Query 036141
Match_columns 220
No_of_seqs 113 out of 1345
Neff 9.8
Searched_HMMs 29240
Date Mon Mar 25 16:45:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036141.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/036141hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ec7_A GAG polyprotein (PR55GA 99.1 5E-11 1.7E-15 68.7 4.2 42 168-209 4-48 (49)
2 2ihx_A Nucleocapsid (NC) prote 99.0 2E-10 6.9E-15 69.3 3.6 42 170-211 4-53 (61)
3 2li8_A Protein LIN-28 homolog 99.0 3E-10 1E-14 71.0 4.4 43 168-210 22-68 (74)
4 1a1t_A Nucleocapsid protein; s 99.0 2.3E-10 8E-15 67.6 3.3 41 169-209 11-54 (55)
5 2a51_A Nucleocapsid protein; s 99.0 2.9E-10 1E-14 62.2 3.2 35 172-206 2-39 (39)
6 2bl6_A Nucleocapsid protein P1 99.0 3.1E-10 1.1E-14 61.3 3.0 35 172-206 2-37 (37)
7 2cqf_A RNA-binding protein LIN 99.0 5.3E-10 1.8E-14 67.8 4.4 40 170-209 7-50 (63)
8 3ts2_A Protein LIN-28 homolog 98.9 5.7E-10 1.9E-14 79.6 4.5 45 167-211 94-142 (148)
9 1cl4_A Protein (GAG polyprotei 98.9 3.6E-10 1.2E-14 68.1 2.8 42 172-213 3-55 (60)
10 1a6b_B Momulv, zinc finger pro 98.7 1.2E-08 4E-13 55.4 2.6 24 188-211 10-33 (40)
11 1dsq_A Nucleic acid binding pr 98.6 9.7E-09 3.3E-13 50.6 1.7 21 189-209 3-23 (26)
12 3nyb_B Protein AIR2; polya RNA 98.6 3.9E-08 1.3E-12 62.7 3.8 36 173-208 27-66 (83)
13 1nc8_A Nucleocapsid protein; H 98.6 2.9E-08 1E-12 50.2 2.5 21 188-208 6-26 (29)
14 1u6p_A GAG polyprotein; MLV, A 98.6 3E-08 1E-12 57.9 2.6 25 187-211 22-46 (56)
15 2ysa_A Retinoblastoma-binding 98.2 3.6E-07 1.2E-11 53.2 1.8 21 188-208 7-27 (55)
16 2lli_A Protein AIR2; RNA surve 98.2 8.6E-07 3E-11 61.3 3.4 36 172-207 24-61 (124)
17 2lli_A Protein AIR2; RNA surve 98.0 4E-06 1.4E-10 57.9 3.8 38 171-208 43-84 (124)
18 2li8_A Protein LIN-28 homolog 97.8 5.4E-06 1.9E-10 51.5 1.6 20 188-207 24-43 (74)
19 2a51_A Nucleocapsid protein; s 97.7 1.4E-05 4.7E-10 43.3 1.7 18 190-207 2-19 (39)
20 2ec7_A GAG polyprotein (PR55GA 97.7 2.2E-05 7.5E-10 44.7 2.3 20 188-207 6-25 (49)
21 2bl6_A Nucleocapsid protein P1 97.6 1.8E-05 6.1E-10 42.3 1.7 18 190-207 2-19 (37)
22 1a1t_A Nucleocapsid protein; s 97.6 2.6E-05 8.7E-10 45.7 2.4 22 186-207 10-31 (55)
23 2ihx_A Nucleocapsid (NC) prote 97.3 7.1E-05 2.4E-09 44.7 1.8 21 189-209 5-25 (61)
24 1cl4_A Protein (GAG polyprotei 97.3 3.4E-05 1.2E-09 46.0 0.0 19 190-208 3-21 (60)
25 2cqf_A RNA-binding protein LIN 97.2 0.00013 4.5E-09 43.8 1.9 19 189-207 8-26 (63)
26 3ts2_A Protein LIN-28 homolog 96.8 0.00063 2.2E-08 48.2 3.0 20 188-207 97-116 (148)
27 3nyb_B Protein AIR2; polya RNA 96.5 0.00071 2.4E-08 42.9 1.1 39 169-207 4-43 (83)
28 1a6b_B Momulv, zinc finger pro 95.3 0.015 5.1E-07 31.2 2.9 25 165-189 5-29 (40)
29 1u6p_A GAG polyprotein; MLV, A 95.0 0.019 6.6E-07 33.2 2.8 26 164-189 17-42 (56)
30 1nc8_A Nucleocapsid protein; H 94.5 0.029 1E-06 27.7 2.4 21 169-189 5-25 (29)
31 1dsq_A Nucleic acid binding pr 94.1 0.027 9.1E-07 27.1 1.7 19 171-189 3-21 (26)
32 2hqh_E Restin; beta/BETA struc 92.8 0.03 1E-06 26.5 0.7 19 188-206 3-21 (26)
33 3alr_A Nanos protein; zinc-fin 90.8 0.07 2.4E-06 34.5 0.9 43 168-210 34-96 (106)
34 2ysa_A Retinoblastoma-binding 90.0 0.2 6.9E-06 28.7 2.3 20 169-188 6-25 (55)
35 2pzo_E CAP-Gly domain-containi 85.6 0.23 7.9E-06 26.3 0.7 21 186-206 18-38 (42)
36 3zyq_A Hepatocyte growth facto 78.1 19 0.00065 26.9 9.7 35 19-53 40-74 (226)
37 3e2u_E CAP-Gly domain-containi 76.0 0.86 2.9E-05 24.2 0.8 20 188-207 20-39 (42)
38 3g21_A GAG polyprotein, capsid 72.4 5.5 0.00019 24.3 3.8 20 49-68 5-25 (77)
39 3g1g_A GAG polyprotein, capsid 68.9 14 0.00048 23.0 5.2 20 50-69 5-25 (87)
40 3tir_A ROUS sarcoma virus caps 68.2 17 0.00059 27.2 6.6 39 22-69 136-175 (226)
41 3ds4_A HIV-1 capsid protein; H 68.2 16 0.00054 22.8 5.5 22 48-69 5-27 (86)
42 1eoq_A GAG polyprotein capsid 62.4 17 0.00058 23.1 4.7 70 51-135 3-73 (96)
43 2jyl_A Capsid protein P24 (Ca) 54.9 40 0.0014 21.8 7.1 66 48-129 24-90 (105)
44 3lcz_A YCZA, inhibitor of trap 54.7 5.7 0.0002 22.4 1.5 25 172-200 11-35 (53)
45 2cr7_A Paired amphipathic heli 49.2 39 0.0013 20.6 4.8 50 18-69 9-59 (80)
46 1dvp_A HRS, hepatocyte growth 48.0 74 0.0025 23.3 7.2 35 19-53 37-71 (220)
47 2czy_A Paired amphipathic heli 47.5 33 0.0011 20.7 4.3 47 20-68 5-52 (77)
48 4ayb_P DNA-directed RNA polyme 45.3 15 0.0005 20.1 2.0 26 172-197 5-32 (48)
49 3kxe_C Antitoxin protein PARD- 40.3 56 0.0019 20.3 4.6 36 100-135 6-41 (88)
50 2lta_A De novo designed protei 45.4 6.3 0.00022 24.1 0.0 52 22-73 27-80 (110)
51 1qrj_B HTLV-I capsid protein; 37.8 46 0.0016 24.3 4.4 21 49-69 119-140 (199)
52 1d0q_A DNA primase; zinc-bindi 37.6 11 0.00038 24.2 1.0 11 190-200 60-70 (103)
53 2bx9_A Anti-trap, AT, tryptoph 37.1 15 0.00051 20.6 1.4 26 172-201 11-36 (53)
54 2lh0_A Histone chaperone RTT10 36.6 64 0.0022 19.2 4.1 33 100-134 8-40 (70)
55 1ef4_A Subunit N, DNA-directed 36.5 11 0.00037 21.4 0.7 8 190-197 5-12 (55)
56 3h47_A Ca, capsid protein P24; 36.3 1.2E+02 0.004 22.7 6.5 23 48-70 150-173 (231)
57 4ayb_N DNA-directed RNA polyme 35.4 11 0.00038 22.2 0.6 8 190-197 6-13 (66)
58 1deq_A Fibrinogen (alpha chain 34.8 1.6E+02 0.0056 23.8 7.4 33 39-71 67-99 (390)
59 1nlt_A Protein YDJ1, mitochond 34.2 32 0.0011 26.0 3.3 39 171-209 55-104 (248)
60 1r5q_A KAI A, circadian oscill 33.0 40 0.0014 21.3 2.9 32 100-131 10-43 (102)
61 3gv2_A Ca, fusion protein cons 31.7 1.5E+02 0.0051 23.6 6.8 23 48-70 150-173 (342)
62 3a4c_A DNA replication factor 29.3 59 0.002 21.1 3.3 38 96-133 7-45 (106)
63 1twf_J DNA-directed RNA polyme 29.3 16 0.00054 21.8 0.6 8 190-197 6-13 (70)
64 3mwm_A ZUR, putative metal upt 29.0 92 0.0031 20.9 4.7 29 17-45 27-55 (139)
65 2odb_B Serine/threonine-protei 28.8 14 0.00048 18.6 0.3 12 100-111 22-33 (35)
66 1bm4_A Protein (moloney murine 28.4 54 0.0018 16.2 2.3 20 51-70 7-27 (32)
67 2ds5_A CLPX, ATP-dependent CLP 28.3 23 0.00078 19.7 1.1 12 189-200 12-23 (51)
68 1vq8_Z 50S ribosomal protein L 27.3 14 0.00047 23.0 0.1 26 172-197 29-54 (83)
69 2jmo_A Parkin; IBR, E3 ligase, 27.2 24 0.00081 21.5 1.2 21 185-206 55-75 (80)
70 2k1p_A Zinc finger RAN-binding 27.0 64 0.0022 15.8 2.8 9 189-197 21-29 (33)
71 3g2b_A Coenzyme PQQ synthesis 25.9 1.3E+02 0.0043 18.9 5.4 32 5-36 41-72 (95)
72 2xig_A Ferric uptake regulatio 25.8 1.4E+02 0.0048 20.3 5.2 25 18-42 41-65 (150)
73 2w0t_A Lethal(3)malignant brai 25.4 14 0.00048 19.8 -0.1 15 189-203 7-21 (43)
74 4ets_A Ferric uptake regulatio 25.1 1.5E+02 0.0053 20.4 5.3 25 18-42 47-73 (162)
75 1e91_A Paired amphipathic heli 24.6 98 0.0033 19.0 3.7 47 20-68 8-65 (85)
76 2o03_A Probable zinc uptake re 24.4 1.2E+02 0.0041 20.0 4.5 28 17-44 24-51 (131)
77 1v2z_A Circadian clock protein 24.2 53 0.0018 21.2 2.4 32 100-131 17-50 (111)
78 3h0g_L DNA-directed RNA polyme 24.1 43 0.0015 19.5 1.8 27 170-197 21-47 (63)
79 1hbw_A Regulatory protein GAL4 24.1 41 0.0014 18.9 1.6 28 61-88 4-31 (57)
80 2yvk_A Methylthioribose-1-phos 23.9 2.9E+02 0.0098 22.3 9.6 63 16-78 53-117 (374)
81 1mzb_A Ferric uptake regulatio 23.8 1.5E+02 0.0051 19.6 4.9 29 18-46 33-61 (136)
82 1d1d_A Protein (capsid protein 23.3 52 0.0018 25.2 2.7 40 21-70 157-198 (262)
83 2lq6_A Bromodomain-containing 23.3 35 0.0012 21.2 1.5 13 185-197 14-26 (87)
84 2lnh_A N-WAsp, neural wiskott- 22.8 46 0.0016 19.5 1.8 15 101-115 20-34 (65)
85 1baj_A GAG polyprotein; capsid 22.2 38 0.0013 21.7 1.5 23 48-70 6-29 (101)
86 2au3_A DNA primase; zinc ribbo 22.2 28 0.00094 28.5 1.0 29 172-200 36-67 (407)
87 3a11_A Translation initiation 22.1 2.9E+02 0.01 21.8 9.2 66 15-80 16-83 (338)
88 2js5_A Uncharacterized protein 22.1 34 0.0012 20.5 1.1 17 97-113 26-42 (71)
89 3a43_A HYPD, hydrogenase nicke 22.0 29 0.00099 23.7 1.0 11 188-198 107-117 (139)
90 2w57_A Ferric uptake regulatio 21.9 1.3E+02 0.0046 20.3 4.5 26 18-43 32-57 (150)
91 4fqn_A Malcavernin; helical do 20.8 87 0.003 19.9 2.8 20 49-69 42-61 (98)
92 2fe3_A Peroxide operon regulat 20.8 1.3E+02 0.0045 20.2 4.2 24 19-42 37-60 (145)
93 1deq_A Fibrinogen (alpha chain 20.5 1.1E+02 0.0039 24.6 4.1 50 22-71 90-142 (390)
94 2lo3_A SAGA-associated factor 20.2 26 0.00088 18.5 0.3 9 189-197 18-26 (44)
95 1znf_A 31ST zinc finger from X 20.1 32 0.0011 14.5 0.6 8 190-197 3-10 (27)
No 1
>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=99.13 E-value=5e-11 Score=68.67 Aligned_cols=42 Identities=29% Similarity=0.780 Sum_probs=36.7
Q ss_pred CCCcccccCCCCCcccccccCc---cccccCCCCcccCCCCCCCC
Q 036141 168 MRQVQCFSCKEYRHIVVKCAKK---FCNYCKKPGHIIKECPTRPQ 209 (220)
Q Consensus 168 ~~~~~~~~~~~~g~~~~~~~~~---~C~~Cgk~GH~~~~C~~k~~ 209 (220)
.+...|++|+..||.+++|+.. .||.||+.||++++||.++.
