Query 042031
Match_columns 565
No_of_seqs 250 out of 1582
Neff 9.2
Searched_HMMs 29240
Date Mon Mar 25 23:01:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042031.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042031hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1nc8_A Nucleocapsid protein; H 96.4 0.00097 3.3E-08 40.0 1.3 23 542-564 3-25 (29)
2 1dsq_A Nucleic acid binding pr 95.2 0.0084 2.9E-07 34.8 1.8 19 546-564 3-21 (26)
3 1a6b_B Momulv, zinc finger pro 95.2 0.011 3.7E-07 38.2 2.3 21 544-564 9-29 (40)
4 1u6p_A GAG polyprotein; MLV, A 94.0 0.023 7.8E-07 39.7 1.9 22 543-564 21-42 (56)
5 2ec7_A GAG polyprotein (PR55GA 93.7 0.031 1.1E-06 38.0 2.2 18 546-563 28-45 (49)
6 2ayd_A WRKY transcription fact 92.8 0.2 6.7E-06 37.2 5.4 39 56-94 35-73 (76)
7 1wj2_A Probable WRKY transcrip 92.3 0.22 7.6E-06 37.1 5.2 40 55-94 37-76 (78)
8 2a51_A Nucleocapsid protein; s 91.4 0.08 2.7E-06 34.0 1.7 15 548-562 24-38 (39)
9 2bl6_A Nucleocapsid protein P1 90.3 0.11 3.6E-06 32.9 1.5 18 546-563 20-37 (37)
10 2a51_A Nucleocapsid protein; s 88.9 0.16 5.4E-06 32.6 1.5 17 547-563 2-18 (39)
11 2ysa_A Retinoblastoma-binding 87.9 0.18 6.2E-06 35.0 1.4 20 544-563 6-25 (55)
12 1a1t_A Nucleocapsid protein; s 87.8 0.12 4.2E-06 36.0 0.4 20 545-564 33-52 (55)
13 2rpr_A Flywch-type zinc finger 83.8 1.2 4E-05 34.2 4.3 45 44-95 27-74 (87)
14 2bl6_A Nucleocapsid protein P1 83.0 0.38 1.3E-05 30.3 1.0 17 547-563 2-18 (37)
15 2li8_A Protein LIN-28 homolog 82.9 0.63 2.2E-05 34.5 2.3 19 545-563 46-64 (74)
16 2cqf_A RNA-binding protein LIN 82.7 0.56 1.9E-05 33.6 1.9 16 547-562 31-46 (63)
17 2ihx_A Nucleocapsid (NC) prote 81.0 0.41 1.4E-05 34.1 0.6 19 546-564 31-49 (61)
18 1a1t_A Nucleocapsid protein; s 80.8 0.47 1.6E-05 32.9 0.9 22 543-564 10-31 (55)
19 3ts2_A Protein LIN-28 homolog 79.6 0.7 2.4E-05 39.6 1.7 19 545-563 119-137 (148)
20 1cl4_A Protein (GAG polyprotei 79.0 0.91 3.1E-05 32.1 1.9 20 545-564 30-49 (60)
21 2ihx_A Nucleocapsid (NC) prote 77.8 0.71 2.4E-05 32.8 1.0 19 546-564 5-23 (61)
22 2ec7_A GAG polyprotein (PR55GA 77.4 0.81 2.8E-05 30.9 1.2 22 543-564 4-25 (49)
23 2cqf_A RNA-binding protein LIN 74.6 1.1 3.7E-05 32.1 1.3 20 545-564 7-26 (63)
24 1cl4_A Protein (GAG polyprotei 69.5 0.95 3.3E-05 32.0 0.0 19 546-564 2-20 (60)
25 2li8_A Protein LIN-28 homolog 67.9 1.8 6.2E-05 32.0 1.2 21 544-564 23-43 (74)
26 3nyb_B Protein AIR2; polya RNA 67.8 1.6 5.6E-05 33.1 1.0 20 545-564 46-65 (83)
27 2xzm_5 Ribosomal protein S26E 67.3 4.1 0.00014 32.6 3.2 27 520-553 2-28 (119)
28 3u5c_a 40S ribosomal protein S 63.6 5.2 0.00018 32.1 3.1 27 520-553 2-28 (119)
29 3ts2_A Protein LIN-28 homolog 61.7 2.7 9.1E-05 35.9 1.3 21 544-564 96-116 (148)
30 2ezd_A High mobility group pro 60.3 6.6 0.00022 21.8 2.2 15 520-534 2-16 (26)
31 2lli_A Protein AIR2; RNA surve 58.8 4.9 0.00017 33.0 2.4 21 544-564 104-124 (124)
32 3alr_A Nanos protein; zinc-fin 58.7 2.5 8.6E-05 32.8 0.5 20 544-563 70-92 (106)
33 1q1v_A DEK protein; winged-hel 57.6 51 0.0017 23.8 7.8 44 102-145 11-57 (70)
34 2lli_A Protein AIR2; RNA surve 55.6 4.9 0.00017 33.0 1.8 20 545-564 64-83 (124)
35 2jya_A AGR_C_3324P, uncharacte 47.3 21 0.00073 28.2 4.2 44 7-54 38-82 (106)
36 2l0z_A Glycoprotein G2; zinc-b 40.8 11 0.00039 23.7 1.3 15 440-454 21-35 (42)
37 2lju_A Putative oxidoreductase 39.3 47 0.0016 26.3 5.0 43 7-53 46-89 (108)
38 1fme_A FSD-EY peptide; beta-BE 37.2 24 0.00083 19.4 2.1 20 20-39 6-25 (28)
39 2ahq_A Sigma-54, RNA polymeras 36.0 84 0.0029 23.1 5.7 47 103-150 16-65 (76)
40 1pdn_C Protein (PRD paired); p 27.0 82 0.0028 24.8 5.0 37 110-147 82-123 (128)
41 2p5k_A Arginine repressor; DNA 26.6 95 0.0032 21.1 4.6 35 113-148 11-45 (64)
42 1k78_A Paired box protein PAX5 26.4 88 0.003 25.8 5.2 38 110-147 97-138 (149)
43 2l69_A Rossmann 2X3 fold prote 21.4 82 0.0028 23.8 3.4 30 24-53 6-35 (134)
