Query 035848
Match_columns 244
No_of_seqs 160 out of 224
Neff 3.9
Searched_HMMs 29240
Date Mon Mar 25 11:32:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035848.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/035848hhsearch_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 98.7 3.2E-09 1.1E-13 64.7 2.3 22 8-29 2-23 (26)
2 1a6b_B Momulv, zinc finger pro 98.6 3E-08 1E-12 66.6 4.0 24 5-28 7-30 (40)
3 1u6p_A GAG polyprotein; MLV, A 98.5 6.8E-08 2.3E-12 69.0 3.7 24 6-29 21-44 (56)
4 1nc8_A Nucleocapsid protein; H 98.4 1.3E-07 4.5E-12 58.7 2.2 22 7-28 5-26 (29)
5 2ysa_A Retinoblastoma-binding 98.3 1.9E-07 6.6E-12 66.4 1.7 21 7-27 6-26 (55)
6 3nyb_B Protein AIR2; polya RNA 98.1 9.1E-07 3.1E-11 67.2 2.9 23 7-29 45-67 (83)
7 1cl4_A Protein (GAG polyprotei 98.0 3.5E-06 1.2E-10 59.3 3.3 23 7-29 29-51 (60)
8 2ec7_A GAG polyprotein (PR55GA 97.9 4.5E-06 1.5E-10 57.0 2.7 22 6-27 4-25 (49)
9 2bl6_A Nucleocapsid protein P1 97.9 4E-06 1.4E-10 54.1 1.9 17 10-26 2-18 (37)
10 2a51_A Nucleocapsid protein; s 97.9 5.9E-06 2E-10 53.8 2.2 17 9-25 22-38 (39)
11 2cqf_A RNA-binding protein LIN 97.8 1.4E-05 4.8E-10 57.2 4.0 22 6-27 5-26 (63)
12 2li8_A Protein LIN-28 homolog 97.8 9.4E-06 3.2E-10 60.3 3.2 23 5-27 21-43 (74)
13 2a51_A Nucleocapsid protein; s 97.8 6.1E-06 2.1E-10 53.7 1.8 18 10-27 2-19 (39)
14 2li8_A Protein LIN-28 homolog 97.8 8E-06 2.7E-10 60.6 2.2 22 7-28 45-66 (74)
15 2ihx_A Nucleocapsid (NC) prote 97.8 7.7E-06 2.6E-10 58.0 1.9 22 7-28 3-24 (61)
16 2bl6_A Nucleocapsid protein P1 97.8 6.9E-06 2.4E-10 52.9 1.5 19 8-26 19-37 (37)
17 2ec7_A GAG polyprotein (PR55GA 97.8 8.9E-06 3E-10 55.5 2.0 21 8-28 27-47 (49)
18 1a1t_A Nucleocapsid protein; s 97.8 8.5E-06 2.9E-10 56.3 1.8 21 7-27 11-31 (55)
19 2cqf_A RNA-binding protein LIN 97.8 1.3E-05 4.6E-10 57.3 2.9 22 7-28 28-49 (63)
20 2ihx_A Nucleocapsid (NC) prote 97.7 1E-05 3.4E-10 57.5 2.0 22 8-29 30-51 (61)
21 1a1t_A Nucleocapsid protein; s 97.7 6.6E-06 2.3E-10 56.9 0.9 22 7-28 32-53 (55)
22 1cl4_A Protein (GAG polyprotei 97.7 4.8E-06 1.6E-10 58.5 0.0 20 9-28 2-21 (60)
23 3ts2_A Protein LIN-28 homolog 97.3 8.4E-05 2.9E-09 61.2 2.5 20 8-27 97-116 (148)
24 2lli_A Protein AIR2; RNA surve 97.2 0.00016 5.4E-09 56.9 2.4 22 6-27 2-23 (124)
25 3nyb_B Protein AIR2; polya RNA 96.7 0.0004 1.4E-08 52.6 0.8 22 7-28 4-25 (83)
26 2lli_A Protein AIR2; RNA surve 96.6 0.0013 4.5E-08 51.6 3.2 19 9-27 65-83 (124)
27 2hqh_E Restin; beta/BETA struc 79.8 0.48 1.6E-05 29.2 0.5 20 9-28 4-23 (26)
28 2pzo_E CAP-Gly domain-containi 70.7 1.1 3.8E-05 30.3 0.5 23 6-28 18-40 (42)
29 2i2o_A EIF4G-like protein; pro 56.2 8.7 0.0003 32.9 3.6 30 211-240 35-64 (224)
30 1ef4_A Subunit N, DNA-directed 48.9 5.7 0.00019 28.2 1.0 10 8-17 3-12 (55)
31 3rk6_A Polyadenylate-binding p 47.0 11 0.00039 32.4 2.8 31 210-240 56-86 (234)
32 1twf_J DNA-directed RNA polyme 43.1 7.3 0.00025 28.8 0.9 10 8-17 4-13 (70)
33 4ayb_N DNA-directed RNA polyme 40.0 8.6 0.00029 28.2 0.8 9 8-16 4-12 (66)
34 3e2u_E CAP-Gly domain-containi 38.0 8.7 0.0003 26.0 0.5 21 8-28 20-40 (42)
35 2vso_E Eukaryotic initiation f 36.6 29 0.001 30.2 3.9 31 210-240 73-103 (284)
36 3c1q_A General secretion pathw 32.8 1.1E+02 0.0037 22.5 6.0 52 116-167 12-63 (123)
37 1irz_A ARR10-B; helix-turn-hel 32.2 50 0.0017 23.7 3.8 14 150-163 48-61 (64)
