IVLRNP 98 (99)
Q Consensus 93 ~V~~~p 98 (99)
+|++..
T Consensus 69 ~i~~~~ 74 (75)
T 1h64_1 69 AISPTE 74 (75)
T ss_dssp EEEEC-
T ss_pred EEEeCC
Confidence 999854
No 8
>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=99.79 E-value=2.2e-19 Score=113.01 Aligned_cols=64 Identities=31% Similarity=0.525 Sum_probs=54.7
Q ss_pred CCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEE
Q 034273 21 TGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVI 92 (99)
Q Consensus 21 ~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv 92 (99)
..|+++|...+ ++|+.+.|+|+|||+||||+|+||+|++.. . ..+++|.+||||+||+
T Consensus 3 ~~P~~~L~~~~~~~V~V~L~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------~-------~~~~lg~v~iRG~~I~ 68 (77)
T 1i4k_A 3 PRPLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNG-------E-------VVRKVGSVVIRGDTVV 68 (77)
T ss_dssp CCHHHHHHTTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEETT-------E-------EEEEEEEEEECGGGEE
T ss_pred ccHHHHHHHhCCCEEEEEEcCCCEEEEEEEEEcCCCCeEEeeEEEEecC-------C-------cEeECCEEEECCCEEE
Confidence 46888887664 899999999999999999999999998741 1 2478999999999999
Q ss_pred EEEeCC
Q 034273 93 IVLRNP 98 (99)
Q Consensus 93 ~V~~~p 98 (99)
+|++.+
T Consensus 69 ~i~~~d 74 (77)
T 1i4k_A 69 FVSPAP 74 (77)
T ss_dssp EEEECC
T ss_pred EEEeCC
Confidence 998754
No 9
>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=99.79 E-value=3.2e-19 Score=114.19 Aligned_cols=63 Identities=27% Similarity=0.505 Sum_probs=54.8
Q ss_pred cCCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcE
Q 034273 20 NTGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSV 91 (99)
Q Consensus 20 ~~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnV 91 (99)
...|+.+|...+ ++|+.+.|+|+|||+||||+|+||+|++.. . ..+.+|.+||||+||
T Consensus 13 ~~~P~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------~-------~~~~lg~v~IRG~~I 78 (83)
T 1mgq_A 13 VQRPLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDG-------E-------VTRRLGTVLIRGDNI 78 (83)
T ss_dssp TTCTTHHHHHTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEETT-------E-------EEEEEEEEEECGGGE
T ss_pred CcChHHHHHHhCCCEEEEEEcCCcEEEEEEEEECCCceeEEccEEEEecC-------C-------cccCCCEEEECCCEE
Confidence 468999888765 899999999999999999999999998741 1 247899999999999
Q ss_pred EEEEe
Q 034273 92 IIVLR 96 (99)
Q Consensus 92 v~V~~ 96 (99)
++|+|
T Consensus 79 ~~i~p 83 (83)
T 1mgq_A 79 VYISP 83 (83)
T ss_dssp EEEEC
T ss_pred EEEEC
Confidence 99986
No 10
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1
Probab=99.78 E-value=2.2e-19 Score=114.33 Aligned_cols=66 Identities=27% Similarity=0.506 Sum_probs=55.3
Q ss_pred ccCCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCc
Q 034273 19 FNTGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 90 (99)
Q Consensus 19 ~~~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdn 90 (99)
....|+.+|...+ ++|+.+.|+|+|||+||||+|+||+|++.. . ..+.+|.+||||+|
T Consensus 6 ~~~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-------~-------~~~~lg~v~iRG~~ 71 (81)
T 1th7_A 6 LAETAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSD-------G-------SGKKLGTIVIRGDN 71 (81)
T ss_dssp TCHHHHHHHHHHTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEECSS-------S-------CEEEEEEEEECGGG
T ss_pred cccchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCCCCEEEccEEEEecC-------C-------ceeECCEEEECCCE
Confidence 4457888887664 899999999999999999999999998742 1 14789999999999
Q ss_pred EEEEEeCC
Q 034273 91 VIIVLRNP 98 (99)
Q Consensus 91 Vv~V~~~p 98 (99)
|++|++.+
T Consensus 72 I~~i~~~~ 79 (81)
T 1th7_A 72 VILISPLQ 79 (81)
T ss_dssp EEEEEEC-
T ss_pred EEEEEecC
Confidence 99998764
No 11
>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A
Probab=99.78 E-value=3.6e-19 Score=115.26 Aligned_cols=74 Identities=20% Similarity=0.395 Sum_probs=54.9
Q ss_pred ccccCCChhhhhhhhcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEEEEEe
Q 034273 17 EEFNTGPLSVLMMSVKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVLR 96 (99)
Q Consensus 17 ~~~~~~Pl~vL~~~lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv~V~~ 96 (99)
..+...++.+ .+++||++.|+|+|||+||||+|+||+|++...+++.+.. .....+.+|.+||||+||++|++
T Consensus 10 ~~~~~k~V~V---~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~----~~~~~~~lg~v~iRG~~I~~i~~ 82 (91)
T 1d3b_B 10 LQHIDYRMRC---ILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQA----EREEKRVLGLVLLRGENLVSMTV 82 (91)
T ss_dssp GGGTTSEEEE---EETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTSC----CEEEEEEEEEEEECGGGEEEEEE
T ss_pred HHHcCCcEEE---EECCCeEEEEEEEEECCCCeEEecCEEEEeeccccccccc----cCccEeECCEEEECCCeEEEEEc
Confidence 3455555444 6789999999999999999999999999875432211100 01235889999999999999986
Q ss_pred C
Q 034273 97 N 97 (99)
Q Consensus 97 ~ 97 (99)
.
