GREMLIN Database
DBHA - DNA-binding protein HU-alpha
UniProt: P0ACF0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10466
Length: 90 (89)
Sequences: 4669 (2616)
Seq/√Len: 277.3

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_N78_A3.4151.00
59_T68_E2.7731.00
35_S40_D2.5571.00
22_K26_E2.5391.00
54_H75_N2.4441.00
57_E70_K2.3431.00
61_R66_G2.3121.00
59_T70_K2.1761.00
52_V75_N2.1031.00
60_G71_I2.0961.00
8_D18_K2.0651.00
20_Q23_A1.9871.00
83_K87_D1.9831.00
10_I25_L1.8511.00
19_T23_A1.8461.00
61_R68_E1.8191.00
51_K80_V1.6641.00
54_H73_A1.6261.00
28_T32_I1.5931.00
36_L85_L1.5911.00
36_L52_V1.5401.00
41_A49_T1.4671.00
41_A51_K1.4561.00
55_R76_V1.4351.00
33_T85_L1.4051.00
17_S20_Q1.3701.00
9_V13_K1.3571.00
10_I28_T1.3571.00
45_V82_G1.3361.00
21_A24_A1.3011.00
6_L44_L1.2591.00
9_V31_A1.1811.00
57_E73_A1.1681.00
13_K34_E1.1621.00
16_L21_A1.1551.00
16_L24_A1.1521.00
3_K26_E1.1161.00
32_I42_V1.0811.00
34_E38_E1.0491.00
48_G79_F1.0461.00
30_A33_T1.0441.00
33_T88_A1.0291.00
13_K31_A1.0241.00
43_Q49_T1.0231.00
9_V12_E1.0191.00
14_A21_A1.0181.00
37_K88_A1.0041.00
29_L44_L0.9501.00
25_L29_L0.9331.00
29_L47_F0.9331.00
31_A35_S0.9221.00
47_F50_F0.9191.00
39_G75_N0.9191.00
8_D12_E0.9191.00
16_L20_Q0.9181.00
64_Q67_K0.8931.00
27_S31_A0.8831.00
5_Q8_D0.8641.00
1_M5_Q0.8611.00
74_A86_K0.8591.00
62_N67_K0.8451.00
51_K78_A0.8401.00
28_T31_A0.8281.00
77_P89_V0.8190.99
58_R76_V0.8170.99
47_F82_G0.8160.99
34_E37_K0.7910.99
36_L77_P0.7900.99
2_N5_Q0.7670.99
60_G69_I0.7500.99
10_I14_A0.7500.99
84_A87_D0.7440.99
13_K30_A0.7420.99
43_Q58_R0.7400.99
55_R74_A0.7400.99
61_R64_Q0.7360.99
10_I24_A0.7330.99
49_T80_V0.7220.99
35_S42_V0.7100.98
62_N66_G0.6980.98
30_A34_E0.6970.98
35_S38_E0.6970.98
77_P86_K0.6950.98
31_A34_E0.6930.98
77_P85_L0.6750.98
24_A31_A0.6690.98
15_E23_A0.6620.98
45_V84_A0.6600.98
4_T8_D0.6580.98
7_I22_K0.6570.98
13_K27_S0.6560.97
23_A27_S0.6370.97
57_E72_A0.6310.97
33_T37_K0.6300.97
11_A14_A0.6290.97
55_R58_R0.6290.97
17_S21_A0.6280.97
50_F79_F0.6220.97
22_K41_A0.6190.96
39_G54_H0.6140.96
34_E54_H0.6050.96
26_E30_A0.5990.96
29_L33_T0.5920.95
60_G68_E0.5910.95
38_E54_H0.5910.95
49_T82_G0.5790.95
62_N65_T0.5780.95
53_N76_V0.5640.94
46_G82_G0.5630.94
43_Q84_A0.5630.94
9_V38_E0.5610.94
59_T69_I0.5600.94
15_E20_Q0.5600.94
27_S30_A0.5510.93
2_N45_V0.5470.93
9_V35_S0.5470.93
15_E21_A0.5340.92
3_K22_K0.5290.92
14_A27_S0.5290.92
2_N6_L0.5280.92
19_T22_K0.5270.92
32_I50_F0.5220.91
10_I21_A0.5210.91
1_M40_D0.5190.91
33_T36_L0.5150.91
11_A18_K0.5140.91
41_A84_A0.5130.91
32_I47_F0.5120.91
4_T58_R0.5110.91
85_L89_V0.5110.91
78_A82_G0.5060.90
18_K49_T0.5050.90
56_A75_N0.5020.90
21_A28_T0.5000.90
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  
4qjuA 2 1 100 0.15 Contact Map
2iieA 1 1 100 0.16 Contact Map
4p3vA 2 0.8 100 0.161 Contact Map
1mulA 2 0.8444 100 0.163 Contact Map
1b8zA 2 0.7444 100 0.165 Contact Map
1exeA 2 1 100 0.166 Contact Map
1p71A 2 1 100 0.167 Contact Map
4pt4A 2 1 100 0.168 Contact Map
1owfB 1 1 100 0.169 Contact Map
1owfA 1 1 100 0.173 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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