Query 032108
Match_columns 147
No_of_seqs 211 out of 1114
Neff 5.4
Searched_HMMs 29240
Date Mon Mar 25 15:37:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032108.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/032108hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3s6n_G Small nuclear ribonucle 99.9 3.1E-23 1.1E-27 142.0 7.4 75 1-84 1-75 (76)
2 4emk_C U6 snRNA-associated SM- 99.9 8.4E-23 2.9E-27 150.1 8.3 83 11-94 24-110 (113)
3 3bw1_A SMX4 protein, U6 snRNA- 99.9 2.5E-22 8.6E-27 143.3 10.5 79 9-87 9-91 (96)
4 1h64_1 SnRNP SM-like protein; 99.9 7.4E-22 2.5E-26 134.3 8.7 72 10-84 4-75 (75)
5 1i8f_A Putative snRNP SM-like 99.9 1.7E-21 5.9E-26 134.7 9.6 79 1-83 1-80 (81)
6 3s6n_F Small nuclear ribonucle 99.9 1.4E-21 4.7E-26 137.1 9.0 76 9-87 5-80 (86)
7 1th7_A SnRNP-2, small nuclear 99.9 2E-21 6.9E-26 134.2 9.0 73 9-84 8-80 (81)
8 1mgq_A SM-like protein; LSM, R 99.9 2.1E-21 7.1E-26 134.9 9.1 78 1-81 6-83 (83)
9 1i4k_A Putative snRNP SM-like 99.9 2E-21 6.8E-26 132.6 8.7 72 10-84 4-75 (77)
10 1d3b_B Protein (small nuclear 99.9 1.5E-21 5.1E-26 137.2 8.2 78 9-86 3-87 (91)
11 1ljo_A Archaeal SM-like protei 99.9 2.3E-21 7.9E-26 132.6 8.6 73 9-84 4-77 (77)
12 4emk_B U6 snRNA-associated SM- 99.8 1.4E-21 4.7E-26 133.4 6.9 72 9-83 3-74 (75)
13 4emh_A Probable U6 snRNA-assoc 99.8 3.9E-21 1.3E-25 139.8 8.1 85 7-95 13-97 (105)
14 4emk_A U6 snRNA-associated SM- 99.8 1.5E-20 5.1E-25 134.3 9.3 73 9-83 19-91 (94)
15 2fwk_A U6 snRNA-associated SM- 99.8 1.1E-20 3.9E-25 139.8 7.9 81 7-87 25-117 (121)
16 4emg_A Probable U6 snRNA-assoc 99.8 3E-20 1E-24 132.0 9.5 73 10-82 9-91 (93)
17 1n9r_A SMF, small nuclear ribo 99.8 1.3E-20 4.3E-25 134.1 7.5 72 9-83 20-92 (93)
18 3s6n_E Small nuclear ribonucle 99.8 1.5E-20 5.1E-25 133.7 6.5 74 8-83 14-91 (92)
19 1d3b_A Protein (small nuclear 99.8 1.2E-19 4.1E-24 124.1 8.9 71 10-83 5-75 (75)
20 1b34_A Protein (small nuclear 99.8 2.8E-19 9.4E-24 132.1 9.0 74 9-85 1-74 (119)
21 3pgw_B SM B; protein-RNA compl 99.8 5.6E-19 1.9E-23 143.6 10.5 75 10-84 4-85 (231)
22 1b34_B Protein (small nuclear 99.8 3.8E-19 1.3E-23 131.0 8.2 76 9-84 26-114 (118)
23 2y9a_D Small nuclear ribonucle 99.7 1.3E-17 4.4E-22 124.7 9.2 75 10-87 5-79 (126)
24 1m5q_A SMAP3, small nuclear ri 99.7 9E-18 3.1E-22 126.1 7.3 68 12-86 2-69 (130)
25 1y96_A Gemin6, SIP2, GEM-assoc 98.7 8.4E-08 2.9E-12 67.3 7.5 65 13-86 10-75 (86)
26 2vxe_A CG10686-PA; EDC3, CAR-1 95.2 0.14 4.8E-06 35.8 8.4 68 17-84 10-84 (88)
27 2qtx_A Uncharacterized protein 95.1 0.037 1.3E-06 37.2 5.0 32 19-50 24-55 (71)
28 2fb7_A SM-like protein, LSM-14 95.0 0.07 2.4E-06 37.8 6.4 76 9-84 8-90 (95)
29 3ahu_A Protein HFQ; SM-like mo 94.9 0.043 1.5E-06 37.5 4.9 37 14-50 15-53 (78)
30 2ylb_A Protein HFQ; RNA-bindin 94.7 0.035 1.2E-06 37.5 4.1 36 13-48 12-49 (74)
31 1u1s_A HFQ protein; SM-like ba 94.6 0.047 1.6E-06 37.7 4.5 36 13-48 10-47 (82)
32 1kq1_A HFQ, HOST factor for Q 94.5 0.073 2.5E-06 36.2 5.3 37 13-49 10-48 (77)
33 3sb2_A Protein HFQ; SM-like, R 93.7 0.092 3.1E-06 35.9 4.5 35 13-47 11-47 (79)
34 4a53_A EDC3; RNA binding prote 92.6 0.17 5.9E-06 37.4 4.8 59 14-86 6-66 (125)
35 2y90_A Protein HFQ; RNA-bindin 92.5 0.16 5.6E-06 36.4 4.5 37 13-49 12-50 (104)
36 1y96_B Gemin7, SIP3, GEM-assoc 92.4 0.61 2.1E-05 32.3 7.2 59 14-80 23-82 (85)
37 3hfo_A SSR3341 protein; HFQ, S 92.0 0.22 7.4E-06 33.4 4.4 40 9-48 8-49 (70)
38 3hfn_A ASL2047 protein; HFQ, S 89.8 0.36 1.2E-05 32.4 3.9 39 9-47 10-50 (72)
39 2vc8_A Enhancer of mRNA-decapp 88.8 1.8 6.1E-05 29.9 6.8 66 16-87 5-72 (84)
40 3rux_A BIRA bifunctional prote 87.9 0.59 2E-05 37.7 4.6 34 18-51 222-255 (270)
41 1ycy_A Conserved hypothetical 83.9 4.2 0.00014 26.8 6.3 44 11-55 7-50 (71)
42 1ib8_A Conserved protein SP14. 83.5 1.3 4.4E-05 33.4 4.3 39 9-48 93-135 (164)
43 2eay_A Biotin [acetyl-COA-carb 78.6 1.6 5.5E-05 34.2 3.5 33 17-51 185-217 (233)
44 1bia_A BIRA bifunctional prote 77.2 4.7 0.00016 32.8 6.0 34 17-51 270-303 (321)
45 2ej9_A Putative biotin ligase; 76.2 6.4 0.00022 30.8 6.3 32 18-50 190-221 (237)
46 2dxu_A Biotin--[acetyl-COA-car 74.9 2.4 8.1E-05 33.4 3.5 31 19-51 188-218 (235)
47 2e12_A SM-like motif, hypothet 67.9 12 0.00042 26.1 5.4 24 14-37 20-45 (101)
48 3bfm_A Biotin protein ligase-l 64.2 7.9 0.00027 30.1 4.4 30 17-51 191-220 (235)
49 3rkx_A Biotin-[acetyl-COA-carb 63.7 7 0.00024 32.1 4.2 33 17-50 276-308 (323)
50 2xk0_A Polycomb protein PCL; t 63.0 22 0.00074 23.5 5.6 27 15-41 14-40 (69)
51 4hcz_A PHD finger protein 1; p 51.8 20 0.00069 22.9 3.9 25 19-43 6-30 (58)
52 2eqj_A Metal-response element- 43.0 33 0.0011 22.4 4.0 25 19-43 16-40 (66)
53 1sg5_A ORF, hypothetical prote 40.0 6.8 0.00023 26.7 0.3 54 15-79 20-73 (86)
54 3vej_A Ubiquitin-like protein 34.5 36 0.0012 20.3 2.8 16 95-110 5-20 (41)
55 3by7_A Uncharacterized protein 27.2 1.6E+02 0.0054 20.5 7.9 60 24-85 7-78 (100)
56 1ky9_A Protease DO, DEGP, HTRA 26.9 77 0.0026 26.8 4.8 31 21-51 111-141 (448)
57 1x4r_A PARP14 protein; WWE dom 26.2 5.1 0.00017 28.3 -2.3 19 34-52 34-52 (99)
58 4a8c_A Periplasmic PH-dependen 26.1 80 0.0027 26.5 4.7 31 21-51 88-118 (436)
59 2wr8_A Putative uncharacterize 24.5 53 0.0018 26.4 3.1 22 30-51 171-192 (259)
60 3fb9_A Uncharacterized protein 23.2 59 0.002 22.4 2.7 26 13-38 18-47 (90)
61 2zbv_A Uncharacterized conserv 22.9 57 0.002 26.3 3.0 21 30-50 167-187 (263)
62 2m0o_A PHD finger protein 1; t 22.9 40 0.0014 22.8 1.8 29 15-43 25-53 (79)
63 2e5p_A Protein PHF1, PHD finge 21.3 1.3E+02 0.0044 19.7 3.9 25 19-43 12-36 (68)
64 3stj_A Protease DEGQ; serine p 20.3 1.1E+02 0.0038 24.8 4.4 30 21-50 88-117 (345)
No 1
>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=3.1e-23 Score=142.03 Aligned_cols=75 Identities=36% Similarity=0.635 Sum_probs=53.1
Q ss_pred CCCCCCCCCchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEe
Q 032108 1 MSWAGPDDVYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIG 80 (147)
Q Consensus 1 Ms~~~~~~~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~ 80 (147)
||++++ +.|.+++|++|+|.|+|||+|.|+|.|||+|||++|+||.|+...++ .+.+|.++|||+||++++
T Consensus 1 ms~~~~------~~L~~~~~k~V~V~Lk~gr~~~G~L~~~D~~mNlvL~~~~e~~~~~~---~~~lg~v~iRG~~I~~i~ 71 (76)
T 3s6n_G 1 MSKAHP------PELKKFMDKKLSLKLNGGRHVQGILRGFDPFMNLVIDECVEMATSGQ---QNNIGMVVIRGNSIIMLE 71 (76)
T ss_dssp -------------------CCEEEEEETTTEEEEEEEEEECTTCCEEEEEEEECCCC-------CBSSEEECSSSEEEEE
T ss_pred CCCcch------HHHHHhCCCeEEEEECCCcEEEEEEEEECCcceEEEeceEEEccCCc---EeEcCEEEECCCeEEEEE
Confidence 787544 56999999999999999999999999999999999999999875433 578999999999999999
Q ss_pred ccCC
Q 032108 81 ELDL 84 (147)
Q Consensus 81 ~iD~ 84 (147)
++|.
