Query 013677
Match_columns 438
No_of_seqs 183 out of 248
Neff 3.5
Searched_HMMs 29240
Date Mon Mar 25 15:02:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013677.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/013677hhsearch_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 6.3E-05 2.1E-09 50.2 1.5 22 146-167 6-27 (29)
2 1dsq_A Nucleic acid binding pr 97.2 0.00015 5E-09 47.4 1.9 21 147-167 3-23 (26)
3 1a6b_B Momulv, zinc finger pro 96.7 0.00076 2.6E-08 48.7 2.3 23 145-167 9-31 (40)
4 2a51_A Nucleocapsid protein; s 96.1 0.0021 7.3E-08 45.0 1.8 19 148-166 2-20 (39)
5 2ec7_A GAG polyprotein (PR55GA 96.0 0.0029 9.8E-08 46.4 2.1 21 146-166 6-26 (49)
6 1u6p_A GAG polyprotein; MLV, A 95.8 0.003 1E-07 48.5 1.7 24 144-167 21-44 (56)
7 2bl6_A Nucleocapsid protein P1 95.6 0.0051 1.7E-07 42.6 2.0 18 148-165 2-19 (37)
8 2ihx_A Nucleocapsid (NC) prote 95.4 0.0053 1.8E-07 46.8 1.7 18 148-165 6-23 (61)
9 1a1t_A Nucleocapsid protein; s 95.2 0.0072 2.5E-07 44.8 1.8 19 147-165 13-31 (55)
10 2cqf_A RNA-binding protein LIN 95.0 0.012 4E-07 45.3 2.5 19 147-165 8-26 (63)
11 2ysa_A Retinoblastoma-binding 94.7 0.0082 2.8E-07 45.9 1.0 19 146-164 7-25 (55)
12 2a51_A Nucleocapsid protein; s 94.6 0.015 5E-07 40.7 2.0 19 146-164 21-39 (39)
13 1cl4_A Protein (GAG polyprotei 94.6 0.017 5.7E-07 43.6 2.5 22 146-167 30-51 (60)
14 1cl4_A Protein (GAG polyprotei 94.2 0.0084 2.9E-07 45.2 0.0 21 147-167 2-22 (60)
15 2ihx_A Nucleocapsid (NC) prote 94.2 0.015 5E-07 44.3 1.3 23 146-168 30-52 (61)
16 2li8_A Protein LIN-28 homolog 94.1 0.021 7.3E-07 45.5 2.2 20 146-165 24-43 (74)
17 3nyb_B Protein AIR2; polya RNA 94.1 0.016 5.6E-07 47.2 1.6 22 145-166 45-66 (83)
18 1a1t_A Nucleocapsid protein; s 93.8 0.022 7.4E-07 42.2 1.5 21 146-166 33-53 (55)
19 2ec7_A GAG polyprotein (PR55GA 93.2 0.031 1.1E-06 40.9 1.6 21 146-166 27-47 (49)
20 3ts2_A Protein LIN-28 homolog 93.0 0.031 1E-06 49.6 1.6 22 146-167 97-118 (148)
21 2cqf_A RNA-binding protein LIN 92.9 0.037 1.3E-06 42.5 1.7 21 146-166 29-49 (63)
22 2bl6_A Nucleocapsid protein P1 92.1 0.044 1.5E-06 37.8 1.1 18 147-164 20-37 (37)
23 2li8_A Protein LIN-28 homolog 90.9 0.077 2.6E-06 42.3 1.5 21 146-166 46-66 (74)
24 3ts2_A Protein LIN-28 homolog 90.4 0.095 3.2E-06 46.4 1.7 23 146-168 119-141 (148)
25 3nyb_B Protein AIR2; polya RNA 89.1 0.096 3.3E-06 42.7 0.7 21 145-165 4-24 (83)
26 2lli_A Protein AIR2; RNA surve 87.1 0.25 8.4E-06 41.7 2.0 20 145-164 104-123 (124)