38 1hu3_A EIF4GII; heat repeat, t 31.2 35 0.0012 29.3 3.4 30 211-240 44-73 (260)
39 1baj_A GAG polyprotein; capsid 29.5 53 0.0018 25.0 3.8 34 124-157 6-43 (101)
40 3si5_X Protein CASC5; BUBR1-bl 28.2 26 0.00088 21.0 1.4 12 132-143 10-21 (24)
41 3g21_A GAG polyprotein, capsid 26.0 68 0.0023 24.0 3.7 27 131-157 11-41 (77)
42 1pul_A Hypothetical protein C3 25.3 65 0.0022 25.9 3.8 59 107-169 59-123 (125)
43 1eoq_A GAG polyprotein capsid 24.6 66 0.0023 25.0 3.6 27 131-157 7-37 (96)
44 2whn_A PILC, pilus assembly pr 24.6 97 0.0033 22.4 4.4 51 117-167 14-64 (116)
45 2lk0_A RNA-binding protein 5; 20.4 38 0.0013 20.8 1.2 11 7-17 18-28 (32)
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=98.75 E-value=3.2e-09 Score=64.68 Aligned_cols=22 Identities=41% Similarity=1.022 Sum_probs=18.1
Q ss_pred CCcccccCCCCccCCCCCCCCC
Q 035848 8 PTGCFKCGRPGHWSRDCPSSSS 29 (244)
Q Consensus 8 ~~~Cy~CG~~GHwardCp~~~~ 29 (244)
...||+||+.||||||||....
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 3579999999999999998754
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=98.61 E-value=3e-08 Score=66.60 Aligned_cols=24 Identities=33% Similarity=0.977 Sum_probs=20.8
Q ss_pred CCCCCcccccCCCCccCCCCCCCC
Q 035848 5 KAAPTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 5 ~~~~~~Cy~CG~~GHwardCp~~~ 28 (244)
......||+||+.||||||||...
T Consensus 7 ~~~~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 7 QLDRDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp SCCSSSCSSSCCTTCCTTSCSSSC
T ss_pred CCCCCeeeECCCCCcchhhCcCCc
Confidence 345689999999999999999865
No 3
>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=98.50 E-value=6.8e-08 Score=69.01 Aligned_cols=24 Identities=33% Similarity=0.953 Sum_probs=20.4
Q ss_pred CCCCcccccCCCCccCCCCCCCCC
Q 035848 6 AAPTGCFKCGRPGHWSRDCPSSSS 29 (244)
Q Consensus 6 ~~~~~Cy~CG~~GHwardCp~~~~ 29 (244)
.....||+||+.||||||||....
T Consensus 21 ~~~~~C~~Cge~GH~ardCp~~~~ 44 (56)
T 1u6p_A 21 LDRDQCAYCKEKGHWAKDCPKKPR 44 (56)
T ss_dssp CCTTBCSSSCCBSSCGGGCTTCCC
T ss_pred CCCCcceeCCCCCcccccCcCCcc
Confidence 345789999999999999998653
No 4
>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=98.37 E-value=1.3e-07 Score=58.66 Aligned_cols=22 Identities=32% Similarity=0.913 Sum_probs=19.0
Q ss_pred CCCcccccCCCCccCCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~~ 28 (244)
+...||+||+.|||||+|+.+.
T Consensus 5 ~~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 5 KVIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCCBCTTTSCBSSCGGGCCSSS
T ss_pred CCCEEEECCccccCHhHCcccc
Confidence 4567999999999999998654
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=98.28 E-value=1.9e-07 Score=66.43 Aligned_cols=21 Identities=43% Similarity=1.385 Sum_probs=18.4
Q ss_pred CCCcccccCCCCccCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~ 27 (244)
+...||+||++|||+++||..
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSGG
T ss_pred CCCccccCCCcCcccccCCCC
Confidence 456899999999999999944
No 6
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=98.15 E-value=9.1e-07 Score=67.23 Aligned_cols=23 Identities=35% Similarity=0.910 Sum_probs=20.2
Q ss_pred CCCcccccCCCCccCCCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSSSS 29 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~~~ 29 (244)
....||+||+.||++||||....
