Query 004769
Match_columns 731
No_of_seqs 280 out of 1251
Neff 8.4
Searched_HMMs 29240
Date Mon Mar 25 05:13:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004769.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/004769hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ayd_A WRKY transcription fact 94.9 0.079 2.7E-06 42.0 7.2 58 65-148 16-73 (76)
2 1wj2_A Probable WRKY transcrip 94.3 0.061 2.1E-06 42.8 5.2 58 65-148 19-76 (78)
3 1a6b_B Momulv, zinc finger pro 92.6 0.11 3.7E-06 35.8 3.5 24 699-722 10-33 (40)
4 1nc8_A Nucleocapsid protein; H 91.6 0.088 3E-06 33.6 2.0 22 698-719 5-26 (29)
5 1u6p_A GAG polyprotein; MLV, A 91.0 0.18 6.3E-06 37.5 3.5 24 699-722 23-46 (56)
6 1dsq_A Nucleic acid binding pr 90.8 0.13 4.3E-06 31.9 2.1 21 701-721 4-24 (26)
7 2ysa_A Retinoblastoma-binding 86.0 0.36 1.2E-05 35.8 2.1 26 698-723 6-31 (55)
8 3u5c_N S27A, YS15, 40S ribosom 84.7 1.4 4.8E-05 39.4 5.6 85 159-243 24-143 (151)
9 3j20_Q 30S ribosomal protein S 83.8 0.71 2.4E-05 41.8 3.4 85 159-243 24-150 (158)
10 2a51_A Nucleocapsid protein; s 83.6 0.67 2.3E-05 31.6 2.5 17 701-717 23-39 (39)
11 2xzm_O RPS13E; ribosome, trans 81.9 1.9 6.3E-05 38.6 5.3 84 159-242 26-144 (153)
12 2rpr_A Flywch-type zinc finger 81.0 2.3 7.9E-05 34.7 5.3 24 117-149 51-74 (87)
13 2ec7_A GAG polyprotein (PR55GA 79.6 0.96 3.3E-05 32.6 2.2 19 700-718 28-46 (49)
14 3alr_A Nanos protein; zinc-fin 77.9 0.74 2.5E-05 38.2 1.3 26 698-723 70-98 (106)
15 2ec7_A GAG polyprotein (PR55GA 77.2 1.2 4.1E-05 32.1 2.1 21 698-718 5-25 (49)
16 2a51_A Nucleocapsid protein; s 74.4 1.6 5.3E-05 29.7 2.0 18 701-718 2-19 (39)
17 2bl6_A Nucleocapsid protein P1 73.2 1.8 6E-05 29.1 2.0 16 702-717 3-18 (37)
18 2li8_A Protein LIN-28 homolog 70.6 3.4 0.00012 32.6 3.4 21 700-720 47-67 (74)
19 1a1t_A Nucleocapsid protein; s 70.2 2.1 7.2E-05 31.5 2.1 20 700-719 34-53 (55)
20 2bl6_A Nucleocapsid protein P1 68.8 1.6 5.6E-05 29.2 1.1 17 701-717 21-37 (37)
21 1cl4_A Protein (GAG polyprotei 67.5 3.6 0.00012 30.9 2.9 21 700-720 31-51 (60)
22 1a1t_A Nucleocapsid protein; s 66.3 2.1 7.2E-05 31.5 1.3 21 698-718 11-31 (55)
23 2li8_A Protein LIN-28 homolog 61.7 3.5 0.00012 32.5 1.9 21 698-718 23-43 (74)
24 2cqf_A RNA-binding protein LIN 59.9 4.4 0.00015 30.8 2.1 20 700-719 30-49 (63)
25 2ihx_A Nucleocapsid (NC) prote 58.5 3.9 0.00013 30.9 1.6 20 700-719 31-50 (61)
26 2ihx_A Nucleocapsid (NC) prote 58.4 3.6 0.00012 31.0 1.4 19 700-718 5-23 (61)
27 2cqf_A RNA-binding protein LIN 57.8 6.4 0.00022 29.9 2.7 21 698-718 6-26 (63)
28 3nyb_B Protein AIR2; polya RNA 57.2 3.1 0.00011 33.6 0.9 20 699-718 5-24 (83)
29 1je8_A Nitrate/nitrite respons 57.0 22 0.00074 28.2 6.0 74 143-230 4-77 (82)
30 3ts2_A Protein LIN-28 homolog 52.9 5.3 0.00018 36.1 1.8 24 700-723 120-143 (148)
31 3ts2_A Protein LIN-28 homolog 51.5 6.9 0.00024 35.4 2.3 20 699-718 97-116 (148)
32 1x9b_A Hypothetical membrane p 40.1 23 0.00077 25.0 2.9 45 360-404 7-51 (53)
33 2l69_A Rossmann 2X3 fold prote 36.2 24 0.00082 28.5 2.9 28 47-74 7-34 (134)
34 1tc3_C Protein (TC3 transposas 34.8 35 0.0012 23.1 3.5 42 161-213 4-45 (51)
35 1cl4_A Protein (GAG polyprotei 32.7 9.3 0.00032 28.5 0.0 20 701-720 3-22 (60)
36 2lli_A Protein AIR2; RNA surve 32.1 22 0.00076 30.8 2.4 20 699-718 105-124 (124)
37 2lli_A Protein AIR2; RNA surve 31.4 23 0.00079 30.7 2.4 21 700-720 65-85 (124)
38 2ezd_A High mobility group pro 31.1 34 0.0012 20.5 2.2 17 673-689 2-18 (26)
39 3nyb_B Protein AIR2; polya RNA 30.7 19 0.00066 28.9 1.6 21 700-720 47-67 (83)
40 1p4w_A RCSB; solution structur 27.7 1.6E+02 0.0054 24.1 6.9 61 160-232 32-92 (99)
41 3ulq_B Transcriptional regulat 26.9 1.1E+02 0.0039 24.5 5.7 58 160-229 27-84 (90)
42 2lju_A Putative oxidoreductase 26.8 61 0.0021 27.4 4.0 34 37-74 55-88 (108)
43 1fse_A GERE; helix-turn-helix 26.7 1.7E+02 0.0056 21.8 6.5 60 160-231 9-68 (74)