44 2k27_A Paired box protein PAX- 21.0 1.7E+02 0.0058 24.3 6.0 38 110-147 90-131 (159)
No 1
>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=96.43 E-value=0.00097 Score=40.01 Aligned_cols=23 Identities=30% Similarity=0.911 Sum_probs=20.1
Q ss_pred CCceEEcCccCCCCCCCCCCCCC
Q 042031 542 PKRIVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 542 ~~~~~~C~~C~~~gHn~~tC~~~ 564 (565)
+++...|-+|++.||..+.|+.|
T Consensus 3 ~r~~~~C~nCgk~GH~ar~C~~p 25 (29)
T 1nc8_A 3 QRKVIRCWNCGKEGHSARQCRAP 25 (29)
T ss_dssp CCCCCBCTTTSCBSSCGGGCCSS
T ss_pred CCCCCEEEECCccccCHhHCccc
Confidence 34567899999999999999987
No 2
>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=95.21 E-value=0.0084 Score=34.80 Aligned_cols=19 Identities=26% Similarity=0.599 Sum_probs=17.5
Q ss_pred EEcCccCCCCCCCCCCCCC
Q 042031 546 VQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 546 ~~C~~C~~~gHn~~tC~~~ 564 (565)
.+|-+|++.||..+.||.+
T Consensus 3 ~~Cf~CG~~GH~ardC~~~ 21 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEE 21 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC
T ss_pred CeeEeCCCCCcccccCCCc
Confidence 5799999999999999976
No 3
>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=95.16 E-value=0.011 Score=38.19 Aligned_cols=21 Identities=33% Similarity=0.586 Sum_probs=18.9
Q ss_pred ceEEcCccCCCCCCCCCCCCC
Q 042031 544 RIVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 544 ~~~~C~~C~~~gHn~~tC~~~ 564 (565)
....|-+|++.||-.+.||++
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~ 29 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKK 29 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSS
T ss_pred CCCeeeECCCCCcchhhCcCC
Confidence 457899999999999999986
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=94.03 E-value=0.023 Score=39.69 Aligned_cols=22 Identities=32% Similarity=0.528 Sum_probs=19.2
Q ss_pred CceEEcCccCCCCCCCCCCCCC
Q 042031 543 KRIVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 543 ~~~~~C~~C~~~gHn~~tC~~~ 564 (565)
....+|-+||+.||-.+.||.+
T Consensus 21 ~~~~~C~~Cge~GH~ardCp~~ 42 (56)
T 1u6p_A 21 LDRDQCAYCKEKGHWAKDCPKK 42 (56)
T ss_dssp CCTTBCSSSCCBSSCGGGCTTC
T ss_pred CCCCcceeCCCCCcccccCcCC
Confidence 3456899999999999999975
No 5
>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=93.69 E-value=0.031 Score=38.02 Aligned_cols=18 Identities=33% Similarity=0.693 Sum_probs=11.3
Q ss_pred EEcCccCCCCCCCCCCCC
Q 042031 546 VQCGRCHLLGHSQKKCTM 563 (565)
Q Consensus 546 ~~C~~C~~~gHn~~tC~~ 563 (565)
..|-+|++.||-.+.||.
T Consensus 28 ~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 28 QGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CSCSSSCCSSCCGGGCCS
T ss_pred CeeCcCCCcCCccCCCcC
Confidence 456666666666666664
No 6
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=92.80 E-value=0.2 Score=37.21 Aligned_cols=39 Identities=31% Similarity=0.564 Sum_probs=34.5
Q ss_pred EEEEEeecCCCccEEEEEEcCCCCceEEeeeccceeeeC
Q 042031 56 RFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEG 94 (565)
Q Consensus 56 r~~~~C~~~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~~ 94 (565)
|-.++|...||+++-.+.+..+++...++++.++|||+.
T Consensus 35 RsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~ 73 (76)
T 2ayd_A 35 RSYYRCSSPGCPVKKHVERSSHDTKLLITTYEGKHDHDM 73 (76)
T ss_dssp EEEEEECSTTCCCEEEEEECSSSTTEEEEEEESCCSSCC
T ss_pred eeEeEcCCCCCCceeeEEEECCCCCEEEEEEccCcCCCC
Confidence 556899999999999999888788899999999999964
No 7
>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*
Probab=92.33 E-value=0.22 Score=37.09 Aligned_cols=40 Identities=30% Similarity=0.522 Sum_probs=34.6
Q ss_pred eEEEEEeecCCCccEEEEEEcCCCCceEEeeeccceeeeC
Q 042031 55 SRFIAKCSKEGCPWRVHVAKCPGVPTFSIRTLHGEHTCEG 94 (565)
Q Consensus 55 ~r~~~~C~~~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~~ 94 (565)
-|-.++|...+|+++-.+.+...++...++++.++|||+.
