GREMLIN Database
ISPF - 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
UniProt: P62617 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11816
Length: 159 (154)
Sequences: 3014 (1690)
Seq/√Len: 136.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_P24_R3.1011.00
74_R119_D2.6361.00
33_A37_G2.5681.00
13_G32_L2.3651.00
79_E82_R2.3221.00
41_L116_I2.3141.00
40_A96_V2.2261.00
5_H149_E2.2171.00
44_L94_V2.1851.00
21_G40_A2.1681.00
48_L84_I2.1391.00
9_V137_L2.0091.00
81_W120_L1.9741.00
45_T80_A1.9181.00
102_A143_G1.8991.00
44_L96_V1.8681.00
92_G155_I1.8371.00
122_C126_D1.7891.00
79_E83_R1.7641.00
99_I149_E1.7571.00
134_T140_T1.7121.00
140_T147_A1.7101.00
98_I105_M1.6731.00
59_K109_I1.6361.00
87_K125_D1.5911.00
3_I153_L1.5581.00
85_Q121_G1.5351.00
52_A84_I1.5331.00
100_A146_I1.5331.00
41_L45_T1.5191.00
115_F118_E1.5091.00
74_R115_F1.4901.00
66_P69_K1.4781.00
71_A76_L1.4731.00
31_L37_G1.4711.00
27_Y143_G1.4401.00
11_A32_L1.4291.00
54_L87_K1.4251.00
5_H97_T1.4121.00
7_F134_T1.4111.00
45_T76_L1.4001.00
93_N153_L1.3951.00
68_F71_A1.3731.00
81_W91_L1.3681.00
81_W85_Q1.3661.00
40_A98_I1.3471.00
99_I140_T1.3421.00
78_R119_D1.3331.00
91_L122_C1.3311.00
75_E78_R1.3071.00
84_I154_L1.3031.00
55_G59_K1.3031.00
21_G112_M1.3021.00
52_A154_L1.2851.00
95_D130_K1.2841.00
14_G29_K1.2611.00
113_R124_M1.2561.00
116_I129_V1.2551.00
92_G153_L1.2501.00
50_G95_D1.2351.00
123_H126_D1.2351.00
108_H111_Q1.2341.00
114_V118_E1.2271.00
90_T155_I1.2171.00
114_V124_M1.2071.00
5_H151_V1.2031.00
19_I24_R1.1911.00
91_L94_V1.1911.00
53_A128_N1.1820.99
60_L83_R1.1820.99
139_F145_G1.1590.99
20_I105_M1.1500.99
17_P30_G1.1310.99
51_A154_L1.1190.99
85_Q90_T1.1080.99
110_P113_R1.1000.99
82_R86_A1.0880.99
67_A79_E1.0820.99
106_L110_P1.0820.99
68_F76_L1.0760.99
59_K106_L1.0730.99
49_L80_A1.0670.99
43_A150_A1.0650.99
71_A75_E1.0650.99
105_M109_I1.0630.99
63_D101_Q1.0630.99
50_G130_K1.0610.99
9_V134_T1.0390.99
110_P124_M1.0300.99
41_L74_R1.0170.98
25_I108_H1.0160.98
110_P114_V1.0100.98
101_Q134_T1.0030.98
101_Q136_K0.9990.98
47_A150_A0.9900.98
13_G16_G0.9880.98
111_Q114_V0.9880.98
104_K107_P0.9800.98
20_I39_V0.9750.98
7_F147_A0.9720.98
31_L100_A0.9710.98
28_E102_A0.9470.98
44_L116_I0.9400.97
6_G46_D0.9350.97
99_I147_A0.9080.97
45_T71_A0.9060.97
46_D57_I0.9020.97
7_F99_I0.8960.97
94_V120_L0.8810.96
100_A105_M0.8810.96
89_Y154_L0.8790.96
16_G32_L0.8560.96
105_M131_A0.8530.95
137_L145_G0.8520.95
41_L119_D0.8480.95
138_G145_G0.8430.95
47_A152_A0.8260.95
45_T57_I0.8230.94
94_V152_A0.8220.94
74_R78_R0.8130.94
48_L154_L0.8120.94
31_L146_I0.8060.94