44 2l0z_A Glycoprotein G2; zinc-b 22.8 25 0.00084 23.9 0.7 16 534-549 20-35 (42)
No 1
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=94.93 E-value=0.079 Score=42.03 Aligned_cols=58 Identities=17% Similarity=0.417 Sum_probs=43.9
Q ss_pred cCceEEEcceeccCCCCcceEEEEeeecCCCCCCCCCCCCccccccCCcccccccceEEEEEeecCCCCcEEEEEEeCCc
Q 004769 65 CGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVH 144 (731)
Q Consensus 65 ~GF~ir~~~s~~~~~~gk~~~~~~~~C~r~G~~~~k~~~~~~~~r~~~s~rtgCpa~i~~~~~~~~~~~~W~V~~~~~~H 144 (731)
-||..|+--.+..++. ..-|.+|.|+. .||||+=.|.+.. .+....++....+|
T Consensus 16 DGy~WRKYGQK~ikgs--~~PRsYYrCt~----------------------~gC~a~K~Ver~~--~d~~~~~~tY~G~H 69 (76)
T 2ayd_A 16 DGYRWRKYGQKSVKGS--PYPRSYYRCSS----------------------PGCPVKKHVERSS--HDTKLLITTYEGKH 69 (76)
T ss_dssp CSSCEEEEEEECCTTC--SSCEEEEEECS----------------------TTCCCEEEEEECS--SSTTEEEEEEESCC
T ss_pred CCchhhhCcccccCCC--CCceeEeEcCC----------------------CCCCceeeEEEEC--CCCCEEEEEEccCc
Confidence 4888888766655543 34567788963 2799999888864 45788889999999
Q ss_pred cCCC
Q 004769 145 NHEL 148 (731)
Q Consensus 145 NH~l 148 (731)
||++
T Consensus 70 ~H~~ 73 (76)
T 2ayd_A 70 DHDM 73 (76)
T ss_dssp SSCC
T ss_pred CCCC
Confidence 9997
No 2
>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*
Probab=94.32 E-value=0.061 Score=42.83 Aligned_cols=58 Identities=24% Similarity=0.433 Sum_probs=43.3
Q ss_pred cCceEEEcceeccCCCCcceEEEEeeecCCCCCCCCCCCCccccccCCcccccccceEEEEEeecCCCCcEEEEEEeCCc
Q 004769 65 CGFSIRRHRTRGKDGVGRGVTRRDFTCHRGGFPQMKPSDDGKMQRNRKSSRCGCQAYMRIVKRVDFDVPEWHVTGFSNVH 144 (731)
Q Consensus 65 ~GF~ir~~~s~~~~~~gk~~~~~~~~C~r~G~~~~k~~~~~~~~r~~~s~rtgCpa~i~~~~~~~~~~~~W~V~~~~~~H 144 (731)
-||..|+--.+..++. ..-|.+|.|+. .||||+=.|.+.. .+....++.+..+|
T Consensus 19 DGy~WRKYGQK~ikgs--~~PRsYYrCt~----------------------~gC~a~K~Ver~~--~d~~~~~~tY~G~H 72 (78)
T 1wj2_A 19 DGYRWRKYGQKVVKGN--PYPRSYYKCTT----------------------PGCGVRKHVERAA--TDPKAVVTTYEGKH 72 (78)
T ss_dssp SSSCBCCCEEECCTTC--SSCEEEEEEEC----------------------SSCEEEEEEEEET--TTTSEEEEEEESCC
T ss_pred CCchhhhCcccccCCC--cCeeEEeecCc----------------------CCCCcEeeEEEEc--CCCCEEEEEEeeEc
Confidence 4788887766555543 34567889974 2799999888864 45778888999999
Q ss_pred cCCC
Q 004769 145 NHEL 148 (731)
Q Consensus 145 NH~l 148 (731)
||++
T Consensus 73 ~H~~ 76 (78)
T 1wj2_A 73 NHDL 76 (78)
T ss_dssp SSCC
T ss_pred CCCC
Confidence 9997
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=92.61 E-value=0.11 Score=35.82 Aligned_cols=24 Identities=25% Similarity=0.419 Sum_probs=20.5
Q ss_pred cccCCccCCCCCCCCCCCCcCcCC
Q 004769 699 HCSEPCCRHFGHDASSCPIMGSDT 722 (731)
Q Consensus 699 ~~~Cs~C~~~gHn~~tCp~~~~~~ 722 (731)
..+|-+|++.||-.+.||....+.
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~~~~ 33 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKPRGP 33 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSCCCT
T ss_pred CCeeeECCCCCcchhhCcCCcccC
Confidence 346999999999999999987654
No 4
>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=91.58 E-value=0.088 Score=33.57 Aligned_cols=22 Identities=23% Similarity=0.285 Sum_probs=18.6
Q ss_pred ccccCCccCCCCCCCCCCCCcC
Q 004769 698 RHCSEPCCRHFGHDASSCPIMG 719 (731)
Q Consensus 698 r~~~Cs~C~~~gHn~~tCp~~~ 719 (731)
+.+.|-+|++.||-.+.||.-.
T Consensus 5 ~~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 5 KVIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCCBCTTTSCBSSCGGGCCSSS
T ss_pred CCCEEEECCccccCHhHCcccc
Confidence 4567999999999999998653
No 5
>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=91.05 E-value=0.18 Score=37.50 Aligned_cols=24 Identities=25% Similarity=0.419 Sum_probs=20.4
Q ss_pred cccCCccCCCCCCCCCCCCcCcCC
Q 004769 699 HCSEPCCRHFGHDASSCPIMGSDT 722 (731)
Q Consensus 699 ~~~Cs~C~~~gHn~~tCp~~~~~~ 722 (731)
...|-+|++.||-.+.||....+.