T Consensus 83 ~ 83 (91)
T 1d3b_B 83 E 83 (91)
T ss_dssp E
T ss_pred C
Confidence 4
No 12
>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=99.77 E-value=5.7e-19 Score=111.30 Aligned_cols=64 Identities=28% Similarity=0.420 Sum_probs=54.4
Q ss_pred cCCChhhhhhhh--------cCC-eEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCc
Q 034273 20 NTGPLSVLMMSV--------KNN-TQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 90 (99)
Q Consensus 20 ~~~Pl~vL~~~l--------k~g-r~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdn 90 (99)
+..|+.+|...+ ++| +++.|+|+|||+||||+|+||+|++.. . ..+.+|.+||||+|
T Consensus 3 m~~P~~~L~~~~~~~v~V~lk~g~~~~~G~L~~~D~~mNlvL~d~~e~~~~-------~-------~~~~lg~v~iRG~n 68 (77)
T 1ljo_A 3 MVLPNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGE-------E-------KVRSLGEIVLRGNN 68 (77)
T ss_dssp CCCHHHHHHHTTTSEEEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEETT-------E-------EEEEEEEEEECGGG
T ss_pred ccchHHHHHHHCCCEEEEEEeCCCEEEEEEEEEECCcceEEEeeEEEEecC-------C-------cEeECCeEEEeCCe
Confidence 347888887664 899 999999999999999999999998731 1 24789999999999
Q ss_pred EEEEEeC
Q 034273 91 VIIVLRN 97 (99)
Q Consensus 91 Vv~V~~~ 97 (99)
|++|++.
T Consensus 69 I~~i~~~ 75 (77)
T 1ljo_A 69 VVLIQPQ 75 (77)
T ss_dssp EEEEEEC
T ss_pred EEEEEeC
Confidence 9999875
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=99.77 E-value=2.5e-19 Score=112.68 Aligned_cols=64 Identities=25% Similarity=0.388 Sum_probs=53.3
Q ss_pred CCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEE
Q 034273 21 TGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVI 92 (99)
Q Consensus 21 ~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv 92 (99)
..|+++|+..+ ++|+.+.|+|.|||+||||+|+||+|++. +. ..+.+|.++|||+||+
T Consensus 3 ~~P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~-------~~-------~~~~lg~v~iRG~~I~ 68 (75)
T 4emk_B 3 SSPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVN-------GK-------KTNVYGDAFIRGNNVL 68 (75)
T ss_dssp SHHHHHHHHTTTSEEEEECTTSCEEEEEEEEECTTCEEEEEEEEEEET-------TE-------EEEEEEEEEEEGGGSS
T ss_pred CchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCcceEEEccEEEEec-------CC-------cccEecEEEEcCCeEE
Confidence 45777777664 89999999999999999999999999863 11 1368999999999999
Q ss_pred EEEeCC
Q 034273 93 IVLRNP 98 (99)
Q Consensus 93 ~V~~~p 98 (99)
+|++..
T Consensus 69 ~i~~~~ 74 (75)
T 4emk_B 69 YVSALD 74 (75)
T ss_dssp EEEEC-
T ss_pred EEEecC
Confidence 999864
No 14
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A*
Probab=99.77 E-value=1.1e-18 Score=111.15 Aligned_cols=64 Identities=25% Similarity=0.446 Sum_probs=54.3
Q ss_pred cCCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcE
Q 034273 20 NTGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSV 91 (99)
Q Consensus 20 ~~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnV 91 (99)
...|+.+|..++ ++|+.+.|+|+|||+||||+|+||+|+ .. . ..+.+|.+||||+||
T Consensus 9 ~~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~-~~-------~-------~~~~lg~v~iRG~~I 73 (81)
T 1i8f_A 9 FATLGATLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEI-ID-------G-------NVYKRGTMVVRGENV 73 (81)
T ss_dssp -CCHHHHHHTTTTSEEEEEEGGGEEEEEEEEEECTTCCEEEEEEEEE-ET-------T-------EEEEEEEEEECGGGE
T ss_pred ccchHHHHHHHCCCeEEEEEcCCcEEEEEEEEEcCCCeeEEccEEEE-cC-------C-------cccCCCEEEECCCEE
Confidence 568888887765 899999999999999999999999998 21 1 147899999999999
Q ss_pred EEEEeCC
Q 034273 92 IIVLRNP 98 (99)
Q Consensus 92 v~V~~~p 98 (99)
++|++..
