GREMLIN Database
Q9HMV3 - DNA repair protein
UniProt: Q9HMV3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 227 (216)
Sequences: 1788 (1390)
Seq/√Len: 94.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
22_D184_Y3.8581.00
41_W44_A3.8171.00
43_A92_Q3.4021.00
24_P52_R3.1151.00
17_E48_T3.0981.00
47_D92_Q2.8141.00
26_V186_V2.7491.00
4_G23_M2.7071.00
89_H92_Q2.6801.00
40_P206_V2.6051.00
20_L48_T2.4631.00
208_A212_D2.4481.00
177_D198_R2.3821.00
118_E122_K2.2171.00
111_R145_E2.1861.00
14_V209_A2.1811.00
31_C56_T2.1501.00
41_W209_A2.1401.00
43_A89_H2.0681.00
48_T52_R2.0521.00
6_V23_M2.0131.00
169_P185_A2.0071.00
22_D197_H1.9961.00
4_G26_V1.9531.00
35_V45_C1.8921.00
30_V112_V1.8371.00
109_R146_D1.8011.00
13_L44_A1.7921.00
31_C35_V1.7891.00
5_V149_I1.7721.00
104_R145_E1.7531.00
58_M63_R1.7351.00
112_V149_I1.7331.00
32_A149_I1.7141.00
208_A211_S1.7131.00
63_R120_R1.6941.00
37_G61_H1.6781.00
55_P103_Q1.6671.00
23_M29_L1.6281.00
167_M185_A1.6211.00
204_D208_A1.6101.00
182_A199_V1.6031.00
185_A194_V1.5911.00
14_V206_V1.5851.00
156_Q183_A1.5821.00
43_A47_D1.5711.00
158_H196_E1.5561.00
188_D195_T1.5481.00
110_V147_V1.5291.00
13_L48_T1.5241.00
19_V182_A1.4811.00
153_T168_N1.4761.00
48_T51_E1.4731.00
7_S151_G1.4701.00
150_L166_V1.4601.00
14_V41_W1.4341.00
184_Y199_V1.4301.00
35_V56_T1.4050.99
177_D183_A1.3980.99
62_D66_A1.3530.99
94_T98_N1.3510.99
202_D205_A1.3440.99
185_A196_E1.3280.99
9_I16_L1.3180.99
38_Y176_R1.3050.99
32_A112_V1.2910.99
123_Y176_R1.2850.99
61_H174_Q1.2830.99
158_H165_I1.2800.99
50_R92_Q1.2750.99
43_A87_E1.2710.99
60_N152_H1.2620.99
210_V220_A1.2600.99
12_N15_A1.2450.99
50_R95_W1.2340.99
17_E21_A1.2320.99
2_R188_D1.2310.98
46_V92_Q1.2300.98
13_L17_E1.2260.98
183_A198_R1.2240.98
8_D154_H1.2230.98
50_R91_V1.2190.98
23_M26_V1.2060.98
19_V199_V1.2010.98
181_R200_E1.1880.98
203_I207_Q1.1860.98
6_V9_I1.1840.98
11_S42_P1.1770.98
83_H87_E1.1570.98
11_S40_P1.1360.97
62_D96_I1.1250.97
6_V31_C1.1240.97
4_G22_D1.1180.97
102_E111_R1.1090.97
90_D94_T1.1050.97
149_I167_M1.0890.97
10_H154_H1.0870.97
19_V172_V1.0840.97
18_A199_V1.0810.97
108_G146_D1.0790.97
167_M194_V1.0630.96
13_L41_W1.0590.96
116_H119_F1.0570.96
80_G84_A1.0570.96
85_V93_R1.0570.96
149_I169_P1.0560.96
61_H176_R1.0540.96
149_I187_V1.0410.96
61_H123_Y1.0370.96
116_H122_K1.0320.96
38_Y174_Q1.0210.95
42_P83_H1.0030.95
36_V46_V0.9800.94
57_V103_Q0.9760.94
15_A201_Y0.9720.94
105_L112_V0.9620.93
56_T99_R0.9600.93
6_V16_L0.9600.93
207_Q220_A0.9540.93
47_D89_H0.9510.93
96_I99_R0.9360.93
104_R111_R0.9330.92
37_G123_Y0.9270.92
46_V95_W0.9200.92
132_S137_G0.9140.92
49_L54_V0.9060.91
161_Y164_G0.8950.91
65_V81_I0.8860.90
184_Y197_H0.8850.90
14_V17_E0.8840.90
2_R27_D0.8830.90
62_D198_R0.8830.90
35_V99_R0.8780.90
62_D65_V0.8750.90
174_Q222_R0.8750.90
3_I28_Q0.8740.90
160_T165_I0.8740.90
77_A80_G0.8700.90
56_T95_W0.8700.90
150_L153_T0.8700.90
68_G85_V0.8690.89
7_S32_A0.8660.89
70_N97_E0.8660.89
8_D60_N0.8620.89
41_W206_V0.8590.89
101_A115_D0.8570.89
46_V50_R0.8510.88
28_Q55_P0.8420.88
63_R67_T0.8370.88
6_V19_V0.8360.88
14_V205_A0.8350.88
188_D191_D0.8310.87
66_A97_E0.8310.87
81_I85_V0.8300.87
22_D199_V0.8270.87
113_I148_L0.8250.87
205_A209_A0.8100.86
7_S171_S0.8030.85
19_V22_D0.8020.85
58_M101_A0.8010.85
23_M184_Y0.7950.85
6_V29_L0.7930.85
115_D153_T0.7770.83
49_L56_T0.7770.83
95_W99_R0.7760.83
12_N201_Y0.7700.83
15_A172_V0.7690.83
211_S220_A0.7660.83
37_G81_I0.7650.83
29_L54_V0.7630.82
153_T157_H0.7630.82
