GREMLIN Database
STPA - DNA-binding protein StpA
UniProt: P0ACG1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11554
Length: 134 (132)
Sequences: 379 (251)
Seq/√Len: 21.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
120_A124_A4.5581.00
98_K106_T4.2881.00
61_W64_L3.3081.00
115_T123_L2.8450.99
99_F119_I2.7870.99
130_D133_L2.7250.99
30_L34_R2.5520.98
63_E67_A2.4920.98
27_E41_R2.4690.98
93_R112_Q2.2990.97
9_N25_V2.2420.96
38_K41_R2.2110.96
59_S62_L2.1400.95
9_N13_T2.0390.93
127_K131_D2.0270.93
52_A56_E1.9540.92
121_Q125_E1.9170.91
61_W65_M1.8900.90
90_R112_Q1.8020.88
11_I15_R1.7600.87
9_N29_M1.6840.84
56_E60_T1.6820.84
120_A123_L1.6430.83
100_T106_T1.6310.82
30_L37_T1.5670.80
17_M62_L1.4920.76
4_M17_M1.4820.76
108_T112_Q1.4400.73
46_Q50_E1.4330.73
10_N13_T1.3150.66
44_E47_Q1.2830.64
2_S105_E1.2820.64
64_L68_D1.2820.64
18_A36_V1.2750.64
60_T64_L1.2710.64
57_K71_N1.2670.63
21_F25_V1.2500.62
117_K121_Q1.2480.62
94_P110_T1.2470.62
63_E66_K1.2390.62
72_P78_N1.2330.61
44_E48_Q1.2130.60
28_E32_K1.2070.60
7_S13_T1.2060.60
5_L11_I1.2050.59
99_F107_K1.2040.59
61_W68_D1.1890.58
70_I74_E1.1870.58
110_T129_L1.1780.58
27_E30_L1.1670.57
119_I122_A1.1650.57
107_K119_I1.1520.56
65_M70_I1.1380.55
13_T25_V1.1140.53
119_I129_L1.0910.52
77_G124_A1.0890.52
12_R32_K1.0710.50
98_K108_T1.0690.50
110_T114_R1.0570.50
110_T115_T1.0520.49
31_E63_E1.0380.48
30_L70_I1.0350.48
122_A127_K1.0350.48
10_N16_A1.0100.46
4_M21_F0.9960.45
15_R39_E0.9840.45
119_I128_S0.9650.43
13_T19_R0.9620.43
45_E85_R0.9600.43
5_L29_M0.9550.43
10_N32_K0.9280.41
92_P118_P0.9240.41
10_N15_R0.9240.41
3_V56_E0.9220.40
72_P76_L0.9210.40
109_W113_G0.9150.40
105_E128_S0.9100.40
115_T124_A0.9000.39
59_S63_E0.8800.38
9_N18_A0.8710.37
56_E64_L0.8670.37
100_T105_E0.8650.37
21_F29_M0.8640.37
10_N74_E0.8620.37
94_P112_Q0.8420.35
55_Q117_K0.8410.35
16_A112_Q0.8400.35
16_A19_R0.8390.35
6_Q13_T0.8320.35
47_Q80_S0.8290.35
4_M36_V0.8250.34
36_V55_Q0.8250.34
118_P124_A0.8180.34
15_R19_R0.8180.34
119_I132_F0.8110.33
93_R129_L0.8110.33
48_Q55_Q0.8050.33
46_Q49_R0.8040.33
18_A41_R0.7930.32
92_P112_Q0.7870.32
51_L55_Q0.7780.32
45_E53_E0.7750.31
11_I19_R0.7750.31
48_Q88_K0.7670.31
129_L132_F0.7530.30
11_I32_K0.7510.30
20_E40_R0.7470.30
19_R110_T0.7440.30
11_I99_F0.7440.30
48_Q81_A0.7370.29
43_E51_L0.7290.29
16_A110_T0.7290.29
5_L65_M0.7250.29
42_E46_Q0.7230.28
99_F118_P0.7220.28
47_Q50_E0.7220.28
2_S101_D0.7180.28
123_L129_L0.7080.28
64_L70_I0.7000.27
13_T39_E0.6940.27
40_R71_N0.6880.26
6_Q15_R0.6850.26
72_P98_K0.6830.26
8_L11_I0.6810.26
57_K93_R0.6800.26
29_M36_V0.6790.26
14_L36_V0.6770.26
118_P122_A0.6720.26
16_A90_R0.6700.26
16_A28_E0.6690.26
40_R120_A0.6680.25
55_Q59_S0.6640.25
9_N41_R0.6560.25
115_T119_I0.6550.25
22_S25_V0.6550.25
35_V107_K0.6550.25
2_S33_F0.6550.25
6_Q11_I0.6520.25
42_E84_P0.6500.25
3_V62_L0.6490.24
42_E45_E0.6490.24
108_T119_I0.6460.24
20_E24_D0.6440.24
3_V7_S0.6430.24
9_N28_E0.6420.24
42_E50_E0.6410.24
52_A73_E0.6330.24
16_A32_K0.6280.23
10_N19_R0.6250.23
1_M14_L0.6240.23
109_W116_P0.6210.23
111_G116_P0.6210.23
6_Q29_M0.6190.23
4_M18_A0.6170.23
4_M9_N0.6140.23
28_E78_N0.6040.22
58_I64_L0.5990.22
67_A76_L0.5960.22
65_M74_E0.5960.22
113_G116_P0.5940.22
73_E99_F0.5940.22
10_N94_P0.5920.22
117_K120_A0.5900.22
5_L9_N0.5880.22
3_V88_K0.5760.21
26_L43_E0.5730.21
77_G88_K0.5700.21
105_E133_L0.5690.21
58_I70_I0.5690.21
12_R16_A0.5670.21
57_K130_D0.5660.21
58_I61_W0.5640.20
11_I29_M0.5640.20
22_S121_Q0.5590.20
11_I18_A0.5580.20
60_T63_E0.5540.20
17_M115_T0.5440.20
53_E102_V0.5350.19
40_R44_E0.5330.19
34_R38_K0.5310.19
33_F101_D0.5300.19
15_R18_A0.5270.19
38_K117_K0.5230.19
1_M5_L0.5210.19
56_E61_W0.5170.18
23_I45_E0.5160.18
58_I87_G0.5150.18
61_W70_I0.5140.18
40_R43_E0.5140.18
63_E73_E0.5130.18
73_E84_P0.5110.18
5_L120_A0.5100.18
59_S67_A0.5090.18
50_E53_E0.5080.18
15_R95_A0.5080.18
3_V80_S0.5050.18
3_V53_E0.5000.18
10_N99_F0.5000.18
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  
3nr7A 2 0.6045 99.9 0.547 Contact Map
2l93A 1 0.3284 99.7 0.639 Contact Map
1hnrA 1 0.3284 99.7 0.652 Contact Map
4icgB 2 0.3284 99.5 0.701 Contact Map
1ov9A 2 0.3582 99.4 0.708 Contact Map
2l92A 1 0.2612 99.3 0.731 Contact Map
2levA 1 0.3806 99.1 0.744 Contact Map
2jr1A 1 0.5075 99.1 0.748 Contact Map
3bpjA 2 0.306 47.6 0.928 Contact Map
1z56A 2 0.5224 25.1 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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