T Consensus 4 ~r~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~~~~ 48 (49)
T 2ec7_A 4 RKVIRCWNCGKEGHSARQCRAPRRQGCWKCGKTGHVMAKCPERQA 48 (49)
T ss_dssp CCCCBCTTTCCBTCCTTTCCCSSCCSCSSSCCSSCCGGGCCSSCC
T ss_pred CCcCeeeecCCCCcChhhCcCCCCCeeCcCCCcCCccCCCcCCCC
Confidence 3456799999999999999864 79999999999999998764
No 2
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=99.01 E-value=2e-10 Score=69.31 Aligned_cols=42 Identities=31% Similarity=0.711 Sum_probs=35.2
Q ss_pred CcccccCCCCCcccccccC--------ccccccCCCCcccCCCCCCCCCC
Q 036141 170 QVQCFSCKEYRHIVVKCAK--------KFCNYCKKPGHIIKECPTRPQNC 211 (220)
Q Consensus 170 ~~~~~~~~~~g~~~~~~~~--------~~C~~Cgk~GH~~~~C~~k~~~~ 211 (220)
...|++|+..||.+++|+. ..||.|++.||++++||.++...
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~~~ 53 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRKSGNSRERCQLCNGMGHNAKQCRKRDGNQ 53 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTSSSCCCSBCTTTCCBSSCGGGCCCCC---
T ss_pred CCcccccCCCCeehhhCcCCcCCCCCCCeeCCCCCCCCCcCCCcCCCcCC
Confidence 4569999999999999987 35999999999999999987654
No 3
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=99.01 E-value=3e-10 Score=71.00 Aligned_cols=43 Identities=26% Similarity=0.793 Sum_probs=37.3
Q ss_pred CCCcccccCCCCCcccccccC----ccccccCCCCcccCCCCCCCCC
Q 036141 168 MRQVQCFSCKEYRHIVVKCAK----KFCNYCKKPGHIIKECPTRPQN 210 (220)
Q Consensus 168 ~~~~~~~~~~~~g~~~~~~~~----~~C~~Cgk~GH~~~~C~~k~~~ 210 (220)
.+...|++|+..||..+.|+. ..||.||+.||++++||.++..
T Consensus 22 ~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~~~~~ 68 (74)
T 2li8_A 22 SKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLKAQQ 68 (74)
T ss_dssp STTSCCTTTCCSSSCTTTCSSCCCCCCCTTTCCTTSCGGGCTTGGGT
T ss_pred CCCCcccccCCcCcCcccCCCCCCCCccCCcCCcCCccCcCcCCcCC
Confidence 345679999999999999984 5899999999999999987743
No 4
>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=98.99 E-value=2.3e-10 Score=67.63 Aligned_cols=41 Identities=39% Similarity=0.865 Sum_probs=35.9
Q ss_pred CCcccccCCCCCcccccccC---ccccccCCCCcccCCCCCCCC
Q 036141 169 RQVQCFSCKEYRHIVVKCAK---KFCNYCKKPGHIIKECPTRPQ 209 (220)
Q Consensus 169 ~~~~~~~~~~~g~~~~~~~~---~~C~~Cgk~GH~~~~C~~k~~ 209 (220)
+...|+.|+..||.++.|+. ..||.||+.||++++||.++.
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~~~~ 54 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQA 54 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSCSCCBCTTTCCBSSCGGGCSSSCC
T ss_pred CCcceeeeCCCCcChhhcCCCCCCEeCCCCCcCCccCCCcCcCC
Confidence 34679999999999999976 479999999999999998654
No 5
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=98.98 E-value=2.9e-10 Score=62.15 Aligned_cols=35 Identities=29% Similarity=0.744 Sum_probs=32.1
Q ss_pred ccccCCCCCcccccccC---ccccccCCCCcccCCCCC
Q 036141 172 QCFSCKEYRHIVVKCAK---KFCNYCKKPGHIIKECPT 206 (220)
Q Consensus 172 ~~~~~~~~g~~~~~~~~---~~C~~Cgk~GH~~~~C~~ 206 (220)
.|++|++.||.+++|+. ..||.||+.||++++||+
T Consensus 2 ~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQPRQEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp BCTTTCCBSSCTTTCCSCCCSSCTTTCCSSSCTTTSCC
T ss_pred eeeccCCCCcccccCCCCCCCccccCCCCCCccCcCcC
Confidence 58999999999999986 489999999999999985
No 6
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=98.97 E-value=3.1e-10 Score=61.30 Aligned_cols=35 Identities=37% Similarity=1.009 Sum_probs=32.2
Q ss_pred ccccCCCCCcccccccC-ccccccCCCCcccCCCCC
Q 036141 172 QCFSCKEYRHIVVKCAK-KFCNYCKKPGHIIKECPT 206 (220)
Q Consensus 172 ~~~~~~~~g~~~~~~~~-~~C~~Cgk~GH~~~~C~~ 206 (220)
.|++|++.||.+++|+. ..||.||++||++++||.
T Consensus 2 ~C~~Cg~~GH~~~~C~~~~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAPKVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CBSSSCCSSCCTTTSSCBTTCSSCCCTTGGGGTTCC
T ss_pred cccccCCCCcchhhCcCcCeEccCCCcCCccCcCcC
Confidence 58999999999999987 589999999999999984
No 7
>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=98.97 E-value=5.3e-10 Score=67.83 Aligned_cols=40 Identities=28% Similarity=0.835 Sum_probs=35.4
Q ss_pred CcccccCCCCCcccccccC----ccccccCCCCcccCCCCCCCC
Q 036141 170 QVQCFSCKEYRHIVVKCAK----KFCNYCKKPGHIIKECPTRPQ 209 (220)
Q Consensus 170 ~~~~~~~~~~g~~~~~~~~----~~C~~Cgk~GH~~~~C~~k~~ 209 (220)
...|++|+..||.+++|+. ..||.|++.||++++||.++.
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~~~~ 50 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLKAQ 50 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCCCSSCCTTTCCSSSCTTTCTGGGC
T ss_pred CCcccccCCCCcChhhCCCCCCCCccCCcCCcCCccCcCCCccc
Confidence 4569999999999999983 589999999999999998653
No 8
>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=98.95 E-value=5.7e-10 Score=79.57 Aligned_cols=45 Identities=24% Similarity=0.710 Sum_probs=38.0
Q ss_pred CCCCcccccCCCCCcccccccC----ccccccCCCCcccCCCCCCCCCC
Q 036141 167 DMRQVQCFSCKEYRHIVVKCAK----KFCNYCKKPGHIIKECPTRPQNC 211 (220)
Q Consensus 167 ~~~~~~~~~~~~~g~~~~~~~~----~~C~~Cgk~GH~~~~C~~k~~~~ 211 (220)
+.+...|++|+..||.++.|+. ..||.||+.||++++||.+.+..
T Consensus 94 p~~~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp~~~~~~ 142 (148)
T 3ts2_A 94 PKGGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLKAQQG 142 (148)
T ss_dssp CCCSCCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCTTTTC--
T ss_pred cCCCCcccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCcCCCCCC
Confidence 3445679999999999999987 58999999999999999886654
No 9
>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=98.94 E-value=3.6e-10 Score=68.08 Aligned_cols=42 Identities=29% Similarity=0.744 Sum_probs=21.3
Q ss_pred ccccCCCCCcccccccC-----------ccccccCCCCcccCCCCCCCCCCcC
Q 036141 172 QCFSCKEYRHIVVKCAK-----------KFCNYCKKPGHIIKECPTRPQNCQA 213 (220)
Q Consensus 172 ~~~~~~~~g~~~~~~~~-----------~~C~~Cgk~GH~~~~C~~k~~~~~~ 213 (220)
.|++|+..||.+++|+. ..||.||+.||++++|+.+....++
T Consensus 3 ~Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~~~G~ 55 (60)
T 1cl4_A 3 SCFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKSKTDNQGN 55 (60)
T ss_dssp --------------------------CCCSCSSCSSCSSCSTTCCCTTSSSSC
T ss_pred ccccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCCccccCCC
Confidence 59999999999998865 4699999999999999998865544
No 10
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=98.66 E-value=1.2e-08 Score=55.38 Aligned_cols=24 Identities=42% Similarity=1.097 Sum_probs=20.2
Q ss_pred CccccccCCCCcccCCCCCCCCCC
Q 036141 188 KKFCNYCKKPGHIIKECPTRPQNC 211 (220)
Q Consensus 188 ~~~C~~Cgk~GH~~~~C~~k~~~~ 211 (220)
...||+||+.||++++||.+....
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 347999999999999999876543
No 11
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1
Probab=98.64 E-value=9.7e-09 Score=50.60 Aligned_cols=21 Identities=33% Similarity=0.823 Sum_probs=17.4
Q ss_pred ccccccCCCCcccCCCCCCCC
Q 036141 189 KFCNYCKKPGHIIKECPTRPQ 209 (220)
Q Consensus 189 ~~C~~Cgk~GH~~~~C~~k~~ 209 (220)
..||+||+.||++++||..+.
T Consensus 3 ~~Cf~CG~~GH~ardC~~~~~ 23 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEEXX 23 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC--
T ss_pred CeeEeCCCCCcccccCCCccc
Confidence 369999999999999998754
No 12
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=98.59 E-value=3.9e-08 Score=62.67 Aligned_cols=36 Identities=14% Similarity=0.348 Sum_probs=20.4
Q ss_pred cccCCCCCcccccccC----ccccccCCCCcccCCCCCCC
Q 036141 173 CFSCKEYRHIVVKCAK----KFCNYCKKPGHIIKECPTRP 208 (220)
Q Consensus 173 ~~~~~~~g~~~~~~~~----~~C~~Cgk~GH~~~~C~~k~ 208 (220)
|+.|+..||.++.|.. ..||+||+.||+.++||...
T Consensus 27 cY~c~~~gh~~~~c~~p~~~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 27 AYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp CCCBC-------------CCCBCSSSSCBSSCGGGCSSCC
T ss_pred ccccccCCcccccccCCCCCCeecccCCCCcCcccCCccc
Confidence 4455555554433322 37999999999999999865
No 13
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A
Probab=98.58 E-value=2.9e-08 Score=50.23 Aligned_cols=21 Identities=29% Similarity=0.578 Sum_probs=18.1
Q ss_pred CccccccCCCCcccCCCCCCC
Q 036141 188 KKFCNYCKKPGHIIKECPTRP 208 (220)
Q Consensus 188 ~~~C~~Cgk~GH~~~~C~~k~ 208 (220)
..+||+||++||++++|+...
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 346999999999999998754
No 14
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A
Probab=98.56 E-value=3e-08 Score=57.95 Aligned_cols=25 Identities=40% Similarity=1.050 Sum_probs=20.7
Q ss_pred cCccccccCCCCcccCCCCCCCCCC
Q 036141 187 AKKFCNYCKKPGHIIKECPTRPQNC 211 (220)
Q Consensus 187 ~~~~C~~Cgk~GH~~~~C~~k~~~~ 211 (220)
....||+||+.|||+++||.+....
T Consensus 22 ~~~~C~~Cge~GH~ardCp~~~~~~ 46 (56)
T 1u6p_A 22 DRDQCAYCKEKGHWAKDCPKKPRGP 46 (56)
T ss_dssp CTTBCSSSCCBSSCGGGCTTCCCSS
T ss_pred CCCcceeCCCCCcccccCcCCcccc
Confidence 3457999999999999999876543
No 15
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=98.24 E-value=3.6e-07 Score=53.16 Aligned_cols=21 Identities=52% Similarity=0.994 Sum_probs=17.7
Q ss_pred CccccccCCCCcccCCCCCCC
Q 036141 188 KKFCNYCKKPGHIIKECPTRP 208 (220)
Q Consensus 188 ~~~C~~Cgk~GH~~~~C~~k~ 208 (220)
...||.||++||++++||...