T Consensus 45 ~~~~CYnCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 45 HTIYCYNCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp CCCBCSSSSCBSSCGGGCSSCCS
T ss_pred CCCeecccCCCCcCcccCCcccc
Confidence 45789999999999999998763
No 7
>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=98.00 E-value=3.5e-06 Score=59.26 Aligned_cols=23 Identities=35% Similarity=0.934 Sum_probs=19.1
Q ss_pred CCCcccccCCCCccCCCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSSSS 29 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~~~ 29 (244)
....||+||+.||||||||....
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 35789999999999999987653
No 8
>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=97.92 E-value=4.5e-06 Score=56.96 Aligned_cols=22 Identities=32% Similarity=0.907 Sum_probs=18.4
Q ss_pred CCCCcccccCCCCccCCCCCCC
Q 035848 6 AAPTGCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 6 ~~~~~Cy~CG~~GHwardCp~~ 27 (244)
.++..||+||+.||||++||.+
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 4567899999999999999865
No 9
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=97.89 E-value=4e-06 Score=54.07 Aligned_cols=17 Identities=47% Similarity=1.394 Sum_probs=13.1
Q ss_pred cccccCCCCccCCCCCC
Q 035848 10 GCFKCGRPGHWSRDCPS 26 (244)
Q Consensus 10 ~Cy~CG~~GHwardCp~ 26 (244)
.||+||++||+|++||.
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 57888888888888875
No 10
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=97.85 E-value=5.9e-06 Score=53.84 Aligned_cols=17 Identities=41% Similarity=1.173 Sum_probs=11.2
Q ss_pred CcccccCCCCccCCCCC
Q 035848 9 TGCFKCGRPGHWSRDCP 25 (244)
Q Consensus 9 ~~Cy~CG~~GHwardCp 25 (244)
..||+||+.||+|||||
T Consensus 22 ~~C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 22 EGCWNCGSKEHRFAQCP 38 (39)
T ss_dssp SSCTTTCCSSSCTTTSC
T ss_pred CccccCCCCCCccCcCc
Confidence 45666666666666665
No 11
>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=97.83 E-value=1.4e-05 Score=57.22 Aligned_cols=22 Identities=23% Similarity=0.800 Sum_probs=14.8
Q ss_pred CCCCcccccCCCCccCCCCCCC
Q 035848 6 AAPTGCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 6 ~~~~~Cy~CG~~GHwardCp~~ 27 (244)
.+...||+||+.||||++||..
T Consensus 5 ~r~~~C~~Cg~~GH~a~~C~~~ 26 (63)
T 2cqf_A 5 SSGDRCYNCGGLDHHAKECKLP 26 (63)
T ss_dssp CSCCCCSSSCCSSSCTTTCCSC
T ss_pred CCCCcccccCCCCcChhhCCCC
Confidence 4456677777777777777643
No 12
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=97.83 E-value=9.4e-06 Score=60.27 Aligned_cols=23 Identities=22% Similarity=0.783 Sum_probs=19.0
Q ss_pred CCCCCcccccCCCCccCCCCCCC
Q 035848 5 KAAPTGCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 5 ~~~~~~Cy~CG~~GHwardCp~~ 27 (244)
..+...||+||+.||||++||..
T Consensus 21 ~~r~~~C~~Cg~~GH~a~~C~~~ 43 (74)
T 2li8_A 21 RSKGDRCYNCGGLDHHAKECKLP 43 (74)
T ss_dssp CSTTSCCTTTCCSSSCTTTCSSC
T ss_pred cCCCCcccccCCcCcCcccCCCC
Confidence 34677899999999999999854
No 13
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=97.81 E-value=6.1e-06 Score=53.75 Aligned_cols=18 Identities=50% Similarity=1.289 Sum_probs=16.6
Q ss_pred cccccCCCCccCCCCCCC
Q 035848 10 GCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 10 ~Cy~CG~~GHwardCp~~ 27 (244)
.||+||+.||+|++||.+
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 599999999999999965
No 14
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=97.79 E-value=8e-06 Score=60.65 Aligned_cols=22 Identities=27% Similarity=0.677 Sum_probs=19.6
Q ss_pred CCCcccccCCCCccCCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~~ 28 (244)
....||+||+.||+|||||...
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 4678999999999999999765
No 15
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=97.78 E-value=7.7e-06 Score=58.04 Aligned_cols=22 Identities=41% Similarity=1.127 Sum_probs=15.3
Q ss_pred CCCcccccCCCCccCCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~~ 28 (244)
++..||+||+.||||++||...
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 3456777777777777777653
No 16
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=97.77 E-value=6.9e-06 Score=52.95 Aligned_cols=19 Identities=58% Similarity=1.408 Sum_probs=17.2
Q ss_pred CCcccccCCCCccCCCCCC
Q 035848 8 PTGCFKCGRPGHWSRDCPS 26 (244)
Q Consensus 8 ~~~Cy~CG~~GHwardCp~ 26 (244)
+..||+||++||+||+||.
