GREMLIN Database
bPH_6 - Bacterial PH domain
PFAM: PF10756 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 73 (71)
Sequences: 5487 (3378)
Seq/√Len: 400.8
META: 0.737

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
12_T21_R4.4141.00
23_P26_E3.5751.00
10_G21_R2.6291.00
12_T19_T2.4991.00
5_V12_T2.2181.00
66_A69_R2.0811.00
7_D21_R2.0001.00
7_D12_T1.9961.00
10_G24_W1.9901.00
4_V51_L1.9261.00
14_R19_T1.9231.00
28_V44_A1.5971.00
26_E44_A1.5961.00
9_D23_P1.5191.00
31_R48_L1.4851.00
40_R48_L1.4441.00
9_D21_R1.4151.00
62_R66_A1.3801.00
6_A24_W1.3681.00
7_D10_G1.3541.00
15_N20_R1.3541.00
22_L49_V1.3541.00
61_E65_A1.3001.00
60_P64_A1.2881.00
68_R71_R1.2651.00
6_A70_L1.2531.00
32_F39_A1.2331.00
3_R14_R1.1831.00
28_V46_G1.1451.00
40_R44_A1.1051.00
63_A67_L1.0651.00
11_L27_V1.0311.00
67_L71_R1.0191.00
33_P40_R0.9971.00
14_R17_L0.9601.00
40_R43_L0.9501.00
2_P15_N0.9311.00
16_L50_A0.9211.00
62_R65_A0.9001.00
43_L47_E0.8851.00
65_A69_R0.8851.00
41_L51_L0.8821.00
55_Q58_D0.8711.00
46_G49_V0.8601.00
16_L52_M0.8571.00
54_V59_G0.8341.00
42_D48_L0.8261.00
1_R18_G0.8221.00
61_E64_A0.8211.00
30_V41_L0.8191.00
32_F56_L0.8151.00
41_L44_A0.8101.00
27_V30_V0.8091.00
16_L35_G0.8031.00
59_G62_R0.8001.00
39_A42_D0.7931.00
58_D63_A0.7721.00
58_D62_R0.7611.00
62_R67_L0.7551.00
62_R68_R0.7511.00
2_P17_L0.7451.00
31_R42_D0.7271.00
21_R24_W0.6820.99
32_F38_W0.6790.99
30_V67_L0.6710.99
52_M55_Q0.6680.99
66_A70_L0.6660.99
12_T68_R0.6660.99
13_V20_R0.6570.99
63_A70_L0.6530.99
53_A60_P0.6440.99
2_P36_R0.6330.99
43_L46_G0.6290.99
33_P38_W0.6260.99
27_V43_L0.6160.99
14_R35_G0.6090.99
62_R71_R0.5990.99
29_G42_D0.5980.99
36_R40_R0.5910.99
40_R50_A0.5870.98
65_A68_R0.5800.98
41_L45_D0.5790.98
13_V32_F0.5780.98
22_L43_L0.5780.98
39_A54_V0.5760.98
15_N37_R0.5730.98
54_V66_A0.5620.98
48_L57_G0.5610.98
25_A28_V0.5610.98
51_L55_Q0.5560.98
32_F55_Q0.5550.98
38_W52_M0.5540.98
4_V41_L0.5510.98
67_L70_L0.5480.98
2_P16_L0.5420.97
28_V42_D0.5410.97
13_V51_L0.5330.97
40_R45_D0.5330.97
56_L60_P0.5290.97
9_D24_W0.5230.97
64_A68_R0.5210.97
63_A66_A0.5200.97
47_E54_V0.5070.96
5_V14_R0.5020.96
48_L51_L0.5010.96
58_D61_E0.5000.96
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  
2i1jA 3 0.9589 10.6 0.824 Contact Map
4khbD 1 0.9726 8.4 0.831 Contact Map
3f5rA 2 0.9863 7.9 0.833 Contact Map
4yl8A 1 0.9041 6.9 0.838 Contact Map
1h4rA 2 0.9589 6.2 0.841 Contact Map
3pvlA 1 1 4 0.855 Contact Map
4ekuA 2 1 3.1 0.862 Contact Map
4f7gA 1 0.863 2.8 0.865 Contact Map
4tyzA 1 0.9589 2.5 0.87 Contact Map
1hymB 1 0.2603 2.4 0.871 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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