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OPENSEQ.org
CAS5 - CRISPR system Cascade subunit CasD
UniProt: Q46898 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13116
Length: 224 (208)
Sequences: 255
Seq/Len: 1.23
CAS5
Paralog alert: 0.01 [within 20: 0.00] - ratio of genomes with paralogs
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
40_L 133_L 4.072 1.00
46_I 56_A 2.927 1.00
62_Q 121_W 2.218 0.99
43_C 144_P 2.019 0.97
37_L 63_F 2 0.97
18_Q 28_G 1.944 0.96
64_A 167_P 1.929 0.96
36_L 63_F 1.906 0.96
111_L 116_F 1.889 0.95
14_Q 116_F 1.809 0.94
83_R 107_W 1.729 0.92
85_Y 103_T 1.726 0.92
47_Q 142_Y 1.693 0.91
20_T 203_T 1.661 0.89
36_L 120_L 1.616 0.88
135_K 139_K 1.605 0.87
50_D 53_S 1.599 0.87
40_L 120_L 1.546 0.84
126_A 131_S 1.526 0.83
35_G 116_F 1.486 0.81
66_R 206_R 1.458 0.79
130_I 161_T 1.442 0.78
54_L 150_S 1.429 0.77
119_A 181_I 1.428 0.77
14_Q 111_L 1.368 0.73
134_E 138_L 1.365 0.73
51_T 55_Q 1.351 0.72
13_M 151_C 1.346 0.71
66_R 114_A 1.323 0.69
10_A 22_E 1.305 0.68
70_L 110_Y 1.299 0.67
9_L 146_L 1.291 0.67
32_T 196_A 1.288 0.66
14_Q 114_A 1.266 0.64
44_L 136_A 1.26 0.64
85_Y 105_Q 1.256 0.63
126_A 164_A 1.251 0.63
35_G 203_T 1.248 0.63
162_C 174_Y 1.236 0.62
10_A 115_S 1.234 0.61
68_D 206_R 1.234 0.61
121_W 167_P 1.228 0.61
85_Y 157_L 1.212 0.59
145_Y 152_P 1.212 0.59
153_L 156_P 1.207 0.59
28_G 32_T 1.206 0.59
18_Q 32_T 1.204 0.59
88_V 106_T 1.181 0.56
35_G 193_K 1.169 0.55
149_R 159_L 1.168 0.55
86_H 179_G 1.167 0.55
149_R 171_L 1.161 0.54
14_Q 35_G 1.153 0.54
119_A 167_P 1.15 0.53
85_Y 89_L 1.15 0.53
166_D 169_K 1.145 0.53
203_T 206_R 1.142 0.53
86_H 92_R 1.137 0.52
196_A 213_W 1.134 0.52
66_R 116_F 1.131 0.52
39_L 144_P 1.121 0.51
149_R 167_P 1.115 0.50
42_A 144_P 1.107 0.49
86_H 193_K 1.096 0.48
88_V 104_I 1.093 0.48
41_G 149_R 1.09 0.48
165_S 170_A 1.088 0.47
39_L 118_V 1.088 0.47
36_L 118_V 1.086 0.47
84_D 110_Y 1.086 0.47
132_E 166_D 1.082 0.47
23_G 208_F 1.08 0.47
7_L 159_L 1.074 0.46
18_Q 195_T 1.071 0.46
14_Q 22_E 1.07 0.46
106_T 110_Y 1.066 0.45
36_L 60_S 1.062 0.45
85_Y 145_Y 1.06 0.45
117_T 174_Y 1.059 0.45
92_R 106_T 1.058 0.44
201_M 209_A 1.057 0.44
198_D 211_R 1.055 0.44
117_T 151_C 1.054 0.44
2_R 12_P 1.049 0.44
10_A 154_T 1.037 0.42
50_D 55_Q 1.03 0.42
30_F 64_A 1.028 0.42
39_L 83_R 1.027 0.41
68_D 116_F 1.024 0.41
139_K 186_S 1.02 0.41
15_A 197_R 1.019 0.41
85_Y 173_N 1.013 0.40
80_T 201_M 1.006 0.39
197_R 210_S 1.005 0.39
4_Y 150_S 1.004 0.39
111_L 206_R 1.001 0.39
39_L 81_G 1 0.39
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
3kg4A10.870599.20.831Contact Map0.465
3vziA20.87597.20.904Contact Map0.51
4f3mA20.794696.60.911Contact Map0.417
3vzhA10.799196.40.913Contact Map0.501
1amlA10.14733.70.973Contact Map0
3ubyA20.50892.60.975Contact Map0.035
3o2iA30.1922.50.975Contact Map0
2comA10.18752.50.975Contact Map0
1wqcA10.11611.90.977Contact Map0
1cn3F10.04461.70.977Contact 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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