GREMLIN Database
Q9HNJ0 - DNA polymerase bacteriophage-type
UniProt: Q9HNJ0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 203 (178)
Sequences: 3323 (2368)
Seq/√Len: 177.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
37_D60_V4.2191.00
43_D122_A3.7261.00
45_L116_V3.0591.00
76_A181_R2.6611.00
46_F125_V2.6331.00
109_R113_V2.4241.00
114_A117_D2.2281.00
99_D130_V2.2191.00
45_L119_V2.1871.00
17_T33_V2.1511.00
73_E180_F2.0401.00
73_E184_I2.0381.00
50_A90_V2.0101.00
27_V30_R2.0041.00
149_V162_V1.9491.00
53_A57_D1.9191.00
94_P104_E1.7921.00
23_C108_C1.7751.00
30_R92_C1.7641.00
21_T27_V1.7281.00
129_K133_E1.7261.00
37_D81_R1.7261.00
177_R181_R1.7181.00
9_D12_D1.6871.00
149_V190_M1.6721.00
160_D190_M1.6451.00
126_T163_V1.6421.00
71_D81_R1.6071.00
46_F70_L1.5651.00
186_Q189_T1.5581.00
20_C23_C1.5331.00
14_A18_A1.5271.00
126_T161_V1.5171.00
24_D103_E1.5091.00
17_T35_N1.4981.00
125_V187_A1.4611.00
151_R160_D1.4551.00
153_S158_T1.4531.00
162_V187_A1.4531.00
10_T40_S1.4431.00
169_A173_D1.4391.00
146_A183_T1.4381.00
44_V187_A1.4331.00
99_D129_K1.4301.00
151_R158_T1.4271.00
120_D159_R1.4231.00
92_C108_C1.4221.00
20_C108_C1.4101.00
45_L87_T1.4041.00
13_G118_S1.4001.00
85_R115_E1.3921.00
54_T57_D1.3701.00
24_D28_E1.3601.00
141_A144_G1.3321.00
124_I159_R1.3301.00
99_D133_E1.3301.00
20_C92_C1.3241.00
76_A177_R1.3001.00
74_L84_V1.2991.00
143_T165_L1.2881.00
91_R115_E1.2871.00
173_D176_Q1.2841.00
186_Q190_M1.2711.00
46_F74_L1.2661.00
16_V114_A1.2381.00
116_V124_I1.2251.00
54_T58_T1.2111.00
170_T180_F1.1931.00
152_V161_V1.1891.00
132_S163_V1.1821.00
123_V162_V1.1641.00
105_L134_H1.1571.00
87_T115_E1.1541.00
77_A188_A1.1531.00
80_A83_D1.1201.00
127_L164_C1.1191.00
149_V186_Q1.1101.00
149_V160_D1.1061.00
132_S140_V1.1051.00
162_V186_Q1.1001.00
126_T132_S1.0861.00
165_L179_A1.0711.00
73_E181_R1.0611.00
31_S57_D1.0601.00
126_T135_V1.0521.00
50_A94_P1.0501.00
44_V191_A1.0481.00
12_D15_A1.0361.00
34_V61_P1.0350.99
125_V164_C1.0350.99
178_P182_E1.0280.99
72_D177_R1.0260.99
52_G55_E1.0250.99
140_V145_E1.0240.99
125_V184_I1.0210.99
89_C134_H1.0210.99
44_V125_V1.0180.99
162_V190_M1.0160.99
98_R104_E1.0110.99
55_E63_V1.0020.99
46_F127_L0.9990.99
123_V190_M0.9970.99
123_V187_A0.9970.99
15_A19_C0.9930.99
22_R110_S0.9920.99
58_T63_V0.9680.99
102_S106_A0.9490.99
77_A184_I0.9420.99
136_L161_V0.9420.99
23_C92_C0.9400.99
18_A33_V0.9400.99
182_E185_E0.9370.99
15_A18_A0.9360.99
169_A176_Q0.9330.99
39_P42_A0.9250.99
79_L188_A0.9120.99
24_D27_V0.9060.99
105_L130_V0.8970.99
74_L77_A0.8840.98
176_Q179_A0.8790.98
21_T28_E0.8780.98
113_V117_D0.8760.98
169_A172_Y0.8740.98
164_C180_F0.8670.98
12_D16_V0.8590.98
72_D76_A0.8560.98
26_L30_R0.8560.98
183_T186_Q0.8530.98
54_T65_R0.8520.98
47_I126_T0.8510.98
47_I135_V0.8500.98
109_R134_H0.8490.98
47_I112_L0.8490.98
48_G62_F0.8470.98
14_A35_N0.8460.98
87_T112_L0.8450.98
114_A118_S0.8380.98
45_L124_I0.8360.98
69_V177_R0.8260.98
36_G85_R0.8250.97