189_V192_L0.7620.82
151_G156_Q0.7620.82
179_D198_R0.7600.82
119_F122_K0.7590.82
16_L49_L0.7580.82
188_D193_S0.7550.82
14_V40_P0.7500.81
42_P84_A0.7500.81
21_A25_A0.7400.80
43_A46_V0.7390.80
211_S217_A0.7390.80
28_Q54_V0.7380.80
80_G215_L0.7350.80
9_I31_C0.7340.80
217_A221_D0.7260.79
61_H152_H0.7240.79
159_E164_G0.7230.79
82_E86_E0.7210.79
206_V209_A0.7200.79
83_H216_P0.7140.78
209_A213_A0.7100.78
210_V213_A0.7090.78
38_Y123_Y0.7080.77
31_C95_W0.7070.77
7_S115_D0.6980.76
123_Y152_H0.6970.76
78_Q82_E0.6970.76
147_V187_V0.6960.76
60_N168_N0.6950.76
58_M66_A0.6940.76
36_V62_D0.6910.76
187_V194_V0.6900.76
4_G29_L0.6890.75
4_G19_V0.6850.75
179_D183_A0.6810.75
25_A94_T0.6790.74
134_L162_A0.6750.74
154_H171_S0.6750.74
207_Q211_S0.6720.74
160_T163_A0.6710.74
28_Q105_L0.6690.73
35_V58_M0.6690.73
180_P203_I0.6690.73
30_V103_Q0.6670.73
10_H16_L0.6660.73
35_V49_L0.6630.73
38_Y210_V0.6610.72
64_M121_D0.6590.72
49_L53_G0.6550.72
58_M120_R0.6530.72
129_F135_G0.6520.71
195_T204_D0.6500.71
36_V66_A0.6460.71
17_E204_D0.6440.70
104_R109_R0.6410.70
5_V169_P0.6350.69
38_Y61_H0.6340.69
183_A196_E0.6320.69
143_P148_L0.6260.68
207_Q210_V0.6230.68
20_L29_L0.6220.68
5_V167_M0.6190.67
5_V30_V0.6190.67
110_V189_V0.6170.67
37_G176_R0.6140.67
110_V187_V0.6130.67
31_C54_V0.6120.67
203_I223_L0.6100.66
132_S135_G0.6090.66
21_A162_A0.6060.66
126_P155_V0.6010.65
64_M73_G0.6010.65
74_N77_A0.6000.65
107_D146_D0.6000.65
10_H171_S0.5980.65
93_R97_E0.5960.65
205_A208_A0.5940.64
5_V185_A0.5920.64
165_I194_V0.5910.64
17_E205_A0.5870.63
2_R186_V0.5870.63
116_H124_T0.5860.63
215_L220_A0.5840.63
20_L52_R0.5820.63
35_V95_W0.5810.63
177_D215_L0.5790.62
103_Q112_V0.5790.62
40_P220_A0.5760.62
186_V197_H0.5760.62
117_P166_V0.5750.62
39_N83_H0.5740.62
110_V192_L0.5740.62
18_A21_A0.5740.62
120_R125_Y0.5730.62
104_R143_P0.5680.61
213_A217_A0.5660.61
36_V80_G0.5660.61
49_L115_D0.5660.61
126_P130_E0.5650.60
38_Y115_D0.5640.60
138_T142_T0.5600.60
176_R222_R0.5600.60
204_D207_Q0.5560.59
5_V187_V0.5540.59
17_E44_A0.5520.59
79_A82_E0.5510.59
37_G84_A0.5510.59
5_V198_R0.5500.58
37_G174_Q0.5480.58
65_V84_A0.5480.58
15_A182_A0.5460.58
125_Y129_F0.5460.58
90_D160_T0.5450.58
18_A202_D0.5450.58
115_D120_R0.5450.58
16_L45_C0.5420.57
94_T97_E0.5420.57
4_G184_Y0.5410.57
133_L137_G0.5380.57
3_I105_L0.5350.56
110_V149_I0.5350.56
182_A201_Y0.5330.56
22_D25_A0.5330.56
36_V45_C0.5330.56
211_S221_D0.5310.56
105_L110_V0.5300.56
47_D90_D0.5280.55
46_V62_D0.5270.55
177_D181_R0.5270.55
191_D212_D0.5270.55
23_M27_D0.5260.55
186_V191_D0.5240.55
115_D172_V0.5230.55
10_H152_H0.5220.55
44_A48_T0.5220.55
41_W83_H0.5200.54
152_H176_R0.5170.54
88_L92_Q0.5170.54
38_Y175_P0.5160.54
30_V55_P0.5160.54
73_G77_A0.5160.54
4_G197_H0.5140.53
133_L136_R0.5130.53
47_D50_R0.5120.53
18_A182_A0.5110.53
40_P83_H0.5100.53
64_M176_R0.5100.53
38_Y84_A0.5100.53
21_A190_D0.5080.53
104_R107_D0.5050.52
157_H166_V0.5040.52
108_G191_D0.5020.52
22_D26_V0.5000.51
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  
1nnwA 2 0.9868 100 0.338 Contact Map
3rqzA 1 0.9648 100 0.403 Contact Map
3qfmA 2 0.9868 100 0.413 Contact Map
3ib7A 2 0.9648 100 0.548 Contact Map
1g5bA 4 0.8238 100 0.572 Contact Map
4j6oA 1 0.8943 100 0.579 Contact Map
3h63A 1 0.9031 100 0.584 Contact Map
3ck2A 1 0.7445 100 0.598 Contact Map
1su1A 3 0.7533 100 0.603 Contact Map
2qjcA 1 0.8106 100 0.603 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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