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~~ 27 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTNG 27 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGGG
T ss_pred CCccccCCCcCcccccCCCCC
Confidence 346999999999999999543
No 16
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=98.20 E-value=8.6e-07 Score=61.32 Aligned_cols=36 Identities=31% Similarity=0.748 Sum_probs=22.5
Q ss_pred ccccCCCC-CcccccccC-ccccccCCCCcccCCCCCC
Q 036141 172 QCFSCKEY-RHIVVKCAK-KFCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 172 ~~~~~~~~-g~~~~~~~~-~~C~~Cgk~GH~~~~C~~k 207 (220)
.|+.|+.. ||..+.|+. ..|++|++.||++++||..
T Consensus 24 ~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~ 61 (124)
T 2lli_A 24 ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHK 61 (124)
T ss_dssp CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCC
T ss_pred cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCc
Confidence 46666665 666666655 3566666666666666653
No 17
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=98.02 E-value=4e-06 Score=57.93 Aligned_cols=38 Identities=32% Similarity=0.719 Sum_probs=34.3
Q ss_pred cccccCCCCCcccccccC----ccccccCCCCcccCCCCCCC
Q 036141 171 VQCFSCKEYRHIVVKCAK----KFCNYCKKPGHIIKECPTRP 208 (220)
Q Consensus 171 ~~~~~~~~~g~~~~~~~~----~~C~~Cgk~GH~~~~C~~k~ 208 (220)
..|+.|+..||..+.|+. ..|+.||+.||++++||...
T Consensus 43 ~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~~~~Cp~~~ 84 (124)
T 2lli_A 43 IQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHSKERCPSIW 84 (124)
T ss_dssp SCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCCTTTCCCST
T ss_pred ccccccCCCCCccccCcCcccCccCCCCCcCCcchhhCCCcc
Confidence 579999999999999886 47999999999999999764
No 18
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=97.83 E-value=5.4e-06 Score=51.54 Aligned_cols=20 Identities=30% Similarity=0.509 Sum_probs=17.5
Q ss_pred CccccccCCCCcccCCCCCC
Q 036141 188 KKFCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 188 ~~~C~~Cgk~GH~~~~C~~k 207 (220)
...||+||+.||++++|+..
T Consensus 24 ~~~C~~Cg~~GH~a~~C~~~ 43 (74)
T 2li8_A 24 GDRCYNCGGLDHHAKECKLP 43 (74)
T ss_dssp TSCCTTTCCSSSCTTTCSSC
T ss_pred CCcccccCCcCcCcccCCCC
Confidence 34799999999999999963
No 19
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=97.70 E-value=1.4e-05 Score=43.26 Aligned_cols=18 Identities=39% Similarity=0.881 Sum_probs=16.7
Q ss_pred cccccCCCCcccCCCCCC
Q 036141 190 FCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 190 ~C~~Cgk~GH~~~~C~~k 207 (220)
.||+||+.||++++||..
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 20
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=97.66 E-value=2.2e-05 Score=44.74 Aligned_cols=20 Identities=30% Similarity=0.622 Sum_probs=17.9
Q ss_pred CccccccCCCCcccCCCCCC
Q 036141 188 KKFCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 188 ~~~C~~Cgk~GH~~~~C~~k 207 (220)
...||+||+.||++++||..
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 35799999999999999975
No 21
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=97.65 E-value=1.8e-05 Score=42.27 Aligned_cols=18 Identities=39% Similarity=0.988 Sum_probs=16.5
Q ss_pred cccccCCCCcccCCCCCC
Q 036141 190 FCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 190 ~C~~Cgk~GH~~~~C~~k 207 (220)
.||+|+++||++++||..
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 599999999999999874
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=97.64 E-value=2.6e-05 Score=45.65 Aligned_cols=22 Identities=36% Similarity=0.649 Sum_probs=18.9
Q ss_pred ccCccccccCCCCcccCCCCCC
Q 036141 186 CAKKFCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 186 ~~~~~C~~Cgk~GH~~~~C~~k 207 (220)
.....||+||+.||++++||..
T Consensus 10 ~~~~~C~~Cg~~GH~a~~C~~~ 31 (55)
T 1a1t_A 10 RKTVKCFNCGKEGHIAKNCRAP 31 (55)
T ss_dssp GGTCBCTTTCCBSSCGGGCSSC
T ss_pred CCCcceeeeCCCCcChhhcCCC
Confidence 4446799999999999999875
No 23
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=97.35 E-value=7.1e-05 Score=44.71 Aligned_cols=21 Identities=33% Similarity=0.967 Sum_probs=18.3
Q ss_pred ccccccCCCCcccCCCCCCCC
Q 036141 189 KFCNYCKKPGHIIKECPTRPQ 209 (220)
Q Consensus 189 ~~C~~Cgk~GH~~~~C~~k~~ 209 (220)
..||+|++.||++++||....
T Consensus 5 ~~C~~Cg~~GH~a~~C~~~~~ 25 (61)
T 2ihx_A 5 GLCYTCGSPGHYQAQCPKKRK 25 (61)
T ss_dssp TBCSSSCCBTCCGGGCTTTTS
T ss_pred CcccccCCCCeehhhCcCCcC
Confidence 469999999999999998643
No 24
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=97.31 E-value=3.4e-05 Score=45.99 Aligned_cols=19 Identities=37% Similarity=0.782 Sum_probs=0.0
Q ss_pred cccccCCCCcccCCCCCCC
Q 036141 190 FCNYCKKPGHIIKECPTRP 208 (220)
Q Consensus 190 ~C~~Cgk~GH~~~~C~~k~ 208 (220)
.||+|++.||++++||...
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 5999999999999999864
No 25
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=97.22 E-value=0.00013 Score=43.80 Aligned_cols=19 Identities=32% Similarity=0.555 Sum_probs=17.1
Q ss_pred ccccccCCCCcccCCCCCC
Q 036141 189 KFCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 189 ~~C~~Cgk~GH~~~~C~~k 207 (220)
..||+|++.||++++|+..
T Consensus 8 ~~C~~Cg~~GH~a~~C~~~ 26 (63)
T 2cqf_A 8 DRCYNCGGLDHHAKECKLP 26 (63)
T ss_dssp CCCSSSCCSSSCTTTCCSC
T ss_pred CcccccCCCCcChhhCCCC
Confidence 4699999999999999964
No 26
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=96.85 E-value=0.00063 Score=48.18 Aligned_cols=20 Identities=30% Similarity=0.509 Sum_probs=17.7
Q ss_pred CccccccCCCCcccCCCCCC
Q 036141 188 KKFCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 188 ~~~C~~Cgk~GH~~~~C~~k 207 (220)
..+||+||+.||++++|+..
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 35799999999999999973
No 27
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=96.50 E-value=0.00071 Score=42.85 Aligned_cols=39 Identities=21% Similarity=0.272 Sum_probs=22.7
Q ss_pred CCcccccCCCCCcccccccCc-cccccCCCCcccCCCCCC
Q 036141 169 RQVQCFSCKEYRHIVVKCAKK-FCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 169 ~~~~~~~~~~~g~~~~~~~~~-~C~~Cgk~GH~~~~C~~k 207 (220)
....|+.|+..||..+.|+.. .||+|+.+||.+++|+..
T Consensus 4 k~~~C~~Cg~~GH~~~~Cp~~~rcY~c~~~gh~~~~c~~p 43 (83)
T 3nyb_B 4 KKVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLP 43 (83)
T ss_dssp ---CCSSSCCSSSCGGGCGGGTCCCCBC------------
T ss_pred ccCCCCCCCCCCCccccCCCcccccccccCCcccccccCC
Confidence 345799999999999999987 799999999999999754
No 28
>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=95.34 E-value=0.015 Score=31.15 Aligned_cols=25 Identities=36% Similarity=0.631 Sum_probs=20.6
Q ss_pred CCCCCCcccccCCCCCcccccccCc
Q 036141 165 GRDMRQVQCFSCKEYRHIVVKCAKK 189 (220)
Q Consensus 165 ~~~~~~~~~~~~~~~g~~~~~~~~~ 189 (220)
+.......|+.|+..||++++|+..
T Consensus 5 ~~~~~~~~C~~Cgk~GH~ardCP~~ 29 (40)
T 1a6b_B 5 RSQLDRDQCAYCKEKGHWAKDCPKK 29 (40)
T ss_dssp CCSCCSSSCSSSCCTTCCTTSCSSS
T ss_pred cCCCCCCeeeECCCCCcchhhCcCC
Confidence 3455567899999999999999874
No 29
>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=94.98 E-value=0.019 Score=33.21 Aligned_cols=26 Identities=35% Similarity=0.641 Sum_probs=21.2
Q ss_pred cCCCCCCcccccCCCCCcccccccCc
Q 036141 164 KGRDMRQVQCFSCKEYRHIVVKCAKK 189 (220)
Q Consensus 164 ~~~~~~~~~~~~~~~~g~~~~~~~~~ 189 (220)
++.......|+.|+..||++++|+..
T Consensus 17 ~~~~~~~~~C~~Cge~GH~ardCp~~ 42 (56)
T 1u6p_A 17 RRSQLDRDQCAYCKEKGHWAKDCPKK 42 (56)
T ss_dssp CSTTCCTTBCSSSCCBSSCGGGCTTC
T ss_pred CCCCCCCCcceeCCCCCcccccCcCC
Confidence 34455677899999999999999875
No 30
>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=94.46 E-value=0.029 Score=27.69 Aligned_cols=21 Identities=19% Similarity=0.689 Sum_probs=17.5
Q ss_pred CCcccccCCCCCcccccccCc
Q 036141 169 RQVQCFSCKEYRHIVVKCAKK 189 (220)
Q Consensus 169 ~~~~~~~~~~~g~~~~~~~~~ 189 (220)
++..|++|+..||..++|+.+
T Consensus 5 ~~~~C~nCgk~GH~ar~C~~p 25 (29)
T 1nc8_A 5 KVIRCWNCGKEGHSARQCRAP 25 (29)
T ss_dssp CCCBCTTTSCBSSCGGGCCSS
T ss_pred CCCEEEECCccccCHhHCccc
Confidence 456799999999998888754
No 31
>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=94.06 E-value=0.027 Score=27.06 Aligned_cols=19 Identities=37% Similarity=0.814 Sum_probs=16.5
Q ss_pred cccccCCCCCcccccccCc
Q 036141 171 VQCFSCKEYRHIVVKCAKK 189 (220)
Q Consensus 171 ~~~~~~~~~g~~~~~~~~~ 189 (220)
..|+.|+..||.+++|+..
T Consensus 3 ~~Cf~CG~~GH~ardC~~~ 21 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEE 21 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC
T ss_pred CeeEeCCCCCcccccCCCc
Confidence 4699999999999988764
No 32
>2hqh_E Restin; beta/BETA structure, zinc finger motif, structural protein, binding; 1.80A {Homo sapiens}
Probab=92.84 E-value=0.03 Score=26.48 Aligned_cols=19 Identities=26% Similarity=0.842 Sum_probs=16.2
Q ss_pred CccccccCCCCcccCCCCC
Q 036141 188 KKFCNYCKKPGHIIKECPT 206 (220)
Q Consensus 188 ~~~C~~Cgk~GH~~~~C~~ 206 (220)
++.|-.|.--||+..+|..
T Consensus 3 RpYCe~CE~FGH~t~~C~d 21 (26)
T 2hqh_E 3 RPYCEICEMFGHWATNCND 21 (26)
T ss_dssp -CEETTTTEESSCGGGCCT
T ss_pred CccchHHHHhCcccccCCc
Confidence 3569999999999999965
No 33
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=90.82 E-value=0.07 Score=34.49 Aligned_cols=43 Identities=28% Similarity=0.593 Sum_probs=28.5
Q ss_pred CCCcccccCCCCC--------ccccc------ccCc---cccccCCCC---cccCCCCCCCCC
Q 036141 168 MRQVQCFSCKEYR--------HIVVK------CAKK---FCNYCKKPG---HIIKECPTRPQN 210 (220)
Q Consensus 168 ~~~~~~~~~~~~g--------~~~~~------~~~~---~C~~Cgk~G---H~~~~C~~k~~~ 210 (220)
.....|.+|...| |..++ |+.. .|-.||-.| |+.+-||..++.
T Consensus 34 ~~~~~C~FCrnNGE~~~vy~SH~LKd~~G~V~CPvLR~Y~CpiCGATGd~AHT~kYCP~~~~~ 96 (106)
T 3alr_A 34 AERKFCSFCKHNGETEAVYTSHYLKNRDGDVMCPYLRQYKCPLCGATGAKAHTKRFCPMVDKN 96 (106)
T ss_dssp ----CCHHHHHTTCCHHHHTSBCSBCTTSCBCCTTGGGCCCTTTCCCGGGCCCGGGCTTCGGG
T ss_pred CCCCEeECCCCCCcccCccccceeECCCCCCcCCCcccccCCCCCCcCCcccceecCCCCCCc
Confidence 3455688887776 33333 4432 799999999 999999987643
No 34
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=89.96 E-value=0.2 Score=28.73 Aligned_cols=20 Identities=25% Similarity=0.715 Sum_probs=17.1
Q ss_pred CCcccccCCCCCcccccccC
Q 036141 169 RQVQCFSCKEYRHIVVKCAK 188 (220)
Q Consensus 169 ~~~~~~~~~~~g~~~~~~~~ 188 (220)
....|+.|+..||+.+.|+.