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 4689999999999999984
No 17
>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=97.76 E-value=8.9e-06 Score=55.48 Aligned_cols=21 Identities=43% Similarity=1.153 Sum_probs=18.7
Q ss_pred CCcccccCCCCccCCCCCCCC
Q 035848 8 PTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 8 ~~~Cy~CG~~GHwardCp~~~ 28 (244)
...||+||+.||+|||||..+
T Consensus 27 ~~~C~~Cg~~GH~~~~C~~~~ 47 (49)
T 2ec7_A 27 RQGCWKCGKTGHVMAKCPERQ 47 (49)
T ss_dssp CCSCSSSCCSSCCGGGCCSSC
T ss_pred CCeeCcCCCcCCccCCCcCCC
Confidence 467999999999999999765
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=97.75 E-value=8.5e-06 Score=56.33 Aligned_cols=21 Identities=33% Similarity=1.064 Sum_probs=15.0
Q ss_pred CCCcccccCCCCccCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~ 27 (244)
+...||+||+.||||++||.+
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~ 31 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAP 31 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSC
T ss_pred CCcceeeeCCCCcChhhcCCC
Confidence 345677777777777777765
No 19
>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=97.75 E-value=1.3e-05 Score=57.29 Aligned_cols=22 Identities=27% Similarity=0.677 Sum_probs=19.6
Q ss_pred CCCcccccCCCCccCCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~~ 28 (244)
....||+||+.||+|||||...
T Consensus 28 ~~~~C~~Cg~~GH~ar~Cp~~~ 49 (63)
T 2cqf_A 28 QPKKCHFCQSISHMVASCPLKA 49 (63)
T ss_dssp CSSCCTTTCCSSSCTTTCTGGG
T ss_pred CCCccCCcCCcCCccCcCCCcc
Confidence 5678999999999999999764
No 20
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=97.74 E-value=1e-05 Score=57.46 Aligned_cols=22 Identities=23% Similarity=0.583 Sum_probs=18.9
Q ss_pred CCcccccCCCCccCCCCCCCCC
Q 035848 8 PTGCFKCGRPGHWSRDCPSSSS 29 (244)
Q Consensus 8 ~~~Cy~CG~~GHwardCp~~~~ 29 (244)
...||+||+.||+|||||..+.
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~~~ 51 (61)
T 2ihx_A 30 RERCQLCNGMGHNAKQCRKRDG 51 (61)
T ss_dssp CSBCTTTCCBSSCGGGCCCCC-
T ss_pred CCeeCCCCCCCCCcCCCcCCCc
Confidence 4679999999999999998764
No 21
>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=97.72 E-value=6.6e-06 Score=56.88 Aligned_cols=22 Identities=41% Similarity=1.087 Sum_probs=19.2
Q ss_pred CCCcccccCCCCccCCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~~ 28 (244)
+...||+||+.||+|+|||..+
T Consensus 32 ~~~~C~~Cg~~GH~~~~C~~~~ 53 (55)
T 1a1t_A 32 RKKGCWKCGKEGHQMKDCTERQ 53 (55)
T ss_dssp SCCBCTTTCCBSSCGGGCSSSC
T ss_pred CCCEeCCCCCcCCccCCCcCcC
Confidence 3468999999999999999765
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=97.71 E-value=4.8e-06 Score=58.52 Aligned_cols=20 Identities=40% Similarity=1.247 Sum_probs=0.0
Q ss_pred CcccccCCCCccCCCCCCCC
Q 035848 9 TGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 9 ~~Cy~CG~~GHwardCp~~~ 28 (244)
..||+||+.|||||+||...
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 36999999999999999764
No 23
>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=97.32 E-value=8.4e-05 Score=61.20 Aligned_cols=20 Identities=25% Similarity=0.843 Sum_probs=17.5
Q ss_pred CCcccccCCCCccCCCCCCC
Q 035848 8 PTGCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 8 ~~~Cy~CG~~GHwardCp~~ 27 (244)
...||+||+.|||||+||.+
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~ 116 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLP 116 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSC
T ss_pred CCcccEeCCccchhhhCCCC
Confidence 35699999999999999864
No 24
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=97.16 E-value=0.00016 Score=56.93 Aligned_cols=22 Identities=36% Similarity=0.907 Sum_probs=17.9
Q ss_pred CCCCcccccCCCCccCCCCCCC
Q 035848 6 AAPTGCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 6 ~~~~~Cy~CG~~GHwardCp~~ 27 (244)
+++..||+||+.||||++||..