T Consensus 37 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~ 76 (78)
T 1wj2_A 37 PRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDL 76 (78)
T ss_dssp CEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred eeEEeecCcCCCCcEeeEEEEcCCCCEEEEEEeeEcCCCC
Confidence 3556899999999999999887788888999999999964
No 8
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=91.41 E-value=0.08 Score=33.97 Aligned_cols=15 Identities=27% Similarity=0.640 Sum_probs=7.6
Q ss_pred cCccCCCCCCCCCCC
Q 042031 548 CGRCHLLGHSQKKCT 562 (565)
Q Consensus 548 C~~C~~~gHn~~tC~ 562 (565)
|-+|++.||-.+.||
T Consensus 24 C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 24 CWNCGSKEHRFAQCP 38 (39)
T ss_dssp CTTTCCSSSCTTTSC
T ss_pred cccCCCCCCccCcCc
Confidence 444555555555554
No 9
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=90.31 E-value=0.11 Score=32.93 Aligned_cols=18 Identities=33% Similarity=0.715 Sum_probs=12.5
Q ss_pred EEcCccCCCCCCCCCCCC
Q 042031 546 VQCGRCHLLGHSQKKCTM 563 (565)
Q Consensus 546 ~~C~~C~~~gHn~~tC~~ 563 (565)
..|-+|++.||-.+.||+
T Consensus 20 ~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 20 KVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp TTCSSCCCTTGGGGTTCC
T ss_pred CeEccCCCcCCccCcCcC
Confidence 667777777777777764
No 10
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=88.88 E-value=0.16 Score=32.56 Aligned_cols=17 Identities=29% Similarity=0.741 Sum_probs=15.6
Q ss_pred EcCccCCCCCCCCCCCC
Q 042031 547 QCGRCHLLGHSQKKCTM 563 (565)
Q Consensus 547 ~C~~C~~~gHn~~tC~~ 563 (565)
+|-+|++.||..+.||.
T Consensus 2 ~C~~Cg~~GH~a~~C~~ 18 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQ 18 (39)
T ss_dssp BCTTTCCBSSCTTTCCS
T ss_pred eeeccCCCCcccccCCC
Confidence 69999999999999984
No 11
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=87.94 E-value=0.18 Score=34.95 Aligned_cols=20 Identities=35% Similarity=0.579 Sum_probs=17.7
Q ss_pred ceEEcCccCCCCCCCCCCCC
Q 042031 544 RIVQCGRCHLLGHSQKKCTM 563 (565)
Q Consensus 544 ~~~~C~~C~~~gHn~~tC~~ 563 (565)
..+.|=+|++.||-.+.||.
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~ 25 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPT 25 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSG
T ss_pred CCCccccCCCcCcccccCCC
Confidence 45789999999999999983
No 12
>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=87.83 E-value=0.12 Score=35.99 Aligned_cols=20 Identities=35% Similarity=0.620 Sum_probs=14.2
Q ss_pred eEEcCccCCCCCCCCCCCCC
Q 042031 545 IVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 545 ~~~C~~C~~~gHn~~tC~~~ 564 (565)
...|-+|++.||-.+.||..
T Consensus 33 ~~~C~~Cg~~GH~~~~C~~~ 52 (55)
T 1a1t_A 33 KKGCWKCGKEGHQMKDCTER 52 (55)
T ss_dssp CCBCTTTCCBSSCGGGCSSS
T ss_pred CCEeCCCCCcCCccCCCcCc
Confidence 45677777777777777753
No 13
>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=83.75 E-value=1.2 Score=34.25 Aligned_cols=45 Identities=20% Similarity=0.225 Sum_probs=32.1
Q ss_pred cceEEEEeecCeEEEEEeec---CCCccEEEEEEcCCCCceEEeeeccceeeeCc
Q 042031 44 HFDLRIVKSDRSRFIAKCSK---EGCPWRVHVAKCPGVPTFSIRTLHGEHTCEGV 95 (565)
Q Consensus 44 gf~~~~~kS~~~r~~~~C~~---~~C~~~v~~~~~~~~~~~~V~~~~~~H~c~~~ 95 (565)
||.|...+....+....|.. .+|++++.... +. |. ....|||+|.
T Consensus 27 Gy~Y~~~~~~~~~~yWrC~~~~~~kCrARi~T~~----~~--~~-~~~~HnH~p~ 74 (87)
T 2rpr_A 27 SFLYRKEKAAGEKVYWMCRDQARLGCRSRAITQG----HR--IM-VMRSHCHQPD 74 (87)
T ss_dssp TEEEEEEEECSSCEEEEEGGGTTSCCCCEEEEET----TE--EE-ECSCCSSCCC
T ss_pred CEEEEeeecCCCcEEEEecCCCCCCCCEEEEEcC----CC--EE-CCCCcCCCCc
Confidence 67777766666667799986 58999998863 22 22 4577999874
No 14
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=83.03 E-value=0.38 Score=30.31 Aligned_cols=17 Identities=29% Similarity=0.714 Sum_probs=15.5
Q ss_pred EcCccCCCCCCCCCCCC
Q 042031 547 QCGRCHLLGHSQKKCTM 563 (565)
Q Consensus 547 ~C~~C~~~gHn~~tC~~ 563 (565)
+|-+|++.||..+.||.
