Query 043522
Match_columns 84
No_of_seqs 101 out of 238
Neff 6.3
Searched_HMMs 29240
Date Mon Mar 25 09:46:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043522.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043522hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1dsq_A Nucleic acid binding pr 96.2 0.0023 7.9E-08 30.6 1.8 22 61-82 3-24 (26)
2 1a6b_B Momulv, zinc finger pro 95.3 0.0083 2.8E-07 31.7 1.7 21 60-80 10-30 (40)
3 1nc8_A Nucleocapsid protein; H 95.2 0.0088 3E-07 29.2 1.6 21 60-80 6-26 (29)
4 1u6p_A GAG polyprotein; MLV, A 94.5 0.017 5.9E-07 32.6 1.8 21 60-80 23-43 (56)
5 2a51_A Nucleocapsid protein; s 94.4 0.021 7.2E-07 29.4 1.8 19 61-79 1-19 (39)
6 2bl6_A Nucleocapsid protein P1 93.7 0.028 9.7E-07 28.5 1.5 17 61-77 20-36 (37)
7 2a51_A Nucleocapsid protein; s 93.0 0.05 1.7E-06 27.9 1.8 18 61-78 22-39 (39)
8 2ec7_A GAG polyprotein (PR55GA 93.0 0.054 1.9E-06 29.1 2.0 19 61-79 28-46 (49)
9 2ec7_A GAG polyprotein (PR55GA 92.9 0.054 1.8E-06 29.2 1.9 20 60-79 6-25 (49)
10 2ihx_A Nucleocapsid (NC) prote 92.5 0.054 1.8E-06 30.4 1.6 21 60-80 30-50 (61)
11 2bl6_A Nucleocapsid protein P1 92.2 0.06 2.1E-06 27.2 1.4 17 62-78 2-18 (37)
12 1a1t_A Nucleocapsid protein; s 91.8 0.091 3.1E-06 28.6 2.0 20 61-80 34-53 (55)
13 1a1t_A Nucleocapsid protein; s 90.8 0.1 3.5E-06 28.4 1.5 20 60-79 12-31 (55)
14 1cl4_A Protein (GAG polyprotei 90.6 0.15 5.1E-06 28.3 2.1 21 60-80 30-50 (60)
15 2ihx_A Nucleocapsid (NC) prote 90.1 0.12 4E-06 29.0 1.4 21 60-80 4-24 (61)
16 2li8_A Protein LIN-28 homolog 89.6 0.27 9.2E-06 28.8 2.7 19 61-79 47-65 (74)
17 3nyb_B Protein AIR2; polya RNA 89.4 0.11 3.6E-06 31.3 0.8 21 60-80 5-25 (83)
18 2cqf_A RNA-binding protein LIN 89.2 0.26 8.9E-06 27.7 2.4 20 60-79 29-48 (63)
19 3nyb_B Protein AIR2; polya RNA 88.7 0.24 8.1E-06 29.7 2.1 23 60-82 46-68 (83)
20 3ts2_A Protein LIN-28 homolog 87.6 0.3 1E-05 31.9 2.2 19 61-79 120-138 (148)
21 2cqf_A RNA-binding protein LIN 87.0 0.23 7.9E-06 28.0 1.2 18 60-77 7-24 (63)
22 2lli_A Protein AIR2; RNA surve 86.6 0.38 1.3E-05 30.0 2.2 21 60-80 64-84 (124)
23 2ysa_A Retinoblastoma-binding 86.4 0.28 9.7E-06 27.3 1.4 20 60-79 7-26 (55)
24 2li8_A Protein LIN-28 homolog 85.1 0.35 1.2E-05 28.3 1.4 18 60-77 24-41 (74)
25 3ts2_A Protein LIN-28 homolog 83.5 0.46 1.6E-05 31.0 1.6 19 60-78 97-115 (148)
26 1cl4_A Protein (GAG polyprotei 83.3 0.23 7.7E-06 27.5 0.0 19 62-80 3-21 (60)
27 2lli_A Protein AIR2; RNA surve 80.2 0.95 3.3E-05 28.2 2.1 19 60-78 105-123 (124)
28 3alr_A Nanos protein; zinc-fin 64.5 2.4 8.3E-05 26.6 1.1 22 59-80 70-94 (106)
29 2hqh_E Restin; beta/BETA struc 57.2 3.4 0.00011 19.7 0.6 18 61-78 4-21 (26)
30 1ne5_A Ergtoxin, cnerg1, ERGTX 34.8 3.3 0.00011 21.7 -1.6 12 66-77 24-35 (42)
31 2ezd_A High mobility group pro 34.4 20 0.00069 16.9 1.3 13 32-44 2-14 (26)
32 2pzo_E CAP-Gly domain-containi 30.4 16 0.00053 19.2 0.6 18 61-78 21-38 (42)
33 2i5o_A DNA polymerase ETA; zin 27.0 30 0.001 17.6 1.4 10 60-69 9-18 (39)
34 2xzm_5 Ribosomal protein S26E 26.0 63 0.0021 20.5 3.0 9 60-68 20-28 (119)
35 3u5c_a 40S ribosomal protein S 24.5 71 0.0024 20.2 3.1 9 60-68 20-28 (119)
36 3lcz_A YCZA, inhibitor of trap 20.9 45 0.0016 17.8 1.4 21 60-80 9-30 (53)
No 1
>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=96.24 E-value=0.0023 Score=30.64 Aligned_cols=22 Identities=27% Similarity=0.445 Sum_probs=17.9
