Query 045687
Match_columns 212
No_of_seqs 121 out of 1184
Neff 8.8
Searched_HMMs 29240
Date Mon Mar 25 07:27:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045687.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/045687hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1u6p_A GAG polyprotein; MLV, A 98.8 9.2E-09 3.2E-13 62.9 4.8 26 155-180 22-47 (56)
2 1a6b_B Momulv, zinc finger pro 98.7 5.5E-09 1.9E-13 59.4 3.0 25 156-180 10-34 (40)
3 1nc8_A Nucleocapsid protein; H 98.5 1.9E-08 6.5E-13 53.3 1.4 22 156-177 6-27 (29)
4 1dsq_A Nucleic acid binding pr 98.5 3.6E-08 1.2E-12 50.9 1.0 21 157-177 3-23 (26)
5 2ysa_A Retinoblastoma-binding 97.9 2.6E-06 8.9E-11 51.7 1.3 22 156-177 7-28 (55)
6 2a51_A Nucleocapsid protein; s 97.5 2.2E-05 7.7E-10 44.3 0.9 18 158-175 2-19 (39)
7 2a51_A Nucleocapsid protein; s 97.5 2.7E-05 9.2E-10 43.9 1.1 18 157-174 22-39 (39)
8 2ec7_A GAG polyprotein (PR55GA 97.5 3E-05 1E-09 46.0 1.2 18 157-174 28-45 (49)
9 2ec7_A GAG polyprotein (PR55GA 97.5 4.3E-05 1.5E-09 45.3 1.7 22 156-177 6-27 (49)
10 2bl6_A Nucleocapsid protein P1 97.4 4.7E-05 1.6E-09 42.4 1.3 17 157-173 20-36 (37)
11 2bl6_A Nucleocapsid protein P1 97.4 4.7E-05 1.6E-09 42.4 1.2 17 158-174 2-18 (37)
12 1cl4_A Protein (GAG polyprotei 97.4 5.6E-05 1.9E-09 46.8 1.5 22 156-177 30-51 (60)
13 1a1t_A Nucleocapsid protein; s 97.4 5E-05 1.7E-09 46.2 1.3 19 157-175 13-31 (55)
14 3nyb_B Protein AIR2; polya RNA 97.3 5.6E-05 1.9E-09 50.0 1.4 22 156-177 46-67 (83)
15 2ihx_A Nucleocapsid (NC) prote 97.3 5.2E-05 1.8E-09 47.2 1.1 22 156-177 30-51 (61)
16 1a1t_A Nucleocapsid protein; s 97.3 6.7E-05 2.3E-09 45.6 1.3 22 156-177 33-54 (55)
17 2cqf_A RNA-binding protein LIN 97.2 0.00016 5.5E-09 45.2 2.5 22 156-177 29-50 (63)
18 2ihx_A Nucleocapsid (NC) prote 97.2 9.9E-05 3.4E-09 45.9 1.5 22 156-177 4-25 (61)
19 2li8_A Protein LIN-28 homolog 97.1 0.00016 5.6E-09 46.7 1.9 19 157-175 47-65 (74)
20 1cl4_A Protein (GAG polyprotei 97.0 9.3E-05 3.2E-09 45.8 0.0 20 157-176 2-21 (60)
21 2cqf_A RNA-binding protein LIN 97.0 0.0002 6.7E-09 44.8 1.3 19 157-175 8-26 (63)
22 2li8_A Protein LIN-28 homolog 97.0 0.00018 6.3E-09 46.4 1.2 22 155-176 23-44 (74)
23 3ts2_A Protein LIN-28 homolog 96.8 0.00054 1.8E-08 50.3 2.1 20 157-176 120-139 (148)
24 3ts2_A Protein LIN-28 homolog 96.6 0.00062 2.1E-08 50.0 1.2 22 156-177 97-118 (148)
25 3nyb_B Protein AIR2; polya RNA 96.5 0.00067 2.3E-08 44.8 1.0 22 156-177 5-26 (83)
26 2lli_A Protein AIR2; RNA surve 96.2 0.0011 3.8E-08 47.1 0.8 19 156-174 105-123 (124)
27 2lli_A Protein AIR2; RNA surve 95.2 0.0066 2.3E-07 43.0 1.5 17 158-174 24-41 (124)
28 2hqh_E Restin; beta/BETA struc 91.8 0.028 9.5E-07 28.0 -0.1 19 156-174 3-21 (26)
29 3alr_A Nanos protein; zinc-fin 81.1 0.44 1.5E-05 32.1 0.7 22 156-177 71-95 (106)
30 2pzo_E CAP-Gly domain-containi 73.4 0.6 2E-05 25.9 -0.2 19 156-174 20-38 (42)
