Query 040998
Match_columns 117
No_of_seqs 106 out of 463
Neff 7.4
Searched_HMMs 29240
Date Mon Mar 25 04:00:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040998.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/040998hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1dsq_A Nucleic acid binding pr 97.3 0.00011 3.9E-09 36.0 2.1 22 84-105 2-23 (26)
2 1a6b_B Momulv, zinc finger pro 97.2 0.00018 6.2E-09 38.9 2.2 23 84-106 10-32 (40)
3 1nc8_A Nucleocapsid protein; H 96.9 0.00046 1.6E-08 34.6 2.1 21 84-104 6-26 (29)
4 1u6p_A GAG polyprotein; MLV, A 96.9 0.00044 1.5E-08 40.1 2.0 25 82-106 21-45 (56)
5 2ysa_A Retinoblastoma-binding 96.6 0.0009 3.1E-08 38.6 1.9 20 85-104 8-27 (55)
6 2ec7_A GAG polyprotein (PR55GA 96.1 0.0028 9.5E-08 35.3 1.9 18 85-102 7-24 (49)
7 2ec7_A GAG polyprotein (PR55GA 96.0 0.0042 1.4E-07 34.6 2.3 22 84-105 27-48 (49)
8 2ihx_A Nucleocapsid (NC) prote 95.8 0.0036 1.2E-07 36.4 1.7 20 86-105 32-51 (61)
9 3nyb_B Protein AIR2; polya RNA 95.7 0.0057 2E-07 37.9 2.4 23 84-106 46-68 (83)
10 1a1t_A Nucleocapsid protein; s 95.5 0.005 1.7E-07 34.9 1.5 18 86-103 35-52 (55)
11 2ihx_A Nucleocapsid (NC) prote 95.5 0.0053 1.8E-07 35.7 1.7 22 83-104 3-24 (61)
12 2bl6_A Nucleocapsid protein P1 95.5 0.0056 1.9E-07 32.0 1.6 17 86-102 2-18 (37)
13 2a51_A Nucleocapsid protein; s 95.5 0.0063 2.1E-07 32.2 1.8 18 85-102 22-39 (39)
14 2a51_A Nucleocapsid protein; s 95.5 0.0063 2.2E-07 32.2 1.7 18 86-103 2-19 (39)
15 1cl4_A Protein (GAG polyprotei 95.4 0.011 3.6E-07 34.1 2.7 23 83-105 29-51 (60)
16 2bl6_A Nucleocapsid protein P1 95.4 0.0051 1.7E-07 32.2 1.2 19 84-102 19-37 (37)
17 1a1t_A Nucleocapsid protein; s 95.2 0.0076 2.6E-07 34.2 1.6 22 82-103 10-31 (55)
18 2cqf_A RNA-binding protein LIN 94.9 0.013 4.5E-07 34.2 2.1 19 84-102 7-25 (63)
19 2hqh_E Restin; beta/BETA struc 94.9 0.0087 3E-07 29.1 1.0 20 84-103 3-22 (26)
20 2li8_A Protein LIN-28 homolog 94.5 0.018 6E-07 34.9 1.9 21 83-103 23-43 (74)
21 2cqf_A RNA-binding protein LIN 94.4 0.023 7.8E-07 33.2 2.2 21 84-104 29-49 (63)
22 1cl4_A Protein (GAG polyprotei 94.2 0.0086 2.9E-07 34.5 0.0 20 85-104 2-21 (60)
23 3nyb_B Protein AIR2; polya RNA 93.5 0.019 6.4E-07 35.6 0.7 22 82-103 3-24 (83)
24 3ts2_A Protein LIN-28 homolog 93.0 0.038 1.3E-06 37.6 1.7 18 85-102 98-115 (148)
25 2li8_A Protein LIN-28 homolog 92.8 0.034 1.1E-06 33.6 1.1 22 83-104 45-66 (74)
26 2lli_A Protein AIR2; RNA surve 92.1 0.077 2.6E-06 34.6 2.2 21 83-103 104-124 (124)
27 3ts2_A Protein LIN-28 homolog 92.0 0.052 1.8E-06 36.9 1.3 22 85-106 120-141 (148)
28 2lli_A Protein AIR2; RNA surve 90.4 0.27 9.1E-06 32.0 3.5 22 84-105 64-85 (124)
29 2pzo_E CAP-Gly domain-containi 88.2 0.17 5.7E-06 27.2 1.0 20 84-103 20-39 (42)
30 4ayb_H DNA-directed RNA polyme 81.4 1.2 4.2E-05 27.3 2.9 44 14-57 39-82 (84)
31 3e2u_E CAP-Gly domain-containi 80.0 0.68 2.3E-05 24.9 1.1 20 84-103 20-39 (42)
32 1ef4_A Subunit N, DNA-directed 75.1 0.97 3.3E-05 25.7 0.9 11 83-93 2-12 (55)
33 1hmj_A RPB5, protein (subunit 75.0 4.7 0.00016 24.4 4.1 44 14-57 31-74 (78)
34 4ayb_N DNA-directed RNA polyme 73.5 1.1 3.9E-05 26.4 0.9 11 83-93 3-13 (66)
35 1twf_J DNA-directed RNA polyme 70.0 1.5 5.1E-05 26.1 0.9 11 83-93 3-13 (70)
36 1eik_A RNA polymerase subunit 67.5 2 6.9E-05 26.0 1.2 34 13-46 32-65 (77)
37 1wwh_A Nucleoporin 35, nucleop 57.5 17 0.00057 23.6 4.3 32 9-42 24-55 (119)
38 2cqg_A TDP-43, TAR DNA-binding 48.7 27 0.00091 20.6 4.1 69 12-83 18-92 (103)
39 2cq3_A RNA-binding protein 9; 46.1 39 0.0013 19.8 4.6 34 11-45 17-50 (103)
40 2dgv_A HnRNP M, heterogeneous 45.0 31 0.0011 19.7 3.9 33 11-44 10-42 (92)
41 2krb_A Eukaryotic translation 44.3 39 0.0014 18.9 4.2 32 12-43 4-40 (81)
42 2jmo_A Parkin; IBR, E3 ligase, 44.1 8.2 0.00028 23.0 1.1 19 84-103 58-76 (80)
43 2cqi_A Nucleolysin TIAR; RNA r 43.3 36 0.0012 20.0 4.1 71 11-84 17-93 (103)
44 2apo_B Ribosome biogenesis pro 41.8 12 0.0004 21.5 1.5 32 83-115 5-44 (60)
45 2aus_D NOP10, ribosome biogene 41.4 12 0.00041 21.4 1.5 31 84-115 5-43 (60)
46 1ltl_A DNA replication initiat 40.5 1E+02 0.0035 22.2 7.6 30 9-42 88-118 (279)
47 3but_A Uncharacterized protein 40.3 35 0.0012 22.3 3.9 36 49-84 14-49 (136)
48 2cph_A RNA binding motif prote 38.2 59 0.002 19.0 4.5 33 12-45 18-50 (107)
49 2row_A RHO-associated protein 37.7 25 0.00086 21.3 2.6 24 70-93 21-44 (84)
50 2wbr_A GW182, gawky, LD47780P; 37.4 49 0.0017 20.2 3.9 37 7-44 5-41 (89)
51 2nlw_A Eukaryotic translation 36.1 64 0.0022 19.1 4.4 33 11-43 17-54 (105)
52 2d9p_A Polyadenylate-binding p 36.1 43 0.0015 19.6 3.6 33 12-45 18-50 (103)
53 1dzf_A DNA-directed RNA polyme 34.1 28 0.00095 24.9 2.7 42 14-55 172-213 (215)
54 2cqc_A Arginine/serine-rich sp 33.7 68 0.0023 18.2 4.8 32 12-44 18-49 (95)
55 3p3d_A Nucleoporin 53; structu 33.5 13 0.00043 24.7 0.8 82 4-96 2-85 (132)
56 2w0t_A Lethal(3)malignant brai 31.9 15 0.0005 19.7 0.7 16 84-99 6-21 (43)
57 1why_A Hypothetical protein ri 31.8 64 0.0022 18.6 3.8 33 12-45 20-52 (97)
58 3alr_A Nanos protein; zinc-fin 30.7 17 0.00058 23.2 1.0 22 85-106 72-96 (106)
59 3ixx_D Peptide PR; WEST NIle v 30.5 18 0.00063 21.9 1.1 15 99-113 50-64 (80)
60 2yqp_A Probable ATP-dependent 30.4 16 0.00056 20.8 0.8 12 85-96 20-31 (60)
61 2kwq_A Protein MCM10 homolog; 30.3 24 0.00082 21.9 1.6 18 77-94 57-75 (92)
62 2cpf_A RNA binding motif prote 28.9 45 0.0015 19.3 2.7 32 12-44 8-39 (98)
63 3h0g_E DNA-directed RNA polyme 28.9 31 0.0011 24.6 2.2 35 13-47 166-200 (210)
64 2khc_A Testis-specific RNP-typ 28.9 96 0.0033 18.5 4.5 33 11-44 42-74 (118)
65 3mdf_A Peptidyl-prolyl CIS-tra 28.8 74 0.0025 17.6 3.7 32 11-43 9-40 (85)
66 3ucg_A Polyadenylate-binding p 28.2 83 0.0028 17.6 4.3 32 12-44 9-40 (89)
67 1x4a_A Splicing factor, argini 28.1 68 0.0023 19.0 3.5 34 12-46 25-58 (109)
68 4f25_A Polyadenylate-binding p 27.9 58 0.002 19.7 3.2 30 14-44 10-39 (115)
69 2cq0_A Eukaryotic translation 27.8 94 0.0032 18.0 4.6 32 12-44 18-49 (103)
70 2err_A Ataxin-2-binding protei 27.0 50 0.0017 19.8 2.7 43 11-54 31-73 (109)
71 2dnz_A Probable RNA-binding pr 27.0 92 0.0031 17.7 4.4 33 12-45 8-40 (95)
72 3bs9_A Nucleolysin TIA-1 isofo 26.3 90 0.0031 17.3 4.9 33 11-44 8-40 (87)
73 2dgx_A KIAA0430 protein; RRM d 25.4 98 0.0033 17.9 3.8 67 12-82 12-88 (96)
74 1znf_A 31ST zinc finger from X 24.3 24 0.00082 14.6 0.6 10 84-93 1-10 (27)
75 3uej_A NPKC-delta, protein kin 23.9 52 0.0018 18.2 2.2 23 71-93 7-29 (65)
76 2cjk_A Nuclear polyadenylated 23.5 1.3E+02 0.0046 18.6 4.5 32 12-44 6-37 (167)
77 3lqv_A PRE-mRNA branch site pr 23.1 1.2E+02 0.0041 18.0 4.0 34 12-46 11-44 (115)
78 2fnf_X Putative RAS effector N 22.9 32 0.0011 19.9 1.1 21 73-93 23-44 (72)
79 2ghp_A U4/U6 snRNA-associated 22.7 84 0.0029 22.0 3.6 69 12-82 213-289 (292)
80 1ard_A Yeast transcription fac 22.6 28 0.00097 14.5 0.7 10 84-93 2-11 (29)
81 2dnm_A SRP46 splicing factor; 22.4 1.2E+02 0.0042 17.5 3.9 32 12-44 16-47 (103)
82 2kvh_A Zinc finger and BTB dom 22.2 25 0.00086 14.7 0.5 10 84-93 3-12 (27)
83 1paa_A Yeast transcription fac 22.1 29 0.001 14.7 0.7 10 84-93 2-11 (30)
84 2jrs_A RNA-binding protein 39; 21.8 1.4E+02 0.0046 17.8 4.1 33 10-43 27-59 (108)
85 3ex7_B RNA-binding protein 8A; 21.7 1.4E+02 0.0048 17.9 4.2 33 11-44 24-56 (126)
86 1rik_A E6APC1 peptide; E6-bind 21.7 26 0.0009 14.7 0.5 10 84-93 2-11 (29)
87 3j20_Y 30S ribosomal protein S 21.6 28 0.00095 18.9 0.6 12 81-92 16-27 (50)
88 2m0f_A Zinc finger and BTB dom 21.3 27 0.00091 14.6 0.5 10 84-93 2-11 (29)
89 1x5u_A Splicing factor 3B subu 21.2 1.3E+02 0.0045 17.4 4.2 33 12-45 18-50 (105)
90 2m0e_A Zinc finger and BTB dom 20.8 32 0.0011 14.2 0.7 10 84-93 2-11 (29)
91 2lvu_A Zinc finger and BTB dom 26.0 21 0.00072 14.8 0.0 10 84-93 2-11 (26)
92 2kfq_A FP1; protein, de novo p 20.6 32 0.0011 15.3 0.7 10 84-93 2-11 (32)
93 1klr_A Zinc finger Y-chromosom 20.4 33 0.0011 14.3 0.7 10 84-93 2-11 (30)
94 3s7r_A Heterogeneous nuclear r 20.3 1.2E+02 0.0043 16.8 4.7 31 12-43 14-44 (87)
95 2m0d_A Zinc finger and BTB dom 20.3 29 0.00098 14.5 0.5 10 84-93 3-12 (30)
96 1whw_A Hypothetical protein ri 20.2 1.3E+02 0.0046 17.1 4.4 33 12-45 11-43 (99)
No 1
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1
Probab=97.32 E-value=0.00011 Score=35.98 Aligned_cols=22 Identities=41% Similarity=0.924 Sum_probs=18.1
Q ss_pred CcccccccccccCCCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPENGD 105 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~~~ 105 (117)
+..||.||..||..++|+....