T Consensus 2 e~~~~C~~C~~~GH~~~~Cp~~ 23 (124)
T 2lli_A 2 EAAPKCNNCSQRGHLKKDCPHI 23 (124)
T ss_dssp CCSSCCSSCSSSSCCTTTTTSC
T ss_pred CCCCcccCCCCCCcCcccCcCC
Confidence 4567799999999999999864
No 25
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=96.66 E-value=0.0004 Score=52.58 Aligned_cols=22 Identities=27% Similarity=0.498 Sum_probs=17.5
Q ss_pred CCCcccccCCCCccCCCCCCCC
Q 035848 7 APTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 7 ~~~~Cy~CG~~GHwardCp~~~ 28 (244)
....||+||+.||++++||...
T Consensus 4 k~~~C~~Cg~~GH~~~~Cp~~~ 25 (83)
T 3nyb_B 4 KKVQCTLCKSKKHSKERCPSIW 25 (83)
T ss_dssp ---CCSSSCCSSSCGGGCGGGT
T ss_pred ccCCCCCCCCCCCccccCCCcc
Confidence 5678999999999999999754
No 26
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=96.56 E-value=0.0013 Score=51.63 Aligned_cols=19 Identities=32% Similarity=0.651 Sum_probs=9.7
Q ss_pred CcccccCCCCccCCCCCCC
Q 035848 9 TGCFKCGRPGHWSRDCPSS 27 (244)
Q Consensus 9 ~~Cy~CG~~GHwardCp~~ 27 (244)
..||+||+.||+|||||..
T Consensus 65 ~~C~~Cg~~GH~~~~Cp~~ 83 (124)
T 2lli_A 65 VQCTLCKSKKHSKERCPSI 83 (124)
T ss_dssp CSSSSSCSSCCCTTTCCCS
T ss_pred ccCCCCCcCCcchhhCCCc
Confidence 3455555555555555543
No 27
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=79.82 E-value=0.48 Score=29.19 Aligned_cols=20 Identities=30% Similarity=0.808 Sum_probs=17.3
Q ss_pred CcccccCCCCccCCCCCCCC
Q 035848 9 TGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 9 ~~Cy~CG~~GHwardCp~~~ 28 (244)
--|-.|.-=|||+.+|+..+
T Consensus 4 pYCe~CE~FGH~t~~C~d~e 23 (26)
T 2hqh_E 4 PYCEICEMFGHWATNCNDDE 23 (26)
T ss_dssp CEETTTTEESSCGGGCCTTC
T ss_pred ccchHHHHhCcccccCCccc
Confidence 46999999999999997654
No 28
>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=70.72 E-value=1.1 Score=30.31 Aligned_cols=23 Identities=26% Similarity=0.690 Sum_probs=17.7
Q ss_pred CCCCcccccCCCCccCCCCCCCC
Q 035848 6 AAPTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 6 ~~~~~Cy~CG~~GHwardCp~~~ 28 (244)
.....|-.|.-=|||+.+|+..+
T Consensus 18 ~eRpYCd~CEvFGH~t~~Cndde 40 (42)
T 2pzo_E 18 EERPYCEICEMFGHWATNCNDDE 40 (42)
T ss_dssp ---CEETTTTEESSCGGGCCTTC
T ss_pred cCCcccccccccCcccccCCccc
Confidence 34467999999999999997654
No 29
>2i2o_A EIF4G-like protein; protein structure initiative, PSI, cente eukaryotic structural genomics, CESG, structural genomics, function; HET: MSE; 1.92A {Danio rerio}
Probab=56.20 E-value=8.7 Score=32.93 Aligned_cols=30 Identities=17% Similarity=0.217 Sum_probs=25.6
Q ss_pred hhHHHHHHHHHhhhcchhHHHHHHHHHHHH
Q 035848 211 DFNDLFNKVYRTATEVSIFSNLILRLFLFI 240 (244)
Q Consensus 211 ~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (244)
+++.+.+-||+||++||-|+.+..+|.--|
T Consensus 35 ~l~~vi~lIfeKAi~ep~fs~~YA~LC~~L 64 (224)
T 2i2o_A 35 DLEKVSSVIVDQSLKDQVFSREAGRICYTI 64 (224)
T ss_dssp CHHHHHHHHHHHHTTCHHHHHHTHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCcchHHHHHHHHHHH
Confidence 368999999999999999999988876543
No 30
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Probab=48.87 E-value=5.7 Score=28.17 Aligned_cols=10 Identities=50% Similarity=1.617 Sum_probs=6.7
Q ss_pred CCcccccCCC
Q 035848 8 PTGCFKCGRP 17 (244)
Q Consensus 8 ~~~Cy~CG~~ 17 (244)
|..||+||+.
