Query 015904
Match_columns 398
No_of_seqs 79 out of 81
Neff 3.0
Searched_HMMs 29240
Date Mon Mar 25 04:32:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015904.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/015904hhsearch_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 97.5 3.6E-05 1.2E-09 50.7 1.9 22 320-341 6-27 (29)
2 1dsq_A Nucleic acid binding pr 97.4 6.7E-05 2.3E-09 48.4 2.1 21 321-341 3-23 (26)
3 1a6b_B Momulv, zinc finger pro 96.9 0.00043 1.5E-08 49.4 2.6 23 319-341 9-31 (40)
4 2a51_A Nucleocapsid protein; s 96.5 0.00095 3.2E-08 46.0 2.0 19 322-340 2-20 (39)
5 2ec7_A GAG polyprotein (PR55GA 96.5 0.0011 3.9E-08 47.7 2.5 21 320-340 6-26 (49)
6 1u6p_A GAG polyprotein; MLV, A 96.3 0.0013 4.6E-08 49.8 1.9 25 317-341 20-44 (56)
7 2bl6_A Nucleocapsid protein P1 96.1 0.0025 8.6E-08 43.4 2.0 18 322-339 2-19 (37)
8 2ihx_A Nucleocapsid (NC) prote 96.0 0.0024 8.1E-08 47.9 1.9 19 322-340 6-24 (61)
9 1a1t_A Nucleocapsid protein; s 95.9 0.0033 1.1E-07 45.8 2.0 20 320-339 12-31 (55)
10 2cqf_A RNA-binding protein LIN 95.7 0.005 1.7E-07 46.6 2.6 19 321-339 8-26 (63)
11 1cl4_A Protein (GAG polyprotei 95.4 0.0077 2.6E-07 44.5 2.5 22 320-341 30-51 (60)
12 2a51_A Nucleocapsid protein; s 95.3 0.0085 2.9E-07 41.2 2.2 19 320-338 21-39 (39)
13 3nyb_B Protein AIR2; polya RNA 95.1 0.0069 2.4E-07 48.7 1.7 22 319-340 45-66 (83)
14 2li8_A Protein LIN-28 homolog 95.1 0.01 3.5E-07 46.6 2.5 21 320-340 24-44 (74)
15 2ihx_A Nucleocapsid (NC) prote 95.0 0.0077 2.6E-07 45.1 1.6 23 320-342 30-52 (61)
16 1cl4_A Protein (GAG polyprotei 95.0 0.004 1.4E-07 46.1 0.0 22 321-342 2-23 (60)
17 2ysa_A Retinoblastoma-binding 94.9 0.0086 3E-07 45.2 1.6 20 320-339 7-26 (55)
18 1a1t_A Nucleocapsid protein; s 94.8 0.01 3.5E-07 43.2 1.7 22 320-341 33-54 (55)
19 3ts2_A Protein LIN-28 homolog 94.5 0.013 4.3E-07 51.0 1.8 22 320-341 97-118 (148)
20 2ec7_A GAG polyprotein (PR55GA 94.2 0.017 5.9E-07 41.5 1.7 21 320-340 27-47 (49)
21 2cqf_A RNA-binding protein LIN 94.1 0.02 7E-07 43.2 1.9 21 320-340 29-49 (63)
22 2bl6_A Nucleocapsid protein P1 93.4 0.028 9.5E-07 38.2 1.4 18 321-338 20-37 (37)
23 3ts2_A Protein LIN-28 homolog 92.8 0.039 1.3E-06 47.9 1.9 24 320-343 119-142 (148)
24 2li8_A Protein LIN-28 homolog 92.2 0.052 1.8E-06 42.6 1.7 21 320-340 46-66 (74)
25 3nyb_B Protein AIR2; polya RNA 90.8 0.061 2.1E-06 43.2 0.8 21 319-339 4-24 (83)
26 2lli_A Protein AIR2; RNA surve 90.3 0.13 4.3E-06 42.6 2.3 21 319-339 104-124 (124)
27 2lli_A Protein AIR2; RNA surve 89.6 0.15 5E-06 42.2 2.2 19 321-339 23-42 (124)
28 2esh_A Conserved hypothetical 23.0 83 0.0028 25.1 4.0 27 206-233 77-103 (118)
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=97.50 E-value=3.6e-05 Score=50.68 Aligned_cols=22 Identities=45% Similarity=1.081 Sum_probs=19.7
Q ss_pred CCccccCCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (398)
...|||||.+.|..++||.||-
T Consensus 6 ~~~C~nCgk~GH~ar~C~~prk 27 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAPRR 27 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSSSS
T ss_pred CCEEEECCccccCHhHCccccc
Confidence 3679999999999999999973
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=97.39 E-value=6.7e-05 Score=48.42 Aligned_cols=21 Identities=29% Similarity=0.854 Sum_probs=18.1
Q ss_pred CccccCCCCCCCCCCCCCCCC
Q 015904 321 SRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PRD 341 (398)
..|||||..+|..+|||.|+.