T Consensus 2 ~~~Cf~CG~~GH~ardC~~~~~ 23 (26)
T 1dsq_A 2 GPVCFSCGKTGHIKRDCKEEXX 23 (26)
T ss_dssp CCBCTTTCCBSSCTTTTTCC--
T ss_pred CCeeEeCCCCCcccccCCCccc
Confidence 4579999999999999997643
No 2
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=97.21 E-value=0.00018 Score=38.93 Aligned_cols=23 Identities=30% Similarity=0.699 Sum_probs=20.3
Q ss_pred CcccccccccccCCCCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPENGDG 106 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~~~~ 106 (117)
...||.||..||...+||.+..+
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~~~ 32 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKPRG 32 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSCCC
T ss_pred CCeeeECCCCCcchhhCcCCccc
Confidence 46899999999999999998654
No 3
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A
Probab=96.93 E-value=0.00046 Score=34.56 Aligned_cols=21 Identities=43% Similarity=0.920 Sum_probs=18.3
Q ss_pred CcccccccccccCCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPENG 104 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~~ 104 (117)
+..||.||+.||...+|+.+.
T Consensus 6 ~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSSS
T ss_pred CCEEEECCccccCHhHCcccc
Confidence 467999999999999998653
No 4
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A
Probab=96.89 E-value=0.00044 Score=40.06 Aligned_cols=25 Identities=28% Similarity=0.562 Sum_probs=21.2
Q ss_pred cCCcccccccccccCCCCCCCCCCC
Q 040998 82 SLPINCFNCGKYGHVSIGCPENGDG 106 (117)
Q Consensus 82 ~lp~~C~~Cg~~GH~~~~C~~~~~~ 106 (117)
.-..-|+.||..||...+||.....
T Consensus 21 ~~~~~C~~Cge~GH~ardCp~~~~~ 45 (56)
T 1u6p_A 21 LDRDQCAYCKEKGHWAKDCPKKPRG 45 (56)
T ss_dssp CCTTBCSSSCCBSSCGGGCTTCCCS
T ss_pred CCCCcceeCCCCCcccccCcCCccc
Confidence 3457799999999999999998654
No 5
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=96.61 E-value=0.0009 Score=38.59 Aligned_cols=20 Identities=55% Similarity=1.235 Sum_probs=17.5
Q ss_pred cccccccccccCCCCCCCCC
Q 040998 85 INCFNCGKYGHVSIGCPENG 104 (117)
Q Consensus 85 ~~C~~Cg~~GH~~~~C~~~~ 104 (117)
..|+.||..||..++|+...
T Consensus 8 ~~C~kCGk~GH~~k~Cp~~~ 27 (55)
T 2ysa_A 8 YTCFRCGKPGHYIKNCPTNG 27 (55)
T ss_dssp CCCTTTCCTTSCGGGCSGGG
T ss_pred CccccCCCcCcccccCCCCC
Confidence 57999999999999999543
No 6
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=96.06 E-value=0.0028 Score=35.34 Aligned_cols=18 Identities=50% Similarity=1.141 Sum_probs=9.4
Q ss_pred cccccccccccCCCCCCC
Q 040998 85 INCFNCGKYGHVSIGCPE 102 (117)
Q Consensus 85 ~~C~~Cg~~GH~~~~C~~ 102 (117)
..||.||..||...+|+.
T Consensus 7 ~~C~~Cg~~GH~a~~C~~ 24 (49)
T 2ec7_A 7 IRCWNCGKEGHSARQCRA 24 (49)
T ss_dssp CBCTTTCCBTCCTTTCCC
T ss_pred CeeeecCCCCcChhhCcC
Confidence 445555555555555544
No 7
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=95.96 E-value=0.0042 Score=34.58 Aligned_cols=22 Identities=45% Similarity=1.019 Sum_probs=19.2
Q ss_pred CcccccccccccCCCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPENGD 105 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~~~ 105 (117)
...|+.||..||...+|+....
T Consensus 27 ~~~C~~Cg~~GH~~~~C~~~~~ 48 (49)
T 2ec7_A 27 RQGCWKCGKTGHVMAKCPERQA 48 (49)
T ss_dssp CCSCSSSCCSSCCGGGCCSSCC
T ss_pred CCeeCcCCCcCCccCCCcCCCC
Confidence 3579999999999999998764
No 8
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=95.82 E-value=0.0036 Score=36.42 Aligned_cols=20 Identities=25% Similarity=0.625 Sum_probs=10.7
Q ss_pred ccccccccccCCCCCCCCCC
Q 040998 86 NCFNCGKYGHVSIGCPENGD 105 (117)
Q Consensus 86 ~C~~Cg~~GH~~~~C~~~~~ 105 (117)
.|+.||..||...+|+....
T Consensus 32 ~C~~Cg~~GH~ar~C~~~~~ 51 (61)
T 2ihx_A 32 RCQLCNGMGHNAKQCRKRDG 51 (61)
T ss_dssp BCTTTCCBSSCGGGCCCCC-
T ss_pred eeCCCCCCCCCcCCCcCCCc
Confidence 45555555555555555443
No 9
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=95.73 E-value=0.0057 Score=37.95 Aligned_cols=23 Identities=39% Similarity=0.907 Sum_probs=20.3
Q ss_pred CcccccccccccCCCCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPENGDG 106 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~~~~ 106 (117)
..+|+.||.-||..++|+.....
T Consensus 46 ~~~CYnCG~~GH~~rdC~~~r~s 68 (83)
T 3nyb_B 46 TIYCYNCGGKGHFGDDCKEKRSS 68 (83)
T ss_dssp CCBCSSSSCBSSCGGGCSSCCSC
T ss_pred CCeecccCCCCcCcccCCccccC
Confidence 47999999999999999988643
No 10
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A
Probab=95.55 E-value=0.005 Score=34.94 Aligned_cols=18 Identities=44% Similarity=1.075 Sum_probs=9.5
Q ss_pred ccccccccccCCCCCCCC
Q 040998 86 NCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 86 ~C~~Cg~~GH~~~~C~~~ 103 (117)
.|+.||..||...+|+..
T Consensus 35 ~C~~Cg~~GH~~~~C~~~ 52 (55)
T 1a1t_A 35 GCWKCGKEGHQMKDCTER 52 (55)
T ss_dssp BCTTTCCBSSCGGGCSSS
T ss_pred EeCCCCCcCCccCCCcCc
Confidence 455555555555555543
No 11
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=95.55 E-value=0.0053 Score=35.68 Aligned_cols=22 Identities=32% Similarity=0.797 Sum_probs=19.7
Q ss_pred CCcccccccccccCCCCCCCCC
Q 040998 83 LPINCFNCGKYGHVSIGCPENG 104 (117)
Q Consensus 83 lp~~C~~Cg~~GH~~~~C~~~~ 104 (117)
-+..||.|+..||...+|+...
T Consensus 3 ~~~~C~~Cg~~GH~a~~C~~~~ 24 (61)
T 2ihx_A 3 ARGLCYTCGSPGHYQAQCPKKR 24 (61)
T ss_dssp CTTBCSSSCCBTCCGGGCTTTT
T ss_pred CCCcccccCCCCeehhhCcCCc
Confidence 4678999999999999999864
No 12
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=95.54 E-value=0.0056 Score=32.01 Aligned_cols=17 Identities=53% Similarity=1.243 Sum_probs=11.7
Q ss_pred ccccccccccCCCCCCC
Q 040998 86 NCFNCGKYGHVSIGCPE 102 (117)
Q Consensus 86 ~C~~Cg~~GH~~~~C~~ 102 (117)
.||.||..||...+|+.
T Consensus 2 ~C~~Cg~~GH~~~~C~~ 18 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRA 18 (37)
T ss_dssp CBSSSCCSSCCTTTSSC
T ss_pred cccccCCCCcchhhCcC
Confidence 46777777777777765
No 13
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=95.54 E-value=0.0063 Score=32.19 Aligned_cols=18 Identities=39% Similarity=0.955 Sum_probs=12.8
Q ss_pred cccccccccccCCCCCCC
Q 040998 85 INCFNCGKYGHVSIGCPE 102 (117)
Q Consensus 85 ~~C~~Cg~~GH~~~~C~~ 102 (117)
..|+.||..||...+|+.
T Consensus 22 ~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 22 EGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp SSCTTTCCSSSCTTTSCC
T ss_pred CccccCCCCCCccCcCcC
Confidence 467777777777777763
No 14
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=95.50 E-value=0.0063 Score=32.18 Aligned_cols=18 Identities=50% Similarity=1.113 Sum_probs=16.6
Q ss_pred ccccccccccCCCCCCCC
Q 040998 86 NCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 86 ~C~~Cg~~GH~~~~C~~~ 103 (117)
.||.||..||...+|+..
