Query 014770
Match_columns 419
No_of_seqs 131 out of 178
Neff 2.8
Searched_HMMs 29240
Date Mon Mar 25 17:31:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014770.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/014770hhsearch_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 97.3 6.5E-05 2.2E-09 49.7 1.6 22 320-341 6-27 (29)
2 1dsq_A Nucleic acid binding pr 97.2 0.00014 4.9E-09 47.1 2.0 21 321-341 3-23 (26)
3 1a6b_B Momulv, zinc finger pro 96.6 0.00094 3.2E-08 47.9 2.5 23 319-341 9-31 (40)
4 2ec7_A GAG polyprotein (PR55GA 96.2 0.0019 6.6E-08 46.7 2.2 21 320-340 6-26 (49)
5 2a51_A Nucleocapsid protein; s 96.1 0.0021 7.1E-08 44.5 1.9 19 322-340 2-20 (39)
6 1u6p_A GAG polyprotein; MLV, A 95.8 0.0033 1.1E-07 47.9 1.8 24 318-341 21-44 (56)
7 2ihx_A Nucleocapsid (NC) prote 95.7 0.0041 1.4E-07 46.8 1.9 21 321-341 5-25 (61)
8 2bl6_A Nucleocapsid protein P1 95.6 0.0049 1.7E-07 42.1 2.1 18 322-339 2-19 (37)
9 1a1t_A Nucleocapsid protein; s 95.6 0.0047 1.6E-07 45.2 1.9 21 320-340 12-32 (55)
10 2cqf_A RNA-binding protein LIN 95.2 0.0089 3.1E-07 45.3 2.5 21 320-340 7-27 (63)
11 1cl4_A Protein (GAG polyprotei 94.9 0.014 4.6E-07 43.4 2.5 22 320-341 30-51 (60)
12 2a51_A Nucleocapsid protein; s 94.8 0.014 4.6E-07 40.3 2.1 19 320-338 21-39 (39)
13 1cl4_A Protein (GAG polyprotei 94.6 0.0058 2E-07 45.4 0.0 22 321-342 2-23 (60)
14 2li8_A Protein LIN-28 homolog 94.5 0.017 5.9E-07 45.5 2.3 21 320-340 24-44 (74)
15 2ysa_A Retinoblastoma-binding 94.3 0.014 4.9E-07 44.2 1.5 21 320-340 7-27 (55)
16 3nyb_B Protein AIR2; polya RNA 94.3 0.014 4.9E-07 47.0 1.5 22 319-340 45-66 (83)
17 2ihx_A Nucleocapsid (NC) prote 94.2 0.015 5E-07 43.7 1.4 23 320-342 30-52 (61)
18 1a1t_A Nucleocapsid protein; s 94.1 0.017 5.9E-07 42.1 1.5 21 320-340 33-53 (55)
19 2ec7_A GAG polyprotein (PR55GA 93.6 0.029 9.8E-07 40.5 1.8 21 320-340 27-47 (49)
20 3ts2_A Protein LIN-28 homolog 93.5 0.024 8.1E-07 49.5 1.6 22 320-341 97-118 (148)
21 2cqf_A RNA-binding protein LIN 93.3 0.034 1.2E-06 42.1 1.9 21 320-340 29-49 (63)
22 2bl6_A Nucleocapsid protein P1 92.1 0.046 1.6E-06 37.3 1.1 18 321-338 20-37 (37)
23 2li8_A Protein LIN-28 homolog 90.9 0.085 2.9E-06 41.6 1.7 21 320-340 46-66 (74)
24 3ts2_A Protein LIN-28 homolog 90.6 0.084 2.9E-06 46.0 1.6 23 320-342 119-141 (148)
25 3nyb_B Protein AIR2; polya RNA 88.8 0.11 3.7E-06 41.9 0.7 21 319-339 4-24 (83)
26 2lli_A Protein AIR2; RNA surve 88.2 0.21 7.2E-06 41.4 2.1 18 322-339 24-42 (124)
27 2lli_A Protein AIR2; RNA surve 87.8 0.22 7.5E-06 41.2 2.0 21 319-339 104-124 (124)
28 2l66_A SSO7C4, transcriptional 27.9 32 0.0011 24.7 2.2 16 384-399 15-30 (53)
29 1yfb_A Transition state regula 27.9 28 0.00095 26.2 1.9 17 384-400 25-41 (59)
30 3a5y_A GENX, putative lysyl-tR 26.1 45 0.0015 32.4 3.5 27 388-414 287-313 (345)
31 1qbj_A Protein (double-strande 22.0 27 0.00093 27.4 0.9 33 379-411 21-55 (81)
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=97.33 E-value=6.5e-05 Score=49.69 Aligned_cols=22 Identities=45% Similarity=1.081 Sum_probs=19.8
Q ss_pred CCceecCCCCCCCCCCCCCccC
Q 014770 320 ASRCFNCGSYSHSLKECPKPRD 341 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (419)
...|||||..+|..++||.||-
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 4679999999999999999973
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=97.19 E-value=0.00014 Score=47.13 Aligned_cols=21 Identities=29% Similarity=0.854 Sum_probs=18.1
Q ss_pred CceecCCCCCCCCCCCCCccC
Q 014770 321 SRCFNCGSYSHSLKECPKPRD 341 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PRD 341 (419)
..|||||..+|..++||.|+.