31 1ef4_A Subunit N, DNA-directed 62.3 2.1 7.1E-05 25.4 0.5 10 156-165 3-12 (55)
32 3e2u_E CAP-Gly domain-containi 59.9 1.7 5.9E-05 24.1 -0.1 19 156-174 20-38 (42)
33 4ayb_N DNA-directed RNA polyme 57.0 2.4 8.1E-05 26.2 0.1 10 156-165 4-13 (66)
34 1twf_J DNA-directed RNA polyme 51.3 3.3 0.00011 25.8 0.1 10 156-165 4-13 (70)
35 2yqp_A Probable ATP-dependent 46.7 16 0.00054 21.8 2.5 17 155-171 18-34 (60)
36 1wfl_A Zinc finger protein 216 38.9 35 0.0012 21.4 3.4 18 156-173 25-43 (74)
37 2w0t_A Lethal(3)malignant brai 35.4 5.3 0.00018 22.4 -0.7 15 156-170 6-20 (43)
38 2xzm_5 Ribosomal protein S26E 25.8 24 0.00082 24.3 1.1 11 154-164 18-28 (119)
39 3u5c_a 40S ribosomal protein S 23.6 30 0.001 23.8 1.3 11 153-163 17-27 (119)
40 2poi_A Baculoviral IAP repeat- 21.9 20 0.00067 23.6 0.1 10 155-164 54-63 (94)
41 1wg2_A Zinc finger (AN1-like) 21.8 47 0.0016 20.2 1.7 17 156-172 15-32 (64)
42 3m1d_A Baculoviral IAP repeat- 20.2 22 0.00077 22.8 0.1 10 155-164 45-54 (85)
43 2ds5_A CLPX, ATP-dependent CLP 20.1 27 0.00094 20.2 0.4 11 157-167 12-22 (51)
No 1
>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=98.77 E-value=9.2e-09 Score=62.89 Aligned_cols=26 Identities=23% Similarity=0.698 Sum_probs=22.2
Q ss_pred CCcceeecCCCccccccCcCccCCCC
Q 045687 155 KKGNCYVCGKPGHFANKCRYRKGDHK 180 (212)
Q Consensus 155 ~~~~C~~Cgk~GH~~~~C~~~~~~~k 180 (212)
....||+||+.|||+++||++..+..
T Consensus 22 ~~~~C~~Cge~GH~ardCp~~~~~~~ 47 (56)
T 1u6p_A 22 DRDQCAYCKEKGHWAKDCPKKPRGPR 47 (56)
T ss_dssp CTTBCSSSCCBSSCGGGCTTCCCSSC
T ss_pred CCCcceeCCCCCcccccCcCCccccC
Confidence 34789999999999999999887544
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=98.74 E-value=5.5e-09 Score=59.36 Aligned_cols=25 Identities=24% Similarity=0.719 Sum_probs=21.9
Q ss_pred CcceeecCCCccccccCcCccCCCC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKGDHK 180 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~~~k 180 (212)
...||+||+.|||+++||+...+.+
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~~~~r 34 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKPRGPR 34 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSCCCTT
T ss_pred CCeeeECCCCCcchhhCcCCcccCC
Confidence 4789999999999999999887544
No 3
>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=98.55 E-value=1.9e-08 Score=53.33 Aligned_cols=22 Identities=41% Similarity=0.865 Sum_probs=19.5
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||+||+.||++++|+.+.+
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 4779999999999999998765
No 4
>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=98.46 E-value=3.6e-08 Score=50.87 Aligned_cols=21 Identities=33% Similarity=0.914 Sum_probs=17.8
Q ss_pred cceeecCCCccccccCcCccC
Q 045687 157 GNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
..||.||+.||++++||....
