GREMLIN Database
IDI - Isopentenyl-diphosphate Delta-isomerase
UniProt: Q9HP40 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 213 (167)
Sequences: 2054 (1313)
Seq/√Len: 101.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
36_T40_E6.7681.00
67_D71_R6.1031.00
79_D86_T5.2681.00
76_Q167_G3.7201.00
68_E155_D3.3821.00
111_A117_E3.0111.00
76_Q166_G2.8171.00
92_V110_L2.6421.00
179_N188_L2.4851.00
171_V176_L2.4811.00
63_C106_T2.2821.00
39_D59_R2.2491.00
49_D54_D2.1031.00
45_A49_D2.0771.00
172_D175_D2.0421.00
109_R112_E1.9971.00
101_S104_D1.9431.00
31_D44_L1.9231.00
84_W190_P1.8501.00
158_F168_A1.8211.00
79_D166_G1.8011.00
66_F72_V1.7881.00
116_I154_H1.6971.00
51_H95_H1.6971.00
35_V59_R1.6841.00
71_R172_D1.6191.00
45_A56_V1.5471.00
51_H144_E1.5411.00
32_V50_A1.5361.00
46_N49_D1.5321.00
45_A50_A1.5181.00
30_Q108_Q1.5081.00
87_H189_C1.5041.00
176_L192_F1.4901.00
89_D189_C1.4751.00
105_A108_Q1.4591.00
100_Q108_Q1.4371.00
73_L168_A1.4341.00
31_D46_N1.4331.00
116_I158_F1.4001.00
88_W169_M1.3901.00
65_L116_I1.3871.00
86_T166_G1.3450.99
72_V91_T1.3380.99
30_Q97_I1.3350.99
76_Q86_T1.3230.99
131_E145_V1.3150.99
73_L170_W1.2460.99
169_M179_N1.2410.99
90_G93_A1.2230.99
180_P196_M1.2110.99
95_H144_E1.1950.99
68_E152_T1.1950.99
29_T46_N1.1630.98
112_E161_D1.1590.98
62_T90_G1.1560.98
47_R109_R1.1230.98
133_K141_L1.1120.98
89_D93_A1.1110.98
128_D148_V1.1100.98
82_R140_G1.1000.98
64_L195_A1.0880.97
88_W167_G1.0860.97
114_L168_A1.0830.97
72_V176_L1.0780.97
44_L98_E1.0760.97
71_R175_D1.0670.97
110_L118_P1.0570.97
67_D170_W1.0490.97
57_R131_E1.0470.97
102_Q147_A1.0280.96
30_Q47_R1.0220.96
34_A50_A1.0200.96
102_Q149_L1.0160.96
63_C110_L1.0090.96
80_R163_E0.9900.95
34_A56_V0.9890.95
51_H58_H0.9740.95
74_L171_V0.9580.94
34_A45_A0.9560.94
29_T48_L0.9530.94
107_R117_E0.9470.94
177_Y200_F0.9400.94
178_E181_R0.9340.94
160_R165_V0.9250.93
106_T149_L0.9250.93
160_R168_A0.9220.93
67_D152_T0.9180.93
62_T93_A0.9170.93
129_R147_A0.9020.93
96_P109_R0.8980.92
154_H158_F0.8970.92
37_P131_E0.8970.92
33_I98_E0.8970.92
175_D178_E0.8940.92
65_L151_A0.8840.92
75_A89_D0.8790.92
74_L188_L0.8770.91
146_C195_A0.8750.91
124_L151_A0.8660.91
39_D145_V0.8650.91
126_I129_R0.8650.91
70_G152_T0.8630.91
151_A154_H0.8620.91
83_L140_G0.8610.91
30_Q109_R0.8540.90
60_A132_Y0.8440.90
188_L192_F0.8310.89
102_Q106_T0.8290.89
103_V106_T0.8070.88
62_T146_C0.7900.87
65_L110_L0.7900.87
41_R98_E0.7900.87
34_A43_G0.7880.86
64_L192_F0.7880.86
114_L165_V0.7840.86
154_H157_S0.7780.86
90_G191_W0.7760.86
66_F150_Q0.7750.85
58_H95_H0.7750.85
184_R187_R0.7750.85
118_P151_A0.7740.85
172_D176_L0.7700.85
132_Y142_E0.7610.84
94_S109_R0.7570.84
133_K143_W0.7490.83
33_I59_R0.7480.83
128_D195_A0.7470.83
132_Y146_C0.7470.83
178_E183_Y0.7470.83
84_W140_G0.7440.83
132_Y191_W0.7410.83