T Consensus 2 ~C~~Cg~~GH~a~~C~~~ 19 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQP 19 (39)
T ss_dssp BCTTTCCBSSCTTTCCSC
T ss_pred eeeccCCCCcccccCCCC
Confidence 599999999999999975
No 15
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=95.43 E-value=0.011 Score=34.13 Aligned_cols=23 Identities=26% Similarity=0.498 Sum_probs=20.0
Q ss_pred CCcccccccccccCCCCCCCCCC
Q 040998 83 LPINCFNCGKYGHVSIGCPENGD 105 (117)
Q Consensus 83 lp~~C~~Cg~~GH~~~~C~~~~~ 105 (117)
....|+.||..||...+|+....
T Consensus 29 ~~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 29 VPGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp CCCSCSSCSSCSSCSTTCCCTTS
T ss_pred CCcceeECCCCCCccCcCCCccc
Confidence 45789999999999999998764
No 16
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=95.41 E-value=0.0051 Score=32.19 Aligned_cols=19 Identities=42% Similarity=0.946 Sum_probs=17.0
Q ss_pred CcccccccccccCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPE 102 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~ 102 (117)
+..|+.||..||..++|+.
T Consensus 19 ~~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 19 PKVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp BTTCSSCCCTTGGGGTTCC
T ss_pred cCeEccCCCcCCccCcCcC
Confidence 4689999999999999974
No 17
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A
Probab=95.22 E-value=0.0076 Score=34.16 Aligned_cols=22 Identities=41% Similarity=1.020 Sum_probs=19.2
Q ss_pred cCCcccccccccccCCCCCCCC
Q 040998 82 SLPINCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 82 ~lp~~C~~Cg~~GH~~~~C~~~ 103 (117)
+-+..||.||..||...+|+..
T Consensus 10 ~~~~~C~~Cg~~GH~a~~C~~~ 31 (55)
T 1a1t_A 10 RKTVKCFNCGKEGHIAKNCRAP 31 (55)
T ss_dssp GGTCBCTTTCCBSSCGGGCSSC
T ss_pred CCCcceeeeCCCCcChhhcCCC
Confidence 4467899999999999999875
No 18
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=94.95 E-value=0.013 Score=34.23 Aligned_cols=19 Identities=32% Similarity=0.749 Sum_probs=11.0
Q ss_pred CcccccccccccCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPE 102 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~ 102 (117)
+..||.|+..||...+|+.
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~ 25 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKL 25 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCS
T ss_pred CCcccccCCCCcChhhCCC
Confidence 3456666666666666653
No 19
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=94.90 E-value=0.0087 Score=29.09 Aligned_cols=20 Identities=25% Similarity=0.679 Sum_probs=17.3
Q ss_pred CcccccccccccCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~ 103 (117)
.++|-+|..+||...+|+..
T Consensus 3 RpYCe~CE~FGH~t~~C~d~ 22 (26)
T 2hqh_E 3 RPYCEICEMFGHWATNCNDD 22 (26)
T ss_dssp -CEETTTTEESSCGGGCCTT
T ss_pred CccchHHHHhCcccccCCcc
Confidence 47899999999999999754
No 20
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=94.46 E-value=0.018 Score=34.91 Aligned_cols=21 Identities=29% Similarity=0.631 Sum_probs=16.9
Q ss_pred CCcccccccccccCCCCCCCC
Q 040998 83 LPINCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 83 lp~~C~~Cg~~GH~~~~C~~~ 103 (117)
.+..||.||..||...+|+..
T Consensus 23 r~~~C~~Cg~~GH~a~~C~~~ 43 (74)
T 2li8_A 23 KGDRCYNCGGLDHHAKECKLP 43 (74)
T ss_dssp TTSCCTTTCCSSSCTTTCSSC
T ss_pred CCCcccccCCcCcCcccCCCC
Confidence 556789999999998888853
No 21
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=94.36 E-value=0.023 Score=33.18 Aligned_cols=21 Identities=29% Similarity=0.773 Sum_probs=19.0
Q ss_pred CcccccccccccCCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPENG 104 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~~ 104 (117)
+..|+.||..||...+|+...
T Consensus 29 ~~~C~~Cg~~GH~ar~Cp~~~ 49 (63)
T 2cqf_A 29 PKKCHFCQSISHMVASCPLKA 49 (63)
T ss_dssp SSCCTTTCCSSSCTTTCTGGG
T ss_pred CCccCCcCCcCCccCcCCCcc
Confidence 578999999999999999764
No 22
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=94.15 E-value=0.0086 Score=34.53 Aligned_cols=20 Identities=45% Similarity=1.044 Sum_probs=0.0
Q ss_pred cccccccccccCCCCCCCCC
Q 040998 85 INCFNCGKYGHVSIGCPENG 104 (117)
Q Consensus 85 ~~C~~Cg~~GH~~~~C~~~~ 104 (117)
..||.|+..||...+|+...
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~ 21 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHA 21 (60)
T ss_dssp --------------------
T ss_pred CccccCCCCCcCHhhCcCCC
Confidence 36999999999999999864
No 23
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=93.49 E-value=0.019 Score=35.57 Aligned_cols=22 Identities=23% Similarity=0.445 Sum_probs=16.8
Q ss_pred cCCcccccccccccCCCCCCCC
Q 040998 82 SLPINCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 82 ~lp~~C~~Cg~~GH~~~~C~~~ 103 (117)
|-...|+.|+..||..++||..
T Consensus 3 ~k~~~C~~Cg~~GH~~~~Cp~~ 24 (83)
T 3nyb_B 3 WKKVQCTLCKSKKHSKERCPSI 24 (83)
T ss_dssp ----CCSSSCCSSSCGGGCGGG
T ss_pred cccCCCCCCCCCCCccccCCCc
Confidence 4567899999999999999874
No 24
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=92.99 E-value=0.038 Score=37.56 Aligned_cols=18 Identities=33% Similarity=0.820 Sum_probs=12.9
Q ss_pred cccccccccccCCCCCCC
Q 040998 85 INCFNCGKYGHVSIGCPE 102 (117)
Q Consensus 85 ~~C~~Cg~~GH~~~~C~~ 102 (117)
..||+||..||...+|+.
T Consensus 98 ~~C~~Cg~~GH~a~~C~~ 115 (148)
T 3ts2_A 98 DRCYNCGGLDHHAKECKL 115 (148)
T ss_dssp CCCTTTCCSSCCGGGCCS
T ss_pred CcccEeCCccchhhhCCC
Confidence 357777777777777776
No 25
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=92.84 E-value=0.034 Score=33.63 Aligned_cols=22 Identities=27% Similarity=0.714 Sum_probs=19.4
Q ss_pred CCcccccccccccCCCCCCCCC
Q 040998 83 LPINCFNCGKYGHVSIGCPENG 104 (117)
Q Consensus 83 lp~~C~~Cg~~GH~~~~C~~~~ 104 (117)
.+..|+.||..||...+|+...
T Consensus 45 ~~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 45 QPKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp CCCCCTTTCCTTSCGGGCTTGG
T ss_pred CCCccCCcCCcCCccCcCcCCc
Confidence 3578999999999999999865
No 26
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=92.08 E-value=0.077 Score=34.61 Aligned_cols=21 Identities=43% Similarity=0.964 Sum_probs=18.6
Q ss_pred CCcccccccccccCCCCCCCC
Q 040998 83 LPINCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 83 lp~~C~~Cg~~GH~~~~C~~~ 103 (117)
-...|++||..||...+||..
T Consensus 104 ~~~~Cy~Cg~~GH~a~dCp~~ 124 (124)
T 2lli_A 104 HTIYCYNCGGKGHFGDDCKEK 124 (124)
T ss_dssp CCCCTTTTSSSCTTTTTSCCC
T ss_pred CCCCcCCCCCCCcCcccCcCC
Confidence 458999999999999999863
No 27
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=91.97 E-value=0.052 Score=36.88 Aligned_cols=22 Identities=23% Similarity=0.622 Sum_probs=18.8
Q ss_pred cccccccccccCCCCCCCCCCC
Q 040998 85 INCFNCGKYGHVSIGCPENGDG 106 (117)
Q Consensus 85 ~~C~~Cg~~GH~~~~C~~~~~~ 106 (117)
..|+.||..||...+||.....
T Consensus 120 ~~C~~Cg~~GH~~r~Cp~~~~~ 141 (148)
T 3ts2_A 120 KKCHFCQSINHMVASCPLKAQQ 141 (148)
T ss_dssp CCCTTTCCSSCCGGGCTTTTC-
T ss_pred CcccccCCcCCEeccCcCCCCC
Confidence 4699999999999999987554
No 28
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=90.41 E-value=0.27 Score=31.97 Aligned_cols=22 Identities=23% Similarity=0.462 Sum_probs=18.2
Q ss_pred CcccccccccccCCCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPENGD 105 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~~~ 105 (117)
...|+.||..||..++|+....
T Consensus 64 ~~~C~~Cg~~GH~~~~Cp~~~~ 85 (124)
T 2lli_A 64 KVQCTLCKSKKHSKERCPSIWR 85 (124)
T ss_dssp CCSSSSSCSSCCCTTTCCCSTT
T ss_pred CccCCCCCcCCcchhhCCCccc
Confidence 3679999999999999997643
No 29
>2pzo_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskeleton associated protein, P150glued; 2.60A {Homo sapiens} PDB: 3e2u_E
Probab=88.19 E-value=0.17 Score=27.21 Aligned_cols=20 Identities=25% Similarity=0.679 Sum_probs=17.3
Q ss_pred CcccccccccccCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~ 103 (117)
..+|-.|...||...+|+..
T Consensus 20 RpYCd~CEvFGH~t~~Cndd 39 (42)
T 2pzo_E 20 RPYCEICEMFGHWATNCNDD 39 (42)
T ss_dssp -CEETTTTEESSCGGGCCTT
T ss_pred CcccccccccCcccccCCcc
Confidence 47899999999999999754
No 30
>4ayb_H DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_H 2y0s_H 2waq_H 4b1o_H 4b1p_Z 2pmz_H 3hkz_H
Probab=81.41 E-value=1.2 Score=27.35 Aligned_cols=44 Identities=14% Similarity=0.125 Sum_probs=36.1
Q ss_pred ecCCCccccccchhhhhhhccccEEEEeccCCCccccceEEEEE
Q 040998 14 LSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRSASRRKFVRIAV 57 (117)
Q Consensus 14 i~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~~~~~~y~Rv~V 57 (117)
...||.-+.+..+++.+|-.-|.++++...+......-|-|+.|
T Consensus 39 ~~qLP~I~~~DPva~~~g~k~GdVvkI~R~S~tag~~~~YR~vv 82 (84)
T 4ayb_H 39 PEQLPWIRASDPVARSINAKPGDIIRIIRKSQLYGEVVSYRYVI 82 (84)
T ss_dssp GGGSCCEESSSHHHHHHTCCTTCEEEEEEEETTTEEEEEEEEEE
T ss_pred HhHCCeecccCHhHHhhCCCCCCEEEEEEcCCCCCccEEEEEEe
Confidence 35789999999999999999999999999876554455657765
No 31
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=79.98 E-value=0.68 Score=24.86 Aligned_cols=20 Identities=25% Similarity=0.679 Sum_probs=18.2
Q ss_pred CcccccccccccCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~ 103 (117)
..+|-.|-.+||...+|...
