GREMLIN Database
NADR - Transcription repressor NadR
UniProt: P39667 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 180 (168)
Sequences: 635 (538)
Seq/√Len: 41.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
96_L174_A4.4021.00
92_E176_I4.3311.00
102_V167_A4.1981.00
99_D126_R4.0701.00
81_I156_L3.7991.00
106_D155_T3.3131.00
92_E174_A2.9401.00
90_T143_Y2.8311.00
95_Q130_S2.8121.00
97_I102_V2.5631.00
105_K157_T2.5101.00
19_W27_L2.5101.00
89_R92_E2.4501.00
86_G89_R2.3211.00
97_I167_A2.2941.00
94_L104_V2.2561.00
98_V129_V2.2521.00
160_D163_R2.2271.00
91_E95_Q2.1951.00
127_K166_Q2.1941.00
82_A153_L2.1510.99
91_E130_S2.1050.99
158_A164_I2.0780.99
95_Q129_V2.0620.99
169_Q173_E1.8870.99
79_R161_E1.8380.98
9_G49_L1.8270.98
48_S51_K1.7900.98
54_N119_A1.7680.98
9_G13_R1.7640.98
103_T157_T1.7480.98
106_D118_T1.7220.97
170_A173_E1.7060.97
79_R168_C1.7050.97
95_Q99_D1.6700.97
102_V156_L1.6470.97
79_R165_D1.6380.96
39_S45_Q1.6050.96
19_W36_A1.5690.95
18_L22_E1.5660.95
15_Q18_L1.4960.94
87_P145_S1.4810.94
45_Q157_T1.4770.94
17_L55_V1.4480.93
92_E96_L1.4330.93
79_R158_A1.4270.92
95_Q126_R1.4250.92
82_A151_V1.3660.91
19_W35_K1.3530.90
7_L66_Y1.3410.90
96_L100_E1.3190.89
78_E105_K1.3150.89
91_E129_V1.3000.88
80_I155_T1.2830.88
113_V136_I1.2550.86
103_T124_G1.2380.86
42_V45_Q1.2360.86
15_Q36_A1.2340.86
82_A116_D1.2070.84
8_M11_N1.1950.84
29_G45_Q1.1790.83
84_L149_D1.1320.80
112_P141_A1.0990.78
123_V129_V1.0960.78
77_A158_A1.0830.77
9_G39_S1.0760.77
20_L128_E1.0720.76
28_T62_Q1.0610.76
78_E157_T1.0530.75
99_D127_K1.0430.74
90_T132_F0.9940.71
145_S150_G0.9920.71
134_K137_N0.9870.70
159_P163_R0.9790.70
91_E137_N0.9710.69
116_D120_A0.9530.67
49_L52_A0.9440.67
116_D132_F0.9390.66
62_Q83_C0.9320.66
100_E166_Q0.9290.65
89_R176_I0.9170.64
89_R173_E0.9170.64
51_K167_A0.9100.64
133_I137_N0.8920.62
156_L167_A0.8910.62
122_Q153_L0.8890.62
28_T122_Q0.8750.61
100_E167_A0.8700.60
29_G158_A0.8680.60
28_T83_C0.8670.60
7_L36_A0.8500.58
51_K61_S0.8380.57
50_L57_I0.8330.57
136_I143_Y0.8320.57
108_K155_T0.8300.57
110_E141_A0.8270.56
134_K138_S0.8200.56
113_V121_I0.8120.55
79_R164_I0.8110.55
76_Q159_P0.8070.55
121_I143_Y0.8050.54
29_G47_I0.8040.54
87_P146_Q0.7960.54
108_K116_D0.7920.53
77_A164_I0.7890.53
100_E170_A0.7890.53
30_G39_S0.7870.53
82_A110_E0.7830.52
15_Q35_K0.7810.52
7_L51_K0.7800.52
45_Q48_S0.7800.52
96_L170_A0.7780.52
33_A52_A0.7770.52
118_T155_T0.7710.51
16_L27_L0.7700.51
31_E35_K0.7690.51
59_A62_Q0.7650.51
16_L47_I0.7630.50
28_T31_E0.7560.50
59_A139_T0.7530.50
70_A88_E0.7500.49
50_L147_L0.7310.47
91_E133_I0.7230.47
83_C158_A0.7220.47
124_G128_E0.7210.47
11_N14_D0.7170.46
14_D18_L0.7150.46
21_K66_Y0.7100.46
29_G127_K0.7080.45
50_L55_V0.7030.45
82_A178_I0.6980.44
80_I108_K0.6970.44
29_G51_K0.6960.44
18_L69_A0.6930.44
