GREMLIN Database
YCAK - Uncharacterized NAD(P)H oxidoreductase YcaK
UniProt: P43340 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12702
Length: 196 (179)
Sequences: 3132 (2263)
Seq/√Len: 169.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
38_T79_E4.6821.00
5_R36_Q3.2761.00
11_A97_M2.9461.00
48_N52_T2.8421.00
41_D44_R2.8321.00
38_T76_E2.7201.00
74_Y110_L2.6851.00
40_L76_E2.5181.00
10_W23_A2.1711.00
40_L45_R2.1421.00
27_H31_M2.1351.00
123_V153_C2.1011.00
75_S79_E2.0521.00
78_L110_L2.0141.00
24_D28_Q1.9901.00
75_S78_L1.9881.00
20_A23_A1.9711.00
82_T122_K1.9421.00
174_G179_A1.8911.00
83_L158_I1.8541.00
144_N147_D1.8361.00
122_K159_E1.8341.00
100_G104_R1.8331.00
6_I82_T1.8271.00
6_I35_I1.8241.00
71_H75_S1.8221.00
25_A186_L1.8071.00
89_L127_A1.8021.00
72_Q76_E1.8001.00
23_A39_E1.7841.00
11_A43_Y1.7671.00
173_D176_E1.7611.00
74_Y111_A1.7281.00
73_L101_Y1.7141.00
18_L178_H1.6671.00
5_R79_E1.6261.00
183_Q186_L1.6201.00
40_L73_L1.6121.00
45_R76_E1.6061.00
99_K103_D1.5681.00
29_R186_L1.5321.00
38_T80_H1.5211.00
179_A183_Q1.5131.00
19_T128_L1.5111.00
113_G117_K1.4871.00
28_Q32_E1.4761.00
8_L27_H1.4731.00
7_Y76_E1.4701.00
102_I106_W1.4661.00
28_Q31_M1.4281.00
172_F178_H1.4211.00
86_V185_L1.4171.00
96_A100_G1.4111.00
45_R72_Q1.3911.00
126_V185_L1.3901.00
106_W156_L1.3801.00
25_A29_R1.3731.00
7_Y80_H1.3431.00
19_T86_V1.3071.00
153_C158_I1.2951.00
166_L172_F1.2681.00
185_L189_V1.2561.00
94_F98_L1.2321.00
20_A24_D1.2291.00
28_Q186_L1.2181.00
119_P157_G1.2071.00
86_V126_V1.1991.00
15_H44_R1.1931.00
21_H24_D1.1861.00
89_L145_I1.1771.00
123_V158_I1.1691.00
43_Y97_M1.1671.00
66_Y100_G1.1581.00
72_Q75_S1.1491.00
25_A28_Q1.1461.00
70_V74_Y1.1421.00
24_D27_H1.1371.00
118_L158_I1.1201.00
45_R73_L1.1161.00
14_R56_E1.1151.00
129_V167_C1.1111.00
18_L169_T1.1081.00
180_S183_Q1.0951.00
76_E79_E1.0891.00
145_I165_F1.0821.00
111_A118_L1.0530.99
92_Y151_N1.0410.99
126_V164_T1.0300.99
164_T184_S1.0200.99
29_R33_R1.0190.99
185_L188_Q1.0180.99
21_H182_Y1.0180.99
181_Y184_S1.0090.99
172_F176_E1.0050.99
51_M55_D1.0010.99
74_Y107_N0.9960.99
178_H182_Y0.9950.99
36_Q79_E0.9950.99
91_W112_Y0.9760.99
49_P100_G0.9760.99
27_H39_E0.9610.99
81_D121_N0.9520.99
91_W103_D0.9340.99
183_Q187_S0.9330.99
18_L166_L0.9200.99
21_H25_A0.9100.98
40_L101_Y0.9050.98
9_V40_L0.8970.98
80_H83_L0.8960.98
87_F125_W0.8880.98
166_L181_Y0.8860.98
10_W20_A0.8770.98
108_N112_Y0.8710.98
18_L22_I0.8670.98
71_H74_Y0.8640.98
5_R81_D0.8530.98
176_E180_S0.8490.98
21_H178_H0.8440.97
16_D24_D0.8440.97
53_P57_P0.8420.97
78_L117_K0.8350.97
31_M36_Q0.8340.97
84_V124_R0.8320.97
102_I152_M0.8180.97
17_S20_A0.8170.97
23_A26_I0.8110.97
29_R32_E0.8110.97
125_W153_C0.8000.97
108_N114_D0.7980.96
132_D135_S0.7970.96
8_L84_V0.7950.96
11_A98_L0.7920.96
145_I149_L0.7910.96
26_I185_L0.7850.96
9_V85_V0.7850.96
122_K161_A0.7840.96
18_L182_Y0.7760.96
109_G113_G0.7600.95
53_P58_D0.7540.95
69_E72_Q0.7520.95
141_W151_N0.7450.95