29_K143_G0.8050.94
53_A113_R0.8040.94
115_F119_D0.7990.94
136_K143_G0.7960.93
16_G30_G0.7930.93
54_L83_R0.7810.93
109_I113_R0.7750.92
28_E143_G0.7700.92
61_F79_E0.7700.92
76_L80_A0.7670.92
83_R87_K0.7530.91
63_D68_F0.7520.91
99_I134_T0.7490.91
55_G60_L0.7460.91
63_D135_E0.7410.91
20_I146_I0.7400.91
18_I146_I0.7400.91
81_W122_C0.7290.90
132_T145_G0.7280.90
19_I115_F0.7270.90
134_T142_R0.7240.90
134_T139_F0.7210.90
75_E79_E0.7190.89
107_P110_P0.7160.89
9_V139_F0.7110.89
39_V146_I0.7090.89
46_D132_T0.7070.89
9_V145_G0.7010.88
81_W121_G0.7000.88
16_G37_G0.6990.88
59_K113_R0.6970.88
116_I127_V0.6870.87
105_M108_H0.6800.87
94_V122_C0.6800.87
134_T147_A0.6760.86
11_A136_K0.6660.86
9_V140_T0.6650.85
26_P108_H0.6620.85
21_G98_I0.6620.85
48_L52_A0.6540.84
83_R86_A0.6530.84
13_G29_K0.6490.84
12_F31_L0.6470.84
92_G122_C0.6440.84
16_G70_G0.6420.83
39_V148_C0.6400.83
22_G116_I0.6390.83
7_F149_E0.6330.83
12_F29_K0.6330.83
98_I148_C0.6250.82
21_G96_V0.6230.82
106_L109_I0.6230.82
78_R121_G0.6230.82
134_T137_L0.6220.81
81_W94_V0.6170.81
90_T126_D0.6150.81
7_F139_F0.6120.80
18_I31_L0.6060.80
112_M115_F0.6010.79
111_Q115_F0.5960.79
53_A93_N0.5930.78
97_T128_N0.5920.78
3_I151_V0.5890.78
66_P70_G0.5880.78
6_G57_I0.5840.77
84_I89_Y0.5830.77
100_A140_T0.5810.77
18_I30_G0.5790.77
12_F16_G0.5770.76
91_L127_V0.5760.76
40_A44_L0.5760.76
79_E86_A0.5730.76
19_I30_G0.5710.76
60_L128_N0.5710.76
16_G19_I0.5700.75
77_L119_D0.5690.75
52_A87_K0.5680.75
116_I120_L0.5600.74
98_I146_I0.5560.74
16_G24_R0.5560.74
32_L63_D0.5550.74
136_K142_R0.5480.73
101_Q141_G0.5480.73
23_V74_R0.5480.73
65_D68_F0.5480.73
4_G51_A0.5400.72
138_G141_G0.5380.71
19_I37_G0.5350.71
9_V138_G0.5310.70
72_D75_E0.5300.70
72_D76_L0.5260.70
59_K128_N0.5240.69
112_M129_V0.5220.69
6_G9_V0.5210.69
18_I33_A0.5170.68
11_A137_L0.5160.68
117_A127_V0.5150.68
60_L80_A0.5110.67
9_V132_T0.5100.67
94_V150_A0.5090.67
12_F146_I0.5090.67
134_T138_G0.5080.67
48_L91_L0.5070.67
16_G33_A0.5060.67
59_K110_P0.5030.66
109_I112_M0.5020.66
67_A118_E0.5020.66
52_A128_N0.5000.66
97_T149_E0.5000.66
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  
5b8fA 3 0.9874 100 0.009 Contact Map
1yqnA 3 0.9811 100 0.01 Contact Map
4c8eA 3 1 100 0.011 Contact Map
3f0dA 3 0.9748 100 0.013 Contact Map
1t0aA 3 0.9874 100 0.014 Contact Map
2pmpA 3 0.9874 100 0.015 Contact Map
3re3A 5 0.9119 100 0.018 Contact Map
4c81A 3 0.9308 100 0.035 Contact Map
2uzhA 3 0.9686 100 0.04 Contact Map
3b6nA 3 0.8931 100 0.043 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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