Q ss_pred eeCCccCcCCCCcCCCCCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKVDKGS 82 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~~~~~ 82 (84)
..|-+|++.||..+.|+.+.++
T Consensus 3 ~~Cf~CG~~GH~ardC~~~~~~ 24 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEEXXX 24 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC---
T ss_pred CeeEeCCCCCcccccCCCcccc
Confidence 5799999999999999988743
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=95.25 E-value=0.0083 Score=31.74 Aligned_cols=21 Identities=24% Similarity=0.493 Sum_probs=19.4
Q ss_pred eeeCCccCcCCCCcCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~ 80 (84)
...|-.|++.||-.+.|+...
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSC
T ss_pred CCeeeECCCCCcchhhCcCCc
Confidence 579999999999999999975
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=95.19 E-value=0.0088 Score=29.16 Aligned_cols=21 Identities=33% Similarity=0.773 Sum_probs=18.8
Q ss_pred eeeCCccCcCCCCcCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~ 80 (84)
.+.|-.|++.||..+.|+.+.
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 578999999999999998764
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=94.54 E-value=0.017 Score=32.56 Aligned_cols=21 Identities=24% Similarity=0.493 Sum_probs=19.4
Q ss_pred eeeCCccCcCCCCcCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~ 80 (84)
..+|-.|++.||-.+.|+...
T Consensus 23 ~~~C~~Cge~GH~ardCp~~~ 43 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPKKP 43 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTTCC
T ss_pred CCcceeCCCCCcccccCcCCc
Confidence 579999999999999999875
No 5
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=94.38 E-value=0.021 Score=29.36 Aligned_cols=19 Identities=32% Similarity=0.667 Sum_probs=13.8
Q ss_pred eeCCccCcCCCCcCCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKVD 79 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~~ 79 (84)
++|-+|++.||..+.|+.+
T Consensus 1 i~C~~Cg~~GH~a~~C~~~ 19 (39)
T 2a51_A 1 LTCFNCGKPGHTARMCRQP 19 (39)
T ss_dssp CBCTTTCCBSSCTTTCCSC
T ss_pred CeeeccCCCCcccccCCCC
Confidence 3577777788877777764
No 6
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=93.68 E-value=0.028 Score=28.52 Aligned_cols=17 Identities=24% Similarity=0.556 Sum_probs=10.4
Q ss_pred eeCCccCcCCCCcCCCC
Q 043522 61 VRCSNFEEWGHNVRTCK 77 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~ 77 (84)
..|-+|++.||..+.|+
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 55666666666666665
No 7
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=93.01 E-value=0.05 Score=27.88 Aligned_cols=18 Identities=22% Similarity=0.342 Sum_probs=16.6
Q ss_pred eeCCccCcCCCCcCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKV 78 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~ 78 (84)
..|-+|++.||..+.|++
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 589999999999999985
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=92.98 E-value=0.054 Score=29.13 Aligned_cols=19 Identities=21% Similarity=0.401 Sum_probs=9.7
Q ss_pred eeCCccCcCCCCcCCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKVD 79 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~~ 79 (84)
..|-+|++.||..+.|+..
