Query 041240
Match_columns 113
No_of_seqs 107 out of 284
Neff 6.1
Searched_HMMs 29240
Date Mon Mar 25 08:16:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041240.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041240hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1a6b_B Momulv, zinc finger pro 97.3 0.00014 4.8E-09 41.2 2.4 26 68-93 10-35 (40)
2 1dsq_A Nucleic acid binding pr 97.1 0.00023 7.8E-09 36.4 2.0 21 68-88 2-22 (26)
3 1nc8_A Nucleocapsid protein; H 97.0 0.00022 7.4E-09 37.4 1.4 21 68-88 6-26 (29)
4 1u6p_A GAG polyprotein; MLV, A 97.0 0.00039 1.3E-08 42.0 2.2 26 68-93 23-48 (56)
5 2ec7_A GAG polyprotein (PR55GA 95.9 0.0038 1.3E-07 36.1 2.0 21 67-87 5-25 (49)
6 2ihx_A Nucleocapsid (NC) prote 95.5 0.0051 1.8E-07 37.0 1.6 20 68-87 4-23 (61)
7 2ysa_A Retinoblastoma-binding 95.5 0.0037 1.3E-07 37.5 0.9 19 69-87 8-26 (55)
8 2a51_A Nucleocapsid protein; s 95.5 0.0069 2.4E-07 33.3 1.9 18 70-87 2-19 (39)
9 2a51_A Nucleocapsid protein; s 95.4 0.0065 2.2E-07 33.4 1.7 19 68-86 21-39 (39)
10 3nyb_B Protein AIR2; polya RNA 95.4 0.0061 2.1E-07 39.3 1.7 21 68-88 46-66 (83)
11 2bl6_A Nucleocapsid protein P1 95.3 0.0065 2.2E-07 33.0 1.5 18 70-87 2-19 (37)
12 2bl6_A Nucleocapsid protein P1 95.3 0.0055 1.9E-07 33.3 1.2 19 68-86 19-37 (37)
13 1cl4_A Protein (GAG polyprotei 95.3 0.0092 3.1E-07 35.6 2.3 23 67-89 29-51 (60)
14 1a1t_A Nucleocapsid protein; s 95.3 0.0059 2E-07 35.8 1.4 21 67-87 11-31 (55)
15 2ec7_A GAG polyprotein (PR55GA 95.1 0.0077 2.6E-07 34.7 1.5 20 69-88 28-47 (49)
16 2ihx_A Nucleocapsid (NC) prote 94.8 0.012 3.9E-07 35.4 1.6 22 68-89 30-51 (61)
17 2cqf_A RNA-binding protein LIN 94.8 0.013 4.4E-07 35.5 1.8 21 67-87 6-26 (63)
18 2hqh_E Restin; beta/BETA struc 94.7 0.011 3.8E-07 30.3 1.2 20 68-87 3-22 (26)
19 2cqf_A RNA-binding protein LIN 94.6 0.019 6.4E-07 34.8 2.2 21 68-88 29-49 (63)
20 1a1t_A Nucleocapsid protein; s 94.5 0.013 4.4E-07 34.3 1.3 20 69-88 34-53 (55)
21 2li8_A Protein LIN-28 homolog 94.3 0.016 5.5E-07 36.4 1.5 21 67-87 23-43 (74)
22 1cl4_A Protein (GAG polyprotei 94.2 0.0084 2.9E-07 35.8 0.0 19 70-88 3-21 (60)
23 3nyb_B Protein AIR2; polya RNA 92.8 0.023 7.9E-07 36.5 0.3 21 67-87 4-24 (83)
24 3ts2_A Protein LIN-28 homolog 92.3 0.048 1.6E-06 38.3 1.4 20 69-88 98-117 (148)
25 3ts2_A Protein LIN-28 homolog 92.1 0.056 1.9E-06 37.9 1.6 21 68-88 119-139 (148)
26 2li8_A Protein LIN-28 homolog 92.0 0.049 1.7E-06 34.1 1.1 21 68-88 46-66 (74)
27 2lli_A Protein AIR2; RNA surve 91.6 0.076 2.6E-06 35.6 1.8 21 67-87 104-124 (124)
28 2lli_A Protein AIR2; RNA surve 90.6 0.1 3.5E-06 35.0 1.7 17 70-86 6-22 (124)
29 2pzo_E CAP-Gly domain-containi 87.9 0.19 6.6E-06 28.4 1.2 20 68-87 20-39 (42)
30 3e2u_E CAP-Gly domain-containi 82.8 0.48 1.6E-05 26.8 1.2 20 68-87 20-39 (42)
31 4ayb_H DNA-directed RNA polyme 75.3 3 0.0001 26.6 3.4 42 1-42 42-83 (84)
32 1ef4_A Subunit N, DNA-directed 75.0 0.89 3E-05 27.1 0.8 14 67-80 2-16 (55)
33 4ayb_N DNA-directed RNA polyme 74.1 1 3.5E-05 27.8 0.9 14 67-80 3-17 (66)
34 1twf_J DNA-directed RNA polyme 71.6 1.3 4.3E-05 27.6 0.9 14 67-80 3-17 (70)
35 1hmj_A RPB5, protein (subunit 64.0 12 0.0004 23.6 4.3 42 1-42 34-75 (78)
36 1eik_A RNA polymerase subunit 53.7 6.6 0.00023 24.7 1.8 38 1-40 36-73 (77)
37 2jmo_A Parkin; IBR, E3 ligase, 53.6 6.1 0.00021 24.4 1.6 19 68-87 58-76 (80)
38 2row_A RHO-associated protein 46.0 17 0.00056 23.0 2.8 24 53-76 20-43 (84)
39 2ct7_A Ring finger protein 31; 34.7 11 0.00037 23.4 0.6 21 66-86 49-72 (86)
40 1jyo_A SICP; bacterial pathoge 34.2 8.7 0.0003 26.3 0.1 22 7-28 4-25 (130)