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 58999999999999984
No 15
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=82.88 E-value=0.63 Score=34.54 Aligned_cols=19 Identities=21% Similarity=0.616 Sum_probs=12.0
Q ss_pred eEEcCccCCCCCCCCCCCC
Q 042031 545 IVQCGRCHLLGHSQKKCTM 563 (565)
Q Consensus 545 ~~~C~~C~~~gHn~~tC~~ 563 (565)
...|-+|++.||-.+.||.
T Consensus 46 ~~~C~~Cg~~GH~ar~Cp~ 64 (74)
T 2li8_A 46 PKKCHFCQSISHMVASCPL 64 (74)
T ss_dssp CCCCTTTCCTTSCGGGCTT
T ss_pred CCccCCcCCcCCccCcCcC
Confidence 3566666666666666664
No 16
>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=82.72 E-value=0.56 Score=33.59 Aligned_cols=16 Identities=25% Similarity=0.762 Sum_probs=8.4
Q ss_pred EcCccCCCCCCCCCCC
Q 042031 547 QCGRCHLLGHSQKKCT 562 (565)
Q Consensus 547 ~C~~C~~~gHn~~tC~ 562 (565)
.|-+|++.||-.+.||
T Consensus 31 ~C~~Cg~~GH~ar~Cp 46 (63)
T 2cqf_A 31 KCHFCQSISHMVASCP 46 (63)
T ss_dssp CCTTTCCSSSCTTTCT
T ss_pred ccCCcCCcCCccCcCC
Confidence 4555555555555554
No 17
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=81.04 E-value=0.41 Score=34.09 Aligned_cols=19 Identities=32% Similarity=0.807 Sum_probs=14.7
Q ss_pred EEcCccCCCCCCCCCCCCC
Q 042031 546 VQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 546 ~~C~~C~~~gHn~~tC~~~ 564 (565)
..|-+|++.||-.+.||.+
T Consensus 31 ~~C~~Cg~~GH~ar~C~~~ 49 (61)
T 2ihx_A 31 ERCQLCNGMGHNAKQCRKR 49 (61)
T ss_dssp SBCTTTCCBSSCGGGCCCC
T ss_pred CeeCCCCCCCCCcCCCcCC
Confidence 5688888888888888764
No 18
>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=80.77 E-value=0.47 Score=32.93 Aligned_cols=22 Identities=36% Similarity=0.822 Sum_probs=19.1
Q ss_pred CceEEcCccCCCCCCCCCCCCC
Q 042031 543 KRIVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 543 ~~~~~C~~C~~~gHn~~tC~~~ 564 (565)
++...|-+|++.||..+.||.|
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 3457899999999999999976
No 19
>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=79.62 E-value=0.7 Score=39.56 Aligned_cols=19 Identities=21% Similarity=0.616 Sum_probs=13.7
Q ss_pred eEEcCccCCCCCCCCCCCC
Q 042031 545 IVQCGRCHLLGHSQKKCTM 563 (565)
Q Consensus 545 ~~~C~~C~~~gHn~~tC~~ 563 (565)
..+|-+|++.||-.+.||.
T Consensus 119 ~~~C~~Cg~~GH~~r~Cp~ 137 (148)
T 3ts2_A 119 PKKCHFCQSINHMVASCPL 137 (148)
T ss_dssp CCCCTTTCCSSCCGGGCTT
T ss_pred CCcccccCCcCCEeccCcC
Confidence 4567777777777777775
No 20
>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=79.03 E-value=0.91 Score=32.09 Aligned_cols=20 Identities=25% Similarity=0.428 Sum_probs=17.9
Q ss_pred eEEcCccCCCCCCCCCCCCC
Q 042031 545 IVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 545 ~~~C~~C~~~gHn~~tC~~~ 564 (565)
...|-+|++.||-.+.||.+
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~ 49 (60)
T 1cl4_A 30 PGLCPRCKRGKHWANECKSK 49 (60)
T ss_dssp CCSCSSCSSCSSCSTTCCCT
T ss_pred CcceeECCCCCCccCcCCCc
Confidence 46899999999999999974
No 21
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=77.79 E-value=0.71 Score=32.81 Aligned_cols=19 Identities=32% Similarity=0.565 Sum_probs=17.2
Q ss_pred EEcCccCCCCCCCCCCCCC
Q 042031 546 VQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 546 ~~C~~C~~~gHn~~tC~~~ 564 (565)
..|-+|++.||-.+.||.+
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~ 23 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKK 23 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTT
T ss_pred CcccccCCCCeehhhCcCC
Confidence 5799999999999999974
No 22