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 579999999999999999864
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=96.63 E-value=0.00094 Score=47.88 Aligned_cols=23 Identities=35% Similarity=0.735 Sum_probs=20.9
Q ss_pred CCCceecCCCCCCCCCCCCCccC
Q 014770 319 DASRCFNCGSYSHSLKECPKPRD 341 (419)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~PRD 341 (419)
....|||||..+|-.+|||.++.
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 46899999999999999999874
No 4
>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=96.24 E-value=0.0019 Score=46.73 Aligned_cols=21 Identities=48% Similarity=1.137 Sum_probs=17.4
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...|||||..+|..++||.|+
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 467888888888888888874
No 5
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=96.13 E-value=0.0021 Score=44.48 Aligned_cols=19 Identities=47% Similarity=1.209 Sum_probs=17.0
Q ss_pred ceecCCCCCCCCCCCCCcc
Q 014770 322 RCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 322 rCFNCGs~eHsLrDCP~PR 340 (419)
.|||||..+|..++||.|+
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 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=95.79 E-value=0.0033 Score=47.91 Aligned_cols=24 Identities=33% Similarity=0.649 Sum_probs=21.2
Q ss_pred cCCCceecCCCCCCCCCCCCCccC
Q 014770 318 DDASRCFNCGSYSHSLKECPKPRD 341 (419)
Q Consensus 318 ~~~~rCFNCGs~eHsLrDCP~PRD 341 (419)
.....|||||..+|--+|||.+..
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 446899999999999999999864
No 7
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=95.66 E-value=0.0041 Score=46.77 Aligned_cols=21 Identities=43% Similarity=1.009 Sum_probs=13.7
Q ss_pred CceecCCCCCCCCCCCCCccC
Q 014770 321 SRCFNCGSYSHSLKECPKPRD 341 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PRD 341 (419)
..||||+.++|..++||.+++
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~~~ 25 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKKRK 25 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTTTS
T ss_pred CcccccCCCCeehhhCcCCcC
Confidence 456666666666666666653
No 8
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=95.65 E-value=0.0049 Score=42.15 Aligned_cols=18 Identities=39% Similarity=1.056 Sum_probs=14.4
Q ss_pred ceecCCCCCCCCCCCCCc
Q 014770 322 RCFNCGSYSHSLKECPKP 339 (419)
Q Consensus 322 rCFNCGs~eHsLrDCP~P 339 (419)
.|||||..+|..++||.|
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 588888888888888876
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=95.59 E-value=0.0047 Score=45.19 Aligned_cols=21 Identities=48% Similarity=1.111 Sum_probs=16.1
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...|||||..+|..++||.|+
T Consensus 12 ~~~C~~Cg~~GH~a~~C~~~~ 32 (55)
T 1a1t_A 12 TVKCFNCGKEGHIAKNCRAPR 32 (55)
T ss_dssp TCBCTTTCCBSSCGGGCSSCS
T ss_pred CcceeeeCCCCcChhhcCCCC
Confidence 467888888888888888773
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=95.25 E-value=0.0089 Score=45.35 Aligned_cols=21 Identities=48% Similarity=1.141 Sum_probs=14.8
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...||||+..+|..++||.|.
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~ 27 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPP 27 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCC
T ss_pred CCcccccCCCCcChhhCCCCC
Confidence 356777777777777777653
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=94.86 E-value=0.014 Score=43.40 Aligned_cols=22 Identities=27% Similarity=0.510 Sum_probs=19.9
Q ss_pred CCceecCCCCCCCCCCCCCccC
Q 014770 320 ASRCFNCGSYSHSLKECPKPRD 341 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (419)
...||+||..+|..+|||.+++
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=94.76 E-value=0.014 Score=40.34 Aligned_cols=19 Identities=47% Similarity=1.186 Sum_probs=17.4
Q ss_pred CCceecCCCCCCCCCCCCC
Q 014770 320 ASRCFNCGSYSHSLKECPK 338 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~ 338 (419)
...|||||..+|..++||+
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
>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=94.63 E-value=0.0058 Score=45.41 Aligned_cols=22 Identities=32% Similarity=0.806 Sum_probs=0.0
Q ss_pred CceecCCCCCCCCCCCCCccCH
Q 014770 321 SRCFNCGSYSHSLKECPKPRDK 342 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PRD~ 342 (419)
..||||+..+|..++||.+++.