T Consensus 3 ~~Cf~CG~~GH~ardC~~~~~ 23 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEEXX 23 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC--
T ss_pred CeeEeCCCCCcccccCCCccc
Confidence 579999999999999999875
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=96.92 E-value=0.00043 Score=49.37 Aligned_cols=23 Identities=35% Similarity=0.735 Sum_probs=21.0
Q ss_pred CCCccccCCCCCCCCCCCCCCCC
Q 015904 319 DASRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~PRD 341 (398)
....|||||..+|-.+|||+++.
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~~~ 31 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKKPR 31 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSSCC
T ss_pred CCCeeeECCCCCcchhhCcCCcc
Confidence 46899999999999999999974
No 4
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=96.54 E-value=0.00095 Score=46.00 Aligned_cols=19 Identities=47% Similarity=1.209 Sum_probs=16.8
Q ss_pred ccccCCCCCCCCCCCCCCC
Q 015904 322 RCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 322 rCFNCGs~eHsLrDCP~PR 340 (398)
.|||||.++|..++||.|+
T Consensus 2 ~C~~Cg~~GH~a~~C~~~~ 20 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQPR 20 (39)
T ss_dssp BCTTTCCBSSCTTTCCSCC
T ss_pred eeeccCCCCcccccCCCCC
Confidence 6999999999999999884
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=96.53 E-value=0.0011 Score=47.73 Aligned_cols=21 Identities=48% Similarity=1.137 Sum_probs=15.9
Q ss_pred CCccccCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (398)
...|||||..+|..++||.|+
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~~ 26 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAPR 26 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCSS
T ss_pred cCeeeecCCCCcChhhCcCCC
Confidence 356888888888888888774
No 6
>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=96.33 E-value=0.0013 Score=49.78 Aligned_cols=25 Identities=32% Similarity=0.598 Sum_probs=21.6
Q ss_pred ccCCCccccCCCCCCCCCCCCCCCC
Q 015904 317 IDDASRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 317 ~~~~~rCFNCGs~eHsLrDCP~PRD 341 (398)
......|||||..+|--+|||+++.