T Consensus 72 ~~d~ 75 (76)
T 3s6n_G 72 ALER 75 (76)
T ss_dssp C---
T ss_pred eccC
Confidence 8874
No 2
>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=8.4e-23 Score=150.13 Aligned_cols=83 Identities=30% Similarity=0.456 Sum_probs=57.9
Q ss_pred hhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCc----eeeeeecceEEEeeccEEEEeccCCcc
Q 032108 11 LSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGD----LYCDIPLGLYVIRGENVVLIGELDLER 86 (147)
Q Consensus 11 ~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~----~~~~~~~G~vlIRG~nVv~I~~iD~~~ 86 (147)
+...|.+++|++|+|.|+|||.|.|+|+|||+||||||+||+|++..++ ....+.+|.++|||+||++|+++|.+.
T Consensus 24 ~i~~L~~~l~k~V~V~L~dGr~~~G~L~~fD~~mNLVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nIv~I~~~d~~e 103 (113)
T 4emk_C 24 SILDLSRYQDQRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTLVLIAPMDGSE 103 (113)
T ss_dssp --------CCSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEC---------CCEEEEEEEEECTTTEEEEEECC---
T ss_pred hHHHHHHHcCCcEEEEEeCCeEEEEEEEEEcCcccEEEeeEEEEEcCCCCcccccceeEccEEEECCCeEEEEEecCccc
Confidence 4467999999999999999999999999999999999999999986432 135689999999999999999999998
Q ss_pred cCCCCCCC
Q 032108 87 DELPPHLT 94 (147)
Q Consensus 87 e~~~~~~~ 94 (147)
|. +.+|.
T Consensus 104 e~-~~p~~ 110 (113)
T 4emk_C 104 EI-PNPFV 110 (113)
T ss_dssp --------
T ss_pred cc-cCccc
Confidence 84 44443
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=99.88 E-value=2.5e-22 Score=143.32 Aligned_cols=79 Identities=30% Similarity=0.386 Sum_probs=67.6
Q ss_pred CchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCc----eeeeeecceEEEeeccEEEEeccCC
Q 032108 9 VYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGD----LYCDIPLGLYVIRGENVVLIGELDL 84 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~----~~~~~~~G~vlIRG~nVv~I~~iD~ 84 (147)
--|.+.|.+++||+|+|.|+|||.|.|+|+|||+||||||+||.|++...+ ....+.+|.++|||+||++|+++|.
T Consensus 9 ~~p~~~L~~~i~k~V~V~Lk~gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nVv~I~~~d~ 88 (96)
T 3bw1_A 9 ETPLDLLKLNLDERVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEELSESERRCEMVFIRGDTVTLISTPSE 88 (96)
T ss_dssp CCHHHHHGGGTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEEEEECCSTTCCCEEEEEEEEEEECGGGEEEEECCC-
T ss_pred hhHHHHHHHHCCCeEEEEECCCcEEEEEEEEECCCCcEEEcCEEEEeccccccccCcceeEcCEEEECCCEEEEEEecCc
Confidence 347889999999999999999999999999999999999999999986432 2346789999999999999999998
Q ss_pred ccc
Q 032108 85 ERD 87 (147)
Q Consensus 85 ~~e 87 (147)
..+
T Consensus 89 ~~d 91 (96)
T 3bw1_A 89 DDD 91 (96)
T ss_dssp ---
T ss_pred ccc
Confidence 865
No 4
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=99.86 E-value=7.4e-22 Score=134.32 Aligned_cols=72 Identities=31% Similarity=0.326 Sum_probs=64.4
Q ss_pred chhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCC
Q 032108 10 YLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDL 84 (147)
Q Consensus 10 ~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~ 84 (147)
.|.+.|.+++|++|+|.|+|||.|.|+|.|||+|||++|+||.|+... ...+.+|.++|||+||++|+++|+
T Consensus 4 ~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~---~~~~~lg~v~iRG~~I~~i~~~~e 75 (75)
T 1h64_1 4 RPLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDG---EVVKRYGKIVIRGDNVLAISPTEE 75 (75)
T ss_dssp CHHHHHHTTTTSEEEEEETTSEEEEEEEEEECTTCCEEEEEEEEEETT---EEEEEEEEEEECGGGEEEEEEC--
T ss_pred hHHHHHHHHCCCEEEEEECCCCEEEEEEEEEeCCCCeEEeeEEEEeeC---CceeECCEEEECCCEEEEEEeCCC
Confidence 467899999999999999999999999999999999999999998742 246889999999999999998874
No 5
>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=99.86 E-value=1.7e-21 Score=134.65 Aligned_cols=79 Identities=35% Similarity=0.453 Sum_probs=65.8
Q ss_pred CCCC-CCCCCchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEE
Q 032108 1 MSWA-GPDDVYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLI 79 (147)
Q Consensus 1 Ms~~-~~~~~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I 79 (147)
||+. +.....|.+.|.++++++|+|.|+|||+|.|+|+|||+|||++|+||.|+ .+. ..+.+|.++|||+||++|
T Consensus 1 m~~~~~~~~~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~--~~~--~~~~lg~v~iRG~~I~~i 76 (81)
T 1i8f_A 1 MASDISKCFATLGATLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEI--IDG--NVYKRGTMVVRGENVLFI 76 (81)
T ss_dssp ---------CCHHHHHHTTTTSEEEEEEGGGEEEEEEEEEECTTCCEEEEEEEEE--ETT--EEEEEEEEEECGGGEEEE
T ss_pred CCcccCccccchHHHHHHHCCCeEEEEEcCCcEEEEEEEEEcCCCeeEEccEEEE--cCC--cccCCCEEEECCCEEEEE
Confidence 6654 33346788999999999999999999999999999999999999999998 333 368899999999999999
Q ss_pred eccC
Q 032108 80 GELD 83 (147)
Q Consensus 80 ~~iD 83 (147)
+++|
T Consensus 77 ~~~d 80 (81)
T 1i8f_A 77 SPVP 80 (81)
T ss_dssp EECC
T ss_pred EeCC
Confidence 9887
No 6
>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=99.86 E-value=1.4e-21 Score=137.07 Aligned_cols=76 Identities=28% Similarity=0.323 Sum_probs=65.9
Q ss_pred CchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCCccc
Q 032108 9 VYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLERD 87 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~~~e 87 (147)
..|...|.+++|++|.|.|+||++|.|+|.|||+|||++|+||.|+. .++ ..+.+|.++|||+||++|+++|.+.+
T Consensus 5 ~~P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~-~g~--~~~~lg~v~IRG~nI~~i~~~d~~~~ 80 (86)
T 3s6n_F 5 LNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYI-DGA--LSGHLGEVLIRCNNVLYIRGVEEEEE 80 (86)
T ss_dssp CCHHHHHHHHTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEE-TTE--EEEEESSEEECGGGEEEEEECC----
T ss_pred cCcHHHHHHhCCCeEEEEEcCCeEEEEEEEEEcCceEEEEeeEEEEc-CCc--eeeEccEEEEeCCeEEEEEeCCcccc
Confidence 45889999999999999999999999999999999999999999975 332 34789999999999999999998776
No 7
>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=99.85 E-value=2e-21 Score=134.19 Aligned_cols=73 Identities=37% Similarity=0.470 Sum_probs=65.1
Q ss_pred CchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCC
Q 032108 9 VYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDL 84 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~ 84 (147)
..|.+.|.+++|++|+|.|+|||+|.|+|.|||+|||++|+||.|++..+ ..+.+|.++|||+||++|+.+|.
T Consensus 8 ~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~---~~~~lg~v~iRG~~I~~i~~~~~ 80 (81)
T 1th7_A 8 ETAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDG---SGKKLGTIVIRGDNVILISPLQT 80 (81)
T ss_dssp HHHHHHHHHHTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEECSSS---CEEEEEEEEECGGGEEEEEEC--
T ss_pred cchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCCCCEEEccEEEEecCC---ceeECCEEEECCCEEEEEEecCC
Confidence 45788999999999999999999999999999999999999999987532 35789999999999999998874
No 8
>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=99.85 E-value=2.1e-21 Score=134.91 Aligned_cols=78 Identities=29% Similarity=0.328 Sum_probs=66.1
Q ss_pred CCCCCCCCCchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEe
Q 032108 1 MSWAGPDDVYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIG 80 (147)
Q Consensus 1 Ms~~~~~~~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~ 80 (147)
||.-......|...|.+++|++|+|.|+||++|.|+|.|||+|||++|+||.|+... ...+.+|.++|||+||++|.
T Consensus 6 ms~~~~~~~~P~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~---~~~~~lg~v~IRG~~I~~i~ 82 (83)
T 1mgq_A 6 VSSQRVNVQRPLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDG---EVTRRLGTVLIRGDNIVYIS 82 (83)
T ss_dssp ----CCCTTCTTHHHHHTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEETT---EEEEEEEEEEECGGGEEEEE
T ss_pred cccccccCcChHHHHHHhCCCEEEEEEcCCcEEEEEEEEECCCceeEEccEEEEecC---CcccCCCEEEECCCEEEEEE
Confidence 775444557788999999999999999999999999999999999999999998642 24678999999999999987
Q ss_pred c
Q 032108 81 E 81 (147)
Q Consensus 81 ~ 81 (147)
+
T Consensus 83 p 83 (83)
T 1mgq_A 83 P 83 (83)
T ss_dssp C
T ss_pred C
Confidence 4
No 9
>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=99.85 E-value=2e-21 Score=132.63 Aligned_cols=72 Identities=31% Similarity=0.330 Sum_probs=65.1
Q ss_pred chhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCC
Q 032108 10 YLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDL 84 (147)
Q Consensus 10 ~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~ 84 (147)
.|.+.|.+++|++|+|.|+||++|.|+|.|||+|||++|+||.|+... . ..+.+|.++|||+||++|+.+|.
