GREMLIN Database
YRKL - Uncharacterized NAD(P)H oxidoreductase YrkL
UniProt: P54439 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 174 (165)
Sequences: 3729 (2713)
Seq/√Len: 211.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
32_T56_D3.6611.00
77_Q81_D2.4191.00
34_H53_L2.4071.00
8_I74_L2.3901.00
35_D38_G2.3521.00
2_K30_D2.2701.00
51_Q87_W2.1351.00
32_T53_L2.0841.00
101_L135_A2.0501.00
66_M105_I2.0291.00
59_R100_E2.0031.00
7_V18_N1.9721.00
52_Q56_D1.9621.00
155_S158_D1.9111.00
48_E52_Q1.9101.00
34_H39_E1.9081.00
43_F77_Q1.8951.00
100_E141_R1.8771.00
60_I140_M1.8711.00
3_T59_R1.8471.00
123_T126_E1.8121.00
22_M26_K1.8091.00
156_K160_K1.7881.00
52_Q55_L1.7791.00
76_K80_D1.7721.00
19_K23_N1.7591.00
55_L87_W1.7561.00
4_L53_L1.7311.00
49_K53_L1.7301.00
39_E53_L1.6701.00
164_E167_V1.6391.00
32_T57_H1.6311.00
8_I37_Y1.6121.00
2_K56_D1.5951.00
73_A77_Q1.5911.00
5_V22_M1.5631.00
50_E78_W1.5431.00
23_N26_K1.5191.00
24_R167_V1.4681.00
63_Q166_L1.4541.00
79_E83_L1.4381.00
104_A166_L1.4271.00
17_V106_S1.4191.00
24_R27_Q1.4141.00
101_L140_M1.4051.00
4_L57_H1.3771.00
34_H50_E1.3771.00
158_D161_N1.3751.00
160_K164_E1.3671.00
20_T24_R1.3591.00
51_Q88_A1.3491.00
23_N27_Q1.3491.00
162_S165_R1.3311.00
3_T29_K1.3221.00
18_N33_V1.3161.00
97_H139_G1.3131.00
154_L159_V1.3001.00
47_V51_Q1.2751.00
90_G93_G1.2681.00
94_T97_H1.2671.00
39_E49_K1.2641.00
49_K52_Q1.2621.00
63_Q104_A1.2281.00
161_N165_R1.2101.00
66_M124_I1.2051.00
135_A140_M1.1971.00
124_I147_T1.1941.00
14_T106_S1.1861.00
46_D49_K1.1851.00
146_F165_R1.1781.00
37_Y74_L1.1741.00
8_I75_L1.1611.00
148_Q154_L1.1601.00
39_E50_E1.1501.00
164_E168_D1.1181.00
126_E129_R1.1171.00
21_W25_L1.1101.00
71_S75_L1.1031.00
104_A146_F1.1001.00
20_T23_N1.1001.00
14_T63_Q1.0991.00
111_E115_Q1.0881.00
20_T167_V1.0751.00
133_V136_N1.0711.00
24_R28_E1.0651.00
57_H60_I1.0651.00
61_V102_L1.0601.00
98_G141_R1.0571.00
90_G95_K1.0561.00
96_L140_M1.0431.00
111_E149_Y1.0351.00
22_M33_V1.0281.00
107_L149_Y1.0201.00
6_I34_H1.0101.00
53_L56_D1.0021.00
48_E51_Q1.0011.00
58_E99_K0.9971.00
83_L138_I0.9961.00
41_P44_I0.9821.00
64_F103_L0.9641.00
51_Q84_T0.9511.00
148_Q162_S0.9430.99
7_V15_S0.9410.99
27_Q167_V0.9280.99
129_R132_Q0.9230.99
55_L95_K0.9220.99
110_Q113_D0.9210.99
8_I36_L0.9200.99
26_K30_D0.9150.99
166_L169_Y0.9080.99
30_D56_D0.9070.99
15_S18_N0.9050.99
154_L158_D0.8990.99
68_W80_D0.8950.99
159_V163_A0.8930.99
41_P77_Q0.8920.99
16_V163_A0.8900.99
41_P45_I0.8670.99
109_A120_Y0.8590.99
10_P67_Y0.8520.99
69_Y137_Y0.8480.99
105_I147_T0.8470.99
104_A148_Q0.8200.99
16_V156_K0.8160.98
105_I128_I0.8090.98
107_L147_T0.8060.98
134_T138_I0.8040.98
102_L169_Y0.8030.98
59_R102_L0.8030.98
54_L60_I0.7970.98
69_Y133_V0.7960.98
85_H91_T0.7950.98