T Consensus 20 ~~~~~~C~~Cge~GH~ardCp~~~~ 44 (56)
T 1u6p_A 20 QLDRDQCAYCKEKGHWAKDCPKKPR 44 (56)
T ss_dssp TCCTTBCSSSCCBSSCGGGCTTCCC
T ss_pred CCCCCcceeCCCCCcccccCcCCcc
Confidence 3446899999999999999999864
No 7
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=96.07 E-value=0.0025 Score=43.39 Aligned_cols=18 Identities=39% Similarity=1.056 Sum_probs=12.9
Q ss_pred ccccCCCCCCCCCCCCCC
Q 015904 322 RCFNCGSYSHSLKECPKP 339 (398)
Q Consensus 322 rCFNCGs~eHsLrDCP~P 339 (398)
.|||||..+|..++||.|
T Consensus 2 ~C~~Cg~~GH~~~~C~~~ 19 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAP 19 (37)
T ss_dssp CBSSSCCSSCCTTTSSCB
T ss_pred cccccCCCCcchhhCcCc
Confidence 477777777777777765
No 8
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=96.03 E-value=0.0024 Score=47.89 Aligned_cols=19 Identities=47% Similarity=1.099 Sum_probs=9.8
Q ss_pred ccccCCCCCCCCCCCCCCC
Q 015904 322 RCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 322 rCFNCGs~eHsLrDCP~PR 340 (398)
.|||||.+.|..++||.++
T Consensus 6 ~C~~Cg~~GH~a~~C~~~~ 24 (61)
T 2ihx_A 6 LCYTCGSPGHYQAQCPKKR 24 (61)
T ss_dssp BCSSSCCBTCCGGGCTTTT
T ss_pred cccccCCCCeehhhCcCCc
Confidence 4555555555555555543
No 9
>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=95.86 E-value=0.0033 Score=45.81 Aligned_cols=20 Identities=45% Similarity=1.089 Sum_probs=13.9
Q ss_pred CCccccCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKP 339 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~P 339 (398)
...|||||..+|..++||.|
T Consensus 12 ~~~C~~Cg~~GH~a~~C~~~ 31 (55)
T 1a1t_A 12 TVKCFNCGKEGHIAKNCRAP 31 (55)
T ss_dssp TCBCTTTCCBSSCGGGCSSC
T ss_pred CcceeeeCCCCcChhhcCCC
Confidence 35677777777777777766
No 10
>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=95.72 E-value=0.005 Score=46.55 Aligned_cols=19 Identities=53% Similarity=1.268 Sum_probs=11.3
Q ss_pred CccccCCCCCCCCCCCCCC
Q 015904 321 SRCFNCGSYSHSLKECPKP 339 (398)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~P 339 (398)
..|||||.+.|..++||.|
T Consensus 8 ~~C~~Cg~~GH~a~~C~~~ 26 (63)
T 2cqf_A 8 DRCYNCGGLDHHAKECKLP 26 (63)
T ss_dssp CCCSSSCCSSSCTTTCCSC
T ss_pred CcccccCCCCcChhhCCCC
Confidence 4466666666666666654
No 11
>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=95.40 E-value=0.0077 Score=44.54 Aligned_cols=22 Identities=27% Similarity=0.510 Sum_probs=19.9
Q ss_pred CCccccCCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (398)
...||+||...|..+|||.+++
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 30 PGLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp CCSCSSCSSCSSCSTTCCCTTS
T ss_pred CcceeECCCCCCccCcCCCccc
Confidence 4789999999999999999865
No 12
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=95.26 E-value=0.0085 Score=41.18 Aligned_cols=19 Identities=47% Similarity=1.186 Sum_probs=17.4
Q ss_pred CCccccCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPK 338 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~ 338 (398)
...|||||..+|..++||+
T Consensus 21 ~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 21 QEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp CSSCTTTCCSSSCTTTSCC
T ss_pred CCccccCCCCCCccCcCcC
Confidence 4689999999999999995
No 13
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=95.14 E-value=0.0069 Score=48.66 Aligned_cols=22 Identities=32% Similarity=0.800 Sum_probs=20.3
Q ss_pred CCCccccCCCCCCCCCCCCCCC
Q 015904 319 DASRCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~PR 340 (398)
....|+|||..+|.-+|||++|
T Consensus 45 ~~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 45 HTIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp CCCBCSSSSCBSSCGGGCSSCC
T ss_pred CCCeecccCCCCcCcccCCccc
Confidence 3578999999999999999998
No 14
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=95.08 E-value=0.01 Score=46.59 Aligned_cols=21 Identities=48% Similarity=1.141 Sum_probs=16.1
Q ss_pred CCccccCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (398)
...|||||.+.|..++||.++
T Consensus 24 ~~~C~~Cg~~GH~a~~C~~~~ 44 (74)
T 2li8_A 24 GDRCYNCGGLDHHAKECKLPP 44 (74)
T ss_dssp TSCCTTTCCSSSCTTTCSSCC
T ss_pred CCcccccCCcCcCcccCCCCC
Confidence 467888888888888888664
No 15
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=95.03 E-value=0.0077 Score=45.05 Aligned_cols=23 Identities=30% Similarity=0.679 Sum_probs=19.4
Q ss_pred CCccccCCCCCCCCCCCCCCCCH
Q 015904 320 ASRCFNCGSYSHSLKECPKPRDK 342 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD~ 342 (398)
...|||||...|..+|||.++..