T Consensus 4 ~P~~~L~~~~~~~V~V~L~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-~--~~~~lg~v~iRG~~I~~i~~~d~ 75 (77)
T 1i4k_A 4 RPLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNG-E--VVRKVGSVVIRGDTVVFVSPAPG 75 (77)
T ss_dssp CHHHHHHTTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEETT-E--EEEEEEEEEECGGGEEEEEECC-
T ss_pred cHHHHHHHhCCCEEEEEEcCCCEEEEEEEEEcCCCCeEEeeEEEEecC-C--cEeECCEEEECCCEEEEEEeCCC
Confidence 467899999999999999999999999999999999999999998743 2 35789999999999999999875
No 10
>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A
Probab=99.85 E-value=1.5e-21 Score=137.21 Aligned_cols=78 Identities=28% Similarity=0.362 Sum_probs=64.9
Q ss_pred CchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeee--C-----ceeeeeecceEEEeeccEEEEec
Q 032108 9 VYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIV--G-----DLYCDIPLGLYVIRGENVVLIGE 81 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~--~-----~~~~~~~~G~vlIRG~nVv~I~~ 81 (147)
+++++.|.+++|++|+|.|+|||.|.|+|+|||+||||||+||+|++.. . .....+.+|.++|||+||++|..
T Consensus 3 ~~~~~~L~~~~~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~v~iRG~~I~~i~~ 82 (91)
T 1d3b_B 3 VGKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTV 82 (91)
T ss_dssp ----CCCGGGTTSEEEEEETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEEEEE
T ss_pred CChhHHHHHHcCCcEEEEECCCeEEEEEEEEECCCCeEEecCEEEEeeccccccccccCccEeECCEEEECCCeEEEEEc
Confidence 3466789999999999999999999999999999999999999997532 1 23457899999999999999998
Q ss_pred cCCcc
Q 032108 82 LDLER 86 (147)
Q Consensus 82 iD~~~ 86 (147)
.+...
T Consensus 83 ~~~~~ 87 (91)
T 1d3b_B 83 EGPPP 87 (91)
T ss_dssp EECCC
T ss_pred CCCCC
Confidence 76544
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=99.85 E-value=2.3e-21 Score=132.60 Aligned_cols=73 Identities=30% Similarity=0.349 Sum_probs=65.4
Q ss_pred CchhHHHhhccCCeEEEEEcCC-eEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCC
Q 032108 9 VYLSTSLASYLDKKLLVLLRDG-RKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDL 84 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dG-R~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~ 84 (147)
+.|.+.|.+++|++|+|.|+|| ++|.|+|.|||+|||++|+||.|+.. ++ ..+.+|.++|||+||++|+++|+
T Consensus 4 ~~P~~~L~~~~~~~v~V~lk~g~~~~~G~L~~~D~~mNlvL~d~~e~~~-~~--~~~~lg~v~iRG~nI~~i~~~de 77 (77)
T 1ljo_A 4 VLPNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKG-EE--KVRSLGEIVLRGNNVVLIQPQEE 77 (77)
T ss_dssp CCHHHHHHHTTTSEEEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEET-TE--EEEEEEEEEECGGGEEEEEEC--
T ss_pred cchHHHHHHHCCCEEEEEEeCCCEEEEEEEEEECCcceEEEeeEEEEec-CC--cEeECCeEEEeCCeEEEEEeCCC
Confidence 5688999999999999999999 99999999999999999999999873 32 35789999999999999999874
No 12
>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=99.85 E-value=1.4e-21 Score=133.40 Aligned_cols=72 Identities=32% Similarity=0.403 Sum_probs=64.2
Q ss_pred CchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccC
Q 032108 9 VYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELD 83 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD 83 (147)
..|.+.|.+++|++|.|.|+||++|.|+|.|||+|||++|+||.|+.. ++ ..+.+|.++|||+||++++++|
T Consensus 3 ~~P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~-~~--~~~~lg~v~iRG~~I~~i~~~~ 74 (75)
T 4emk_B 3 SSPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVN-GK--KTNVYGDAFIRGNNVLYVSALD 74 (75)
T ss_dssp SHHHHHHHHTTTSEEEEECTTSCEEEEEEEEECTTCEEEEEEEEEEET-TE--EEEEEEEEEEEGGGSSEEEEC-
T ss_pred CchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCcceEEEccEEEEec-CC--cccEecEEEEcCCeEEEEEecC
Confidence 346789999999999999999999999999999999999999999863 32 3578999999999999999886
No 13
>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=99.84 E-value=3.9e-21 Score=139.77 Aligned_cols=85 Identities=24% Similarity=0.247 Sum_probs=55.3
Q ss_pred CCCchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCCcc
Q 032108 7 DDVYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLER 86 (147)
Q Consensus 7 ~~~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~~~ 86 (147)
++-.|...|.+++|++|+|.|+||++|.|+|.|||+||||+|+||+|+..+++ ..+.+|.++|||+||++|..+|..+
T Consensus 13 ~~~~p~~lL~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~e~~~dg~--~~~~lg~v~IRG~nI~~I~~pd~l~ 90 (105)
T 4emh_A 13 DPMLPLTLLNATQGRPILVELKNGETFNGHLENCDNYMNLTLREVIRTMPDGD--KFFRLPECYIRGNNIKYLRIQDEVL 90 (105)
T ss_dssp -------------CCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTTSC--EEEEEEEEEECGGGEEEEEC-----
T ss_pred CCCcHHHHHHHhCCCEEEEEECCCCEEEEEEEEEcCCceEEEEEEEEEccCCc--eeeEcCeEEEeCCeEEEEecCHHHh
Confidence 44678889999999999999999999999999999999999999999865553 2467899999999999999999888
Q ss_pred cCCCCCCCc
Q 032108 87 DELPPHLTH 95 (147)
Q Consensus 87 e~~~~~~~~ 95 (147)
+ .|.+++
T Consensus 91 d--~p~~~~ 97 (105)
T 4emh_A 91 S--QVAKQQ 97 (105)
T ss_dssp ---------
T ss_pred h--hhhhhh
Confidence 6 444443
No 14
>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=99.83 E-value=1.5e-20 Score=134.30 Aligned_cols=73 Identities=19% Similarity=0.323 Sum_probs=64.8
Q ss_pred CchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccC
Q 032108 9 VYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELD 83 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD 83 (147)
..|...|.+++|++|+|.|+|||+|+|+|+|||+||||||+||+|+...++ ..+.+|.++|||+||++|.+..
T Consensus 19 ~~Pl~lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~~--~~~~lg~v~IRG~nI~~i~p~~ 91 (94)
T 4emk_A 19 ILPLELIDKCIGSNLWVIMKSEREFAGTLVGFDDYVNIVLKDVTEYDTVTG--VTEKHSEMLLNGNGMCMLIPGG 91 (94)
T ss_dssp -CHHHHHHHTTTSEEEEEESSSEEEEEEEEEECTTCCEEEEEEEEEETTTC--CEEEEEEEEECSTTEEEEEECC
T ss_pred ccCHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeeeEEEEecCCC--cEeEcCEEEEcCCEEEEEEeCC
Confidence 557788999999999999999999999999999999999999999973333 3678999999999999999764
No 15
>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=1.1e-20 Score=139.82 Aligned_cols=81 Identities=16% Similarity=0.241 Sum_probs=67.4
Q ss_pred CCCchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeC-------ceee-----eeecceEEEeec
Q 032108 7 DDVYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVG-------DLYC-----DIPLGLYVIRGE 74 (147)
Q Consensus 7 ~~~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~-------~~~~-----~~~~G~vlIRG~ 74 (147)
....|...|.+++|++|+|.|+|||.|.|+|+|||+||||||+||+|++... +... .+.+|.++|||+
T Consensus 25 ~~~~Pl~lL~~~l~k~V~V~Lk~Gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IRG~ 104 (121)
T 2fwk_A 25 NIILPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGN 104 (121)
T ss_dssp CCCCHHHHHHHTBTSBCEEEETTTEEECCEEEEECTTCCEEEESCCEEEC---------------CEECCCCSEEEECGG
T ss_pred cccCcHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeceEEEEEeccccccccccCcccccccceEcceEEECCC
Confidence 3467888999999999999999999999999999999999999999998531 1112 578999999999
Q ss_pred cEEEEeccCCccc
Q 032108 75 NVVLIGELDLERD 87 (147)
Q Consensus 75 nVv~I~~iD~~~e 87 (147)
||++|+..+...+
T Consensus 105 nVv~I~~~~~~~~ 117 (121)
T 2fwk_A 105 NVAMLVPGGDPDS 117 (121)
T ss_dssp GEEEEESSSCC--
T ss_pred EEEEEEecCCCCC
Confidence 9999998875543
No 16
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=99.82 E-value=3e-20 Score=132.02 Aligned_cols=73 Identities=29% Similarity=0.344 Sum_probs=63.2
Q ss_pred chhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeee----Cc------eeeeeecceEEEeeccEEEE
Q 032108 10 YLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIV----GD------LYCDIPLGLYVIRGENVVLI 79 (147)
Q Consensus 10 ~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~----~~------~~~~~~~G~vlIRG~nVv~I 79 (147)
.|...|..++|++|+|.|+|||.|.|+|+|||+||||||+||+|++.. ++ ....+.+|.++|||+||++|
T Consensus 9 ~Pl~lL~~~~~~~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~v~iRG~nVv~I 88 (93)
T 4emg_A 9 EPLDLVRLSLDEIVYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFVRGDSVILI 88 (93)
T ss_dssp CTTHHHHTTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEEC--------------CEEEEEEEEEECGGGEEEE
T ss_pred CCHHHHHHhCCCEEEEEECCCcEEEEEEEEECCcccEEeecEEEEEeccccCCccccccccccEeEeceEEECCCeEEEE
Confidence 466889999999999999999999999999999999999999999863 21 02368899999999999999
Q ss_pred ecc
Q 032108 80 GEL 82 (147)
Q Consensus 80 ~~i 82 (147)
+++
T Consensus 89 ~p~ 91 (93)
T 4emg_A 89 APP 91 (93)
T ss_dssp ECC
T ss_pred Eec
Confidence 864
No 17
>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein F; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A
Probab=99.82 E-value=1.3e-20 Score=134.14 Aligned_cols=72 Identities=33% Similarity=0.332 Sum_probs=60.7
