GREMLIN Database
YccF - Inner membrane component domain
PFAM: PF03733 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 51 (51)
Sequences: 16750 (5704)
Seq/√Len: 798.7
META: 0.871

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_T31_G3.7901.00
26_C35_G2.8311.00
37_Q40_K2.6591.00
18_H38_H2.4141.00
19_L42_A2.2461.00
15_A46_L1.6931.00
26_C32_I1.6861.00
10_G13_W1.6261.00
36_L40_K1.6001.00
22_G39_F1.5771.00
9_L13_W1.4241.00
17_G21_A1.4211.00
21_A25_L1.3181.00
15_A19_L1.2831.00
7_L46_L1.2641.00
7_L47_W1.2291.00
14_L45_A1.2101.00
7_L15_A1.1821.00
13_W17_G1.1631.00
24_L28_T1.1381.00
25_L34_F1.0991.00
43_G51_K1.0421.00
22_G38_H1.0281.00
12_W16_L1.0241.00
25_L38_H0.9991.00
21_A38_H0.9971.00
26_C36_L0.9921.00
44_L49_F0.9851.00
22_G26_C0.9711.00
44_L47_W0.9651.00
18_H41_L0.9621.00
10_G14_L0.9461.00
14_L17_G0.9401.00
18_H45_A0.9201.00
20_L24_L0.8521.00
8_V12_W0.8511.00
19_L39_F0.8361.00
37_Q49_F0.8171.00
18_H21_A0.8031.00
34_F37_Q0.7971.00
47_W51_K0.7941.00
24_L36_L0.7901.00
20_L23_L0.7831.00
15_A42_A0.7671.00
32_I35_G0.7491.00
16_L46_L0.7421.00
15_A43_G0.7371.00
14_L18_H0.7201.00
23_L27_I0.7011.00
9_L12_W0.6631.00
29_I33_P0.6621.00
7_L10_G0.6561.00
43_G47_W0.6461.00
13_W20_L0.6361.00
30_I33_P0.6201.00
3_N50_G0.6181.00
2_G10_G0.6151.00
26_C39_F0.6101.00
5_I9_L0.6011.00
42_A46_L0.5991.00
38_H41_L0.5951.00
44_L51_K0.5901.00
29_I32_I0.5831.00
37_Q41_L0.5801.00
38_H42_A0.5671.00
33_P37_Q0.5531.00
13_W47_W0.5491.00
2_G9_L0.5481.00
34_F40_K0.5321.00
40_K43_G0.5301.00
7_L12_W0.5211.00
21_A24_L0.5181.00
28_T35_G0.5171.00
23_L26_C0.5141.00
11_G45_A0.5111.00
4_I7_L0.5001.00
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  
3j9tb 1 0 1.8 0.87 Contact Map
3x29A 1 0.549 1.5 0.876 Contact Map
1xsqA 2 0.3529 1.2 0.882 Contact Map
3tguG 1 0.3922 0.9 0.891 Contact Map
1pp9G 1 0.3922 0.9 0.892 Contact Map
2mgyA 1 1 0.9 0.893 Contact Map
2bdrA 2 0.3725 0.7 0.898 Contact Map
3bqoB 1 0.1961 0.7 0.899 Contact Map
1yqhA 3 0.3725 0.7 0.901 Contact Map
4geqB 1 0.2157 0.6 0.904 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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