T Consensus 23 ~~~C~~Cge~GH~ardCp~~~~~~ 46 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPKKPRGP 46 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTTCCCSS
T ss_pred CCcceeCCCCCcccccCcCCcccc
Confidence 446999999999999999987653
No 6
>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=90.79 E-value=0.13 Score=31.90 Aligned_cols=21 Identities=19% Similarity=0.262 Sum_probs=16.7
Q ss_pred cCCccCCCCCCCCCCCCcCcC
Q 004769 701 SEPCCRHFGHDASSCPIMGSD 721 (731)
Q Consensus 701 ~Cs~C~~~gHn~~tCp~~~~~ 721 (731)
.|-+|++.||..+.||.....
T Consensus 4 ~Cf~CG~~GH~ardC~~~~~~ 24 (26)
T 1dsq_A 4 VCFSCGKTGHIKRDCKEEXXX 24 (26)
T ss_dssp BCTTTCCBSSCTTTTTCC---
T ss_pred eeEeCCCCCcccccCCCcccc
Confidence 488999999999999987654
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=86.00 E-value=0.36 Score=35.76 Aligned_cols=26 Identities=23% Similarity=0.438 Sum_probs=21.0
Q ss_pred ccccCCccCCCCCCCCCCCCcCcCCc
Q 004769 698 RHCSEPCCRHFGHDASSCPIMGSDTL 723 (731)
Q Consensus 698 r~~~Cs~C~~~gHn~~tCp~~~~~~~ 723 (731)
+.+.|=+|++.||-.+-||....+..
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~~~~~~f 31 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPTNGDKNF 31 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSGGGCSSC
T ss_pred CCCccccCCCcCcccccCCCCCCCCc
Confidence 44569999999999999997765544
No 8
>3u5c_N S27A, YS15, 40S ribosomal protein S13; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_O 3o30_G 3o2z_G 3u5g_N 3iz6_O 3jyv_O* 1ysh_E 1s1h_O
Probab=84.69 E-value=1.4 Score=39.37 Aligned_cols=85 Identities=20% Similarity=0.284 Sum_probs=59.0
Q ss_pred cCCCCCcc-hhhHHHHhhhcCCcHHHHHHHHHHhhCcc----------------CCCCCcchhhhhhhHHHhhhc-----
Q 004769 159 AYCSITPD-DKTRICMFAKAGMSVRQMLRLMELEKGVK----------------LGCLPFTEIDVRNLLQSFRNV----- 216 (731)
Q Consensus 159 shR~ls~~-~k~~i~~l~~~g~~~~~I~~~l~~~~g~~----------------~~~~~~~~~Di~N~~~~~r~~----- 216 (731)
+.=+++++ ..+.|..|.+.|++|+||=-+|+.++|+. .+-.+-.+.|++|++.+.-..
T Consensus 24 ~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vtG~kI~rILk~~glapeiPEDL~~LikKAv~lrkHLe 103 (151)
T 3u5c_N 24 AWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHGVTQARVITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLE 103 (151)
T ss_dssp SSCCSCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSCHHHHSSSCHHHHHHHTTCCCSSCHHHHHHHHHHHHHHHHHH
T ss_pred CCcCCCHHHHHHHHHHHHHCCCCHHHhhhHHhccCCCCCeeeecccHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 34344444 46778899999999999999999999872 122345678999987664311
Q ss_pred -------------cccccHHHHHHHHHHhhcCCCCcEEEE
Q 004769 217 -------------NRDYDAIDLIAMCKKMKDKNPNFQYDF 243 (731)
Q Consensus 217 -------------~~~~d~~~l~~~~~~~~~~np~~~~~~ 243 (731)
..+.....|..|.+....--|+|.|+-
T Consensus 104 ~n~kD~~sK~~L~liESkI~RL~rYYk~~~~LP~~WkY~~ 143 (151)
T 3u5c_N 104 RNRKDKDAKFRLILIESRIHRLARYYRTVAVLPPNWKYES 143 (151)
T ss_dssp HCTTCHHHHHHHHHHHHHHHHHHHHHHHTTSSCTTCCCCH
T ss_pred HccccHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCcCCH
Confidence 123345577888888777778887653
No 9
>3j20_Q 30S ribosomal protein S15P/S13E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=83.83 E-value=0.71 Score=41.76 Aligned_cols=85 Identities=18% Similarity=0.209 Sum_probs=58.2
Q ss_pred cCCCCCcc-hhhHHHHhhhcCCcHHHHHHHHHHhhCccC-----------------------CCCCcchhhhhhhHHHhh
Q 004769 159 AYCSITPD-DKTRICMFAKAGMSVRQMLRLMELEKGVKL-----------------------GCLPFTEIDVRNLLQSFR 214 (731)
Q Consensus 159 shR~ls~~-~k~~i~~l~~~g~~~~~I~~~l~~~~g~~~-----------------------~~~~~~~~Di~N~~~~~r 214 (731)
+.=+++++ ..+.|..|.+.|++|+||=-+|+.++|+.. +-.+=.+.|++|+..+..
