GREMLIN Database
YSMA - Uncharacterized protein YsmA
UniProt: P11469 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 147 (126)
Sequences: 6252 (4500)
Seq/√Len: 400.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
72_S76_D3.3141.00
94_S104_H2.5481.00
81_V115_C2.3401.00
46_F118_G2.3261.00
79_R113_E2.2961.00
78_L117_T2.2521.00
126_S129_S2.1871.00
74_Q119_A2.1771.00
21_F88_R2.1511.00
21_F90_Y2.1131.00
81_V87_L2.1121.00
46_F116_F1.9771.00
41_T44_I1.9551.00
23_K86_E1.9431.00
43_F73_Q1.9331.00
90_Y106_L1.8591.00
95_A102_T1.8241.00
43_F75_C1.7991.00
90_Y108_E1.7781.00
23_K88_R1.7151.00
92_K104_H1.7091.00
108_E114_P1.7001.00
67_M127_K1.6471.00
137_D141_E1.6431.00
85_E109_N1.6281.00
106_L114_P1.6171.00
76_D117_T1.5741.00
37_M45_Y1.5521.00
46_F107_G1.5491.00
75_C116_F1.5191.00
99_S132_A1.5141.00
102_T119_A1.5051.00
105_Y120_V1.4841.00
80_Q130_G1.4781.00
25_S86_E1.4761.00
89_I107_G1.4621.00
104_H119_A1.4161.00
94_S119_A1.3921.00
136_T139_E1.3741.00
97_G100_S1.3731.00
106_L117_T1.3591.00
52_S56_K1.3541.00
140_K144_L1.3421.00
25_S55_K1.3061.00
49_V91_V1.3021.00
29_S44_I1.2851.00
100_S121_V1.2701.00
40_V44_I1.2191.00
25_S52_S1.2091.00
49_V89_I1.1941.00
98_S134_S1.1841.00
125_V130_G1.1751.00
23_K110_L1.1671.00
71_A76_D1.1451.00
26_V37_M1.1411.00
86_E110_L1.1391.00
47_E50_R1.1291.00
55_K84_Y1.1221.00
27_R30_E1.1161.00
30_E44_I1.1101.00
126_S133_V1.1021.00
108_E112_G1.1001.00
73_Q120_V1.0861.00
99_S123_V1.0831.00
72_S121_V1.0661.00
109_N113_E1.0601.00
102_T121_V1.0341.00
39_N73_Q1.0181.00
69_V125_V1.0151.00
92_K106_L1.0121.00
114_P117_T0.9991.00
24_V89_I0.9911.00
20_F91_V0.9881.00
78_L114_P0.9871.00
109_N115_C0.9811.00
88_R110_L0.9751.00
94_S102_T0.9461.00
141_E144_L0.9371.00
26_V45_Y0.9211.00
71_A121_V0.9191.00
22_N52_S0.8921.00
72_S119_A0.8871.00
104_H117_T0.8851.00
45_Y87_L0.8761.00
66_T124_Q0.8751.00
20_F56_K0.8571.00
46_F75_C0.8561.00
91_V105_Y0.8561.00
87_L115_C0.8531.00
65_Q128_E0.8471.00
34_F69_V0.8321.00
27_R48_E0.8271.00
30_E45_Y0.8251.00
39_N77_Y0.8191.00
138_E141_E0.8101.00
96_V140_K0.7911.00
50_R70_V0.7791.00
93_T103_L0.7761.00
99_S134_S0.7751.00
24_V45_Y0.7721.00
27_R44_I0.7671.00
24_V48_E0.7611.00
137_D140_K0.7601.00
28_F33_M0.7591.00
34_F38_N0.7551.00
19_S90_Y0.7491.00
28_F31_T0.7481.00
22_N48_E0.7461.00
50_R105_Y0.7361.00
38_N47_E0.7331.00
89_I105_Y0.7311.00
71_A123_V0.7311.00
109_N112_G0.7291.00
91_V103_L0.7281.00
44_I47_E0.7261.00
52_S55_K0.7261.00
39_N43_F0.7011.00
73_Q118_G0.6981.00
71_A78_L0.6971.00
22_N49_V0.6881.00
25_S84_Y0.6841.00
137_D144_L0.6830.99
107_G116_F0.6710.99
39_N50_R0.6650.99
138_E142_T0.6600.99
101_L135_W0.6580.99
41_T45_Y0.6570.99
135_W140_K0.6460.99
88_R112_G0.6380.99
53_Y91_V0.6360.99
62_E84_Y0.6300.99
37_M81_V0.6290.99
36_H80_Q0.6280.99
53_Y93_T0.6240.99
70_V120_V0.6220.99
88_R108_E0.6220.99
24_V27_R0.6210.99
64_K138_E0.6210.99
46_F105_Y0.6130.99
50_R122_M0.6120.99
110_L113_E0.6070.99
82_M130_G0.6050.99
55_K60_M0.6040.99
29_S38_N0.6020.99
36_H130_G0.5980.99
75_C118_G0.5980.99
31_T35_G0.5960.99
34_F39_N0.5930.99
28_F83_P0.5910.99
38_N41_T0.5910.99
71_A100_S0.5850.98
85_E110_L0.5810.98
76_D119_A0.5790.98
124_Q135_W0.5750.98
36_H69_V0.5710.98
29_S40_V0.5700.98
105_Y122_M0.5700.98
69_V127_K0.5670.98
42_P81_V0.5670.98
71_A99_S0.5670.98
73_Q77_Y0.5640.98
42_P116_F0.5620.98
28_F34_F0.5600.98
31_T83_P0.5590.98
81_V116_F0.5590.98
103_L122_M0.5590.98
48_E52_S0.5550.98
127_K130_G0.5430.97
50_R120_V0.5350.97
133_V139_E0.5350.97
96_V101_L0.5340.97
53_Y57_L0.5340.97
98_S140_K0.5330.97
28_F51_I0.5330.97
97_G140_K0.5320.97
68_T124_Q0.5290.97
29_S48_E0.5290.97
85_E115_C0.5250.97
34_F67_M0.5230.97
19_S92_K0.5210.97
31_T41_T0.5190.97
43_F77_Y0.5180.97
70_V122_M0.5170.97
49_V105_Y0.5080.96
124_Q133_V0.5070.96
134_S137_D0.5060.96
100_S140_K0.5030.96
30_E41_T0.5010.96
100_S123_V0.5000.96
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  
2essA 2 0.8912 100 0.291 Contact Map
2ownA 3 0.9252 100 0.303 Contact Map
3qy3A 4 0.8707 99.9 0.315 Contact Map
3ck1A 4 0.9048 99.9 0.317 Contact Map
2hx5A 4 0.9048 99.9 0.317 Contact Map
2xemA 4 0.9184 99.9 0.318 Contact Map
2hljA 2 0.8844 99.9 0.319 Contact Map
2o5uA 4 0.9592 99.9 0.32 Contact Map
4k00A 4 0.8844 99.9 0.324 Contact Map
2w3xA 4 0.9116 99.9 0.324 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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