T Consensus 20 RpYCe~CEVFGH~t~eC~dd 39 (42)
T 3e2u_E 20 RPYCEICEMFGHWATNCNDD 39 (42)
T ss_dssp CCEETTTTEESSCGGGCCTT
T ss_pred CcccccceecccccccCCcc
Confidence 68999999999999999864
No 32
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Probab=75.14 E-value=0.97 Score=25.71 Aligned_cols=11 Identities=45% Similarity=1.404 Sum_probs=9.5
Q ss_pred CCccccccccc
Q 040998 83 LPINCFNCGKY 93 (117)
Q Consensus 83 lp~~C~~Cg~~ 93 (117)
.|..||.||++
T Consensus 2 iPVRCFTCGkv 12 (55)
T 1ef4_A 2 IPVRCLSCGKP 12 (55)
T ss_dssp CSSSCSCTTSC
T ss_pred CCeecCCCCCC
Confidence 58899999985
No 33
>1hmj_A RPB5, protein (subunit H); RNA polymerase, archaea; NMR {Methanocaldococcus jannaschii} SCOP: d.78.1.1
Probab=75.00 E-value=4.7 Score=24.41 Aligned_cols=44 Identities=18% Similarity=0.383 Sum_probs=34.2
Q ss_pred ecCCCccccccchhhhhhhccccEEEEeccCCCccccceEEEEE
Q 040998 14 LSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRSASRRKFVRIAV 57 (117)
Q Consensus 14 i~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~~~~~~y~Rv~V 57 (117)
-..||.-+.+..+++.+|-.-|+++++...+......-+-|+.|
T Consensus 31 ~~qLPrI~~~DPvar~~G~k~GdVvkI~R~S~taG~~v~YR~Vv 74 (78)
T 1hmj_A 31 IQQLPKIYEDDPVIQEIGAKEGDVVRVIRKSPTAGVSIAYRLVI 74 (78)
T ss_pred HHHCCeeeCcCHhhHHhCCCCCCEEEEEECCCCCCCcEEEEEEE
Confidence 45689999999999999999999999988876544333445544
No 34
>4ayb_N DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_N 2y0s_N 2waq_N 4b1o_N 4b1p_O 2pmz_N 3hkz_N
Probab=73.46 E-value=1.1 Score=26.37 Aligned_cols=11 Identities=55% Similarity=1.570 Sum_probs=9.5
Q ss_pred CCccccccccc
Q 040998 83 LPINCFNCGKY 93 (117)
Q Consensus 83 lp~~C~~Cg~~ 93 (117)
+|..||.||++
T Consensus 3 IPVRCFTCGkv 13 (66)
T 4ayb_N 3 IPIRCFTCGSL 13 (66)
T ss_dssp CCSBCTTTCCB
T ss_pred CCcccCCCcHh
Confidence 58899999985
No 35
>1twf_J DNA-directed RNA polymerases I, II, and III 8.3 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.11.1 PDB: 1i3q_J 1i6h_J 1k83_J* 1nik_J 1nt9_J 1pqv_J 1r5u_J 1r9s_J* 1r9t_J* 1sfo_J* 1twa_J* 1twc_J* 1i50_J* 1twg_J* 1twh_J* 1wcm_J 1y1v_J 1y1w_J 1y1y_J 1y77_J* ...
Probab=70.03 E-value=1.5 Score=26.13 Aligned_cols=11 Identities=55% Similarity=1.585 Sum_probs=9.5
Q ss_pred CCccccccccc
Q 040998 83 LPINCFNCGKY 93 (117)
Q Consensus 83 lp~~C~~Cg~~ 93 (117)
.|..||.||++
T Consensus 3 iPVRCFTCGkv 13 (70)
T 1twf_J 3 VPVRCFSCGKV 13 (70)
T ss_dssp CCSBCTTTCCB
T ss_pred CCeecCCCCCC
Confidence 58899999985
No 36
>1eik_A RNA polymerase subunit RPB5; RPBH, OCSP, NESG, protein structure initiative, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: d.78.1.1
Probab=67.47 E-value=2 Score=26.00 Aligned_cols=34 Identities=15% Similarity=0.277 Sum_probs=29.6
Q ss_pred EecCCCccccccchhhhhhhccccEEEEeccCCC
Q 040998 13 KLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRS 46 (117)
Q Consensus 13 ri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~ 46 (117)
.-..||.-+.+..+++.+|-.-|.++++...+..
T Consensus 32 ~~~qLP~I~~~DPvar~~G~k~GdVvkI~R~S~t 65 (77)
T 1eik_A 32 HPEQLPKIKTTDPVAKAIGAKRGDIVKIIRKSPT 65 (77)
T ss_dssp CTTTSCCCBTTSHHHHGGGCCTTCEEEEEEEETT
T ss_pred CHHHCCeeeCcCHhhHHhCCCCCCEEEEEECCCC
Confidence 3457899999999999999999999999887654
No 37
>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1
Probab=57.52 E-value=17 Score=23.64 Aligned_cols=32 Identities=13% Similarity=0.326 Sum_probs=26.4
Q ss_pred eEEEEecCCCccccccchhhhhhhccccEEEEec
Q 040998 9 VAWIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDF 42 (117)
Q Consensus 9 ~~WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~ 42 (117)
+.||.+.|.|..- ...+++++. ..|++++...
T Consensus 24 ~~wVtVFGFp~~~-~~~VL~~F~-~~G~Iv~~~~ 55 (119)
T 1wwh_A 24 DTWVTVFGFPQAS-ASYILLQFA-QYGNILKHVM 55 (119)
T ss_dssp GGEEEEECCCGGG-HHHHHHHHH-TTSCEEEEEE
T ss_pred CCEEEEECCCHHH-HHHHHHHHH-hhCcEEEecc
Confidence 5799999999995 666777776 5999999776
No 38
>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=48.74 E-value=27 Score=20.63 Aligned_cols=69 Identities=16% Similarity=0.231 Sum_probs=40.2
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCCC--ccccceEEEEEEE----ccCCCceeEEEEeceEEEEeeccC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRS--ASRRKFVRIAVKI----ALDKPLCLQFLLDGRIQKVEYESL 83 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~--~~~~~y~Rv~V~i----dl~kPL~~~v~v~g~~~~v~YE~l 83 (117)
|-|.|||... +++-++.+-+..|.+..+...... .....|+- |.+ +..+.+.....++|..+.|+|-.-
T Consensus 18 l~v~nlp~~~-t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~af--V~f~~~~~a~~A~~~~~~~~g~~l~v~~a~~ 92 (103)
T 2cqg_A 18 LIVLGLPWKT-TEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGF--VRFTEYETQVKVMSQRHMIDGRWCDCKLPNS 92 (103)
T ss_dssp EEEESCCSSC-CHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEE--EEESSHHHHHHHHHSCEEETTEEEEEECCCT
T ss_pred EEEEcCCCcC-CHHHHHHHHHhcCCeEEEEEEecCCCCCccceEE--EEECCHHHHHHHHHcCCeeCCeEEEEEecCC
Confidence 4467999876 666677888889999887665432 12223433 333 222333333456777777776543
No 39
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=46.11 E-value=39 Score=19.84 Aligned_cols=34 Identities=15% Similarity=0.338 Sum_probs=25.7
Q ss_pred EEEecCCCccccccchhhhhhhccccEEEEeccCC
Q 040998 11 WIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTR 45 (117)
Q Consensus 11 WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~ 45 (117)
-|-|.|||... +++-++.+-+..|.+..+.....
T Consensus 17 ~l~V~nlp~~~-t~~~l~~~f~~~G~v~~v~i~~~ 50 (103)
T 2cq3_A 17 RLHVSNIPFRF-RDPDLRQMFGQFGKILDVEIIFN 50 (103)
T ss_dssp EEEEESCCTTC-CHHHHHHHGGGTSCEEEEEEECC
T ss_pred EEEEeCCCCCC-CHHHHHHHHHhcCCeEEEEEEec
Confidence 34567999985 66667788889999988776654
No 40
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A
Probab=44.97 E-value=31 Score=19.72 Aligned_cols=33 Identities=24% Similarity=0.249 Sum_probs=24.7
Q ss_pred EEEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 11 WIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 11 WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
-|-|.|||... +++-++.+-+..|.+..+....
T Consensus 10 ~l~V~nlp~~~-t~~~l~~~f~~~G~v~~~~i~~ 42 (92)
T 2dgv_A 10 QIFVRNLPFDF-TWKMLKDKFNECGHVLYADIKM 42 (92)
T ss_dssp EEEECSCCTTC-CHHHHHHHHHTTSCEEEEEEEE
T ss_pred EEEEeCCCCCC-CHHHHHHHHHhcCCEEEEEEEc
Confidence 45678999875 6666778888899888776554
No 41
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}
Probab=44.31 E-value=39 Score=18.92 Aligned_cols=32 Identities=19% Similarity=0.229 Sum_probs=24.6
Q ss_pred EEecCCCcccc-----ccchhhhhhhccccEEEEecc
Q 040998 12 IKLSNMPHYYY-----HKKVLPMVGQVMGEVIHIDFN 43 (117)
Q Consensus 12 Vri~~lP~~~~-----~~~~~~~I~~~iG~~l~vD~~ 43 (117)
|-+.|||...- +++-++.+-+..|.+..+...
T Consensus 4 l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~ 40 (81)
T 2krb_A 4 IVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP 40 (81)
T ss_dssp EEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred EEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEec
Confidence 34679997663 567788888999999888765
No 42
>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}
Probab=44.05 E-value=8.2 Score=22.96 Aligned_cols=19 Identities=21% Similarity=0.272 Sum_probs=16.6
Q ss_pred CcccccccccccCCCCCCCC
Q 040998 84 PINCFNCGKYGHVSIGCPEN 103 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~~ 103 (117)
..||+.|+.--|. ..|...