>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=77.38 E-value=0.81 Score=30.85 Aligned_cols=22 Identities=32% Similarity=0.955 Sum_probs=19.3
Q ss_pred CceEEcCccCCCCCCCCCCCCC
Q 042031 543 KRIVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 543 ~~~~~C~~C~~~gHn~~tC~~~ 564 (565)
++..+|-+|++.||..+.||.|
T Consensus 4 ~r~~~C~~Cg~~GH~a~~C~~~ 25 (49)
T 2ec7_A 4 RKVIRCWNCGKEGHSARQCRAP 25 (49)
T ss_dssp CCCCBCTTTCCBTCCTTTCCCS
T ss_pred CCcCeeeecCCCCcChhhCcCC
Confidence 4567899999999999999975
No 23
>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=74.63 E-value=1.1 Score=32.08 Aligned_cols=20 Identities=35% Similarity=0.728 Sum_probs=17.7
Q ss_pred eEEcCccCCCCCCCCCCCCC
Q 042031 545 IVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 545 ~~~C~~C~~~gHn~~tC~~~ 564 (565)
...|-+|++.||..+.||.+
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~ 26 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLP 26 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSC
T ss_pred CCcccccCCCCcChhhCCCC
Confidence 35799999999999999964
No 24
>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=69.54 E-value=0.95 Score=31.97 Aligned_cols=19 Identities=32% Similarity=0.588 Sum_probs=0.0
Q ss_pred EEcCccCCCCCCCCCCCCC
Q 042031 546 VQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 546 ~~C~~C~~~gHn~~tC~~~ 564 (565)
..|=+|++.||-.+.||.+
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~ 20 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEH 20 (60)
T ss_dssp -------------------
T ss_pred CccccCCCCCcCHhhCcCC
Confidence 3689999999999999875
No 25
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=67.85 E-value=1.8 Score=32.02 Aligned_cols=21 Identities=33% Similarity=0.736 Sum_probs=18.1
Q ss_pred ceEEcCccCCCCCCCCCCCCC
Q 042031 544 RIVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 544 ~~~~C~~C~~~gHn~~tC~~~ 564 (565)
+...|-+|++.||..+.||.+
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 446799999999999999963
No 26
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=67.83 E-value=1.6 Score=33.08 Aligned_cols=20 Identities=25% Similarity=0.517 Sum_probs=18.1
Q ss_pred eEEcCccCCCCCCCCCCCCC
Q 042031 545 IVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 545 ~~~C~~C~~~gHn~~tC~~~ 564 (565)
...|-+|++.||-.+.||.+
T Consensus 46 ~~~CYnCG~~GH~~rdC~~~ 65 (83)
T 3nyb_B 46 TIYCYNCGGKGHFGDDCKEK 65 (83)
T ss_dssp CCBCSSSSCBSSCGGGCSSC
T ss_pred CCeecccCCCCcCcccCCcc
Confidence 46899999999999999975
No 27
>2xzm_5 Ribosomal protein S26E containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_5
Probab=67.33 E-value=4.1 Score=32.61 Aligned_cols=27 Identities=37% Similarity=0.645 Sum_probs=20.0
Q ss_pred CCCCCCCCCCCcccccccCCCCCCceEEcCccCC
Q 042031 520 PKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHL 553 (565)
Q Consensus 520 P~~~~~~GRpkk~R~~~~~~~~~~~~~~C~~C~~ 553 (565)
|..++..||-|+.|-. -..++|.+|+.
T Consensus 2 ~kKRrN~GR~KkgrGh-------v~~V~C~nCgr 28 (119)
T 2xzm_5 2 PVKRRNAGRSQKNRGH-------TRTVPCTNCGR 28 (119)
T ss_dssp CCCCSSTTCCCCSSSC-------CCEEECTTTCC
T ss_pred CcccccCCCCCCCCCC-------CccEeeCCccc
Confidence 5667778888776543 36789999997
No 28
>3u5c_a 40S ribosomal protein S26-A, 40S ribosomal protein S25-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_a
Probab=63.60 E-value=5.2 Score=32.06 Aligned_cols=27 Identities=41% Similarity=0.624 Sum_probs=19.8
Q ss_pred CCCCCCCCCCCcccccccCCCCCCceEEcCccCC
Q 042031 520 PKTRRPPGRPKKKVLRVENFKRPKRIVQCGRCHL 553 (565)
Q Consensus 520 P~~~~~~GRpkk~R~~~~~~~~~~~~~~C~~C~~ 553 (565)
|..++..||-|+-|-.. ..++|.+|+.