T Consensus 74 ~~i~~~d 80 (81)
T 1i8f_A 74 LFISPVP 80 (81)
T ss_dssp EEEEECC
T ss_pred EEEEeCC
Confidence 9999864
No 15
>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=99.76 E-value=9.7e-19 Score=114.62 Aligned_cols=66 Identities=24% Similarity=0.357 Sum_probs=50.9
Q ss_pred cCCChhhhhhhh--------cCC-eEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCc
Q 034273 20 NTGPLSVLMMSV--------KNN-TQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 90 (99)
Q Consensus 20 ~~~Pl~vL~~~l--------k~g-r~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdn 90 (99)
...|+.+|...+ ++| +.+.|+|+|||+||||+|+||+|++. +. ..+.+|.+||||+|
T Consensus 19 ~~~P~~~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D~~MNlvL~d~~E~~~-------~~-------~~~~lg~v~IRG~n 84 (93)
T 1n9r_A 19 PVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVA-------GV-------SHGTLGEIFIRCNN 84 (93)
T ss_dssp -------CGGGTTSEEEEEESSTTEEEEEEEEECCTTTCEEEEEEEEEET-------TE-------EEEECCSEEECGGG
T ss_pred cCChHHHHHHhCCCEEEEEEcCCCEEEEEEEEEEccccEEEEeeEEEEcC-------CC-------eEeEcCEEEEcCCe
Confidence 357888887654 899 99999999999999999999999863 11 13689999999999
Q ss_pred EEEEEeCCC
Q 034273 91 VIIVLRNPK 99 (99)
Q Consensus 91 Vv~V~~~p~ 99 (99)
|++|.+.+|
T Consensus 85 I~~I~~~~~ 93 (93)
T 1n9r_A 85 VLYIRELPN 93 (93)
T ss_dssp EEEEEECCC
T ss_pred EEEEEeCCC
Confidence 999998875
No 16
>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=99.76 E-value=8.1e-19 Score=131.13 Aligned_cols=79 Identities=20% Similarity=0.393 Sum_probs=59.3
Q ss_pred CCccccccccCCChhhhhhhhcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCc
Q 034273 11 GGKTEEEEFNTGPLSVLMMSVKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDS 90 (99)
Q Consensus 11 ~~~~~~~~~~~~Pl~vL~~~lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdn 90 (99)
+.+-+-.++.+..+.| .|++||+|+|+|+|||+||||||+||+|++...+++.+.. ....+|++|++||||||
T Consensus 4 ~k~~kL~klIdKrV~V---~LkdGRel~GtLkgFDq~MNLVL~Da~E~~~ik~k~~k~~----~~~~~R~LGlV~IRGdn 76 (231)
T 3pgw_B 4 GKSSKMLQHIDYRMRC---ILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQA----EREEKRVLGLVLLRGEN 76 (231)
T ss_pred CchHHHHHhcCCeEEE---EECCCcEEEEEEEEEcccccEEecCEEEEEeccCcccccc----cccceeEeceEEECCCc
Confidence 3344555666666655 6789999999999999999999999999985433321110 12346899999999999
Q ss_pred EEEEEe
Q 034273 91 VIIVLR 96 (99)
Q Consensus 91 Vv~V~~ 96 (99)
|++|+.
T Consensus 77 IV~Isv 82 (231)
T 3pgw_B 77 LVSMTV 82 (231)
T ss_pred EEEEEe
Confidence 999984
No 17
>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=99.75 E-value=1.3e-18 Score=117.66 Aligned_cols=61 Identities=20% Similarity=0.355 Sum_probs=47.4
Q ss_pred hhcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEEEEEeC
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVLRN 97 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv~V~~~ 97 (99)
.|++||.|.|+|+|||+||||||+||+|++.... +. ......|.+|.+||||+||++|++.
T Consensus 39 ~L~dGr~~~G~L~~fD~~mNLVL~d~~E~~~~~~----~~---~~~~~~r~lG~v~IRG~nIv~I~~~ 99 (113)
T 4emk_C 39 TFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPE----DG---KLTGAIRKLGLVVVRGTTLVLIAPM 99 (113)
T ss_dssp EETTSCEEEEEEEEECTTCCEEEEEEEEEC----------------CCEEEEEEEEECTTTEEEEEEC
T ss_pred EEeCCeEEEEEEEEEcCcccEEEeeEEEEEcCCC----Cc---ccccceeEccEEEECCCeEEEEEec
Confidence 3489999999999999999999999999986311 10 0112358999999999999999975
No 18
>3s6n_F Small nuclear ribonucleoprotein F; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_F 2y9c_F 2y9d_F 3cw1_F 3pgw_F* 2y9a_F
Probab=99.75 E-value=2.5e-18 Score=111.00 Aligned_cols=64 Identities=20% Similarity=0.241 Sum_probs=54.1
Q ss_pred CCChhhhhhhh--------cCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEE
Q 034273 21 TGPLSVLMMSV--------KNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVI 92 (99)
Q Consensus 21 ~~Pl~vL~~~l--------k~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv 92 (99)
..|+.+|+..+ ++|+.+.|+|+|||+||||+|+||+|+.. +. ..+.+|.+||||+||+
T Consensus 5 ~~P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~-------g~-------~~~~lg~v~IRG~nI~ 70 (86)
T 3s6n_F 5 LNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYID-------GA-------LSGHLGEVLIRCNNVL 70 (86)
T ss_dssp CCHHHHHHHHTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEET-------TE-------EEEEESSEEECGGGEE
T ss_pred cCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEEcCceEEEEeeEEEEcC-------Cc-------eeeEccEEEEeCCeEE
Confidence 46888887764 89999999999999999999999999752 11 1368999999999999
Q ss_pred EEEeCC
Q 034273 93 IVLRNP 98 (99)
Q Consensus 93 ~V~~~p 98 (99)
+|++.+
T Consensus 71 ~i~~~d 76 (86)
T 3s6n_F 71 YIRGVE 76 (86)
T ss_dssp EEEECC
T ss_pred EEEeCC
Confidence 999864
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=99.74 E-value=2.1e-18 Score=108.77 Aligned_cols=64 Identities=28% Similarity=0.487 Sum_probs=48.3
Q ss_pred cccCCChhhhhhhhcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEEEEEeC
Q 034273 18 EFNTGPLSVLMMSVKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVLRN 97 (99)
Q Consensus 18 ~~~~~Pl~vL~~~lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv~V~~~ 97 (99)
++...++.+ .|++|+.+.|+|.|||+||||+|+||+|++.. + ..+.+|.++|||+||++|++.