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 579999999999999998754
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=97.92 E-value=2.6e-06 Score=51.74 Aligned_cols=22 Identities=36% Similarity=0.990 Sum_probs=18.8
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||.||++||++++||...+
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~~~ 28 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTNGD 28 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGGGC
T ss_pred CCccccCCCcCcccccCCCCCC
Confidence 3579999999999999996554
No 6
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=97.50 E-value=2.2e-05 Score=44.25 Aligned_cols=18 Identities=56% Similarity=1.278 Sum_probs=15.1
Q ss_pred ceeecCCCccccccCcCc
Q 045687 158 NCYVCGKPGHFANKCRYR 175 (212)
Q Consensus 158 ~C~~Cgk~GH~~~~C~~~ 175 (212)
.||+||+.||++++||.+
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 588888888888888865
No 7
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=97.49 E-value=2.7e-05 Score=43.91 Aligned_cols=18 Identities=28% Similarity=0.741 Sum_probs=16.8
Q ss_pred cceeecCCCccccccCcC
Q 045687 157 GNCYVCGKPGHFANKCRY 174 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~~ 174 (212)
..||.||+.||++++||+
T Consensus 22 ~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 22 EGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp SSCTTTCCSSSCTTTSCC
T ss_pred CccccCCCCCCccCcCcC
Confidence 679999999999999985
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=97.47 E-value=3e-05 Score=46.03 Aligned_cols=18 Identities=44% Similarity=1.064 Sum_probs=9.0
Q ss_pred cceeecCCCccccccCcC
Q 045687 157 GNCYVCGKPGHFANKCRY 174 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~~ 174 (212)
..||.||+.||++++||.
T Consensus 28 ~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 28 QGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CSCSSSCCSSCCGGGCCS
T ss_pred CeeCcCCCcCCccCCCcC
Confidence 345555555555555544
No 9
>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=97.45 E-value=4.3e-05 Score=45.34 Aligned_cols=22 Identities=41% Similarity=0.865 Sum_probs=19.3
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||+||+.||++++||....
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~~~ 27 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAPRR 27 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCSSC
T ss_pred cCeeeecCCCCcChhhCcCCCC
Confidence 4679999999999999998653
No 10
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=97.40 E-value=4.7e-05 Score=42.38 Aligned_cols=17 Identities=47% Similarity=1.376 Sum_probs=11.6
Q ss_pred cceeecCCCccccccCc
Q 045687 157 GNCYVCGKPGHFANKCR 173 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~ 173 (212)
..||.||+.||++++||
T Consensus 20 ~~C~~Cg~~GH~a~~C~ 36 (37)
T 2bl6_A 20 KVCFKCKQPGHFSKQCR 36 (37)
T ss_dssp TTCSSCCCTTGGGGTTC
T ss_pred CeEccCCCcCCccCcCc
Confidence 66666666666666665
No 11
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=97.38 E-value=4.7e-05 Score=42.36 Aligned_cols=17 Identities=59% Similarity=1.538 Sum_probs=15.8
Q ss_pred ceeecCCCccccccCcC
Q 045687 158 NCYVCGKPGHFANKCRY 174 (212)
Q Consensus 158 ~C~~Cgk~GH~~~~C~~ 174 (212)
.||+||+.||++++||.