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~ 25 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPT 25 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSG
T ss_pred CCCccccCCCcCcccccCCC
Confidence 34579999999999999983
No 35
>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=85.62 E-value=0.23 Score=26.26 Aligned_cols=21 Identities=24% Similarity=0.714 Sum_probs=16.5
Q ss_pred ccCccccccCCCCcccCCCCC
Q 036141 186 CAKKFCNYCKKPGHIIKECPT 206 (220)
Q Consensus 186 ~~~~~C~~Cgk~GH~~~~C~~ 206 (220)
-.++-|-.|.--||+..+|..
T Consensus 18 ~eRpYCd~CEvFGH~t~~Cnd 38 (42)
T 2pzo_E 18 EERPYCEICEMFGHWATNCND 38 (42)
T ss_dssp ---CEETTTTEESSCGGGCCT
T ss_pred cCCcccccccccCcccccCCc
Confidence 445679999999999999975
No 36
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Probab=78.12 E-value=19 Score=26.85 Aligned_cols=35 Identities=17% Similarity=0.004 Sum_probs=21.7
Q ss_pred cccHHHHHHHHHHHhccCChhHHhHHHHHHHHHhc
Q 036141 19 HKTAKDMWEYLKKVYNQDNTAKRSHLEYEIARYSQ 53 (220)
Q Consensus 19 ~~ta~~~w~~L~~~f~~~~~~~~~~l~~~~~~~~q 53 (220)
...++++...|+.+....+....+..-.-+..+.+
T Consensus 40 ~~~~k~a~ral~krl~~~n~~v~l~aL~LLe~~vk 74 (226)
T 3zyq_A 40 DTQAKYAVNSIKKKVNDKNPHVALYALEVMESVVK 74 (226)
T ss_dssp SSCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHH
T ss_pred CccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 45789999999999885544333333333455544
No 37
>3e2u_E CAP-Gly domain-containing linker protein 1; structural protein microtubule binding, dynactin, cytoskelet associated protein, P150glued; 2.60A {Homo sapiens}
Probab=76.04 E-value=0.86 Score=24.20 Aligned_cols=20 Identities=25% Similarity=0.795 Sum_probs=17.5
Q ss_pred CccccccCCCCcccCCCCCC
Q 036141 188 KKFCNYCKKPGHIIKECPTR 207 (220)
Q Consensus 188 ~~~C~~Cgk~GH~~~~C~~k 207 (220)
++-|-.|---||+..+|..-
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 56799999999999999753
No 38
>3g21_A GAG polyprotein, capsid protein; alpha-helical bundle, virion, viral protein, retrovirus; 0.90A {Rous sarcoma virus} PDB: 3g1i_A 3g28_A 3g29_A 3g26_A 3g0v_A
Probab=72.35 E-value=5.5 Score=24.30 Aligned_cols=20 Identities=20% Similarity=0.230 Sum_probs=16.3
Q ss_pred HHHhcC-CccHHHHHHHHHHH
Q 036141 49 ARYSQG-NLSIQNYFSGFQNL 68 (220)
Q Consensus 49 ~~~~q~-~~sv~~y~~~~~~l 68 (220)
...+|| .|+..+|+++|..-
T Consensus 5 tdI~QGPkEPF~dfVdRl~ka 25 (77)
T 3g21_A 5 ADIMQGPSESFVDFANRLIKA 25 (77)
T ss_dssp GGCCCCTTCCHHHHHHHHHHH
T ss_pred cccccCCCccHHHHHHHHHHH
Confidence 345687 89999999999865
No 39
>3g1g_A GAG polyprotein, capsid protein; alpha-helical bundle, virion, viral protein, retrovirus; 2.01A {Rous sarcoma virus}
Probab=68.90 E-value=14 Score=23.03 Aligned_cols=20 Identities=15% Similarity=0.147 Sum_probs=16.3
Q ss_pred HHhcC-CccHHHHHHHHHHHH
Q 036141 50 RYSQG-NLSIQNYFSGFQNLW 69 (220)
Q Consensus 50 ~~~q~-~~sv~~y~~~~~~l~ 69 (220)
..+|| .|+..+|+++|..-.
T Consensus 5 dI~QGPkEPF~dfVdRl~kal 25 (87)
T 3g1g_A 5 DIMQGPSESFVDFANRLIKAV 25 (87)
T ss_dssp TCCCCTTCCHHHHHHHHHHHH
T ss_pred ccccCCCCcHHHHHHHHHHHH
Confidence 45687 899999999998653
No 40
>3tir_A ROUS sarcoma virus capsid protein P27; viral capsid protein, viral protein; 4.10A {Rous sarcoma virus} PDB: 2x8q_A
Probab=68.23 E-value=17 Score=27.18 Aligned_cols=39 Identities=13% Similarity=0.136 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHhccCChhHHhHHHHHHHHHhcC-CccHHHHHHHHHHHH
Q 036141 22 AKDMWEYLKKVYNQDNTAKRSHLEYEIARYSQG-NLSIQNYFSGFQNLW 69 (220)
Q Consensus 22 a~~~w~~L~~~f~~~~~~~~~~l~~~~~~~~q~-~~sv~~y~~~~~~l~ 69 (220)
|-..|..|...+.+... |...+|| +|+..+|++||..-.
T Consensus 136 ai~aw~~l~~~~~~~~~---------~~~I~QGp~Epf~dfv~rl~~a~ 175 (226)
T 3tir_A 136 ALQAFREVARLAEPAGP---------WADIMQGPSESFVDFANRLIKAV 175 (226)
T ss_dssp HHHHHHHHHHHC----C---------GGGCCCCTTCCHHHHHHHHHHHH
T ss_pred HHHHHHhccccCCCCcc---------hhHhhcCCCCcHHHHHHHHHHHH
Confidence 45567777666664321 4456688 999999999998654
No 41
>3ds4_A HIV-1 capsid protein; HIV, mutant, polyprotein, complex(viral protein/peptide), mainly alpha; 1.12A {Human immunodeficiency virus 1} PDB: 3dph_A 1a43_A 2xt1_A 2buo_A 3lry_A 2kod_A 3ds1_A 3dtj_A 3ds0_A 3ds5_A 3ds2_A 3ds3_A 2jo0_A 2jyg_A 2xxm_A 2xv6_A 2ont_A 1aum_A 1a8o_A 4arg_B ...
Probab=68.15 E-value=16 Score=22.81 Aligned_cols=22 Identities=23% Similarity=0.388 Sum_probs=17.3
Q ss_pred HHHHhcC-CccHHHHHHHHHHHH
Q 036141 48 IARYSQG-NLSIQNYFSGFQNLW 69 (220)
Q Consensus 48 ~~~~~q~-~~sv~~y~~~~~~l~ 69 (220)
|...+|| .|+..+|+++|....
T Consensus 5 ~~~i~QGpkEpf~dfv~rl~k~l 27 (86)
T 3ds4_A 5 ILDIRQGPKEPFRDYVDRFYKTL 27 (86)
T ss_dssp GGGCCCCTTSCHHHHHHHHHHHH
T ss_pred hhccccCCCCcHHHHHHHHHHHH
Confidence 3445677 899999999988765
No 42
>1eoq_A GAG polyprotein capsid protein P27; virus/viral protein; NMR {Rous sarcoma virus - prague C} SCOP: a.28.3.1
Probab=62.41 E-value=17 Score=23.11 Aligned_cols=70 Identities=14% Similarity=0.113 Sum_probs=40.1
Q ss_pred HhcC-CccHHHHHHHHHHHHHHHhhcccccCCcccHHHHHHHHHHHHHHHHHhhccchHHHHHHhhcCCCCCCCHHHHHH
Q 036141 51 YSQG-NLSIQNYFSGFQNLWAEYVDMIYVQVPIESLADVQEVHEQSKRDQFLMKLRPKYEAARSNLMNRDLSPSLDVCFK 129 (220)
Q Consensus 51 ~~q~-~~sv~~y~~~~~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~gLp~~~~~~~~~l~~~~~~~sl~e~~~ 129 (220)
.+|| .|+..+|++||..-...- ..+.++ +.+..+ .-++..-+|+-..+...+ ..+..|++|++.
T Consensus 3 IkQGPkEPFrDyVdRf~kalrae------qa~~~v----K~wmt~---tLlvQNANPdCk~iLkal--~g~~~tl~em~~ 67 (96)
T 1eoq_A 3 IMQGPSESFVDFANRLIKAVEGS------DLPPSA----RAPVII---DCFRQKSQPDIQQLIRTA--PSTLTTPGEIIK 67 (96)
T ss_dssp CCCCTTCCHHHHHHHHHHHHHTT------TCCHHH----HHHHHH---HHHHHHSCHHHHHHHHHC--CSCCCSHHHHHH
T ss_pred cccCCCCcHHHHHHHHHHHHHHh------hccHhH----hhhhHH---HHHHHhcCHHHHHHHHcc--CCCCCCHHHHHH
Confidence 3577 899999999987653322 222222 222111 223444466666654443 245678899888
Q ss_pred HHHHHH
Q 036141 130 ELLREE 135 (220)
Q Consensus 130 ~l~~~e 135 (220)
-++.-+
T Consensus 68 yi~~~~ 73 (96)
T 1eoq_A 68 YVLDRQ 73 (96)
T ss_dssp HHHHHS
T ss_pred HHHHHH
Confidence 876654
No 43
>2jyl_A Capsid protein P24 (Ca); HIV-1, carboxy-terminal, dimerization domain, CTD, 3D- NMR, capsid protein (Ca), double mutant; NMR {Human immunodeficiency virus 1} PDB: 2k1c_A* 2l6e_A*
Probab=54.93 E-value=40 Score=21.83 Aligned_cols=66 Identities=14% Similarity=0.196 Sum_probs=38.4
Q ss_pred HHHHhcC-CccHHHHHHHHHHHHHHHhhcccccCCcccHHHHHHHHHHHHHHHHHhhccchHHHHHHhhcCCCCCCCHHH
Q 036141 48 IARYSQG-NLSIQNYFSGFQNLWAEYVDMIYVQVPIESLADVQEVHEQSKRDQFLMKLRPKYEAARSNLMNRDLSPSLDV 126 (220)
Q Consensus 48 ~~~~~q~-~~sv~~y~~~~~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~gLp~~~~~~~~~l~~~~~~~sl~e 126 (220)
+...+|+ .|+..+|+++|......-. . ...+-......+ +...-+|+.+.+...+ .+..+++|
T Consensus 24 i~~IkQGpKEPf~dyVdR~~k~l~ae~-~-~~~vK~~mt~tL-----------~~qNANpdCk~ilk~l---g~~~tlee 87 (105)
T 2jyl_A 24 ILDIRQGPKEPFRDYVDRFYKTLRAEQ-A-SQEVKNAATETL-----------LVQNANPDCKTILKAL---GPGATLEE 87 (105)
T ss_dssp GGGCCCCSSSCHHHHHHHHHHHHHHHC-C-CTTTTTSCHHHH-----------HHHTSCHHHHHHHHHH---CTTCCHHH
T ss_pred hhhhhcCCCCcHHHHHHHHHHHHHHhh-c-chhhHHHhhhhh-----------hHhhcCcchhhHHHcc---CCCCCHHH
Confidence 4566787 8999999999987665432 2 222222222233 4455567766665555 23456666
Q ss_pred HHH
Q 036141 127 CFK 129 (220)
Q Consensus 127 ~~~ 129 (220)
...
T Consensus 88 ~~~ 90 (105)
T 2jyl_A 88 MMT 90 (105)
T ss_dssp HHH
T ss_pred HHH
Confidence 543
No 44
>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=54.70 E-value=5.7 Score=22.35 Aligned_cols=25 Identities=24% Similarity=0.449 Sum_probs=17.7
Q ss_pred ccccCCCCCcccccccCccccccCCCCcc
Q 036141 172 QCFSCKEYRHIVVKCAKKFCNYCKKPGHI 200 (220)
Q Consensus 172 ~~~~~~~~g~~~~~~~~~~C~~Cgk~GH~ 200 (220)
.|..|++.|.... .+|..|+-.|-.