T Consensus 28 ~~C~~Cg~~GH~~~~C~~~ 46 (49)
T 2ec7_A 28 QGCWKCGKTGHVMAKCPER 46 (49)
T ss_dssp CSCSSSCCSSCCGGGCCSS
T ss_pred CeeCcCCCcCCccCCCcCC
Confidence 3455555555555555543
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=92.88 E-value=0.054 Score=29.16 Aligned_cols=20 Identities=35% Similarity=0.767 Sum_probs=18.3
Q ss_pred eeeCCccCcCCCCcCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVD 79 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~ 79 (84)
...|-+|++.||..+.|+.+
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~ 25 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAP 25 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCS
T ss_pred cCeeeecCCCCcChhhCcCC
Confidence 57899999999999999975
No 10
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=92.52 E-value=0.054 Score=30.40 Aligned_cols=21 Identities=29% Similarity=0.659 Sum_probs=18.6
Q ss_pred eeeCCccCcCCCCcCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~ 80 (84)
...|-+|++.||..+.|+...
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~~ 50 (61)
T 2ihx_A 30 RERCQLCNGMGHNAKQCRKRD 50 (61)
T ss_dssp CSBCTTTCCBSSCGGGCCCCC
T ss_pred CCeeCCCCCCCCCcCCCcCCC
Confidence 368999999999999999876
No 11
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=92.23 E-value=0.06 Score=27.25 Aligned_cols=17 Identities=29% Similarity=0.598 Sum_probs=15.5
Q ss_pred eCCccCcCCCCcCCCCC
Q 043522 62 RCSNFEEWGHNVRTCKV 78 (84)
Q Consensus 62 ~Cs~C~~~GHn~~tC~~ 78 (84)
.|-+|++.||..+.|+.
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 69999999999999975
No 12
>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=91.78 E-value=0.091 Score=28.65 Aligned_cols=20 Identities=20% Similarity=0.503 Sum_probs=14.1
Q ss_pred eeCCccCcCCCCcCCCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~~~ 80 (84)
..|-+|++.||..+.|+...
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 46777777777777777643
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=90.82 E-value=0.1 Score=28.45 Aligned_cols=20 Identities=30% Similarity=0.702 Sum_probs=18.2
Q ss_pred eeeCCccCcCCCCcCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVD 79 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~ 79 (84)
...|-+|++.||..+.|+.+
T Consensus 12 ~~~C~~Cg~~GH~a~~C~~~ 31 (55)
T 1a1t_A 12 TVKCFNCGKEGHIAKNCRAP 31 (55)
T ss_dssp TCBCTTTCCBSSCGGGCSSC
T ss_pred CcceeeeCCCCcChhhcCCC
Confidence 47899999999999999876
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=90.62 E-value=0.15 Score=28.25 Aligned_cols=21 Identities=19% Similarity=0.316 Sum_probs=19.0
Q ss_pred eeeCCccCcCCCCcCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~ 80 (84)
...|-+|++.||..+.|+...
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 30 PGLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp CCSCSSCSSCSSCSTTCCCTT
T ss_pred CcceeECCCCCCccCcCCCcc
Confidence 468999999999999999875
No 15
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=90.14 E-value=0.12 Score=28.97 Aligned_cols=21 Identities=19% Similarity=0.311 Sum_probs=18.7
Q ss_pred eeeCCccCcCCCCcCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~ 80 (84)
...|-+|++.||..+.|+...
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~ 24 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKR 24 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTT
T ss_pred CCcccccCCCCeehhhCcCCc
Confidence 468999999999999999864
No 16
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=89.60 E-value=0.27 Score=28.75 Aligned_cols=19 Identities=21% Similarity=0.531 Sum_probs=11.7
Q ss_pred eeCCccCcCCCCcCCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKVD 79 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~~ 79 (84)
..|-+|++.||..+.|+..