130_F195_A0.7390.83
47_R82_R0.7380.83
159_D183_Y0.7370.83
103_V149_L0.7360.82
107_R111_A0.7330.82
169_M175_D0.7320.82
30_Q94_S0.7290.82
49_D52_T0.7290.82
62_T95_H0.7260.82
61_F105_A0.7210.81
41_R45_A0.7200.81
75_A168_A0.7120.80
47_R83_L0.7100.80
62_T89_D0.7090.80
39_D102_Q0.7080.80
51_H142_E0.7070.80
36_T42_T0.7070.80
124_L159_D0.7060.80
47_R97_I0.7010.79
51_H62_T0.6940.79
66_F127_T0.6890.78
111_A118_P0.6880.78
50_A95_H0.6860.78
39_D129_R0.6840.78
157_S178_E0.6840.78
176_L181_R0.6800.77
32_V82_R0.6780.77
62_T144_E0.6760.77
90_G132_Y0.6760.77
39_D131_E0.6750.77
31_D98_E0.6700.76
35_V102_Q0.6670.76
33_I99_G0.6670.76
173_Y192_F0.6540.74
91_T132_Y0.6530.74
62_T191_W0.6520.74
33_I73_L0.6500.74
30_Q85_D0.6460.73
76_Q88_W0.6390.73
74_L169_M0.6290.72
173_Y177_Y0.6230.71
103_V177_Y0.6160.70
67_D70_G0.6160.70
92_V114_L0.6130.70
47_R108_Q0.6110.69
61_F95_H0.6070.69
72_V173_Y0.6070.69
63_C151_A0.6060.69
118_P166_G0.6030.68
61_F132_Y0.5990.68
74_L172_D0.5980.68
185_Q197_R0.5970.68
50_A94_S0.5960.67
59_R102_Q0.5950.67
57_R143_W0.5920.67
60_A93_A0.5910.67
100_Q112_E0.5900.67
51_H93_A0.5880.66
47_R93_A0.5880.66
93_A142_E0.5870.66
185_Q188_L0.5860.66
177_Y196_M0.5830.66
195_A199_D0.5820.66
81_K144_E0.5790.65
165_V168_A0.5770.65
74_L112_E0.5770.65
62_T75_A0.5760.65
130_F146_C0.5720.64
32_V97_I0.5720.64
120_Q157_S0.5710.64
142_E191_W0.5710.64
126_I145_V0.5690.64
180_P188_L0.5650.63
41_R44_L0.5640.63
51_H91_T0.5600.63
51_H60_A0.5580.62
81_K164_E0.5570.62
107_R119_H0.5550.62
171_V179_N0.5550.62
44_L117_E0.5550.62
74_L168_A0.5530.62
32_V95_H0.5520.62
76_Q79_D0.5500.61
104_D124_L0.5460.61
93_A144_E0.5460.61
92_V192_F0.5440.60
114_L118_P0.5430.60
65_L91_T0.5420.60
93_A191_W0.5390.60
62_T96_P0.5360.59
71_R174_E0.5360.59
59_R64_L0.5350.59
74_L184_R0.5330.59
62_T142_E0.5300.58
33_I39_D0.5270.58
54_D170_W0.5260.58
84_W146_C0.5250.58
35_V39_D0.5230.57
127_T150_Q0.5220.57
60_A142_E0.5200.57
34_A142_E0.5180.57
32_V149_L0.5170.57
84_W87_H0.5140.56
66_F152_T0.5140.56
67_D155_D0.5140.56
125_E197_R0.5130.56
75_A189_C0.5120.56
62_T195_A0.5110.56
45_A54_D0.5100.56
73_L158_F0.5100.56
155_D159_D0.5090.55
37_P40_E0.5090.55
56_V141_L0.5060.55
63_C124_L0.5060.55
93_A109_R0.5030.55
95_H142_E0.5030.55
194_I197_R0.5010.54
87_H187_R0.5000.54
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  
2pnyA 1 0.9577 100 0.378 Contact Map
2dhoA 1 0.8826 100 0.383 Contact Map
3dupA 2 0.9765 100 0.513 Contact Map
1hztA 1 0.7089 100 0.513 Contact Map
2fkbA 1 0.784 100 0.573 Contact Map
1q27A 1 0.8028 100 0.58 Contact Map
2xsqA 2 0.6995 99.9 0.654 Contact Map
3e57A 2 0.8122 99.8 0.681 Contact Map
1sjyA 2 0.7136 99.8 0.686 Contact Map
3q91A 2 0.6244 99.8 0.688 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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