GREMLIN Database
RUVA - Holliday junction ATP-dependent DNA helicase RuvA
UniProt: O05392 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 201 (190)
Sequences: 3793 (2653)
Seq/√Len: 192.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
48_H55_F3.9651.00
6_K41_Q3.5611.00
187_T190_Q3.2091.00
47_Y70_T3.0331.00
50_I55_F2.8761.00
6_K43_T2.5771.00
11_Y63_R2.5751.00
115_K119_R2.2791.00
179_H198_K2.2371.00
3_E18_V2.1861.00
6_K20_E2.1341.00
160_L177_L2.1321.00
5_V21_N2.1301.00
90_G98_A2.1261.00
4_F43_T2.1151.00
16_Y27_Q2.0581.00
9_I42_E2.0161.00
159_A191_Y2.0031.00
103_D106_F1.9941.00
5_V28_I1.9451.00
17_I30_T1.9291.00
102_E119_R1.9281.00
30_T35_I1.9081.00
102_E126_K1.8461.00
91_D94_A1.8191.00
4_F10_D1.8131.00
8_T41_Q1.7781.00
30_T34_F1.7741.00
31_P34_F1.7531.00
120_Q124_D1.7251.00
47_Y73_L1.6851.00
108_V115_K1.6611.00
97_Q101_N1.6601.00
17_I44_I1.6541.00
19_I28_I1.6301.00
161_E165_V1.6151.00
104_E119_R1.6111.00
104_E122_I1.6071.00
5_V24_I1.5851.00
86_I110_F1.5791.00
169_A172_E1.5371.00
28_I46_T1.5191.00
159_A192_V1.4351.00
62_T65_E1.4261.00
194_K198_K1.3941.00
170_E174_K1.3941.00
105_A108_V1.3921.00
194_K197_Q1.3851.00
45_F63_R1.3841.00
5_V19_I1.3751.00
3_E66_K1.3641.00
66_K70_T1.3591.00
28_I59_G1.3431.00
82_G113_V1.3111.00
49_H56_S1.3081.00
160_L173_I1.3081.00
19_I42_E1.2991.00
13_S16_Y1.2981.00
113_V117_T1.2871.00
100_E127_G1.2831.00
71_K129_L1.2781.00
49_H54_A1.2611.00
4_F20_E1.2591.00
82_G117_T1.2381.00
65_E92_P1.2321.00
106_F109_K1.2201.00
155_A188_T1.2031.00
34_F44_I1.2001.00
90_G106_F1.1881.00
186_L190_Q1.1871.00
10_D20_E1.1841.00
155_A191_Y1.1591.00
95_V99_I1.1521.00
104_E108_V1.1431.00
85_A110_F1.1421.00
16_Y29_F1.1391.00
164_R170_E1.1391.00
68_L129_L1.1351.00
176_V199_L1.1301.00
37_K61_S1.1301.00
82_G110_F1.1261.00
10_D43_T1.1121.00
9_I19_I1.1051.00
162_A192_V1.1051.00
94_A106_F1.1041.00
159_A188_T1.1001.00
90_G110_F1.0961.00
31_P65_E1.0951.00
164_R173_I1.0891.00
78_I82_G1.0871.00
12_V35_I1.0751.00
90_G95_V1.0681.00
5_V46_T1.0651.00
3_E27_Q1.0571.00
176_V180_L1.0491.00
160_L164_R1.0451.00
4_F25_G1.0441.00
186_L194_K1.0441.00
190_Q194_K1.0401.00
5_V26_Y1.0301.00
13_S67_A1.0181.00
98_A106_F1.0041.00
68_L96_I0.9860.99
173_I176_V0.9860.99
50_I54_A0.9610.99
89_S110_F0.9550.99
180_L194_K0.9520.99
17_I35_I0.9510.99
156_L177_L0.9480.99
63_R67_A0.9450.99
116_K123_L0.9380.99
173_I177_L0.9380.99
49_H58_Y0.9320.99
34_F61_S0.9260.99
89_S111_P0.9240.99
173_I180_L0.9210.99
82_G85_A0.9150.99
2_I5_V0.9150.99
21_N24_I0.9140.99
95_V107_L0.9140.99
18_V25_G0.9140.99
32_N88_G0.8990.99
105_A109_K0.8960.99
61_S65_E0.8950.99
86_I121_I0.8930.99
37_K62_T0.8870.99
49_H55_F0.8860.99
119_R126_K0.8820.99
20_E43_T0.8790.99
78_I121_I0.8710.99
73_L83_A0.8690.99
180_L186_L0.8640.99
27_Q66_K0.8640.99
77_G162_A0.8590.99
2_I46_T0.8590.99
175_K179_H0.8530.98
86_I95_V0.8450.98
173_I195_A0.8420.98
181_K191_Y0.8370.98
20_E24_I0.8360.98
93_G97_Q0.8260.98
85_A89_S0.8240.98
17_I42_E0.8240.98
183_E198_K0.8220.98
71_K74_N0.8220.98
160_L174_K0.8180.98
28_I44_I0.8150.98
158_E188_T0.8110.98
74_N128_K0.8090.98
171_K175_K0.8090.98