77_L83_L0.7450.95
92_Y155_Y0.7450.95
184_S187_S0.7420.95
174_G178_H0.7410.95
52_T55_D0.7400.95
120_F159_E0.7380.95
64_K68_P0.7370.95
137_V142_E0.7330.94
133_K167_C0.7300.94
92_Y141_W0.7290.94
97_M101_Y0.7290.94
19_T22_I0.7290.94
180_S184_S0.7290.94
21_H26_I0.7280.94
31_M34_K0.7280.94
129_V165_F0.7230.94
25_A182_Y0.7140.94
7_Y40_L0.7130.93
94_F152_M0.7070.93
89_L136_F0.7050.93
46_N52_T0.7040.93
8_L26_I0.7010.93
16_D20_A0.6920.92
32_E186_L0.6880.92
26_I30_A0.6860.92
69_E73_L0.6850.92
122_K160_D0.6780.92
49_P97_M0.6720.91
131_G142_E0.6710.91
182_Y185_L0.6700.91
126_V166_L0.6700.91
139_M146_S0.6700.91
146_S149_L0.6680.91
10_W39_E0.6650.91
75_S187_S0.6600.91
110_L118_L0.6590.91
66_Y107_N0.6570.90
74_Y105_V0.6550.90
89_L148_Y0.6490.90
29_R189_V0.6480.90
133_K137_V0.6480.90
87_F156_L0.6430.89
18_L21_H0.6420.89
172_F181_Y0.6410.89
129_V145_I0.6370.89
49_P52_T0.6370.89
124_R164_T0.6360.89
51_M54_E0.6350.89
9_V101_Y0.6340.89
113_G116_H0.6260.88
96_A104_R0.6260.88
26_I84_V0.6220.88
77_L85_V0.6210.88
152_M156_L0.6180.88
95_P103_D0.6130.87
68_P72_Q0.6120.87
85_V123_V0.6120.87
121_N130_G0.6110.87
6_I30_A0.6100.87
90_W99_K0.6090.87
22_I26_I0.6070.87
83_L123_V0.6040.86
148_Y151_N0.6010.86
47_F100_G0.5980.86
35_I82_T0.5960.86
92_Y131_G0.5950.85
12_H17_S0.5930.85
11_A42_L0.5890.85
75_S179_A0.5880.85
169_T178_H0.5880.85
26_I189_V0.5850.85
173_D178_H0.5840.84
149_L163_V0.5810.84
142_E154_S0.5800.84
77_L106_W0.5690.83
46_N50_V0.5650.82
11_A41_D0.5630.82
87_F145_I0.5630.82
77_L110_L0.5610.82
64_K67_S0.5590.82
26_I29_R0.5580.82
26_I126_V0.5580.82
58_D64_K0.5570.82
127_A165_F0.5570.82
67_S104_R0.5560.81
127_A145_I0.5550.81
50_V97_M0.5540.81
182_Y189_V0.5500.81
91_W151_N0.5500.81
178_H181_Y0.5500.81
51_M56_E0.5480.81
153_C160_D0.5480.81
154_S158_I0.5470.80
13_P90_W0.5430.80
129_V169_T0.5390.79
57_P116_H0.5390.79
164_T181_Y0.5390.79
14_R104_R0.5380.79
123_V160_D0.5360.79
140_G147_D0.5350.79
87_F95_P0.5340.79
122_K157_G0.5330.79
124_R188_Q0.5320.79
10_W41_D0.5310.78
142_E147_D0.5290.78
80_H121_N0.5280.78
118_L156_L0.5240.78
82_T124_R0.5230.77
98_L102_I0.5220.77
94_F148_Y0.5210.77
52_T56_E0.5170.77
14_R53_P0.5160.76
108_N113_G0.5160.76
54_E57_P0.5150.76
8_L37_V0.5140.76
71_H180_S0.5100.76
25_A183_Q0.5090.75
131_G168_N0.5090.75
104_R107_N0.5080.75
85_V98_L0.5070.75
24_D39_E0.5070.75
74_Y112_Y0.5070.75
6_I84_V0.5060.75
87_F101_Y0.5050.75
87_F127_A0.5030.75
22_I181_Y0.5010.74
48_N54_E0.5000.74
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 0.9898 100 0.37 Contact Map
4gi5A 2 0.9949 100 0.38 Contact Map
4fglA 2 0.9949 100 0.426 Contact Map
4r81A 4 0.9898 100 0.438 Contact Map
3lcmA 2 0.9541 100 0.44 Contact Map
2amjA 2 0.8469 100 0.451 Contact Map
3rpeA 2 0.8622 100 0.485 Contact Map
3l9wA 2 0.8776 100 0.489 Contact Map
4n65A 2 0.949 100 0.501 Contact Map
3w7aA 2 0.9541 100 0.503 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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