GREMLIN Database
RUVA - Holliday junction ATP-dependent DNA helicase RuvA
UniProt: P0A809 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10923
Length: 203 (192)
Sequences: 3793 (2629)
Seq/√Len: 189.7

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
51_F58_Q3.8871.00
6_R44_E3.4771.00
190_S193_T3.2251.00
50_H73_K2.9861.00
53_V58_Q2.8411.00
6_R46_I2.5941.00
11_E66_K2.5311.00
40_E43_Q2.2831.00
118_K122_E2.2161.00
3_G18_L2.1581.00
93_M101_A2.1081.00
4_R46_I2.1011.00
5_L21_V2.0991.00
6_R20_E2.0931.00
183_K201_A2.0921.00
164_V181_V2.0531.00
16_L27_E2.0111.00
106_E109_A2.0031.00
163_A194_L1.9861.00
30_M35_F1.9831.00
5_L28_V1.9551.00
9_I45_A1.9421.00
17_V30_M1.8951.00
105_E122_E1.8661.00
94_S97_Q1.8311.00
4_R10_I1.8191.00
105_E129_K1.8071.00
30_M34_C1.7901.00
8_I44_E1.7411.00
31_P34_C1.7321.00
123_R127_E1.7281.00
100_N104_R1.6691.00
50_H76_I1.6481.00
107_V125_I1.6391.00
111_V118_K1.6331.00
165_A169_A1.6201.00
17_V47_V1.5751.00
107_V122_E1.5681.00
5_L24_V1.5651.00
89_I113_L1.5601.00
173_K176_E1.5291.00
28_V49_T1.5051.00
19_I28_V1.4801.00
108_G111_V1.4101.00
163_A195_I1.4041.00
65_N68_E1.4031.00
174_P178_S1.3861.00
197_E200_R1.3801.00
197_E201_A1.3661.00
3_G69_R1.3661.00
48_F66_K1.3611.00
69_R73_K1.3521.00
5_L19_I1.3371.00
28_V62_G1.3351.00
52_V59_L1.3231.00
17_V38_L1.3121.00
85_L116_I1.3051.00
116_I120_T1.2971.00
19_I45_A1.2931.00
103_E130_D1.2931.00
164_V177_A1.2861.00
13_Q16_L1.2651.00
4_R20_E1.2591.00
85_L120_T1.2581.00
74_E132_F1.2431.00
159_A191_S1.2331.00
52_V57_A1.2231.00
68_E95_A1.2161.00
93_M109_A1.2041.00
109_A112_K1.1971.00
10_I20_E1.1571.00
98_F102_V1.1561.00
189_A193_T1.1551.00
166_A195_I1.1511.00
34_C47_V1.1511.00
159_A194_L1.1501.00
16_L29_H1.1491.00
168_V174_P1.1201.00
88_A113_L1.1201.00
163_A191_S1.1201.00
93_M98_F1.1181.00
107_V111_V1.1161.00
97_Q109_A1.1151.00
12_K35_F1.1101.00
10_I46_I1.1071.00
37_E64_N1.1041.00
85_L113_L1.0951.00
71_L132_F1.0871.00
168_V177_A1.0841.00
31_P68_E1.0821.00
81_V85_L1.0731.00
3_G27_E1.0701.00
180_M184_I1.0611.00
5_L49_T1.0411.00
193_T197_E1.0371.00
93_M113_L1.0371.00
9_I19_I1.0321.00
5_L26_Y1.0281.00
4_R25_G1.0261.00
180_M202_A1.0161.00
164_V168_V1.0121.00
71_L99_V1.0071.00
101_A109_A1.0000.99
160_E181_V0.9790.99
13_Q70_T0.9770.99
53_V57_A0.9750.99
177_A180_M0.9680.99
189_A197_E0.9660.99
37_E65_N0.9660.99
66_K70_T0.9630.99
12_K40_E0.9600.99
34_C64_N0.9580.99
17_V35_F0.9560.99
184_I197_E0.9560.99
18_L25_G0.9510.99
119_K126_V0.9500.99
177_A181_V0.9480.99
92_G113_L0.9420.99
21_V24_V0.9390.99
89_I124_L0.9370.99
184_I189_A0.9240.99
92_G114_P0.9240.99
52_V61_Y0.9230.99
177_A184_I0.9220.99
2_I5_L0.9180.99
108_G112_K0.9150.99
85_L88_A0.9130.99
64_N68_E0.9120.99
32_M91_S0.9050.99
98_F110_L0.8980.99
2_I49_T0.8900.99
76_I86_A0.8820.99
179_R183_K0.8770.99
52_V58_Q0.8720.99
38_L45_A0.8650.99
185_A194_L0.8590.98
81_V124_L0.8590.98
162_E191_S0.8570.98
27_E69_R0.8570.98
20_E46_I0.8560.98
89_I98_F0.8540.98
164_V178_S0.8370.98
122_E129_K0.8290.98
74_E77_K0.8270.98
20_E24_V0.8220.98
28_V47_V0.8190.98
80_G166_A0.8180.98
96_Q100_N0.8090.98
52_V83_P0.7990.98
175_Q179_R0.7990.98
31_P91_S0.7980.98
88_A92_G0.7960.97