27 2lli_A Protein AIR2; RNA surve 86.0 0.3 1E-05 41.2 1.9 18 147-164 5-22 (124)
28 1yfb_A Transition state regula 28.3 27 0.00094 26.5 2.0 16 210-225 25-40 (59)
29 2l66_A SSO7C4, transcriptional 27.5 32 0.0011 25.0 2.1 16 210-225 15-30 (53)
30 3a5y_A GENX, putative lysyl-tR 26.5 45 0.0015 32.9 3.7 26 215-240 288-313 (345)
31 2glw_A PHS018, 92AA long hypot 20.0 46 0.0016 27.2 2.0 17 210-226 63-79 (92)
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=6.3e-05 Score=50.19 Aligned_cols=22 Identities=45% Similarity=1.081 Sum_probs=19.7
Q ss_pred CCceeccCCCCCCCCCCCCccC
Q 013677 146 ASRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PRd 167 (438)
...|||||.++|..++||.|+-
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=97.18 E-value=0.00015 Score=47.43 Aligned_cols=21 Identities=29% Similarity=0.854 Sum_probs=18.0
Q ss_pred CceeccCCCCCCCCCCCCccC
Q 013677 147 SRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~PRd 167 (438)
..|||||..+|..++||.++.
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 579999999999999998864
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=96.68 E-value=0.00076 Score=48.67 Aligned_cols=23 Identities=35% Similarity=0.735 Sum_probs=20.6
Q ss_pred CCCceeccCCCCCCCCCCCCccC
Q 013677 145 DASRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP~PRd 167 (438)
....|||||..+|-.+|||.++.
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 46899999999999999998764
No 4
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=96.09 E-value=0.0021 Score=44.95 Aligned_cols=19 Identities=47% Similarity=1.209 Sum_probs=16.1
Q ss_pred ceeccCCCCCCCCCCCCcc
Q 013677 148 RCFNCGSYSHSLKECPKPR 166 (438)
Q Consensus 148 ~CFNCG~~~HsLrdCP~PR 166 (438)
.|||||..+|..++||.|+
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 6899998899999998774
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=95.98 E-value=0.0029 Score=46.41 Aligned_cols=21 Identities=48% Similarity=1.137 Sum_probs=15.0
Q ss_pred CCceeccCCCCCCCCCCCCcc
Q 013677 146 ASRCFNCGSYSHSLKECPKPR 166 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PR 166 (438)
...|||||..+|..++||.|+
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 356777777777777777664
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=95.83 E-value=0.003 Score=48.54 Aligned_cols=24 Identities=33% Similarity=0.649 Sum_probs=20.8
Q ss_pred cCCCceeccCCCCCCCCCCCCccC
Q 013677 144 DDASRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 144 ~~~~~CFNCG~~~HsLrdCP~PRd 167 (438)
.....|||||..+|-.+|||.+..
