GREMLIN Database
NDK - Nucleoside diphosphate kinase
UniProt: Q980Q7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 138 (133)
Sequences: 3753 (1973)
Seq/√Len: 171.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
44_R48_E2.9431.00
37_L73_V2.4681.00
76_V129_M2.4641.00
90_I118_A2.4231.00
22_E29_K2.3861.00
26_R106_D2.3781.00
42_M132_F2.3281.00
9_M74_C2.3171.00
10_I14_G2.2571.00
27_F86_I2.1921.00
94_D97_E2.1421.00
34_I77_I2.1001.00
25_S29_K2.0131.00
121_S124_K1.9391.00
24_I75_M1.9331.00
8_V86_I1.9331.00
4_Q122_I1.7951.00
47_A67_V1.7751.00
53_E127_R1.7691.00
88_R99_P1.7591.00
79_G85_V1.7341.00
32_L82_V1.6971.00
49_K131_L1.6941.00
32_L85_V1.6461.00
35_V78_E1.6221.00
90_I116_I1.6081.00
120_D124_K1.5881.00
44_R65_N1.5731.00
32_L79_G1.5461.00
48_E55_K1.5211.00
43_S46_T1.5041.00
81_D84_Q1.4811.00
22_E25_S1.4681.00
46_T131_L1.4621.00
94_D111_K1.4491.00
20_I73_V1.4341.00
100_P105_G1.3651.00
64_V68_T1.3601.00
84_Q88_R1.3401.00
40_V74_C1.3311.00
86_I118_A1.3101.00
125_A129_M1.3071.00
83_V122_I1.3011.00
5_R78_E1.3001.00
126_Q130_S1.2971.00
49_K52_E1.2781.00
85_V88_R1.2711.00
62_E112_S1.2681.00
124_K127_R1.2611.00
61_E65_N1.2491.00
30_R89_M1.2481.00
13_D66_Y1.2411.00
47_A68_T1.2111.00
92_N99_P1.2051.00
42_M47_A1.1911.00
44_R64_V1.1841.00
36_S76_V1.1761.00
14_G23_I1.1301.00
81_D85_V1.1291.00
27_F77_I1.1281.00
53_E124_K1.1221.00
122_I126_Q1.1171.00
130_S135_K1.1091.00
27_F90_I1.0771.00
24_I37_L1.0641.00
16_K113_E1.0480.99
33_K78_E1.0470.99
86_I90_I1.0450.99
56_G61_E1.0330.99
48_E60_F1.0250.99
5_R35_V1.0240.99
14_G115_V1.0080.99
9_M72_V1.0060.99
80_D110_S1.0020.99
69_S113_E0.9960.99
39_M73_V0.9930.99
92_N97_E0.9680.99
17_R115_V0.9670.99
24_I73_V0.9640.99
15_V39_M0.9450.99
48_E64_V0.9430.99
44_R61_E0.9430.99
37_L75_M0.9290.99
15_V20_I0.9220.99
42_M67_V0.9200.99
6_T86_I0.9170.99
23_I115_V0.9090.98
109_L113_E0.8990.98
17_R109_L0.8840.98
86_I116_I0.8800.98
54_H57_K0.8780.98
54_H59_F0.8630.98
85_V89_M0.8620.98
42_M72_V0.8550.98
95_P111_K0.8450.98
50_L131_L0.8430.98
101_G106_D0.8430.98
21_G37_L0.8330.97
40_V46_T0.8310.97
127_R131_L0.8280.97
66_Y69_S0.8270.97
19_L115_V0.8180.97
16_K69_S0.8170.97
95_P110_S0.8120.97
26_R30_R0.8120.97
54_H63_L0.8110.97
8_V75_M0.8070.97
110_S113_E0.7990.97
117_H128_E0.7970.97
19_L22_E0.7900.96
44_R68_T0.7900.96
77_I86_I0.7870.96
26_R103_I0.7830.96
47_A64_V0.7820.96
10_I23_I0.7820.96
46_T49_K0.7710.96
32_L86_I0.7700.96
92_N98_A0.7640.96
103_I116_I0.7630.96
8_V77_I0.7610.96
8_V27_F0.7590.95
52_E60_F0.7570.95
45_D48_E0.7450.95
52_E55_K0.7440.95
95_P108_A0.7410.95
123_E126_Q0.7380.95
34_I37_L0.7350.95
30_R85_V0.7040.93
4_Q83_V0.6990.93
87_R117_H0.6890.93
5_R129_M0.6710.92
58_S62_E0.6690.91
56_G62_E0.6670.91
62_E65_N0.6610.91
50_L132_F0.6600.91
20_I39_M0.6580.91
25_S28_E0.6520.90
24_I28_E0.6510.90
42_M46_T0.6460.90
18_G33_K0.6330.89
21_G39_M0.6280.89
26_R29_K0.6270.89
87_R93_T0.6260.88
15_V70_G0.6260.88
21_G28_E0.6250.88
6_T77_I0.6230.88
15_V73_V0.6210.88
83_V121_S0.6190.88
121_S127_R0.6190.88
79_G82_V0.6130.87
4_Q81_D0.6110.87
108_A115_V0.6100.87
39_M71_P0.6100.87
20_I28_E0.6090.87
105_G115_V0.5980.86
21_G24_I0.5930.86
59_F63_L0.5890.85
52_E127_R0.5870.85
35_V76_V0.5870.85
91_G104_R0.5850.85
13_D17_R0.5850.85
130_S134_D0.5800.84
55_K64_V0.5760.84
62_E111_K0.5690.83
99_P102_T0.5680.83
53_E131_L0.5680.83
9_M67_V0.5640.83
22_E107_Y0.5610.82
61_E64_V0.5580.82
8_V118_A0.5580.82
96_K109_L0.5550.82
5_R126_Q0.5550.82
46_T50_L0.5520.81
83_V124_K0.5520.81
51_Y117_H0.5510.81
66_Y109_L0.5450.81
7_F74_C0.5450.81
55_K61_E0.5440.80
119_S128_E0.5410.80
86_I98_A0.5360.79
63_L67_V0.5290.79
83_V127_R0.5290.79
42_M50_L0.5280.78
109_L115_V0.5260.78
60_F64_V0.5250.78
97_E111_K0.5250.78
48_E56_G0.5240.78
55_K60_F0.5210.78
103_I115_V0.5200.77
36_S134_D0.5150.77
83_V125_A0.5120.76
81_D88_R0.5110.76
6_T82_V0.5090.76
72_V132_F0.5080.76
59_F120_D0.5070.76
92_N95_P0.5030.75
127_R130_S0.5020.75
13_D109_L0.5020.75
104_R114_N0.5020.75
40_V72_V0.5000.75
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  
4kpcA 4 0.9928 100 -0.008 Contact Map
1w7wA 5 1 100 -0.007 Contact Map
3r9lA 4 0.8043 100 -0.007 Contact Map
4c6aA 1 1 100 -0.005 Contact Map
1ehwA 4 1 100 -0.005 Contact Map
3ztpA 3 0.9928 100 -0.004 Contact Map
3mpdA 4 0.9855 100 -0.004 Contact Map
4w98A 2 1 100 -0.004 Contact Map
2vu5A 5 0.9855 100 -0.001 Contact Map
3l7uA 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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