T Consensus 11 ~~~~k~V~V---~Lk~gr~~~G~L~~~D~~mNlvL~~~~e~~~~------~--------~~~~lg~v~iRG~~I~~i~~~ 73 (76)
T 3s6n_G 11 KFMDKKLSL---KLNGGRHVQGILRGFDPFMNLVIDECVEMATS------G--------QQNNIGMVVIRGNSIIMLEAL 73 (76)
T ss_dssp ---CCEEEE---EETTTEEEEEEEEEECTTCCEEEEEEEECCCC------------------CBSSEEECSSSEEEEEC-
T ss_pred HhCCCeEEE---EECCCcEEEEEEEEECCcceEEEeceEEEccC------C--------cEeEcCEEEECCCeEEEEEec
Confidence 344444444 67899999999999999999999999998642 1 136799999999999999975
Q ss_pred C
Q 034273 98 P 98 (99)
Q Consensus 98 p 98 (99)
.
T Consensus 74 d 74 (76)
T 3s6n_G 74 E 74 (76)
T ss_dssp -
T ss_pred c
Confidence 3
No 20
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1
Probab=99.70 E-value=3.1e-17 Score=103.32 Aligned_cols=62 Identities=15% Similarity=0.340 Sum_probs=52.4
Q ss_pred CCChhhhhhh--------hcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEE
Q 034273 21 TGPLSVLMMS--------VKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVI 92 (99)
Q Consensus 21 ~~Pl~vL~~~--------lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv 92 (99)
..|+.+|+.+ |++|+++.|+|.|||+|||++|+||+|+... + ..+.+|.+||||+||.
T Consensus 4 ~~P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~e~~~~------~--------~~~~lg~v~IRG~nI~ 69 (75)
T 1d3b_A 4 GVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRD------G--------RVAQLEQVYIRGCKIR 69 (75)
T ss_dssp CCHHHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTT------S--------CEEEEEEEEECGGGEE
T ss_pred cCHHHHHHHhCCCEEEEEECCCcEEEEEEEEEccceeEEEEeEEEECCC------C--------cEEEcCeEEEeCCEEE
Confidence 4688888765 4999999999999999999999999998521 1 1368999999999999
Q ss_pred EEEe
Q 034273 93 IVLR 96 (99)
Q Consensus 93 ~V~~ 96 (99)
+|+.
T Consensus 70 ~i~l 73 (75)
T 1d3b_A 70 FLIL 73 (75)
T ss_dssp EEEE
T ss_pred EEEc
Confidence 9975
No 21
>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=99.69 E-value=3.1e-17 Score=109.76 Aligned_cols=64 Identities=22% Similarity=0.359 Sum_probs=45.7
Q ss_pred CCChhhhhhh--------hcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEE
Q 034273 21 TGPLSVLMMS--------VKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVI 92 (99)
Q Consensus 21 ~~Pl~vL~~~--------lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv 92 (99)
..|+.+|..+ |++|+.|.|+|.|||+||||+|+||+|++.. +. ..+.+|.+||||+||+
T Consensus 15 ~~p~~lL~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~e~~~d------g~-------~~~~lg~v~IRG~nI~ 81 (105)
T 4emh_A 15 MLPLTLLNATQGRPILVELKNGETFNGHLENCDNYMNLTLREVIRTMPD------GD-------KFFRLPECYIRGNNIK 81 (105)
T ss_dssp -----------CCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTT------SC-------EEEEEEEEEECGGGEE
T ss_pred CcHHHHHHHhCCCEEEEEECCCCEEEEEEEEEcCCceEEEEEEEEEccC------Cc-------eeeEcCeEEEeCCeEE
Confidence 4677777665 4899999999999999999999999998531 11 1367999999999999
Q ss_pred EEEeC
Q 034273 93 IVLRN 97 (99)
Q Consensus 93 ~V~~~ 97 (99)
+|+..