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 4566666666666666554
No 17
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=89.36 E-value=0.11 Score=31.25 Aligned_cols=21 Identities=19% Similarity=0.303 Sum_probs=17.2
Q ss_pred eeeCCccCcCCCCcCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~ 80 (84)
.+.|-+|++.||..+.||..+
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~~~ 25 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPSIW 25 (83)
T ss_dssp --CCSSSCCSSSCGGGCGGGT
T ss_pred cCCCCCCCCCCCccccCCCcc
Confidence 478999999999999998753
No 18
>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=89.23 E-value=0.26 Score=27.74 Aligned_cols=20 Identities=20% Similarity=0.511 Sum_probs=14.9
Q ss_pred eeeCCccCcCCCCcCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVD 79 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~ 79 (84)
...|-+|++.||..+.|+..
T Consensus 29 ~~~C~~Cg~~GH~ar~Cp~~ 48 (63)
T 2cqf_A 29 PKKCHFCQSISHMVASCPLK 48 (63)
T ss_dssp SSCCTTTCCSSSCTTTCTGG
T ss_pred CCccCCcCCcCCccCcCCCc
Confidence 46777788888888877764
No 19
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=88.68 E-value=0.24 Score=29.67 Aligned_cols=23 Identities=30% Similarity=0.505 Sum_probs=20.1
Q ss_pred eeeCCccCcCCCCcCCCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDKGS 82 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~~~ 82 (84)
.+.|-+|++.||..+-|+....|
T Consensus 46 ~~~CYnCG~~GH~~rdC~~~r~s 68 (83)
T 3nyb_B 46 TIYCYNCGGKGHFGDDCKEKRSS 68 (83)
T ss_dssp CCBCSSSSCBSSCGGGCSSCCSC
T ss_pred CCeecccCCCCcCcccCCccccC
Confidence 47899999999999999987643
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=87.63 E-value=0.3 Score=31.91 Aligned_cols=19 Identities=21% Similarity=0.531 Sum_probs=11.5
Q ss_pred eeCCccCcCCCCcCCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKVD 79 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~~ 79 (84)
..|-+|++.||..+.|+..
T Consensus 120 ~~C~~Cg~~GH~~r~Cp~~ 138 (148)
T 3ts2_A 120 KKCHFCQSINHMVASCPLK 138 (148)
T ss_dssp CCCTTTCCSSCCGGGCTTT
T ss_pred CcccccCCcCCEeccCcCC
Confidence 4566666666666666654
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=86.99 E-value=0.23 Score=27.96 Aligned_cols=18 Identities=33% Similarity=0.689 Sum_probs=16.5
Q ss_pred eeeCCccCcCCCCcCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCK 77 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~ 77 (84)
...|-+|++.||..+.|+
T Consensus 7 ~~~C~~Cg~~GH~a~~C~ 24 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECK 24 (63)
T ss_dssp CCCCSSSCCSSSCTTTCC
T ss_pred CCcccccCCCCcChhhCC
Confidence 468999999999999998
No 22
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=86.59 E-value=0.38 Score=30.04 Aligned_cols=21 Identities=19% Similarity=0.303 Sum_probs=18.1
Q ss_pred eeeCCccCcCCCCcCCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~~ 80 (84)
.+.|-+|++.||..+.|+..+
T Consensus 64 ~~~C~~Cg~~GH~~~~Cp~~~ 84 (124)
T 2lli_A 64 KVQCTLCKSKKHSKERCPSIW 84 (124)
T ss_dssp CCSSSSSCSSCCCTTTCCCST
T ss_pred CccCCCCCcCCcchhhCCCcc
Confidence 368999999999999999865
No 23
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=86.44 E-value=0.28 Score=27.34 Aligned_cols=20 Identities=20% Similarity=0.556 Sum_probs=17.6
Q ss_pred eeeCCccCcCCCCcCCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKVD 79 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~~ 79 (84)
...|=+|++.||-.+-|+..
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGG
T ss_pred CCccccCCCcCcccccCCCC
Confidence 46899999999999999943
No 24
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=85.15 E-value=0.35 Score=28.26 Aligned_cols=18 Identities=33% Similarity=0.689 Sum_probs=16.7
Q ss_pred eeeCCccCcCCCCcCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCK 77 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~ 77 (84)
...|-+|++.||..+.|+
T Consensus 24 ~~~C~~Cg~~GH~a~~C~ 41 (74)
T 2li8_A 24 GDRCYNCGGLDHHAKECK 41 (74)
T ss_dssp TSCCTTTCCSSSCTTTCS
T ss_pred CCcccccCCcCcCcccCC
Confidence 578999999999999998
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=83.47 E-value=0.46 Score=30.99 Aligned_cols=19 Identities=32% Similarity=0.684 Sum_probs=17.4
Q ss_pred eeeCCccCcCCCCcCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKV 78 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~ 78 (84)
..+|-+|++.||-.+.|+.