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 346899999999999999998764
No 7
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=95.58 E-value=0.0051 Score=42.56 Aligned_cols=18 Identities=39% Similarity=1.056 Sum_probs=12.2
Q ss_pred ceeccCCCCCCCCCCCCc
Q 013677 148 RCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 148 ~CFNCG~~~HsLrdCP~P 165 (438)
.|||||..+|..++||.|
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 477777777777777654
No 8
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=95.41 E-value=0.0053 Score=46.78 Aligned_cols=18 Identities=44% Similarity=1.073 Sum_probs=9.0
Q ss_pred ceeccCCCCCCCCCCCCc
Q 013677 148 RCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 148 ~CFNCG~~~HsLrdCP~P 165 (438)
.|||||...|..++||.+
T Consensus 6 ~C~~Cg~~GH~a~~C~~~ 23 (61)
T 2ihx_A 6 LCYTCGSPGHYQAQCPKK 23 (61)
T ss_dssp BCSSSCCBTCCGGGCTTT
T ss_pred cccccCCCCeehhhCcCC
Confidence 455555555555555544
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=95.18 E-value=0.0072 Score=44.84 Aligned_cols=19 Identities=47% Similarity=1.136 Sum_probs=12.9
Q ss_pred CceeccCCCCCCCCCCCCc
Q 013677 147 SRCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~P 165 (438)
..|||||..+|..++||.|
T Consensus 13 ~~C~~Cg~~GH~a~~C~~~ 31 (55)
T 1a1t_A 13 VKCFNCGKEGHIAKNCRAP 31 (55)
T ss_dssp CBCTTTCCBSSCGGGCSSC
T ss_pred cceeeeCCCCcChhhcCCC
Confidence 5577777767777777665
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=94.96 E-value=0.012 Score=45.30 Aligned_cols=19 Identities=53% Similarity=1.268 Sum_probs=10.5
Q ss_pred CceeccCCCCCCCCCCCCc
Q 013677 147 SRCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~P 165 (438)
..|||||..+|..++||.+
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 4455555555555555544
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=94.69 E-value=0.0082 Score=45.94 Aligned_cols=19 Identities=42% Similarity=1.102 Sum_probs=17.2
Q ss_pred CCceeccCCCCCCCCCCCC
Q 013677 146 ASRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~ 164 (438)
...||.||..+|.+++||.
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~ 25 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPT 25 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSG
T ss_pred CCccccCCCcCcccccCCC
Confidence 4689999999999999993
No 12
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=94.61 E-value=0.015 Score=40.67 Aligned_cols=19 Identities=47% Similarity=1.186 Sum_probs=17.4
Q ss_pred CCceeccCCCCCCCCCCCC
Q 013677 146 ASRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~ 164 (438)
...|||||..+|..++||+
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 4789999999999999995
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=94.60 E-value=0.017 Score=43.56 Aligned_cols=22 Identities=27% Similarity=0.510 Sum_probs=19.7
Q ss_pred CCceeccCCCCCCCCCCCCccC
Q 013677 146 ASRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PRd 167 (438)
...||+||..+|..+|||.+.+
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 4789999999999999998765
No 14
>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=94.18 E-value=0.0084 Score=45.22 Aligned_cols=21 Identities=33% Similarity=0.831 Sum_probs=0.0
Q ss_pred CceeccCCCCCCCCCCCCccC
Q 013677 147 SRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~PRd 167 (438)
..|||||..+|..++||.+.+
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~ 22 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAH 22 (60)
T ss_dssp ---------------------
T ss_pred CccccCCCCCcCHhhCcCCCC
Confidence 369999999999999997765
No 15
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=94.15 E-value=0.015 Score=44.33 Aligned_cols=23 Identities=30% Similarity=0.679 Sum_probs=19.1
Q ss_pred CCceeccCCCCCCCCCCCCccCH
Q 013677 146 ASRCFNCGSYSHSLKECPKPRDK 168 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PRd~ 168 (438)
...|||||...|..++||.++..