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 59999999999999985
No 12
>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=97.37 E-value=5.6e-05 Score=46.85 Aligned_cols=22 Identities=32% Similarity=0.788 Sum_probs=19.7
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||.||+.||++++|+....
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 13
>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=97.36 E-value=5e-05 Score=46.19 Aligned_cols=19 Identities=47% Similarity=1.111 Sum_probs=10.0
Q ss_pred cceeecCCCccccccCcCc
Q 045687 157 GNCYVCGKPGHFANKCRYR 175 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~~~ 175 (212)
..||+||+.||++++||..
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 3455555555555555543
No 14
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=97.34 E-value=5.6e-05 Score=49.97 Aligned_cols=22 Identities=36% Similarity=1.026 Sum_probs=19.6
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||+||+.||+.++||....
T Consensus 46 ~~~CYnCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 46 TIYCYNCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp CCBCSSSSCBSSCGGGCSSCCS
T ss_pred CCeecccCCCCcCcccCCcccc
Confidence 4789999999999999998664
No 15
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=97.34 E-value=5.2e-05 Score=47.18 Aligned_cols=22 Identities=41% Similarity=0.943 Sum_probs=18.4
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||.|++.||++++||....
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 3679999999999999997765
No 16
>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=97.30 E-value=6.7e-05 Score=45.62 Aligned_cols=22 Identities=41% Similarity=0.955 Sum_probs=19.0
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||.||+.||++++||....
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 3679999999999999997653
No 17
>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=97.23 E-value=0.00016 Score=45.21 Aligned_cols=22 Identities=18% Similarity=0.551 Sum_probs=18.3
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||+|++.||++++||....
T Consensus 29 ~~~C~~Cg~~GH~ar~Cp~~~~ 50 (63)
T 2cqf_A 29 PKKCHFCQSISHMVASCPLKAQ 50 (63)
T ss_dssp SSCCTTTCCSSSCTTTCTGGGC
T ss_pred CCccCCcCCcCCccCcCCCccc
Confidence 4679999999999999987654
No 18
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=97.23 E-value=9.9e-05 Score=45.87 Aligned_cols=22 Identities=41% Similarity=1.254 Sum_probs=19.1
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||+|++.||++++||....
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~ 25 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRK 25 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTS
T ss_pred CCcccccCCCCeehhhCcCCcC
Confidence 3679999999999999998654
No 19
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=97.15 E-value=0.00016 Score=46.67 Aligned_cols=19 Identities=21% Similarity=0.672 Sum_probs=9.6
Q ss_pred cceeecCCCccccccCcCc
Q 045687 157 GNCYVCGKPGHFANKCRYR 175 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~~~ 175 (212)
..||.||+.||++++||..
T Consensus 47 ~~C~~Cg~~GH~ar~Cp~~ 65 (74)
T 2li8_A 47 KKCHFCQSISHMVASCPLK 65 (74)
T ss_dssp CCCTTTCCTTSCGGGCTTG
T ss_pred CccCCcCCcCCccCcCcCC
Confidence 3455555555555555443
No 20
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=97.04 E-value=9.3e-05 Score=45.81 Aligned_cols=20 Identities=50% Similarity=1.270 Sum_probs=0.0
Q ss_pred cceeecCCCccccccCcCcc
Q 045687 157 GNCYVCGKPGHFANKCRYRK 176 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~~~~ 176 (212)
..||.|++.||++++||...
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 35999999999999999864
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=97.01 E-value=0.0002 Score=44.80 Aligned_cols=19 Identities=37% Similarity=0.980 Sum_probs=17.4
Q ss_pred cceeecCCCccccccCcCc
Q 045687 157 GNCYVCGKPGHFANKCRYR 175 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~~~ 175 (212)
..||+|++.||++++|+..