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 4699999999999999998754
No 14
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=94.46 E-value=0.017 Score=45.51 Aligned_cols=21 Identities=48% Similarity=1.141 Sum_probs=17.4
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...|||||..+|..++||.++
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 467999999999999998764
No 15
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=94.33 E-value=0.014 Score=44.24 Aligned_cols=21 Identities=38% Similarity=0.967 Sum_probs=18.2
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...||.||..+|.+++||..+
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~~ 27 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTNG 27 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGGG
T ss_pred CCccccCCCcCcccccCCCCC
Confidence 467999999999999999544
No 16
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=94.29 E-value=0.014 Score=47.03 Aligned_cols=22 Identities=32% Similarity=0.800 Sum_probs=20.2
Q ss_pred CCCceecCCCCCCCCCCCCCcc
Q 014770 319 DASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~PR 340 (419)
....|+|||..+|.-+|||++|
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 3578999999999999999988
No 17
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=94.21 E-value=0.015 Score=43.72 Aligned_cols=23 Identities=30% Similarity=0.679 Sum_probs=19.3
Q ss_pred CCceecCCCCCCCCCCCCCccCH
Q 014770 320 ASRCFNCGSYSHSLKECPKPRDK 342 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD~ 342 (419)
...||||+..+|..++||.++..
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 36799999999999999998753
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=94.08 E-value=0.017 Score=42.15 Aligned_cols=21 Identities=29% Similarity=0.933 Sum_probs=19.0
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...||+||..+|..++||.++
T Consensus 33 ~~~C~~Cg~~GH~~~~C~~~~ 53 (55)
T 1a1t_A 33 KKGCWKCGKEGHQMKDCTERQ 53 (55)
T ss_dssp CCBCTTTCCBSSCGGGCSSSC
T ss_pred CCEeCCCCCcCCccCCCcCcC
Confidence 468999999999999999875
No 19
>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=93.56 E-value=0.029 Score=40.54 Aligned_cols=21 Identities=29% Similarity=0.963 Sum_probs=18.6
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...||+||..+|..++||...
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 357999999999999999864
No 20
>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=93.50 E-value=0.024 Score=49.45 Aligned_cols=22 Identities=45% Similarity=1.103 Sum_probs=18.5
Q ss_pred CCceecCCCCCCCCCCCCCccC
Q 014770 320 ASRCFNCGSYSHSLKECPKPRD 341 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (419)
..+|||||..+|..++||.|..
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 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=93.27 E-value=0.034 Score=42.12 Aligned_cols=21 Identities=33% Similarity=0.755 Sum_probs=19.0
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...||||+..+|..++||..+
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 578999999999999999865
No 22
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=92.08 E-value=0.046 Score=37.26 Aligned_cols=18 Identities=33% Similarity=0.778 Sum_probs=16.7
Q ss_pred CceecCCCCCCCCCCCCC
Q 014770 321 SRCFNCGSYSHSLKECPK 338 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~ 338 (419)
..||+||..+|..++||.
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
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=90.94 E-value=0.085 Score=41.55 Aligned_cols=21 Identities=33% Similarity=0.755 Sum_probs=18.8
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
...||+||..+|..++||...
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 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=90.64 E-value=0.084 Score=46.01 Aligned_cols=23 Identities=26% Similarity=0.706 Sum_probs=19.3
Q ss_pred CCceecCCCCCCCCCCCCCccCH
Q 014770 320 ASRCFNCGSYSHSLKECPKPRDK 342 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD~ 342 (419)
...||+||..+|..++||...-.
T Consensus 119 ~~~C~~Cg~~GH~~r~Cp~~~~~ 141 (148)
T 3ts2_A 119 PKKCHFCQSINHMVASCPLKAQQ 141 (148)
T ss_dssp CCCCTTTCCSSCCGGGCTTTTC-
T ss_pred CCcccccCCcCCEeccCcCCCCC
Confidence 46899999999999999976544
No 25
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=88.82 E-value=0.11 Score=41.92 Aligned_cols=21 Identities=33% Similarity=0.664 Sum_probs=17.2
Q ss_pred CCCceecCCCCCCCCCCCCCc
Q 014770 319 DASRCFNCGSYSHSLKECPKP 339 (419)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~P 339 (419)
+...||||++.+|.-++||.+
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=88.18 E-value=0.21 Score=41.37 Aligned_cols=18 Identities=39% Similarity=0.933 Sum_probs=9.9
Q ss_pred ceecCCCC-CCCCCCCCCc
Q 014770 322 RCFNCGSY-SHSLKECPKP 339 (419)
Q Consensus 322 rCFNCGs~-eHsLrDCP~P 339 (419)
.|||||.. +|..++||.+
T Consensus 24 ~C~~Cg~~~gH~~~~C~~~ 42 (124)
T 2lli_A 24 ICSYCGATDDHYSRHCPKA 42 (124)
T ss_dssp CCTTTCCTTTCCTTTGGGS
T ss_pred cCcCCCCcCCccCcccCCc
Confidence 55555555 5555555543
No 27
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=87.80 E-value=0.22 Score=41.24 Aligned_cols=21 Identities=29% Similarity=0.763 Sum_probs=18.7
Q ss_pred CCCceecCCCCCCCCCCCCCc
Q 014770 319 DASRCFNCGSYSHSLKECPKP 339 (419)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~P 339 (419)
....|||||+.+|..+|||+.