T Consensus 11 ~C~~C~GsG~~i~----~~C~~C~G~G~v 35 (53)
T 3lcz_A 11 TCPNCNGSGREEP----EPCPKCLGKGVI 35 (53)
T ss_dssp ECTTTTTSCEETT----EECTTTTTSSEE
T ss_pred cCcCCcccccCCC----CcCCCCCCcEEE
Confidence 4788888887642 568888877754
No 45
>2cr7_A Paired amphipathic helix protein SIN3B; paired amphipathic helix repeat, transcriptional repressor, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rmr_A 2rms_A
Probab=49.15 E-value=39 Score=20.63 Aligned_cols=50 Identities=8% Similarity=0.113 Sum_probs=33.6
Q ss_pred ccccHHHHHHHHHHHhccCChhHHhHHHHH-HHHHhcCCccHHHHHHHHHHHH
Q 036141 18 LHKTAKDMWEYLKKVYNQDNTAKRSHLEYE-IARYSQGNLSIQNYFSGFQNLW 69 (220)
Q Consensus 18 ~~~ta~~~w~~L~~~f~~~~~~~~~~l~~~-~~~~~q~~~sv~~y~~~~~~l~ 69 (220)
....|..-.+.++.+|.. .+..+.-..+ +...+.+..++.+-+.++..|.
T Consensus 9 ~~~dA~~yl~~VK~rF~~--~p~~Y~~FL~im~~fk~~~~~~~~v~~rV~~Lf 59 (80)
T 2cr7_A 9 HVEDALTYLDQVKIRFGS--DPATYNGFLEIMKEFKSQSIDTPGVIRRVSQLF 59 (80)
T ss_dssp CSCCSHHHHHHHHHHTSS--CHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHG
T ss_pred CHHHHHHHHHHHHHHHcc--ChHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 345777888899999974 3444433333 4555556778888888888773
No 46
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1
Probab=48.05 E-value=74 Score=23.35 Aligned_cols=35 Identities=17% Similarity=0.142 Sum_probs=20.8
Q ss_pred cccHHHHHHHHHHHhccCChhHHhHHHHHHHHHhc
Q 036141 19 HKTAKDMWEYLKKVYNQDNTAKRSHLEYEIARYSQ 53 (220)
Q Consensus 19 ~~ta~~~w~~L~~~f~~~~~~~~~~l~~~~~~~~q 53 (220)
...++++...|+.+....+....+..-.-+..+.+
T Consensus 37 ~~~~k~a~r~l~krl~~~n~~~~l~aL~Lle~~vk 71 (220)
T 1dvp_A 37 DVTPKNAFAAIKKKMNSPNPHSSCYSLLVLESIVK 71 (220)
T ss_dssp SSCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHH
T ss_pred CcCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh
Confidence 34889999999988875444332322223444444
No 47
>2czy_A Paired amphipathic helix protein SIN3B; SIN3, PAH1, transcriptional repressor, gene regulation; NMR {Mus musculus}
Probab=47.52 E-value=33 Score=20.75 Aligned_cols=47 Identities=9% Similarity=0.122 Sum_probs=30.6
Q ss_pred ccHHHHHHHHHHHhccCChhHHhHHHHH-HHHHhcCCccHHHHHHHHHHH
Q 036141 20 KTAKDMWEYLKKVYNQDNTAKRSHLEYE-IARYSQGNLSIQNYFSGFQNL 68 (220)
Q Consensus 20 ~ta~~~w~~L~~~f~~~~~~~~~~l~~~-~~~~~q~~~sv~~y~~~~~~l 68 (220)
..|..-.+.++.+|.. .+..+.-..+ +...+.+..++.+-+.++..|
T Consensus 5 ~dA~~yl~~VK~~F~~--~p~~Y~~FL~im~~~k~~~~~~~~v~~rv~~L 52 (77)
T 2czy_A 5 EDALTYLDQVKIRFGS--DPATYNGFLEIMKEFKSQSIDTPGVIRRVSQL 52 (77)
T ss_dssp HHHHHHHHHHHHHTTT--CHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcc--ChHHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3566677788888874 2344433333 455555677888888888877
No 48
>4ayb_P DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2pmz_P 2wb1_P 2y0s_P 3hkz_P 2waq_P 4b1o_P 4b1p_X
Probab=45.32 E-value=15 Score=20.05 Aligned_cols=26 Identities=19% Similarity=0.280 Sum_probs=14.4
Q ss_pred ccccCCCCCcccc--cccCccccccCCC
Q 036141 172 QCFSCKEYRHIVV--KCAKKFCNYCKKP 197 (220)
Q Consensus 172 ~~~~~~~~g~~~~--~~~~~~C~~Cgk~ 197 (220)
.|.+||..-.... .-+..+|.+||-.
T Consensus 5 ~C~rCg~~fs~~el~~lP~IrCpyCGyr 32 (48)
T 4ayb_P 5 RCGKCWKTFTDEQLKVLPGVRCPYCGYK 32 (48)
T ss_dssp CCCCTTTTCCCCCSCCCSSSCCTTTCCS
T ss_pred EeeccCCCccHHHHhhCCCcccCccCcE
Confidence 3566665443322 2344589999843
No 49
>3kxe_C Antitoxin protein PARD-1; complex, TA system, protein binding; 2.60A {Caulobacter crescentus NA1000}
Probab=40.34 E-value=56 Score=20.34 Aligned_cols=36 Identities=14% Similarity=0.004 Sum_probs=29.1
Q ss_pred HHhhccchHHHHHHhhcCCCCCCCHHHHHHHHHHHH
Q 036141 100 FLMKLRPKYEAARSNLMNRDLSPSLDVCFKELLREE 135 (220)
Q Consensus 100 ~l~gLp~~~~~~~~~l~~~~~~~sl~e~~~~l~~~e 135 (220)
+=..||+++..++......-.+.|..|++..+++..
T Consensus 6 ~sIsL~~~l~~~i~~~V~sG~Y~s~SEviR~~lR~l 41 (88)
T 3kxe_C 6 TSVVLGDHFQAFIDSQVADGRYGSASEVIRAGLRLL 41 (88)
T ss_dssp EEECCCHHHHHHHHHHHTTTSCSSHHHHHHHHHHHH
T ss_pred eeeecCHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 445789999999999988888899888888766543
No 50
>2lta_A De novo designed protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}
Probab=45.38 E-value=6.3 Score=24.11 Aligned_cols=52 Identities=10% Similarity=0.128 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHhccCChhHHhHHHHH-HHHHh-cCCccHHHHHHHHHHHHHHHh
Q 036141 22 AKDMWEYLKKVYNQDNTAKRSHLEYE-IARYS-QGNLSIQNYFSGFQNLWAEYV 73 (220)
Q Consensus 22 a~~~w~~L~~~f~~~~~~~~~~l~~~-~~~~~-q~~~sv~~y~~~~~~l~~~L~ 73 (220)
.-+++-.|+..-+..-...+..|+.+ |.-++ .++.+|..|++.+..-.-+|.
T Consensus 27 glevyillkdkdekrleekiqklksqgfevrkvkddddidkwidkikkerpqle 80 (110)
T 2lta_A 27 GLEVYILLKDKDEKRLEEKIQKLKSQGFEVRKVKDDDDIDKWIDKIKKERPQLE 80 (110)
Confidence 34555566655444434455666666 55555 468899999999887666665
No 51
>1qrj_B HTLV-I capsid protein; retrovirus, two-domain protein, alpha helical protein, heteronuclear spectroscopy; NMR {Human t-cell lymphotrophic virus TYPE1} SCOP: a.28.3.1 a.73.1.1
Probab=37.79 E-value=46 Score=24.32 Aligned_cols=21 Identities=14% Similarity=0.158 Sum_probs=17.1
Q ss_pred HHHhcC-CccHHHHHHHHHHHH
Q 036141 49 ARYSQG-NLSIQNYFSGFQNLW 69 (220)
Q Consensus 49 ~~~~q~-~~sv~~y~~~~~~l~ 69 (220)
...+|| .|+..+|++||....
T Consensus 119 ~~IkQGpkEPf~dfVdR~~k~l 140 (199)
T 1qrj_B 119 ASILQGLEEPYHAFVERLNIAL 140 (199)
T ss_dssp GGCCBCTTSCHHHHHHHHHHHH
T ss_pred chhhcCCCCcHHHHHHHHHHHH
Confidence 356787 899999999998654
No 52
>1d0q_A DNA primase; zinc-binding motif, protein, transferase; HET: DNA; 1.71A {Geobacillus stearothermophilus} SCOP: g.41.3.2
Probab=37.56 E-value=11 Score=24.25 Aligned_cols=11 Identities=27% Similarity=0.597 Sum_probs=8.9
Q ss_pred cccccCCCCcc
Q 036141 190 FCNYCKKPGHI 200 (220)
Q Consensus 190 ~C~~Cgk~GH~ 200 (220)
.||.||+.|..
T Consensus 60 ~Cf~cg~gGd~ 70 (103)
T 1d0q_A 60 HCFGCGAGGNA 70 (103)
T ss_dssp EETTTCCEECH
T ss_pred EECCCCCCCCH
Confidence 69999987754
No 53
>2bx9_A Anti-trap, AT, tryptophan RNA-binding attenuator protein-inhibit protein; transcription regulation; 2.80A {Bacillus subtilis} PDB: 2ko8_A* 2zp8_E* 2zp9_C*
Probab=37.10 E-value=15 Score=20.58 Aligned_cols=26 Identities=27% Similarity=0.576 Sum_probs=18.8
Q ss_pred ccccCCCCCcccccccCccccccCCCCccc
Q 036141 172 QCFSCKEYRHIVVKCAKKFCNYCKKPGHII 201 (220)
Q Consensus 172 ~~~~~~~~g~~~~~~~~~~C~~Cgk~GH~~ 201 (220)
.|..|+..|... ...|..|+-.|...
T Consensus 11 ~C~~C~GsG~~~----~~~C~~C~G~G~v~ 36 (53)
T 2bx9_A 11 ACPKCERAGEIE----GTPCPACSGKGVIL 36 (53)
T ss_dssp ECTTTTTSSEET----TEECTTTTTSSEEE
T ss_pred cCCCCcceeccC----CCCCccCCCCccEE
Confidence 488888888763 24688888887654
No 54
>2lh0_A Histone chaperone RTT106; chromosomal protein, nucleus, phosphoprotein, transcription, transcription regulation, transposition; NMR {Saccharomyces cerevisiae}
Probab=36.62 E-value=64 Score=19.16 Aligned_cols=33 Identities=24% Similarity=0.242 Sum_probs=24.0
Q ss_pred HHhhccchHHHHHHhhcCCCCCCCHHHHHHHHHHH
Q 036141 100 FLMKLRPKYEAARSNLMNRDLSPSLDVCFKELLRE 134 (220)
Q Consensus 100 ~l~gLp~~~~~~~~~l~~~~~~~sl~e~~~~l~~~ 134 (220)
||..||++.+.-+.++.... ++-.+++..|...
T Consensus 8 wL~~LP~~Lq~kV~aIV~~~--PsSl~VF~~Ly~y 40 (70)
T 2lh0_A 8 FLDELPESLSRKIGTVVRVL--PSSLEIFEELYKY 40 (70)
T ss_dssp GGGGSCHHHHHHHHHHHTTC--TTHHHHHHHHHHH
T ss_pred HHHhCCHHHHHHHHHHHHhC--ccHHHHHHHHHHH
Confidence 89999999988888887654 4545566655554
No 55
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Probab=36.48 E-value=11 Score=21.41 Aligned_cols=8 Identities=50% Similarity=1.024 Sum_probs=6.5
Q ss_pred cccccCCC
Q 036141 190 FCNYCKKP 197 (220)
Q Consensus 190 ~C~~Cgk~ 197 (220)
.||-|||.
T Consensus 5 RCFTCGkv 12 (55)
T 1ef4_A 5 RCLSCGKP 12 (55)
T ss_dssp SCSCTTSC
T ss_pred ecCCCCCC
Confidence 59999885
No 56
>3h47_A Ca, capsid protein P24; hexamer, engineered disulfide bonds, viral protein; 1.90A {Human immunodeficiency virus type 1} PDB: 3h4e_A 2lf4_A 3mge_A 3p05_A 3p0a_A 3dik_A 3nte_A 1e6j_P
Probab=36.25 E-value=1.2e+02 Score=22.74 Aligned_cols=23 Identities=22% Similarity=0.362 Sum_probs=17.9
Q ss_pred HHHHhcC-CccHHHHHHHHHHHHH
Q 036141 48 IARYSQG-NLSIQNYFSGFQNLWA 70 (220)
Q Consensus 48 ~~~~~q~-~~sv~~y~~~~~~l~~ 70 (220)
|...+|| +|+..+|+++|.....
T Consensus 150 ~~~IkQGpkEPf~DfV~Rl~kal~ 173 (231)
T 3h47_A 150 ILDIRQGPKEPFRDYVDRFYKTLR 173 (231)
T ss_dssp GGGCCCCTTCCHHHHHHHHHHHHH
T ss_pred hhhhccCCCCcHHHHHHHHHHHHH
Confidence 3456687 9999999999987654
No 57
>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=35.42 E-value=11 Score=22.24 Aligned_cols=8 Identities=25% Similarity=0.480 Sum_probs=6.5
Q ss_pred cccccCCC
Q 036141 190 FCNYCKKP 197 (220)
Q Consensus 190 ~C~~Cgk~ 197 (220)
.||-|||.
