GREMLIN Database
bPH_5 - Bacterial PH domain
PFAM: PF10882 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 100 (96)
Sequences: 5098 (4161)
Seq/√Len: 424.7
META: 0.933

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
88_D91_A3.6381.00
9_G20_R2.9461.00
56_N62_V2.7681.00
66_A85_S2.5351.00
53_W63_R2.4061.00
28_S76_R2.3031.00
68_D71_R2.1611.00
6_D11_R2.1171.00
76_R81_T2.0401.00
67_T85_S1.9651.00
27_E78_P1.8241.00
11_R20_R1.7481.00
41_L61_K1.7401.00
40_R45_G1.6311.00
5_L23_L1.5991.00
3_Y86_P1.5381.00
45_G50_Y1.5001.00
44_N51_L1.4591.00
11_R18_R1.4571.00
38_S62_V1.4451.00
91_A95_A1.4411.00
4_T11_R1.4271.00
31_P90_E1.4261.00
6_D9_G1.3711.00
9_G22_P1.3241.00
19_E63_R1.2971.00
38_S56_N1.2851.00
30_R76_R1.2781.00
73_V93_V1.2761.00
9_G23_L1.2751.00
13_R18_R1.2741.00
63_R80_R1.2711.00
53_W61_K1.2691.00
55_R61_K1.2631.00
21_I77_T1.2571.00
10_L75_I1.2511.00
41_L53_W1.2481.00
46_G49_G1.2431.00
91_A94_A1.2361.00
12_I65_Y1.2031.00
4_T13_R1.1771.00
22_P25_D1.1341.00
33_D36_M1.1311.00
75_I84_I1.1091.00
74_L83_V1.1041.00
72_L83_V1.1021.00
72_L85_S1.0971.00
40_R54_F1.0961.00
26_I77_T1.0821.00
25_D79_D1.0821.00
25_D78_P1.0801.00
56_N59_L1.0801.00
90_E94_A1.0371.00
86_P92_F1.0371.00
23_L96_L1.0301.00
31_P93_V1.0171.00
74_L81_T1.0081.00
40_R43_G1.0011.00
2_R13_R0.9891.00
62_V83_V0.9631.00
73_V92_F0.9551.00
66_A72_L0.9411.00
53_W80_R0.9401.00
21_I82_Y0.9011.00
50_Y68_D0.8911.00
17_R42_F0.8551.00
32_A36_M0.8541.00
29_V93_V0.8481.00
14_W65_Y0.8431.00
14_W17_R0.8281.00
77_T82_Y0.8251.00
42_F53_W0.8211.00
94_A97_R0.8141.00
50_Y66_A0.8021.00
14_W18_R0.7991.00
23_L26_I0.7901.00
67_T86_P0.7811.00
5_L95_A0.7791.00
44_N49_G0.7621.00
19_E22_P0.7621.00
60_G74_L0.7561.00
26_I29_V0.7561.00
27_E76_R0.7551.00
84_I96_L0.7511.00
6_D23_L0.7501.00
12_I84_I0.7411.00
14_W48_G0.7301.00
89_P93_V0.7221.00
50_Y69_R0.7051.00
10_L23_L0.7041.00
37_G58_D0.6941.00
77_T80_R0.6911.00
5_L96_L0.6911.00
32_A35_L0.6881.00
93_V97_R0.6861.00
56_N83_V0.6741.00
16_L19_E0.6630.99
27_E31_P0.6620.99
19_E65_Y0.6610.99
5_L10_L0.6570.99
26_I75_I0.6380.99
75_I82_Y0.6340.99
63_R82_Y0.6320.99
3_Y92_F0.6310.99
42_F54_F0.6310.99
21_I26_I0.6300.99
60_G81_T0.6250.99
44_N50_Y0.6250.99
54_F64_F0.6150.99
31_P71_R0.6130.99
29_V96_L0.6100.99
43_G54_F0.5960.99
45_G54_F0.5950.99
66_A83_V0.5910.99
64_F72_L0.5900.99
64_F83_V0.5750.99
37_G57_R0.5740.99
43_G52_G0.5740.99
15_G51_L0.5730.99
35_L38_S0.5720.99
48_G67_T0.5720.99
14_W51_L0.5700.98
69_R73_V0.5690.98
7_R23_L0.5670.98
19_E82_Y0.5650.98
51_L64_F0.5640.98
13_R16_L0.5560.98
34_D70_K0.5520.98
77_T81_T0.5470.98
10_L84_I0.5470.98
39_L57_R0.5440.98
31_P34_D0.5360.98
8_D24_A0.5360.98
39_L55_R0.5320.98
32_A58_D0.5240.97
69_R72_L0.5230.97
38_S57_R0.5170.97
75_I86_P0.5120.97
44_N47_P0.5110.97
18_R22_P0.5080.97
19_E25_D0.5050.97
30_R74_L0.5050.97
8_D22_P0.5010.97
12_I19_E0.5000.97
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  
4chjA 1 0.74 66.1 0.823 Contact Map
4chmA 1 0.84 32.7 0.855 Contact Map
2coaA 1 0.74 20.1 0.869 Contact Map
2mjgA 2 0.42 16 0.875 Contact Map
2d9zA 1 0.88 15.2 0.876 Contact Map
4htiA 1 0.28 13 0.88 Contact Map
1maiA 1 0.83 11.3 0.883 Contact Map
1wf9A 1 0.35 9.6 0.887 Contact Map
4xtkA 2 0.9 8.7 0.889 Contact Map
1pg6A 3 0.92 8.6 0.889 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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