T Consensus 58 ~~FC~~C~~~wH~-~~C~~~ 76 (80)
T 2jmo_A 58 FAFCRECKEAYHE-GECSAV 76 (80)
T ss_dssp CCEETTTTEECCS-SCSSSC
T ss_pred CeeccccCccccC-Cccccc
Confidence 4699999999999 999764
No 43
>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=43.25 E-value=36 Score=19.99 Aligned_cols=71 Identities=14% Similarity=0.145 Sum_probs=42.5
Q ss_pred EEEecCCCccccccchhhhhhhccccEEEEeccCCCccccceEEEEEEEc----cCCCce--eEEEEeceEEEEeeccCC
Q 040998 11 WIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRSASRRKFVRIAVKIA----LDKPLC--LQFLLDGRIQKVEYESLP 84 (117)
Q Consensus 11 WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~~~~~~y~Rv~V~id----l~kPL~--~~v~v~g~~~~v~YE~lp 84 (117)
-|-|.|||... +++-++.+-+..|.+..+...........|+- |.+. ..+.+. ....+.|..+.|+|-..+
T Consensus 17 ~l~V~nlp~~~-t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~af--V~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~ 93 (103)
T 2cqi_A 17 TLYVGNLSRDV-TEVLILQLFSQIGPCKSCKMITEHTSNDPYCF--VEFYEHRDAAAALAAMNGRKILGKEVKVNWATTP 93 (103)
T ss_dssp EEEEESCCTTC-CHHHHHHHHHHHSCEEEEEEECCCCSSCCEEE--EEESSHHHHHHHHHHHTTEEETTEEEEEEECCCT
T ss_pred EEEEeCCCccC-CHHHHHHHHHhcCCEeEEEEEecCCCCCCEEE--EEECCHHHHHHHHHHhCCCCcCCCeEEEEECCCC
Confidence 35567999876 77778888889999988776654322234543 3442 112221 123456777777775443
No 44
>2apo_B Ribosome biogenesis protein NOP10; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: g.41.16.1 PDB: 2aqc_A
Probab=41.83 E-value=12 Score=21.47 Aligned_cols=32 Identities=28% Similarity=0.432 Sum_probs=20.4
Q ss_pred CCcccccccccccCCCCCCC-CC-------CCCCCcccCCC
Q 040998 83 LPINCFNCGKYGHVSIGCPE-NG-------DGEEPQDENGK 115 (117)
Q Consensus 83 lp~~C~~Cg~~GH~~~~C~~-~~-------~~~~~~~~~~~ 115 (117)
+-..|..||.+.= .+.||. +. +.=+|.|.|||
T Consensus 5 ~mr~C~~CgvYTL-k~~CP~CG~~T~~~hParfSp~Dky~~ 44 (60)
T 2apo_B 5 RMKKCPKCGLYTL-KEICPKCGEKTVIPKPPKFSLEDRWGK 44 (60)
T ss_dssp CCEECTTTCCEES-SSBCSSSCSBCBCCCCCCCCTTCTTHH
T ss_pred hceeCCCCCCEec-cccCcCCCCcCCCCCCCCCCCCcchHH
Confidence 3457889988865 666775 22 23456676664
No 45
>2aus_D NOP10, ribosome biogenesis protein NOP10; isomerase, structural protein, isomerase-structural protein; 2.10A {Pyrococcus abyssi} PDB: 3lwr_B 3lwo_B* 3lwq_B* 3lwp_B 3lwv_B 3hax_C* 2hvy_C* 3hay_C* 2ey4_E 3hjw_B* 2rfk_B* 3hjy_B 3mqk_B
Probab=41.42 E-value=12 Score=21.44 Aligned_cols=31 Identities=29% Similarity=0.610 Sum_probs=20.3
Q ss_pred CcccccccccccCCCCCCC-C-------CCCCCCcccCCC
Q 040998 84 PINCFNCGKYGHVSIGCPE-N-------GDGEEPQDENGK 115 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~C~~-~-------~~~~~~~~~~~~ 115 (117)
-..|..||.+.= .+.||. + .+.=+|.|.||+
T Consensus 5 mr~C~~Cg~YTL-k~~CP~CG~~t~~ahParfSP~Dky~~ 43 (60)
T 2aus_D 5 IRKCPKCGRYTL-KETCPVCGEKTKVAHPPRFSPEDPYGE 43 (60)
T ss_dssp CEECTTTCCEES-SSBCTTTCSBCEESSCCCCCSCCTTHH
T ss_pred ceECCCCCCEEc-cccCcCCCCccCCCCCCCCCCCCchHH
Confidence 357999998876 777883 2 223466676664
No 46
>1ltl_A DNA replication initiator (CDC21/CDC54); HET: DNA; 3.00A {Methanothermobacterthermautotrophicus} SCOP: b.40.4.11
Probab=40.48 E-value=1e+02 Score=22.23 Aligned_cols=30 Identities=17% Similarity=0.272 Sum_probs=20.1
Q ss_pred eEEEEecCCCccccccchhhhh-hhccccEEEEec
Q 040998 9 VAWIKLSNMPHYYYHKKVLPMV-GQVMGEVIHIDF 42 (117)
Q Consensus 9 ~~WVri~~lP~~~~~~~~~~~I-~~~iG~~l~vD~ 42 (117)
.++|++.|+|... .++.| ++.+|+++.+.-
T Consensus 88 ~~~vr~~~~~~~~----~iR~L~~~~igkLV~v~G 118 (279)
T 1ltl_A 88 DLNIRFSGISNVI----PLRELRSKFIGKFVAVDG 118 (279)
T ss_dssp CCEEEEECCSCBC----CGGGCCGGGTTSEEEEEE
T ss_pred eEEEEEECCCCCC----CcccCChhhCCCEEEEEE
Confidence 5899999999532 23333 557888887644
No 47
>3but_A Uncharacterized protein AF_0446; lipid binding protein, beta barrel, protein structure initia PSI-2; 1.91A {Archaeoglobus fulgidus dsm 4304}
Probab=40.27 E-value=35 Score=22.33 Aligned_cols=36 Identities=8% Similarity=0.121 Sum_probs=28.2
Q ss_pred ccceEEEEEEEccCCCceeEEEEeceEEEEeeccCC
Q 040998 49 RRKFVRIAVKIALDKPLCLQFLLDGRIQKVEYESLP 84 (117)
Q Consensus 49 ~~~y~Rv~V~idl~kPL~~~v~v~g~~~~v~YE~lp 84 (117)
.....-+.+.+.+.+|....+.++|..|.++..+++
T Consensus 14 ~~~~t~~~~~l~V~NPN~~~l~i~gl~y~v~lng~~ 49 (136)
T 3but_A 14 TDSQTEIVALAKVRNEDVVPIVVSGYHYTIEMNGVK 49 (136)
T ss_dssp CSSEEEEEEEEEEECCSSSCEEEEEEEEEEEETTEE
T ss_pred eCcEEEEEEEEEEeCCCCcceeeeceEEEEEECCEE
Confidence 345667889999999998888888887777776543
No 48
>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1
Probab=38.21 E-value=59 Score=19.04 Aligned_cols=33 Identities=15% Similarity=0.320 Sum_probs=25.5
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTR 45 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~ 45 (117)
|-|.|||... +++-++.+-+..|.+..+.....
T Consensus 18 l~V~nlp~~~-t~~~l~~~F~~~G~i~~v~i~~~ 50 (107)
T 2cph_A 18 ILVRNIPFQA-NQREIRELFSTFGELKTVRLPKK 50 (107)
T ss_dssp EEEESCCTTC-CHHHHHHHHHTTSCEEEEECCCC
T ss_pred EEEeCCCCcC-CHHHHHHHHHccCCeEEEEEecC
Confidence 4567999885 66667788889999998887543
No 49
>2row_A RHO-associated protein kinase 2; ATP-binding, coiled coil, cytoplasm, membrane, metal-binding, nucleotide-binding, phorbol-ester binding; NMR {Rattus norvegicus}
Probab=37.65 E-value=25 Score=21.28 Aligned_cols=24 Identities=25% Similarity=0.283 Sum_probs=18.8
Q ss_pred EEeceEEEEeeccCCccccccccc
Q 040998 70 LLDGRIQKVEYESLPINCFNCGKY 93 (117)
Q Consensus 70 ~v~g~~~~v~YE~lp~~C~~Cg~~ 93 (117)
...|..+....=..|.||..|+..
T Consensus 21 ~~~~H~F~~~~~~~PT~Cd~C~~~ 44 (84)
T 2row_A 21 CHKGHEFIPTLYHFPTNCEACMKP 44 (84)
T ss_dssp EETTEEEEEECCSSCEECSSSSSE
T ss_pred EcCCcceEeEcCCCCcchhhcCHh
Confidence 345777877788899999999753
No 50
>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}
Probab=37.38 E-value=49 Score=20.16 Aligned_cols=37 Identities=14% Similarity=0.170 Sum_probs=32.9
Q ss_pred eEeEEEEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 7 SMVAWIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 7 ~~~~WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
...-|+-+.||+... +++.++.+-+..|++..++...
T Consensus 5 ~~~~wL~VgNL~~~~-te~~L~~lF~q~G~V~~~~l~~ 41 (89)
T 2wbr_A 5 WGSSWLLLKNLTAQI-DGPTLRTLCMQHGPLVSFHPYL 41 (89)
T ss_dssp CCCCEEEEECCCTTC-CCHHHHHHHHHHSCEEEEEEET
T ss_pred CccceEEEeCCCccC-CHHHHHHHHHhhCCEEEEEEcC
Confidence 356799999999995 9999999999999999998865
No 51
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}
Probab=36.13 E-value=64 Score=19.11 Aligned_cols=33 Identities=18% Similarity=0.196 Sum_probs=25.9
Q ss_pred EEEecCCCcccc-----ccchhhhhhhccccEEEEecc
Q 040998 11 WIKLSNMPHYYY-----HKKVLPMVGQVMGEVIHIDFN 43 (117)
Q Consensus 11 WVri~~lP~~~~-----~~~~~~~I~~~iG~~l~vD~~ 43 (117)
-|-+.|||...- +++-++.+-+..|.+..+...
T Consensus 17 ~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~ 54 (105)
T 2nlw_A 17 VIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP 54 (105)
T ss_dssp EEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECC
T ss_pred EEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEee
Confidence 355789997653 567788888999999988776
No 52
>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=36.05 E-value=43 Score=19.62 Aligned_cols=33 Identities=9% Similarity=0.074 Sum_probs=24.4
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTR 45 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~ 45 (117)
|-|.|||... +++-++.+-+..|.+..+.....
T Consensus 18 l~V~nlp~~~-t~~~l~~~F~~~G~i~~v~i~~~ 50 (103)
T 2d9p_A 18 LYVKNLDDGI-DDERLRKAFSPFGTITSAKVMME 50 (103)
T ss_dssp EEEECCCTTC-CHHHHHHTTTTTSCEEEEEEEEC
T ss_pred EEEeCCCCCC-CHHHHHHHHHhcCCEEEEEEEcC
Confidence 4567999975 66667788888999887766543
No 53
>1dzf_A DNA-directed RNA polymerases I, II, and III 27 KD polypeptide; RNA polymerase subunit; 1.9A {Saccharomyces cerevisiae} SCOP: c.52.3.1 d.78.1.1 PDB: 1i3q_E 1i50_E 1i6h_E 1k83_E* 1nik_E 1nt9_E 1pqv_E 1r5u_E 1r9s_E* 1r9t_E* 1sfo_E* 1twa_E* 1twc_E* 1twf_E* 1twg_E* 1twh_E* 1wcm_E 1y1v_E 1y1w_E 1y1y_E ...
Probab=34.06 E-value=28 Score=24.90 Aligned_cols=42 Identities=26% Similarity=0.290 Sum_probs=32.5
Q ss_pred ecCCCccccccchhhhhhhccccEEEEeccCCCccccceEEE
Q 040998 14 LSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRSASRRKFVRI 55 (117)
Q Consensus 14 i~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~~~~~~y~Rv 55 (117)
-..||.-+.+..+++.+|-.-|.++++-..+......-+-|+
T Consensus 172 ~~qLP~I~~~DPvar~~g~k~G~vvkI~R~s~tag~~v~YR~ 213 (215)
T 1dzf_A 172 ESQLPRIQRADPVALYLGLKRGEVVKIIRKSETSGRYASYRI 213 (215)
T ss_dssp GGGSCEECTTCHHHHHHTCCTTCEEEEECTTCSSSTTCEEEE
T ss_pred HHHCCceeccChhhHHhCCcCCCEEEEEECCCCCCCceEEEE
Confidence 457899999999999999999999999887654433333343
No 54
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=33.73 E-value=68 Score=18.25 Aligned_cols=32 Identities=13% Similarity=0.168 Sum_probs=24.6
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
|-|.|||... +++-++.+-+..|.+..+....