41 2w0t_A Lethal(3)malignant brai 31.8 14 0.00047 20.7 0.6 16 68-83 6-21 (43)
42 2yqp_A Probable ATP-dependent 30.6 15 0.00051 22.0 0.7 13 69-81 20-32 (60)
43 3alr_A Nanos protein; zinc-fin 27.0 26 0.00089 23.3 1.4 20 69-88 72-94 (106)
44 1dzf_A DNA-directed RNA polyme 22.7 1E+02 0.0035 22.7 4.1 40 1-40 175-214 (215)
45 2enn_A NPKC-theta, protein kin 21.5 53 0.0018 19.7 2.0 22 55-76 21-42 (77)
46 2k2d_A Ring finger and CHY zin 21.3 57 0.0019 20.1 2.1 23 57-79 44-66 (79)
47 3h0g_E DNA-directed RNA polyme 21.1 91 0.0031 22.8 3.6 32 1-32 170-201 (210)
48 1znf_A 31ST zinc finger from X 21.0 29 0.001 14.8 0.6 8 69-76 2-9 (27)
49 2kwq_A Protein MCM10 homolog; 20.5 39 0.0013 21.7 1.3 17 61-77 57-74 (92)
No 1
>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=97.28 E-value=0.00014 Score=41.15 Aligned_cols=26 Identities=19% Similarity=0.474 Sum_probs=21.3
Q ss_pred cccccccCccccCCCCCCCCCccccc
Q 041240 68 PNTSFLCGKYGHSKDICPNRTEEDHA 93 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~~~~~~ 93 (113)
...||.||..||...+||.....+..
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~~~~r~ 35 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKPRGPRG 35 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSCCCTTC
T ss_pred CCeeeECCCCCcchhhCcCCcccCCC
Confidence 36899999999999999997654433
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=97.12 E-value=0.00023 Score=36.42 Aligned_cols=21 Identities=38% Similarity=0.642 Sum_probs=18.0
Q ss_pred cccccccCccccCCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~ 88 (113)
...||.||..||..++|+...
T Consensus 2 ~~~Cf~CG~~GH~ardC~~~~ 22 (26)
T 1dsq_A 2 GPVCFSCGKTGHIKRDCKEEX 22 (26)
T ss_dssp CCBCTTTCCBSSCTTTTTCC-
T ss_pred CCeeEeCCCCCcccccCCCcc
Confidence 357999999999999999763
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=97.03 E-value=0.00022 Score=37.36 Aligned_cols=21 Identities=33% Similarity=0.570 Sum_probs=18.3
Q ss_pred cccccccCccccCCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~ 88 (113)
+..||+||..||..++|+.+.
T Consensus 6 ~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSSS
T ss_pred CCEEEECCccccCHhHCcccc
Confidence 467999999999999998753
No 4
>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=96.95 E-value=0.00039 Score=41.98 Aligned_cols=26 Identities=19% Similarity=0.474 Sum_probs=21.2
Q ss_pred cccccccCccccCCCCCCCCCccccc
Q 041240 68 PNTSFLCGKYGHSKDICPNRTEEDHA 93 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~~~~~~ 93 (113)
...||.||..||..++||.....+..
T Consensus 23 ~~~C~~Cge~GH~ardCp~~~~~~~~ 48 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPKKPRGPRG 48 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTTCCCSSCS
T ss_pred CCcceeCCCCCcccccCcCCccccCC
Confidence 46799999999999999997654433
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=95.88 E-value=0.0038 Score=36.05 Aligned_cols=21 Identities=33% Similarity=0.540 Sum_probs=17.8
Q ss_pred ccccccccCccccCCCCCCCC
Q 041240 67 LPNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 67 Lp~fC~~Cg~iGH~~~~C~~~ 87 (113)
-+..||+||..||...+|+..
T Consensus 5 r~~~C~~Cg~~GH~a~~C~~~ 25 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSARQCRAP 25 (49)
T ss_dssp CCCBCTTTCCBTCCTTTCCCS
T ss_pred CcCeeeecCCCCcChhhCcCC
Confidence 356899999999999999875
No 6
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=95.50 E-value=0.0051 Score=37.03 Aligned_cols=20 Identities=30% Similarity=0.830 Sum_probs=14.1
Q ss_pred cccccccCccccCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~ 87 (113)
+..||+||..||..++|+..