Q ss_pred CchhHHHhhccCCeEEEEEcCC-eEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccC
Q 032108 9 VYLSTSLASYLDKKLLVLLRDG-RKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELD 83 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dG-R~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD 83 (147)
..|.+.|.+++|++|.|.|+|| ++|.|+|+|||+|||++|+||+|++. ++ ..+.+|.++|||+||++|+++|
T Consensus 20 ~~P~~~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D~~MNlvL~d~~E~~~-~~--~~~~lg~v~IRG~nI~~I~~~~ 92 (93)
T 1n9r_A 20 VNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVA-GV--SHGTLGEIFIRCNNVLYIRELP 92 (93)
T ss_dssp ------CGGGTTSEEEEEESSTTEEEEEEEEECCTTTCEEEEEEEEEET-TE--EEEECCSEEECGGGEEEEEECC
T ss_pred CChHHHHHHhCCCEEEEEEcCCCEEEEEEEEEEccccEEEEeeEEEEcC-CC--eEeEcCEEEEcCCeEEEEEeCC
Confidence 5577889999999999999999 99999999999999999999999863 33 3578999999999999999876
No 18
>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=99.82 E-value=1.5e-20 Score=133.67 Aligned_cols=74 Identities=22% Similarity=0.359 Sum_probs=66.6
Q ss_pred CCchhHHHhhccCCeEEEEE----cCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccC
Q 032108 8 DVYLSTSLASYLDKKLLVLL----RDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELD 83 (147)
Q Consensus 8 ~~~~~~~L~~~ldKkV~V~L----~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD 83 (147)
...|...|.++++++++|.+ +|||+|.|+|+|||+||||||+||+|+...++ ..+.+|.++|||+||++|+++|
T Consensus 14 m~~Pl~lL~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~~--~~~~lg~v~iRG~nV~~i~~~~ 91 (92)
T 3s6n_E 14 MVQPINLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHSKTK--SRKQLGRIMLKGDNITLLQSVS 91 (92)
T ss_dssp CCCHHHHHHHHHHHTCEEEEEESSSCSSEEEEEEEEECTTCCEEEEEEEEECSSSC--CEEEEEEEEECGGGEEEEEEC-
T ss_pred ccCCHHHHHHHhCCCEEEEEEEEecCCEEEEEEEEEEcCcCcEEEeeeEEEecCCC--ceeEcCeEEEeCCEEEEEEeCC
Confidence 46788999999999999999 99999999999999999999999999875443 3578999999999999999876
No 19
>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=99.81 E-value=1.2e-19 Score=124.07 Aligned_cols=71 Identities=15% Similarity=0.053 Sum_probs=64.5
Q ss_pred chhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccC
Q 032108 10 YLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELD 83 (147)
Q Consensus 10 ~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD 83 (147)
.|...|.+++|++|.|.|++|++|.|+|.|||+|||++|+||.|....+. ...+|.++|||+||.+|..+|
T Consensus 5 ~P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~e~~~~~~---~~~lg~v~IRG~nI~~i~lPd 75 (75)
T 1d3b_A 5 VPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGR---VAQLEQVYIRGCKIRFLILPD 75 (75)
T ss_dssp CHHHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTTSC---EEEEEEEEECGGGEEEEEECC
T ss_pred CHHHHHHHhCCCEEEEEECCCcEEEEEEEEEccceeEEEEeEEEECCCCc---EEEcCeEEEeCCEEEEEEcCC
Confidence 46789999999999999999999999999999999999999999864332 578999999999999999876
No 20
>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=99.79 E-value=2.8e-19 Score=132.11 Aligned_cols=74 Identities=20% Similarity=0.227 Sum_probs=65.8
Q ss_pred CchhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCCc
Q 032108 9 VYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLE 85 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~~ 85 (147)
|.+...|.++++++|.|.|+||++|.|+|.+||+||||+|+||+|+...++ ...+|.++|||+||++|..+|..
T Consensus 1 M~p~~~L~~~~gk~V~V~Lk~g~~~~G~L~~~D~~MNlvL~d~~e~~~~~~---~~~lg~v~IRG~nI~~I~~pd~l 74 (119)
T 1b34_A 1 MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNRE---PVQLETLSIRGNNIRYFILPDSL 74 (119)
T ss_dssp -CHHHHHHTCTTCEEEEEETTCCEEEEEEEEECTTCCEEEEEEEEECTTSC---CEEEEEEEECGGGEEEEECCTTC
T ss_pred CChHHHHHHhCCCEEEEEEcCCCEEEEEEEEEcccceEEeccEEEecCCCc---eeEcceEEEcCCeEEEEEecccc
Confidence 356789999999999999999999999999999999999999999864322 47899999999999999988863
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=99.78 E-value=5.6e-19 Score=143.62 Aligned_cols=75 Identities=28% Similarity=0.367 Sum_probs=65.1
Q ss_pred chhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeC-------ceeeeeecceEEEeeccEEEEecc
Q 032108 10 YLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVG-------DLYCDIPLGLYVIRGENVVLIGEL 82 (147)
Q Consensus 10 ~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~-------~~~~~~~~G~vlIRG~nVv~I~~i 82 (147)
...+.|.+++||+|+|+|+|||+|+|+|+|||+||||||+||+|++... +...++.+|+++|||+||++|+..
T Consensus 4 ~k~~kL~klIdKrV~V~LkdGRel~GtLkgFDq~MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGlV~IRGdnIV~Isve 83 (231)
T 3pgw_B 4 GKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVE 83 (231)
T ss_pred CchHHHHHhcCCeEEEEECCCcEEEEEEEEEcccccEEecCEEEEEeccCcccccccccceeEeceEEECCCcEEEEEec
Confidence 3467899999999999999999999999999999999999999987411 123578999999999999999955
Q ss_pred CC
Q 032108 83 DL 84 (147)
Q Consensus 83 D~ 84 (147)
+.
T Consensus 84 ~p 85 (231)
T 3pgw_B 84 GP 85 (231)
T ss_pred CC
Confidence 44
No 22
>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=99.78 E-value=3.8e-19 Score=130.98 Aligned_cols=76 Identities=24% Similarity=0.304 Sum_probs=62.8
Q ss_pred CchhHHHhhcc--CCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCce-----------eeeeecceEEEeecc
Q 032108 9 VYLSTSLASYL--DKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDL-----------YCDIPLGLYVIRGEN 75 (147)
Q Consensus 9 ~~~~~~L~~~l--dKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~-----------~~~~~~G~vlIRG~n 75 (147)
..|...|..++ +++|.|.|+|||.|.|+|+|||+||||||+||.|++..... ...+.+|.++|||+|
T Consensus 26 ~~Pl~lL~~~~~~~k~V~V~Lk~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~n 105 (118)
T 1b34_B 26 TGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDS 105 (118)
T ss_dssp CCHHHHHHHHHHHTCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEC-------------------CEEEEEEEECGGG
T ss_pred cChHHHHHHHhcCCcEEEEEECCCcEEEEEEEEeCCceEEEEeCEEEEEecccccccccccccccccccCcCeEEEcCCE
Confidence 35777899999 59999999999999999999999999999999998743110 125679999999999
Q ss_pred EEEEeccCC
Q 032108 76 VVLIGELDL 84 (147)
Q Consensus 76 Vv~I~~iD~ 84 (147)
|++|+..+.
T Consensus 106 Vv~I~~~~~ 114 (118)
T 1b34_B 106 VIVVLRNPL 114 (118)
T ss_dssp EEEEEECCC
T ss_pred EEEEEeCch
Confidence 999998875
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=99.73 E-value=1.3e-17 Score=124.65 Aligned_cols=75 Identities=15% Similarity=0.086 Sum_probs=66.7
Q ss_pred chhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCCccc
Q 032108 10 YLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLERD 87 (147)
Q Consensus 10 ~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~~~e 87 (147)
.|...|.++++++|+|.|++|++|.|+|.+||+|||++|+||+|+..+++ ...+|.++|||+||.+|..+|....
T Consensus 5 ~P~~~L~~~~gk~V~VeLknG~~~~G~L~~~D~~MNi~L~dv~e~~~~g~---~~~l~~v~IRGnnI~~I~lpd~l~~ 79 (126)
T 2y9a_D 5 VPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGR---VAQLEQVYIRGSKIRFLILPDMLKN 79 (126)
T ss_dssp CSHHHHHSCSSCEEEEEESSCCEEEEEEEEECTTSCEEEEEEEEECTTSC---CEEEEEEEECGGGEEEEECCSSCSS
T ss_pred cHHHHHHHhCCCEEEEEECCCcEEEEEEEEEcCceEEEEeeEEEEcCCCc---EeecccEEEeCCEEEEEEccccccc
Confidence 46789999999999999999999999999999999999999999764333 4688999999999999998876654
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=99.72 E-value=9e-18 Score=126.12 Aligned_cols=68 Identities=24% Similarity=0.309 Sum_probs=61.8
Q ss_pred hHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCCcc
Q 032108 12 STSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLER 86 (147)
Q Consensus 12 ~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~~~ 86 (147)
.+.|.+++|++|.|.|+||+.|.|+|.|||+||||+|+||.|+. + ..+|.++|||+||++|+.+|...
T Consensus 2 ~~~L~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~E~~--~-----~~lg~v~IRG~nI~~I~~~d~~~ 69 (130)
T 1m5q_A 2 VAELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKA--G-----EKFNRVFIMYRYIVHIDSTERRI 69 (130)
T ss_dssp HHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEECTT--C-----CEEEEEEECGGGEEEEEECCCCC
T ss_pred hhHHHHhCCCeEEEEECCCcEEEEEEEEEcccceeEEeeEEEEc--C-----CEeceEEEeCCeEEEEEcCCccc
Confidence 36799999999999999999999999999999999999999962 2 46899999999999999988764
No 25
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=98.65 E-value=8.4e-08 Score=67.35 Aligned_cols=65 Identities=18% Similarity=0.167 Sum_probs=55.1
Q ss_pred HHHhhccCCeEEEEEcCCeEEEEEEEEec-CccceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCCcc
Q 032108 13 TSLASYLDKKLLVLLRDGRKLMGTLCSFD-QFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLER 86 (147)
Q Consensus 13 ~~L~~~ldKkV~V~L~dGR~l~G~L~sfD-q~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~~~ 86 (147)
..|.+++||+|.|+|.||++|.|+|.+|| ...|+||.|+- .++. .-.++|.|..|..|..+....