183_E194_K0.8030.98
78_I117_T0.8030.98
31_P88_G0.7950.98
96_I132_V0.7900.97
64_E96_I0.7870.97
98_A110_F0.7850.97
49_H80_P0.7850.97
3_E48_H0.7780.97
34_F65_E0.7670.97
147_L150_Q0.7660.97
32_N36_Y0.7610.97
29_F56_S0.7510.97
26_Y55_F0.7510.97
5_V44_I0.7510.97
8_T39_R0.7450.96
168_Y172_E0.7440.96
64_E93_G0.7440.96
133_V136_M0.7410.96
98_A107_L0.7410.96
158_E161_E0.7400.96
104_E115_K0.7350.96
51_R54_A0.7330.96
180_L191_Y0.7320.96
186_L191_Y0.7300.96
27_Q70_T0.7260.96
99_I129_L0.7250.96
110_F113_V0.7230.96
19_I23_G0.7200.96
49_H73_L0.7180.96
94_A97_Q0.7160.96
102_E122_I0.7150.95
95_V125_L0.7130.95
30_T44_I0.7020.95
96_I100_E0.6940.95
120_Q127_G0.6940.95
112_G120_Q0.6840.94
130_A133_V0.6840.94
130_A134_P0.6830.94
176_V198_K0.6810.94
3_E45_F0.6640.93
14_P32_N0.6630.93
34_F88_G0.6630.93
155_A159_A0.6610.93
12_V17_I0.6610.93
88_G91_D0.6600.93
2_I57_L0.6530.93
68_L99_I0.6480.92
85_A111_P0.6470.92
89_S92_P0.6420.92
145_E149_K0.6410.92
30_T59_G0.6350.92
18_V66_K0.6340.92
70_T73_L0.6330.92
78_I86_I0.6320.92
8_T40_S0.6290.91
154_T157_E0.6280.91
172_E175_K0.6250.91
136_M147_L0.6230.91
99_I107_L0.6210.91
3_E46_T0.6200.91
63_R66_K0.6190.91
46_T55_F0.6170.91
11_Y18_V0.6150.90
156_L191_Y0.6140.90
13_S63_R0.6090.90
6_K10_D0.6090.90
145_E148_E0.6090.90
76_T124_D0.6070.90
71_K131_D0.6070.90
156_L181_K0.6070.90
150_Q153_E0.6030.90
177_L191_Y0.6020.89
105_A115_K0.6010.89
87_L92_P0.5970.89
96_I129_L0.5970.89
9_I17_I0.5960.89
146_R150_Q0.5950.89
76_T115_K0.5950.89
2_I24_I0.5930.89
165_V188_T0.5910.89
58_Y80_P0.5900.89
15_Q27_Q0.5880.88
195_A199_L0.5880.88
29_F84_L0.5870.88
54_A58_Y0.5860.88
136_M148_E0.5810.88
98_A122_I0.5810.88
10_D18_V0.5810.88
107_L121_I0.5790.88
148_E151_T0.5790.88
180_L195_A0.5790.88
81_K112_G0.5750.87
67_A71_K0.5740.87
119_R123_L0.5720.87
68_L95_V0.5560.85
65_E87_L0.5550.85
32_N35_I0.5520.85
121_I124_D0.5520.85
15_Q29_F0.5480.85
9_I38_E0.5470.85
76_T82_G0.5460.84
87_L95_V0.5450.84
188_T193_K0.5450.84
76_T123_L0.5440.84
86_I99_I0.5420.84
135_E145_E0.5420.84
152_A185_G0.5410.84
12_V36_Y0.5340.83
107_L111_P0.5310.83
73_L80_P0.5290.83
147_L178_P0.5270.82
20_E23_G0.5260.82
179_H182_E0.5250.82
14_P30_T0.5240.82
9_I39_R0.5230.82
53_D123_L0.5190.81
42_E61_S0.5180.81
156_L178_P0.5180.81
2_I18_V0.5170.81
136_M149_K0.5170.81
107_L110_F0.5160.81
93_G96_I0.5160.81
51_R56_S0.5130.81
133_V161_E0.5120.80
37_K91_D0.5110.80
93_G145_E0.5090.80
99_I121_I0.5090.80
81_K111_P0.5080.80
86_I168_Y0.5070.80
165_V192_V0.5060.80
21_N26_Y0.5030.79
46_T50_I0.5030.79
64_E67_A0.5020.79
15_Q32_N0.5010.79
14_P162_A0.5000.79
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  
2ztdA 4 0.8856 100 0.257 Contact Map
1ixrA 4 0.9353 100 0.267 Contact Map
1cukA 3 0.9303 100 0.269 Contact Map
3b0xA 1 0.9204 99.7 0.678 Contact Map
4gfjA 1 0.8706 99.6 0.707 Contact Map
4bxoA 1 0.5821 99.4 0.747 Contact Map
2csbA 1 0.7612 99.4 0.752 Contact Map
2w9mA 1 0.9005 99.3 0.763 Contact Map
1dgsA 1 0.6567 98.7 0.811 Contact Map
2owoA 1 0.6716 98.5 0.824 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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