T Consensus 82 ~I~~p 86 (105)
T 4emh_A 82 YLRIQ 86 (105)
T ss_dssp EEEC-
T ss_pred EEecC
Confidence 99864
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=99.68 E-value=7.2e-17 Score=109.66 Aligned_cols=55 Identities=20% Similarity=0.306 Sum_probs=46.6
Q ss_pred hhcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEEEEEeCC
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVLRNP 98 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv~V~~~p 98 (99)
.|++|++|.|+|.+||+||||+|+||+|+... + . .+++|.+||||+||++|++..
T Consensus 18 ~Lk~g~~~~G~L~~~D~~MNlvL~d~~e~~~~------~-~-------~~~lg~v~IRG~nI~~I~~pd 72 (119)
T 1b34_A 18 ELKNGTQVHGTITGVDVSMNTHLKAVKMTLKN------R-E-------PVQLETLSIRGNNIRYFILPD 72 (119)
T ss_dssp EETTCCEEEEEEEEECTTCCEEEEEEEEECTT------S-C-------CEEEEEEEECGGGEEEEECCT
T ss_pred EEcCCCEEEEEEEEEcccceEEeccEEEecCC------C-c-------eeEcceEEEcCCeEEEEEecc
Confidence 35899999999999999999999999998521 1 1 267999999999999998753
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=99.60 E-value=1.5e-15 Score=104.36 Aligned_cols=63 Identities=14% Similarity=0.349 Sum_probs=52.5
Q ss_pred CCChhhhhhh--------hcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEE
Q 034273 21 TGPLSVLMMS--------VKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVI 92 (99)
Q Consensus 21 ~~Pl~vL~~~--------lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv 92 (99)
..|+.+|... |++|++|.|+|.+||.||||+|+||+|+... +. ..+++.+||||+||+
T Consensus 4 ~~P~~~L~~~~gk~V~VeLknG~~~~G~L~~~D~~MNi~L~dv~e~~~~------g~--------~~~l~~v~IRGnnI~ 69 (126)
T 2y9a_D 4 GVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRD------GR--------VAQLEQVYIRGSKIR 69 (126)
T ss_dssp CCSHHHHHSCSSCEEEEEESSCCEEEEEEEEECTTSCEEEEEEEEECTT------SC--------CEEEEEEEECGGGEE
T ss_pred ccHHHHHHHhCCCEEEEEECCCcEEEEEEEEEcCceEEEEeeEEEEcCC------Cc--------EeecccEEEeCCEEE
Confidence 4688888755 4999999999999999999999999998521 11 257999999999999
Q ss_pred EEEeC
Q 034273 93 IVLRN 97 (99)
Q Consensus 93 ~V~~~ 97 (99)
+|+..
T Consensus 70 ~I~lp 74 (126)
T 2y9a_D 70 FLILP 74 (126)
T ss_dssp EEECC
T ss_pred EEEcc
Confidence 99853
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=99.58 E-value=8.2e-16 Score=106.22 Aligned_cols=51 Identities=20% Similarity=0.287 Sum_probs=45.3
Q ss_pred hhcCCeEEEEEEEEecCeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEEEEEeCC
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVLRNP 98 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv~V~~~p 98 (99)
.|++|+.+.|+|.|||+||||+|+||+|+. + +.+|.+||||+||++|++..
T Consensus 16 ~Lk~G~~~~G~L~~~D~~MNlvL~d~~E~~--------~----------~~lg~v~IRG~nI~~I~~~d 66 (130)
T 1m5q_A 16 VLSNGEVYKGVLHAVDNQLNIVLANASNKA--------G----------EKFNRVFIMYRYIVHIDSTE 66 (130)
T ss_dssp EETTSCEEEEEEEEECTTCCEEEEEEECTT--------C----------CEEEEEEECGGGEEEEEECC
T ss_pred EECCCcEEEEEEEEEcccceeEEeeEEEEc--------C----------CEeceEEEeCCeEEEEEcCC
Confidence 678999999999999999999999999962 1 35899999999999998754
No 25
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=94.72 E-value=0.02 Score=36.64 Aligned_cols=46 Identities=26% Similarity=0.237 Sum_probs=35.4
Q ss_pred hhcCCeEEEEEEEEec-CeeceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEEEEE
Q 034273 30 SVKNNTQLLGRVRAFD-RHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVL 95 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD-~hmNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv~V~ 95 (99)
.+.+|+.++|.|.+|| ...|++|.|+-| + .....++|-|..|.-|-
T Consensus 23 ~l~dg~~y~G~l~tvDp~s~sIvL~n~~~----------~----------~~~~~~iI~G~aI~eI~ 69 (86)
T 1y96_A 23 TASEKNEYKGWVLTTDPVSANIVLVNFLE----------D----------GSMSVTGIMGHAVQTVE 69 (86)
T ss_dssp EETTTEEEEEEEEEECTTTCCEEEEEECT----------T----------SCEEEEEECGGGEEEEE
T ss_pred EEcCCCEEEEEEEEECCCceEEEEeeccc----------C----------CeEEEEEEecceEEEEE
Confidence 4578999999999999 999999998811 0 12467788888776653
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=91.53 E-value=0.082 Score=33.51 Aligned_cols=24 Identities=21% Similarity=0.447 Sum_probs=20.1
Q ss_pred hhcCCeEEEEEEEEecCeeceEee
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLE 53 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~ 53 (99)
.|.+|-.+.|.+.+||+|+=|+-.