T Consensus 10 ~el~~li~KeV~V~l~dg~~y~G~l~tvDp~s~sIvL~n~~----~~~~-----~~~~iI~G~aI~eI~v~~~~~ 75 (86)
T 1y96_A 10 LEWQDYIYKEVRVTASEKNEYKGWVLTTDPVSANIVLVNFL----EDGS-----MSVTGIMGHAVQTVETMNEGD 75 (86)
T ss_dssp HHHHHTTTCEEEEEETTTEEEEEEEEEECTTTCCEEEEEEC----TTSC-----EEEEEECGGGEEEEEEEECCC
T ss_pred HHHHhhcCCEEEEEEcCCCEEEEEEEEECCCceEEEEeecc----cCCe-----EEEEEEecceEEEEEEecchh
Confidence 47999999999999999999999999999 89999999982 2332 357899999999888665443
No 26
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=95.23 E-value=0.14 Score=35.75 Aligned_cols=68 Identities=15% Similarity=0.099 Sum_probs=51.8
Q ss_pred hccCCeEEEEEcCCeEEEEEEEEec-CccceEecceEEEeeeCce------eeeeecceEEEeeccEEEEeccCC
Q 032108 17 SYLDKKLLVLLRDGRKLMGTLCSFD-QFANAVLEGACERVIVGDL------YCDIPLGLYVIRGENVVLIGELDL 84 (147)
Q Consensus 17 ~~ldKkV~V~L~dGR~l~G~L~sfD-q~mNLVL~da~E~i~~~~~------~~~~~~G~vlIRG~nVv~I~~iD~ 84 (147)
.++|+++.+..+.+-.|+|+|..+| +-.-+-|+|+.-+-..+.. -.+.....++.||+.|.-+...+.
T Consensus 10 ~yIGs~iSLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~~~ipp~~~vy~yIvFrgsDIKdL~V~~~ 84 (88)
T 2vxe_A 10 PELGSKISLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQFQIAPQSQIYDYILFRGSDIKDIRVVNN 84 (88)
T ss_dssp CCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCSSCCCCCCSCEEEEEEETTTEEEEEECCC
T ss_pred cccCCeEEEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCCCcccCCCCceeeEEEEccCCccEEEEecc
Confidence 4699999999999999999999999 5678889988654333221 122345788999999998876553
No 27
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=95.13 E-value=0.037 Score=37.22 Aligned_cols=32 Identities=25% Similarity=0.381 Sum_probs=27.2
Q ss_pred cCCeEEEEEcCCeEEEEEEEEecCccceEecc
Q 032108 19 LDKKLLVLLRDGRKLMGTLCSFDQFANAVLEG 50 (147)
Q Consensus 19 ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~d 50 (147)
-..+|.|.|.+|-.+.|.+.|||+|+=++-.+
T Consensus 24 ~~~~Vtv~L~NG~~l~G~I~~fD~ftVll~~~ 55 (71)
T 2qtx_A 24 NGKKVKIFLRNGEVLDAEVTGVSNYEIMVKVG 55 (71)
T ss_dssp TTCEEEEEETTSCEEEEEEEEECSSEEEEEET
T ss_pred cCCcEEEEEeCCeEEEEEEEEEcceEEEEEeC
Confidence 45779999999999999999999998666443
No 28
>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A
Probab=95.01 E-value=0.07 Score=37.76 Aligned_cols=76 Identities=12% Similarity=0.129 Sum_probs=52.7
Q ss_pred CchhHHHhhccCCeEEEEEcCCeEEEEEEEEec-CccceEecceEEEeeeCce------eeeeecceEEEeeccEEEEec
Q 032108 9 VYLSTSLASYLDKKLLVLLRDGRKLMGTLCSFD-QFANAVLEGACERVIVGDL------YCDIPLGLYVIRGENVVLIGE 81 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfD-q~mNLVL~da~E~i~~~~~------~~~~~~G~vlIRG~nVv~I~~ 81 (147)
+-++..-..++|+++.+..+.+-.|+|+|..+| +-.-+.|+|+.-+-..+.. -.+.....++.||+.|.-+..
T Consensus 8 ~~~~~~~~~~IGs~ISLISk~dIRYeGiL~~In~~~sTiaL~nVRsfGTEgR~~~~~ipp~~~vyeyIvFrGsDIKDL~V 87 (95)
T 2fb7_A 8 LEDPSGGTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIAPRDETFEYIIFRGSDIKDLTV 87 (95)
T ss_dssp --------CCSSEEEEEEETTTEEEEEEEEEEETTTTEEEEESCCCCSCCSSSCSSCCCSCCCCSSCEEECSTTEEEEEE
T ss_pred cCCCCccCcccCCeEEEEECCCceEEEEEecccCccCEEEEEeeeEecccCCCCCCccCCCCcceeEEEEcCCCcceEEE
Confidence 345667788999999999999999999999999 6677889887543322211 123445789999999998876
Q ss_pred cCC
Q 032108 82 LDL 84 (147)
Q Consensus 82 iD~ 84 (147)
.+.
T Consensus 88 ~e~ 90 (95)
T 2fb7_A 88 CEP 90 (95)
T ss_dssp SCC
T ss_pred ecC
Confidence 653
No 29
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=94.90 E-value=0.043 Score=37.54 Aligned_cols=37 Identities=24% Similarity=0.330 Sum_probs=30.1
Q ss_pred HHhhcc--CCeEEEEEcCCeEEEEEEEEecCccceEecc
Q 032108 14 SLASYL--DKKLLVLLRDGRKLMGTLCSFDQFANAVLEG 50 (147)
Q Consensus 14 ~L~~~l--dKkV~V~L~dGR~l~G~L~sfDq~mNLVL~d 50 (147)
.|..+- ..+|.|.|.+|..+.|.+.+||+|+=++-.+
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 455555 6889999999999999999999998665433
No 30
>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=94.73 E-value=0.035 Score=37.51 Aligned_cols=36 Identities=31% Similarity=0.376 Sum_probs=29.9
Q ss_pred HHHhhcc--CCeEEEEEcCCeEEEEEEEEecCccceEe
Q 032108 13 TSLASYL--DKKLLVLLRDGRKLMGTLCSFDQFANAVL 48 (147)
Q Consensus 13 ~~L~~~l--dKkV~V~L~dGR~l~G~L~sfDq~mNLVL 48 (147)
..|..+. ..+|.|.|.+|..+.|.+.+||+|+=++-
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 4566666 67899999999999999999999975543
No 31
>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=94.60 E-value=0.047 Score=37.70 Aligned_cols=36 Identities=31% Similarity=0.388 Sum_probs=29.4
Q ss_pred HHHhhcc--CCeEEEEEcCCeEEEEEEEEecCccceEe
Q 032108 13 TSLASYL--DKKLLVLLRDGRKLMGTLCSFDQFANAVL 48 (147)
Q Consensus 13 ~~L~~~l--dKkV~V~L~dGR~l~G~L~sfDq~mNLVL 48 (147)
..|..+- ..+|.|.|.+|-.+.|.+.+||+|+=++-
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 3455444 67899999999999999999999986654
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=94.55 E-value=0.073 Score=36.22 Aligned_cols=37 Identities=14% Similarity=0.420 Sum_probs=30.5
Q ss_pred HHHhhcc--CCeEEEEEcCCeEEEEEEEEecCccceEec
Q 032108 13 TSLASYL--DKKLLVLLRDGRKLMGTLCSFDQFANAVLE 49 (147)
Q Consensus 13 ~~L~~~l--dKkV~V~L~dGR~l~G~L~sfDq~mNLVL~ 49 (147)
..|..+. ..+|.|.|.+|-.+.|.+.+||+|+=++-.
T Consensus 10 ~fLn~lrk~k~~VtI~L~nG~~l~G~I~~fD~f~VlL~~ 48 (77)
T 1kq1_A 10 KALENFKANQTEVTVFFLNGFQMKGVIEEYDKYVVSLNS 48 (77)
T ss_dssp HHHHHHHHHTCEEEEEETTSCEEEEEEEEECSSEEEEEE
T ss_pred HHHHHHHhcCCeEEEEEeCCCEEEEEEEEECCcEEEEEE
Confidence 4566666 688999999999999999999999765543
No 33
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=93.72 E-value=0.092 Score=35.94 Aligned_cols=35 Identities=29% Similarity=0.390 Sum_probs=28.3
Q ss_pred HHHhhccC--CeEEEEEcCCeEEEEEEEEecCccceE
Q 032108 13 TSLASYLD--KKLLVLLRDGRKLMGTLCSFDQFANAV 47 (147)
Q Consensus 13 ~~L~~~ld--KkV~V~L~dGR~l~G~L~sfDq~mNLV 47 (147)
..|..+.. .+|.|.|.+|-.+.|.+.+||+|+=++
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 44555554 459999999999999999999997655
No 34
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=92.59 E-value=0.17 Score=37.38 Aligned_cols=59 Identities=24% Similarity=0.334 Sum_probs=45.6
Q ss_pred HHhhccCCeEEEEEcCCeEEEEEEEEecCccceEe--cceEEEeeeCceeeeeecceEEEeeccEEEEeccCCcc
Q 032108 14 SLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVL--EGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLER 86 (147)
Q Consensus 14 ~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL--~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~~~ 86 (147)
++.+++|..|.|.|+||..+.|++..+|. -+|+| .+|..- ..-|+...|.-+..++...
T Consensus 6 ~~sqFlGy~V~v~LkDgs~~qG~I~~vd~-k~LtL~~~~a~~s-------------~~~I~asdI~DLkVl~~~~ 66 (125)
T 4a53_A 6 SVADFYGSNVEVLLNNDSKARGVITNFDS-SNSILQLRLANDS-------------TKSIVTKDIKDLRILPKNE 66 (125)
T ss_dssp CHHHHTTCEEEEEETTSCEEEEEEEEEET-TTTEEEEEETTTE-------------EEEEEGGGEEEEEECCSCC
T ss_pred cHHHhcCceEEEEECCCCEeeEEEEeecC-CeeEEeccccccc-------------cceeecccccceeeeeccc
Confidence 37889999999999999999999999984 46777 887321 1177788887777666544
No 35
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=92.52 E-value=0.16 Score=36.39 Aligned_cols=37 Identities=30% Similarity=0.400 Sum_probs=29.8
Q ss_pred HHHhhccCC--eEEEEEcCCeEEEEEEEEecCccceEec
Q 032108 13 TSLASYLDK--KLLVLLRDGRKLMGTLCSFDQFANAVLE 49 (147)
Q Consensus 13 ~~L~~~ldK--kV~V~L~dGR~l~G~L~sfDq~mNLVL~ 49 (147)
..|..+..+ +|.|.|.+|-.+.|.+.+||+|+=++-.