T Consensus 24 ~W~~~~~eev~~~i~klakkG~~pSqIG~~LRD~~gip~Vk~vt~~~~~~~G~ki~~iLk~~gl~p~iPEDL~~Lt~RI~ 103 (158)
T 3j20_Q 24 IWVEYTVEEIENLVVKLRKEGYSTAMIGTILRDQYGIPSVKLFKDPDNPNRNLTITRILEKHGLAPEIPEDLMFLIRRAV 103 (158)
T ss_dssp SSSCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHTTCCSCHHHHHCSSSTTSCCCTHHHHHHHTCSCSSCHHHHHHHHHHH
T ss_pred CCcCCCHHHHHHHHHHHHHCCCCHHHhhHHHhccCCCCCeeeccccccccCcCcHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 34344444 466788999999999999999999988720 112334578888776654
Q ss_pred hc------------------cccccHHHHHHHHHHhhcCCCCcEEEE
Q 004769 215 NV------------------NRDYDAIDLIAMCKKMKDKNPNFQYDF 243 (731)
Q Consensus 215 ~~------------------~~~~d~~~l~~~~~~~~~~np~~~~~~ 243 (731)
.. ...+....|++|+++...--|.|.|+-
T Consensus 104 ~Lt~HLk~hkKD~hSrRgL~~lv~kRrrLL~YLk~kd~lp~~w~Y~~ 150 (158)
T 3j20_Q 104 NLRKHLEQHPKDLHSMRGLQLIESKIRRLVKYYKRKGKLPKNWRYDP 150 (158)
T ss_dssp HHHHHHHHCCCCSHHHHHHHHHHHHHHHHHHHHHHHTSSCTTCCCCH
T ss_pred HHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCceECH
Confidence 32 123455688999988776677787753
No 10
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=83.63 E-value=0.67 Score=31.63 Aligned_cols=17 Identities=24% Similarity=0.364 Sum_probs=15.2
Q ss_pred cCCccCCCCCCCCCCCC
Q 004769 701 SEPCCRHFGHDASSCPI 717 (731)
Q Consensus 701 ~Cs~C~~~gHn~~tCp~ 717 (731)
.|-+|++.||-.+.||+
T Consensus 23 ~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 23 GCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp SCTTTCCSSSCTTTSCC
T ss_pred ccccCCCCCCccCcCcC
Confidence 58899999999999985
No 11
>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_O 1ysh_E 3jyv_O* 1s1h_O
Probab=81.91 E-value=1.9 Score=38.63 Aligned_cols=84 Identities=20% Similarity=0.293 Sum_probs=58.3
Q ss_pred cCCCCCcc-hhhHHHHhhhcCCcHHHHHHHHHHhhCcc----------------CCCCCcchhhhhhhHHHh---hhc--
Q 004769 159 AYCSITPD-DKTRICMFAKAGMSVRQMLRLMELEKGVK----------------LGCLPFTEIDVRNLLQSF---RNV-- 216 (731)
Q Consensus 159 shR~ls~~-~k~~i~~l~~~g~~~~~I~~~l~~~~g~~----------------~~~~~~~~~Di~N~~~~~---r~~-- 216 (731)
+.=+++++ ..+.|..|.+.|++|+||--+|+.++|+. .+-.|-.+.|++|++.+. |+-
T Consensus 26 ~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vtG~kI~rILk~~glapeiPEDL~~LikKAv~lRkHLe 105 (153)
T 2xzm_O 26 KWLHMTPSTVVDLSVKLAKKGLTPSQIGVILRDQHGIPQVRFLTGQKILRILKKNGCAPQLPEDLYFLIKKALSIRKHLE 105 (153)
T ss_dssp SSCCCCHHHHHHHHHHHHHTTCCHHHHHHHHHHSSCCSCHHHHHSSCHHHHHHHTTCCCSSCHHHHHHHHHHHHHHHHHH
T ss_pred ccccCCHHHHHHHHHHHHHCCCCHHHhhhHHhhcCCCCCeeeeccchHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 33344444 46778899999999999999999998872 222455678999988763 211
Q ss_pred -------------cccccHHHHHHHHHHhhcCCCCcEEE
Q 004769 217 -------------NRDYDAIDLIAMCKKMKDKNPNFQYD 242 (731)
Q Consensus 217 -------------~~~~d~~~l~~~~~~~~~~np~~~~~ 242 (731)
..+.....|..|.++...--|+|.|+
T Consensus 106 ~n~kD~~sK~~L~LiESkI~RL~rYYk~~~~LP~~WkY~ 144 (153)
T 2xzm_O 106 KNRKDKDSKYRLILVESRIHRLSRYYKLNQKLPPKWKYN 144 (153)
T ss_dssp HTTTCHHHHHHHHHHHHHHHHHHHHHHHTTSSCTTCCCS
T ss_pred HcccchhhHHHHHHHHHHHHHHHHHHHhcCcCCCCCcCC
Confidence 12334557778888877777887765
No 12
>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=81.05 E-value=2.3 Score=34.71 Aligned_cols=24 Identities=17% Similarity=0.212 Sum_probs=16.7
Q ss_pred cccceEEEEEeecCCCCcEEEEEEeCCccCCCC
Q 004769 117 GCQAYMRIVKRVDFDVPEWHVTGFSNVHNHELL 149 (731)
Q Consensus 117 gCpa~i~~~~~~~~~~~~W~V~~~~~~HNH~l~ 149 (731)
+|+|++.... +. | .....||||+.
T Consensus 51 kCrARi~T~~------~~--~-~~~~~HnH~p~ 74 (87)
T 2rpr_A 51 GCRSRAITQG------HR--I-MVMRSHCHQPD 74 (87)
T ss_dssp CCCCEEEEET------TE--E-EECSCCSSCCC
T ss_pred CCCEEEEEcC------CC--E-ECCCCcCCCCc
Confidence 7999997642 22 3 25678999984
No 13
>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=79.60 E-value=0.96 Score=32.62 Aligned_cols=19 Identities=26% Similarity=0.370 Sum_probs=11.2
Q ss_pred ccCCccCCCCCCCCCCCCc
Q 004769 700 CSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~ 718 (731)
..|-+|++.||-.+.||..
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 3466666666666666654
No 14
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=77.87 E-value=0.74 Score=38.16 Aligned_cols=26 Identities=27% Similarity=0.609 Sum_probs=21.3
Q ss_pred ccccCCccCCCC---CCCCCCCCcCcCCc
Q 004769 698 RHCSEPCCRHFG---HDASSCPIMGSDTL 723 (731)
Q Consensus 698 r~~~Cs~C~~~g---Hn~~tCp~~~~~~~ 723 (731)
|.+.|+.|+..| |+++-||+......
T Consensus 70 R~Y~CpiCGATGd~AHT~kYCP~~~~~~~ 98 (106)
T 3alr_A 70 RQYKCPLCGATGAKAHTKRFCPMVDKNYC 98 (106)
T ss_dssp GGCCCTTTCCCGGGCCCGGGCTTCGGGGC
T ss_pred ccccCCCCCCcCCcccceecCCCCCCccC
Confidence 567899999988 88899999875543
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=77.24 E-value=1.2 Score=32.10 Aligned_cols=21 Identities=24% Similarity=0.314 Sum_probs=18.2
Q ss_pred ccccCCccCCCCCCCCCCCCc
Q 004769 698 RHCSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 698 r~~~Cs~C~~~gHn~~tCp~~ 718 (731)
|...|-+|++.||..+.||..
