GREMLIN Database
GGPS - Geranylgeranyl diphosphate synthase
UniProt: P95999 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 332 (301)
Sequences: 9598 (6337)
Seq/√Len: 365.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
56_S66_A3.3681.00
196_N199_V3.3001.00
187_A204_T3.0451.00
91_G101_V2.8701.00
183_S204_T2.7721.00
261_I278_R2.6211.00
209_N301_L2.5371.00
253_E290_Y2.4911.00
281_E285_K2.4781.00
141_I187_A2.4561.00
166_T169_E2.4501.00
175_K208_L2.3991.00
209_N298_Y2.3991.00
187_A200_V2.3481.00
303_I321_K2.3391.00
272_K275_D2.2981.00
226_D229_E2.2811.00
294_L297_K2.2771.00
141_I191_I2.2721.00
183_S208_L2.2571.00
92_L97_P2.1961.00
249_K290_Y2.1561.00
233_P236_S2.1051.00
55_S203_L2.0361.00
258_E285_K2.0291.00
118_K121_E2.0221.00
286_H289_Q1.9881.00
138_A188_L1.9401.00
87_M153_Q1.9401.00
249_K287_S1.9081.00
190_G203_L1.9061.00
186_A207_G1.8821.00
205_E305_N1.8751.00
300_D304_E1.8701.00
307_R321_K1.8651.00
20_R71_A1.8361.00
55_S186_A1.8341.00
104_G107_M1.8121.00
137_K200_V1.7881.00
172_Q176_G1.7721.00
13_I57_D1.7291.00
20_R68_K1.7271.00
220_I291_A1.6881.00
259_K263_V1.6811.00
59_I199_V1.6661.00
201_K205_E1.6491.00
121_E144_T1.6201.00
289_Q293_D1.6141.00
20_R23_N1.6091.00
297_K301_L1.5831.00
317_E321_K1.5821.00
255_T258_E1.5721.00
83_H113_D1.5691.00
205_E209_N1.5601.00
167_E249_K1.5461.00
195_A199_V1.5441.00
22_K37_F1.5441.00
124_N139_F1.5371.00
311_V317_E1.5291.00
260_K264_S1.5251.00
304_E307_R1.5171.00
68_K125_E1.5041.00
261_I264_S1.5011.00
296_K300_D1.5011.00
190_G195_A1.4841.00
56_S61_G1.4761.00
18_N46_R1.4691.00
83_H112_G1.4651.00
278_R281_E1.4451.00
137_K197_D1.4441.00
162_R169_E1.4281.00
82_V99_V1.4261.00
90_D236_S1.4171.00
289_Q292_Y1.4141.00
107_M154_A1.4101.00
37_F41_T1.4071.00
153_Q156_D1.4021.00
137_K140_S1.3951.00
225_G230_L1.3871.00
284_R288_L1.3851.00
293_D297_K1.3841.00
155_M172_Q1.3781.00
257_D260_K1.3761.00
183_S187_A1.3641.00
236_S240_E1.3581.00
125_E140_S1.3511.00
184_C188_L1.3511.00
216_I291_A1.3341.00
55_S59_I1.3301.00
54_S57_D1.3221.00
293_D296_K1.3091.00
18_N21_I1.2831.00
197_D201_K1.2811.00
189_G193_N1.2791.00
283_I287_S1.2791.00
294_L298_Y1.2781.00
227_E234_I1.2761.00
86_I105_E1.2681.00
220_I292_Y1.2661.00
250_T283_I1.2611.00
249_K253_E1.2611.00
220_I288_L1.2441.00
80_T149_I1.2421.00
249_K252_S1.2411.00
170_Y174_I1.2321.00
53_V70_A1.2211.00
227_E233_P1.2171.00
19_F23_N1.2081.00
42_A96_L1.2061.00
140_S144_T1.1991.00