T Consensus 12 ~fLn~lrk~k~~VtI~LvNG~~L~G~I~~fD~f~VlL~~ 50 (104)
T 2y90_A 12 PFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN 50 (104)
T ss_dssp HHHHHHHHTTCCEEEEETTSCEEEEEEEEECSSEEEEES
T ss_pred HHHHHHHhcCCcEEEEEeCCCEEEEEEEEECCcEEEEEC
Confidence 456665555 7999999999999999999999866543
No 36
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=92.40 E-value=0.61 Score=32.28 Aligned_cols=59 Identities=14% Similarity=0.134 Sum_probs=45.0
Q ss_pred HHhhccCCeEEEEEcCCeEEEEEEEEec-CccceEecceEEEeeeCceeeeeecceEEEeeccEEEEe
Q 032108 14 SLASYLDKKLLVLLRDGRKLMGTLCSFD-QFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIG 80 (147)
Q Consensus 14 ~L~~~ldKkV~V~L~dGR~l~G~L~sfD-q~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~ 80 (147)
.|..+.|++|.+.+.++-+..|.+.++| ...|+..++-. .+ -......++|+.-|++++
T Consensus 23 ~l~~m~~~~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~L~----TP----iGv~~eAlLR~~Dii~~s 82 (85)
T 1y96_B 23 SLLAMVGHQVSFTLHEGVRVAAHFGATDLDVANFYVSQLQ----TP----IGVQAEALLRCSDIISYT 82 (85)
T ss_dssp HHHHHTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEC----CT----TCCEEEEEEEGGGEEEEE
T ss_pred HHHHhCCCceEEEEeCCeEEEEEEEecCcccceeEhhhcC----CC----cccchhhhhhcCCEEEEE
Confidence 4667789999999999999999999999 55677665531 01 112346799999999876
No 37
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=92.02 E-value=0.22 Score=33.36 Aligned_cols=40 Identities=15% Similarity=0.146 Sum_probs=33.6
Q ss_pred CchhHHHhhccC--CeEEEEEcCCeEEEEEEEEecCccceEe
Q 032108 9 VYLSTSLASYLD--KKLLVLLRDGRKLMGTLCSFDQFANAVL 48 (147)
Q Consensus 9 ~~~~~~L~~~ld--KkV~V~L~dGR~l~G~L~sfDq~mNLVL 48 (147)
.|+.-.|.+++- .+|.|.|.+|..+.|.+..+|+|.=++-
T Consensus 8 lPsvR~lQ~~ik~k~~V~I~L~tG~~l~G~i~WQD~~cl~L~ 49 (70)
T 3hfo_A 8 LPSVRQVQLLIKDQTPVEIKLLTGDSLFGTIRWQDTDGLGLV 49 (70)
T ss_dssp CHHHHHHHHHHHHTCEEEEEETTSCEEEEEEEEECSSEEEEE
T ss_pred CCcHHHHHHHHhhCceEEEEecCCCEEEEEEEEeCCCEEEEE
Confidence 677788888886 5688999999999999999999864443
No 38
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=89.83 E-value=0.36 Score=32.40 Aligned_cols=39 Identities=13% Similarity=0.163 Sum_probs=32.8
Q ss_pred CchhHHHhhccCC--eEEEEEcCCeEEEEEEEEecCccceE
Q 032108 9 VYLSTSLASYLDK--KLLVLLRDGRKLMGTLCSFDQFANAV 47 (147)
Q Consensus 9 ~~~~~~L~~~ldK--kV~V~L~dGR~l~G~L~sfDq~mNLV 47 (147)
.|+...|.+++-. +|.|.|.+|..+.|.+.-+|.+.=++
T Consensus 10 lPsvR~lQ~~Ik~k~~V~I~L~tGd~l~G~i~WQD~~cl~L 50 (72)
T 3hfn_A 10 LPSIRQLQNLIKQAAPVEIKLVTGDAITGRVLWQDPTCVCI 50 (72)
T ss_dssp HHHHHHHHHHHSSCCEEEEEETTSCEEEEEEEEECSSEEEE
T ss_pred CCcHHHHHHHHhhCceEEEEecCCCEEEEEEEEECCCEEEE
Confidence 7777889999874 48888999999999999999985433
No 39
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=88.77 E-value=1.8 Score=29.86 Aligned_cols=66 Identities=14% Similarity=0.152 Sum_probs=51.8
Q ss_pred hhccCCeEEEEEcCCe-EEEEEEEEecCc-cceEecceEEEeeeCceeeeeecceEEEeeccEEEEeccCCccc
Q 032108 16 ASYLDKKLLVLLRDGR-KLMGTLCSFDQF-ANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLERD 87 (147)
Q Consensus 16 ~~~ldKkV~V~L~dGR-~l~G~L~sfDq~-mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I~~iD~~~e 87 (147)
.+|+|+.|.+.-+|+- .|.|.+..+|+. .||.|.++. .+|- ..+.-.+.+++.-|..+..++...+
T Consensus 5 ~~~iGs~VSi~c~d~lGvYQG~i~~vd~~~~tItL~~~f---~NG~---~~~s~eVtls~~DI~~L~ii~~~~~ 72 (84)
T 2vc8_A 5 TDWLGSIVSINCGDSLGVYQGRVSAVDQVSQTISLTRPF---HNGV---KCLVPEVTFRAGDITELKILEIPGP 72 (84)
T ss_dssp CTTTTCEEEEECCTTTCEEEEEEEEEETTTTEEEEEEEE---ETTE---ECSSSEEEEEGGGCSEEEEEECCCS
T ss_pred ccccCCEEEEEECCCceEEEEEEEEeccCCCeEEEehhh---hCCC---CCCCcEEEEEecChhheEEEecCCC
Confidence 4789999999999998 999999999976 589999994 3332 2333568999998887777665554
No 40
>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=87.87 E-value=0.59 Score=37.72 Aligned_cols=34 Identities=18% Similarity=0.294 Sum_probs=30.8
Q ss_pred ccCCeEEEEEcCCeEEEEEEEEecCccceEecce
Q 032108 18 YLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGA 51 (147)
Q Consensus 18 ~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da 51 (147)
.+|++|.|.+.+|..+.|+..|+|..+.|+|+..
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 5689999998889999999999999999999754
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=83.88 E-value=4.2 Score=26.83 Aligned_cols=44 Identities=23% Similarity=0.351 Sum_probs=34.1
Q ss_pred hhHHHhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEe
Q 032108 11 LSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERV 55 (147)
Q Consensus 11 ~~~~L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i 55 (147)
-...|.++-|++|-|.....-.|+|+|.-||.- -+.|.|++.+.
T Consensus 7 LdktL~~WKg~rvAv~vg~ehSFtGiledFDeE-viLL~dV~D~~ 50 (71)
T 1ycy_A 7 LEKVLKEWKGHKVAVSVGGDHSFTGTLEDFDEE-VILLKDVVDVI 50 (71)
T ss_dssp HHHHHHHHTTSEEEEEEC----CEEEEEEECSS-EEEEEEEEETT
T ss_pred HHHHHHHhCCcEEEEEecCcceeeeehhhcCcc-eeehhhHHHHh
Confidence 345799999999999999999999999999986 57788887753
No 42
>1ib8_A Conserved protein SP14.3; nucleic acid binding protein, ribosomal protein, essential gene, structural genomics; NMR {Streptococcus pneumoniae} SCOP: b.38.2.1 d.52.4.1
Probab=83.48 E-value=1.3 Score=33.45 Aligned_cols=39 Identities=23% Similarity=0.290 Sum_probs=31.7
Q ss_pred CchhHHHhhccCCeEEEEEc---CC-eEEEEEEEEecCccceEe
Q 032108 9 VYLSTSLASYLDKKLLVLLR---DG-RKLMGTLCSFDQFANAVL 48 (147)
Q Consensus 9 ~~~~~~L~~~ldKkV~V~L~---dG-R~l~G~L~sfDq~mNLVL 48 (147)
+.....+..++|+.|.|.++ +| +.+.|+|.++|.- +++|
T Consensus 93 L~~~~df~r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~-~v~l 135 (164)
T 1ib8_A 93 LKTKDAVAGAVGKYIHVGLYQAIDKQKVFEGTLLAFEED-ELTM 135 (164)
T ss_dssp CSSHHHHHHHCSEEEEEECSSCSSSCSEEEEEEEEEETT-EEEE
T ss_pred CCCHHHHHHhCCcEEEEEEecccCCceEEEEEEEEEeCC-EEEE
Confidence 55667799999999999994 44 8999999999864 3444
No 43
>2eay_A Biotin [acetyl-COA-carboxylase] ligase; biotin biosynthesis, dimer, X-RAY diffraction, structural genomics, NPPSFA; 1.95A {Aquifex aeolicus} PDB: 3efs_A* 3fjp_A 3efr_A*
Probab=78.60 E-value=1.6 Score=34.22 Aligned_cols=33 Identities=18% Similarity=0.314 Sum_probs=27.6
Q ss_pred hccCCeEEEEEcCCeEEEEEEEEecCccceEecce
Q 032108 17 SYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGA 51 (147)
Q Consensus 17 ~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da 51 (147)
-.+|++|.|...++ +.|+..|+|..+.|+++..
T Consensus 185 ~~~g~~V~v~~~~~--~~G~~~gId~~G~L~v~~~ 217 (233)
T 2eay_A 185 LYLGEEVKLLGEGK--ITGKLVGLSEKGGALILTE 217 (233)
T ss_dssp TTTTSEEEETTEEE--EEEEEEEECTTSCEEEEET
T ss_pred cccCCEEEEEECCe--EEEEEEEECCCCeEEEEEC
Confidence 34789999876554 9999999999999999753
No 44
>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=77.23 E-value=4.7 Score=32.79 Aligned_cols=34 Identities=12% Similarity=0.407 Sum_probs=28.8
Q ss_pred hccCCeEEEEEcCCeEEEEEEEEecCccceEecce
Q 032108 17 SYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGA 51 (147)
Q Consensus 17 ~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da 51 (147)
..+|++|.|... +..+.|+..|+|..+.|+++..