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 445699999999999999975
No 16
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=74.42 E-value=1.6 Score=29.75 Aligned_cols=18 Identities=28% Similarity=0.370 Sum_probs=16.4
Q ss_pred cCCccCCCCCCCCCCCCc
Q 004769 701 SEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 701 ~Cs~C~~~gHn~~tCp~~ 718 (731)
.|-+|++.||..+.||..
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 588999999999999974
No 17
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=73.21 E-value=1.8 Score=29.08 Aligned_cols=16 Identities=31% Similarity=0.445 Sum_probs=10.6
Q ss_pred CCccCCCCCCCCCCCC
Q 004769 702 EPCCRHFGHDASSCPI 717 (731)
Q Consensus 702 Cs~C~~~gHn~~tCp~ 717 (731)
|-+|++.||..+.||.
T Consensus 3 C~~Cg~~GH~~~~C~~ 18 (37)
T 2bl6_A 3 CYNCGKPGHLSSQCRA 18 (37)
T ss_dssp BSSSCCSSCCTTTSSC
T ss_pred ccccCCCCcchhhCcC
Confidence 5666666666666665
No 18
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=70.63 E-value=3.4 Score=32.61 Aligned_cols=21 Identities=24% Similarity=0.543 Sum_probs=14.6
Q ss_pred ccCCccCCCCCCCCCCCCcCc
Q 004769 700 CSEPCCRHFGHDASSCPIMGS 720 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~~~ 720 (731)
..|-+|++.||-.+.||....
T Consensus 47 ~~C~~Cg~~GH~ar~Cp~~~~ 67 (74)
T 2li8_A 47 KKCHFCQSISHMVASCPLKAQ 67 (74)
T ss_dssp CCCTTTCCTTSCGGGCTTGGG
T ss_pred CccCCcCCcCCccCcCcCCcC
Confidence 347777777777777776653
No 19
>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=70.23 E-value=2.1 Score=31.54 Aligned_cols=20 Identities=20% Similarity=0.228 Sum_probs=15.9
Q ss_pred ccCCccCCCCCCCCCCCCcC
Q 004769 700 CSEPCCRHFGHDASSCPIMG 719 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~~ 719 (731)
..|-+|++.||-.+.||...
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 35888888899888888754
No 20
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=68.84 E-value=1.6 Score=29.24 Aligned_cols=17 Identities=24% Similarity=0.380 Sum_probs=15.6
Q ss_pred cCCccCCCCCCCCCCCC
Q 004769 701 SEPCCRHFGHDASSCPI 717 (731)
Q Consensus 701 ~Cs~C~~~gHn~~tCp~ 717 (731)
.|-+|++.||-.+.||.
T Consensus 21 ~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 21 VCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp TCSSCCCTTGGGGTTCC
T ss_pred eEccCCCcCCccCcCcC
Confidence 59999999999999985
No 21
>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=67.51 E-value=3.6 Score=30.88 Aligned_cols=21 Identities=24% Similarity=0.290 Sum_probs=18.5
Q ss_pred ccCCccCCCCCCCCCCCCcCc
Q 004769 700 CSEPCCRHFGHDASSCPIMGS 720 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~~~ 720 (731)
..|-+|++.||-.+.||....
T Consensus 31 ~~C~~Cg~~GH~ar~C~~~~~ 51 (60)
T 1cl4_A 31 GLCPRCKRGKHWANECKSKTD 51 (60)
T ss_dssp CSCSSCSSCSSCSTTCCCTTS
T ss_pred cceeECCCCCCccCcCCCccc
Confidence 459999999999999998764
No 22
>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=66.32 E-value=2.1 Score=31.54 Aligned_cols=21 Identities=24% Similarity=0.330 Sum_probs=18.1
Q ss_pred ccccCCccCCCCCCCCCCCCc
Q 004769 698 RHCSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 698 r~~~Cs~C~~~gHn~~tCp~~ 718 (731)
+...|-+|++.||-.+.||..
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 445699999999999999974
No 23
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=61.73 E-value=3.5 Score=32.55 Aligned_cols=21 Identities=19% Similarity=0.344 Sum_probs=18.1
Q ss_pred ccccCCccCCCCCCCCCCCCc
Q 004769 698 RHCSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 698 r~~~Cs~C~~~gHn~~tCp~~ 718 (731)
+...|-+|++.||..+.||..
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 455699999999999999964
No 24
>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=59.86 E-value=4.4 Score=30.83 Aligned_cols=20 Identities=25% Similarity=0.567 Sum_probs=17.6
Q ss_pred ccCCccCCCCCCCCCCCCcC
Q 004769 700 CSEPCCRHFGHDASSCPIMG 719 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~~ 719 (731)
..|-+|++.||-.+.||...
T Consensus 30 ~~C~~Cg~~GH~ar~Cp~~~ 49 (63)
T 2cqf_A 30 KKCHFCQSISHMVASCPLKA 49 (63)
T ss_dssp SCCTTTCCSSSCTTTCTGGG
T ss_pred CccCCcCCcCCccCcCCCcc
Confidence 35999999999999999865
No 25
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=58.53 E-value=3.9 Score=30.88 Aligned_cols=20 Identities=25% Similarity=0.476 Sum_probs=14.9
Q ss_pred ccCCccCCCCCCCCCCCCcC
Q 004769 700 CSEPCCRHFGHDASSCPIMG 719 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~~ 719 (731)
..|-+|++.||-.+.||...
T Consensus 31 ~~C~~Cg~~GH~ar~C~~~~ 50 (61)
T 2ihx_A 31 ERCQLCNGMGHNAKQCRKRD 50 (61)
T ss_dssp SBCTTTCCBSSCGGGCCCCC
T ss_pred CeeCCCCCCCCCcCCCcCCC
Confidence 44778888888888887754
No 26
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=58.36 E-value=3.6 Score=31.03 Aligned_cols=19 Identities=26% Similarity=0.392 Sum_probs=16.9
Q ss_pred ccCCccCCCCCCCCCCCCc
Q 004769 700 CSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~ 718 (731)
..|-+|++.||-.+.||..