T Consensus 25 ~L~NG~~l~G~I~~fD~ftVlL~~ 48 (82)
T 1u1s_A 25 YLVNGIKLQGQIESFDQFVILLKN 48 (82)
T ss_dssp EETTSCEEEEEEEEECSSEEEEES
T ss_pred EEeCCcEEEEEEEEEcceEEEEec
Confidence 567899999999999999865543
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=90.44 E-value=0.12 Score=31.99 Aligned_cols=23 Identities=22% Similarity=0.453 Sum_probs=19.4
Q ss_pred hhcCCeEEEEEEEEecCeeceEe
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVL 52 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL 52 (99)
.|.+|-.+.|.+.+||+|+=++-
T Consensus 27 ~L~nG~~l~G~I~~fD~f~vlL~ 49 (74)
T 2ylb_A 27 YLVNGIKLQGQIESFDQFVILLK 49 (74)
T ss_dssp EETTSCEEEEEEEEECSSEEEEE
T ss_pred EEeCCCEEEEEEEEECCcEEEEE
Confidence 45789999999999999985554
No 28
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=89.84 E-value=0.14 Score=32.11 Aligned_cols=22 Identities=27% Similarity=0.474 Sum_probs=19.1
Q ss_pred hhcCCeEEEEEEEEecCeeceE
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMV 51 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLv 51 (99)
.|.+|-.++|.+.+||+|+=++
T Consensus 26 ~LvnG~~L~G~I~~fD~f~VlL 47 (79)
T 3sb2_A 26 YLVNGIKLQGHVESFDQYVVLL 47 (79)
T ss_dssp EETTSCEEEEEEEEECSSEEEE
T ss_pred EEeCCCEEEEEEEEECCcEEEE
Confidence 5678999999999999999554
No 29
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=89.81 E-value=0.2 Score=31.37 Aligned_cols=25 Identities=28% Similarity=0.404 Sum_probs=20.6
Q ss_pred hhcCCeEEEEEEEEecCeeceEeec
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLEN 54 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~d 54 (99)
.|.+|-.+.|.+.+||+|+=|+-.+
T Consensus 29 ~L~nG~~l~G~I~~fD~f~VlL~~~ 53 (78)
T 3ahu_A 29 FLLNGFQLRGQVKGFDNFTVLLESE 53 (78)
T ss_dssp EETTSCEEEEEEEEECSSEEEEESS
T ss_pred EEeCCeEEEEEEEEEcceEEEEEEC
Confidence 4678999999999999999665433
No 30
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=89.70 E-value=0.23 Score=30.62 Aligned_cols=25 Identities=20% Similarity=0.081 Sum_probs=20.7
Q ss_pred hhcCCeEEEEEEEEecCeeceEeec
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLEN 54 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~d 54 (99)
.|.+|-.+.|.+.|||+|+=|+-.+
T Consensus 31 ~L~NG~~l~G~I~~fD~ftVll~~~ 55 (71)
T 2qtx_A 31 FLRNGEVLDAEVTGVSNYEIMVKVG 55 (71)
T ss_dssp EETTSCEEEEEEEEECSSEEEEEET
T ss_pred EEeCCeEEEEEEEEEcceEEEEEeC
Confidence 4678999999999999999666544
No 31
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=87.86 E-value=0.23 Score=32.70 Aligned_cols=25 Identities=20% Similarity=0.436 Sum_probs=20.4
Q ss_pred hhcCCeEEEEEEEEecCeeceEeec
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLEN 54 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~d 54 (99)
.|.+|-.++|.+.+||+|+=|+-++
T Consensus 27 ~LvNG~~L~G~I~~fD~f~VlL~~~ 51 (104)
T 2y90_A 27 YLVNGIKLQGQIESFDQFVILLKNT 51 (104)
T ss_dssp EETTSCEEEEEEEEECSSEEEEESS
T ss_pred EEeCCCEEEEEEEEECCcEEEEECC
Confidence 4578999999999999998655543
No 32
>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=86.37 E-value=0.48 Score=29.46 Aligned_cols=25 Identities=16% Similarity=0.203 Sum_probs=20.6
Q ss_pred hhcCCeEEEEEEEEecCeeceEeec
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLEN 54 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~d 54 (99)
.|.+|-.+.|.+.+||+|+=++-.+
T Consensus 25 ~L~nG~~l~G~I~~fD~f~VlL~~~ 49 (77)
T 1kq1_A 25 FFLNGFQMKGVIEEYDKYVVSLNSQ 49 (77)
T ss_dssp EETTSCEEEEEEEEECSSEEEEEET
T ss_pred EEeCCCEEEEEEEEECCcEEEEEEC
Confidence 4578999999999999999665544
No 33
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=83.48 E-value=6.6 Score=24.95 Aligned_cols=73 Identities=16% Similarity=0.162 Sum_probs=50.6
Q ss_pred ccccCCChhhhhhhhcCCeEEEEEEEEecCee-ceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEEEEE
Q 034273 17 EEFNTGPLSVLMMSVKNNTQLLGRVRAFDRHC-NMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIVL 95 (99)
Q Consensus 17 ~~~~~~Pl~vL~~~lk~gr~i~G~L~afD~hm-NLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv~V~ 95 (99)
..+...+++++.++ +-.++|+|...|..- -+.|.+|.-+-++.++..... +. ...-+..++.||..|--+.