T Consensus 270 ~~~g~~V~v~~~-~~~~~G~~~gid~~G~L~v~~~ 303 (321)
T 1bia_A 270 NFINRPVKLIIG-DKEIFGISRGIDKQGALLLEQD 303 (321)
T ss_dssp TTTTSEEEEEET-TEEEEEEEEEECTTSCEEEEET
T ss_pred hhcCCEEEEEEC-CcEEEEEEEEECCCCeEEEEEC
Confidence 457999999865 4589999999999999999754
No 45
>2ej9_A Putative biotin ligase; biotin biosynthesis, monomer, X-RAY diffraction, structural genomics, NPPSFA; HET: BTN; 2.00A {Methanocaldococcus jannaschii}
Probab=76.20 E-value=6.4 Score=30.81 Aligned_cols=32 Identities=16% Similarity=0.254 Sum_probs=28.9
Q ss_pred ccCCeEEEEEcCCeEEEEEEEEecCccceEecc
Q 032108 18 YLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEG 50 (147)
Q Consensus 18 ~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~d 50 (147)
.+|++|.|...++..+.|+..|+|..+.|+ +.
T Consensus 190 ~~g~~V~v~~~~~~~~~G~~~gId~~G~L~-~~ 221 (237)
T 2ej9_A 190 TIGKQVKILLSNNEIITGKVYDIDFDGIVL-GT 221 (237)
T ss_dssp STTCEEEEEETTSCEEEEEEEEECSSEEEE-EE
T ss_pred ccCCEEEEEECCCeEEEEEEEEECCCCeEE-Ec
Confidence 589999999888877999999999999999 64
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=74.87 E-value=2.4 Score=33.38 Aligned_cols=31 Identities=16% Similarity=0.268 Sum_probs=24.6
Q ss_pred cCCeEEEEEcCCeEEEEEEEEecCccceEecce
Q 032108 19 LDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGA 51 (147)
Q Consensus 19 ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da 51 (147)
+|++|.|...++ +.|+..|+|..+.|+++..
T Consensus 188 ~g~~V~v~~~~~--~~G~~~gId~~G~L~v~~~ 218 (235)
T 2dxu_A 188 LGVRVKILGDGS--FEGIAEDIDDFGRLIIRLD 218 (235)
T ss_dssp CSSEEEC----C--CEEEEEEECTTSCEEEECT
T ss_pred cCCeEEEEECCe--EEEEEEEECCCCEEEEEEC
Confidence 799999987776 9999999999999999753
No 47
>2e12_A SM-like motif, hypothetical protein XCC3642; novel SM-like motif, LSM motif, X- RAY crystallography, translation; 1.70A {Xanthomonas campestris PV}
Probab=67.93 E-value=12 Score=26.14 Aligned_cols=24 Identities=29% Similarity=0.531 Sum_probs=19.1
Q ss_pred HHhhccC--CeEEEEEcCCeEEEEEE
Q 032108 14 SLASYLD--KKLLVLLRDGRKLMGTL 37 (147)
Q Consensus 14 ~L~~~ld--KkV~V~L~dGR~l~G~L 37 (147)
.+...++ .+|.+.|.||+.+.|++
T Consensus 20 ~~~~~LdGq~~v~i~l~DGs~l~GTv 45 (101)
T 2e12_A 20 HWVKLLDGQERVRIELDDGSMIAGTV 45 (101)
T ss_dssp HHHHTSCTTCEEEEEETTSCEEEEEE
T ss_pred HHHHhhCCeeEEEEEEcCCCeEeeee
Confidence 3455555 67999999999999985
No 48
>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=64.21 E-value=7.9 Score=30.06 Aligned_cols=30 Identities=17% Similarity=0.141 Sum_probs=25.8
Q ss_pred hccCCeEEEEEcCCeEEEEEEEEecCccceEecce
Q 032108 17 SYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGA 51 (147)
Q Consensus 17 ~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da 51 (147)
-.+|++|.| +| +.|+..|+|..+.|+++..
T Consensus 191 ~~~g~~V~v---~~--~~G~~~gId~~G~L~v~~~ 220 (235)
T 3bfm_A 191 HGMGEARTE---AG--RSGTFLGVDEDFGMLLRDE 220 (235)
T ss_dssp TTTTSEEEE---TT--EEEEEEEECTTCCEEEECS
T ss_pred hhcCCEEEE---Ee--EEEEEEEECCCCeEEEEeC
Confidence 357899999 56 9999999999999999753
No 49
>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=63.69 E-value=7 Score=32.07 Aligned_cols=33 Identities=12% Similarity=0.227 Sum_probs=27.5
Q ss_pred hccCCeEEEEEcCCeEEEEEEEEecCccceEecc
Q 032108 17 SYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEG 50 (147)
Q Consensus 17 ~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~d 50 (147)
..+|++|.|... +..+.|+..|+|..+.|++++
T Consensus 276 ~~~g~~V~v~~~-~~~~~G~~~gId~~G~Llv~~ 308 (323)
T 3rkx_A 276 NIWNRTLLFTEN-DKQFKGQAIDLDYDGYLIVRD 308 (323)
T ss_dssp SCSSSCEEEECC--CEEEEEEEEECTTSCEEEEE
T ss_pred hhcCCEEEEEEC-CeEEEEEEEEECCCCEEEEEE
Confidence 357899999764 568999999999999999964
No 50
>2xk0_A Polycomb protein PCL; transcription, aromatic CAGE; NMR {Drosophila melanogaster}
Probab=63.01 E-value=22 Score=23.53 Aligned_cols=27 Identities=22% Similarity=0.405 Sum_probs=22.2
Q ss_pred HhhccCCeEEEEEcCCeEEEEEEEEec
Q 032108 15 LASYLDKKLLVLLRDGRKLMGTLCSFD 41 (147)
Q Consensus 15 L~~~ldKkV~V~L~dGR~l~G~L~sfD 41 (147)
..=.++.-|++.-.||+.|-|+++...
T Consensus 14 ~~~~~geDVL~rw~DG~fYLGtIVd~~ 40 (69)
T 2xk0_A 14 VTYALQEDVFIKCNDGRFYLGTIIDQT 40 (69)
T ss_dssp CCCCTTCEEEEECTTSCEEEEEEEEEC
T ss_pred cccccCCeEEEEecCCCEEEEEEEecC
Confidence 445588999999999999999995443
No 51
>4hcz_A PHD finger protein 1; protein-peptide complex, tudor, histone binding, H3K36ME3, N nucleus, transcription; HET: M3L; 1.85A {Homo sapiens}
Probab=51.85 E-value=20 Score=22.91 Aligned_cols=25 Identities=24% Similarity=0.319 Sum_probs=22.6
Q ss_pred cCCeEEEEEcCCeEEEEEEEEecCc
Q 032108 19 LDKKLLVLLRDGRKLMGTLCSFDQF 43 (147)
Q Consensus 19 ldKkV~V~L~dGR~l~G~L~sfDq~ 43 (147)
.|..|++.-+||+.|-|+...+|..
T Consensus 6 ~GedVLarwsDG~fYlGtI~~V~~~ 30 (58)
T 4hcz_A 6 EGQDVLARWTDGLLYLGTIKKVDSA 30 (58)
T ss_dssp TTCEEEEECTTSCEEEEEEEEEETT
T ss_pred cCCEEEEEecCCCEEeEEEEEEecC
Confidence 4778999999999999999999876
No 52
>2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus}
Probab=43.05 E-value=33 Score=22.40 Aligned_cols=25 Identities=20% Similarity=0.311 Sum_probs=22.7
Q ss_pred cCCeEEEEEcCCeEEEEEEEEecCc
Q 032108 19 LDKKLLVLLRDGRKLMGTLCSFDQF 43 (147)
Q Consensus 19 ldKkV~V~L~dGR~l~G~L~sfDq~ 43 (147)
+|..|+..-.||+.|.|+...+|+.
T Consensus 16 vGddVLA~wtDGl~Y~gtI~~V~~~ 40 (66)
T 2eqj_A 16 EGQDVLARWSDGLFYLGTIKKINIL 40 (66)
T ss_dssp TTCEEEEECTTSCEEEEEEEEEETT
T ss_pred CCCEEEEEEccCcEEEeEEEEEccC
Confidence 6788999999999999999999874
No 53
>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=39.97 E-value=6.8 Score=26.71 Aligned_cols=54 Identities=22% Similarity=0.218 Sum_probs=32.9
Q ss_pred HhhccCCeEEEEEcCCeEEEEEEEEecCccceEecceEEEeeeCceeeeeecceEEEeeccEEEE
Q 032108 15 LASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLI 79 (147)
Q Consensus 15 L~~~ldKkV~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~~~~~~~~G~vlIRG~nVv~I 79 (147)
+.-..+.++.|+|+||..+.|+. ..+...+-.|.+... ..-|...||=+.|..+
T Consensus 20 lAc~~~~~l~l~l~dGe~~~g~a------~D~~~~~k~E~L~l~-----~~~~~~~irLD~I~s~ 73 (86)
T 1sg5_A 20 LACQHHLMLTLELKDGEKLQAKA------SDLVSRKNVEYLVVE-----AAGETRELRLDKITSF 73 (86)
T ss_dssp HHHTTTTCEEEECTTTCCEEESS------CEEECCSSSCEEEEE-----ETTEEEEESTTCCSEE
T ss_pred HHHHcCCeEEEEEeCCCEEEEEE------EeeEEcCceEEEEEE-----cCCCEEEEEchhhhhc
Confidence 44456799999999999998863 233333444433211 1234556777777666
No 54
>3vej_A Ubiquitin-like protein MDY2; alpha helical, dimerization, homodimerization, protein bindi; 1.23A {Saccharomyces cerevisiae}
Probab=34.54 E-value=36 Score=20.27 Aligned_cols=16 Identities=19% Similarity=0.175 Sum_probs=11.3
Q ss_pred ccCHHHHHHHHHHhhh
Q 032108 95 HVSVAEIKRVSALFFS 110 (147)
Q Consensus 95 ~v~~~ei~~~~~~~~~ 110 (147)
+|||++|..+-+-.-+
T Consensus 5 ~VPWd~Ie~lL~~~~~ 20 (41)
T 3vej_A 5 TVPWDDIEALLKNNFE 20 (41)
T ss_dssp TSCHHHHHHHHHHHTT
T ss_pred ecCHHHHHHHHHHHhc
Confidence 5999999766555443
No 55
>3by7_A Uncharacterized protein; metagenomics, structural genomics, joint center for structur genomics, JCSG, protein structure initiative; 2.60A {Uncultured marine organism}
Probab=27.21 E-value=1.6e+02 Score=20.49 Aligned_cols=60 Identities=13% Similarity=0.153 Sum_probs=42.5
Q ss_pred EEEEcCCeEEEEEEEEecCccceEecceEEEeeeCc----e----eee----eecceEEEeeccEEEEeccCCc
Q 032108 24 LVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGD----L----YCD----IPLGLYVIRGENVVLIGELDLE 85 (147)
Q Consensus 24 ~V~L~dGR~l~G~L~sfDq~mNLVL~da~E~i~~~~----~----~~~----~~~G~vlIRG~nVv~I~~iD~~ 85 (147)
.+.|++|..+.|.+.--|.. +.++|.++.+...+ . +.. ..-..++||.+.|+.+.++..+
T Consensus 7 iiRlvSGEEIia~v~et~~~--i~i~nPv~V~~~~~e~gk~~gigF~pW~plsde~~~ii~~~~ViT~~e~~~e 78 (100)
T 3by7_A 7 IMRLVTGEDIIGNISESQGL--ITIKKAFVIIPMQATPGKPVQLVLSPWQPYTDDKEIVIDDSKVITITSPKDD 78 (100)
T ss_dssp EEEETTSCEEEEEEEEETTE--EEEEEEEEEEEEC-----CCEEEEEESCTTBCCSEEEEEGGGEEEEECBCHH
T ss_pred EEEecCccceeEEEEecCce--EEEECCEEEEEeecCCCcceeEeeecccccCcCceEEEchhhEEEEEeCCHH
Confidence 47799999999999965543 88889888663211 0 111 1235789999999999987654
No 56
>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=26.89 E-value=77 Score=26.80 Aligned_cols=31 Identities=26% Similarity=0.290 Sum_probs=26.6
Q ss_pred CeEEEEEcCCeEEEEEEEEecCccceEecce
Q 032108 21 KKLLVLLRDGRKLMGTLCSFDQFANAVLEGA 51 (147)
Q Consensus 21 KkV~V~L~dGR~l~G~L~sfDq~mNLVL~da 51 (147)
..+.|.+.||+.+.+.+.++|...+|-|=..