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~~~~ 52 (61)
T 2ihx_A 30 RERCQLCNGMGHNAKQCRKRDGN 52 (61)
T ss_dssp CSBCTTTCCBSSCGGGCCCCC--
T ss_pred CCeeCCCCCCCCCcCCCcCCCcC
Confidence 36799999999999999998754
No 16
>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=95.02 E-value=0.004 Score=46.08 Aligned_cols=22 Identities=32% Similarity=0.806 Sum_probs=0.0
Q ss_pred CccccCCCCCCCCCCCCCCCCH
Q 015904 321 SRCFNCGSYSHSLKECPKPRDK 342 (398)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PRD~ 342 (398)
..|||||.+.|..++||.+++.
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~ 23 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHN 23 (60)
T ss_dssp ----------------------
T ss_pred CccccCCCCCcCHhhCcCCCCC
Confidence 3699999999999999998753
No 17
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=94.92 E-value=0.0086 Score=45.20 Aligned_cols=20 Identities=40% Similarity=1.032 Sum_probs=17.7
Q ss_pred CCccccCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKP 339 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~P 339 (398)
...||.||.++|.+++||..
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGG
T ss_pred CCccccCCCcCcccccCCCC
Confidence 46799999999999999953
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=94.84 E-value=0.01 Score=43.21 Aligned_cols=22 Identities=27% Similarity=0.886 Sum_probs=19.5
Q ss_pred CCccccCCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (398)
...||+||..+|..++||.++.
T Consensus 33 ~~~C~~Cg~~GH~~~~C~~~~~ 54 (55)
T 1a1t_A 33 KKGCWKCGKEGHQMKDCTERQA 54 (55)
T ss_dssp CCBCTTTCCBSSCGGGCSSSCC
T ss_pred CCEeCCCCCcCCccCCCcCcCC
Confidence 4689999999999999998763
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=94.49 E-value=0.013 Score=50.99 Aligned_cols=22 Identities=45% Similarity=1.103 Sum_probs=18.2
Q ss_pred CCccccCCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (398)
..+|||||.+.|..++||.|..
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~ 118 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQ 118 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCC
T ss_pred CCcccEeCCccchhhhCCCCCC
Confidence 4679999999999999998654
No 20
>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=94.22 E-value=0.017 Score=41.51 Aligned_cols=21 Identities=29% Similarity=0.963 Sum_probs=18.7
Q ss_pred CCccccCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (398)
...||+||..+|..++||...
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 367999999999999999864
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=94.05 E-value=0.02 Score=43.17 Aligned_cols=21 Identities=33% Similarity=0.755 Sum_probs=19.1
Q ss_pred CCccccCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (398)
...|||||...|..+|||.++
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
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=93.37 E-value=0.028 Score=38.18 Aligned_cols=18 Identities=33% Similarity=0.778 Sum_probs=16.7
Q ss_pred CccccCCCCCCCCCCCCC
Q 015904 321 SRCFNCGSYSHSLKECPK 338 (398)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~ 338 (398)
..||+||..+|..++||.