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 36799999999999999987653
No 16
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=94.10 E-value=0.021 Score=45.52 Aligned_cols=20 Identities=50% Similarity=1.213 Sum_probs=14.2
Q ss_pred CCceeccCCCCCCCCCCCCc
Q 013677 146 ASRCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~P 165 (438)
...|||||..+|..++||.+
T Consensus 24 ~~~C~~Cg~~GH~a~~C~~~ 43 (74)
T 2li8_A 24 GDRCYNCGGLDHHAKECKLP 43 (74)
T ss_dssp TSCCTTTCCSSSCTTTCSSC
T ss_pred CCcccccCCcCcCcccCCCC
Confidence 35677777777777777754
No 17
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=94.09 E-value=0.016 Score=47.23 Aligned_cols=22 Identities=32% Similarity=0.800 Sum_probs=20.1
Q ss_pred CCCceeccCCCCCCCCCCCCcc
Q 013677 145 DASRCFNCGSYSHSLKECPKPR 166 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP~PR 166 (438)
....|+|||..+|.-+|||++|
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 3578999999999999999887
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=93.77 E-value=0.022 Score=42.24 Aligned_cols=21 Identities=29% Similarity=0.933 Sum_probs=18.9
Q ss_pred CCceeccCCCCCCCCCCCCcc
Q 013677 146 ASRCFNCGSYSHSLKECPKPR 166 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PR 166 (438)
...||+||..+|..++||..+
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 468999999999999999765
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=93.22 E-value=0.031 Score=40.87 Aligned_cols=21 Identities=29% Similarity=0.963 Sum_probs=18.5
Q ss_pred CCceeccCCCCCCCCCCCCcc
Q 013677 146 ASRCFNCGSYSHSLKECPKPR 166 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PR 166 (438)
...||+||..+|..++||...
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 468999999999999999754
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=93.04 E-value=0.031 Score=49.57 Aligned_cols=22 Identities=45% Similarity=1.103 Sum_probs=17.1
Q ss_pred CCceeccCCCCCCCCCCCCccC
Q 013677 146 ASRCFNCGSYSHSLKECPKPRD 167 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PRd 167 (438)
..+|||||..+|..++||.|..
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 3578888888888888887543
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=92.91 E-value=0.037 Score=42.50 Aligned_cols=21 Identities=33% Similarity=0.755 Sum_probs=18.5
Q ss_pred CCceeccCCCCCCCCCCCCcc
Q 013677 146 ASRCFNCGSYSHSLKECPKPR 166 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PR 166 (438)
...|||||..+|..++||...
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 578999999999999999543
No 22
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=92.11 E-value=0.044 Score=37.77 Aligned_cols=18 Identities=33% Similarity=0.778 Sum_probs=16.7
Q ss_pred CceeccCCCCCCCCCCCC
Q 013677 147 SRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~ 164 (438)
..||+||..+|..++||.
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 689999999999999983
No 23
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=90.91 E-value=0.077 Score=42.31 Aligned_cols=21 Identities=33% Similarity=0.755 Sum_probs=18.4
Q ss_pred CCceeccCCCCCCCCCCCCcc
Q 013677 146 ASRCFNCGSYSHSLKECPKPR 166 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PR 166 (438)
...||+||..+|..++||...
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 478999999999999999543
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=90.38 E-value=0.095 Score=46.41 Aligned_cols=23 Identities=26% Similarity=0.706 Sum_probs=19.0
Q ss_pred CCceeccCCCCCCCCCCCCccCH
Q 013677 146 ASRCFNCGSYSHSLKECPKPRDK 168 (438)
Q Consensus 146 ~~~CFNCG~~~HsLrdCP~PRd~ 168 (438)
...||+||..+|..++||...-.
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 46899999999999999965443
No 25
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=89.07 E-value=0.096 Score=42.69 Aligned_cols=21 Identities=33% Similarity=0.664 Sum_probs=17.0
Q ss_pred CCCceeccCCCCCCCCCCCCc
Q 013677 145 DASRCFNCGSYSHSLKECPKP 165 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP~P 165 (438)
+...||||++.+|..++||..
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 457899999999999999965
No 26
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=87.11 E-value=0.25 Score=41.74 Aligned_cols=20 Identities=30% Similarity=0.811 Sum_probs=18.2
Q ss_pred CCCceeccCCCCCCCCCCCC
Q 013677 145 DASRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 145 ~~~~CFNCG~~~HsLrdCP~ 164 (438)
....|||||+.+|..+|||+
T Consensus 104 ~~~~Cy~Cg~~GH~a~dCp~ 123 (124)
T 2lli_A 104 HTIYCYNCGGKGHFGDDCKE 123 (124)
T ss_dssp CCCCTTTTSSSCTTTTTSCC
T ss_pred CCCCcCCCCCCCcCcccCcC
Confidence 35799999999999999996
No 27
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=85.97 E-value=0.3 Score=41.18 Aligned_cols=18 Identities=39% Similarity=0.988 Sum_probs=12.7
Q ss_pred CceeccCCCCCCCCCCCC
Q 013677 147 SRCFNCGSYSHSLKECPK 164 (438)
Q Consensus 147 ~~CFNCG~~~HsLrdCP~ 164 (438)
..||||+..+|..++||.