T Consensus 6 RCFTCGkv 13 (66)
T 4ayb_N 6 RCFTCGSL 13 (66)
T ss_dssp BCTTTCCB
T ss_pred ccCCCcHh
Confidence 59999884
No 58
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos taurus} SCOP: i.9.1.1
Probab=34.79 E-value=1.6e+02 Score=23.75 Aligned_cols=33 Identities=9% Similarity=0.147 Sum_probs=18.5
Q ss_pred hHHhHHHHHHHHHhcCCccHHHHHHHHHHHHHH
Q 036141 39 AKRSHLEYEIARYSQGNLSIQNYFSGFQNLWAE 71 (220)
Q Consensus 39 ~~~~~l~~~~~~~~q~~~sv~~y~~~~~~l~~~ 71 (220)
.++-.|+..+..+.+-..++..|+..+..++.+
T Consensus 67 ~rIe~L~~~L~~~s~s~~~~~~y~~~~~~~lk~ 99 (390)
T 1deq_A 67 SRINKLRDSLFNYQKNSKDSNTLTKNIVELMRG 99 (390)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 345555555555555555666666666555433
No 59
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5; beta-strands, chaperone, heat shock, mitochondrion; 2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 g.54.1.1
Probab=34.16 E-value=32 Score=25.97 Aligned_cols=39 Identities=26% Similarity=0.518 Sum_probs=22.5
Q ss_pred cccccCCCCCcccccc--------cCccccccCCCCccc---CCCCCCCC
Q 036141 171 VQCFSCKEYRHIVVKC--------AKKFCNYCKKPGHII---KECPTRPQ 209 (220)
Q Consensus 171 ~~~~~~~~~g~~~~~~--------~~~~C~~Cgk~GH~~---~~C~~k~~ 209 (220)
..|..|+..|...... ....|..|+-.|... ..|+.-+.
T Consensus 55 ~~C~~C~G~G~~~~~~~~g~~~~~~~~~C~~C~G~G~~i~~~~~C~~C~G 104 (248)
T 1nlt_A 55 KKCTSCNGQGIKFVTRQMGPMIQRFQTECDVCHGTGDIIDPKDRCKSCNG 104 (248)
T ss_dssp CCCTTSSSSSCEEEEEESSSEEEEEECSCTTCSSSSSCCCTTSBCSSSTT
T ss_pred ccCCCCCCCcEEEEEEecCceEEEEEEcCCCCCCcCEEeccCCCCcccCC
Confidence 4577777777542211 223688887777665 45665443
No 60
>1r5q_A KAI A, circadian oscillation regulator; four-helix-bundle, gene regulation; 2.00A {Nostoc SP} SCOP: a.186.1.1
Probab=33.05 E-value=40 Score=21.33 Aligned_cols=32 Identities=16% Similarity=0.313 Sum_probs=21.7
Q ss_pred HHhhccchHHHHHHhhcCCCCCCC--HHHHHHHH
Q 036141 100 FLMKLRPKYEAARSNLMNRDLSPS--LDVCFKEL 131 (220)
Q Consensus 100 ~l~gLp~~~~~~~~~l~~~~~~~s--l~e~~~~l 131 (220)
++..|..+|..++-+++.....+. ++++++.+
T Consensus 10 ll~~L~~~YR~ill~YF~~d~~~n~~Id~fVn~a 43 (102)
T 1r5q_A 10 LLQQLKSDYRQILLSYFTTDKALKEKIDKFINAV 43 (102)
T ss_dssp HHHHHHHHHHHHHHHTTSCC--CHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence 788888888888888877655433 66666655
No 61
>3gv2_A Ca, fusion protein consisting of capsid protein P24, carbon dioxide-concentrating mechanism...; hexameric retroviral capsid; 7.00A {Human immunodeficiency virus type 1}
Probab=31.70 E-value=1.5e+02 Score=23.63 Aligned_cols=23 Identities=22% Similarity=0.362 Sum_probs=17.9
Q ss_pred HHHHhcC-CccHHHHHHHHHHHHH
Q 036141 48 IARYSQG-NLSIQNYFSGFQNLWA 70 (220)
Q Consensus 48 ~~~~~q~-~~sv~~y~~~~~~l~~ 70 (220)
+...+|+ +|+..+|+++|.....
T Consensus 150 ~~~IkQGPkEPf~DfVdRl~kal~ 173 (342)
T 3gv2_A 150 ILDIRQGPKEPFRDYVDRFYKTLR 173 (342)
T ss_dssp GGGCCCCTTCCHHHHHHHHHHHHH
T ss_pred hhhhccCCCCcHHHHHHHHHHHHH
Confidence 3456687 9999999999987653
No 62
>3a4c_A DNA replication factor CDT1; alpha-beta structure, cell cycle, DNA- binding, nucleus, phosphoprotein, proto-oncogene, UBL conjugation; HET: DNA; 1.89A {Mus musculus} PDB: 2rqq_A*
Probab=29.29 E-value=59 Score=21.09 Aligned_cols=38 Identities=18% Similarity=0.211 Sum_probs=26.9
Q ss_pred HHHHHHhhccchHHHHHHhhcC-CCCCCCHHHHHHHHHH
Q 036141 96 KRDQFLMKLRPKYEAARSNLMN-RDLSPSLDVCFKELLR 133 (220)
Q Consensus 96 ~~~~~l~gLp~~~~~~~~~l~~-~~~~~sl~e~~~~l~~ 133 (220)
.....+..||+-.+.++..+.. .++..+++.++..+.+
T Consensus 7 ke~~~~srLPelArilR~vFvaEkK~vl~~e~~~~ki~~ 45 (106)
T 3a4c_A 7 LRLQRLERLPELARVLRNVFVSERKPALTMEVVCARMVD 45 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTCSSSEEEHHHHHHHHHH
T ss_pred HHHHHHHhhHHHHHHHHHHHHhcccCCccHHHHHHHHHh
Confidence 3344777888777777776655 5677888888888754
No 63
>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=29.29 E-value=16 Score=21.83 Aligned_cols=8 Identities=38% Similarity=0.629 Sum_probs=6.6
Q ss_pred cccccCCC
Q 036141 190 FCNYCKKP 197 (220)
Q Consensus 190 ~C~~Cgk~ 197 (220)
.||-|||.
T Consensus 6 RCFTCGkv 13 (70)
T 1twf_J 6 RCFSCGKV 13 (70)
T ss_dssp BCTTTCCB
T ss_pred ecCCCCCC
Confidence 59999985
No 64
>3mwm_A ZUR, putative metal uptake regulation protein; FUR, regulatory metal, graded transcription regulation, transcription; 2.40A {Streptomyces coelicolor}
Probab=29.04 E-value=92 Score=20.90 Aligned_cols=29 Identities=10% Similarity=0.085 Sum_probs=20.8
Q ss_pred cccccHHHHHHHHHHHhccCChhHHhHHH
Q 036141 17 KLHKTAKDMWEYLKKVYNQDNTAKRSHLE 45 (220)
Q Consensus 17 ~~~~ta~~~w~~L~~~f~~~~~~~~~~l~ 45 (220)
..+.||.++++.|+..+..-+.+.+++.-
T Consensus 27 ~~h~sa~eI~~~l~~~~~~is~aTVYR~L 55 (139)
T 3mwm_A 27 EEFRSAQELHDMLKHKGDAVGLTTVYRTL 55 (139)
T ss_dssp SSCEEHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHhCCCCCHHHHHHHH
Confidence 34678999999998887666666665433
No 65
>2odb_B Serine/threonine-protein kinase PAK 6; small GTPase, CRIB, protein-protein complex, structu genomics, structural genomics consortium, SGC; HET: GCP; 2.40A {Homo sapiens}
Probab=28.79 E-value=14 Score=18.64 Aligned_cols=12 Identities=17% Similarity=0.448 Sum_probs=9.8
Q ss_pred HHhhccchHHHH
Q 036141 100 FLMKLRPKYEAA 111 (220)
Q Consensus 100 ~l~gLp~~~~~~ 111 (220)
++.|||++|..+
T Consensus 22 ~f~Glp~eW~~l 33 (35)
T 2odb_B 22 KFVGLPPQWQNI 33 (35)
T ss_dssp EEESCCHHHHHH
T ss_pred cccCCCHHHHHH
Confidence 467999999876
No 66
>1bm4_A Protein (moloney murine leukemia virus capsid); moloney murine leukemia virus capsid protein, momlv, MU-MLV, MHR, major homology region; NMR {Synthetic} SCOP: j.47.1.1
Probab=28.40 E-value=54 Score=16.18 Aligned_cols=20 Identities=20% Similarity=0.394 Sum_probs=15.3
Q ss_pred HhcC-CccHHHHHHHHHHHHH
Q 036141 51 YSQG-NLSIQNYFSGFQNLWA 70 (220)
Q Consensus 51 ~~q~-~~sv~~y~~~~~~l~~ 70 (220)
..|+ ++|...|+.++...+.
T Consensus 7 V~Qg~~EsPs~FlerL~eayR 27 (32)
T 1bm4_A 7 ITQGPNESPSAFLERLKEAYR 27 (32)
T ss_dssp TTTTGGGHHHHHHHHHHHHHH
T ss_pred HHhCCCCChHHHHHHHHHHHH
Confidence 4466 8999999998886653
No 67
>2ds5_A CLPX, ATP-dependent CLP protease ATP-binding subunit CLPX; treble cleft zinc finger, metal binding protein, protein binding; HET: PG4; 1.50A {Escherichia coli} SCOP: g.39.1.11 PDB: 2ds6_A 2ds8_A 2ds7_A
Probab=28.32 E-value=23 Score=19.69 Aligned_cols=12 Identities=33% Similarity=1.021 Sum_probs=8.6
Q ss_pred ccccccCCCCcc
Q 036141 189 KFCNYCKKPGHI 200 (220)
Q Consensus 189 ~~C~~Cgk~GH~ 200 (220)
..|.+|||+-+-
T Consensus 12 ~~CSFCGk~~~e 23 (51)
T 2ds5_A 12 LYCSFCGKSQHE 23 (51)
T ss_dssp CBCTTTCCBTTT
T ss_pred cEecCCCCCHHH
Confidence 369999986653
No 68
>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...
Probab=27.33 E-value=14 Score=22.97 Aligned_cols=26 Identities=27% Similarity=0.452 Sum_probs=13.9
Q ss_pred ccccCCCCCcccccccCccccccCCC
Q 036141 172 QCFSCKEYRHIVVKCAKKFCNYCKKP 197 (220)
Q Consensus 172 ~~~~~~~~g~~~~~~~~~~C~~Cgk~ 197 (220)
.|.+|+..--.+.....-.|.+||+.
T Consensus 29 ~Cp~CG~~~v~r~atGiW~C~~Cg~~ 54 (83)
T 1vq8_Z 29 ACPNCGEDRVDRQGTGIWQCSYCDYK 54 (83)
T ss_dssp ECSSSCCEEEEEEETTEEEETTTCCE
T ss_pred cCCCCCCcceeccCCCeEECCCCCCE
Confidence 47788764332222222368888763
No 69
>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}
Probab=27.19 E-value=24 Score=21.50 Aligned_cols=21 Identities=38% Similarity=0.854 Sum_probs=17.5
Q ss_pred cccCccccccCCCCcccCCCCC
Q 036141 185 KCAKKFCNYCKKPGHIIKECPT 206 (220)
Q Consensus 185 ~~~~~~C~~Cgk~GH~~~~C~~ 206 (220)
.|....|+.|+..-|- ..|..
T Consensus 55 ~C~~~FC~~C~~~wH~-~~C~~ 75 (80)
T 2jmo_A 55 GCGFAFCRECKEAYHE-GECSA 75 (80)
T ss_dssp CCSCCEETTTTEECCS-SCSSS
T ss_pred CCCCeeccccCccccC-Ccccc
Confidence 3556689999999999 99965
No 70
>2k1p_A Zinc finger RAN-binding domain-containing protein 2; ZNF265, RNA binding, ranbp2, RBZ, ZIS, alternative splicing, metal-binding, mRNA processing; NMR {Homo sapiens} PDB: 3g9y_A
Probab=26.97 E-value=64 Score=15.84 Aligned_cols=9 Identities=44% Similarity=1.158 Sum_probs=6.8
Q ss_pred ccccccCCC
Q 036141 189 KFCNYCKKP 197 (220)
Q Consensus 189 ~~C~~Cgk~ 197 (220)
..|+.|+.+
T Consensus 21 ~~C~~C~~p 29 (33)
T 2k1p_A 21 SECNMCNTP 29 (33)
T ss_dssp SBCSSSCCB
T ss_pred ccccccCCc
Confidence 468888876
No 71
>3g2b_A Coenzyme PQQ synthesis protein D; helix-turn-helix, PQQ biosynthesis, biosynthetic protein; 1.66A {Xanthomonas campestris PV}
Probab=25.89 E-value=1.3e+02 Score=18.89 Aligned_cols=32 Identities=9% Similarity=0.149 Sum_probs=24.5
Q ss_pred cccchHHHHhhccccccHHHHHHHHHHHhccC
Q 036141 5 MGSIDQSLILNLKLHKTAKDMWEYLKKVYNQD 36 (220)
Q Consensus 5 ~~sl~~~~~~~~~~~~ta~~~w~~L~~~f~~~ 36 (220)
++-+.-.|+..+....|..+|-+.|...|...
