GREMLIN Database
NRDR - Transcriptional repressor NrdR
UniProt: Q45549 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 152 (148)
Sequences: 2018 (1073)
Seq/√Len: 88.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
90_D115_R5.6041.00
5_S36_Y3.9391.00
80_S83_T3.5621.00
72_K75_E3.3891.00
77_R120_D3.3341.00
70_L87_M3.2091.00
70_L84_L2.9321.00
94_E115_R2.8701.00
143_E146_D2.4951.00
12_R32_E2.4311.00
67_L84_L2.4071.00
67_L88_C2.3431.00
66_M112_V2.2601.00
8_H33_S2.2331.00
51_V108_V2.2201.00
54_K106_E2.1111.00
87_M119_I2.0671.00
141_I145_K2.0571.00
64_E68_R2.0091.00
98_Q107_L1.9441.00
58_R102_E1.9011.00
63_R92_E1.8911.00
83_T86_D1.8631.00
87_M115_R1.7411.00
30_E35_H1.7271.00
10_G32_E1.5841.00
138_N148_I1.5621.00
83_T119_I1.5541.00
87_M91_I1.5161.00
95_L111_M1.5081.00
104_K107_L1.4881.00
54_K133_Q1.4430.99
132_R143_E1.4050.99
100_C107_L1.4040.99
69_G75_E1.3850.99
142_D145_K1.3800.99
63_R89_F1.3510.99
19_V24_S1.3410.99
52_V102_E1.3400.99
138_N142_D1.3250.99
110_E132_R1.2980.99
94_E114_D1.2700.98
125_V135_K1.2500.98
12_R69_G1.2330.98
24_S43_K1.1980.98
94_E111_M1.1920.98
121_E133_Q1.1850.98
91_I111_M1.1660.97
52_V58_R1.1270.97
12_R30_E1.1210.97
18_P25_I1.0980.96
71_I81_L1.0880.96
66_M108_V1.0780.96
68_R72_K1.0700.96
16_S24_S1.0630.95
95_L103_V1.0620.95
76_K125_V1.0550.95
70_L112_V1.0490.95
55_E69_G1.0470.95
10_G33_S1.0460.95
11_T32_E1.0410.95
63_R67_L1.0110.94
102_E132_R1.0070.94
135_K144_L1.0050.94
15_D120_D0.9930.93
111_M115_R0.9900.93
69_G72_K0.9720.93
141_I148_I0.9640.92
77_R129_S0.9630.92
15_D77_R0.9570.92
129_S140_F0.9530.92
106_E110_E0.9460.92
74_C88_C0.9460.92
43_K92_E0.9440.91
18_P49_L0.9270.91
138_N141_I0.9260.91
73_A95_L0.9110.90
56_G79_V0.9080.90
66_M95_L0.9070.90
135_K139_V0.9050.90
74_C84_L0.8970.89
63_R88_C0.8970.89
11_T25_I0.8960.89
113_M136_D0.8930.89
67_L85_E0.8790.88
61_F96_R0.8770.88
58_R113_M0.8760.88
125_V132_R0.8650.87
2_K7_Q0.8590.87
57_V79_V0.8550.87
11_T20_D0.8500.87
11_T30_E0.8480.86
2_K9_N0.8480.86
61_F92_E0.8450.86
122_V140_F0.8430.86
140_F144_L0.8400.86
125_V138_N0.8390.86
98_Q103_V0.8370.86
115_R118_K0.8350.86
121_E144_L0.8270.85
113_M135_K0.8180.84
107_L111_M0.8180.84
30_E105_S0.8140.84
110_E113_M0.8110.84
12_R143_E0.8060.83
2_K46_E0.8050.83
135_K148_I0.8010.83
79_V119_I0.7990.83
138_N145_K0.7940.83
70_L91_I0.7930.82
59_E69_G0.7760.81
20_D139_V0.7730.81
50_I81_L0.7660.80
49_L105_S0.7560.79
32_E144_L0.7550.79
49_L95_L0.7550.79
21_D98_Q0.7520.79
43_K72_K0.7510.79