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~ 115 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKL 115 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCS
T ss_pred CCcccEeCCccchhhhCCC
Confidence 4789999999999999986
No 26
>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=83.34 E-value=0.23 Score=27.47 Aligned_cols=19 Identities=21% Similarity=0.499 Sum_probs=0.0
Q ss_pred eCCccCcCCCCcCCCCCCC
Q 043522 62 RCSNFEEWGHNVRTCKVDK 80 (84)
Q Consensus 62 ~Cs~C~~~GHn~~tC~~~~ 80 (84)
.|-+|++.||..+.|+...
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 6899999999999999864
No 27
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=80.17 E-value=0.95 Score=28.15 Aligned_cols=19 Identities=32% Similarity=0.510 Sum_probs=17.7
Q ss_pred eeeCCccCcCCCCcCCCCC
Q 043522 60 SVRCSNFEEWGHNVRTCKV 78 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~~tC~~ 78 (84)
.+.|-+|++.||..+.|++
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 5899999999999999986
No 28
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=64.49 E-value=2.4 Score=26.61 Aligned_cols=22 Identities=23% Similarity=0.446 Sum_probs=19.1
Q ss_pred CeeeCCccCcCC---CCcCCCCCCC
Q 043522 59 SSVRCSNFEEWG---HNVRTCKVDK 80 (84)
Q Consensus 59 ~~~~Cs~C~~~G---Hn~~tC~~~~ 80 (84)
..+.|..|+..| |..+-||+..
T Consensus 70 R~Y~CpiCGATGd~AHT~kYCP~~~ 94 (106)
T 3alr_A 70 RQYKCPLCGATGAKAHTKRFCPMVD 94 (106)
T ss_dssp GGCCCTTTCCCGGGCCCGGGCTTCG
T ss_pred ccccCCCCCCcCCcccceecCCCCC
Confidence 368999999999 8899999875
No 29
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=57.17 E-value=3.4 Score=19.73 Aligned_cols=18 Identities=28% Similarity=0.529 Sum_probs=15.7
Q ss_pred eeCCccCcCCCCcCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKV 78 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~ 78 (84)
--|-.|..+||-...|..
T Consensus 4 pYCe~CE~FGH~t~~C~d 21 (26)
T 2hqh_E 4 PYCEICEMFGHWATNCND 21 (26)
T ss_dssp CEETTTTEESSCGGGCCT
T ss_pred ccchHHHHhCcccccCCc
Confidence 469999999999999964
No 30
>1ne5_A Ergtoxin, cnerg1, ERGTX; alpha-helix, triple-stranded beta-sheet; NMR {Synthetic} SCOP: g.3.7.2 PDB: 1px9_A
Probab=34.80 E-value=3.3 Score=21.67 Aligned_cols=12 Identities=42% Similarity=0.623 Sum_probs=10.1
Q ss_pred cCcCCCCcCCCC
Q 043522 66 FEEWGHNVRTCK 77 (84)
Q Consensus 66 C~~~GHn~~tC~ 77 (84)
|+..|||.-||-
T Consensus 24 ckkagh~~gtc~ 35 (42)
T 1ne5_A 24 CKNAGHNGGTCM 35 (42)
T ss_dssp HHHHTSSCEEEE
T ss_pred HHhhCCCCceEE
Confidence 688999998884
No 31
>2ezd_A High mobility group protein HMG-I/HMG-Y; DNA binding protein, minor groove DNA binding, transcriptional CO-activator, architectural factor; HET: DNA; NMR {Homo sapiens} SCOP: j.10.1.1 PDB: 2eze_A*
Probab=34.36 E-value=20 Score=16.86 Aligned_cols=13 Identities=38% Similarity=0.675 Sum_probs=8.9
Q ss_pred CCCCCCCCCCCcc
Q 043522 32 PIIIRTTGRPQTK 44 (84)
Q Consensus 32 P~~~r~~GRPkk~ 44 (84)
|.-+|+-||||-.