T Consensus 2 ~kKRrN~GR~KkgrGhv-------~~V~C~nCgr 28 (119)
T 3u5c_a 2 PKKRASNGRNKKGRGHV-------KPVRCVNCSK 28 (119)
T ss_dssp CCCCSSTTSCCCSCSCC-------CEEECTTTCC
T ss_pred CcccccCCCCCCCCCCC-------ccEeeccccc
Confidence 56777888877765432 5789999986
No 29
>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=61.71 E-value=2.7 Score=35.89 Aligned_cols=21 Identities=33% Similarity=0.678 Sum_probs=18.6
Q ss_pred ceEEcCccCCCCCCCCCCCCC
Q 042031 544 RIVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 544 ~~~~C~~C~~~gHn~~tC~~~ 564 (565)
+..+|-+|++.||-.+.||.|
T Consensus 96 ~~~~C~~Cg~~GH~a~~C~~~ 116 (148)
T 3ts2_A 96 GGDRCYNCGGLDHHAKECKLP 116 (148)
T ss_dssp CSCCCTTTCCSSCCGGGCCSC
T ss_pred CCCcccEeCCccchhhhCCCC
Confidence 457899999999999999974
No 30
>2ezd_A High mobility group protein HMG-I/HMG-Y; DNA binding protein, minor groove DNA binding, transcriptional CO-activator, architectural factor; HET: DNA; NMR {Homo sapiens} SCOP: j.10.1.1 PDB: 2eze_A*
Probab=60.32 E-value=6.6 Score=21.83 Aligned_cols=15 Identities=47% Similarity=0.851 Sum_probs=10.5
Q ss_pred CCCCCCCCCCCcccc
Q 042031 520 PKTRRPPGRPKKKVL 534 (565)
Q Consensus 520 P~~~~~~GRpkk~R~ 534 (565)
|.-+|++||||-..-
T Consensus 2 ptpKrpRgRpkGSKN 16 (26)
T 2ezd_A 2 PTPKRPRGRPKGSKN 16 (26)
T ss_dssp CSCCCCSSCCTTCCC
T ss_pred CCCcCCCCCcCcccc
Confidence 344789999976543
No 31
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=58.83 E-value=4.9 Score=33.00 Aligned_cols=21 Identities=24% Similarity=0.502 Sum_probs=18.8
Q ss_pred ceEEcCccCCCCCCCCCCCCC
Q 042031 544 RIVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 544 ~~~~C~~C~~~gHn~~tC~~~ 564 (565)
....|-+|++.||..+.||+.
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 457999999999999999974
No 32
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=58.69 E-value=2.5 Score=32.85 Aligned_cols=20 Identities=35% Similarity=0.823 Sum_probs=17.7
Q ss_pred ceEEcCccCCCC---CCCCCCCC
Q 042031 544 RIVQCGRCHLLG---HSQKKCTM 563 (565)
Q Consensus 544 ~~~~C~~C~~~g---Hn~~tC~~ 563 (565)
+.+.|..||..| |+.+-||+
T Consensus 70 R~Y~CpiCGATGd~AHT~kYCP~ 92 (106)
T 3alr_A 70 RQYKCPLCGATGAKAHTKRFCPM 92 (106)
T ss_dssp GGCCCTTTCCCGGGCCCGGGCTT
T ss_pred ccccCCCCCCcCCcccceecCCC
Confidence 568999999988 99999996
No 33
>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1
Probab=57.61 E-value=51 Score=23.81 Aligned_cols=44 Identities=7% Similarity=0.123 Sum_probs=36.0
Q ss_pred ccchhhHHHHHHHHHhc-C-CCCCHHHHHHHHHHHc-CcccCHHHHH
Q 042031 102 QASVGWVARSVEARIRD-N-PQYKPKEILQDIRDQH-GVAVSYMQAW 145 (565)
Q Consensus 102 ~~~~~~i~~~~~~~l~~-~-~~~~~~~i~~~~~~~~-g~~~s~~~~~ 145 (565)
.++-..|...+.++|++ | .+++.+.|...+.+.+ |++++-.+.+
T Consensus 11 ~Psd~ei~~~I~~IL~~aDL~tvT~K~VR~~Le~~~pg~dLs~kK~~ 57 (70)
T 1q1v_A 11 PPTDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLTERKDF 57 (70)
T ss_dssp CCCHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHCSSSCCSHHHHH
T ss_pred CcCHHHHHHHHHHHHHhCCHHHHhHHHHHHHHHHHccCCCChHHHHH
Confidence 45667788889999987 3 5688999999999999 9999965544
No 34
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=55.56 E-value=4.9 Score=33.02 Aligned_cols=20 Identities=35% Similarity=0.670 Sum_probs=17.4
Q ss_pred eEEcCccCCCCCCCCCCCCC
Q 042031 545 IVQCGRCHLLGHSQKKCTMP 564 (565)
Q Consensus 545 ~~~C~~C~~~gHn~~tC~~~ 564 (565)
...|-+|++.||..+.||.+
T Consensus 64 ~~~C~~Cg~~GH~~~~Cp~~ 83 (124)
T 2lli_A 64 KVQCTLCKSKKHSKERCPSI 83 (124)
T ss_dssp CCSSSSSCSSCCCTTTCCCS
T ss_pred CccCCCCCcCCcchhhCCCc
Confidence 36799999999999999964
No 35
>2jya_A AGR_C_3324P, uncharacterized protein ATU1810; protein with unknown function ATU1810, ontario centre for ST proteomics, OCSP; NMR {Agrobacterium tumefaciens str}
Probab=47.28 E-value=21 Score=28.15 Aligned_cols=44 Identities=11% Similarity=0.132 Sum_probs=32.2
Q ss_pred cccCCcCC-CCCCCccccCeeCCHHHHHHHHHHHHHhccceEEEEeecC
Q 042031 7 TVPNDSLS-LAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSDR 54 (565)
Q Consensus 7 ~~~~~~~~-~~~~~l~~G~~F~s~~e~~~a~~~ya~~~gf~~~~~kS~~ 54 (565)
.+||-+-- ..|+--.+.+.|+|+|+|. .||.++|..|.|..-..