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~ 23 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKK 23 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTT
T ss_pred CCcccccCCCCeehhhCcCC
Confidence 45677777777777777765
No 7
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=95.48 E-value=0.0037 Score=37.49 Aligned_cols=19 Identities=47% Similarity=0.884 Sum_probs=17.0
Q ss_pred ccccccCccccCCCCCCCC
Q 041240 69 NTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 69 ~fC~~Cg~iGH~~~~C~~~ 87 (113)
..||.||..||..++||..
T Consensus 8 ~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 8 YTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp CCCTTTCCTTSCGGGCSGG
T ss_pred CccccCCCcCcccccCCCC
Confidence 4799999999999999843
No 8
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=95.45 E-value=0.0069 Score=33.27 Aligned_cols=18 Identities=44% Similarity=0.945 Sum_probs=16.1
Q ss_pred cccccCccccCCCCCCCC
Q 041240 70 TSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 70 fC~~Cg~iGH~~~~C~~~ 87 (113)
.||+||..||..++|+..
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 599999999999999975
No 9
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=95.42 E-value=0.0065 Score=33.39 Aligned_cols=19 Identities=26% Similarity=0.628 Sum_probs=17.0
Q ss_pred cccccccCccccCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPN 86 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~ 86 (113)
...|+.||..||..++||+
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 3689999999999999985
No 10
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=95.39 E-value=0.0061 Score=39.25 Aligned_cols=21 Identities=29% Similarity=0.578 Sum_probs=19.2
Q ss_pred cccccccCccccCCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~ 88 (113)
..+|++||.-||..++|+...
T Consensus 46 ~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 46 TIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp CCBCSSSSCBSSCGGGCSSCC
T ss_pred CCeecccCCCCcCcccCCccc
Confidence 379999999999999999875
No 11
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=95.34 E-value=0.0065 Score=33.01 Aligned_cols=18 Identities=39% Similarity=0.768 Sum_probs=13.9
Q ss_pred cccccCccccCCCCCCCC
Q 041240 70 TSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 70 fC~~Cg~iGH~~~~C~~~ 87 (113)
.||+||..||..++|+..
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 588888888888888763
No 12
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=95.33 E-value=0.0055 Score=33.30 Aligned_cols=19 Identities=32% Similarity=0.740 Sum_probs=17.0
Q ss_pred cccccccCccccCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPN 86 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~ 86 (113)
+..|+.||..||..++||.
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 3689999999999999984
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=95.33 E-value=0.0092 Score=35.58 Aligned_cols=23 Identities=22% Similarity=0.466 Sum_probs=19.9
Q ss_pred ccccccccCccccCCCCCCCCCc
Q 041240 67 LPNTSFLCGKYGHSKDICPNRTE 89 (113)
Q Consensus 67 Lp~fC~~Cg~iGH~~~~C~~~~~ 89 (113)
....|+.||..||..++|+....
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 45789999999999999998754
No 14
>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=95.31 E-value=0.0059 Score=35.82 Aligned_cols=21 Identities=33% Similarity=0.574 Sum_probs=17.7
Q ss_pred ccccccccCccccCCCCCCCC
Q 041240 67 LPNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 67 Lp~fC~~Cg~iGH~~~~C~~~ 87 (113)
-+..||.||..||...+|+..
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 356899999999999999875
No 15
>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=95.15 E-value=0.0077 Score=34.73 Aligned_cols=20 Identities=40% Similarity=0.884 Sum_probs=17.9
Q ss_pred ccccccCccccCCCCCCCCC
Q 041240 69 NTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 69 ~fC~~Cg~iGH~~~~C~~~~ 88 (113)
..|+.||..||..++|+...
T Consensus 28 ~~C~~Cg~~GH~~~~C~~~~ 47 (49)
T 2ec7_A 28 QGCWKCGKTGHVMAKCPERQ 47 (49)
T ss_dssp CSCSSSCCSSCCGGGCCSSC
T ss_pred CeeCcCCCcCCccCCCcCCC
Confidence 57999999999999999753
No 16
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=94.79 E-value=0.012 Score=35.44 Aligned_cols=22 Identities=27% Similarity=0.590 Sum_probs=18.9
Q ss_pred cccccccCccccCCCCCCCCCc
Q 041240 68 PNTSFLCGKYGHSKDICPNRTE 89 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~~ 89 (113)
...||.||..||..++|+....
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 4679999999999999998754
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=94.78 E-value=0.013 Score=35.52 Aligned_cols=21 Identities=19% Similarity=0.442 Sum_probs=15.9
Q ss_pred ccccccccCccccCCCCCCCC
Q 041240 67 LPNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 67 Lp~fC~~Cg~iGH~~~~C~~~ 87 (113)
.+..||+||..||..++|+..