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 28
>2l66_A SSO7C4, transcriptional regulator, ABRB family; DNA binding protein, transcription regulator; NMR {Sulfolobus solfataricus}
Probab=27.89 E-value=32 Score=24.74 Aligned_cols=16 Identities=31% Similarity=0.380 Sum_probs=14.1
Q ss_pred CCCHHHHHHhCCCCCC
Q 014770 384 ALDAETRQLLGLGELD 399 (419)
Q Consensus 384 ~LS~eLReALGi~~~~ 399 (419)
+|..++|++|||.+++
T Consensus 15 ~IPk~ir~~lgi~~Gd 30 (53)
T 2l66_A 15 TIPAKVRQKFQIKEGD 30 (53)
T ss_dssp CCCHHHHHHSCCCTTC
T ss_pred EeCHHHHHHcCcCCCC
Confidence 5789999999999876
No 29
>1yfb_A Transition state regulatory protein ABRB; , homodimer, bioinformatics, swapped-hairpin barrel, transcription; NMR {Bacillus subtilis} SCOP: b.129.1.3 PDB: 1ysf_A 2k1n_A* 1z0r_A 2ro4_A 2fy9_A 2ro3_A
Probab=27.88 E-value=28 Score=26.22 Aligned_cols=17 Identities=35% Similarity=0.569 Sum_probs=14.8
Q ss_pred CCCHHHHHHhCCCCCCC
Q 014770 384 ALDAETRQLLGLGELDP 400 (419)
Q Consensus 384 ~LS~eLReALGi~~~~~ 400 (419)
+|..++|++|||.+++.
T Consensus 25 tIPkeiR~~Lgi~~Gd~ 41 (59)
T 1yfb_A 25 VIPIELRRTLGIAEKDA 41 (59)
T ss_dssp ECCHHHHHHTTCCTTCE
T ss_pred EeCHHHHHHcCCCCCCE
Confidence 57899999999999863
No 30
>3a5y_A GENX, putative lysyl-tRNA synthetase; aminoacyl-tRNA synthetase paralog, translation, lysyl- synthetase, lysyladenylate analog; HET: KAA; 1.90A {Escherichia coli} PDB: 3a5z_A* 3g1z_A*
Probab=26.11 E-value=45 Score=32.42 Aligned_cols=27 Identities=22% Similarity=0.227 Sum_probs=22.8
Q ss_pred HHHHHhCCCCCCCcHHHHHhhhcCCCC
Q 014770 388 ETRQLLGLGELDPPPWLHRMRELGYPP 414 (419)
Q Consensus 388 eLReALGi~~~~~PPWL~rMr~lGYPP 414 (419)
+.|+++|+.......|+..++++|.||
T Consensus 287 ~~~~~~g~~~~~~d~~yl~al~yG~PP 313 (345)
T 3a5y_A 287 RKRAARGLPQHPIDQNLIEALKVGMPD 313 (345)
T ss_dssp HHHHHTTCCCCCCCHHHHHHHHHCCCS
T ss_pred HHHHhcCCChhhHHHHHHHHHhcCCCC
Confidence 456778888877778999999999998
No 31
>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A
Probab=22.03 E-value=27 Score=27.41 Aligned_cols=33 Identities=18% Similarity=0.163 Sum_probs=26.5
Q ss_pred CCCCCC-CC-HHHHHHhCCCCCCCcHHHHHhhhcC
Q 014770 379 GLRPGA-LD-AETRQLLGLGELDPPPWLHRMRELG 411 (419)
Q Consensus 379 ~fkPG~-LS-~eLReALGi~~~~~PPWL~rMr~lG 411 (419)
+..||+ ++ .+|-++||++....--.|++|++-|
T Consensus 21 ~~~pg~~~t~~eLA~~Lgvsr~tV~~~L~~Le~~G 55 (81)
T 1qbj_A 21 ELGEGKATTAHDLSGKLGTPKKEINRVLYSLAKKG 55 (81)
T ss_dssp HHCTTCCBCHHHHHHHHTCCHHHHHHHHHHHHHTT
T ss_pred HcCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence 334555 56 6799999999998899999998865
Done!