GREMLIN Database
NRDI - Protein NrdI
UniProt: P50618 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 130 (118)
Sequences: 914 (586)
Seq/√Len: 54.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
19_K108_V4.2311.00
14_Q18_N3.5491.00
70_A84_A3.5091.00
84_A95_I2.6141.00
17_V41_V2.5661.00
37_P64_L2.5011.00
65_L91_Y2.4571.00
85_D98_K2.4121.00
70_A95_I2.2541.00
4_I34_V2.0711.00
50_V55_Q1.9821.00
65_L93_V1.9801.00
22_F112_T1.9491.00
74_K80_F1.9431.00
69_A111_F1.8460.99
16_F111_F1.8360.99
52_A55_Q1.8140.99
109_E113_Q1.7920.99
50_V86_T1.6830.99
40_L58_L1.6710.99
11_G102_S1.6690.99
51_P54_T1.6420.99
39_V115_V1.5860.98
7_D54_T1.5800.98
60_K63_H1.5500.98
40_L54_T1.5500.98
42_T87_I1.5240.98
70_A81_A1.5000.97
71_S99_F1.4470.97
85_D95_I1.4370.96
79_N82_K1.4290.96
80_F98_K1.4280.96
73_N100_E1.4260.96
49_Q79_N1.4090.96
46_N79_N1.4080.96
82_K86_T1.3540.95
3_Q41_V1.2770.93
73_N101_L1.2130.91
33_H60_K1.2060.91
34_V57_F1.2060.91
97_H111_F1.1830.90
113_Q117_R1.1730.90
11_G14_Q1.1690.90
105_S109_E1.1650.90
96_L114_E1.1640.90
58_L87_I1.1470.89
55_Q90_Q1.1400.89
34_V61_Y1.1300.88
55_Q86_T1.1300.88
110_L113_Q1.1080.87
41_V69_A1.1040.87
70_A85_D1.0960.87
7_D43_Y1.0900.86
116_E119_V1.0860.86
69_A97_H1.0670.85
5_I34_V1.0660.85
43_Y76_W1.0610.85
60_K92_Q1.0300.83
11_G18_N1.0100.82
27_K31_M1.0090.82
15_R102_S0.9960.81
12_N101_L0.9840.80
27_K30_E0.9800.80
13_V43_Y0.9680.79
49_Q86_T0.9510.78
47_F76_W0.9420.77
68_V87_I0.9140.75
9_K45_T0.9090.74
54_T70_A0.9040.74
69_A99_F0.9040.74
75_V101_L0.8960.73
114_E118_V0.8900.73
81_A98_K0.8880.73
55_Q59_E0.8840.72
37_P66_L0.8800.72
44_T68_V0.8630.70
13_V71_S0.8530.70
51_P77_G0.8520.69
97_H110_L0.8510.69
45_T76_W0.8440.69
75_V100_E0.8400.68
39_V67_G0.8380.68
16_F45_T0.8280.67
13_V45_T0.8130.66
89_R92_Q0.8110.66
65_L98_K0.8050.65
16_F99_F0.7960.64
63_H105_S0.7910.64
58_L62_A0.7870.63
40_L87_I0.7860.63
113_Q116_E0.7830.63
39_V96_L0.7760.62
7_D45_T0.7760.62
71_S96_L0.7720.62
78_D81_A0.7510.60
116_E120_T0.7440.59
22_F96_L0.7430.59
7_D53_S0.7430.59
10_T36_T0.7400.59
33_H116_E0.7250.57
27_K56_S0.7150.56
20_T110_L0.7120.56
73_N76_W0.7070.55
28_V32_D0.7050.55
21_G24_Q0.6900.53
5_I90_Q0.6870.53
14_Q26_R0.6830.53
33_H36_T0.6810.52
12_N44_T0.6800.52
48_G101_L0.6730.51
16_F107_D0.6690.51
59_E90_Q0.6640.50
59_E84_A0.6620.50
81_A96_L0.6600.50
42_T120_T0.6560.50
42_T49_Q0.6540.49
70_A102_S0.6510.49
25_I28_V0.6500.49
64_L112_T0.6460.49
39_V118_V0.6410.48
38_F65_L0.6380.48
4_I36_T0.6380.48
3_Q24_Q0.6360.48
31_M117_R0.6320.47
58_L93_V0.6300.47
19_K44_T0.6290.47
18_N21_G0.6120.45
23_Q29_D0.6080.45
47_F66_L0.6060.44
99_F118_V0.6060.44
63_H117_R0.6030.44
31_M56_S0.6030.44
63_H66_L0.5990.44
46_N102_S0.5990.44
70_A88_S0.5980.43
6_F19_K0.5970.43
37_P114_E0.5960.43
39_V66_L0.5900.43
12_N48_G0.5890.43
47_F84_A0.5880.42
4_I41_V0.5860.42
24_Q78_D0.5840.42
73_N99_F0.5830.42
45_T97_H0.5830.42
74_K102_S0.5740.41
22_F36_T0.5730.41
80_F85_D0.5690.40
46_N51_P0.5680.40
77_G83_S0.5660.40
52_A86_T0.5640.40
9_K42_T0.5630.40
71_S81_A0.5600.40
53_S90_Q0.5550.39
38_F93_V0.5460.38
62_A83_S0.5450.38
51_P83_S0.5380.37
11_G52_A0.5360.37
59_E91_Y0.5360.37
50_V59_E0.5360.37
67_G107_D0.5360.37
66_L118_V0.5280.36
38_F104_T0.5220.36
117_R120_T0.5200.36
49_Q71_S0.5200.36
62_A91_Y0.5150.35
40_L77_G0.5140.35
8_S71_S0.5130.35
38_F62_A0.5120.35
12_N46_N0.5110.35
37_P91_Y0.5070.34
22_F116_E0.5050.34
54_T77_G0.5050.34
85_D89_R0.5030.34
66_L109_E0.5030.34
91_Y98_K0.5020.34
28_V36_T0.5010.34
84_A98_K0.5000.34
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  
1rljA 1 0.9692 99.9 0.541 Contact Map
3n3aC 1 0.9308 99.9 0.558 Contact Map
2xodA 1 0.9077 99.8 0.623 Contact Map
4n82B 1 0.9462 99.7 0.66 Contact Map
1bvyF 1 0.9769 99.4 0.722 Contact Map
3hr4A 2 0.9923 99.4 0.728 Contact Map
2bpoA 1 0.9923 99.4 0.73 Contact Map
2bmvA 1 0.9385 99.4 0.731 Contact Map
3qe2A 1 0.9769 99.3 0.741 Contact Map
1yobA 1 0.9692 99.3 0.743 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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