GREMLIN Database
YDGI - Putative NAD(P)H nitroreductase YdgI
UniProt: P96707 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 209 (196)
Sequences: 7957 (5855)
Seq/√Len: 418.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
21_D24_V4.5461.00
33_E153_H3.8021.00
27_S30_E3.0731.00
28_K56_D3.0521.00
24_V189_K2.7901.00
28_K32_T2.7291.00
52_F142_V2.6151.00
156_D190_A2.3581.00
58_P62_E2.3281.00
34_I150_A2.2961.00
63_K171_T2.2201.00
155_Y189_K2.2181.00
169_A181_P2.1681.00
36_E39_T2.0651.00
143_S183_M2.0321.00
30_E155_Y1.9941.00
147_M157_T1.8811.00
19_N191_A1.8561.00
37_E149_T1.8101.00
147_M159_P1.7971.00
6_D9_E1.7951.00
21_D191_A1.7511.00
164_D167_N1.7131.00
30_E153_H1.7071.00
167_N170_E1.6891.00
9_E13_G1.6871.00
67_L167_N1.6721.00
150_A187_I1.6701.00
38_A146_L1.6211.00
13_G151_R1.6021.00
64_L168_I1.5981.00
65_A76_T1.5921.00
67_L171_T1.5921.00
7_F10_I1.5781.00
151_R156_D1.5691.00
147_M185_L1.5471.00
52_F82_I1.5301.00
58_P61_K1.5151.00
32_T203_D1.5131.00
20_Y186_S1.5061.00
12_K40_T1.5051.00
150_A157_T1.4841.00
60_G63_K1.4791.00
109_Q113_D1.4741.00
62_E66_P1.4491.00
82_I146_L1.4361.00
175_D178_R1.4331.00
202_I206_A1.4171.00
73_T77_T1.4121.00
7_F11_M1.4121.00
34_I146_L1.4081.00
200_L204_T1.3891.00
137_I140_G1.3821.00
57_S60_G1.3701.00
51_R179_Y1.3581.00
34_I155_Y1.3561.00
143_S185_L1.3431.00
85_F179_Y1.3431.00
35_L206_A1.3311.00
113_D117_A1.3121.00
8_M12_K1.3081.00
30_E189_K1.2921.00
120_T124_E1.2911.00
59_E62_E1.2881.00
16_S158_N1.2811.00
60_G171_T1.2571.00
155_Y187_I1.2471.00
26_I155_Y1.2411.00
63_K66_P1.2321.00
32_T36_E1.2311.00
39_T205_I1.2281.00
139_G182_V1.2251.00
30_E33_E1.2241.00
73_T76_T1.2151.00
8_M37_E1.2081.00
25_K56_D1.2041.00
32_T202_I1.2021.00
62_E76_T1.2011.00
34_I187_I1.1941.00
141_L144_M1.1841.00
37_E153_H1.1761.00
167_N171_T1.1661.00
137_I161_G1.1661.00
11_M145_Q1.1501.00
157_T187_I1.1491.00
8_M153_H1.1241.00
93_Y96_E1.1171.00
166_E170_E1.1141.00
8_M33_E1.0961.00
20_Y158_N1.0891.00
41_A145_Q1.0671.00
12_K36_E1.0581.00
146_L187_I1.0491.00
59_E63_K1.0471.00
146_L185_L1.0331.00
54_V80_A1.0301.00
157_T185_L1.0221.00
52_F84_V1.0101.00
29_E32_T1.0101.00
99_S103_E1.0081.00
158_N186_S1.0031.00
84_V146_L0.9971.00
133_E136_L0.9961.00
21_D189_K0.9851.00
174_L177_E0.9851.00
31_M187_I0.9811.00
17_I194_G0.9781.00
26_I30_E0.9761.00
26_I189_K0.9541.00
27_S189_K0.9511.00
54_V206_A0.9491.00
36_E202_I0.9451.00
34_I153_H0.9391.00
117_A120_T0.9381.00
132_R180_V0.9351.00
118_A121_A0.9331.00
53_L85_F0.9311.00
33_E37_E0.9301.00
145_Q148_L0.9291.00
9_E12_K0.9281.00
117_A121_A0.9241.00
119_L123_F0.9231.00
136_L182_V0.9151.00
7_F148_L0.9111.00
133_E137_I0.9101.00
86_A135_I0.9091.00
96_E204_T0.9071.00
35_L38_A0.9011.00
31_M80_A0.8961.00
143_S159_P0.8931.00
72_Q76_T0.8901.00
7_F152_A0.8871.00
26_I29_E0.8861.00
163_Y184_L0.8831.00
31_M35_L0.8821.00
127_P130_V0.8791.00
6_D152_A0.8761.00
44_S134_T0.8701.00
63_K67_L0.8641.00
96_E99_S0.8631.00
89_N92_D0.8621.00
38_A52_F0.8611.00
19_N194_G0.8611.00
113_D116_I0.8541.00
89_N93_Y0.8541.00
92_D96_E0.8391.00
121_A125_K0.8391.00
72_Q75_V0.8281.00
134_T161_G0.8271.00
19_N192_D0.8251.00
33_E36_E0.8231.00
44_S161_G0.8231.00
75_V78_S0.8221.00
62_E65_A0.8161.00
114_R118_A0.8121.00