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~ 23 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKK 23 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTT
T ss_pred CcccccCCCCeehhhCcCC
Confidence 4599999999999999974
No 27
>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=57.78 E-value=6.4 Score=29.89 Aligned_cols=21 Identities=19% Similarity=0.298 Sum_probs=17.6
Q ss_pred ccccCCccCCCCCCCCCCCCc
Q 004769 698 RHCSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 698 r~~~Cs~C~~~gHn~~tCp~~ 718 (731)
|...|-+|++.||..+.||..
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 334599999999999999964
No 28
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=57.17 E-value=3.1 Score=33.64 Aligned_cols=20 Identities=20% Similarity=0.532 Sum_probs=16.7
Q ss_pred cccCCccCCCCCCCCCCCCc
Q 004769 699 HCSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 699 ~~~Cs~C~~~gHn~~tCp~~ 718 (731)
.+.|-+|++.||-.+.||..
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~~ 24 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPSI 24 (83)
T ss_dssp --CCSSSCCSSSCGGGCGGG
T ss_pred cCCCCCCCCCCCccccCCCc
Confidence 34699999999999999975
No 29
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Probab=57.02 E-value=22 Score=28.23 Aligned_cols=74 Identities=12% Similarity=0.186 Sum_probs=41.2
Q ss_pred CccCCCCCccccccCCcCCCCCcchhhHHHHhhhcCCcHHHHHHHHHHhhCccCCCCCcchhhhhhhHHHhhhccccccH
Q 004769 143 VHNHELLKLNEVRLLPAYCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDA 222 (731)
Q Consensus 143 ~HNH~l~~~~~~~~l~shR~ls~~~k~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~~~~~Di~N~~~~~r~~~~~~d~ 222 (731)
.|+|++..+... ...-..|++.+++.+.. .-.|.+..+|.+.|. ++...|++.+.+.++.......
T Consensus 4 ~~~~~~~~~~~~--~~~~~~Lt~~e~~vl~l-~~~g~s~~eIA~~l~-----------is~~tV~~~l~r~~~kL~~~~~ 69 (82)
T 1je8_A 4 SHHHHHHGSATT--ERDVNQLTPRERDILKL-IAQGLPNKMIARRLD-----------ITESTVKVHVKHMLKKMKLKSR 69 (82)
T ss_dssp ---------------CCGGGSCHHHHHHHHH-HTTTCCHHHHHHHHT-----------SCHHHHHHHHHHHHHHTTCSSH
T ss_pred ccCCCCCCchHH--HHHHccCCHHHHHHHHH-HHcCCCHHHHHHHHC-----------cCHHHHHHHHHHHHHHHcCCCH
Confidence 466666544322 23446788888876665 478999999988774 4556777777777655444444
Q ss_pred HHHHHHHH
Q 004769 223 IDLIAMCK 230 (731)
Q Consensus 223 ~~l~~~~~ 230 (731)
..++.+..
T Consensus 70 ~~l~~~a~ 77 (82)
T 1je8_A 70 VEAAVWVH 77 (82)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 55555543
No 30
>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=52.91 E-value=5.3 Score=36.15 Aligned_cols=24 Identities=21% Similarity=0.441 Sum_probs=17.6
Q ss_pred ccCCccCCCCCCCCCCCCcCcCCc
Q 004769 700 CSEPCCRHFGHDASSCPIMGSDTL 723 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~~~~~~ 723 (731)
..|-+|++.||-.+.||.....+.
T Consensus 120 ~~C~~Cg~~GH~~r~Cp~~~~~~~ 143 (148)
T 3ts2_A 120 KKCHFCQSINHMVASCPLKAQQGP 143 (148)
T ss_dssp CCCTTTCCSSCCGGGCTTTTC---
T ss_pred CcccccCCcCCEeccCcCCCCCCC
Confidence 458899999999999998766644
No 31
>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=51.50 E-value=6.9 Score=35.40 Aligned_cols=20 Identities=20% Similarity=0.316 Sum_probs=17.4
Q ss_pred cccCCccCCCCCCCCCCCCc
Q 004769 699 HCSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 699 ~~~Cs~C~~~gHn~~tCp~~ 718 (731)
..+|-+|++.||-.+.||..
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~ 116 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLP 116 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSC
T ss_pred CCcccEeCCccchhhhCCCC
Confidence 44699999999999999973
No 32
>1x9b_A Hypothetical membrane protein TA0354_69_121; alpha protein, structural genomics, protein structure initiative, PSI; NMR {Thermoplasma acidophilum} SCOP: a.10.2.1
Probab=40.11 E-value=23 Score=25.02 Aligned_cols=45 Identities=13% Similarity=0.068 Sum_probs=34.4
Q ss_pred HHHHhHccCCCHHHHHHHHHHhhhhcccccchHHHHHHHhhcccc
Q 004769 360 AEFYRLYNLELEEDFEEEWSKMVNKYGLREYKHITSLYALRTFWA 404 (731)
Q Consensus 360 ~~f~~~~~~~t~~eFe~~w~~l~~~~~~~~~~~l~~l~~~r~~Wa 404 (731)
..|..+.++++..+|-....+|-..-.--+..|...|-+-+++|-
T Consensus 7 ~~Fe~~InS~SK~~Fv~nL~ELE~is~rlg~~Y~~~LeeaK~kWk 51 (53)
T 1x9b_A 7 AKFESMINSPSKSVFVRNLNELEALAVRLGKSYRIQLDQAKEKWK 51 (53)
T ss_dssp HHHHHHHHSCCHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHHC
T ss_pred HHHHHHhCCccHHHHHHhHHHHHHHHHHHchHHHHHHHHHHHhhc
Confidence 468889999999999999888765333334568888878888884
No 33
>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}
Probab=36.24 E-value=24 Score=28.50 Aligned_cols=28 Identities=21% Similarity=0.456 Sum_probs=26.1
Q ss_pred ccCCHHHHHHHHHHHHHhcCceEEEcce
Q 004769 47 RFVSQDAAYEFYCSFAKQCGFSIRRHRT 74 (731)
Q Consensus 47 ~F~S~eea~~~y~~yA~~~GF~ir~~~s 74 (731)
+|.+.+|....+.+.-+++||.+|+-+|
T Consensus 7 vfstdeetlrkfkdiikkngfkvrtvrs 34 (134)
T 2l69_A 7 VFSTDEETLRKFKDIIKKNGFKVRTVRS 34 (134)
T ss_dssp ECCCCHHHHHHHHHHHHHTTCEEEEECS
T ss_pred EEeCCHHHHHHHHHHHHhcCceEEEecC
Confidence 6999999999999999999999999887
No 34
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2
Probab=34.81 E-value=35 Score=23.12 Aligned_cols=42 Identities=12% Similarity=0.226 Sum_probs=29.5
Q ss_pred CCCCcchhhHHHHhhhcCCcHHHHHHHHHHhhCccCCCCCcchhhhhhhHHHh
Q 004769 161 CSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSF 213 (731)
Q Consensus 161 R~ls~~~k~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~~~~~Di~N~~~~~ 213 (731)
+.++++++..|..+...|++..+|.+.+. +....|++++...