T Consensus 3 PVRCFTCGkv 12 (55)
T 1ef4_A 3 PVRCLSCGKP 12 (55)
T ss_dssp SSSCSCTTSC
T ss_pred CeecCCCCCC
Confidence 4567777764
No 31
>3rk6_A Polyadenylate-binding protein-interacting protein; heat fold, PABP, EIF4A, EIF3, translation regulator; 2.00A {Homo sapiens}
Probab=47.02 E-value=11 Score=32.44 Aligned_cols=31 Identities=29% Similarity=0.523 Sum_probs=26.8
Q ss_pred ChhHHHHHHHHHhhhcchhHHHHHHHHHHHH
Q 035848 210 DDFNDLFNKVYRTATEVSIFSNLILRLFLFI 240 (244)
Q Consensus 210 ~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (244)
+.+..+..-||++|+.||.|+....+|.-.|
T Consensus 56 ~~L~~vi~lIfekAi~ep~fs~~YA~LC~~l 86 (234)
T 3rk6_A 56 DALQELVELIYQQATSIPNFSYMGARLCNYL 86 (234)
T ss_dssp HHHHHHHHHHHHHHHSSTTCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence 4458999999999999999999998887655
No 32
>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=43.11 E-value=7.3 Score=28.82 Aligned_cols=10 Identities=50% Similarity=1.471 Sum_probs=7.0
Q ss_pred CCcccccCCC
Q 035848 8 PTGCFKCGRP 17 (244)
Q Consensus 8 ~~~Cy~CG~~ 17 (244)
|..||+||+.
T Consensus 4 PVRCFTCGkv 13 (70)
T 1twf_J 4 PVRCFSCGKV 13 (70)
T ss_dssp CSBCTTTCCB
T ss_pred CeecCCCCCC
Confidence 5677777774
No 33
>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=39.96 E-value=8.6 Score=28.15 Aligned_cols=9 Identities=56% Similarity=1.571 Sum_probs=4.5
Q ss_pred CCcccccCC
Q 035848 8 PTGCFKCGR 16 (244)
Q Consensus 8 ~~~Cy~CG~ 16 (244)
|-.||+||+
T Consensus 4 PVRCFTCGk 12 (66)
T 4ayb_N 4 PIRCFTCGS 12 (66)
T ss_dssp CSBCTTTCC
T ss_pred CcccCCCcH
Confidence 344555554
No 34
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=38.03 E-value=8.7 Score=25.95 Aligned_cols=21 Identities=29% Similarity=0.755 Sum_probs=18.3
Q ss_pred CCcccccCCCCccCCCCCCCC
Q 035848 8 PTGCFKCGRPGHWSRDCPSSS 28 (244)
Q Consensus 8 ~~~Cy~CG~~GHwardCp~~~ 28 (244)
.-.|-.|--=|||..+|+..+
T Consensus 20 RpYCe~CEVFGH~t~eC~dde 40 (42)
T 3e2u_E 20 RPYCEICEMFGHWATNCNDDE 40 (42)
T ss_dssp CCEETTTTEESSCGGGCCTTC
T ss_pred CcccccceecccccccCCccc
Confidence 457999999999999998764
No 35
>2vso_E Eukaryotic initiation factor 4F subunit P150; acetylation, ATP-binding, phosphoprotein, protein biosynthesis, translation regulation; HET: AMP; 2.6A {Saccharomyces cerevisiae} PDB: 2vsx_E*
Probab=36.64 E-value=29 Score=30.24 Aligned_cols=31 Identities=10% Similarity=0.271 Sum_probs=25.7
Q ss_pred ChhHHHHHHHHHhhhcchhHHHHHHHHHHHH
Q 035848 210 DDFNDLFNKVYRTATEVSIFSNLILRLFLFI 240 (244)
Q Consensus 210 ~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (244)
+.+..+++-||++|+.||-|+.+..+|.--|
T Consensus 73 ~~l~~vi~~If~kA~~ep~fs~~YA~Lc~~l 103 (284)
T 2vso_E 73 ETLKAVIEQIFLKACDEPHWSSMYAQLCGKV 103 (284)
T ss_dssp HHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCcchHHHHHHHHHHH
Confidence 3447899999999999999999888876544
No 36
>3c1q_A General secretion pathway protein F; type 2 secretion system, T2SS, T4PB, inner membrane membrane, transmembrane, transport protein; HET: MSE PE5; 1.70A {Vibrio cholerae} PDB: 2vmb_A* 2vma_A*
Probab=32.77 E-value=1.1e+02 Score=22.53 Aligned_cols=52 Identities=12% Similarity=0.195 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHHHHhhcchHHHHHHHHHHHHhhcCCC
Q 035848 116 GHLIGLYSEWHSHLLPYYSFDHFVSKVEQVAASRRVKMCIRDLRDRVANGGD 167 (244)
Q Consensus 116 ~~LL~~YQ~WaH~LfPK~~F~Dfi~rVEkLG~kk~Vk~~lrelR~~~~~G~d 167 (244)
..+..+++.++.-|==..+..+.++.+.+.-....++..+.+++..+..|..