T Consensus 9 ~~yIGs~iSLISk~---dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~~~i----pp-~~~vy~yIvFrgsDIKdL~ 80 (88)
T 2vxe_A 9 LPELGSKISLISKA---DIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQFQI----AP-QSQIYDYILFRGSDIKDIR 80 (88)
T ss_dssp SCCTTCEEEEEETT---TEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCSSCC----CC-CCSCEEEEEEETTTEEEEE
T ss_pred CcccCCeEEEEECC---CceEEEEEeeecCcccEEEEEeeeEecCcCCCCCccc----CC-CCceeeEEEEccCCccEEE
Confidence 45677778877765 889999999999764 788999998876533221111 11 1234689999999987765
Q ss_pred eC
Q 034273 96 RN 97 (99)
Q Consensus 96 ~~ 97 (99)
-+
T Consensus 81 V~ 82 (88)
T 2vxe_A 81 VV 82 (88)
T ss_dssp EC
T ss_pred Ee
Confidence 43
No 34
>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=69.27 E-value=8.5 Score=24.77 Aligned_cols=73 Identities=16% Similarity=0.226 Sum_probs=48.2
Q ss_pred cccccCCChhhhhhhhcCCeEEEEEEEEecCe-eceEeeceEEEeecCCCCCCCccccccCcceeeeceEEEeCCcEEEE
Q 034273 16 EEEFNTGPLSVLMMSVKNNTQLLGRVRAFDRH-CNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSVIIV 94 (99)
Q Consensus 16 ~~~~~~~Pl~vL~~~lk~gr~i~G~L~afD~h-mNLvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~i~IRGdnVv~V 94 (99)
...+...+++++.++ +-.|+|+|...|.. .-+.|.+|.-+-++.++..... +. ...-+..++.||..|--+
T Consensus 14 ~~~~IGs~ISLISk~---dIRYeGiL~~In~~~sTiaL~nVRsfGTEgR~~~~~i----pp-~~~vyeyIvFrGsDIKDL 85 (95)
T 2fb7_A 14 GTPYIGSKISLISKA---EIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPI----AP-RDETFEYIIFRGSDIKDL 85 (95)
T ss_dssp --CCSSEEEEEEETT---TEEEEEEEEEEETTTTEEEEESCCCCSCCSSSCSSCC----CS-CCCCSSCEEECSTTEEEE
T ss_pred cCcccCCeEEEEECC---CceEEEEEecccCccCEEEEEeeeEecccCCCCCCcc----CC-CCcceeEEEEcCCCcceE
Confidence 456777778877765 88999999999964 4688999887665533221101 11 123468999999998765
Q ss_pred Ee
Q 034273 95 LR 96 (99)
Q Consensus 95 ~~ 96 (99)
.-
T Consensus 86 ~V 87 (95)
T 2fb7_A 86 TV 87 (95)
T ss_dssp EE
T ss_pred EE
Confidence 53
No 35
>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=57.49 E-value=15 Score=23.87 Aligned_cols=27 Identities=26% Similarity=0.415 Sum_probs=22.0
Q ss_pred hcCCeEEEEEEEE---ecCeeceEeeceEE
Q 034273 31 VKNNTQLLGRVRA---FDRHCNMVLENVRE 57 (99)
Q Consensus 31 lk~gr~i~G~L~a---fD~hmNLvL~d~~E 57 (99)
+++...|.|.|.- .|..|.++|.|++=
T Consensus 51 vksk~sfKG~L~tYrfcDnVWTf~lkd~~f 80 (108)
T 1nvp_D 51 VRNRVNFRGSLNTYRFCDNVWTFVLNDVEF 80 (108)
T ss_dssp CCCEEEEEEEEEEEEEETTEEEEEEEEEEE
T ss_pred hccCCeEeeccCCccccCcEEEEEEeceEE
Confidence 4667789998855 59999999999873
No 36
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=55.27 E-value=6.1 Score=24.02 Aligned_cols=24 Identities=17% Similarity=0.246 Sum_probs=19.3
Q ss_pred hhcCCeEEEEEEEEecCeeceEee
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVLE 53 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL~ 53 (99)
.|.+|..++|.+.-+|.|+=++.+
T Consensus 27 ~L~tG~~l~G~i~WQD~~cl~L~~ 50 (70)
T 3hfo_A 27 KLLTGDSLFGTIRWQDTDGLGLVD 50 (70)
T ss_dssp EETTSCEEEEEEEEECSSEEEEEC
T ss_pred EecCCCEEEEEEEEeCCCEEEEEc
Confidence 456889999999999999855543
No 37
>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=54.32 E-value=17 Score=24.16 Aligned_cols=28 Identities=11% Similarity=0.266 Sum_probs=22.7
Q ss_pred hcCCeEEEEEEEE---ecCeeceEeeceEEE
Q 034273 31 VKNNTQLLGRVRA---FDRHCNMVLENVREM 58 (99)
Q Consensus 31 lk~gr~i~G~L~a---fD~hmNLvL~d~~E~ 58 (99)
+++...|.|.|.- .|..|.++|.|++=.