75_I122_A1.1961.00
59_I193_N1.1941.00
299_S303_I1.1841.00
15_N18_N1.1781.00
137_K191_I1.1731.00
202_K308_E1.1681.00
305_N308_E1.1671.00
181_L185_S1.1581.00
221_L230_L1.1521.00
310_P317_E1.1481.00
261_I265_T1.1481.00
180_M183_S1.1401.00
278_R282_I1.1311.00
175_K212_I1.1311.00
253_E256_E1.1201.00
252_S290_Y1.1201.00
59_I189_G1.1201.00
148_I176_G1.1151.00
262_L279_A1.1111.00
290_Y293_D1.1081.00
280_S284_R1.0991.00
38_H102_K1.0981.00
212_I298_Y1.0951.00
69_A138_A1.0941.00
167_E294_L1.0931.00
138_A192_I1.0921.00
141_I184_C1.0851.00
250_T287_S1.0851.00
14_V18_N1.0851.00
145_S184_C1.0841.00
186_A203_L1.0811.00
31_T158_S1.0771.00
155_M176_G1.0761.00
190_G200_V1.0741.00
17_V21_I1.0731.00
72_A123_L1.0631.00
268_N275_D1.0621.00
159_F173_M1.0561.00
16_N67_Y1.0531.00
31_T104_G1.0461.00
311_V318_K1.0441.00
318_K322_Y1.0431.00
20_R24_F1.0421.00
30_K34_E1.0401.00
22_K41_T1.0391.00
198_D202_K1.0341.00
312_S316_A1.0321.00
155_M173_M1.0291.00
16_N64_E1.0271.00
52_L73_V1.0261.00
263_V267_G1.0221.00
277_E281_E1.0171.00
69_A188_L1.0141.00
172_Q175_K1.0111.00
209_N305_N1.0081.00
33_E37_F1.0001.00
167_E252_S0.9981.00
53_V67_Y0.9981.00
206_Y306_L0.9871.00
159_F165_V0.9861.00
318_K321_K0.9841.00
12_E16_N0.9761.00
199_V202_K0.9701.00
51_V186_A0.9661.00
174_I212_I0.9661.00
277_E280_S0.9631.00
287_S290_Y0.9631.00
56_S193_N0.9631.00
18_N22_K0.9611.00
87_M110_L0.9611.00
220_I224_I0.9611.00
43_G46_R0.9601.00
53_V66_A0.9591.00
59_I195_A0.9551.00
12_E15_N0.9551.00
217_V295_A0.9511.00
97_P101_V0.9431.00
35_A99_V0.9401.00
298_Y301_L0.9341.00
98_T101_V0.9311.00
89_N105_E0.9301.00
239_R273_K0.9301.00
170_Y248_I0.9291.00
159_F169_E0.9271.00
69_A123_L0.9261.00
224_I255_T0.9241.00
167_E171_I0.9211.00
202_K305_N0.9211.00
165_V169_E0.9161.00
121_E147_E0.9141.00
300_D303_I0.9061.00
301_L304_E0.8991.00
92_L227_E0.8961.00
100_H105_E0.8861.00
16_N19_F0.8841.00
224_I288_L0.8831.00
307_R317_E0.8821.00
274_E277_E0.8821.00
123_L138_A0.8811.00
187_A191_I0.8791.00
217_V292_Y0.8751.00
86_I109_I0.8721.00
17_V71_A0.8681.00
186_A206_Y0.8671.00
11_N15_N0.8661.00
245_I291_A0.8631.00
171_I175_K0.8621.00
14_V50_L0.8621.00
167_E290_Y0.8551.00
69_A192_I0.8531.00
183_S207_G0.8531.00
223_I246_L0.8511.00
39_L99_V0.8491.00
24_F68_K0.8491.00
24_F125_E0.8441.00
171_I212_I0.8431.00
31_T34_E0.8421.00
187_A201_K0.8341.00
275_D278_R0.8331.00
245_I294_L0.8331.00
62_D65_R0.8311.00
205_E208_L0.8311.00
281_E284_R0.8291.00
