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NIKD - Nickel import ATP-binding protein NikD
UniProt: P33593 Sequence
Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12078
Length: 254 (236)
Sequences: 71240
Seq/Len: 301.86

NIKD
Paralog alert: 0.95 [within 20: 0.89] - ratio of genomes with paralogs
Cluster includes: ARTP BTUD CCMA CYSA DDPD DDPF DPPD DPPF FBPC FECE FEPC FHUC FTSE GLNQ GLTL HISP LIVF LIVG LOLD LPTB MALK METN MLAF MODC NIKD NIKE OPPD OPPF PHNC PHNK PHNL POTA POTG PROV PSTB SAPD SAPF SSUB SUFC TAUB THIQ UGPC YADG YBBA YBBL YCJV YDCT YECC YEHX YHDZ YNJD ZNUC
GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Scaled Score Prob
30_R 210_D 3.304 1.00
33_A 208_A 3.23 1.00
6_E 25_T 3.201 1.00
9_N 21_G 3.076 1.00
8_R 63_E 3.012 1.00
80_K 160_P 2.962 1.00
133_V 136_L 2.917 1.00
63_E 70_P 2.878 1.00
17_P 20_H 2.77 1.00
32_L 212_A 2.736 1.00
6_E 65_L 2.611 1.00
210_D 222_Q 2.603 1.00
27_Q 30_R 2.602 1.00
20_H 218_K 2.566 1.00
123_E 128_E 2.49 1.00
7_L 10_I 2.315 1.00
117_T 158_E 2.185 1.00
67_D 160_P 2.162 1.00
224_D 227_T 2.093 1.00
11_A 17_P 2.086 1.00
98_M 141_M 1.996 1.00
212_A 219_I 1.967 1.00
28_R 160_P 1.966 1.00
8_R 65_L 1.931 1.00
223_G 227_T 1.924 1.00
119_T 134_L 1.921 1.00
122_I 134_L 1.897 1.00
185_S 189_K 1.871 1.00
99_H 135_K 1.853 1.00
124_A 185_S 1.836 1.00
9_N 23_S 1.788 1.00
158_E 192_P 1.781 1.00
30_R 209_D 1.759 1.00
99_H 134_L 1.754 1.00
212_A 222_Q 1.752 1.00
120_A 124_A 1.657 1.00
124_A 190_Q 1.635 1.00
117_T 120_A 1.597 1.00
46_C 197_V 1.587 1.00
99_H 119_T 1.575 1.00
223_G 228_L 1.571 1.00
99_H 118_L 1.565 1.00
124_A 189_K 1.554 1.00
12_L 18_L 1.533 1.00
129_N 134_L 1.524 1.00
115_D 119_T 1.508 1.00
67_D 80_K 1.464 1.00
136_L 140_E 1.455 1.00
12_L 44_L 1.451 1.00
86_Q 143_G 1.44 1.00
187_M 209_D 1.433 1.00
7_L 49_T 1.426 1.00
110_G 113_A 1.426 1.00
8_R 25_T 1.417 1.00
19_V 48_A 1.41 1.00
198_T 204_V 1.407 0.99
75_A 78_G 1.401 0.99
46_C 163_I 1.388 0.99
26_L 32_L 1.384 0.99
103_R 118_L 1.371 0.99
24_L 212_A 1.366 0.99
65_L 70_P 1.358 0.99
7_L 24_L 1.33 0.99
70_P 73_P 1.328 0.99
103_R 114_D 1.318 0.99
97_T 100_T 1.31 0.99
116_A 120_A 1.305 0.99
164_A 183_L 1.3 0.99
48_A 55_A 1.287 0.99
11_A 60_T 1.278 0.99
31_V 187_M 1.26 0.99
103_R 115_D 1.243 0.98
121_A 156_L 1.235 0.98
8_R 23_S 1.231 0.98
99_H 115_D 1.229 0.98
101_H 153_M 1.225 0.98
117_T 121_A 1.216 0.98
184_E 187_M 1.207 0.98
119_T 123_E 1.203 0.98
4_Q 67_D 1.202 0.98
102_A 156_L 1.197 0.98
97_T 101_H 1.193 0.98
99_H 103_R 1.185 0.98
32_L 222_Q 1.181 0.98
45_T 214_M 1.173 0.98
128_E 134_L 1.161 0.97
55_A 60_T 1.16 0.97
187_M 194_M 1.153 0.97
10_I 55_A 1.149 0.97
82_A 159_S 1.142 0.97
180_L 203_V 1.122 0.97
176_Q 203_V 1.111 0.96
27_Q 210_D 1.107 0.96
98_M 149_M 1.104 0.96
31_V 194_M 1.102 0.96
158_E 190_Q 1.092 0.96
50_L 83_T 1.087 0.96
32_L 210_D 1.087 0.96
96_H 100_T 1.082 0.96
9_N 61_A 1.082 0.96
49_T 195_L 1.079 0.95
141_M 149_M 1.076 0.95
84_I 151_I 1.074 0.95
48_A 64_I 1.061 0.95
120_A 123_E 1.058 0.95
22_V 45_T 1.057 0.95
84_I 164_A 1.048 0.94
182_L 185_S 1.047 0.94
162_I 194_M 1.044 0.94
119_T 128_E 1.042 0.94
7_L 45_T 1.039 0.94
122_I 127_L 1.037 0.94
28_R 67_D 1.033 0.94
133_V 145_M 1.033 0.94
186_I 192_P 1.03 0.94
160_P 192_P 1.027 0.94
234_H 237_T 1.02 0.93
125_V 152_A 1.008 0.93
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Scaled Score = (raw_score/average(raw_scores)) > 1 are listed. For all 3L/2 predictions, click on one of the links below.
HHsearch Results: GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled_score >1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 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 P(%) HHΔ   Acc
2it1A20.9567100-0.017Contact Map0.863
1v43A10.9606100-0.016Contact Map0.806
2yyzA10.9567100-0.015Contact Map0.806
3tuiC40.9646100-0.013Contact Map0.871
1oxxK10.9606100-0.011Contact Map0.799
3fvqA20.9606100-0.011Contact Map0.771
1g29120.9567100-0.011Contact Map0.888
1z47A20.9606100-0.009Contact Map0.833
3rlfA20.9567100-0.007Contact Map0.828
4fwiB10.9961100-0.005Contact Map0.722

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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