T Consensus 18 l~v~nlp~~~-t~~~l~~~f~~~G~v~~v~i~~ 49 (95)
T 2cqc_A 18 LGVFGLSLYT-TERDLREVFSKYGPIADVSIVY 49 (95)
T ss_dssp EEEESCCSSC-CHHHHHHHHHTTSCEEEEEEEE
T ss_pred EEEECCCCCC-CHHHHHHHHHhcCCeeEEEEEE
Confidence 4567999984 6667778888899998877654
No 55
>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}
Probab=33.48 E-value=13 Score=24.71 Aligned_cols=82 Identities=11% Similarity=0.063 Sum_probs=39.5
Q ss_pred ccceEeEEEEecCCCccccccchhhhhhhccccEEEEeccCCCccccceEEEEEEEccCCCceeEEEE--eceEEEEeec
Q 040998 4 KIDSMVAWIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRSASRRKFVRIAVKIALDKPLCLQFLL--DGRIQKVEYE 81 (117)
Q Consensus 4 ~l~~~~~WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~~~~~~y~Rv~V~idl~kPL~~~v~v--~g~~~~v~YE 81 (117)
+|..-.-||-+.|-|... ...++....+. |.+++-...+.... ..+++.+-..++.+ ++.|+.|.|.
T Consensus 2 ~~~~~e~~VtVFGFp~~~-~~~VI~~Fs~~-G~IlE~~~~~~~~~---------~~~~~~~~~k~yP~f~g~NWikItYd 70 (132)
T 3p3d_A 2 SLSNGELAILVFGYPETM-ANQVIAYFQEF-GTILEDFEVLRKPQ---------AMTVGLQDRQFVPIFSGNSWTKITYD 70 (132)
T ss_dssp ------CEEEEECCCGGG-HHHHHHHHGGG-SCBCSCCGGGCCC--------------------CCCCCEETTEEEEEBS
T ss_pred CcccCceEEEEEecCHHH-HHHHHHHHHhh-ceEeeecccccccc---------ccccccccccccCccCCCcEEEEEcC
Confidence 566677899999998876 55677777754 99887222221111 01111111122232 4678999998
Q ss_pred cCCcccccccccccC
Q 040998 82 SLPINCFNCGKYGHV 96 (117)
Q Consensus 82 ~lp~~C~~Cg~~GH~ 96 (117)
....-=..|.+-|..
T Consensus 71 s~~~A~rAL~~NG~i 85 (132)
T 3p3d_A 71 NPASAVDALLENGAV 85 (132)
T ss_dssp SHHHHHHHHTTTTCE
T ss_pred CHHHHHHHHHhCCeE
Confidence 654333333333333
No 56
>2w0t_A Lethal(3)malignant brain tumor-like 2 protein; zinc, YACG, LMBL2, nucleus, zinc-finger, RNA binding, MBT repeats, PCG proteins, polymorphism; NMR {Homo sapiens}
Probab=31.93 E-value=15 Score=19.70 Aligned_cols=16 Identities=31% Similarity=0.488 Sum_probs=12.5
Q ss_pred CcccccccccccCCCC
Q 040998 84 PINCFNCGKYGHVSIG 99 (117)
Q Consensus 84 p~~C~~Cg~~GH~~~~ 99 (117)
...|..||.+||....
T Consensus 6 ~~~CE~CG~~g~~~~F 21 (43)
T 2w0t_A 6 PAVCEMCGIVGTREAF 21 (43)
T ss_dssp EEECTTTCCEEETTTS
T ss_pred eehhhhhcCcchhhhh
Confidence 3579999999887654
No 57
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1
Probab=31.84 E-value=64 Score=18.63 Aligned_cols=33 Identities=12% Similarity=0.051 Sum_probs=26.2
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTR 45 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~ 45 (117)
|-|.|||.. .+++-++.+-+..|.+..++..+.
T Consensus 20 l~V~nlp~~-~t~~~l~~~F~~~G~v~~v~~~~~ 52 (97)
T 1why_A 20 LWVGGLGPN-TSLAALAREFDRFGSIRTIDHVKG 52 (97)
T ss_dssp EEEECCCSS-CCHHHHHHHHHTTSCEEEEEECSS
T ss_pred EEEeCCCCC-CCHHHHHHHHHhcCCeeEEEEeCC
Confidence 345799998 477778888899999999887764
No 58
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=30.75 E-value=17 Score=23.15 Aligned_cols=22 Identities=32% Similarity=0.631 Sum_probs=16.9
Q ss_pred cccccccccc---cCCCCCCCCCCC
Q 040998 85 INCFNCGKYG---HVSIGCPENGDG 106 (117)
Q Consensus 85 ~~C~~Cg~~G---H~~~~C~~~~~~ 106 (117)
..|-.||--| |+.+-||.....
T Consensus 72 Y~CpiCGATGd~AHT~kYCP~~~~~ 96 (106)
T 3alr_A 72 YKCPLCGATGAKAHTKRFCPMVDKN 96 (106)
T ss_dssp CCCTTTCCCGGGCCCGGGCTTCGGG
T ss_pred ccCCCCCCcCCcccceecCCCCCCc
Confidence 4577777777 999999987643
No 59
>3ixx_D Peptide PR; WEST NIle virus, WNV, immature, fusion loop, ATP- binding, envelope protein, helicase, hydrolase, membrane; 15.00A {West nile virus}
Probab=30.47 E-value=18 Score=21.86 Aligned_cols=15 Identities=33% Similarity=0.827 Sum_probs=13.1
Q ss_pred CCCCCCCCCCCcccC
Q 040998 99 GCPENGDGEEPQDEN 113 (117)
Q Consensus 99 ~C~~~~~~~~~~~~~ 113 (117)
+||....++||.|++
T Consensus 50 ~Cp~L~~~eeP~DID 64 (80)
T 3ixx_D 50 ECPVLSAGNDPEDID 64 (80)
T ss_pred ECCccCCCCCcccee
Confidence 499999999999875
No 60
>2yqp_A Probable ATP-dependent RNA helicase DDX59; structure genomics, ZF-HIT domain, DEAD box polypeptide 59 isoform 2, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=30.38 E-value=16 Score=20.79 Aligned_cols=12 Identities=42% Similarity=1.068 Sum_probs=10.3
Q ss_pred cccccccccccC
Q 040998 85 INCFNCGKYGHV 96 (117)
Q Consensus 85 ~~C~~Cg~~GH~ 96 (117)
+.|-.||++|-.
T Consensus 20 PvCvvCGryGeY 31 (60)
T 2yqp_A 20 PICVVCGRYGEY 31 (60)
T ss_dssp CCCSSSSSCCSE
T ss_pred ceEEEecCccce
Confidence 669999999965
No 61
>2kwq_A Protein MCM10 homolog; DNA replication, DNA binding, zinc motif, zinc ribbon binding protein; NMR {Xenopus laevis}
Probab=30.29 E-value=24 Score=21.87 Aligned_cols=18 Identities=28% Similarity=0.848 Sum_probs=14.5
Q ss_pred EEeeccCCc-ccccccccc
Q 040998 77 KVEYESLPI-NCFNCGKYG 94 (117)
Q Consensus 77 ~v~YE~lp~-~C~~Cg~~G 94 (117)
.+.|+++|. -|.+||..-
T Consensus 57 t~sl~r~P~~~C~~Cg~~~ 75 (92)
T 2kwq_A 57 TISLDRLPKKHCSTCGLFK 75 (92)
T ss_dssp EEESSSSCCSCCTTTCSCC
T ss_pred eeEeeeCCCCCCCCCCCCc
Confidence 456699998 999999763
No 62
>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1
Probab=28.94 E-value=45 Score=19.31 Aligned_cols=32 Identities=13% Similarity=0.135 Sum_probs=24.4
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
|-|.|||.. .+++-++.+-+..|.+..+....
T Consensus 8 l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~ 39 (98)
T 2cpf_A 8 LFIKNLNFS-TTEETLKGVFSKVGAIKSCTISK 39 (98)
T ss_dssp EEEESCCTT-CCHHHHHHHHHTTSCEEEEEEEE
T ss_pred EEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEe
Confidence 456799988 46777778888999988776653
No 63
>3h0g_E DNA-directed RNA polymerases I, II, and III subunit rpabc1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=28.91 E-value=31 Score=24.55 Aligned_cols=35 Identities=20% Similarity=0.328 Sum_probs=30.1
Q ss_pred EecCCCccccccchhhhhhhccccEEEEeccCCCc
Q 040998 13 KLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRSA 47 (117)
Q Consensus 13 ri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~~ 47 (117)
.-..||.-+.+..+++.+|-.-|.++++...+...
T Consensus 166 ~~~qLP~I~~~DPv~~~~g~k~GdVvkI~R~s~ta 200 (210)
T 3h0g_E 166 RETQLPRIQLADPVARYLGLKRGEVVKIVRRSETS 200 (210)
T ss_dssp CTTTSCCCCTTCHHHHHHTCCTTCEEEEECCCCTT
T ss_pred CHHHCCcccccCcchhhhCCCCCCEEEEEeCCCCC
Confidence 34578999999999999999999999998886543
No 64
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}
Probab=28.90 E-value=96 Score=18.51 Aligned_cols=33 Identities=15% Similarity=0.165 Sum_probs=26.0
Q ss_pred EEEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 11 WIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 11 WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
-|-|.|||... +++-++.+-+..|.+..+....
T Consensus 42 ~l~V~nlp~~~-t~~~l~~~F~~~G~i~~~~i~~ 74 (118)
T 2khc_A 42 NLFIYHLPQEF-TDTDLASTFLPFGNVISAKVFI 74 (118)
T ss_dssp EEEEECSCTTC-CHHHHHHHTTTSCEEEEEEECC
T ss_pred EEEEeCCCCCC-CHHHHHHHHHhcCCEEEEEEEe
Confidence 35577999885 7777888888999998887754
No 65
>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*
Probab=28.85 E-value=74 Score=17.63 Aligned_cols=32 Identities=16% Similarity=0.211 Sum_probs=25.2
Q ss_pred EEEecCCCccccccchhhhhhhccccEEEEecc
Q 040998 11 WIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFN 43 (117)
Q Consensus 11 WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~ 43 (117)
-|-+.|||... +++-++.+-+..|.+..+...
T Consensus 9 ~l~V~nl~~~~-~~~~l~~~f~~~G~i~~v~i~ 40 (85)
T 3mdf_A 9 VLYVGGLAEEV-DDKVLHAAFIPFGDITDIQIP 40 (85)
T ss_dssp EEEEECCCTTC-CHHHHHHHHGGGSCEEEEECC
T ss_pred EEEEECCCCCC-CHHHHHHHHhccCCEEEEEEE
Confidence 46688999874 777778888899999888763
No 66
>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A
Probab=28.23 E-value=83 Score=17.57 Aligned_cols=32 Identities=16% Similarity=0.005 Sum_probs=24.3
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
|-+.|||... +++-++.+-+..|.+..+....