138_R145_E0.8220.97
73_E77_A0.8160.97
10_T118_S0.8150.97
53_A93_R0.8030.97
132_S145_E0.7990.97
123_V160_D0.7960.97
178_P181_R0.7900.97
11_M15_A0.7870.97
63_V88_N0.7840.97
44_V79_L0.7840.97
68_D71_D0.7820.97
24_D101_H0.7760.96
142_V163_V0.7700.96
94_P97_N0.7680.96
46_F84_V0.7680.96
106_A137_E0.7600.96
116_V135_V0.7560.96
116_V159_R0.7560.96
130_V133_E0.7540.96
27_V33_V0.7520.96
32_Q56_D0.7500.96
20_C91_R0.7450.95
11_M40_S0.7390.95
87_T91_R0.7390.95
102_S133_E0.7390.95
22_R111_H0.7360.95
68_D72_D0.7310.95
93_R98_R0.7310.95
23_C26_L0.7280.95
71_D86_I0.7280.95
110_S114_A0.7270.95
52_G88_N0.7260.95
50_A97_N0.7210.95
126_T131_P0.7050.94
72_D75_A0.7030.94
145_E148_S0.6950.93
52_G61_P0.6890.93
181_R185_E0.6840.93
39_P85_R0.6810.93
168_A172_Y0.6800.93
73_E177_R0.6760.92
77_A181_R0.6710.92
69_V170_T0.6710.92
18_A32_Q0.6670.92
53_A65_R0.6670.92
22_R107_N0.6660.92
110_S113_V0.6650.92
10_T14_A0.6620.92
38_G42_A0.6580.91
88_N166_H0.6560.91
48_G88_N0.6550.91
62_F95_P0.6550.91
165_L169_A0.6550.91
9_D118_S0.6530.91
52_G97_N0.6500.91
182_E186_Q0.6500.91
48_G166_H0.6450.91
13_G17_T0.6430.91
11_M14_A0.6410.90
14_A40_S0.6400.90
124_I135_V0.6390.90
165_L176_Q0.6340.90
77_A187_A0.6320.90
121_P124_I0.6300.90
88_N97_N0.6240.89
179_A182_E0.6210.89
136_L150_E0.6200.89
112_L116_V0.6200.89
69_V171_L0.6200.89
145_E163_V0.6200.89
35_N85_R0.6180.89
31_S56_D0.6140.88
146_A164_C0.6130.88
145_E150_E0.6130.88
75_A80_A0.6120.88
36_G115_E0.6120.88
71_D74_L0.6070.88
52_G66_S0.6010.87
184_I187_A0.6010.87
100_P104_E0.5960.87
27_V92_C0.5950.87
170_T177_R0.5950.87
10_T13_G0.5950.87
39_P83_D0.5930.87
14_A33_V0.5920.87
152_V159_R0.5880.86
61_P88_N0.5850.86
147_G183_T0.5850.86
140_V163_V0.5830.86
187_A191_A0.5820.86
30_R56_D0.5820.86
42_A119_V0.5810.86
42_A87_T0.5800.85
185_E188_A0.5800.85
44_V84_V0.5780.85
177_R180_F0.5750.85
170_T173_D0.5690.84
17_T111_H0.5650.84
89_C109_R0.5620.84
20_C30_R0.5620.84
61_P66_S0.5580.83
30_R33_V0.5520.83
44_V123_V0.5480.82
69_V172_Y0.5450.82
60_V63_V0.5430.82
140_V148_S0.5410.81
56_D63_V0.5400.81
109_R137_E0.5380.81
89_C105_L0.5290.80
95_P99_D0.5290.80
97_N104_E0.5260.79
49_E93_R0.5260.79
49_E88_N0.5240.79
50_A100_P0.5220.79
33_V92_C0.5220.79
103_E107_N0.5210.79
86_I97_N0.5190.79
73_E170_T0.5090.77
89_C112_L0.5080.77
129_K141_A0.5070.77
69_V181_R0.5060.77
85_R119_V0.5060.77
113_V152_V0.5040.77
34_V55_E0.5040.77
52_G169_A0.5030.76
153_S159_R0.5010.76
103_E106_A0.5000.76
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  
1vk2A 1 0.9163 100 0.212 Contact Map
1ui0A 1 0.9113 100 0.22 Contact Map
2d3yA 1 0.9064 100 0.285 Contact Map
3ikbA 1 0.8867 100 0.31 Contact Map
1wywA 1 0.867 100 0.43 Contact Map
1oe4A 2 0.867 100 0.526 Contact Map
1mugA 1 0.7438 100 0.533 Contact Map
2c2qA 1 0.8374 99.9 0.603 Contact Map
2l3fA 1 0.7094 98.7 0.824 Contact Map
1yc5A 1 0.3842 56.5 0.938 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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