T Consensus 4 ~~l~~~~~~~i~~~~~~g~s~~~IA~~lg-----------is~~Tv~~~~~~~ 45 (51)
T 1tc3_C 4 SALSDTERAQLDVMKLLNVSLHEMSRKIS-----------RSRHCIRVYLKDP 45 (51)
T ss_dssp CCCCHHHHHHHHHHHHTTCCHHHHHHHHT-----------CCHHHHHHHHHCS
T ss_pred CCCCHHHHHHHHHHHHcCCCHHHHHHHHC-----------cCHHHHHHHHhhH
Confidence 45777888888888888999999887663 3445566665443
No 35
>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=32.66 E-value=9.3 Score=28.54 Aligned_cols=20 Identities=30% Similarity=0.311 Sum_probs=0.0
Q ss_pred cCCccCCCCCCCCCCCCcCc
Q 004769 701 SEPCCRHFGHDASSCPIMGS 720 (731)
Q Consensus 701 ~Cs~C~~~gHn~~tCp~~~~ 720 (731)
.|-+|++.||-.+.||....
T Consensus 3 ~Cf~Cg~~GH~a~~C~~~~~ 22 (60)
T 1cl4_A 3 SCFKCGKKGHFAKNCHEHAH 22 (60)
T ss_dssp --------------------
T ss_pred ccccCCCCCcCHhhCcCCCC
Confidence 37899999999999998754
No 36
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=32.08 E-value=22 Score=30.81 Aligned_cols=20 Identities=20% Similarity=0.185 Sum_probs=17.6
Q ss_pred cccCCccCCCCCCCCCCCCc
Q 004769 699 HCSEPCCRHFGHDASSCPIM 718 (731)
Q Consensus 699 ~~~Cs~C~~~gHn~~tCp~~ 718 (731)
...|-+|++.||..+.||+.
T Consensus 105 ~~~Cy~Cg~~GH~a~dCp~~ 124 (124)
T 2lli_A 105 TIYCYNCGGKGHFGDDCKEK 124 (124)
T ss_dssp CCCTTTTSSSCTTTTTSCCC
T ss_pred CCCcCCCCCCCcCcccCcCC
Confidence 45699999999999999974
No 37
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=31.45 E-value=23 Score=30.68 Aligned_cols=21 Identities=19% Similarity=0.431 Sum_probs=18.2
Q ss_pred ccCCccCCCCCCCCCCCCcCc
Q 004769 700 CSEPCCRHFGHDASSCPIMGS 720 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~~~ 720 (731)
..|-+|++.||..+.||....
T Consensus 65 ~~C~~Cg~~GH~~~~Cp~~~~ 85 (124)
T 2lli_A 65 VQCTLCKSKKHSKERCPSIWR 85 (124)
T ss_dssp CSSSSSCSSCCCTTTCCCSTT
T ss_pred ccCCCCCcCCcchhhCCCccc
Confidence 469999999999999998643
No 38
>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=31.14 E-value=34 Score=20.50 Aligned_cols=17 Identities=12% Similarity=0.163 Sum_probs=11.2
Q ss_pred CCccccCCCCccCCCCC
Q 004769 673 SHESFTLGKLKERRPRD 689 (731)
Q Consensus 673 P~~~~~kGRpkk~r~k~ 689 (731)
|.-+++.||||-..-|.
T Consensus 2 ptpKrpRgRpkGSKNk~ 18 (26)
T 2ezd_A 2 PTPKRPRGRPKGSKNKG 18 (26)
T ss_dssp CSCCCCSSCCTTCCCCS
T ss_pred CCCcCCCCCcCcccccC
Confidence 44467889998665443
No 39
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=30.71 E-value=19 Score=28.92 Aligned_cols=21 Identities=24% Similarity=0.200 Sum_probs=18.5
Q ss_pred ccCCccCCCCCCCCCCCCcCc
Q 004769 700 CSEPCCRHFGHDASSCPIMGS 720 (731)
Q Consensus 700 ~~Cs~C~~~gHn~~tCp~~~~ 720 (731)
..|-+|++.||-.+-||....
T Consensus 47 ~~CYnCG~~GH~~rdC~~~r~ 67 (83)
T 3nyb_B 47 IYCYNCGGKGHFGDDCKEKRS 67 (83)
T ss_dssp CBCSSSSCBSSCGGGCSSCCS
T ss_pred CeecccCCCCcCcccCCcccc
Confidence 469999999999999998754
No 40
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2
Probab=27.69 E-value=1.6e+02 Score=24.14 Aligned_cols=61 Identities=10% Similarity=0.088 Sum_probs=41.7
Q ss_pred CCCCCcchhhHHHHhhhcCCcHHHHHHHHHHhhCccCCCCCcchhhhhhhHHHhhhccccccHHHHHHHHHHh
Q 004769 160 YCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKKM 232 (731)
Q Consensus 160 hR~ls~~~k~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~~~~~Di~N~~~~~r~~~~~~d~~~l~~~~~~~ 232 (731)
...|++.+++.+. +...|.+..+|.+.|. ++...|++++.+.++...-.+...++.+..+.