T Consensus 12 ~~~~~f~~~La~ll~sGv~l~~aL~~~~~~~~~~~l~~~l~~i~~~l~~G~s 63 (123)
T 3c1q_A 12 PDLALITRQLATLVQSGMPLEECLRAVAEQSEKPRIRTMLVAVRAKVTEGYT 63 (123)
T ss_dssp HHHHHHHHHHHHHHHTTCCHHHHHHHHHHTCSCHHHHHHHHHHHHHHHTTCC
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHcCCHHHHHHHHHHHHHHHCCCC
Confidence 3566777777777777889999999999998888999999999999999964
No 37
>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11
Probab=32.23 E-value=50 Score=23.70 Aligned_cols=14 Identities=14% Similarity=0.240 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHhh
Q 035848 150 RVKMCIRDLRDRVA 163 (244)
Q Consensus 150 ~Vk~~lrelR~~~~ 163 (244)
.|+.+|.++|..+.
T Consensus 48 ~VkSHLQKYR~~l~ 61 (64)
T 1irz_A 48 NVASHLQKFRVALK 61 (64)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 57778888887664
No 38
>1hu3_A EIF4GII; heat repeat, translation; 2.37A {Homo sapiens} SCOP: a.118.1.14
Probab=31.21 E-value=35 Score=29.33 Aligned_cols=30 Identities=13% Similarity=0.243 Sum_probs=25.6
Q ss_pred hhHHHHHHHHHhhhcchhHHHHHHHHHHHH
Q 035848 211 DFNDLFNKVYRTATEVSIFSNLILRLFLFI 240 (244)
Q Consensus 211 ~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (244)
.+..++.-||++|+.+|-|+.+..+|.-.|
T Consensus 44 ~l~~vi~~if~kA~~ep~f~~~YA~Lc~~L 73 (260)
T 1hu3_A 44 RLKGVIDLVFEKAIDEPSFSVAYANMCRCL 73 (260)
T ss_dssp HHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Confidence 457899999999999999999988876544
No 39
>1baj_A GAG polyprotein; capsid, HIV-1 assembly protein, viral protein; 2.60A {Human immunodeficiency virus 1} SCOP: a.28.3.1
Probab=29.52 E-value=53 Score=24.99 Aligned_cols=34 Identities=21% Similarity=0.216 Sum_probs=22.6
Q ss_pred HHHhccCCCCCHHHHHHHHH----HhhcchHHHHHHHH
Q 035848 124 EWHSHLLPYYSFDHFVSKVE----QVAASRRVKMCIRD 157 (244)
Q Consensus 124 ~WaH~LfPK~~F~Dfi~rVE----kLG~kk~Vk~~lre 157 (244)
.|.++==||-+|+||+.|+- .--.+..||.+|.+
T Consensus 6 ~~~ikQGpkepf~d~v~R~~k~l~~e~~~~~vK~~~~~ 43 (101)
T 1baj_A 6 ILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNWMTE 43 (101)
T ss_dssp GGGCCCCSSCCHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred hhhhhcCCCCcHHHHHHHHHHHHHHhhccHHHHHHHhh
Confidence 45555568899999987754 34455567776554
No 40
>3si5_X Protein CASC5; BUBR1-blinkin complex, mitotic checkpoint, BUBR1, blinkin/KN chromosome segregation, cell cycle; 2.20A {Homo sapiens}
Probab=28.24 E-value=26 Score=21.02 Aligned_cols=12 Identities=17% Similarity=0.645 Sum_probs=9.9
Q ss_pred CCCHHHHHHHHH
Q 035848 132 YYSFDHFVSKVE 143 (244)
Q Consensus 132 K~~F~Dfi~rVE 143 (244)
|..|.|||.|+.
T Consensus 10 KinfndFIKRLK 21 (24)
T 3si5_X 10 KIDFNDFIKRLK 21 (26)
T ss_pred hccHHHHHHHHh
Confidence 568999999874
No 41
>3g21_A GAG polyprotein, capsid protein; alpha-helical bundle, virion, viral protein, retrovirus; 0.90A {Rous sarcoma virus} PDB: 3g1i_A 3g28_A 3g29_A 3g26_A 3g0v_A
Probab=25.96 E-value=68 Score=24.04 Aligned_cols=27 Identities=15% Similarity=0.185 Sum_probs=20.4
Q ss_pred CCCCHHHHHHHHHHh----hcchHHHHHHHH
Q 035848 131 PYYSFDHFVSKVEQV----AASRRVKMCIRD 157 (244)
Q Consensus 131 PK~~F~Dfi~rVEkL----G~kk~Vk~~lre 157 (244)
||=+|.||+.|+.+. .....|+.+|.+
T Consensus 11 PkEPF~dfVdRl~kal~~e~~~~~vk~~m~~ 41 (77)
T 3g21_A 11 PSESFVDFANRLIKAVEGSDLPPSARAPVII 41 (77)
T ss_dssp TTCCHHHHHHHHHHHHHTSSSCHHHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHhhChHHHHHHHHH
Confidence 888999999999874 345577777643
No 42
>1pul_A Hypothetical protein C32E8.3 in chromosome I; alpha helical, northeast structural genomics consortium, PSI, protein structure initiative; NMR {Caenorhabditis elegans} SCOP: a.39.1.11
Probab=25.35 E-value=65 Score=25.90 Aligned_cols=59 Identities=14% Similarity=0.128 Sum_probs=39.5
Q ss_pred CCCchHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhhcch------HHHHHHHHHHHHhhcCCCCC
Q 035848 107 GRGHEVSDLGHLIGLYSEWHSHLLPYYSFDHFVSKVEQVAASR------RVKMCIRDLRDRVANGGDPT 169 (244)
Q Consensus 107 GKGHE~~DL~~LL~~YQ~WaH~LfPK~~F~Dfi~rVEkLG~kk------~Vk~~lrelR~~~~~G~d~~ 169 (244)
||.=...|...+-..+ .. =-=+.+|++|..-|+.|..++ .++..+.++...+..++.|.
