GREMLIN Database
Nitr_red_assoc - Conserved nitrate reductase-associated protein (Nitr_red_assoc)
PFAM: PF09655 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 144 (144)
Sequences: 1243 (976)
Seq/√Len: 81.3
META: 0.839

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
100_K103_E3.6251.00
61_R78_E2.7351.00
95_E99_E2.6111.00
110_L114_A2.5411.00
69_R75_P2.4041.00
134_N137_F2.3941.00
42_E71_R2.3771.00
53_T56_E2.3661.00
31_K34_Q2.3471.00
82_D85_P2.2841.00
139_P142_K2.2361.00
21_R25_L2.1121.00
36_S43_R2.0921.00
62_E66_E2.0891.00
49_L63_Y2.0551.00
65_Q78_E1.9681.00
89_D92_A1.9401.00
132_H136_N1.9371.00
93_V98_A1.9361.00
81_I85_P1.8771.00
23_L26_C1.7701.00
18_A21_R1.7681.00
2_F120_Q1.7631.00
120_Q144_F1.7051.00
44_Q48_H1.6991.00
14_C17_M1.6591.00
8_F13_R1.6421.00
140_A143_E1.6241.00
65_Q76_A1.6061.00
122_F132_H1.5791.00
2_F5_E1.4980.99
13_R36_S1.4870.99
18_A47_V1.4820.99
45_A63_Y1.4680.99
45_A49_L1.4670.99
125_I128_S1.4340.99
129_R132_H1.4320.99
117_T120_Q1.4170.99
42_E67_L1.4100.99
1_F9_V1.3690.99
63_Y67_L1.3610.99
101_A106_V1.3550.99
140_A144_F1.3450.99
131_G135_K1.3240.98
34_Q74_E1.3000.98
8_F14_C1.2870.98
134_N141_L1.2830.98
111_A115_A1.2820.98
137_F141_L1.2800.98
6_A9_V1.2690.98
100_K131_G1.2570.98
23_L44_Q1.2460.98
3_Q6_A1.2240.97
38_L71_R1.1930.97
14_C29_K1.1800.97
135_K139_P1.1700.97
65_Q69_R1.1630.96
39_S42_E1.1540.96
9_V13_R1.1360.96
132_H140_A1.1350.96
138_P142_K1.1250.96
15_I19_V1.1210.96
33_A36_S1.1180.96
88_L118_P1.1080.95
24_D29_K1.1040.95
34_Q68_V1.0860.95
92_A110_L1.0790.95
60_Y87_W1.0760.95
34_Q37_A1.0620.94
51_C57_I1.0490.94
65_Q75_P1.0420.94
109_S112_Q1.0200.93
38_L67_L1.0180.93
102_A107_A1.0010.92
138_P141_L1.0010.92
2_F143_E0.9960.92
54_P57_I0.9920.92
20_R24_D0.9890.92
34_Q77_K0.9820.91
41_E115_A0.9730.91
52_D56_E0.9620.91
68_V73_G0.9590.90
97_V101_A0.9550.90
136_N140_A0.9230.89
59_A74_E0.9220.89
125_I133_E0.9200.88
128_S131_G0.9190.88
7_D29_K0.9190.88
52_D58_E0.9140.88
46_L64_L0.9130.88
49_L60_Y0.9000.87
41_E62_E0.8990.87
106_V141_L0.8990.87
82_D88_L0.8880.87
80_P83_P0.8520.84
21_R34_Q0.8510.84
48_H59_A0.8420.84
127_L140_A0.8370.83
50_P55_E0.8360.83
29_K126_K0.8300.83
68_V112_Q0.8250.82
26_C110_L0.8230.82
127_L132_H0.8220.82
10_E21_R0.8190.82
51_C60_Y0.8160.82
33_A74_E0.8160.82
22_K60_Y0.8100.81
119_L132_H0.8040.81
17_M36_S0.8020.81
39_S71_R0.7960.80
93_V126_K0.7960.80
96_A128_S0.7950.80
2_F17_M0.7950.80
11_S30_L0.7920.80