T Consensus 32 ~~~Lt~re~~Vl~-l~~~G~s~~EIA~~L~-----------iS~~TV~~~l~ri~~KLgv~~r~elv~~a~~~ 92 (99)
T 1p4w_A 32 DKRLSPKESEVLR-LFAEGFLVTEIAKKLN-----------RSIKTISSQKKSAMMKLGVDNDIALLNYLSSV 92 (99)
T ss_dssp SSSCCHHHHHHHH-HHHHTCCHHHHHHHHT-----------SCHHHHHHHHHHHHHHHTCSSHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHH-HHHcCCCHHHHHHHHC-----------cCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHc
Confidence 4668888876554 4568999999988774 45677888887777655455555566655443
No 41
>3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A
Probab=26.86 E-value=1.1e+02 Score=24.48 Aligned_cols=58 Identities=10% Similarity=0.111 Sum_probs=38.6
Q ss_pred CCCCCcchhhHHHHhhhcCCcHHHHHHHHHHhhCccCCCCCcchhhhhhhHHHhhhccccccHHHHHHHH
Q 004769 160 YCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMC 229 (731)
Q Consensus 160 hR~ls~~~k~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~~~~~Di~N~~~~~r~~~~~~d~~~l~~~~ 229 (731)
...|++.+++.+. |...|.+..+|...|. ++.+.|++++.+..+...-.+...++.+.
T Consensus 27 ~~~Lt~rE~~Vl~-l~~~G~s~~eIA~~L~-----------iS~~TV~~~~~~i~~Klgv~~r~~lv~~a 84 (90)
T 3ulq_B 27 QDVLTPRECLILQ-EVEKGFTNQEIADALH-----------LSKRSIEYSLTSIFNKLNVGSRTEAVLIA 84 (90)
T ss_dssp --CCCHHHHHHHH-HHHTTCCHHHHHHHHT-----------CCHHHHHHHHHHHHHHTTCSSHHHHHHHH
T ss_pred ccCCCHHHHHHHH-HHHcCCCHHHHHHHHC-----------cCHHHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence 4457777765444 4449999999988774 46677888888777655455555566554
No 42
>2lju_A Putative oxidoreductase; structural genomics, seattle structural GENO center for infectious disease, ssgcid; NMR {Ehrlichia chaffeensis}
Probab=26.84 E-value=61 Score=27.35 Aligned_cols=34 Identities=12% Similarity=0.116 Sum_probs=26.1
Q ss_pred CCCCCCCCCCccCCHHHHHHHHHHHHHhcCceEEEcce
Q 004769 37 SVNLVPFIGQRFVSQDAAYEFYCSFAKQCGFSIRRHRT 74 (731)
Q Consensus 37 ~~~~~P~~g~~F~S~eea~~~y~~yA~~~GF~ir~~~s 74 (731)
+.+..-.|.+.|+|.|+|. +||.++|+...+.--
T Consensus 55 S~D~~~qv~L~F~skE~Ai----ayAek~G~~y~V~ep 88 (108)
T 2lju_A 55 SHDTKQQVCLSFTTRELAI----AYAVAHKIDYTVLQD 88 (108)
T ss_dssp SCCCCCCSCEEESSHHHHH----HHHHHTTCEEEEECS
T ss_pred CCCccccceEecCCHHHHH----HHHHHcCCEEEEecC
Confidence 3444556788999999995 689999998877643
No 43
>1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2
Probab=26.73 E-value=1.7e+02 Score=21.78 Aligned_cols=60 Identities=8% Similarity=0.011 Sum_probs=38.2
Q ss_pred CCCCCcchhhHHHHhhhcCCcHHHHHHHHHHhhCccCCCCCcchhhhhhhHHHhhhccccccHHHHHHHHHH
Q 004769 160 YCSITPDDKTRICMFAKAGMSVRQMLRLMELEKGVKLGCLPFTEIDVRNLLQSFRNVNRDYDAIDLIAMCKK 231 (731)
Q Consensus 160 hR~ls~~~k~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~~~~~Di~N~~~~~r~~~~~~d~~~l~~~~~~ 231 (731)
...|++.+++.+.. ...|.+..+|.+.+. ++..-|++.+.+.++......-..++.+..+
T Consensus 9 ~~~L~~~e~~il~~-~~~g~s~~eIA~~l~-----------is~~tV~~~~~~~~~kl~~~~~~~~~~~~~~ 68 (74)
T 1fse_A 9 KPLLTKREREVFEL-LVQDKTTKEIASELF-----------ISEKTVRNHISNAMQKLGVKGRSQAVVELLR 68 (74)
T ss_dssp CCCCCHHHHHHHHH-HTTTCCHHHHHHHHT-----------SCHHHHHHHHHHHHHHHTCSSHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHH-HHcCCCHHHHHHHHC-----------CCHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence 45678777766655 478999999987763 4556677777776654434344444444433
No 44
>2l0z_A Glycoprotein G2; zinc-binding domain, virus envelope glycoprotein, GPC, junin arenavirus, viral protein; NMR {Junin virus}
Probab=22.80 E-value=25 Score=23.87 Aligned_cols=16 Identities=13% Similarity=0.231 Sum_probs=13.1
Q ss_pred CceEeecCCcccCCcc
Q 004769 534 EHISCSCHQFEFSGIL 549 (731)
Q Consensus 534 ~~~~CsC~~fe~~GiP 549 (731)
..-.|+|++|..-|.|
T Consensus 20 ~~~~C~CG~y~~~~kp 35 (42)
T 2l0z_A 20 SLGGCRCGKYPNLKKP 35 (42)
T ss_dssp TTSSBTTTTBCCCCCC
T ss_pred CCceeccccccCCCCc
Confidence 3567999999988876
Done!