GREMLIN Database
NDK - Nucleoside diphosphate kinase
UniProt: P0A763 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10650
Length: 143 (134)
Sequences: 3844 (2042)
Seq/√Len: 176.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
44_V48_R2.8991.00
37_T73_V2.5181.00
26_R106_D2.4401.00
76_V129_I2.4091.00
90_L118_G2.4041.00
42_L132_F2.3861.00
22_N29_A2.3491.00
10_I14_A2.3391.00
9_I74_V2.2651.00
94_N97_N2.1981.00
27_F86_H2.1651.00
34_I77_L2.0971.00
25_A29_A2.0461.00
24_F75_S1.9661.00
121_S124_S1.9431.00
8_S86_H1.9191.00
4_E122_V1.8581.00
53_E127_R1.8151.00
47_A67_M1.8101.00
35_V78_E1.7471.00
49_G131_Y1.7461.00
79_G85_R1.7211.00
32_F85_R1.6571.00
88_D99_L1.6401.00
90_L116_T1.6231.00
32_F82_A1.6171.00
120_D124_S1.5721.00
81_N84_Q1.5181.00
44_V65_E1.5181.00
48_R55_D1.5061.00
94_N111_L1.4941.00
43_T46_Q1.4871.00
22_N25_A1.4691.00
32_F79_G1.4561.00
20_I73_V1.4541.00
46_Q131_Y1.4391.00
100_A105_A1.4341.00
92_A99_L1.4031.00
5_R78_E1.3481.00
62_G112_T1.3211.00
86_H118_G1.3131.00
64_V68_T1.3091.00
40_L74_V1.3081.00
83_V122_V1.2981.00
84_Q88_D1.2981.00
49_G52_A1.2951.00
124_S127_R1.2821.00
30_A89_L1.2801.00
126_A130_A1.2801.00
125_A129_I1.2631.00
85_R88_D1.2501.00
61_D65_E1.2331.00
13_N66_F1.2221.00
47_A68_T1.2171.00
36_G76_V1.2011.00
44_V64_V1.1561.00
81_N85_R1.1311.00
27_F77_L1.1141.00
53_E124_S1.1131.00
14_A23_I1.1131.00
42_L47_A1.1111.00
27_F90_L1.1011.00
122_V126_A1.1001.00
130_A135_E1.0791.00
16_A113_E1.0781.00
24_F37_T1.0771.00
9_I72_I1.0581.00
5_R35_V1.0531.00
86_H90_L1.0350.99
56_G61_D1.0210.99
14_A115_G1.0130.99
39_M73_V1.0120.99
80_E110_S1.0100.99
33_K78_E1.0030.99
15_V20_I0.9980.99
17_K115_G0.9900.99
48_R60_F0.9880.99
24_F73_V0.9700.99
69_S113_E0.9570.99
15_V39_M0.9370.99
92_A97_N0.9320.99
37_T75_S0.9270.99
44_V61_D0.9240.99
42_L67_M0.9210.99
6_T86_H0.8940.98
117_H128_E0.8800.98
95_P111_L0.8800.98
48_R64_V0.8770.98
23_I115_G0.8730.98
40_L46_Q0.8720.98
50_F131_Y0.8710.98
54_H63_L0.8630.98
101_G106_D0.8620.98
66_F69_S0.8590.98
109_D113_E0.8560.98
86_H116_T0.8520.98
95_P110_S0.8460.98
19_V22_N0.8450.98
85_R89_L0.8350.98
19_V115_G0.8340.98
42_L72_I0.8340.98
17_K109_D0.8330.98
26_R103_L0.8240.97
127_R131_Y0.8210.97
26_R30_A0.8010.97
52_A60_F0.8000.97
123_E126_A0.7990.97
54_H59_F0.7900.97
44_V68_T0.7860.97
16_A69_S0.7830.97
21_G37_T0.7800.96
8_S75_S0.7750.96
77_L86_H0.7720.96
4_E83_V0.7670.96
110_S113_E0.7610.96
8_S77_L0.7600.96
46_Q49_G0.7600.96
32_F86_H0.7600.96
8_S27_F0.7580.96
20_I39_M0.7510.96
45_E48_R0.7460.95
92_A98_A0.7430.95
54_H57_K0.7420.95
99_L102_T0.7410.95
52_A55_D0.7240.95
103_L116_T0.7210.94
34_I37_T0.7120.94
30_A85_R0.7040.94
50_F132_F0.6930.93
47_A64_V0.6880.93
79_G82_A0.6800.93
91_G104_R0.6790.93
21_G24_F0.6590.91
56_G62_G0.6540.91
5_R129_I0.6500.91
10_I23_I0.6490.91
95_P108_A0.6450.91
59_F63_L0.6440.90
58_P62_G0.6440.90
25_A28_E0.6440.90
18_N33_K0.6420.90
62_G65_E0.6300.89
6_T77_L0.6290.89
83_V121_S0.6210.89
66_F109_D0.6180.89
130_A134_G0.6160.88
3_I78_E0.6160.88
119_S128_E0.6150.88
55_D61_D0.6150.88
87_R117_H0.6140.88
105_A115_G0.6140.88
55_D64_V0.6120.88
5_R126_A0.6080.88
63_L67_M0.6070.88
21_G39_M0.6050.88
108_A115_G0.6050.88
20_I28_E0.6040.87
121_S127_R0.6040.87
39_M71_P0.6030.87
42_L46_Q0.5950.87
97_N111_L0.5950.87
46_Q50_F0.5940.87
52_A127_R0.5930.86
35_V76_V0.5930.86
104_R114_N0.5920.86
4_E81_N0.5920.86
96_A109_D0.5840.86
15_V73_V0.5830.86
87_R93_T0.5820.85
60_F64_V0.5800.85
92_A95_P0.5780.85
26_R29_A0.5720.84
22_N107_Y0.5710.84
24_F28_E0.5640.84
21_G28_E0.5610.83
6_T82_A0.5580.83
13_N17_K0.5540.83
83_V127_R0.5540.83
65_E68_T0.5540.83
72_I132_F0.5530.82
109_D115_G0.5530.82
62_G111_L0.5530.82
9_I67_M0.5510.82
51_Y117_H0.5450.82
15_V70_G0.5440.81
4_E84_Q0.5330.80
7_F74_V0.5290.80
36_G134_G0.5280.80
55_D60_F0.5280.80
86_H98_A0.5210.79
42_L50_F0.5160.78
81_N88_D0.5150.78
61_D64_V0.5140.78
24_F34_I0.5120.77
94_N98_A0.5100.77
59_F93_T0.5080.77
64_V67_M0.5060.77
13_N109_D0.5020.76
34_I39_M0.5010.76
88_D96_A0.5010.76
91_G114_N0.5000.76
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  
1w7wA 5 1 100 -0.011 Contact Map
4kpcA 4 0.986 100 -0.008 Contact Map
3r9lA 4 0.7832 100 -0.008 Contact Map
4c6aA 1 1 100 -0.004 Contact Map
2vu5A 5 0.986 100 -0.004 Contact Map
3l7uA 5 1 100 -0.004 Contact Map
1ehwA 4 0.986 100 -0.004 Contact Map
4w98A 2 1 100 -0.002 Contact Map
3q8uA 3 0.986 100 -0.001 Contact Map
3b54A 4 0.951 100 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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