T Consensus 6 r~~~C~~Cg~~GH~a~~C~~~ 26 (63)
T 2cqf_A 6 SGDRCYNCGGLDHHAKECKLP 26 (63)
T ss_dssp SCCCCSSSCCSSSCTTTCCSC
T ss_pred CCCcccccCCCCcChhhCCCC
Confidence 356788888888888888754
No 18
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=94.73 E-value=0.011 Score=30.30 Aligned_cols=20 Identities=20% Similarity=0.472 Sum_probs=17.4
Q ss_pred cccccccCccccCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~ 87 (113)
..+|..|..+||...+|+..
T Consensus 3 RpYCe~CE~FGH~t~~C~d~ 22 (26)
T 2hqh_E 3 RPYCEICEMFGHWATNCNDD 22 (26)
T ss_dssp -CEETTTTEESSCGGGCCTT
T ss_pred CccchHHHHhCcccccCCcc
Confidence 36899999999999999764
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=94.59 E-value=0.019 Score=34.80 Aligned_cols=21 Identities=24% Similarity=0.651 Sum_probs=18.8
Q ss_pred cccccccCccccCCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~ 88 (113)
+..||.||..||..++|+...
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 20
>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=94.48 E-value=0.013 Score=34.33 Aligned_cols=20 Identities=35% Similarity=0.753 Sum_probs=18.0
Q ss_pred ccccccCccccCCCCCCCCC
Q 041240 69 NTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 69 ~fC~~Cg~iGH~~~~C~~~~ 88 (113)
..|+.||..||..++|+...
T Consensus 34 ~~C~~Cg~~GH~~~~C~~~~ 53 (55)
T 1a1t_A 34 KGCWKCGKEGHQMKDCTERQ 53 (55)
T ss_dssp CBCTTTCCBSSCGGGCSSSC
T ss_pred CEeCCCCCcCCccCCCcCcC
Confidence 57999999999999999754
No 21
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=94.30 E-value=0.016 Score=36.38 Aligned_cols=21 Identities=19% Similarity=0.442 Sum_probs=18.6
Q ss_pred ccccccccCccccCCCCCCCC
Q 041240 67 LPNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 67 Lp~fC~~Cg~iGH~~~~C~~~ 87 (113)
.+..||+||..||..++|+..
T Consensus 23 r~~~C~~Cg~~GH~a~~C~~~ 43 (74)
T 2li8_A 23 KGDRCYNCGGLDHHAKECKLP 43 (74)
T ss_dssp TTSCCTTTCCSSSCTTTCSSC
T ss_pred CCCcccccCCcCcCcccCCCC
Confidence 567899999999999999964
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=94.19 E-value=0.0084 Score=35.76 Aligned_cols=19 Identities=37% Similarity=0.795 Sum_probs=0.0
Q ss_pred cccccCccccCCCCCCCCC
Q 041240 70 TSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 70 fC~~Cg~iGH~~~~C~~~~ 88 (113)
.||+||..||..++|+...
T Consensus 3 ~Cf~Cg~~GH~a~~C~~~~ 21 (60)
T 1cl4_A 3 SCFKCGKKGHFAKNCHEHA 21 (60)
T ss_dssp -------------------
T ss_pred ccccCCCCCcCHhhCcCCC
Confidence 6999999999999999864
No 23
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=92.79 E-value=0.023 Score=36.47 Aligned_cols=21 Identities=33% Similarity=0.534 Sum_probs=17.0
Q ss_pred ccccccccCccccCCCCCCCC
Q 041240 67 LPNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 67 Lp~fC~~Cg~iGH~~~~C~~~ 87 (113)
-..+|+.||..||..+.||..
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 457899999999999999975
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=92.28 E-value=0.048 Score=38.25 Aligned_cols=20 Identities=20% Similarity=0.527 Sum_probs=17.0
Q ss_pred ccccccCccccCCCCCCCCC
Q 041240 69 NTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 69 ~fC~~Cg~iGH~~~~C~~~~ 88 (113)
..||+||..||..++|+...
T Consensus 98 ~~C~~Cg~~GH~a~~C~~~~ 117 (148)
T 3ts2_A 98 DRCYNCGGLDHHAKECKLPP 117 (148)
T ss_dssp CCCTTTCCSSCCGGGCCSCC
T ss_pred CcccEeCCccchhhhCCCCC
Confidence 35999999999999999843
No 25
>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=92.06 E-value=0.056 Score=37.88 Aligned_cols=21 Identities=24% Similarity=0.651 Sum_probs=19.0
Q ss_pred cccccccCccccCCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~ 88 (113)
+..|+.||..||..+.||...
T Consensus 119 ~~~C~~Cg~~GH~~r~Cp~~~ 139 (148)
T 3ts2_A 119 PKKCHFCQSINHMVASCPLKA 139 (148)
T ss_dssp CCCCTTTCCSSCCGGGCTTTT
T ss_pred CCcccccCCcCCEeccCcCCC
Confidence 578999999999999999863
No 26
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=92.01 E-value=0.049 Score=34.12 Aligned_cols=21 Identities=24% Similarity=0.651 Sum_probs=18.7
Q ss_pred cccccccCccccCCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNRT 88 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~~ 88 (113)
+..|+.||..||..++|+...