T Consensus 38 ~nPLMGWtsS~D~~~qv~L~F~skE~Ai----ayAek~G~~y~V~ep~~ 82 (106)
T 2jya_A 38 IDPIMGYTSSSDMKQQVKLTFETQEQAE----AYAQRKGIEYRVILPKE 82 (106)
T ss_dssp CCTTTCSCSCCCSEEEEEEEESSHHHHH----HHHHHHTCEEEECCCTT
T ss_pred cCCCcCcCCCCCccccceEecCCHHHHH----HHHHHcCCEEEEeCCCc
Confidence 45555553 4444458899999999985 57999999999886444
No 36
>2l0z_A Glycoprotein G2; zinc-binding domain, virus envelope glycoprotein, GPC, junin arenavirus, viral protein; NMR {Junin virus}
Probab=40.75 E-value=11 Score=23.72 Aligned_cols=15 Identities=20% Similarity=0.521 Sum_probs=13.0
Q ss_pred CceeccCccccCCCC
Q 042031 440 SRVCSCRRWQLYGLP 454 (565)
Q Consensus 440 ~~~CsC~~~~~~GiP 454 (565)
...|+|+.|...|.|
T Consensus 21 ~~~C~CG~y~~~~kp 35 (42)
T 2l0z_A 21 LGGCRCGKYPNLKKP 35 (42)
T ss_dssp TSSBTTTTBCCCCCC
T ss_pred CceeccccccCCCCc
Confidence 458999999999877
No 37
>2lju_A Putative oxidoreductase; structural genomics, seattle structural GENO center for infectious disease, ssgcid; NMR {Ehrlichia chaffeensis}
Probab=39.26 E-value=47 Score=26.29 Aligned_cols=43 Identities=16% Similarity=0.210 Sum_probs=31.8
Q ss_pred cccCCcC-CCCCCCccccCeeCCHHHHHHHHHHHHHhccceEEEEeec
Q 042031 7 TVPNDSL-SLAEPTLSIGQEFPDVETCRRTLKDIAIALHFDLRIVKSD 53 (565)
Q Consensus 7 ~~~~~~~-~~~~~~l~~G~~F~s~~e~~~a~~~ya~~~gf~~~~~kS~ 53 (565)
.+||-+- +..|+--.+.+.|+|+|+|. .||.++|..|.|..-.
T Consensus 46 ~nPLMGWtsS~D~~~qv~L~F~skE~Ai----ayAek~G~~y~V~ep~ 89 (108)
T 2lju_A 46 TEPLMNWTGSHDTKQQVCLSFTTRELAI----AYAVAHKIDYTVLQDN 89 (108)
T ss_dssp CCCCCCCSSSCCCCCCSCEEESSHHHHH----HHHHHTTCEEEEECSS
T ss_pred cCCCccccCCCCccccceEecCCHHHHH----HHHHHcCCEEEEecCC
Confidence 4555554 34555558899999999985 5799999999987543
No 38
>1fme_A FSD-EY peptide; beta-BETA-alpha, zinc finger, designed protein, de novo protein; NMR {Synthetic} SCOP: k.12.1.1 PDB: 1fsd_A 1fsv_A 2k6r_A* 1psv_A
Probab=37.16 E-value=24 Score=19.38 Aligned_cols=20 Identities=15% Similarity=0.262 Sum_probs=17.1
Q ss_pred ccccCeeCCHHHHHHHHHHH
Q 042031 20 LSIGQEFPDVETCRRTLKDI 39 (565)
Q Consensus 20 l~~G~~F~s~~e~~~a~~~y 39 (565)
-+.|.+|.+..|++.++..+
T Consensus 6 kykgrtfrnekelrdfiekf 25 (28)
T 1fme_A 6 KYKGRTFRNEKELRDFIEKF 25 (28)
T ss_dssp ESSSCEECCHHHHHHHHHHC
T ss_pred hhcccccccHHHHHHHHHHh
Confidence 36899999999999998764
No 39
>2ahq_A Sigma-54, RNA polymerase sigma factor RPON; sigma-54,sigma factors, solution structure, transcription; NMR {Aquifex aeolicus} PDB: 2o8k_A 2o9l_A
Probab=35.99 E-value=84 Score=23.08 Aligned_cols=47 Identities=15% Similarity=0.292 Sum_probs=36.4
Q ss_pred cchhhHHHHHHHHHhcC-CC--CCHHHHHHHHHHHcCcccCHHHHHHHHHH
Q 042031 103 ASVGWVARSVEARIRDN-PQ--YKPKEILQDIRDQHGVAVSYMQAWRGKER 150 (565)
Q Consensus 103 ~~~~~i~~~~~~~l~~~-~~--~~~~~i~~~~~~~~g~~~s~~~~~r~~~~ 150 (565)
.++..|...+++.|.+. +. ++-..|.+.|.++ |+.++..++.+.|+.
T Consensus 16 ~S~~~Ik~~Ik~lI~~Ed~~kPlSD~~I~~~L~~~-Gi~IaRRTVaKYRe~ 65 (76)
T 2ahq_A 16 LTQGELMKLIKEIVENEDKRKPYSDQEIANILKEK-GFKVARRTVAKYREM 65 (76)
T ss_dssp CCHHHHHHHHHHHGGGCCSSSCCCHHHHHHHHTTT-SSCCCHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHc-CCCccHHHHHHHHHH
Confidence 45667777888888763 33 6788999999766 999999999887753
No 40
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5
Probab=26.99 E-value=82 Score=24.80 Aligned_cols=37 Identities=27% Similarity=0.224 Sum_probs=29.6
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHcCc-----ccCHHHHHHH
Q 042031 110 RSVEARIRDNPQYKPKEILQDIRDQHGV-----AVSYMQAWRG 147 (565)
Q Consensus 110 ~~~~~~l~~~~~~~~~~i~~~~~~~~g~-----~~s~~~~~r~ 147 (565)
..+...+..+|.+++.+|...+.+. |+ .+|++++++.