94_P113_W0.7800.79
58_E62_E0.7710.78
42_E48_H0.7700.78
50_P54_P0.7690.78
59_A111_A0.7660.77
19_V46_L0.7650.77
75_P95_E0.7630.77
40_L50_P0.7590.77
6_A18_A0.7590.77
99_E102_A0.7550.76
9_V12_L0.7490.76
91_D99_E0.7480.76
17_M134_N0.7480.76
26_C65_Q0.7430.75
25_L88_L0.7380.75
4_F140_A0.7350.74
55_E92_A0.7340.74
136_N139_P0.7270.74
41_E66_E0.7240.73
60_Y67_L0.7240.73
97_V130_P0.7130.72
129_R134_N0.7120.72
44_Q61_R0.7120.72
21_R119_L0.7100.72
17_M127_L0.7090.72
6_A26_C0.7090.72
51_C56_E0.7060.71
42_E62_E0.7040.71
31_K122_F0.7020.71
26_C61_R0.6900.70
116_L119_L0.6790.68
68_V76_A0.6780.68
91_D117_T0.6690.67
1_F31_K0.6610.66
119_L122_F0.6590.66
133_E138_P0.6530.65
122_F136_N0.6520.65
63_Y66_E0.6450.65
93_V110_L0.6400.64
100_K104_L0.6390.64
45_A59_A0.6280.62
14_C127_L0.6210.62
32_L43_R0.6210.62
97_V138_P0.6200.61
38_L49_L0.6190.61
90_P118_P0.6180.61
52_D66_E0.6180.61
54_P58_E0.6160.61
90_P142_K0.6160.61
81_I93_V0.6150.61
99_E110_L0.6150.61
82_D86_A0.6110.60
23_L61_R0.6090.60
40_L44_Q0.6080.60
100_K134_N0.6070.60
64_L137_F0.6060.60
91_D95_E0.6040.59
134_N139_P0.6020.59
96_A99_E0.6000.59
69_R72_T0.5970.59
40_L98_A0.5950.58
126_K143_E0.5950.58
133_E136_N0.5890.58
92_A95_E0.5880.57
40_L66_E0.5710.55
25_L128_S0.5660.55
104_L138_P0.5660.55
17_M20_R0.5650.54
59_A90_P0.5650.54
6_A10_E0.5640.54
74_E91_D0.5590.54
1_F6_A0.5590.54
25_L51_C0.5570.53
51_C87_W0.5530.53
9_V47_V0.5530.53
123_A126_K0.5530.53
2_F8_F0.5500.53
22_K57_I0.5480.52
55_E91_D0.5480.52
79_L125_I0.5430.52
131_G139_P0.5410.51
12_L18_A0.5370.51
7_D13_R0.5360.51
130_P135_K0.5350.51
55_E115_A0.5310.50
3_Q115_A0.5300.50
97_V128_S0.5290.50
97_V137_F0.5290.50
19_V22_K0.5280.50
28_I32_L0.5260.49
10_E57_I0.5240.49
30_L57_I0.5220.49
27_G81_I0.5210.49
1_F10_E0.5180.48
29_K132_H0.5170.48
69_R109_S0.5110.47
23_L38_L0.5060.47
98_A107_A0.5050.47
129_R133_E0.5040.47
39_S92_A0.5010.46
67_L71_R0.5010.46
72_T76_A0.5000.46
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  
4uf5B 1 0.3194 27.7 0.931 Contact Map
3vkgA 2 0.8056 11.5 0.942 Contact Map
4wlpB 2 0.3472 7.6 0.947 Contact Map
2wzlA 1 0.4583 5.7 0.95 Contact Map
3op1A 4 0.3333 5.3 0.951 Contact Map
1vyiA 1 0.4167 4.9 0.951 Contact Map
1g2yA 4 0.2153 4.8 0.951 Contact Map
4ovsA 1 0.7569 4 0.953 Contact Map
2omkA 2 0.4444 3.8 0.954 Contact Map
4hr0A 2 0.4792 3.8 0.954 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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