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 578999999999999999753
No 27
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=91.62 E-value=0.076 Score=35.62 Aligned_cols=21 Identities=29% Similarity=0.551 Sum_probs=18.5
Q ss_pred ccccccccCccccCCCCCCCC
Q 041240 67 LPNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 67 Lp~fC~~Cg~iGH~~~~C~~~ 87 (113)
-..+|++||..||..++||..
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 357999999999999999963
No 28
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=90.65 E-value=0.1 Score=35.00 Aligned_cols=17 Identities=35% Similarity=0.714 Sum_probs=8.2
Q ss_pred cccccCccccCCCCCCC
Q 041240 70 TSFLCGKYGHSKDICPN 86 (113)
Q Consensus 70 fC~~Cg~iGH~~~~C~~ 86 (113)
.||+|+..||..++||.
T Consensus 6 ~C~~C~~~GH~~~~Cp~ 22 (124)
T 2lli_A 6 KCNNCSQRGHLKKDCPH 22 (124)
T ss_dssp CCSSCSSSSCCTTTTTS
T ss_pred cccCCCCCCcCcccCcC
Confidence 44555555555444443
No 29
>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=87.93 E-value=0.19 Score=28.36 Aligned_cols=20 Identities=20% Similarity=0.472 Sum_probs=17.4
Q ss_pred cccccccCccccCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~ 87 (113)
..+|..|..+||-..+|+..
T Consensus 20 RpYCd~CEvFGH~t~~Cndd 39 (42)
T 2pzo_E 20 RPYCEICEMFGHWATNCNDD 39 (42)
T ss_dssp -CEETTTTEESSCGGGCCTT
T ss_pred CcccccccccCcccccCCcc
Confidence 36899999999999999864
No 30
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=82.79 E-value=0.48 Score=26.77 Aligned_cols=20 Identities=20% Similarity=0.472 Sum_probs=18.3
Q ss_pred cccccccCccccCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~ 87 (113)
..+|..|-.+||-..+|...
T Consensus 20 RpYCe~CEVFGH~t~eC~dd 39 (42)
T 3e2u_E 20 RPYCEICEMFGHWATNCNDD 39 (42)
T ss_dssp CCEETTTTEESSCGGGCCTT
T ss_pred CcccccceecccccccCCcc
Confidence 57999999999999999875
No 31
>4ayb_H DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_H 2y0s_H 2waq_H 4b1o_H 4b1p_Z 2pmz_H 3hkz_H
Probab=75.31 E-value=3 Score=26.63 Aligned_cols=42 Identities=7% Similarity=0.029 Sum_probs=35.8
Q ss_pred CCcccccHHHHHHHhhccCceEEEecCCCcccccceeEEEEE
Q 041240 1 MALHYYNKKILRMLGQIFGRVFKTDYNTESASRDKFGRLAVE 42 (113)
Q Consensus 1 LP~~y~~~~~l~~I~~~iG~~l~vD~~t~~~~~g~faRV~Ve 42 (113)
||.-..++-+.+.+|-.-|.++++-..+.....--|-|++|.
T Consensus 42 LP~I~~~DPva~~~g~k~GdVvkI~R~S~tag~~~~YR~vv~ 83 (84)
T 4ayb_H 42 LPWIRASDPVARSINAKPGDIIRIIRKSQLYGEVVSYRYVIS 83 (84)
T ss_dssp SCCEESSSHHHHHHTCCTTCEEEEEEEETTTEEEEEEEEEEC
T ss_pred CCeecccCHhHHhhCCCCCCEEEEEEcCCCCCccEEEEEEeC
Confidence 688889999999999999999999988766666667888873
No 32
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Probab=75.03 E-value=0.89 Score=27.08 Aligned_cols=14 Identities=29% Similarity=0.569 Sum_probs=10.6
Q ss_pred ccccccccCcc-ccC
Q 041240 67 LPNTSFLCGKY-GHS 80 (113)
Q Consensus 67 Lp~fC~~Cg~i-GH~ 80 (113)
.|..||.||++ ||.
T Consensus 2 iPVRCFTCGkvi~~~ 16 (55)
T 1ef4_A 2 IPVRCLSCGKPVSAY 16 (55)
T ss_dssp CSSSCSCTTSCCHHH
T ss_pred CCeecCCCCCChhHH
Confidence 58899999974 443
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=74.10 E-value=1 Score=27.76 Aligned_cols=14 Identities=29% Similarity=0.771 Sum_probs=10.8
Q ss_pred ccccccccCcc-ccC
Q 041240 67 LPNTSFLCGKY-GHS 80 (113)
Q Consensus 67 Lp~fC~~Cg~i-GH~ 80 (113)
+|..||.||++ ||.
T Consensus 3 IPVRCFTCGkvi~~k 17 (66)
T 4ayb_N 3 IPIRCFTCGSLIADK 17 (66)
T ss_dssp CCSBCTTTCCBCHHH
T ss_pred CCcccCCCcHhHHHH
Confidence 58999999974 554
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=71.62 E-value=1.3 Score=27.63 Aligned_cols=14 Identities=43% Similarity=0.935 Sum_probs=10.9
Q ss_pred ccccccccCcc-ccC
Q 041240 67 LPNTSFLCGKY-GHS 80 (113)
Q Consensus 67 Lp~fC~~Cg~i-GH~ 80 (113)
.|..||.||++ ||.