160_E243_K0.8271.00
124_N140_S0.8221.00
185_S189_G0.8201.00
223_I238_I0.8191.00
136_Y140_S0.8171.00
36_S114_Y0.8091.00
173_M242_K0.8061.00
156_D242_K0.8031.00
19_F22_K0.7991.00
206_Y305_N0.7971.00
76_L142_F0.7961.00
17_V53_V0.7941.00
71_A122_A0.7931.00
51_V210_L0.7921.00
254_A258_E0.7911.00
34_E38_H0.7911.00
254_A282_I0.7881.00
191_I200_V0.7871.00
57_D63_R0.7821.00
221_L225_G0.7811.00
75_I118_K0.7791.00
91_G100_H0.7781.00
121_E125_E0.7731.00
201_K204_T0.7731.00
61_G66_A0.7701.00
120_F143_I0.7691.00
52_L66_A0.7661.00
41_T96_L0.7631.00
57_D316_A0.7621.00
38_H103_W0.7621.00
58_L309_I0.7611.00
225_G229_E0.7581.00
79_F116_H0.7561.00
68_K126_A0.7541.00
36_S115_L0.7461.00
24_F122_A0.7461.00
258_E261_I0.7461.00
312_S317_E0.7431.00
230_L234_I0.7431.00
205_E301_L0.7381.00
121_E140_S0.7351.00
48_R214_F0.7341.00
13_I16_N0.7321.00
99_V103_W0.7281.00
49_P78_N0.7271.00
250_T282_I0.7271.00
141_I145_S0.7251.00
58_L203_L0.7231.00
260_K263_V0.7211.00
273_K277_E0.7201.00
208_L212_I0.7191.00
200_V204_T0.7171.00
247_V266_L0.7171.00
308_E317_E0.7160.99
204_T208_L0.7160.99
256_E260_K0.7130.99
82_V108_A0.7120.99
171_I298_Y0.7120.99
292_Y296_K0.7110.99
276_L280_S0.7100.99
97_P102_K0.7090.99
52_L185_S0.7080.99
155_M159_F0.7080.99
46_R49_P0.7070.99
52_L70_A0.7050.99
297_K300_D0.7020.99
218_D221_L0.7020.99
220_I251_L0.7010.99
251_L263_V0.7000.99
273_K276_L0.6980.99
142_F188_L0.6970.99
288_L292_Y0.6970.99
39_L82_V0.6970.99
15_N19_F0.6940.99
256_E259_K0.6890.99
52_L189_G0.6890.99
99_V102_K0.6880.99
290_Y294_L0.6870.99
230_L233_P0.6840.99
265_T279_A0.6820.99
158_S162_R0.6800.99
235_Y276_L0.6800.99
66_A192_I0.6780.99
80_T181_L0.6770.99
202_K206_Y0.6720.99
13_I53_V0.6660.99
126_A135_F0.6660.99
264_S268_N0.6650.99
287_S291_A0.6650.99
249_K294_L0.6640.99
116_H150_S0.6640.99
214_F218_D0.6630.99
36_S111_A0.6630.99
161_N241_G0.6620.99
77_H80_T0.6610.99
69_A126_A0.6580.99
141_I144_T0.6570.99
168_E171_I0.6560.99
235_Y280_S0.6560.99
167_E245_I0.6550.99
257_D261_I0.6540.99
188_L192_I0.6510.99
48_R77_H0.6480.99
16_N20_R0.6480.99
217_V258_E0.6480.99
137_K141_I0.6470.99
206_Y320_L0.6440.99
67_Y71_A0.6420.99
141_I204_T0.6410.99
168_E172_Q0.6410.99
197_D200_V0.6390.99
38_H96_L0.6390.99
167_E248_I0.6380.99
151_E176_G0.6380.99
176_G180_M0.6350.99
171_I294_L0.6340.99
304_E308_E0.6330.99
26_K33_E0.6280.99
96_L102_K0.6280.99
22_K26_K0.6260.99
20_R67_Y0.6260.99
217_V220_I0.6250.99
272_K276_L0.6240.99