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 6799999999999999964
No 22
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=97.01 E-value=0.00018 Score=46.43 Aligned_cols=22 Identities=36% Similarity=0.869 Sum_probs=18.9
Q ss_pred CCcceeecCCCccccccCcCcc
Q 045687 155 KKGNCYVCGKPGHFANKCRYRK 176 (212)
Q Consensus 155 ~~~~C~~Cgk~GH~~~~C~~~~ 176 (212)
....||+||+.||++++|+...
T Consensus 23 r~~~C~~Cg~~GH~a~~C~~~~ 44 (74)
T 2li8_A 23 KGDRCYNCGGLDHHAKECKLPP 44 (74)
T ss_dssp TTSCCTTTCCSSSCTTTCSSCC
T ss_pred CCCcccccCCcCcCcccCCCCC
Confidence 3477999999999999999644
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=96.75 E-value=0.00054 Score=50.34 Aligned_cols=20 Identities=20% Similarity=0.632 Sum_probs=10.4
Q ss_pred cceeecCCCccccccCcCcc
Q 045687 157 GNCYVCGKPGHFANKCRYRK 176 (212)
Q Consensus 157 ~~C~~Cgk~GH~~~~C~~~~ 176 (212)
..||.||+.||++++||...
T Consensus 120 ~~C~~Cg~~GH~~r~Cp~~~ 139 (148)
T 3ts2_A 120 KKCHFCQSINHMVASCPLKA 139 (148)
T ss_dssp CCCTTTCCSSCCGGGCTTTT
T ss_pred CcccccCCcCCEeccCcCCC
Confidence 34555555555555555443
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=96.55 E-value=0.00062 Score=49.99 Aligned_cols=22 Identities=32% Similarity=0.806 Sum_probs=18.9
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...||+||+.||++++|+...+
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 4679999999999999998443
No 25
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=96.50 E-value=0.00067 Score=44.75 Aligned_cols=22 Identities=23% Similarity=0.441 Sum_probs=17.8
Q ss_pred CcceeecCCCccccccCcCccC
Q 045687 156 KGNCYVCGKPGHFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~~~~ 177 (212)
...|+.|+..||++++||...+
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~~~r 26 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPSIWR 26 (83)
T ss_dssp --CCSSSCCSSSCGGGCGGGTC
T ss_pred cCCCCCCCCCCCccccCCCccc
Confidence 4789999999999999997643
No 26
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=96.19 E-value=0.0011 Score=47.09 Aligned_cols=19 Identities=42% Similarity=1.086 Sum_probs=17.7
Q ss_pred CcceeecCCCccccccCcC
Q 045687 156 KGNCYVCGKPGHFANKCRY 174 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~ 174 (212)
.+.||+||+.||++++||+
T Consensus 105 ~~~Cy~Cg~~GH~a~dCp~ 123 (124)
T 2lli_A 105 TIYCYNCGGKGHFGDDCKE 123 (124)
T ss_dssp CCCTTTTSSSCTTTTTSCC
T ss_pred CCCcCCCCCCCcCcccCcC
Confidence 5789999999999999986
No 27
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=95.16 E-value=0.0066 Score=42.98 Aligned_cols=17 Identities=29% Similarity=0.886 Sum_probs=8.1
Q ss_pred ceeecCCC-ccccccCcC
Q 045687 158 NCYVCGKP-GHFANKCRY 174 (212)
Q Consensus 158 ~C~~Cgk~-GH~~~~C~~ 174 (212)
.||+||+. ||++++||.
T Consensus 24 ~C~~Cg~~~gH~~~~C~~ 41 (124)
T 2lli_A 24 ICSYCGATDDHYSRHCPK 41 (124)
T ss_dssp CCTTTCCTTTCCTTTGGG
T ss_pred cCcCCCCcCCccCcccCC
Confidence 45555544 444444443
No 28
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=91.82 E-value=0.028 Score=27.96 Aligned_cols=19 Identities=32% Similarity=0.807 Sum_probs=16.5
Q ss_pred CcceeecCCCccccccCcC
Q 045687 156 KGNCYVCGKPGHFANKCRY 174 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~ 174 (212)
++.|-+|.-.||+..+|..