T Consensus 3 iPVRCFTCGkvi~~~ 17 (70)
T 1twf_J 3 VPVRCFSCGKVVGDK 17 (70)
T ss_dssp CCSBCTTTCCBCTTC
T ss_pred CCeecCCCCCChHHH
Confidence 58899999974 553
No 35
>1hmj_A RPB5, protein (subunit H); RNA polymerase, archaea; NMR {Methanocaldococcus jannaschii} SCOP: d.78.1.1
Probab=64.04 E-value=12 Score=23.56 Aligned_cols=42 Identities=17% Similarity=0.246 Sum_probs=33.2
Q ss_pred CCcccccHHHHHHHhhccCceEEEecCCCcccccceeEEEEE
Q 041240 1 MALHYYNKKILRMLGQIFGRVFKTDYNTESASRDKFGRLAVE 42 (113)
Q Consensus 1 LP~~y~~~~~l~~I~~~iG~~l~vD~~t~~~~~g~faRV~Ve 42 (113)
||.-.-++-+.+.+|..-|.++++-..+.....--+-|+.|+
T Consensus 34 LPrI~~~DPvar~~G~k~GdVvkI~R~S~taG~~v~YR~Vv~ 75 (78)
T 1hmj_A 34 LPKIYEDDPVIQEIGAKEGDVVRVIRKSPTAGVSIAYRLVIK 75 (78)
T ss_pred CCeeeCcCHhhHHhCCCCCCEEEEEECCCCCCCcEEEEEEEe
Confidence 677788888999999999999999888766555555566654
No 36
>1eik_A RNA polymerase subunit RPB5; RPBH, OCSP, NESG, protein structure initiative, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: d.78.1.1
Probab=53.73 E-value=6.6 Score=24.68 Aligned_cols=38 Identities=11% Similarity=0.169 Sum_probs=29.6
Q ss_pred CCcccccHHHHHHHhhccCceEEEecCCCcccccceeEEE
Q 041240 1 MALHYYNKKILRMLGQIFGRVFKTDYNTESASRDKFGRLA 40 (113)
Q Consensus 1 LP~~y~~~~~l~~I~~~iG~~l~vD~~t~~~~~g~faRV~ 40 (113)
||.-.-++-+.+.+|-.-|.++++-..+. +.|.|+=.|
T Consensus 36 LP~I~~~DPvar~~G~k~GdVvkI~R~S~--taG~~v~YR 73 (77)
T 1eik_A 36 LPKIKTTDPVAKAIGAKRGDIVKIIRKSP--TAEEFVTYR 73 (77)
T ss_dssp SCCCBTTSHHHHGGGCCTTCEEEEEEEET--TTEEEEEEE
T ss_pred CCeeeCcCHhhHHhCCCCCCEEEEEECCC--CCCCcEEEE
Confidence 67788888999999999999999987755 345554433
No 37
>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}
Probab=53.63 E-value=6.1 Score=24.37 Aligned_cols=19 Identities=16% Similarity=0.114 Sum_probs=16.6
Q ss_pred cccccccCccccCCCCCCCC
Q 041240 68 PNTSFLCGKYGHSKDICPNR 87 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~C~~~ 87 (113)
..||+.|+.--|. ..|...
T Consensus 58 ~~FC~~C~~~wH~-~~C~~~ 76 (80)
T 2jmo_A 58 FAFCRECKEAYHE-GECSAV 76 (80)
T ss_dssp CCEETTTTEECCS-SCSSSC
T ss_pred CeeccccCccccC-Cccccc
Confidence 4699999999999 999764
No 38
>2row_A RHO-associated protein kinase 2; ATP-binding, coiled coil, cytoplasm, membrane, metal-binding, nucleotide-binding, phorbol-ester binding; NMR {Rattus norvegicus}
Probab=45.97 E-value=17 Score=22.98 Aligned_cols=24 Identities=17% Similarity=0.131 Sum_probs=20.2
Q ss_pred EEEcCeEEEEEEccccccccccCc
Q 041240 53 FFLDGKLQKVEYEGLPNTSFLCGK 76 (113)
Q Consensus 53 v~v~g~~~~v~YE~Lp~fC~~Cg~ 76 (113)
+...++.|....=..|.||.+|+.
T Consensus 20 ~~~~~H~F~~~~~~~PT~Cd~C~~ 43 (84)
T 2row_A 20 ICHKGHEFIPTLYHFPTNCEACMK 43 (84)
T ss_dssp EEETTEEEEEECCSSCEECSSSSS
T ss_pred EEcCCcceEeEcCCCCcchhhcCH
Confidence 456788888888889999999974
No 39
>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4
Probab=34.66 E-value=11 Score=23.37 Aligned_cols=21 Identities=14% Similarity=0.246 Sum_probs=17.5
Q ss_pred cccccccccCccc---cCCCCCCC
Q 041240 66 GLPNTSFLCGKYG---HSKDICPN 86 (113)
Q Consensus 66 ~Lp~fC~~Cg~iG---H~~~~C~~ 86 (113)
=-..||+.|+.-- |....|..