34_H78_W0.7930.98
100_E143_L0.7900.98
79_E134_T0.7890.98
64_F124_I0.7870.98
62_F135_A0.7870.98
102_L146_F0.7860.98
2_K58_E0.7850.98
23_N167_V0.7780.98
25_L166_L0.7760.98
18_N63_Q0.7690.98
107_L124_I0.7690.98
66_M127_L0.7680.98
12_L38_G0.7590.98
16_V159_V0.7480.97
20_T160_K0.7460.97
155_S159_V0.7450.97
21_W104_A0.7450.97
73_A81_D0.7450.97
46_D50_E0.7350.97
54_L78_W0.7300.97
135_A142_F0.7280.97
66_M114_Y0.7270.97
68_W89_Y0.7250.97
161_N164_E0.7240.97
101_L142_F0.7230.97
127_L133_V0.7210.97
64_F105_I0.7210.97
159_V162_S0.7150.97
54_L62_F0.7110.96
5_V61_V0.7080.96
144_P169_Y0.6970.96
64_F128_I0.6930.96
85_H89_Y0.6920.96
21_W166_L0.6920.96
165_R168_D0.6900.96
11_N14_T0.6900.96
100_E139_G0.6830.96
50_E53_L0.6750.95
8_I35_D0.6670.95
16_V20_T0.6620.95
40_Y45_I0.6600.95
113_D119_E0.6580.95
5_V21_W0.6540.94
109_A150_G0.6510.94
107_L114_Y0.6500.94
43_F81_D0.6480.94
17_V104_A0.6410.94
4_L34_H0.6400.94
20_T163_A0.6380.94
21_W148_Q0.6360.93
94_T139_G0.6330.93
114_Y118_G0.6320.93
48_E161_N0.6310.93
126_E132_Q0.6260.93
41_P81_D0.6250.93
2_K35_D0.6250.93
64_F75_L0.6240.93
64_F71_S0.6240.93
72_P80_D0.6240.93
15_S19_K0.6190.93
151_T159_V0.6130.92
51_Q82_V0.6130.92
71_S79_E0.6130.92
5_V31_I0.6120.92
88_A96_L0.6120.92
93_G97_H0.6060.92
6_I62_F0.6000.91
7_V12_L0.5960.91
6_I78_W0.5910.91
54_L83_L0.5900.91
44_I77_Q0.5880.91
86_G90_G0.5790.90
119_E137_Y0.5770.90
74_L78_W0.5750.90
51_Q85_H0.5670.89
108_G152_L0.5650.89
64_F72_P0.5640.89
125_S145_A0.5620.88
43_F74_L0.5600.88
75_L79_E0.5570.88
7_V22_M0.5560.88
132_Q142_F0.5540.88
61_V166_L0.5510.88
154_L162_S0.5500.87
20_T164_E0.5490.87
116_A126_E0.5470.87
17_V162_S0.5460.87
102_L144_P0.5440.87
21_W162_S0.5430.87
48_E84_T0.5380.86
69_Y109_A0.5360.86
81_D84_T0.5320.86
125_S147_T0.5320.86
29_K59_R0.5300.85
70_S76_K0.5300.85
146_F166_L0.5280.85
13_E19_K0.5270.85
120_Y133_V0.5260.85
68_W133_V0.5230.85
156_K159_V0.5220.85
11_N81_D0.5220.85
146_F169_Y0.5170.84
52_Q168_D0.5160.84
25_L28_E0.5160.84
43_F73_A0.5130.84
31_I36_L0.5120.83
7_V33_V0.5120.83
10_P37_Y0.5120.83
79_E101_L0.5110.83
91_T138_I0.5100.83
121_N126_E0.5090.83
69_Y120_Y0.5080.83
14_T77_Q0.5060.83
6_I79_E0.5050.83
157_E161_N0.5020.82
50_E82_V0.5000.82
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  
1d4aA 2 0.9943 100 0.365 Contact Map
4gi5A 2 0.9943 100 0.386 Contact Map
2amjA 2 0.9425 100 0.423 Contact Map
3l9wA 2 0.9885 100 0.431 Contact Map
4fglA 2 0.9943 100 0.435 Contact Map
3f2vA 2 0.977 100 0.444 Contact Map
3ha2A 2 0.9483 100 0.448 Contact Map
3rpeA 2 0.9598 100 0.454 Contact Map
3lcmA 2 0.9655 100 0.461 Contact Map
4r81A 4 0.977 100 0.47 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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