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 689999999999999984
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=92.79 E-value=0.039 Score=47.90 Aligned_cols=24 Identities=25% Similarity=0.678 Sum_probs=19.4
Q ss_pred CCccccCCCCCCCCCCCCCCCCHH
Q 015904 320 ASRCFNCGSYSHSLKECPKPRDKD 343 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD~a 343 (398)
...||+||...|..++||...-.+
T Consensus 119 ~~~C~~Cg~~GH~~r~Cp~~~~~~ 142 (148)
T 3ts2_A 119 PKKCHFCQSINHMVASCPLKAQQG 142 (148)
T ss_dssp CCCCTTTCCSSCCGGGCTTTTC--
T ss_pred CCcccccCCcCCEeccCcCCCCCC
Confidence 468999999999999999765443
No 24
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=92.24 E-value=0.052 Score=42.58 Aligned_cols=21 Identities=33% Similarity=0.755 Sum_probs=18.8
Q ss_pred CCccccCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (398)
...||+||...|..++||...
T Consensus 46 ~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 46 PKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp CCCCTTTCCTTSCGGGCTTGG
T ss_pred CCccCCcCCcCCccCcCcCCc
Confidence 478999999999999999764
No 25
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=90.78 E-value=0.061 Score=43.15 Aligned_cols=21 Identities=33% Similarity=0.664 Sum_probs=17.1
Q ss_pred CCCccccCCCCCCCCCCCCCC
Q 015904 319 DASRCFNCGSYSHSLKECPKP 339 (398)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~P 339 (398)
+...|||||+.+|.-++||.+
T Consensus 4 k~~~C~~Cg~~GH~~~~Cp~~ 24 (83)
T 3nyb_B 4 KKVQCTLCKSKKHSKERCPSI 24 (83)
T ss_dssp ---CCSSSCCSSSCGGGCGGG
T ss_pred ccCCCCCCCCCCCccccCCCc
Confidence 357899999999999999986
No 26
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=90.33 E-value=0.13 Score=42.59 Aligned_cols=21 Identities=29% Similarity=0.763 Sum_probs=18.7
Q ss_pred CCCccccCCCCCCCCCCCCCC
Q 015904 319 DASRCFNCGSYSHSLKECPKP 339 (398)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~P 339 (398)
....|||||+.+|..+|||+.
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 357999999999999999973
No 27
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=89.62 E-value=0.15 Score=42.16 Aligned_cols=19 Identities=37% Similarity=0.852 Sum_probs=11.3
Q ss_pred CccccCCCC-CCCCCCCCCC
Q 015904 321 SRCFNCGSY-SHSLKECPKP 339 (398)
Q Consensus 321 ~rCFNCGs~-eHsLrDCP~P 339 (398)
..|||||.. +|..++||.+
T Consensus 23 ~~C~~Cg~~~gH~~~~C~~~ 42 (124)
T 2lli_A 23 IICSYCGATDDHYSRHCPKA 42 (124)
T ss_dssp CCCTTTCCTTTCCTTTGGGS
T ss_pred CcCcCCCCcCCccCcccCCc
Confidence 356666665 5666666553
No 28
>2esh_A Conserved hypothetical protein TM0937; APC5794, structural genomics, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: a.4.5.61
Probab=23.00 E-value=83 Score=25.07 Aligned_cols=27 Identities=26% Similarity=0.430 Sum_probs=22.9
Q ss_pred EEEecccChHHHHHHHHHHHHHHHHHHh
Q 015904 206 HVIYNSLTRASKQKLEELLQQWSEWQAQ 233 (398)
Q Consensus 206 ~v~Y~~Ltr~Sk~KL~elLqqWsEWhA~ 233 (398)
+..| .||.+-+..|.+.+..|.+..+.
T Consensus 77 r~~Y-~LT~~G~~~l~~~~~~~~~~~~~ 103 (118)
T 2esh_A 77 RKIY-RITPQGKLYLREILRSLEDMKRR 103 (118)
T ss_dssp EEEE-EECHHHHHHHHHHHHHHHHHHHH
T ss_pred ceEE-EEChHHHHHHHHHHHHHHHHHHH
Confidence 4457 99999999999999999877654
Done!