T Consensus 82 ~~i~~~~~~~~~~s~~~i~~~l~~~-g~~~~~~~~s~~tv~r~ 123 (128)
T 1pdn_C 82 NRIEEYKRSSPGMFSWEIREKLIRE-GVCDRSTAPSVSAISRL 123 (128)
T ss_dssp HHHHHTTTTCTTCCHHHHHHHHHHT-SSSCSTTCCCHHHHHHH
T ss_pred HHHHHHHHhCcchHHHHHHHHHHHc-CCccccCCcCHHHHHHH
Confidence 3455666778999999999998766 88 6999999875
No 41
>2p5k_A Arginine repressor; DNA-binding domain, winged helix-turn-helix (WHTH), DNA binding protein; 1.00A {Bacillus subtilis} SCOP: a.4.5.3 PDB: 2p5l_C*
Probab=26.62 E-value=95 Score=21.11 Aligned_cols=35 Identities=17% Similarity=0.210 Sum_probs=27.5
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHcCcccCHHHHHHHH
Q 042031 113 EARIRDNPQYKPKEILQDIRDQHGVAVSYMQAWRGK 148 (565)
Q Consensus 113 ~~~l~~~~~~~~~~i~~~~~~~~g~~~s~~~~~r~~ 148 (565)
...+..+..++..+|.+.+.+. |..+|..+++|.-
T Consensus 11 ~~ll~~~~~~t~~el~~~l~~~-~~~vs~~Tv~R~L 45 (64)
T 2p5k_A 11 REIITSNEIETQDELVDMLKQD-GYKVTQATVSRDI 45 (64)
T ss_dssp HHHHHHSCCCSHHHHHHHHHHT-TCCCCHHHHHHHH
T ss_pred HHHHHcCCCCCHHHHHHHHHHh-CCCcCHHHHHHHH
Confidence 3455567788999999999654 8889999999764
No 42
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Probab=26.39 E-value=88 Score=25.79 Aligned_cols=38 Identities=18% Similarity=0.114 Sum_probs=30.2
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHc----CcccCHHHHHHH
Q 042031 110 RSVEARIRDNPQYKPKEILQDIRDQH----GVAVSYMQAWRG 147 (565)
Q Consensus 110 ~~~~~~l~~~~~~~~~~i~~~~~~~~----g~~~s~~~~~r~ 147 (565)
..+...+..++.+++.+|...+...+ |+.+|++++++.
T Consensus 97 ~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~g~~~S~sTV~r~ 138 (149)
T 1k78_A 97 EKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRI 138 (149)
T ss_dssp HHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTSCCHHHHHHH
T ss_pred HHHHHHHHhCcchhHHHHHHHHHHhcccccCCCcCHHHHHHH
Confidence 34556667788899999999887766 888999998865
No 43
>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}
Probab=21.39 E-value=82 Score=23.78 Aligned_cols=30 Identities=33% Similarity=0.378 Sum_probs=25.1
Q ss_pred CeeCCHHHHHHHHHHHHHhccceEEEEeec
Q 042031 24 QEFPDVETCRRTLKDIAIALHFDLRIVKSD 53 (565)
Q Consensus 24 ~~F~s~~e~~~a~~~ya~~~gf~~~~~kS~ 53 (565)
.+|.+.+|-....++.-.++||.++..+|.
T Consensus 6 vvfstdeetlrkfkdiikkngfkvrtvrsp 35 (134)
T 2l69_A 6 VVFSTDEETLRKFKDIIKKNGFKVRTVRSP 35 (134)
T ss_dssp EECCCCHHHHHHHHHHHHHTTCEEEEECSH
T ss_pred EEEeCCHHHHHHHHHHHHhcCceEEEecCH
Confidence 368888888888888889999999988874
No 44
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens}
Probab=20.97 E-value=1.7e+02 Score=24.34 Aligned_cols=38 Identities=18% Similarity=0.087 Sum_probs=29.8
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHc----CcccCHHHHHHH
Q 042031 110 RSVEARIRDNPQYKPKEILQDIRDQH----GVAVSYMQAWRG 147 (565)
Q Consensus 110 ~~~~~~l~~~~~~~~~~i~~~~~~~~----g~~~s~~~~~r~ 147 (565)
..+...+..++.+++.+|.+.+.+.. |+.+|++++++.
T Consensus 90 ~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~~~~~S~sTV~r~ 131 (159)
T 2k27_A 90 EKIGDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSINRI 131 (159)
T ss_dssp HHHHHHHHHCSSSCHHHHHHHHHHHTCSCTTTSCCHHHHHHH
T ss_pred HHHHHHHHHCccchHHHHHHHHHHhcccccCCccCHHHHHHH
Confidence 34556666788999999999887665 678999998875
Done!