GREMLIN Database
O-antigen_lig - O-antigen ligase like membrane protein
PFAM: PF13425 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 140 (137)
Sequences: 125817 (110949)
Seq/√Len: 9479.0
META: 0.872

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
94_H99_V4.3441.00
91_I125_L4.3331.00
99_V103_N3.2551.00
128_T132_G3.1971.00
123_Q127_E2.8541.00
61_R64_R2.7301.00
101_L128_T2.6491.00
125_L133_L2.5591.00
84_W122_L2.2501.00
88_L92_K2.1831.00
90_M99_V2.1441.00
91_I130_I2.0941.00
117_A123_Q2.0141.00
116_H123_Q1.8671.00
87_A117_A1.8661.00
87_A122_L1.7871.00
99_V126_A1.6471.00
86_A89_E1.5871.00
92_K95_P1.5601.00
131_V135_L1.5571.00
90_M93_D1.5471.00
131_V134_L1.5201.00
119_N122_L1.4641.00
51_L54_A1.4331.00
90_M126_A1.4271.00
89_E92_K1.4051.00
13_L17_L1.3851.00
85_R89_E1.3761.00
120_D123_Q1.3501.00
39_K42_R1.3481.00
82_E85_R1.3181.00
81_L85_R1.3171.00
94_H97_F1.3131.00
54_A58_L1.2981.00
133_L137_L1.2941.00
20_S23_A1.2761.00
104_F127_E1.2761.00
38_R41_R1.2731.00
26_A30_G1.2261.00
56_L59_A1.2231.00
7_A11_L1.2071.00
134_L138_A1.2051.00
88_L91_I1.1961.00
84_W119_N1.1881.00
124_I136_F1.1741.00
15_L23_A1.1721.00
124_I128_T1.1701.00
86_A90_M1.1531.00
55_L59_A1.1321.00
90_M107_A1.1301.00
64_R67_S1.1241.00
19_G24_L1.1141.00
15_L27_L1.1091.00
87_A126_A1.0661.00
30_G34_L1.0611.00
38_R42_R1.0591.00
22_G26_A1.0551.00
124_I133_L1.0551.00
116_H120_D1.0541.00
104_F117_A1.0471.00
87_A104_F1.0341.00
5_L9_L1.0301.00
120_D124_I1.0271.00
87_A91_I1.0201.00
83_L114_A1.0191.00
103_N127_E1.0181.00
10_L14_A1.0151.00
91_I95_P1.0121.00
11_L14_A1.0001.00
89_E93_D0.9911.00
53_I56_L0.9881.00
78_S81_L0.9881.00
43_L46_L0.9861.00
60_S63_E0.9851.00
74_D77_L0.9791.00
92_K130_I0.9791.00
77_L81_L0.9791.00
93_D99_V0.9781.00
125_L130_I0.9641.00
83_L118_H0.9631.00
74_D78_S0.9531.00
104_F126_A0.9391.00
60_S64_R0.9381.00
79_G83_L0.9331.00
117_A126_A0.9311.00
48_A51_L0.9201.00
121_Y133_L0.9091.00
37_L40_R0.9081.00
4_L8_L0.9051.00
68_T71_D0.9031.00
83_L117_A0.9021.00
91_I131_V0.8901.00
8_L12_L0.8821.00
75_G78_S0.8811.00
37_L41_R0.8781.00
61_R65_I0.8701.00
91_I126_A0.8631.00
28_L32_L0.8601.00
62_F65_I0.8601.00
112_G115_L0.8551.00
61_R66_S0.8521.00
9_L13_L0.8491.00
6_L10_L0.8451.00
52_L55_L0.8441.00
90_M104_F0.8421.00
43_L47_L0.8361.00
76_S79_G0.8271.00
103_N107_A0.8221.00
32_L36_L0.8181.00
103_N106_V0.8171.00
82_E86_A0.8141.00
8_L11_L0.8121.00
48_A59_A0.8111.00
76_S81_L0.8111.00
31_L35_L0.8071.00
100_G127_E0.7961.00
80_R118_H0.7901.00
81_L84_W0.7851.00
90_M94_H0.7831.00
48_A55_L0.7801.00
27_L31_L0.7771.00
75_G79_G0.7701.00
70_S74_D0.7641.00
71_D74_D0.7621.00
54_A57_V0.7511.00
44_L47_L0.7501.00
55_L58_L0.7411.00
118_H123_Q0.7391.00
128_T131_V0.7301.00
47_L51_L0.7191.00
3_L7_A0.7141.00
49_A52_L0.7131.00
88_L122_L0.7131.00
50_L53_I0.7131.00
117_A122_L0.7121.00
12_L27_L0.7091.00
87_A90_M0.7091.00
87_A125_L0.7091.00
117_A120_D0.7071.00
125_L131_V0.7071.00
70_S73_E0.7041.00
47_L54_A0.7031.00
95_P130_I0.7031.00
63_E66_S0.7021.00
130_I134_L0.6841.00
99_V107_A0.6761.00
78_S82_E0.6691.00
48_A52_L0.6651.00
14_A17_L0.6631.00
11_L15_L0.6631.00
121_Y137_L0.6581.00
102_G127_E0.6561.00
14_A18_T0.6541.00
44_L48_A0.6541.00
96_L130_I0.6531.00
49_A53_I0.6521.00
15_L18_T0.6521.00
53_I57_V0.6491.00
120_D136_F0.6331.00
83_L86_A0.6291.00
128_T135_L0.6241.00
51_L55_L0.6171.00
91_I133_L0.6161.00
45_L48_A0.6141.00
43_L58_L0.6111.00
62_F66_S0.6101.00
83_L104_F0.6091.00
46_L49_A0.6031.00
45_L49_A0.6021.00
32_L35_L0.5891.00
125_L132_G0.5881.00
40_R43_L0.5841.00
12_L16_L0.5831.00
52_L56_L0.5801.00
83_L116_H0.5801.00
44_L55_L0.5791.00
68_T72_G0.5781.00
79_G118_H0.5751.00
80_R113_T0.5711.00
97_F131_V0.5671.00
16_L19_G0.5611.00
28_L31_L0.5611.00
121_Y125_L0.5581.00
43_L54_A0.5551.00
124_I132_G0.5541.00
134_L137_L0.5511.00
37_L42_R0.5501.00
3_L6_L0.5501.00
69_G72_G0.5471.00
7_A10_L0.5461.00
135_L139_L0.5451.00
33_V37_L0.5441.00
69_G73_E0.5371.00
88_L125_L0.5351.00
135_L138_A0.5341.00
54_A59_A0.5321.00
85_R88_L0.5251.00
73_E77_L0.5221.00
62_F67_S0.5161.00
79_G82_E0.5161.00
48_A54_A0.5151.00
117_A127_E0.5131.00
63_E67_S0.5111.00
13_L16_L0.5101.00
5_L8_L0.5091.00
4_L7_A0.5001.00
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  
3wxwA 1 0.4643 5 0.892 Contact Map
2m0qA 1 0.4929 3.1 0.903 Contact Map
2k21A 1 0.4286 2.5 0.907 Contact Map
3ixzB 1 0.2 1.4 0.92 Contact Map
4ezcA 3 0.6214 1.2 0.922 Contact Map
4b19A 1 0.2143 1.1 0.924 Contact Map
4b03D 5 0.4143 1.1 0.924 Contact Map
3k3fA 3 0.6071 1.1 0.925 Contact Map
4aq5C 1 0.2143 1.1 0.926 Contact Map
1afoA 2 0.2357 1 0.926 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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