GREMLIN Database
UMUD - Protein UmuD
UniProt: P0AG11 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11057
Length: 139 (123)
Sequences: 4013 (2589)
Seq/√Len: 233.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
98_K110_M4.2951.00
63_D112_S3.6761.00
104_T118_T2.6651.00
64_G110_M2.6201.00
72_L96_V2.4721.00
22_V87_I2.3951.00
50_A76_S2.3711.00
24_C56_A2.2721.00
100_Q108_I2.2481.00
95_T109_P2.2161.00
67_S136_K2.1431.00
108_I116_P2.1181.00
84_D130_V2.0651.00
59_D114_Y1.9931.00
80_A86_V1.9561.00
64_G98_K1.9041.00
21_L57_S1.8851.00
70_D136_K1.8361.00
82_H100_Q1.8131.00
119_I125_L1.8101.00
100_Q106_Q1.7541.00
56_A72_L1.7271.00
91_D123_D1.7001.00
55_K71_L1.6751.00
96_V131_V1.6751.00
15_F53_F1.6671.00
53_F71_L1.6021.00
102_R106_Q1.5151.00
101_L105_V1.5021.00
38_I53_F1.4971.00
109_P116_P1.4831.00
91_D124_T1.4751.00
74_V131_V1.4701.00
63_D110_M1.4701.00
74_V87_I1.4551.00
89_A128_F1.4501.00
57_S68_D1.4351.00
59_D113_A1.4251.00
17_L36_Q1.4211.00
64_G85_I1.3941.00
72_L131_V1.3851.00
49_S75_D1.3181.00
86_V99_L1.3131.00
14_T39_D1.3051.00
85_I98_K1.2931.00
106_Q118_T1.2291.00
34_V37_R1.1661.00
56_A96_V1.1631.00
81_S84_D1.1411.00
60_S97_K1.1361.00
106_Q116_P1.0981.00
67_S70_D1.0751.00
21_L55_K1.0731.00
59_D68_D1.0721.00
82_H101_L1.0661.00
12_I42_Q1.0341.00
53_F73_I1.0261.00
105_V125_L1.0011.00
66_I85_I0.9971.00
26_F29_P0.9871.00
74_V96_V0.9821.00
22_V54_V0.9781.00
89_A126_D0.9591.00
80_A99_L0.9571.00
35_E55_K0.9551.00
109_P115_S0.9551.00
90_V119_I0.9351.00
52_Y76_S0.9311.00
102_R108_I0.9261.00
51_T73_I0.9191.00
133_H137_A0.9121.00
51_T132_I0.9111.00
87_I96_V0.9071.00
48_P75_D0.9021.00
72_L134_V0.8870.99
23_Q28_S0.8790.99
54_V87_I0.8660.99
14_T37_R0.8570.99
27_P95_T0.8480.99
17_L38_I0.8400.99
45_I51_T0.8340.99
88_A99_L0.8310.99
59_D62_I0.8270.99
82_H99_L0.8060.99
40_L53_F0.8010.99
99_L105_V0.7960.99
15_F51_T0.7910.99
104_T120_S0.7880.99
11_E42_Q0.7800.99
23_Q68_D0.7770.99
77_A130_V0.7660.98
58_G97_K0.7540.98
13_V45_I0.7440.98
18_F34_V0.7370.98
78_I126_D0.7300.98
73_I135_V0.7260.98
62_I67_S0.7220.98
131_V134_V0.7210.98
56_A66_I0.7200.98
18_F32_D0.7140.97
58_G68_D0.7110.97
46_Q49_S0.7070.97
87_I131_V0.7020.97
85_I110_M0.6970.97
13_V42_Q0.6950.97
61_M96_V0.6880.97
50_A75_D0.6860.97
120_S123_D0.6810.97
77_A80_A0.6790.97
62_I112_S0.6780.97
62_I111_N0.6750.96
22_V96_V0.6700.96
66_I96_V0.6610.96
79_T101_L0.6540.96
78_I84_D0.6540.96
23_Q27_P0.6520.96
109_P117_I0.6460.95
40_L45_I0.6430.95
40_L44_L0.6390.95
30_A89_A0.6380.95
44_L133_H0.6380.95
80_A88_A0.6370.95
89_A94_F0.6370.95
65_G70_D0.6370.95
133_H136_K0.6350.95
65_G136_K0.6350.95
42_Q48_P0.6320.95
85_I114_Y0.6290.95
73_I133_H0.6220.94
41_N44_L0.6200.94
62_I114_Y0.6180.94
76_S128_F0.6130.94
62_I113_A0.6130.94
17_L71_L0.6120.94
75_D130_V0.6110.94
23_Q95_T0.5990.93
51_T75_D0.5980.93
102_R118_T0.5910.93
66_I134_V0.5900.93
30_A93_E0.5880.93
108_I118_T0.5870.93
25_G58_G0.5860.92
109_P114_Y0.5860.92
54_V74_V0.5840.92
75_D78_I0.5830.92
17_L53_F0.5810.92
16_P37_R0.5810.92
71_L135_V0.5790.92
20_D31_A0.5790.92
52_Y87_I0.5730.92
100_Q105_V0.5720.92
60_S95_T0.5680.91
12_I39_D0.5670.91
88_A125_L0.5660.91
11_E39_D0.5650.91
25_G30_A0.5600.91
111_N114_Y0.5600.91
82_H105_V0.5560.90
51_T76_S0.5530.90
29_P33_Y0.5500.90
28_S33_Y0.5480.90
73_I132_I0.5470.90
86_V130_V0.5440.89
43_L71_L0.5430.89
92_G126_D0.5420.89
85_I131_V0.5420.89
54_V94_F0.5410.89
54_V97_K0.5410.89
43_L137_A0.5400.89
26_F32_D0.5360.89
26_F57_S0.5360.89
30_A94_F0.5340.89
20_D32_D0.5330.88
52_Y128_F0.5270.88
23_Q57_S0.5200.87
38_I43_L0.5160.87
118_T125_L0.5160.87
38_I44_L0.5140.87
94_F128_F0.5140.87
120_S124_T0.5090.86
98_K108_I0.5070.86
21_L93_E0.5060.86
77_A81_S0.5030.85
29_P32_D0.5000.85
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  
1umuA 2 0.7626 100 0.357 Contact Map
1jhfA 2 0.9784 99.9 0.398 Contact Map
3k2zA 2 0.9784 99.9 0.406 Contact Map
2hnfA 1 0.8705 99.9 0.418 Contact Map
3bdnA 2 0.9424 99.9 0.441 Contact Map
1kcaA 6 0.6547 99.8 0.531 Contact Map
2fjrA 4 0.8417 99.7 0.575 Contact Map
4me8A 1 0.4101 98.7 0.75 Contact Map
4k8wA 2 0.518 98.5 0.765 Contact Map
4n31A 5 0.6835 98.3 0.777 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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