T Consensus 59 gk~iT~TdvDIiF~Kv---~k-~~r~I~f~qF~~aL~~lA~~k~~g~~~~~~e~l~~ik~kL~~~~gP~ 123 (125)
T 1pul_A 59 NKAITGTMTGIAFSKV---TG-PKKKATFDETKKVLAFVAEDRARQSKKPIQDELDAITEKLAKLEAPS 123 (125)
T ss_dssp SSSSCHHHHHHHHHHH---TC-SSSCCCHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHCC---
T ss_pred CCCCCccccceeehcc---cC-CcceecHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHhcCCCC
Confidence 5666677777766654 11 112379999999999999887 34556888877888776553
No 43
>1eoq_A GAG polyprotein capsid protein P27; virus/viral protein; NMR {Rous sarcoma virus - prague C} SCOP: a.28.3.1
Probab=24.63 E-value=66 Score=25.02 Aligned_cols=27 Identities=15% Similarity=0.185 Sum_probs=19.8
Q ss_pred CCCCHHHHHHHHHHh----hcchHHHHHHHH
Q 035848 131 PYYSFDHFVSKVEQV----AASRRVKMCIRD 157 (244)
Q Consensus 131 PK~~F~Dfi~rVEkL----G~kk~Vk~~lre 157 (244)
||=+|+||++|+-+. -....||.+|.+
T Consensus 7 PkEPFrDyVdRf~kalraeqa~~~vK~wmt~ 37 (96)
T 1eoq_A 7 PSESFVDFANRLIKAVEGSDLPPSARAPVII 37 (96)
T ss_dssp TTCCHHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHHHHhhccHhHhhhhHH
Confidence 888999999986543 234578887666
No 44
>2whn_A PILC, pilus assembly protein PILC; transport, transmembrane, pilus biogenesis, protein transpor; 2.05A {Thermus thermophilus}
Probab=24.61 E-value=97 Score=22.36 Aligned_cols=51 Identities=14% Similarity=0.183 Sum_probs=41.6
Q ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHHHhhcchHHHHHHHHHHHHhhcCCC
Q 035848 117 HLIGLYSEWHSHLLPYYSFDHFVSKVEQVAASRRVKMCIRDLRDRVANGGD 167 (244)
Q Consensus 117 ~LL~~YQ~WaH~LfPK~~F~Dfi~rVEkLG~kk~Vk~~lrelR~~~~~G~d 167 (244)
.+..+++.++.-|==..+..+.++.+.+.-....++..+.+++.++..|..
T Consensus 14 ~~~~f~~~La~ll~sGi~l~~aL~~~~~~~~~~~~~~~~~~i~~~l~~G~s 64 (116)
T 2whn_A 14 DLAIFSRQLATMLGAGLTLLQALAILERQTENRKFREILKQVRTDVEGGMA 64 (116)
T ss_dssp HHHHHHHHHHHHHHHTCCHHHHHHHHTTSCCSHHHHHHHHHHHHHHHTTCC
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHhCCHHHHHHHHHHHHHHHCCCc
Confidence 445566666666666789999999998888888899999999999999964
No 45
>2lk0_A RNA-binding protein 5; zinc finger; NMR {Homo sapiens} PDB: 2lk1_A*
Probab=20.44 E-value=38 Score=20.81 Aligned_cols=11 Identities=36% Similarity=1.038 Sum_probs=9.0
Q ss_pred CCCcccccCCC
Q 035848 7 APTGCFKCGRP 17 (244)
Q Consensus 7 ~~~~Cy~CG~~ 17 (244)
+.+.|++||.+
T Consensus 18 ~r~~C~~C~~p 28 (32)
T 2lk0_A 18 KRLKCFRCGAD 28 (32)
T ss_dssp TCCBCTTTCCB
T ss_pred hcceecCCCCc
Confidence 56789999976
Done!