T Consensus 5 ~~C~~C~~~GH~~~~Cp~ 22 (124)
T 2lli_A 5 PKCNNCSQRGHLKKDCPH 22 (124)
T ss_dssp SCCSSCSSSSCCTTTTTS
T ss_pred CcccCCCCCCcCcccCcC
Confidence 457777777777777775
No 28
>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=28.35 E-value=27 Score=26.50 Aligned_cols=16 Identities=38% Similarity=0.599 Sum_probs=14.4
Q ss_pred cCCHHHHHHhCCCCCC
Q 013677 210 ALDAETRQLLGLGELD 225 (438)
Q Consensus 210 ~LS~eLReALGm~~~d 225 (438)
+|-.++|++|||.+++
T Consensus 25 tIPkeiR~~Lgi~~Gd 40 (59)
T 1yfb_A 25 VIPIELRRTLGIAEKD 40 (59)
T ss_dssp ECCHHHHHHTTCCTTC
T ss_pred EeCHHHHHHcCCCCCC
Confidence 5889999999999887
No 29
>2l66_A SSO7C4, transcriptional regulator, ABRB family; DNA binding protein, transcription regulator; NMR {Sulfolobus solfataricus}
Probab=27.48 E-value=32 Score=25.01 Aligned_cols=16 Identities=31% Similarity=0.380 Sum_probs=14.0
Q ss_pred cCCHHHHHHhCCCCCC
Q 013677 210 ALDAETRQLLGLGELD 225 (438)
Q Consensus 210 ~LS~eLReALGm~~~d 225 (438)
.|-.++|++|||.+++
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 5788999999999876
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=26.52 E-value=45 Score=32.94 Aligned_cols=26 Identities=23% Similarity=0.230 Sum_probs=22.0
Q ss_pred HHHHhCCCCCCChHHHHHHHhcCCCC
Q 013677 215 TRQLLGLGELDPPPWLHRMRELGYPP 240 (438)
Q Consensus 215 LReALGm~~~dpPPWL~rMr~~GyPP 240 (438)
.++++|+.+.....|+..+.++|.||
T Consensus 288 ~~~~~g~~~~~~d~~yl~al~yG~PP 313 (345)
T 3a5y_A 288 KRAARGLPQHPIDQNLIEALKVGMPD 313 (345)
T ss_dssp HHHHTTCCCCCCCHHHHHHHHHCCCS
T ss_pred HHHhcCCChhhHHHHHHHHHhcCCCC
Confidence 45667998888778999999999996
No 31
>2glw_A PHS018, 92AA long hypothetical protein; RIFT barrel, bioinformatics, transcription; NMR {Pyrococcus horikoshii}
Probab=20.05 E-value=46 Score=27.19 Aligned_cols=17 Identities=12% Similarity=0.278 Sum_probs=14.7
Q ss_pred cCCHHHHHHhCCCCCCC
Q 013677 210 ALDAETRQLLGLGELDP 226 (438)
Q Consensus 210 ~LS~eLReALGm~~~dp 226 (438)
.|-.++|++|||.+++.
T Consensus 63 tIPkeiR~~lgi~~Gd~ 79 (92)
T 2glw_A 63 IIPKALRDVIGIKPGEV 79 (92)
T ss_dssp ECCHHHHHHHTCCTTCE
T ss_pred ECcHHHHHHcCCCCCCE
Confidence 47899999999999873
Done!