T Consensus 55 vksk~sfKG~L~tYrfcDnVWtfilkd~~fk 85 (121)
T 1nh2_D 55 TQSKLTVKGNLDTYGFCDDVWTFIVKNCQVT 85 (121)
T ss_dssp CCCEEEEEEEEEEEEEETTEEEEEEEEEEEE
T ss_pred hccCCeEEeeeccccccCcEEEEEEeceEEE
Confidence 4667789999855 499999999999844
No 38
>1x4r_A PARP14 protein; WWE domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}
Probab=49.47 E-value=1.1 Score=29.18 Aligned_cols=35 Identities=20% Similarity=0.117 Sum_probs=25.4
Q ss_pred CChhhhhhhhcCCeEEEEEEEEecCeeceEeeceE
Q 034273 22 GPLSVLMMSVKNNTQLLGRVRAFDRHCNMVLENVR 56 (99)
Q Consensus 22 ~Pl~vL~~~lk~gr~i~G~L~afD~hmNLvL~d~~ 56 (99)
.-..++...+.+.-.--|...+||+-.||.|++|.
T Consensus 18 ~~Ael~s~lVeWqY~d~~~~~~FDk~TNl~LEeA~ 52 (99)
T 1x4r_A 18 SQADYISTYVEWQYIDKNITQCFDKMTNMKLEVAW 52 (99)
T ss_dssp HHHHHHHTSCEEEEECSSCEEECCTTHHHHHHHHH
T ss_pred HHHHHHHHhhEEEEeCCCeEeechHHHHHHHHHHH
Confidence 33445555555555446789999999999999876
No 39
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=44.18 E-value=12 Score=22.88 Aligned_cols=23 Identities=22% Similarity=0.327 Sum_probs=18.4
Q ss_pred hhcCCeEEEEEEEEecCeeceEe
Q 034273 30 SVKNNTQLLGRVRAFDRHCNMVL 52 (99)
Q Consensus 30 ~lk~gr~i~G~L~afD~hmNLvL 52 (99)
.|.+|..++|.+.-+|.|+=.+.
T Consensus 29 ~L~tGd~l~G~i~WQD~~cl~L~ 51 (72)
T 3hfn_A 29 KLVTGDAITGRVLWQDPTCVCIA 51 (72)
T ss_dssp EETTSCEEEEEEEEECSSEEEEE
T ss_pred EecCCCEEEEEEEEECCCEEEEE
Confidence 44678899999999999984444
No 40
>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster}
Probab=28.81 E-value=64 Score=21.24 Aligned_cols=41 Identities=22% Similarity=0.287 Sum_probs=29.3
Q ss_pred cCCChhhhhhhh---c------CCeEEEEEEEEecCeeceEeeceEEEee
Q 034273 20 NTGPLSVLMMSV---K------NNTQLLGRVRAFDRHCNMVLENVREMWT 60 (99)
Q Consensus 20 ~~~Pl~vL~~~l---k------~gr~i~G~L~afD~hmNLvL~d~~E~~~ 60 (99)
.--||.+|.+.- + ....+.|.|.|.+.--.+.+.||.+.-.
T Consensus 9 ~ihplvll~I~dH~~R~~~~~g~~~~V~G~LLG~~~~~~veV~nsF~~p~ 58 (141)
T 4e0q_A 9 SLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKT 58 (141)
T ss_dssp EECHHHHHHHHHHHHCC------CCEEEEEEEEEEETTEEEEEEEEECCE
T ss_pred EEecHHHHHHHHHHhhhcccCCCCcEEEEEEEEEEeCCEEEEEEEEEecc
Confidence 345676665532 3 1357999999999877899999998643
No 41
>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=25.14 E-value=1.2e+02 Score=18.21 Aligned_cols=24 Identities=21% Similarity=0.515 Sum_probs=19.0
Q ss_pred eEEEEEEEEecCeeceEeeceEEEe
Q 034273 35 TQLLGRVRAFDRHCNMVLENVREMW 59 (99)
Q Consensus 35 r~i~G~L~afD~hmNLvL~d~~E~~ 59 (99)
-.|+|+|.-||.-. +.|+|++.+.
T Consensus 27 hSFtGiledFDeEv-iLL~dV~D~~ 50 (71)
T 1ycy_A 27 HSFTGTLEDFDEEV-ILLKDVVDVI 50 (71)
T ss_dssp --CEEEEEEECSSE-EEEEEEEETT
T ss_pred ceeeeehhhcCcce-eehhhHHHHh
Confidence 35999999999975 7789988764
No 42
>2zbv_A Uncharacterized conserved protein; NPPSFA, national project protein structural and functional analyses; HET: ADN; 2.05A {Thermotoga maritima} PDB: 2zbu_A*
Probab=23.06 E-value=66 Score=23.73 Aligned_cols=20 Identities=25% Similarity=0.423 Sum_probs=17.4
Q ss_pred CeEEEEEEEEecCeeceEee
Q 034273 34 NTQLLGRVRAFDRHCNMVLE 53 (99)
Q Consensus 34 gr~i~G~L~afD~hmNLvL~ 53 (99)
+..+.|.+.-+|.|-|++..
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 45689999999999999865
Done!