27_L32_L0.6910.44
102_V163_R0.6900.44
49_L61_S0.6850.43
76_Q157_T0.6830.43
36_A48_S0.6810.43
162_H169_Q0.6790.43
110_E132_F0.6760.42
33_A175_G0.6700.42
109_I127_K0.6640.41
146_Q149_D0.6550.40
36_A118_T0.6490.40
42_V52_A0.6490.40
82_A112_P0.6470.40
113_V133_I0.6470.40
52_A148_T0.6460.40
110_E151_V0.6450.40
29_G164_I0.6430.39
45_Q158_A0.6400.39
163_R166_Q0.6390.39
126_R129_V0.6360.39
158_A165_D0.6360.39
110_E116_D0.6310.38
159_P164_I0.6300.38
108_K153_L0.6280.38
116_D153_L0.6250.38
128_E143_Y0.6220.38
42_V62_Q0.6190.37
118_T135_K0.6150.37
151_V178_I0.6140.37
161_E165_D0.6100.37
24_K137_N0.6090.36
24_K162_H0.6090.36
58_I65_V0.6030.36
33_A43_I0.6030.36
88_E113_V0.6010.36
59_A122_Q0.6000.36
139_T147_L0.5950.35
124_G159_P0.5930.35
118_T142_A0.5930.35
169_Q172_E0.5880.35
30_G34_K0.5880.35
25_S169_Q0.5850.34
14_D137_N0.5830.34
65_V175_G0.5820.34
21_K68_D0.5810.34
31_E34_K0.5800.34
129_V133_I0.5740.33
158_A168_C0.5740.33
97_I100_E0.5730.33
29_G53_K0.5690.33
55_V66_Y0.5690.33
58_I103_T0.5670.33
116_D128_E0.5670.33
18_L113_V0.5660.33
33_A136_I0.5640.33
105_K119_A0.5630.33
9_G32_L0.5630.33
52_A55_V0.5620.32
50_L106_D0.5610.32
51_K67_M0.5600.32
135_K172_E0.5600.32
24_K30_G0.5560.32
58_I178_I0.5550.32
28_T67_M0.5530.32
32_L156_L0.5530.32
112_P132_F0.5510.32
25_S123_V0.5500.31
100_E109_I0.5500.31
82_A119_A0.5490.31
100_E163_R0.5480.31
81_I96_L0.5480.31
15_Q19_W0.5480.31
68_D140_N0.5480.31
136_I149_D0.5470.31
29_G116_D0.5450.31
61_S127_K0.5450.31
15_Q47_I0.5450.31
82_A122_Q0.5410.31
108_K118_T0.5410.31
20_L47_I0.5410.31
19_W32_L0.5410.31
29_G62_Q0.5400.31
131_H166_Q0.5400.31
17_L21_K0.5390.31
10_A13_R0.5370.30
34_K68_D0.5360.30
117_L124_G0.5360.30
14_D161_E0.5350.30
61_S67_M0.5350.30
75_Q137_N0.5350.30
83_C164_I0.5340.30
66_Y140_N0.5320.30
81_I168_C0.5310.30
100_E125_T0.5270.30
9_G164_I0.5250.30
54_N61_S0.5230.29
29_G178_I0.5230.29
15_Q58_I0.5230.29
134_K173_E0.5220.29
75_Q173_E0.5210.29
24_K70_A0.5210.29
37_N133_I0.5180.29
14_D135_K0.5130.29
23_S177_L0.5120.29
125_T128_E0.5100.28
18_L76_Q0.5090.28
47_I106_D0.5090.28
7_L15_Q0.5090.28
49_L148_T0.5070.28
77_A161_E0.5060.28
95_Q98_V0.5050.28
7_L102_V0.5050.28
164_I167_A0.5040.28
87_P90_T0.5040.28
128_E163_R0.5030.28
112_P153_L0.5020.28
30_G53_K0.5000.28
24_K76_Q0.5000.28
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  
1j5yA 4 0.95 99.9 0.663 Contact Map
2lnbA 1 0.3889 99.1 0.83 Contact Map
2heoA 1 0.3278 98.5 0.863 Contact Map
1biaA 1 0.6833 98.3 0.871 Contact Map
2p5vA 5 0.85 98.2 0.876 Contact Map
3sqnA 2 0.8556 98.2 0.876 Contact Map
4r6iA 2 0.8833 97.8 0.886 Contact Map
3rkxA 1 0.6667 97.8 0.889 Contact Map
2cfxA 5 0.7778 97.7 0.889 Contact Map
2cyyA 2 0.8389 97.5 0.895 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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