T Consensus 111 ~~i~V~~~dg~~~~a~vv~~d~~~DlAvlkv 141 (448)
T 1ky9_A 111 TVIKVQLSDGRKFDAKMVGKDPRSDIALIQI 141 (448)
T ss_dssp EEEEEEETTSCEEEEEEEEEETTTTEEEEEE
T ss_pred CEEEEEECCCCEEEEEEEEEcCCCCEEEEEe
Confidence 4689999999999999999999888776543
No 57
>1x4r_A PARP14 protein; WWE domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}
Probab=26.19 E-value=5.1 Score=28.26 Aligned_cols=19 Identities=32% Similarity=0.305 Sum_probs=16.8
Q ss_pred EEEEEEecCccceEecceE
Q 032108 34 MGTLCSFDQFANAVLEGAC 52 (147)
Q Consensus 34 ~G~L~sfDq~mNLVL~da~ 52 (147)
-|++.+||.-.|+.|++|.
T Consensus 34 ~~~~~~FDk~TNl~LEeA~ 52 (99)
T 1x4r_A 34 KNITQCFDKMTNMKLEVAW 52 (99)
T ss_dssp SSCEEECCTTHHHHHHHHH
T ss_pred CCeEeechHHHHHHHHHHH
Confidence 4668999999999999985
No 58
>4a8c_A Periplasmic PH-dependent serine endoprotease DEGQ; chaperone, hydrolase; 7.50A {Escherichia coli} PDB: 4a8a_A 4a8b_A 4a9g_A
Probab=26.15 E-value=80 Score=26.48 Aligned_cols=31 Identities=26% Similarity=0.362 Sum_probs=26.9
Q ss_pred CeEEEEEcCCeEEEEEEEEecCccceEecce
Q 032108 21 KKLLVLLRDGRKLMGTLCSFDQFANAVLEGA 51 (147)
Q Consensus 21 KkV~V~L~dGR~l~G~L~sfDq~mNLVL~da 51 (147)
.++.|.+.||+.+.+.+.+.|...+|-|=..
T Consensus 88 ~~i~V~~~dg~~~~a~vv~~d~~~DlAllkv 118 (436)
T 4a8c_A 88 QKISIQLNDGREFDAKLIGSDDQSDIALLQI 118 (436)
T ss_pred CEEEEEeCCCCEEEEEEEEEcCCCCEEEEEe
Confidence 5799999999999999999999888766544
No 59
>2wr8_A Putative uncharacterized protein PH0463; transferase, SAM, SAM hydroxide adenosyltransferase (DUF-62) water activation; HET: SAH; 1.77A {Pyrococcus horikoshii} PDB: 1wu8_A*
Probab=24.51 E-value=53 Score=26.43 Aligned_cols=22 Identities=23% Similarity=0.342 Sum_probs=18.5
Q ss_pred CeEEEEEEEEecCccceEecce
Q 032108 30 GRKLMGTLCSFDQFANAVLEGA 51 (147)
Q Consensus 30 GR~l~G~L~sfDq~mNLVL~da 51 (147)
+..+.|...-+|.|+|++.+=.
T Consensus 171 ~~~i~g~V~~iD~FGN~iTnI~ 192 (259)
T 2wr8_A 171 GDVWILKVIYIDDFGNVILNLE 192 (259)
T ss_dssp TTEEEEEEEEECTTCCEEESCC
T ss_pred CCeEEEEEEEEcccCChhhcCC
Confidence 4568999999999999987643
No 60
>3fb9_A Uncharacterized protein; unknown function, structural genomics, MCSG, PSI2, protein S initiative; 1.80A {Streptococcus pneumoniae}
Probab=23.17 E-value=59 Score=22.35 Aligned_cols=26 Identities=19% Similarity=0.344 Sum_probs=20.7
Q ss_pred HHHhhccCCeEEEEEcCCe----EEEEEEE
Q 032108 13 TSLASYLDKKLLVLLRDGR----KLMGTLC 38 (147)
Q Consensus 13 ~~L~~~ldKkV~V~L~dGR----~l~G~L~ 38 (147)
..|.+++|++|.+....|| +-.|+|.
T Consensus 18 ~~l~~~vG~~V~l~An~GRkK~~er~GvL~ 47 (90)
T 3fb9_A 18 EEIKAHEGQVVEMTLENGRKRQKNRLGKLI 47 (90)
T ss_dssp HHHHHTTTSEEEEEECCSSSCCSCEEEEEE
T ss_pred HHHHHcCCCEEEEEecCCcccEEEEEEEEE
Confidence 3588999999999999997 3556653
No 61
>2zbv_A Uncharacterized conserved protein; NPPSFA, national project protein structural and functional analyses; HET: ADN; 2.05A {Thermotoga maritima} PDB: 2zbu_A*
Probab=22.93 E-value=57 Score=26.27 Aligned_cols=21 Identities=24% Similarity=0.408 Sum_probs=17.8
Q ss_pred CeEEEEEEEEecCccceEecc
Q 032108 30 GRKLMGTLCSFDQFANAVLEG 50 (147)
Q Consensus 30 GR~l~G~L~sfDq~mNLVL~d 50 (147)
+..+.|...-+|.|+|++.+=
T Consensus 167 ~~~i~g~V~~iD~FGN~iTnI 187 (263)
T 2zbv_A 167 NEKVIGEVAIVDTFGNVSTNI 187 (263)
T ss_dssp TTEEEEEEEEECTTCCEEEEE
T ss_pred CCeEEEEEEEEcccCChhhcC
Confidence 456899999999999998753
No 62
>2m0o_A PHD finger protein 1; tudor domain, H3K36ME3 binding, peptide binding protein; HET: M3L; NMR {Homo sapiens}
Probab=22.85 E-value=40 Score=22.76 Aligned_cols=29 Identities=21% Similarity=0.265 Sum_probs=25.1
Q ss_pred HhhccCCeEEEEEcCCeEEEEEEEEecCc
Q 032108 15 LASYLDKKLLVLLRDGRKLMGTLCSFDQF 43 (147)
Q Consensus 15 L~~~ldKkV~V~L~dGR~l~G~L~sfDq~ 43 (147)
..=..|.-|++.-+||+.|-|++.-+|..
T Consensus 25 ~~f~eGeDVLarwsDGlfYLGTI~kV~~~ 53 (79)
T 2m0o_A 25 PRLWEGQDVLARWTDGLLYLGTIKKVDSA 53 (79)
T ss_dssp CCCCTTCEEEBCCTTSCCCEEEEEEEETT
T ss_pred ceeccCCEEEEEecCCCEEeEEEEEeccC
Confidence 45568899999999999999999988865
No 63
>2e5p_A Protein PHF1, PHD finger protein 1; tudor domain, PHF1 protein, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=21.29 E-value=1.3e+02 Score=19.69 Aligned_cols=25 Identities=24% Similarity=0.319 Sum_probs=22.5
Q ss_pred cCCeEEEEEcCCeEEEEEEEEecCc
Q 032108 19 LDKKLLVLLRDGRKLMGTLCSFDQF 43 (147)
Q Consensus 19 ldKkV~V~L~dGR~l~G~L~sfDq~ 43 (147)
.+.-|+..-.||+.|-|+..-+|.+
T Consensus 12 eGqdVLarWsDGlfYlGtV~kV~~~ 36 (68)
T 2e5p_A 12 EGQDVLARWTDGLLYLGTIKKVDSA 36 (68)
T ss_dssp TTCEEEEECTTSSEEEEEEEEEETT
T ss_pred cCCEEEEEecCCcEEEeEEEEEecC
Confidence 6788999999999999999999854
No 64
>3stj_A Protease DEGQ; serine protease, PDZ domain, protease, chaperone, DEGP, DEGQ hydrolase; 2.60A {Escherichia coli}
Probab=20.30 E-value=1.1e+02 Score=24.79 Aligned_cols=30 Identities=27% Similarity=0.382 Sum_probs=25.6
Q ss_pred CeEEEEEcCCeEEEEEEEEecCccceEecc
Q 032108 21 KKLLVLLRDGRKLMGTLCSFDQFANAVLEG 50 (147)
Q Consensus 21 KkV~V~L~dGR~l~G~L~sfDq~mNLVL~d 50 (147)
.++.|.+.||+.+.+.+.++|...+|-|=.
T Consensus 88 ~~i~V~~~dg~~~~a~vv~~d~~~DlAlLk 117 (345)
T 3stj_A 88 QKISIQLNDGREFDAKLIGSDDQSDIALLQ 117 (345)
T ss_dssp EEEEEECTTSCEEEEEEEEEETTTTEEEEE
T ss_pred CEEEEEeCCCcEEEEEEEEEcCCCCEEEEE
Confidence 478899999999999999999888776543
Done!