67_Q99_V0.7950.97
34_C68_E0.7910.97
9_I38_L0.7790.97
99_V135_L0.7790.97
27_E73_K0.7770.97
77_K131_R0.7740.97
189_A194_L0.7730.97
81_V120_T0.7720.97
54_R57_A0.7700.97
180_M201_A0.7680.97
101_A113_L0.7650.97
26_Y58_Q0.7650.97
177_A198_A0.7630.97
67_Q96_Q0.7610.97
19_I23_G0.7580.97
101_A110_L0.7570.97
3_G51_F0.7560.97
29_H59_L0.7550.97
5_L47_V0.7460.96
151_P154_P0.7430.96
98_F128_M0.7390.96
184_I194_L0.7390.96
107_V118_K0.7360.96
113_L116_I0.7340.96
105_E125_I0.7330.96
162_E165_A0.7300.96
30_M47_V0.7240.96
172_Y176_E0.7240.96
102_V132_F0.7240.96
115_G123_R0.7170.95
123_R130_D0.7100.95
8_I42_G0.7050.95
99_V103_E0.7050.95
17_V45_A0.7040.95
52_V76_I0.7030.95
97_Q100_N0.6980.95
12_K17_V0.6980.95
32_M36_Y0.6970.95
133_K136_H0.6960.95
133_K137_G0.6950.95
13_Q66_K0.6880.94
91_S94_S0.6880.94
9_I41_A0.6730.94
159_A163_A0.6640.93
176_E179_R0.6600.93
71_L102_V0.6550.93
158_D161_Q0.6540.93
3_G48_F0.6540.93
49_T58_Q0.6510.92
150_S154_P0.6500.92
34_C91_S0.6500.92
66_K69_R0.6450.92
30_M62_G0.6440.92
74_E134_G0.6440.92
181_V194_L0.6430.92
2_I60_L0.6420.92
198_A202_A0.6360.91
14_P32_M0.6310.91
88_A114_P0.6300.91
2_I24_V0.6240.91
160_E185_A0.6190.90
148_L153_S0.6160.90
18_L69_R0.6160.90
81_V89_I0.6150.90
9_I17_V0.6150.90
101_A125_I0.6150.90
3_G49_T0.6140.90
160_E194_L0.6140.90
73_K76_I0.6130.90
57_A61_Y0.6070.90
184_I198_A0.6060.89
169_A191_S0.6060.89
90_L95_A0.6040.89
149_T153_S0.6020.89
152_A155_A0.6020.89
92_G95_A0.6020.89
29_H87_L0.6000.89
102_V110_L0.5960.89
10_I18_L0.5950.89
79_N127_E0.5890.88
122_E126_V0.5820.87
68_E90_L0.5820.87
110_L124_L0.5800.87
79_N118_K0.5780.87
70_T74_E0.5780.87
108_G118_K0.5750.87
71_L98_F0.5750.87
15_P27_E0.5710.86
156_T188_D0.5700.86
11_E18_L0.5680.86
8_I43_Q0.5670.86
99_V132_F0.5640.86
138_D149_T0.5640.86
154_P157_D0.5630.86
79_N85_L0.5610.86
160_E182_S0.5610.86
84_K115_G0.5580.85
90_L98_F0.5570.85
61_Y83_P0.5550.85
185_A188_D0.5530.85
6_R10_I0.5530.85
55_E58_Q0.5510.85
49_T53_V0.5460.84
32_M35_F0.5440.84
15_P32_M0.5440.84
159_A188_D0.5430.84
76_I83_P0.5410.83
110_L114_P0.5400.83
20_E23_G0.5380.83
79_N126_V0.5370.83
54_R59_L0.5350.83
71_L125_I0.5300.82
56_D126_V0.5250.82
67_Q70_T0.5250.82
169_A195_I0.5240.81
14_P166_A0.5230.81
136_H165_A0.5220.81
89_I172_Y0.5200.81
149_T152_A0.5200.81
151_P182_S0.5190.81
183_K186_R0.5190.81
14_P30_M0.5190.81
192_E196_R0.5170.81
191_S196_R0.5170.81
89_I102_V0.5150.80
72_F82_G0.5140.80
12_K36_Y0.5140.80
110_L113_L0.5140.80
45_A64_N0.5130.80
75_L86_A0.5120.80
18_L27_E0.5110.80
2_I18_L0.5060.79
78_T85_L0.5060.79
113_L124_L0.5050.79
196_R200_R0.5020.79
84_K114_P0.5000.78
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
1cukA 3 0.936 100 0.244 Contact Map
2ztdA 4 0.8768 100 0.257 Contact Map
1ixrA 4 0.931 100 0.264 Contact Map
3b0xA 1 0.9064 99.8 0.666 Contact Map
4gfjA 1 0.8571 99.7 0.702 Contact Map
4bxoA 1 0.6256 99.5 0.746 Contact Map
2w9mA 1 0.9064 99.4 0.752 Contact Map
2csbA 1 0.8571 99.4 0.755 Contact Map
1dgsA 1 0.6502 98.5 0.826 Contact Map
1vq8Y 1 0.2512 98.4 0.831 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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