45_E101_S0.7490.79
51_V95_L0.7480.79
102_E108_V0.7460.78
11_T18_P0.7400.78
61_F139_V0.7310.77
91_I112_V0.7300.77
9_N86_D0.7300.77
54_K63_R0.7290.77
41_F45_E0.7180.76
3_C6_C0.7160.76
58_R76_K0.7140.75
66_M70_L0.7130.75
86_D90_D0.7060.75
64_E93_K0.6940.73
128_A131_Y0.6870.73
18_P139_V0.6870.73
89_F93_K0.6750.71
121_E125_V0.6730.71
78_P120_D0.6700.71
51_V61_F0.6700.71
59_E146_D0.6670.70
50_I57_V0.6640.70
139_V143_E0.6620.70
93_K100_C0.6580.69
11_T22_G0.6560.69
47_T93_K0.6550.69
136_D139_V0.6520.69
31_C34_C0.6520.69
49_L96_R0.6500.68
67_L71_I0.6450.68
125_V144_L0.6360.67
113_M128_A0.6340.66
114_D118_K0.6300.66
35_H55_E0.6270.66
61_F111_M0.6250.65
74_C92_E0.6250.65
15_D131_Y0.6250.65
33_S106_E0.6230.65
20_D43_K0.6210.65
63_R85_E0.6210.65
69_G143_E0.6180.64
60_E146_D0.6180.64
64_E67_L0.6170.64
79_V101_S0.6170.64
2_K18_P0.6130.64
113_M125_V0.6090.63
1_M6_C0.6040.63
91_I115_R0.6040.63
14_L133_Q0.6020.62
132_R135_K0.5970.62
33_S123_A0.5970.62
67_L70_L0.5970.62
19_V41_F0.5910.61
48_P71_I0.5900.61
30_E104_K0.5890.61
59_E75_E0.5890.61
54_K148_I0.5890.61
73_A141_I0.5880.61
45_E96_R0.5870.61
61_F106_E0.5840.60
114_D148_I0.5750.59
43_K47_T0.5750.59
15_D70_L0.5740.59
5_S62_S0.5730.59
39_T89_F0.5730.59
109_G130_V0.5650.58
131_Y140_F0.5630.57
5_S11_T0.5600.57
1_M13_V0.5570.57
122_V125_V0.5560.56
20_D24_S0.5550.56
76_K88_C0.5530.56
110_E136_D0.5520.56
63_R74_C0.5520.56
51_V107_L0.5510.56
5_S9_N0.5500.56
43_K93_K0.5480.55
127_F140_F0.5460.55
85_E89_F0.5460.55
56_G59_E0.5420.55
79_V83_T0.5400.54
39_T114_D0.5400.54
30_E75_E0.5400.54
92_E96_R0.5390.54
74_C122_V0.5380.54
75_E130_V0.5320.53
20_D23_K0.5290.53
33_S104_K0.5240.52
81_L85_E0.5230.52
76_K85_E0.5210.52
44_V85_E0.5180.51
125_V147_L0.5140.51
90_D94_E0.5140.51
69_G109_G0.5140.51
11_T44_V0.5090.50
5_S10_G0.5080.50
61_F141_I0.5070.50
32_E41_F0.5060.50
137_I146_D0.5050.50
8_H44_V0.5050.50
117_A121_E0.5050.50
54_K130_V0.5030.49
66_M75_E0.5010.49
144_L147_L0.5000.49
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  
3ga8A 1 0.4013 98 0.866 Contact Map
1tfiA 1 0.2566 97.9 0.871 Contact Map
3hncA 2 0.6579 97.7 0.875 Contact Map
3k8tA 2 0.1513 97.7 0.876 Contact Map
2xapA 4 0.6382 97.6 0.877 Contact Map
3o9xA 2 0.7697 95 0.907 Contact Map
1qypA 1 0.2632 90.8 0.92 Contact Map
1twfI 1 0.3158 90.5 0.921 Contact Map
3h0gI 1 0.2566 90.2 0.921 Contact Map
4c2mI 1 0.2763 88.5 0.924 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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