T Consensus 2 ptpKrpRgRpkGS 14 (26)
T 2ezd_A 2 PTPKRPRGRPKGS 14 (26)
T ss_dssp CSCCCCSSCCTTC
T ss_pred CCCcCCCCCcCcc
Confidence 4447788999743
No 32
>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=30.41 E-value=16 Score=19.23 Aligned_cols=18 Identities=28% Similarity=0.529 Sum_probs=16.0
Q ss_pred eeCCccCcCCCCcCCCCC
Q 043522 61 VRCSNFEEWGHNVRTCKV 78 (84)
Q Consensus 61 ~~Cs~C~~~GHn~~tC~~ 78 (84)
--|-.|.-+||-...|.-
T Consensus 21 pYCd~CEvFGH~t~~Cnd 38 (42)
T 2pzo_E 21 PYCEICEMFGHWATNCND 38 (42)
T ss_dssp CEETTTTEESSCGGGCCT
T ss_pred cccccccccCcccccCCc
Confidence 479999999999999964
No 33
>2i5o_A DNA polymerase ETA; zinc finger, DNA polymerase,POL ETA, UBZ, ubiquitin-binding zinc finger, translesion synthesis, ubiquitin-binding domain; HET: DNA; NMR {Homo sapiens}
Probab=27.02 E-value=30 Score=17.61 Aligned_cols=10 Identities=20% Similarity=0.438 Sum_probs=8.2
Q ss_pred eeeCCccCcC
Q 043522 60 SVRCSNFEEW 69 (84)
Q Consensus 60 ~~~Cs~C~~~ 69 (84)
...|++|++.
T Consensus 9 ~~~C~~C~~~ 18 (39)
T 2i5o_A 9 QVPCEKCGSL 18 (39)
T ss_dssp EEECTTTCCE
T ss_pred CcccccccCc
Confidence 6799999864
No 34
>2xzm_5 Ribosomal protein S26E containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_5
Probab=26.02 E-value=63 Score=20.48 Aligned_cols=9 Identities=33% Similarity=0.726 Sum_probs=7.8
Q ss_pred eeeCCccCc
Q 043522 60 SVRCSNFEE 68 (84)
Q Consensus 60 ~~~Cs~C~~ 68 (84)
.++|..|+.
T Consensus 20 ~V~C~nCgr 28 (119)
T 2xzm_5 20 TVPCTNCGR 28 (119)
T ss_dssp EEECTTTCC
T ss_pred cEeeCCccc
Confidence 799999975
No 35
>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=24.47 E-value=71 Score=20.23 Aligned_cols=9 Identities=44% Similarity=0.866 Sum_probs=7.7
Q ss_pred eeeCCccCc
Q 043522 60 SVRCSNFEE 68 (84)
Q Consensus 60 ~~~Cs~C~~ 68 (84)
.++|+.|+.
T Consensus 20 ~V~C~nCgr 28 (119)
T 3u5c_a 20 PVRCVNCSK 28 (119)
T ss_dssp EEECTTTCC
T ss_pred cEeeccccc
Confidence 799999974
No 36
>3lcz_A YCZA, inhibitor of trap, regulated by T-box (Trp) seque; anti-trap, tryptophan RNA-binding attenuation PROT transcription attenuation; 2.06A {Bacillus licheniformis} PDB: 3ld0_A
Probab=20.88 E-value=45 Score=17.82 Aligned_cols=21 Identities=19% Similarity=0.355 Sum_probs=14.4
Q ss_pred eeeCCccCcCCCCc-CCCCCCC
Q 043522 60 SVRCSNFEEWGHNV-RTCKVDK 80 (84)
Q Consensus 60 ~~~Cs~C~~~GHn~-~tC~~~~ 80 (84)
...|..|+..|--. ..|+.=.
T Consensus 9 ~~~C~~C~GsG~~i~~~C~~C~ 30 (53)
T 3lcz_A 9 ETTCPNCNGSGREEPEPCPKCL 30 (53)
T ss_dssp EEECTTTTTSCEETTEECTTTT
T ss_pred eccCcCCcccccCCCCcCCCCC
Confidence 57899999988753 3455443
Done!