117_A150_S0.6230.99
68_K122_A0.6220.99
202_K205_E0.6220.99
279_A283_I0.6220.99
218_D232_K0.6200.99
220_I295_A0.6160.98
106_P157_M0.6160.98
136_Y139_F0.6160.98
284_R289_Q0.6140.98
293_D300_D0.6090.98
31_T107_M0.6080.98
59_I203_L0.6030.98
16_N63_R0.6030.98
29_F33_E0.6010.98
35_A111_A0.6010.98
11_N14_V0.5990.98
73_V185_S0.5960.98
274_E278_R0.5950.98
65_R126_A0.5940.98
36_S39_L0.5890.98
165_V243_K0.5870.98
178_T214_F0.5840.98
64_E68_K0.5820.98
316_A319_A0.5800.98
82_V115_L0.5800.98
319_A322_Y0.5740.98
249_K257_D0.5730.98
114_Y150_S0.5730.98
17_V67_Y0.5720.98
262_L282_I0.5710.98
225_G234_I0.5700.98
246_L249_K0.5670.97
82_V86_I0.5670.97
39_L78_N0.5660.97
134_T194_K0.5650.97
118_K147_E0.5650.97
149_I182_F0.5640.97
35_A107_M0.5640.97
177_K215_Q0.5610.97
87_M150_S0.5580.97
68_K71_A0.5570.97
206_Y209_N0.5560.97
265_T275_D0.5550.97
175_K180_M0.5540.97
87_M157_M0.5500.97
79_F117_A0.5500.97
173_M243_K0.5490.97
262_L265_T0.5490.97
182_F210_L0.5490.97
213_S299_S0.5480.97
296_K299_S0.5480.97
105_E109_I0.5470.97
90_D222_G0.5450.97
250_T262_L0.5440.97
30_K33_E0.5430.97
45_K214_F0.5400.97
282_I285_K0.5390.97
162_R165_V0.5380.96
54_S319_A0.5370.96
253_E286_H0.5350.96
262_L266_L0.5350.96
271_A275_D0.5340.96
56_S192_I0.5330.96
224_I292_Y0.5320.96
180_M208_L0.5310.96
245_I249_K0.5310.96
236_S239_R0.5300.96
250_T279_A0.5300.96
209_N212_I0.5290.96
84_D88_D0.5290.96
171_I216_I0.5240.96
222_G230_L0.5230.96
160_E240_E0.5210.96
170_Y245_I0.5200.96
227_E230_L0.5200.96
45_K218_D0.5200.96
178_T182_F0.5160.96
58_L316_A0.5140.95
222_G236_S0.5140.95
144_T187_A0.5130.95
61_G189_G0.5130.95
60_G63_R0.5130.95
79_F87_M0.5110.95
73_V188_L0.5090.95
306_L321_K0.5080.95
122_A125_E0.5080.95
21_I41_T0.5060.95
154_A158_S0.5060.95
44_G48_R0.5060.95
179_A212_I0.5040.95
159_F162_R0.5030.95
196_N201_K0.5020.95
261_I282_I0.5010.95
120_F123_L0.5000.95
72_A142_F0.5000.95
216_I257_D0.5000.95
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  
3oyrA 2 0.9729 100 0.048 Contact Map
4jxyA 5 0.9127 100 0.057 Contact Map
3aqbB 1 0.9699 100 0.063 Contact Map
3mzvA 2 0.9729 100 0.065 Contact Map
1wy0A 2 0.9759 100 0.072 Contact Map
3wjkA 2 0.9428 100 0.073 Contact Map
4lobA 2 0.9187 100 0.074 Contact Map
3rmgA 2 0.9127 100 0.08 Contact Map
3lmdA 2 0.9066 100 0.084 Contact Map
4dhdA 2 0.9398 100 0.095 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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