GREMLIN Database
Y2008 - DNA-binding protein VNG_2008H
UniProt: Q9HNP3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 117 (107)
Sequences: 446 (310)
Seq/√Len: 29.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
53_N80_V2.5751.00
12_E15_Q2.5721.00
36_Q39_A2.4660.99
46_K74_E2.4400.99
19_E22_K2.3650.99
65_I98_M2.2650.99
7_D10_L2.1410.98
36_Q40_Q2.0430.97
11_E15_Q2.0120.97
55_T94_D2.0000.97
12_E16_R1.9760.97
65_I73_A1.9710.97
60_K64_T1.8910.96
66_R83_L1.7880.94
111_S114_I1.7740.94
56_D60_K1.7710.94
80_V98_M1.7700.94
64_T68_S1.7440.94
76_A94_D1.7370.93
93_I98_M1.6820.92
66_R77_E1.6800.92
53_N81_L1.6330.91
94_D97_Q1.6180.91
82_A85_Q1.6160.91
43_E66_R1.6050.90
89_V93_I1.5880.90
42_A46_K1.5780.90
46_K81_L1.5490.89
35_Q38_Q1.5460.89
42_A85_Q1.5250.88
49_M78_Q1.4620.86
65_I72_F1.4170.84
18_K89_V1.3840.82
34_A37_Q1.3290.80
65_I79_Q1.3280.80
64_T73_A1.3080.78
14_R18_K1.2990.78
60_K69_K1.2570.76
38_Q42_A1.2420.75
32_R35_Q1.2310.74
65_I95_E1.1890.71
42_A45_Q1.1550.69
66_R74_E1.1500.69
20_Q23_Q1.1490.69
49_M53_N1.1310.67
18_K21_L1.1170.67
18_K22_K1.1140.66
79_Q88_R1.0970.65
66_R99_K1.0790.64
80_V104_E1.0720.63
50_L84_A1.0560.62
14_R21_L1.0480.61
80_V97_Q1.0410.61
49_M81_L1.0380.61
52_Q92_R1.0330.60
33_E36_Q1.0330.60
68_S73_A1.0000.58
57_G95_E0.9900.57
79_Q83_L0.9540.54
65_I84_A0.9530.54
25_Q28_G0.9500.54
95_E110_Q0.9480.54
13_L64_T0.9260.52
9_R12_E0.9220.52
95_E99_K0.9200.52
10_L14_R0.9100.51
103_R108_D0.9070.50
84_A98_M0.9070.50
32_R105_L0.9000.50
9_R34_A0.8880.49
14_R17_K0.8840.49
55_T75_Q0.8800.48
96_D99_K0.8790.48
27_G89_V0.8680.47
20_Q24_Q0.8650.47
103_R106_K0.8570.47
35_Q39_A0.8320.45
47_Q60_K0.8300.44
80_V105_L0.8250.44
23_Q27_G0.8170.43
68_S93_I0.8110.43
33_E37_Q0.8060.43
15_Q22_K0.8020.42
27_G71_E0.7910.41
78_Q101_I0.7910.41
45_Q83_L0.7610.39
66_R73_A0.7590.39
41_Q45_Q0.7500.38
92_R106_K0.7460.38
59_R104_E0.7430.38
76_A90_Q0.7420.38
33_E43_E0.7410.38
110_Q114_I0.7340.37
89_V97_Q0.7310.37
50_L81_L0.7270.37
60_K63_N0.7260.36
68_S107_P0.7260.36
79_Q101_I0.7210.36
47_Q52_Q0.7180.36
37_Q41_Q0.7100.35
34_A38_Q0.7050.35
37_Q40_Q0.7010.35
37_Q105_L0.6930.34
65_I76_A0.6930.34
72_F106_K0.6870.34
25_Q90_Q0.6790.33
86_S90_Q0.6770.33
16_R20_Q0.6760.33
50_L54_L0.6740.33
82_A86_S0.6690.32
67_M97_Q0.6670.32
16_R41_Q0.6660.32
8_D12_E0.6620.32
18_K57_G0.6610.32
73_A110_Q0.6550.31
29_D52_Q0.6460.31
39_A80_V0.6440.31
39_A43_E0.6430.31
70_P87_G0.6270.30
95_E109_S0.6250.29
41_Q71_E0.6250.29
44_Q49_M0.6220.29
59_R70_P0.6140.29
78_Q105_L0.6120.29
51_K88_R0.6080.28
18_K29_D0.6050.28
93_I97_Q0.6030.28
29_D39_A0.6010.28
42_A49_M0.5980.28
13_L21_L0.5970.28
11_E74_E0.5950.27
91_G105_L0.5920.27
98_M108_D0.5890.27
16_R69_K0.5860.27
58_A84_A0.5840.27
15_Q47_Q0.5720.26
8_D11_E0.5630.25
19_E69_K0.5580.25
48_A51_K0.5560.25
45_Q48_A0.5560.25
51_K67_M0.5380.24
19_E54_L0.5380.24
51_K55_T0.5350.24
59_R75_Q0.5340.24
82_A99_K0.5320.24
20_Q26_Q0.5320.24
71_E75_Q0.5310.24
92_R113_N0.5310.24
79_Q94_D0.5310.24
19_E23_Q0.5310.24
40_Q57_G0.5300.24
86_S93_I0.5290.23
83_L99_K0.5250.23
67_M82_A0.5250.23
37_Q108_D0.5180.23
51_K92_R0.5140.23
42_A67_M0.5040.22
84_A101_I0.5030.22
15_Q38_Q0.5010.22
24_Q27_G0.5000.22
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  
2jxnA 1 0.9573 100 0.152 Contact Map
2cruA 1 0.9402 100 0.191 Contact Map
1eijA 1 0.6154 100 0.323 Contact Map
2fh0A 1 0.6667 99.9 0.369 Contact Map
1yybA 1 0.2222 96.4 0.83 Contact Map
4y66B 1 0.8718 10.3 0.934 Contact Map
4xhmA 1 0.641 7.5 0.938 Contact Map
2es4D 3 0.9829 6.8 0.94 Contact Map
3qryB 1 0.3675 4.5 0.945 Contact Map
2mvmA 1 0.265 4 0.946 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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