78_S81_V0.8061.00
165_K181_P0.8021.00
159_P183_M0.8011.00
74_Q77_T0.7981.00
25_K58_P0.7951.00
53_L172_F0.7921.00
53_L179_Y0.7921.00
95_E99_S0.7921.00
81_V186_S0.7891.00
10_I152_A0.7871.00
169_A180_V0.7851.00
55_I172_F0.7781.00
98_Y102_V0.7771.00
114_R117_A0.7761.00
42_P157_T0.7651.00
110_E113_D0.7601.00
11_M148_L0.7521.00
17_I190_A0.7441.00
190_A193_E0.7431.00
168_I171_T0.7361.00
98_Y103_E0.7361.00
123_F126_L0.7331.00
168_I181_P0.7301.00
174_L179_Y0.7241.00
94_L98_Y0.7231.00
149_T152_A0.7201.00
35_L54_V0.7201.00
43_S50_W0.7171.00
136_L140_G0.7161.00
76_T79_S0.7151.00
65_A72_Q0.7141.00
138_D161_G0.7111.00
18_R74_Q0.7111.00
66_P71_N0.7041.00
39_T52_F0.7031.00
31_M54_V0.7021.00
83_A184_L0.7001.00
144_M148_L0.6991.00
68_A75_V0.6931.00
120_T123_F0.6871.00
141_L145_Q0.6821.00
29_E33_E0.6761.00
84_V143_S0.6751.00
82_I187_I0.6751.00
142_V205_I0.6741.00
201_P204_T0.6711.00
160_I186_S0.6701.00
117_A123_F0.6690.99
115_Q118_A0.6650.99
166_E169_A0.6650.99
50_W139_G0.6640.99
30_E34_I0.6630.99
163_Y168_I0.6610.99
98_Y101_A0.6600.99
175_D179_Y0.6570.99
21_D192_D0.6560.99
127_P131_N0.6560.99
116_I120_T0.6550.99
165_K169_A0.6540.99
87_D90_N0.6540.99
137_I182_V0.6520.99
115_Q119_L0.6510.99
68_A184_L0.6470.99
137_I183_M0.6470.99
74_Q78_S0.6460.99
11_M152_A0.6390.99
136_L180_V0.6380.99
64_L172_F0.6370.99
89_N178_R0.6320.99
118_A123_F0.6240.99
60_G172_F0.6220.99
68_A168_I0.6220.99
34_I149_T0.6220.99
100_K104_L0.6200.99
11_M37_E0.6160.99
97_I100_K0.6120.99
84_V88_M0.6090.99
40_T196_A0.6060.99
77_T80_A0.5980.99
44_S138_D0.5910.99
122_H125_K0.5900.99
10_I154_G0.5890.99
95_E98_Y0.5860.99
146_L157_T0.5850.99
174_L181_P0.5810.99
93_Y97_I0.5810.99
8_M152_A0.5780.99
63_K167_N0.5770.99
169_A177_E0.5760.99
169_A174_L0.5750.98
191_A194_G0.5730.98
113_D118_A0.5720.98
26_I31_M0.5710.98
121_A124_E0.5690.98
97_I101_A0.5680.98
34_I37_E0.5670.98
55_I60_G0.5670.98
75_V81_V0.5660.98
102_V109_Q0.5650.98
87_D93_Y0.5640.98
21_D25_K0.5600.98
116_I119_L0.5590.98
82_I185_L0.5570.98
142_V146_L0.5560.98
134_T137_I0.5560.98
122_H126_L0.5550.98
137_I141_L0.5530.98
52_F205_I0.5500.98
107_M110_E0.5470.98
71_N74_Q0.5460.98
100_K103_E0.5450.98
99_S102_V0.5440.98
55_I64_L0.5430.98
140_G144_M0.5420.98
47_A134_T0.5420.98
27_S32_T0.5400.98
12_K37_E0.5330.98
106_Y109_Q0.5300.97
19_N193_E0.5290.97
119_L124_E0.5270.97
88_M91_A0.5260.97
118_A122_H0.5240.97
83_A172_F0.5240.97
148_L152_A0.5230.97
67_L168_I0.5220.97
42_P145_Q0.5210.97
31_M56_D0.5210.97
129_Q132_R0.5200.97
91_A131_N0.5170.97
10_I148_L0.5150.97
42_P159_P0.5120.97
90_N93_Y0.5100.97
115_Q122_H0.5090.97
52_F146_L0.5070.97
104_L107_M0.5040.97
94_L97_I0.5020.96
146_L149_T0.5010.96
38_A142_V0.5010.96
103_E108_P0.5000.96
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  
3ge6A 2 0.9952 100 0.18 Contact Map
3gbhA 3 1 100 0.184 Contact Map
4qlxA 2 0.9952 100 0.186 Contact Map
3gagA 4 0.9761 100 0.192 Contact Map
3bemA 2 0.9904 100 0.198 Contact Map
3of4A 3 0.9665 100 0.202 Contact Map
1noxA 2 0.9522 100 0.209 Contact Map
2b67A 2 0.9617 100 0.209 Contact Map
2h0uA 2 0.8852 100 0.215 Contact Map
1icrA 2 0.9713 100 0.217 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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