GREMLIN Database
NDK - Nucleoside diphosphate kinase
UniProt: P31103 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 149 (134)
Sequences: 3873 (2028)
Seq/√Len: 175.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
43_E47_E2.9411.00
36_A72_F2.4921.00
75_V128_I2.4581.00
89_I117_G2.4411.00
25_R105_D2.4341.00
41_V131_F2.3681.00
21_D28_R2.3151.00
9_V13_G2.2541.00
8_M73_A2.2291.00
26_F85_T2.1821.00
93_N96_E2.1801.00
33_L76_W2.0631.00
24_S28_R1.9801.00
23_L74_M1.9591.00
120_S123_S1.9231.00
7_I85_T1.9201.00
3_E121_L1.8861.00
78_G84_V1.7381.00
87_Q98_L1.7251.00
48_K130_I1.7231.00
46_A66_I1.7221.00
34_A77_E1.7171.00
52_E126_R1.7061.00
31_L84_V1.6231.00
89_I115_I1.6201.00
43_E64_E1.6051.00
31_L81_V1.5961.00
80_N83_E1.5871.00
119_D123_S1.5681.00
47_E54_Q1.5281.00
93_N110_V1.4981.00
42_T45_M1.4871.00
99_P104_G1.4701.00
19_I72_F1.4691.00
31_L78_G1.4671.00
21_D24_S1.4551.00
45_M130_I1.4201.00
4_K77_E1.3751.00
83_E87_Q1.3451.00
39_M73_A1.3351.00
85_T117_G1.3291.00
61_E111_G1.3291.00
63_V67_T1.3141.00
82_I121_L1.3111.00
124_A128_I1.2771.00
91_K98_L1.2741.00
125_E129_N1.2691.00
60_G64_E1.2691.00
48_K51_A1.2661.00
123_S126_R1.2571.00
84_V87_Q1.2411.00
29_K88_L1.2291.00
12_D65_F1.2261.00
35_G75_V1.1831.00
80_N84_V1.1711.00
43_E63_V1.1611.00
13_G22_I1.1371.00
46_A67_T1.1371.00
26_F89_I1.1281.00
52_E123_S1.1101.00
121_L125_E1.1081.00
26_F76_W1.1051.00
129_N134_N1.1011.00
15_Q112_K1.1011.00
41_V46_A1.0801.00
4_K34_A1.0691.00
23_L36_A1.0591.00
8_M71_V1.0461.00
32_Q77_E1.0280.99
79_E109_F1.0100.99
55_G60_G1.0090.99
85_T89_I1.0010.99
16_R114_I0.9970.99
68_S112_K0.9960.99
38_L72_F0.9930.99
13_G114_I0.9910.99
47_E59_F0.9900.99
91_K96_E0.9790.99
14_V19_I0.9740.99
23_L72_F0.9630.99
43_E60_G0.9620.99
36_A74_M0.9610.99
14_V38_L0.9340.99
47_E63_V0.9330.99
85_T115_I0.9280.99
41_V66_I0.9050.99
116_H127_E0.8980.98
94_P110_V0.8830.98
22_I114_I0.8790.98
108_M112_K0.8750.98
5_T85_T0.8670.98
100_G105_D0.8650.98
39_M45_M0.8640.98
84_V88_L0.8490.98
16_R108_M0.8440.98
49_H130_I0.8410.98
65_F68_S0.8350.98
25_R102_I0.8290.97
43_E67_T0.8280.97
18_L114_I0.8260.97
53_H62_L0.8190.97
53_H58_F0.8120.97
109_F112_K0.8100.97
18_L21_D0.8090.97
15_Q68_S0.7990.97
20_G36_A0.7970.97
25_R29_K0.7960.97
7_I74_M0.7940.97
7_I26_F0.7940.97
41_V71_V0.7900.97
94_P109_F0.7880.97
7_I76_W0.7830.96
102_I115_I0.7820.96
126_R130_I0.7820.96
45_M48_K0.7820.96
44_Q47_E0.7790.96
122_E125_E0.7740.96
53_H56_K0.7610.96
31_L85_T0.7460.95
49_H131_F0.7420.95
46_A63_V0.7330.95
76_W85_T0.7320.95
51_A54_Q0.7270.95
91_K97_A0.7260.95
51_A59_F0.7200.94
3_E82_I0.7130.94
29_K84_V0.7110.94
57_P61_E0.7040.94
9_V22_I0.7020.94
33_L36_A0.6950.93
94_P107_G0.6800.92
19_I38_L0.6760.92
17_Q32_Q0.6660.92
55_G61_E0.6640.92
86_R116_H0.6590.91
54_Q63_V0.6590.91
25_R28_R0.6560.91
4_K128_I0.6450.90
38_L70_P0.6380.90
19_I27_E0.6380.90
58_F62_L0.6310.89
103_R113_N0.6300.89
61_E64_E0.6270.89
78_G81_V0.6200.89
24_S27_E0.6200.89
86_R92_T0.6180.88
20_G27_E0.6180.88
118_S127_E0.6170.88
21_D106_Y0.6160.88
14_V72_F0.6160.88
51_A126_R0.6150.88
34_A75_V0.6140.88
90_G103_R0.6140.88
82_I120_S0.6130.88
3_E80_N0.6120.88
23_L27_E0.6090.88
50_Y116_H0.6080.88
61_E110_V0.6060.87
4_K125_E0.6050.87
5_T76_W0.6040.87
20_G38_L0.6000.87
20_G23_L0.5990.87
41_V45_M0.5930.86
120_S126_R0.5910.86
104_G114_I0.5910.86
12_D16_R0.5890.86
107_G114_I0.5820.85
65_F108_M0.5800.85
54_Q60_G0.5790.85
98_L101_T0.5730.84
14_V69_G0.5710.84
108_M114_I0.5700.84
80_N87_Q0.5680.84
6_F73_A0.5640.83
35_G133_K0.5630.83
45_M49_H0.5600.83
129_N133_K0.5580.83
59_F63_V0.5550.82
60_G63_V0.5540.82
71_V131_F0.5530.82
8_M66_I0.5500.82
52_E130_I0.5420.81
90_G97_A0.5420.81
82_I126_R0.5400.81
3_E83_E0.5400.81
5_T81_V0.5400.81
95_K108_M0.5400.81
10_K113_N0.5370.80
2_M79_E0.5370.80
96_E110_V0.5370.80
91_K94_P0.5360.80
15_Q18_L0.5340.80
82_I123_S0.5260.79
102_I114_I0.5200.78
33_L38_L0.5190.78
23_L33_L0.5140.77
58_F92_T0.5140.77
12_D108_M0.5110.77
10_K94_P0.5030.76
7_I117_G0.5030.76
63_V66_I0.5000.76
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  
2vu5A 5 0.9933 100 -0.013 Contact Map
5bxiA 6 1 100 -0.01 Contact Map
1w7wA 5 1 100 -0.005 Contact Map
3q8uA 3 0.9933 100 -0.005 Contact Map
3l7uA 5 1 100 -0.005 Contact Map
1xiqA 4 0.9866 100 -0.004 Contact Map
3b54A 4 0.953 100 -0.004 Contact Map
3r9lA 4 0.745 100 -0.003 Contact Map
1zs6A 5 1 100 -0.002 Contact Map
3bbbA 5 1 100 0.001 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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