T Consensus 49 C~~~FC~~C~~~w~~~H~~~sC~~ 72 (86)
T 2ct7_A 49 CHQTFCVRCKRQWEEQHRGRSCED 72 (86)
T ss_dssp TCCEECSSSCSBCCTTTTTSCHHH
T ss_pred CCCccccccCCchhhcCCCCChHH
Confidence 3457999999999 99999975
No 40
>1jyo_A SICP; bacterial pathogenesis, infectious disease, virulence factor, type III secretion, chaperone, unfolded; 1.90A {Salmonella typhimurium} SCOP: d.198.1.1
Probab=34.15 E-value=8.7 Score=26.28 Aligned_cols=22 Identities=23% Similarity=0.409 Sum_probs=19.7
Q ss_pred cHHHHHHHhhccCceEEEecCC
Q 041240 7 NKKILRMLGQIFGRVFKTDYNT 28 (113)
Q Consensus 7 ~~~~l~~I~~~iG~~l~vD~~t 28 (113)
.++.|.++|.++|.||..|.+.
T Consensus 4 ~e~LL~~lg~~lg~pL~fDen~ 25 (130)
T 1jyo_A 4 HQDIIANIGEKLGLPLTFDDNN 25 (130)
T ss_dssp HHHHHHHHHHHHTSCCCCCTTS
T ss_pred HHHHHHHHHHHhCCCcccCCCC
Confidence 4679999999999999999875
No 41
>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=31.85 E-value=14 Score=20.75 Aligned_cols=16 Identities=25% Similarity=0.609 Sum_probs=13.0
Q ss_pred cccccccCccccCCCC
Q 041240 68 PNTSFLCGKYGHSKDI 83 (113)
Q Consensus 68 p~fC~~Cg~iGH~~~~ 83 (113)
...|..||.+||....
T Consensus 6 ~~~CE~CG~~g~~~~F 21 (43)
T 2w0t_A 6 PAVCEMCGIVGTREAF 21 (43)
T ss_dssp EEECTTTCCEEETTTS
T ss_pred eehhhhhcCcchhhhh
Confidence 4579999999987664
No 42
>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=30.60 E-value=15 Score=21.98 Aligned_cols=13 Identities=31% Similarity=0.823 Sum_probs=10.8
Q ss_pred ccccccCccccCC
Q 041240 69 NTSFLCGKYGHSK 81 (113)
Q Consensus 69 ~fC~~Cg~iGH~~ 81 (113)
.+|-.||++|-..
T Consensus 20 PvCvvCGryGeYI 32 (60)
T 2yqp_A 20 PICVVCGRYGEYI 32 (60)
T ss_dssp CCCSSSSSCCSEE
T ss_pred ceEEEecCcccee
Confidence 4699999999764
No 43
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=27.04 E-value=26 Score=23.26 Aligned_cols=20 Identities=40% Similarity=0.795 Sum_probs=16.5
Q ss_pred ccccccCccc---cCCCCCCCCC
Q 041240 69 NTSFLCGKYG---HSKDICPNRT 88 (113)
Q Consensus 69 ~fC~~Cg~iG---H~~~~C~~~~ 88 (113)
..|-.||--| |+.+-||...
T Consensus 72 Y~CpiCGATGd~AHT~kYCP~~~ 94 (106)
T 3alr_A 72 YKCPLCGATGAKAHTKRFCPMVD 94 (106)
T ss_dssp CCCTTTCCCGGGCCCGGGCTTCG
T ss_pred ccCCCCCCcCCcccceecCCCCC
Confidence 4688888888 9999999764
No 44
>1dzf_A DNA-directed RNA polymerases I, II, and III 27 KD polypeptide; RNA polymerase subunit; 1.9A {Saccharomyces cerevisiae} SCOP: c.52.3.1 d.78.1.1 PDB: 1i3q_E 1i50_E 1i6h_E 1k83_E* 1nik_E 1nt9_E 1pqv_E 1r5u_E 1r9s_E* 1r9t_E* 1sfo_E* 1twa_E* 1twc_E* 1twf_E* 1twg_E* 1twh_E* 1wcm_E 1y1v_E 1y1w_E 1y1y_E ...