T Consensus 3 RpYCe~CE~FGH~t~~C~d 21 (26)
T 2hqh_E 3 RPYCEICEMFGHWATNCND 21 (26)
T ss_dssp -CEETTTTEESSCGGGCCT
T ss_pred CccchHHHHhCcccccCCc
Confidence 4789999999999999964
No 29
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=81.09 E-value=0.44 Score=32.11 Aligned_cols=22 Identities=27% Similarity=0.623 Sum_probs=18.7
Q ss_pred CcceeecCCCc---cccccCcCccC
Q 045687 156 KGNCYVCGKPG---HFANKCRYRKG 177 (212)
Q Consensus 156 ~~~C~~Cgk~G---H~~~~C~~~~~ 177 (212)
.-.|-.||-.| |+.+.||...+
T Consensus 71 ~Y~CpiCGATGd~AHT~kYCP~~~~ 95 (106)
T 3alr_A 71 QYKCPLCGATGAKAHTKRFCPMVDK 95 (106)
T ss_dssp GCCCTTTCCCGGGCCCGGGCTTCGG
T ss_pred cccCCCCCCcCCcccceecCCCCCC
Confidence 36799999999 99999997665
No 30
>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=73.43 E-value=0.6 Score=25.88 Aligned_cols=19 Identities=32% Similarity=0.807 Sum_probs=16.5
Q ss_pred CcceeecCCCccccccCcC
Q 045687 156 KGNCYVCGKPGHFANKCRY 174 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~ 174 (212)
++-|-.|.-.||+..+|..
T Consensus 20 RpYCd~CEvFGH~t~~Cnd 38 (42)
T 2pzo_E 20 RPYCEICEMFGHWATNCND 38 (42)
T ss_dssp -CEETTTTEESSCGGGCCT
T ss_pred CcccccccccCcccccCCc
Confidence 4789999999999999953
No 31
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Probab=62.33 E-value=2.1 Score=25.45 Aligned_cols=10 Identities=50% Similarity=1.192 Sum_probs=8.3
Q ss_pred CcceeecCCC
Q 045687 156 KGNCYVCGKP 165 (212)
Q Consensus 156 ~~~C~~Cgk~ 165 (212)
+++||.|||.
T Consensus 3 PVRCFTCGkv 12 (55)
T 1ef4_A 3 PVRCLSCGKP 12 (55)
T ss_dssp SSSCSCTTSC
T ss_pred CeecCCCCCC
Confidence 4789999985
No 32
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=59.88 E-value=1.7 Score=24.12 Aligned_cols=19 Identities=32% Similarity=0.807 Sum_probs=17.1
Q ss_pred CcceeecCCCccccccCcC
Q 045687 156 KGNCYVCGKPGHFANKCRY 174 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~~C~~ 174 (212)
++-|-.|--.||+..+|..
T Consensus 20 RpYCe~CEVFGH~t~eC~d 38 (42)
T 3e2u_E 20 RPYCEICEMFGHWATNCND 38 (42)
T ss_dssp CCEETTTTEESSCGGGCCT
T ss_pred CcccccceecccccccCCc
Confidence 5789999999999999963
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=57.04 E-value=2.4 Score=26.19 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=8.3
Q ss_pred CcceeecCCC
Q 045687 156 KGNCYVCGKP 165 (212)
Q Consensus 156 ~~~C~~Cgk~ 165 (212)
+++||.|||.
T Consensus 4 PVRCFTCGkv 13 (66)
T 4ayb_N 4 PIRCFTCGSL 13 (66)
T ss_dssp CSBCTTTCCB
T ss_pred CcccCCCcHh
Confidence 4789999985
No 34
>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=51.26 E-value=3.3 Score=25.84 Aligned_cols=10 Identities=40% Similarity=1.049 Sum_probs=8.3
Q ss_pred CcceeecCCC
Q 045687 156 KGNCYVCGKP 165 (212)
Q Consensus 156 ~~~C~~Cgk~ 165 (212)
+++||.|||.
