GREMLIN Database
YNDB - Uncharacterized protein YndB
UniProt: O31806 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 144 (122)
Sequences: 3631 (2696)
Seq/√Len: 244.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
69_Q72_T3.1791.00
22_I91_D2.9251.00
27_E31_T2.8041.00
17_T92_L2.6321.00
67_A73_E2.3631.00
92_L97_G2.2931.00
23_Q71_P2.2261.00
88_Q101_I2.1301.00
46_L68_V2.0831.00
90_E99_T2.0381.00
26_W68_V2.0341.00
15_S99_T1.9761.00
15_S97_G1.9451.00
17_T97_G1.9081.00
29_V89_L1.8701.00
29_V87_F1.8601.00
90_E97_G1.8091.00
19_E95_K1.8061.00
26_W71_P1.7951.00
34_G141_A1.7441.00
73_E86_T1.7121.00
67_A75_S1.6671.00
27_E34_G1.6631.00
73_E88_Q1.6541.00
89_L96_T1.6531.00
30_S46_L1.6451.00
55_Q60_P1.6181.00
13_T99_T1.6101.00
13_T101_I1.5791.00
22_I72_T1.5571.00
17_T95_K1.5201.00
51_E64_K1.5191.00
31_T34_G1.4451.00
25_V96_T1.4151.00
48_E68_V1.3511.00
24_K34_G1.3371.00
20_A25_V1.3161.00
43_D53_H1.3151.00
33_E36_A1.2791.00
25_V89_L1.2701.00
91_D94_E1.2661.00
18_L98_F1.2461.00
65_V68_V1.2391.00
45_Q50_Q1.2101.00
66_L77_E1.2061.00
18_L139_R1.1781.00
21_P24_K1.1611.00
86_T103_S1.1531.00
75_S86_T1.1411.00
92_L95_K1.1391.00
55_Q58_F1.1361.00
37_K141_A1.1251.00
35_I44_F1.1171.00
52_F63_C1.1131.00
20_A96_T1.1011.00
47_K50_Q1.1001.00
34_G37_K1.0811.00
16_I135_N1.0761.00
11_D101_I1.0551.00
23_Q91_D1.0531.00
28_T34_G1.0501.00
27_E70_A1.0291.00
28_T142_V1.0271.00
88_Q99_T1.0221.00
76_F85_V0.9881.00
66_L75_S0.9821.00
40_M56_S0.9811.00
32_S36_A0.9801.00
39_F56_S0.9721.00
53_H62_P0.9641.00
22_I26_W0.9391.00
135_N139_R0.9361.00
23_Q27_E0.9321.00
78_W85_V0.9301.00
23_Q70_A0.9231.00
102_H126_M0.9021.00
9_L107_E0.8981.00
87_F98_F0.8941.00
69_Q73_E0.8891.00
51_E62_P0.8841.00
11_D103_S0.8770.99
53_H81_E0.8710.99
45_Q48_E0.8700.99
98_F134_V0.8540.99
85_V102_H0.8530.99
104_G121_V0.8530.99
28_T138_L0.8480.99
100_L130_W0.8370.99
64_K77_E0.8310.99
16_I139_R0.8310.99
42_N45_Q0.8210.99
137_R140_K0.8050.99
22_I71_P0.7990.99
22_I89_L0.7990.99
102_H130_W0.7900.99
46_L65_V0.7830.99
102_H105_W0.7800.99
72_T88_Q0.7760.99
53_H60_P0.7750.99
76_F87_F0.7740.99
14_K131_T0.7700.99
18_L25_V0.7590.99
48_E67_A0.7490.98
85_V100_L0.7490.98
43_D51_E0.7450.98
30_S74_L0.7420.98
85_V130_W0.7370.98
63_C77_E0.7370.98
56_S61_S0.7370.98
29_V76_F0.7340.98
122_V127_D0.7340.98
78_W102_H0.7330.98
18_L142_V0.7270.98
29_V98_F0.7230.98
21_P25_V0.7130.98
128_G132_G0.7050.98
12_I102_H0.6960.97
14_K130_W0.6820.97
121_V124_G0.6770.97
60_P81_E0.6750.97
131_T135_N0.6650.97
49_G64_K0.6610.96
26_W65_V0.6600.96
52_F102_H0.6580.96
80_T126_M0.6540.96
132_G137_R0.6540.96
105_W126_M0.6510.96
26_W74_L0.6390.96
29_V65_V0.6370.96
40_M137_R0.6330.95
100_L134_V0.6330.95
17_T94_E0.6320.95
22_I96_T0.6280.95
39_F54_L0.6250.95
122_V126_M0.6240.95
127_D131_T0.6220.95
41_P56_S0.6220.95
64_K79_D0.6180.95
61_S80_T0.6170.95
130_W134_V0.6170.95
82_G128_G0.6150.95
24_K28_T0.6130.95
78_W124_G0.6090.94
29_V74_L0.6080.94
52_F65_V0.6080.94
24_K27_E0.6020.94
26_W30_S0.6010.94
62_P81_E0.5970.94
40_M133_I0.5890.93
28_T141_A0.5770.93
22_I95_K0.5770.93
10_P123_R0.5740.93
39_F133_I0.5720.92
61_S78_W0.5620.92
39_F78_W0.5610.92
80_T84_V0.5600.92
50_Q65_V0.5560.91
35_I39_F0.5550.91
126_M130_W0.5520.91
68_V76_F0.5490.91
45_Q65_V0.5470.91
18_L134_V0.5460.91
56_S60_P0.5430.90
72_T90_E0.5430.90
35_I38_W0.5410.90
123_R128_G0.5400.90
50_Q63_C0.5400.90
21_P96_T0.5380.90
89_L98_F0.5380.90
35_I54_L0.5370.90
86_T101_I0.5330.90
120_S123_R0.5310.89
68_V74_L0.5280.89
26_W129_G0.5260.89
78_W100_L0.5260.89
56_S132_G0.5110.87
78_W126_M0.5090.87
107_E123_R0.5090.87
43_D50_Q0.5070.87
56_S78_W0.5020.87
30_S34_G0.5020.87
30_S68_V0.5020.87
124_G128_G0.5000.86
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  
2lioA 1 0.8403 99.9 0.32 Contact Map
2kewA 1 0.9931 99.9 0.322 Contact Map
1xfsA 2 0.9167 99.9 0.329 Contact Map
2k5gA 1 0.9097 99.9 0.334 Contact Map
2l9pA 1 0.9236 99.9 0.337 Contact Map
3uidA 1 0.9306 99.9 0.342 Contact Map
1xn5A 1 0.9514 99.9 0.344 Contact Map
2ldkA 1 0.9375 99.9 0.351 Contact Map
2lf2A 1 0.9375 99.9 0.354 Contact Map
2l8oA 1 0.8403 99.9 0.356 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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