T Consensus 41 Ln~~a~~Iw~l~DG~rtv~eIv~~L~~~y~~~ 72 (95)
T 3g2b_A 41 LDDIALVVAQRYDGTQSLAQIAQTLAAEFDAD 72 (95)
T ss_dssp CCTHHHHHHHHCCSSSCHHHHHHHHHHHTTCC
T ss_pred cCHHHHHHHHHccCCCCHHHHHHHHHHHcCCc
Confidence 44556677888888888888888888888743
No 72
>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}
Probab=25.84 E-value=1.4e+02 Score=20.26 Aligned_cols=25 Identities=4% Similarity=0.101 Sum_probs=13.6
Q ss_pred ccccHHHHHHHHHHHhccCChhHHh
Q 036141 18 LHKTAKDMWEYLKKVYNQDNTAKRS 42 (220)
Q Consensus 18 ~~~ta~~~w~~L~~~f~~~~~~~~~ 42 (220)
.+.||.+++..|++.+..-+.+.++
T Consensus 41 ~~~sa~ei~~~l~~~~~~is~aTVY 65 (150)
T 2xig_A 41 THLSPEEITHSIRQKDKNTSISSVY 65 (150)
T ss_dssp SCBCHHHHHHHHHHHSTTCCHHHHH
T ss_pred CCCCHHHHHHHHHHhCCCCCHhhHH
Confidence 3456666666666655444444444
No 73
>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=25.44 E-value=14 Score=19.75 Aligned_cols=15 Identities=20% Similarity=0.341 Sum_probs=12.0
Q ss_pred ccccccCCCCcccCC
Q 036141 189 KFCNYCKKPGHIIKE 203 (220)
Q Consensus 189 ~~C~~Cgk~GH~~~~ 203 (220)
.+|-.||+.||-...
T Consensus 7 ~~CE~CG~~g~~~~F 21 (43)
T 2w0t_A 7 AVCEMCGIVGTREAF 21 (43)
T ss_dssp EECTTTCCEEETTTS
T ss_pred ehhhhhcCcchhhhh
Confidence 369999999887664
No 74
>4ets_A Ferric uptake regulation protein; metal binding protein, transcription factor; 2.10A {Campylobacter jejuni subsp}
Probab=25.05 E-value=1.5e+02 Score=20.42 Aligned_cols=25 Identities=16% Similarity=0.100 Sum_probs=15.0
Q ss_pred ccccHHHHHHHHHHH--hccCChhHHh
Q 036141 18 LHKTAKDMWEYLKKV--YNQDNTAKRS 42 (220)
Q Consensus 18 ~~~ta~~~w~~L~~~--f~~~~~~~~~ 42 (220)
.+.||.++++.|+.. +..-+.+.++
T Consensus 47 ~h~sA~eI~~~l~~~~~~~~is~aTVY 73 (162)
T 4ets_A 47 THYTPESLYMEIKQAEPDLNVGIATVY 73 (162)
T ss_dssp SCBCHHHHHHHHHHHCGGGCCCHHHHH
T ss_pred CCCCHHHHHHHHHhhcCCCCCCHHHHH
Confidence 456777777777766 5444444444
No 75
>1e91_A Paired amphipathic helix protein SIN3B; eukaryotic transcriptional regulation, SIN3, PAH domains, protein-protein interactions; NMR {Mus musculus} SCOP: a.59.1.1 PDB: 1pd7_A
Probab=24.56 E-value=98 Score=19.01 Aligned_cols=47 Identities=17% Similarity=0.217 Sum_probs=27.4
Q ss_pred ccHHHHHHHHHHHhccCChhHHhHHHHH-HHHHhcC----------CccHHHHHHHHHHH
Q 036141 20 KTAKDMWEYLKKVYNQDNTAKRSHLEYE-IARYSQG----------NLSIQNYFSGFQNL 68 (220)
Q Consensus 20 ~ta~~~w~~L~~~f~~~~~~~~~~l~~~-~~~~~q~----------~~sv~~y~~~~~~l 68 (220)
..|..-.+.++.+|.. .+..+.--.+ +...+.+ +.|+.+-+.++..|
T Consensus 8 ~~A~~yv~kVK~rF~~--~p~~Y~~FL~il~~yk~~~~d~~~~~~~~~s~~eV~~~V~~L 65 (85)
T 1e91_A 8 NNAISYVNKIKTRFLD--HPEIYRSFLEILHTYQKEQLHTKGRPFRGMSEEEVFTEVANL 65 (85)
T ss_dssp HHHHHHHHHHHHHTSS--CHHHHHHHHHHHHHHHHTTCSSSCCCSSCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHHccccccccccccCcHHHHHHHHHHH
Confidence 4566777888899975 2333332222 3333322 25778888887766
No 76
>2o03_A Probable zinc uptake regulation protein FURB; DNA-binding, helix-turn-helix, zinc binding, GE regulation; 2.70A {Mycobacterium tuberculosis}
Probab=24.36 E-value=1.2e+02 Score=19.96 Aligned_cols=28 Identities=7% Similarity=0.069 Sum_probs=19.9
Q ss_pred cccccHHHHHHHHHHHhccCChhHHhHH
Q 036141 17 KLHKTAKDMWEYLKKVYNQDNTAKRSHL 44 (220)
Q Consensus 17 ~~~~ta~~~w~~L~~~f~~~~~~~~~~l 44 (220)
..+.||.+++..|++.+..-+.+.+++.
T Consensus 24 ~~~~sa~ei~~~l~~~~~~is~~TVYR~ 51 (131)
T 2o03_A 24 DDFRSAQELHDELRRRGENIGLTTVYRT 51 (131)
T ss_dssp CSCEEHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred CCCCCHHHHHHHHHHhCCCCCHhhHHHH
Confidence 4567899999999887765566555533
No 77
>1v2z_A Circadian clock protein KAIA homolog; all alpha, riken structural genomics/proteomics initiative, structural genomics; 1.80A {Thermosynechococcus elongatus} SCOP: a.186.1.1 PDB: 1q6a_A 1q6b_A 1suy_A 1sv1_A
Probab=24.19 E-value=53 Score=21.17 Aligned_cols=32 Identities=22% Similarity=0.303 Sum_probs=21.6
Q ss_pred HHhhccchHHHHHHhhcCCCCCCC--HHHHHHHH
Q 036141 100 FLMKLRPKYEAARSNLMNRDLSPS--LDVCFKEL 131 (220)
Q Consensus 100 ~l~gLp~~~~~~~~~l~~~~~~~s--l~e~~~~l 131 (220)
+|..|..+|..++-+++.....+. ++++++.+
T Consensus 17 ll~~L~~~YR~ill~YF~~d~~~nq~Id~FVn~a 50 (111)
T 1v2z_A 17 LLDELRSIYRTIVLEYFNTDAKVNERIDEFVSKA 50 (111)
T ss_dssp HHHHHHHHHHHHHHHTTCTTSCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHH
Confidence 788888888888888877554322 55555554
No 78
>3h0g_L DNA-directed RNA polymerases I, II, and III subunit rpabc4; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=24.09 E-value=43 Score=19.51 Aligned_cols=27 Identities=19% Similarity=0.313 Sum_probs=17.2
Q ss_pred CcccccCCCCCcccccccCccccccCCC
Q 036141 170 QVQCFSCKEYRHIVVKCAKKFCNYCKKP 197 (220)
Q Consensus 170 ~~~~~~~~~~g~~~~~~~~~~C~~Cgk~ 197 (220)
.-.|..|+...... .....+|.+||..
T Consensus 21 ~Y~C~~Cg~~~~l~-~~~~iRC~~CG~R 47 (63)
T 3h0g_L 21 IYLCADCGARNTIQ-AKEVIRCRECGHR 47 (63)
T ss_dssp CCBCSSSCCBCCCC-SSSCCCCSSSCCC
T ss_pred EEECCCCCCeeecC-CCCceECCCCCcE
Confidence 34588887766542 2344689999754
No 79
>1hbw_A Regulatory protein GAL4; transcriptional activator, galactose and melibiose metabolism, dimerization domain, coiled-coil dimeric; NMR {Saccharomyces cerevisiae} SCOP: h.1.3.1
Probab=24.09 E-value=41 Score=18.90 Aligned_cols=28 Identities=11% Similarity=0.199 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHhhcccccCCcccHHHH
Q 036141 61 YFSGFQNLWAEYVDMIYVQVPIESLADV 88 (220)
Q Consensus 61 y~~~~~~l~~~L~~~~~~~~~~~~~~~~ 88 (220)
|+.++..-..+|+.+...-+|.+++..+
T Consensus 4 HLTeVEnRl~qLE~ll~~lfP~~d~D~l 31 (57)
T 1hbw_A 4 HLTEVESRLERLEQLFLLIFPREDLDMI 31 (57)
T ss_dssp CCHHHHHHHHHHHHHCSSSSSSSCCCHH
T ss_pred hHHHHHHHHHHHHHHHHHHCCcccHHHH
Confidence 3445555555555554555565544443
No 80
>2yvk_A Methylthioribose-1-phosphate isomerase; methionine salvage pathway,; HET: MRU; 2.40A {Bacillus subtilis} PDB: 2yrf_A*
Probab=23.86 E-value=2.9e+02 Score=22.27 Aligned_cols=63 Identities=5% Similarity=0.014 Sum_probs=41.6
Q ss_pred ccccccHHHHHHHHHHHhccCChhHHhHHHHHH-HHHhc-CCccHHHHHHHHHHHHHHHhhcccc
Q 036141 16 LKLHKTAKDMWEYLKKVYNQDNTAKRSHLEYEI-ARYSQ-GNLSIQNYFSGFQNLWAEYVDMIYV 78 (220)
Q Consensus 16 ~~~~~ta~~~w~~L~~~f~~~~~~~~~~l~~~~-~~~~q-~~~sv~~y~~~~~~l~~~L~~~~~~ 78 (220)
+..+.+..++|..++++--....+.-...-.-+ ...++ ...++.++...|+...+.|....+.
T Consensus 53 ~~~~~~~~~~~~aIk~m~VrGApaIgiaaa~~l~l~~~~~~~~~~~~l~~~l~~~~~~L~~aRPt 117 (374)
T 2yvk_A 53 YLELTTKEDVFDAIVTLKVRGAPAIGITAAFGLALAAKDIETDNVTEFRRRLEDIKQYLNSSRPT 117 (374)
T ss_dssp EEEECSHHHHHHHHHTTSSCSHHHHHHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHTTCSS
T ss_pred EEEeCCHHHHHHHHHhCccCCcHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHhCCc
Confidence 345679999999999987655544321111112 22222 3568999999999999999876544
No 81
>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42
Probab=23.77 E-value=1.5e+02 Score=19.64 Aligned_cols=29 Identities=17% Similarity=0.130 Sum_probs=18.9
Q ss_pred ccccHHHHHHHHHHHhccCChhHHhHHHH
Q 036141 18 LHKTAKDMWEYLKKVYNQDNTAKRSHLEY 46 (220)
Q Consensus 18 ~~~ta~~~w~~L~~~f~~~~~~~~~~l~~ 46 (220)
.+.||.++++.|++.+..-+.+.+++.-.
T Consensus 33 ~~~sa~ei~~~l~~~~~~is~aTVYR~L~ 61 (136)
T 1mzb_A 33 RHMSAEDVYKALMEAGEDVGLATVYRVLT 61 (136)
T ss_dssp CSBCHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred CCCCHHHHHHHHHhhCCCCCHHHHHHHHH
Confidence 45678888888887766555555554333
No 82
>1d1d_A Protein (capsid protein); two independent domains helical bundles, virus/viral protein; NMR {Rous sarcoma virus} SCOP: a.28.3.1 a.73.1.1
Probab=23.35 E-value=52 Score=25.19 Aligned_cols=40 Identities=13% Similarity=0.128 Sum_probs=26.4
Q ss_pred cHHHHHHHHHH-HhccCChhHHhHHHHHHHHHhcC-CccHHHHHHHHHHHHH
Q 036141 21 TAKDMWEYLKK-VYNQDNTAKRSHLEYEIARYSQG-NLSIQNYFSGFQNLWA 70 (220)
Q Consensus 21 ta~~~w~~L~~-~f~~~~~~~~~~l~~~~~~~~q~-~~sv~~y~~~~~~l~~ 70 (220)
.+...|..|-. .|.+.+ +...+|| .|+..+|++||..-..