T Consensus 4 PVRCFTCGkv 13 (70)
T 1twf_J 4 PVRCFSCGKV 13 (70)
T ss_dssp CSBCTTTCCB
T ss_pred CeecCCCCCC
Confidence 4789999985
No 35
>2yqp_A Probable ATP-dependent RNA helicase DDX59; structure genomics, ZF-HIT domain, DEAD box polypeptide 59 isoform 2, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=46.68 E-value=16 Score=21.76 Aligned_cols=17 Identities=29% Similarity=0.729 Sum_probs=13.5
Q ss_pred CCcceeecCCCcccccc
Q 045687 155 KKGNCYVCGKPGHFANK 171 (212)
Q Consensus 155 ~~~~C~~Cgk~GH~~~~ 171 (212)
..+.|-.||+.|-+.-+
T Consensus 18 gePvCvvCGryGeYICd 34 (60)
T 2yqp_A 18 GEPICVVCGRYGEYICD 34 (60)
T ss_dssp TSCCCSSSSSCCSEECS
T ss_pred CCceEEEecCccceeec
Confidence 35789999999988743
No 36
>1wfl_A Zinc finger protein 216; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.80.1.1
Probab=38.89 E-value=35 Score=21.43 Aligned_cols=18 Identities=39% Similarity=0.959 Sum_probs=13.4
Q ss_pred CcceeecCCC-ccccccCc
Q 045687 156 KGNCYVCGKP-GHFANKCR 173 (212)
Q Consensus 156 ~~~C~~Cgk~-GH~~~~C~ 173 (212)
..+|+.|++. |=+.-.|.
T Consensus 25 ~nRC~~CrKkvgL~gf~Cr 43 (74)
T 1wfl_A 25 KNRCFMCRKKVGLTGFDCR 43 (74)
T ss_dssp TTBCSSSCCBCGGGCEECT
T ss_pred CCcChhhCCcccccCeecC
Confidence 4679999996 76666675
No 37
>2w0t_A Lethal(3)malignant brain tumor-like 2 protein; zinc, YACG, LMBL2, nucleus, zinc-finger, RNA binding, MBT repeats, PCG proteins, polymorphism; NMR {Homo sapiens}
Probab=35.39 E-value=5.3 Score=22.40 Aligned_cols=15 Identities=27% Similarity=0.558 Sum_probs=12.2
Q ss_pred CcceeecCCCccccc
Q 045687 156 KGNCYVCGKPGHFAN 170 (212)
Q Consensus 156 ~~~C~~Cgk~GH~~~ 170 (212)
...|.+||+.||...
T Consensus 6 ~~~CE~CG~~g~~~~ 20 (43)
T 2w0t_A 6 PAVCEMCGIVGTREA 20 (43)
T ss_dssp EEECTTTCCEEETTT
T ss_pred eehhhhhcCcchhhh
Confidence 467999999988654
No 38
>2xzm_5 Ribosomal protein S26E containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_5
Probab=25.81 E-value=24 Score=24.26 Aligned_cols=11 Identities=27% Similarity=0.815 Sum_probs=8.5
Q ss_pred cCCcceeecCC
Q 045687 154 KKKGNCYVCGK 164 (212)
Q Consensus 154 ~~~~~C~~Cgk 164 (212)
-..+.|.+||.