T Consensus 9 l~V~nlp~~~-t~~~l~~~F~~~G~i~~v~i~~ 40 (89)
T 3ucg_A 9 IYVGNVDYGA-TAEELEAHFHGCGSVNRVTILC 40 (89)
T ss_dssp EEEESCCTTC-CHHHHHHHHGGGCCEEEEEEEE
T ss_pred EEEeCCCCCC-CHHHHHHHHHhCCCEEEEEEEe
Confidence 4567999886 6676778888899988776643
No 67
>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=28.10 E-value=68 Score=18.97 Aligned_cols=34 Identities=26% Similarity=0.323 Sum_probs=26.3
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCCC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRS 46 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~ 46 (117)
|-|.|||... +++-++.+-+..|.+..+......
T Consensus 25 l~V~nLp~~~-t~~~l~~~F~~~G~v~~~~i~~~~ 58 (109)
T 1x4a_A 25 IYVGNLPPDI-RTKDIEDVFYKYGAIRDIDLKNRR 58 (109)
T ss_dssp EEEESCCTTC-CHHHHHHHHGGGSCEEEEEECCSS
T ss_pred EEEeCCCCCC-CHHHHHHHHHhcCCeEEEEEEECC
Confidence 4467999976 777788888899999888776543
No 68
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A
Probab=27.92 E-value=58 Score=19.74 Aligned_cols=30 Identities=13% Similarity=0.179 Sum_probs=23.7
Q ss_pred ecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 14 LSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 14 i~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
|.|||.. ++++-++.+-+..|.+..+....
T Consensus 10 V~nLp~~-~te~~L~~~F~~~G~v~~v~i~~ 39 (115)
T 4f25_A 10 IKNLDKS-IDNKALYDTFSAFGNILSCKVVC 39 (115)
T ss_dssp EESCCTT-CCHHHHHHHHGGGSCEEEEEEEE
T ss_pred ECCCCCC-CCHHHHHHHHhccCCEEEEEEee
Confidence 5699987 58888889999999998765543
No 69
>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=27.83 E-value=94 Score=18.04 Aligned_cols=32 Identities=16% Similarity=0.242 Sum_probs=24.6
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
|-|.|||... +++-++.+-+..|.+..+....
T Consensus 18 l~V~nlp~~~-t~~~l~~~f~~~G~i~~v~i~~ 49 (103)
T 2cq0_A 18 IRVTNLSEDT-RETDLQELFRPFGSISRIYLAK 49 (103)
T ss_dssp EEEESCCTTC-CHHHHHTTSTTTCCEEEEEEEE
T ss_pred EEEeCCCCCC-CHHHHHHHHHhCCCeEEEEEee
Confidence 4567999984 6777778888999988877654
No 70
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=27.03 E-value=50 Score=19.85 Aligned_cols=43 Identities=14% Similarity=0.282 Sum_probs=28.5
Q ss_pred EEEecCCCccccccchhhhhhhccccEEEEeccCCCccccceEE
Q 040998 11 WIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRSASRRKFVR 54 (117)
Q Consensus 11 WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~~~~~~y~R 54 (117)
-|-|.|||... +++-++.+-+..|++..+...........|+-
T Consensus 31 ~l~V~nLp~~~-te~~l~~~F~~~G~i~~v~i~~~~~~~kg~af 73 (109)
T 2err_A 31 RLHVSNIPFRF-RDPDLRQMFGQFGKILDVEIIFNERGSKGFGF 73 (109)
T ss_dssp EEEEESCCTTC-CHHHHHHHGGGTCCCSCEEECCBTTBCTTEEE
T ss_pred EEEEECCCCcC-CHHHHHHHHHhcCCEEEEEEEECCCCCceEEE
Confidence 35567999885 66777788888998877766543322334543
No 71
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=26.99 E-value=92 Score=17.67 Aligned_cols=33 Identities=9% Similarity=0.146 Sum_probs=25.2
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTR 45 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~ 45 (117)
|-|.|||... +++-++.+-+..|.+..+.....
T Consensus 8 l~v~nlp~~~-t~~~l~~~f~~~G~v~~v~i~~~ 40 (95)
T 2dnz_A 8 LYVGSLHFNI-TEDMLRGIFEPFGKIDNIVLMKD 40 (95)
T ss_dssp EEEESCCTTC-CHHHHHHHHTTTSCEEEEEEECC
T ss_pred EEEeCCCCCC-CHHHHHHHHHhcCCEeEEEEeec
Confidence 5567999875 66667788889999988776543
No 72
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}
Probab=26.28 E-value=90 Score=17.32 Aligned_cols=33 Identities=3% Similarity=0.044 Sum_probs=25.2
Q ss_pred EEEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 11 WIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 11 WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
-|-+.|||.. .+++-++.+-+..|.+..+....
T Consensus 8 ~l~v~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~ 40 (87)
T 3bs9_A 8 HVFVGDLSPE-ITTAAIAAAFAPFGRISDARVVK 40 (87)
T ss_dssp EEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEE
T ss_pred EEEEeCCCCC-CCHHHHHHHHHhcCCEeEEEEEe
Confidence 3567899998 56777778888999988877654
No 73
>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=25.38 E-value=98 Score=17.86 Aligned_cols=67 Identities=12% Similarity=0.142 Sum_probs=39.7
Q ss_pred EEecCCCccccccchhh----hhhhccccEEEEeccCCCccccceEEEEEEEc----cCCCce--eEEEEeceEEEEeec
Q 040998 12 IKLSNMPHYYYHKKVLP----MVGQVMGEVIHIDFNTRSASRRKFVRIAVKIA----LDKPLC--LQFLLDGRIQKVEYE 81 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~----~I~~~iG~~l~vD~~~~~~~~~~y~Rv~V~id----l~kPL~--~~v~v~g~~~~v~YE 81 (117)
|-+.|||... +++-++ .+-+..|.+..+........ ..|+- |.+. ..+.+. ....++|..+.|+|-
T Consensus 12 l~V~nL~~~~-~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~-rg~af--V~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a 87 (96)
T 2dgx_A 12 VQVSNIDYRL-SRKELQQLLQEAFARHGKVKSVELSPHTDY-QLKAV--VQMENLQDAIGAVNSLHRYKIGSKKILVSLA 87 (96)
T ss_dssp EEEESCCTTS-CHHHHHHHHHHHHHHHSCEEEEEECSCCST-TCCEE--EEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred EEEECCCCCC-CHHHHHHHHHHhccccCcEEEEEEEeCCCC-CeEEE--EEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence 4567999876 555555 78889999998887754433 33533 3442 112221 134556777777765
Q ss_pred c
Q 040998 82 S 82 (117)
Q Consensus 82 ~ 82 (117)
+
T Consensus 88 ~ 88 (96)
T 2dgx_A 88 T 88 (96)
T ss_dssp C
T ss_pred C
Confidence 4
No 74
>1znf_A 31ST zinc finger from XFIN; zinc finger DNA binding domain; NMR {Xenopus laevis} SCOP: g.37.1.1
Probab=24.25 E-value=24 Score=14.60 Aligned_cols=10 Identities=20% Similarity=0.534 Sum_probs=5.8
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 1 ~~~C~~C~k~ 10 (27)
T 1znf_A 1 XYKCGLCERS 10 (27)
T ss_dssp -CBCSSSCCB
T ss_pred CccCCCCCCc
Confidence 3457777754
No 75
>3uej_A NPKC-delta, protein kinase C delta type; proteine kinase cdelta, phosphotransferase, anesthetic bindi metal binding protein; 1.30A {Mus musculus} PDB: 3ugi_A 3ugl_A 3uey_A 3ugd_A 3uff_A 1ptq_A 1ptr_A*
Probab=23.88 E-value=52 Score=18.25 Aligned_cols=23 Identities=26% Similarity=0.356 Sum_probs=14.6
Q ss_pred EeceEEEEeeccCCccccccccc
Q 040998 71 LDGRIQKVEYESLPINCFNCGKY 93 (117)
Q Consensus 71 v~g~~~~v~YE~lp~~C~~Cg~~ 93 (117)
+++..+....=..|.+|..|+.+
T Consensus 7 ~~~H~F~~~~~~~pt~C~~C~~~ 29 (65)
T 3uej_A 7 VGSHRFKVYNYMSPTFCDHCGSL 29 (65)
T ss_dssp EEECCEEEECCSSCCBCTTTCCB
T ss_pred eCCceEEeEeCCCCCcccccChh
Confidence 34544444433578999999865
No 76
>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C
Probab=23.52 E-value=1.3e+02 Score=18.63 Aligned_cols=32 Identities=9% Similarity=0.025 Sum_probs=26.0
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
|-|.|||... +++-++.+-+..|.+..+....
T Consensus 6 l~v~nLp~~~-t~~~l~~~F~~~G~i~~v~i~~ 37 (167)
T 2cjk_A 6 MFIGGLNWDT-TEDNLREYFGKYGTVTDLKIMK 37 (167)
T ss_dssp EEECSCCTTC-CHHHHHHHHTTTCCEEEEECCC
T ss_pred EEEeCCCCCC-CHHHHHHHHHhCCCEEEEEEEE
Confidence 5578999876 7777888889999999887654
No 77
>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B
Probab=23.13 E-value=1.2e+02 Score=17.96 Aligned_cols=34 Identities=12% Similarity=0.156 Sum_probs=25.9
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCCC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRS 46 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~ 46 (117)
|-|.|||... +++-++.+-+..|.+..+.....+
T Consensus 11 l~V~nlp~~~-t~~~l~~~F~~~G~v~~v~i~~~~ 44 (115)
T 3lqv_A 11 LYIRNLPYKI-TAEEMYDIFGKYGPIRQIRVGNTP 44 (115)
T ss_dssp EEEESCCTTC-CHHHHHHHHHTTSCEEEEEEECST
T ss_pred EEEeCCCCCC-CHHHHHHHHHhcCCeEEEEEeeCC
Confidence 5578999775 666677888899999988775443
No 78
>2fnf_X Putative RAS effector NORE1; zinc, signal transduction, apoptosis, cysteine rich domain; NMR {Mus musculus}
Probab=22.93 E-value=32 Score=19.93 Aligned_cols=21 Identities=24% Similarity=0.265 Sum_probs=15.4
Q ss_pred ceEEEE-eeccCCccccccccc
Q 040998 73 GRIQKV-EYESLPINCFNCGKY 93 (117)
Q Consensus 73 g~~~~v-~YE~lp~~C~~Cg~~ 93 (117)
|..+.. ..-..|.+|.+||.+
T Consensus 23 ~H~F~~~~~~~~pt~C~~C~~~ 44 (72)
T 2fnf_X 23 GHRFVELALRGGPGWCDLCGRE 44 (72)
T ss_dssp SCCCEECCCCSSCCBCTTTSSB
T ss_pred CCccceeecCCCCcchhhhhHH
Confidence 455556 666788999999865
No 79
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Probab=22.69 E-value=84 Score=21.97 Aligned_cols=69 Identities=14% Similarity=0.158 Sum_probs=42.4
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCCC---ccccceEEEEEEEc----cCCCc-eeEEEEeceEEEEeecc
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTRS---ASRRKFVRIAVKIA----LDKPL-CLQFLLDGRIQKVEYES 82 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~~---~~~~~y~Rv~V~id----l~kPL-~~~v~v~g~~~~v~YE~ 82 (117)
|-+.|||..+.+++-++.+-+..|.+..+...... .....|+ .|.+. ..+.+ .....++|..+.|.|-.
