GREMLIN Database
YcxB - YcxB-like protein
PFAM: PF14317 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 62 (61)
Sequences: 15404 (13073)
Seq/√Len: 1673.8
META: 0.936

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_G16_E2.6141.00
7_T16_E2.5951.00
7_T14_E2.3131.00
46_K54_L2.2671.00
9_E14_E2.2111.00
27_E46_K2.1151.00
27_E58_R1.9041.00
32_F54_L1.7781.00
36_L42_F1.7541.00
31_F43_I1.7291.00
54_L58_R1.6211.00
10_T13_G1.5661.00
32_F58_R1.4831.00
28_T31_F1.4411.00
26_V35_Y1.4291.00
2_S5_G1.4161.00
36_L40_S1.3491.00
50_S53_E1.3291.00
33_L41_A1.3141.00
12_G21_A1.3011.00
32_F46_K1.2921.00
24_K35_Y1.2601.00
53_E56_E1.2441.00
49_F57_F1.1831.00
35_Y41_A1.1641.00
51_E55_E1.1301.00
56_E59_E1.1191.00
22_I34_L1.1191.00
45_P48_A1.1141.00
52_E55_E1.0891.00
51_E54_L1.0461.00
22_I42_F1.0421.00
1_F19_W1.0331.00
27_E32_F1.0321.00
37_S40_S1.0241.00
57_F61_L1.0151.00
25_V61_L0.9791.00
23_S38_K0.9761.00
17_L42_F0.9731.00
18_P21_A0.9701.00
5_G18_P0.9631.00
17_L21_A0.9101.00
55_E59_E0.9091.00
23_S37_S0.8851.00
17_L22_I0.8571.00
19_W61_L0.8411.00
55_E58_R0.8361.00
56_E60_L0.8221.00
4_E16_E0.8171.00
6_I22_I0.8151.00
35_Y39_R0.8121.00
34_L44_I0.8111.00
57_F60_L0.8061.00
2_S7_T0.8021.00
28_T33_L0.8011.00
30_D46_K0.7821.00
52_E56_E0.7561.00
1_F57_F0.7381.00
31_F46_K0.7351.00
8_V15_S0.7301.00
34_L61_L0.6831.00
6_I42_F0.6691.00
12_G18_P0.6571.00
49_F54_L0.6441.00
27_E54_L0.6341.00
5_G19_W0.6321.00
17_L36_L0.6301.00
8_V13_G0.6061.00
49_F53_E0.5981.00
20_S23_S0.5951.00
12_G20_S0.5921.00
25_V34_L0.5921.00
2_S19_W0.5901.00
36_L41_A0.5641.00
8_V17_L0.5611.00
6_I34_L0.5571.00
34_L43_I0.5561.00
23_S26_V0.5541.00
23_S36_L0.5481.00
25_V32_F0.5421.00
15_S36_L0.5401.00
19_W22_I0.5311.00
35_Y38_K0.5281.00
46_K51_E0.5271.00
36_L39_R0.5241.00
15_S21_A0.5231.00
4_E18_P0.5191.00
1_F60_L0.5181.00
10_T15_S0.5161.00
1_F6_I0.5081.00
26_V33_L0.5011.00
23_S35_Y0.5001.00
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  
2i1jA 3 0.9516 46.6 0.728 Contact Map
1h4rA 2 0.9516 45.2 0.73 Contact Map
4yl8A 1 0.9516 40.6 0.738 Contact Map
1mixA 1 0.9516 38.3 0.742 Contact Map
2cs7A 1 0.8065 33.8 0.749 Contact Map
3ivfA 1 0.9516 28.9 0.758 Contact Map
4c9yA 1 0.9677 24 0.767 Contact Map
3qijA 1 0.9355 21.7 0.772 Contact Map
3au4A 1 0.9032 21.4 0.773 Contact Map
4f7gA 1 0.9355 21.2 0.773 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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