T Consensus 157 ~a~kaw~~l~~~~~s~~s----------i~~IkQGPkEpf~dfVdRl~kalr 198 (262)
T 1d1d_A 157 SALQAFREVARLAEPAGP----------WADITQGPSESFVDFANRLIKAVE 198 (262)
T ss_dssp HHHHHHHHHHHCCCCCCT----------TTSCCCCSSSCHHHHHHHHHHHHH
T ss_pred HHHHHHHHhccccCCCCC----------HhHhhhcCCCcHHHHHHHHHHHHH
Confidence 44556666655 244332 3455787 8999999999886643
No 83
>2lq6_A Bromodomain-containing protein 1; PHD finger, metal binding protein; NMR {Homo sapiens}
Probab=23.28 E-value=35 Score=21.19 Aligned_cols=13 Identities=31% Similarity=0.473 Sum_probs=7.0
Q ss_pred cccCccccccCCC
Q 036141 185 KCAKKFCNYCKKP 197 (220)
Q Consensus 185 ~~~~~~C~~Cgk~ 197 (220)
.+++.+|..|++.
T Consensus 14 ~R~~l~C~iC~~~ 26 (87)
T 2lq6_A 14 ARWKLTCYLCKQK 26 (87)
T ss_dssp CCCCCCBTTTTBC
T ss_pred HHhcCCCcCCCCC
Confidence 3445566666543
No 84
>2lnh_A N-WAsp, neural wiskott-aldrich syndrome protein; protein complex, signaling protein-protein binding complex; NMR {Homo sapiens}
Probab=22.83 E-value=46 Score=19.47 Aligned_cols=15 Identities=20% Similarity=0.189 Sum_probs=11.7
Q ss_pred HhhccchHHHHHHhh
Q 036141 101 LMKLRPKYEAARSNL 115 (220)
Q Consensus 101 l~gLp~~~~~~~~~l 115 (220)
+.|||++|..+....
T Consensus 20 ~~glp~eW~~ll~~s 34 (65)
T 2lnh_A 20 LNNLDPELKNLFDMC 34 (65)
T ss_dssp GGGCCTTHHHHHHHH
T ss_pred CcCCCHHHHHHHHHc
Confidence 689999999886533
No 85
>1baj_A GAG polyprotein; capsid, HIV-1 assembly protein, viral protein; 2.60A {Human immunodeficiency virus 1} SCOP: a.28.3.1
Probab=22.21 E-value=38 Score=21.72 Aligned_cols=23 Identities=22% Similarity=0.362 Sum_probs=17.4
Q ss_pred HHHHhcC-CccHHHHHHHHHHHHH
Q 036141 48 IARYSQG-NLSIQNYFSGFQNLWA 70 (220)
Q Consensus 48 ~~~~~q~-~~sv~~y~~~~~~l~~ 70 (220)
+...+|| .|+..+|+++|.....
T Consensus 6 ~~~ikQGpkepf~d~v~R~~k~l~ 29 (101)
T 1baj_A 6 ILDIRQGPKEPFRDYVDRFYKTLR 29 (101)
T ss_dssp GGGCCCCSSCCHHHHHHHHHHHHH
T ss_pred hhhhhcCCCCcHHHHHHHHHHHHH
Confidence 3455677 8999999999876543
No 86
>2au3_A DNA primase; zinc ribbon, toprim, RNA polymerase, DNA replication, transf; HET: DNA; 2.00A {Aquifex aeolicus}
Probab=22.16 E-value=28 Score=28.47 Aligned_cols=29 Identities=14% Similarity=0.067 Sum_probs=16.2
Q ss_pred ccccCCCCCcccc---cccCccccccCCCCcc
Q 036141 172 QCFSCKEYRHIVV---KCAKKFCNYCKKPGHI 200 (220)
Q Consensus 172 ~~~~~~~~g~~~~---~~~~~~C~~Cgk~GH~ 200 (220)
.|..|+....+-. ....-.||.||..|..
T Consensus 36 ~CPfh~ektpSf~V~~~k~~~~CFgCg~gGd~ 67 (407)
T 2au3_A 36 NCPFHPDDTPSFYVSPSKQIFKCFGCGVGGDA 67 (407)
T ss_dssp CCSSSCCSSCCEEEETTTTEEEETTTCCEECH
T ss_pred eCcCCCCCCCeEEEECCCCEEEECCCCCCCCH
Confidence 4666665443211 1222369999987754
No 87
>3a11_A Translation initiation factor EIF-2B, delta subun; isomerase, hexamer, rossmann fold; 2.50A {Thermococcus kodakaraensis} PDB: 3a9c_A* 3vm6_A*
Probab=22.11 E-value=2.9e+02 Score=21.78 Aligned_cols=66 Identities=8% Similarity=0.106 Sum_probs=41.6
Q ss_pred hccccccHHHHHHHHHHHhccCChhHHhHHHHHHHH-Hhc-CCccHHHHHHHHHHHHHHHhhcccccC
Q 036141 15 NLKLHKTAKDMWEYLKKVYNQDNTAKRSHLEYEIAR-YSQ-GNLSIQNYFSGFQNLWAEYVDMIYVQV 80 (220)
Q Consensus 15 ~~~~~~ta~~~w~~L~~~f~~~~~~~~~~l~~~~~~-~~q-~~~sv~~y~~~~~~l~~~L~~~~~~~~ 80 (220)
.+..+.+..++|..++++--....+.-...-.-+.. ..+ ...++.++...|+.....|....+..+
T Consensus 16 ~~~~~~~~~~~~~aI~~m~VrGApai~iaaa~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~aRPtav 83 (338)
T 3a11_A 16 HMAVVKEVLEIAEKIKNMEIRGAGKIARSAAYALQLQAEKSKATNVDEFWKEMKQAAKILFETRPTAV 83 (338)
T ss_dssp ---CCSHHHHHHHHHHTCSSCSHHHHHHHHHHHHHHHHHHCCCCSHHHHHHHHHHHHHHHHTTCTTCS
T ss_pred EEEEeCCHHHHHHHHHhCcEeCcHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHhCCChH
Confidence 345578999999999988765554432222222222 222 346889999999999999987655433
No 88
>2js5_A Uncharacterized protein; homodimer, protein structure, spectroscopy, structural genomics, PSI-2, protein structure initiative; NMR {Methylococcus capsulatus}
Probab=22.10 E-value=34 Score=20.46 Aligned_cols=17 Identities=6% Similarity=0.053 Sum_probs=12.3
Q ss_pred HHHHHhhccchHHHHHH
Q 036141 97 RDQFLMKLRPKYEAARS 113 (220)
Q Consensus 97 ~~~~l~gLp~~~~~~~~ 113 (220)
+..+..+||-.|+.+-.
T Consensus 26 LHDLaEdLP~~w~~i~~ 42 (71)
T 2js5_A 26 LHDLAEDLPTGWNRIME 42 (71)
T ss_dssp HHHHHHSTTTSGGGHHH
T ss_pred HHHHhccchhhHHHHHH
Confidence 33478889999988743
No 89
>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*
Probab=22.04 E-value=29 Score=23.70 Aligned_cols=11 Identities=18% Similarity=0.314 Sum_probs=7.0
Q ss_pred CccccccCCCC
Q 036141 188 KKFCNYCKKPG 198 (220)
Q Consensus 188 ~~~C~~Cgk~G 198 (220)
...|..||.+.
T Consensus 107 ~~~CP~Cgs~~ 117 (139)
T 3a43_A 107 FLACPKCGSHD 117 (139)
T ss_dssp GCSCSSSSCCC
T ss_pred CCcCccccCCc
Confidence 34677777654
No 90
>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}
Probab=21.95 E-value=1.3e+02 Score=20.35 Aligned_cols=26 Identities=15% Similarity=0.174 Sum_probs=17.8
Q ss_pred ccccHHHHHHHHHHHhccCChhHHhH
Q 036141 18 LHKTAKDMWEYLKKVYNQDNTAKRSH 43 (220)
Q Consensus 18 ~~~ta~~~w~~L~~~f~~~~~~~~~~ 43 (220)
.+.||.+++..|++.+..-+.+.+++
T Consensus 32 ~h~sa~ei~~~l~~~~~~is~aTVYR 57 (150)
T 2w57_A 32 QHISAEELYKKLIDLGEEIGLATVYR 57 (150)
T ss_dssp SSEEHHHHHHHHHHTTCCCCHHHHHH
T ss_pred CCCCHHHHHHHHHHhCCCCCHHHHHH
Confidence 45688888888887766555555553
No 91
>4fqn_A Malcavernin; helical domain, harmonin-homology domain, protein-protein interaction, HOMO-dimer, protein binding; 1.90A {Homo sapiens}
Probab=20.82 E-value=87 Score=19.88 Aligned_cols=20 Identities=25% Similarity=0.614 Sum_probs=14.6
Q ss_pred HHHhcCCccHHHHHHHHHHHH
Q 036141 49 ARYSQGNLSIQNYFSGFQNLW 69 (220)
Q Consensus 49 ~~~~q~~~sv~~y~~~~~~l~ 69 (220)
..++.+ .+|.+|..++..|+
T Consensus 42 r~YR~G-~~I~~Fc~kLl~Ly 61 (98)
T 4fqn_A 42 HEYRNG-ASIHEFCINLRQLY 61 (98)
T ss_dssp HHHHTT-CCHHHHHHHHHHHH
T ss_pred HHHHcC-CCHHHHHHHHHHHh
Confidence 333444 79999999998874
No 92
>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*
Probab=20.76 E-value=1.3e+02 Score=20.23 Aligned_cols=24 Identities=25% Similarity=0.347 Sum_probs=12.7
Q ss_pred cccHHHHHHHHHHHhccCChhHHh
Q 036141 19 HKTAKDMWEYLKKVYNQDNTAKRS 42 (220)
Q Consensus 19 ~~ta~~~w~~L~~~f~~~~~~~~~ 42 (220)
+.||.++++.|++.+..-+.+.++
T Consensus 37 ~~sa~ei~~~l~~~~~~is~aTVY 60 (145)
T 2fe3_A 37 HPTADDIYKALEGKFPNMSVATVY 60 (145)
T ss_dssp CCCHHHHHHHHGGGCTTCCHHHHH
T ss_pred CCCHHHHHHHHHHhCCCCChhhHH
Confidence 456666666666554444444443
No 93
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos taurus} SCOP: i.9.1.1
Probab=20.47 E-value=1.1e+02 Score=24.64 Aligned_cols=50 Identities=8% Similarity=0.128 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhcc--CChhHHhHHHHHHHHHhcC-CccHHHHHHHHHHHHHH
Q 036141 22 AKDMWEYLKKVYNQ--DNTAKRSHLEYEIARYSQG-NLSIQNYFSGFQNLWAE 71 (220)
Q Consensus 22 a~~~w~~L~~~f~~--~~~~~~~~l~~~~~~~~q~-~~sv~~y~~~~~~l~~~ 71 (220)
...+.+.|+..+.. .....+.++-..|.....- .+.|.+.+..|+.|...
T Consensus 90 ~~~~~~~lk~~~~q~~dndn~~~e~s~eLe~~i~~lk~~V~~q~~~ir~Lq~~ 142 (390)
T 1deq_A 90 TKNIVELMRGDFAKANNNDNTFKQINEDLRSRIEILRRKVIEQVQRINLLQKN 142 (390)
T ss_pred HHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 34566666666662 2223333322223222221 23455555555555433
No 94
>2lo3_A SAGA-associated factor 73; zinc-finger, deubiquitination, transcription factor, SAGA CO transcription; NMR {Saccharomyces cerevisiae}
Probab=20.18 E-value=26 Score=18.55 Aligned_cols=9 Identities=44% Similarity=1.269 Sum_probs=7.4
Q ss_pred ccccccCCC
Q 036141 189 KFCNYCKKP 197 (220)
Q Consensus 189 ~~C~~Cgk~ 197 (220)
..|..||||
T Consensus 18 RvC~~CgkP 26 (44)
T 2lo3_A 18 RVCEKCGKP 26 (44)
T ss_dssp EECTTTCCE
T ss_pred hhhcccCCc
Confidence 369999997
No 95
>1znf_A 31ST zinc finger from XFIN; zinc finger DNA binding domain; NMR {Xenopus laevis} SCOP: g.37.1.1
Probab=20.14 E-value=32 Score=14.51 Aligned_cols=8 Identities=25% Similarity=1.016 Sum_probs=5.0
Q ss_pred cccccCCC
Q 036141 190 FCNYCKKP 197 (220)
Q Consensus 190 ~C~~Cgk~ 197 (220)
.|..||+.
T Consensus 3 ~C~~C~k~ 10 (27)
T 1znf_A 3 KCGLCERS 10 (27)
T ss_dssp BCSSSCCB
T ss_pred cCCCCCCc
Confidence 47777653
Done!