T Consensus 213 l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~a--fV~F~~~~~A~~A~~l~g~~~~g~~i~V~~a~ 289 (292)
T 2ghp_A 213 IMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCA--FMVFENKDSAERALQMNRSLLGNREISVSLAD 289 (292)
T ss_dssp EEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEE--EEEESSHHHHHHHGGGTTEEETTEEEEEEECC
T ss_pred EEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCceEE--EEEeCCHHHHHHHHHhcCCEECCcEEEEEEec
Confidence 55779999877888899999999999988776532 1222343 33431 11222 11234566667776643
No 80
>1ard_A Yeast transcription factor ADR1; transcription regulation; NMR {Saccharomyces cerevisiae} SCOP: g.37.1.1 PDB: 1arf_A 1are_A
Probab=22.57 E-value=28 Score=14.52 Aligned_cols=10 Identities=20% Similarity=0.517 Sum_probs=6.9
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 2 ~~~C~~C~~~ 11 (29)
T 1ard_A 2 SFVCEVCTRA 11 (29)
T ss_dssp CCBCTTTCCB
T ss_pred CeECCCCCcc
Confidence 4568888764
No 81
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=22.43 E-value=1.2e+02 Score=17.49 Aligned_cols=32 Identities=19% Similarity=0.145 Sum_probs=24.9
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
|-|.|||... +++-++.+-+..|.+..+....
T Consensus 16 l~V~nLp~~~-t~~~l~~~f~~~G~i~~v~i~~ 47 (103)
T 2dnm_A 16 LKVDNLTYRT-SPDSLRRVFEKYGRVGDVYIPR 47 (103)
T ss_dssp EEEESCCTTC-CHHHHHHHHTTTSCEEEEECCB
T ss_pred EEEeCCCCCC-CHHHHHHHHHhcCCEEEEEEEe
Confidence 4567999985 6666778888899998887754
No 82
>2kvh_A Zinc finger and BTB domain-containing protein 32; protein/DNA, metal-binding, transcription; NMR {Mus musculus}
Probab=22.25 E-value=25 Score=14.68 Aligned_cols=10 Identities=30% Similarity=0.826 Sum_probs=7.1
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 3 ~~~C~~C~k~ 12 (27)
T 2kvh_A 3 PFSCSLCPQR 12 (27)
T ss_dssp CEECSSSSCE
T ss_pred CccCCCcChh
Confidence 5668888764
No 83
>1paa_A Yeast transcription factor ADR1; transcription regulation; NMR {Saccharomyces cerevisiae} SCOP: g.37.1.1
Probab=22.14 E-value=29 Score=14.68 Aligned_cols=10 Identities=20% Similarity=0.501 Sum_probs=6.9
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 2 ~~~C~~C~k~ 11 (30)
T 1paa_A 2 AYACGLCNRA 11 (30)
T ss_dssp CSBCTTTCCB
T ss_pred CcCCcccCcc
Confidence 4568888764
No 84
>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}
Probab=21.84 E-value=1.4e+02 Score=17.80 Aligned_cols=33 Identities=9% Similarity=0.153 Sum_probs=24.8
Q ss_pred EEEEecCCCccccccchhhhhhhccccEEEEecc
Q 040998 10 AWIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFN 43 (117)
Q Consensus 10 ~WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~ 43 (117)
--|-|.|||.. .+++-++.+-+..|.+..+...
T Consensus 27 ~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~ 59 (108)
T 2jrs_A 27 MRLYVGSLHFN-ITEDMLRGIFEPFGRIESIQLM 59 (108)
T ss_dssp EEEEEECCCSS-CCHHHHHHHHTTTSCEEEEEEE
T ss_pred CEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEE
Confidence 34567899987 4677777888899998776654
No 85
>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*
Probab=21.72 E-value=1.4e+02 Score=17.94 Aligned_cols=33 Identities=12% Similarity=0.077 Sum_probs=26.2
Q ss_pred EEEecCCCccccccchhhhhhhccccEEEEeccC
Q 040998 11 WIKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNT 44 (117)
Q Consensus 11 WVri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~ 44 (117)
-|-|.|||... +++-++.+-+..|.+..+....
T Consensus 24 ~l~V~nlp~~~-t~~~l~~~F~~~G~i~~v~i~~ 56 (126)
T 3ex7_B 24 ILFVTGVHEEA-TEEDIHDKFAEYGEIKNIHLNL 56 (126)
T ss_dssp EEEEESCCTTC-CHHHHHHHHHTTSCEEEEECCB
T ss_pred EEEEeCCCCCC-CHHHHHHHHHhcCCeEEEEEEe
Confidence 46678999875 7777888888999999887753
No 86
>1rik_A E6APC1 peptide; E6-binding domain, zinc finger, human papillomavirus, HPV E6 protein, de novo protein; NMR {Synthetic} SCOP: k.12.1.1 PDB: 1sp1_A 1va3_A
Probab=21.70 E-value=26 Score=14.71 Aligned_cols=10 Identities=30% Similarity=0.667 Sum_probs=6.7
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 2 ~~~C~~C~k~ 11 (29)
T 1rik_A 2 KFACPECPKR 11 (29)
T ss_dssp CEECSSSSCE
T ss_pred CccCCCCCch
Confidence 4567777764
No 87
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=21.62 E-value=28 Score=18.90 Aligned_cols=12 Identities=25% Similarity=0.401 Sum_probs=10.1
Q ss_pred ccCCcccccccc
Q 040998 81 ESLPINCFNCGK 92 (117)
Q Consensus 81 E~lp~~C~~Cg~ 92 (117)
+++..||-.||.
T Consensus 16 ~~~~k~CP~CG~ 27 (50)
T 3j20_Y 16 IRKNKFCPRCGP 27 (50)
T ss_dssp ECSSEECSSSCS
T ss_pred EEecccCCCCCC
Confidence 468899999986
No 88
>2m0f_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc fingers, transcription; NMR {Homo sapiens}
Probab=21.28 E-value=27 Score=14.56 Aligned_cols=10 Identities=50% Similarity=1.331 Sum_probs=6.6
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 2 ~~~C~~C~k~ 11 (29)
T 2m0f_A 2 PLKCRECGKQ 11 (29)
T ss_dssp CEECTTTSCE
T ss_pred CccCCCCCCc
Confidence 4567778764
No 89
>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=21.19 E-value=1.3e+02 Score=17.38 Aligned_cols=33 Identities=9% Similarity=0.093 Sum_probs=25.5
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTR 45 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~ 45 (117)
|-|.|||... +++-++.+-+..|.+..+.....
T Consensus 18 l~V~nlp~~~-t~~~l~~~F~~~G~i~~v~i~~~ 50 (105)
T 1x5u_A 18 VYVGGLDEKV-SEPLLWELFLQAGPVVNTHMPKD 50 (105)
T ss_dssp EEEECCCTTC-CHHHHHHHHHTTSCEEEEECCBC
T ss_pred EEEeCCCCCC-CHHHHHHHHHhcCCeEEEEEEec
Confidence 4567999885 66667788889999988877553
No 90
>2m0e_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc fingers, transcription; NMR {Homo sapiens}
Probab=20.84 E-value=32 Score=14.20 Aligned_cols=10 Identities=30% Similarity=0.657 Sum_probs=6.6
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 2 ~~~C~~C~~~ 11 (29)
T 2m0e_A 2 EHKCPHCDKK 11 (29)
T ss_dssp CCCCSSCCCC
T ss_pred CCcCCCCCcc
Confidence 4567777764
No 91
>2lvu_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc finger, transcription; NMR {Homo sapiens}
Probab=26.05 E-value=21 Score=14.80 Aligned_cols=10 Identities=50% Similarity=1.069 Sum_probs=6.6
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 2 p~~C~~C~k~ 11 (26)
T 2lvu_A 2 PYVCERCGKR 11 (26)
Confidence 4567777764
No 92
>2kfq_A FP1; protein, de novo protein; NMR {Synthetic}
Probab=20.58 E-value=32 Score=15.29 Aligned_cols=10 Identities=30% Similarity=0.657 Sum_probs=7.2
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 2 p~~C~~C~k~ 11 (32)
T 2kfq_A 2 AFACPACPKR 11 (32)
T ss_dssp CSSSSSSCTT
T ss_pred CCCCCCCCcc
Confidence 5678888864
No 93
>1klr_A Zinc finger Y-chromosomal protein; transcription; NMR {Synthetic} SCOP: g.37.1.1 PDB: 5znf_A 1kls_A 1xrz_A* 7znf_A
Probab=20.37 E-value=33 Score=14.29 Aligned_cols=10 Identities=20% Similarity=0.441 Sum_probs=6.6
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 2 ~~~C~~C~k~ 11 (30)
T 1klr_A 2 TYQCQYCEFR 11 (30)
T ss_dssp CCCCSSSSCC
T ss_pred CccCCCCCCc
Confidence 4567777765
No 94
>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A
Probab=20.33 E-value=1.2e+02 Score=16.78 Aligned_cols=31 Identities=19% Similarity=0.159 Sum_probs=24.5
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEecc
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFN 43 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~ 43 (117)
|-+.|||... +++-++.+-+..|.+..+...
T Consensus 14 l~V~nlp~~~-t~~~l~~~F~~~G~i~~v~i~ 44 (87)
T 3s7r_A 14 MFVGGLSWDT-SKKDLKDYFTKFGEVVDCTIK 44 (87)
T ss_dssp EEEECCCTTC-CHHHHHHHHTTTSCEEEEEEE
T ss_pred EEEeCCCCCC-CHHHHHHHHHhCCCEEEEEEe
Confidence 4568999876 777778888899999877664
No 95
>2m0d_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc fingers, transcription; NMR {Homo sapiens}
Probab=20.31 E-value=29 Score=14.54 Aligned_cols=10 Identities=40% Similarity=1.069 Sum_probs=7.1
Q ss_pred Cccccccccc
Q 040998 84 PINCFNCGKY 93 (117)
Q Consensus 84 p~~C~~Cg~~ 93 (117)
|..|..||+.
T Consensus 3 ~~~C~~C~~~ 12 (30)
T 2m0d_A 3 PYQCDYCGRS 12 (30)
T ss_dssp CEECTTTCCE
T ss_pred CccCCCCCcc
Confidence 5668888764
No 96
>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1
Probab=20.20 E-value=1.3e+02 Score=17.11 Aligned_cols=33 Identities=9% Similarity=0.135 Sum_probs=25.2
Q ss_pred EEecCCCccccccchhhhhhhccccEEEEeccCC
Q 040998 12 IKLSNMPHYYYHKKVLPMVGQVMGEVIHIDFNTR 45 (117)
Q Consensus 12 Vri~~lP~~~~~~~~~~~I~~~iG~~l~vD~~~~ 45 (117)
|-|.|||... +++-++.+-+..|.+..+.....
T Consensus 11 l~V~nlp~~~-t~~~l~~~F~~~G~i~~v~i~~~ 43 (99)
T 1whw_A 11 LFVRNLSYTS-SEEDLEKLFSAYGPLSELHYPID 43 (99)
T ss_dssp EEEECCCTTC-CHHHHHHHHHTTSCEEEEECCCC
T ss_pred EEEeCCCCCC-CHHHHHHHHHhcCCEeEEEEEec
Confidence 4567999885 66667788889999988877543
Done!