Probab=22.68 E-value=1e+02 Score=22.69 Aligned_cols=40 Identities=20% Similarity=0.145 Sum_probs=30.3
Q ss_pred CCcccccHHHHHHHhhccCceEEEecCCCcccccceeEEE
Q 041240 1 MALHYYNKKILRMLGQIFGRVFKTDYNTESASRDKFGRLA 40 (113)
Q Consensus 1 LP~~y~~~~~l~~I~~~iG~~l~vD~~t~~~~~g~faRV~ 40 (113)
||.-.-++-+.+.+|-.-|.++++-..+....+--+-|++
T Consensus 175 LP~I~~~DPvar~~g~k~G~vvkI~R~s~tag~~v~YR~v 214 (215)
T 1dzf_A 175 LPRIQRADPVALYLGLKRGEVVKIIRKSETSGRYASYRIC 214 (215)
T ss_dssp SCEECTTCHHHHHHTCCTTCEEEEECTTCSSSTTCEEEEE
T ss_pred CCceeccChhhHHhCCcCCCEEEEEECCCCCCCceEEEEe
Confidence 6777888889999999999999998876544443444443
No 45
>2enn_A NPKC-theta, protein kinase C theta type; zinc binding, DAG/PE-binding protein, diacylglycerol, phorbol ester, TCR, T-cell, structural genomics; NMR {Homo sapiens}
Probab=21.45 E-value=53 Score=19.70 Aligned_cols=22 Identities=9% Similarity=0.152 Sum_probs=15.9
Q ss_pred EcCeEEEEEEccccccccccCc
Q 041240 55 LDGKLQKVEYEGLPNTSFLCGK 76 (113)
Q Consensus 55 v~g~~~~v~YE~Lp~fC~~Cg~ 76 (113)
+.++.|....=..|.||..|+.
T Consensus 21 ~~~H~F~~~~f~~pt~C~~C~~ 42 (77)
T 2enn_A 21 VKCHEFTATFFPQPTFCSVCHE 42 (77)
T ss_dssp SSSCEEEEECCSSCEECSSSCC
T ss_pred CCCCccEEEcCCCCcCccccCh
Confidence 3566666554467999999976
No 46
>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=21.25 E-value=57 Score=20.12 Aligned_cols=23 Identities=17% Similarity=0.322 Sum_probs=15.7
Q ss_pred CeEEEEEEccccccccccCcccc
Q 041240 57 GKLQKVEYEGLPNTSFLCGKYGH 79 (113)
Q Consensus 57 g~~~~v~YE~Lp~fC~~Cg~iGH 79 (113)
+....+.|-++-.+|.+||.++=
T Consensus 44 ~~~s~v~~h~lg~kC~~C~SyNT 66 (79)
T 2k2d_A 44 NGRSTVQFHILGMKCKICESYNT 66 (79)
T ss_dssp CCEEEEECCTTCCCCTTTSCCCE
T ss_pred CCCccCCceeecccCcCCCCcCe
Confidence 34667777777777777777653
No 47
>3h0g_E DNA-directed RNA polymerases I, II, and III subunit rpabc1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=21.15 E-value=91 Score=22.83 Aligned_cols=32 Identities=22% Similarity=0.246 Sum_probs=26.8
Q ss_pred CCcccccHHHHHHHhhccCceEEEecCCCccc
Q 041240 1 MALHYYNKKILRMLGQIFGRVFKTDYNTESAS 32 (113)
Q Consensus 1 LP~~y~~~~~l~~I~~~iG~~l~vD~~t~~~~ 32 (113)
||.-.-++-+.+.+|-.-|.++++-..+....
T Consensus 170 LP~I~~~DPv~~~~g~k~GdVvkI~R~s~tag 201 (210)
T 3h0g_E 170 LPRIQLADPVARYLGLKRGEVVKIVRRSETSG 201 (210)
T ss_dssp SCCCCTTCHHHHHHTCCTTCEEEEECCCCTTS
T ss_pred CCcccccCcchhhhCCCCCCEEEEEeCCCCCC
Confidence 67778888899999999999999988765443
No 48
>1znf_A 31ST zinc finger from XFIN; zinc finger DNA binding domain; NMR {Xenopus laevis} SCOP: g.37.1.1
Probab=21.00 E-value=29 Score=14.78 Aligned_cols=8 Identities=25% Similarity=0.459 Sum_probs=4.2
Q ss_pred ccccccCc
Q 041240 69 NTSFLCGK 76 (113)
Q Consensus 69 ~fC~~Cg~ 76 (113)
..|..||+
T Consensus 2 ~~C~~C~k 9 (27)
T 1znf_A 2 YKCGLCER 9 (27)
T ss_dssp CBCSSSCC
T ss_pred ccCCCCCC
Confidence 34655653
No 49
>2kwq_A Protein MCM10 homolog; DNA replication, DNA binding, zinc motif, zinc ribbon binding protein; NMR {Xenopus laevis}
Probab=20.54 E-value=39 Score=21.72 Aligned_cols=17 Identities=24% Similarity=0.673 Sum_probs=14.3
Q ss_pred EEEEccccc-cccccCcc
Q 041240 61 KVEYEGLPN-TSFLCGKY 77 (113)
Q Consensus 61 ~v~YE~Lp~-fC~~Cg~i 77 (113)
.+.|++||. -|.+||..
T Consensus 57 t~sl~r~P~~~C~~Cg~~ 74 (92)
T 2kwq_A 57 TISLDRLPKKHCSTCGLF 74 (92)
T ss_dssp EEESSSSCCSCCTTTCSC
T ss_pred eeEeeeCCCCCCCCCCCC
Confidence 467799999 99999875
Done!