T Consensus 18 v~~V~C~nCgr 28 (119)
T 2xzm_5 18 TRTVPCTNCGR 28 (119)
T ss_dssp CCEEECTTTCC
T ss_pred CccEeeCCccc
Confidence 44688999994
No 39
>3u5c_a 40S ribosomal protein S26-A, 40S ribosomal protein S25-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_a
Probab=23.63 E-value=30 Score=23.79 Aligned_cols=11 Identities=27% Similarity=0.564 Sum_probs=8.6
Q ss_pred ccCCcceeecC
Q 045687 153 KKKKGNCYVCG 163 (212)
Q Consensus 153 ~~~~~~C~~Cg 163 (212)
.-..+.|.+||
T Consensus 17 hv~~V~C~nCg 27 (119)
T 3u5c_a 17 HVKPVRCVNCS 27 (119)
T ss_dssp CCCEEECTTTC
T ss_pred CCccEeecccc
Confidence 34568899999
No 40
>2poi_A Baculoviral IAP repeat-containing protein 4; zinc finger, signaling protein/apoptosis complex; 1.80A {Homo sapiens} PDB: 2pop_B
Probab=21.87 E-value=20 Score=23.61 Aligned_cols=10 Identities=20% Similarity=0.763 Sum_probs=8.2
Q ss_pred CCcceeecCC
Q 045687 155 KKGNCYVCGK 164 (212)
Q Consensus 155 ~~~~C~~Cgk 164 (212)
..++||+||.
T Consensus 54 D~V~Cf~C~~ 63 (94)
T 2poi_A 54 DTVRCFSCHA 63 (94)
T ss_dssp TCEEETTTCC
T ss_pred CEEEcccCCC
Confidence 4588999995
No 41
>1wg2_A Zinc finger (AN1-like) family protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.80.1.1
Probab=21.84 E-value=47 Score=20.20 Aligned_cols=17 Identities=35% Similarity=0.978 Sum_probs=10.5
Q ss_pred CcceeecCCC-ccccccC
Q 045687 156 KGNCYVCGKP-GHFANKC 172 (212)
Q Consensus 156 ~~~C~~Cgk~-GH~~~~C 172 (212)
..+|+.|++. |=+.-.|
T Consensus 15 ~~rC~~C~kkvgl~~f~C 32 (64)
T 1wg2_A 15 NNRCFSCNKKVGVMGFKC 32 (64)
T ss_dssp SCSCTTTCCCCTTSCEEC
T ss_pred CCcChhhCCcccccCeEe
Confidence 4668888874 5444555
No 42
>3m1d_A Baculoviral IAP repeat-containing protein 2; BIR, apoptosis, cytoplasm, polymorphism, zinc, zinc-FIN metal binding protein; 2.00A {Homo sapiens} PDB: 3m0a_D 3m0d_D
Probab=20.18 E-value=22 Score=22.82 Aligned_cols=10 Identities=40% Similarity=1.125 Sum_probs=8.1
Q ss_pred CCcceeecCC
Q 045687 155 KKGNCYVCGK 164 (212)
Q Consensus 155 ~~~~C~~Cgk 164 (212)
..++||+|+.
T Consensus 45 D~v~Cf~C~~ 54 (85)
T 3m1d_A 45 DKVKCFCCGL 54 (85)
T ss_dssp TCEEETTTCC
T ss_pred CEEEeCCcCC
Confidence 3588999995
No 43
>2ds5_A CLPX, ATP-dependent CLP protease ATP-binding subunit CLPX; treble cleft zinc finger, metal binding protein, protein binding; HET: PG4; 1.50A {Escherichia coli} SCOP: g.39.1.11 PDB: 2ds6_A 2ds8_A 2ds7_A
Probab=20.06 E-value=27 Score=20.17 Aligned_cols=11 Identities=45% Similarity=0.927 Sum_probs=8.5
Q ss_pred cceeecCCCcc
Q 045687 157 GNCYVCGKPGH 167 (212)
Q Consensus 157 ~~C~~Cgk~GH 167 (212)
..|.+|||.-+
T Consensus 12 ~~CSFCGk~~~ 22 (51)
T 2ds5_A 12 LYCSFCGKSQH 22 (51)
T ss_dssp CBCTTTCCBTT
T ss_pred cEecCCCCCHH
Confidence 57999998543
Done!