GREMLIN Database
SYW - Tryptophan--tRNA ligase
UniProt: Q97ZX0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 380 (279)
Sequences: 7641 (3633)
Seq/√Len: 217.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
268_D271_T4.2611.00
74_F106_N3.5021.00
133_Y365_K3.3931.00
353_R356_E3.2181.00
108_Y150_F2.7241.00
363_V366_Y2.6901.00
320_E324_E2.5181.00
348_E352_R2.5051.00
174_F192_I2.4791.00
317_R320_E2.4561.00
319_K322_E2.4331.00
106_N150_F2.4051.00
130_S134_D2.2761.00
76_Y110_E2.2381.00
322_E326_R2.2101.00
273_E277_M2.1731.00
97_K101_E2.1531.00
323_E326_R2.1491.00
325_Y338_I2.1231.00
319_K323_E2.0891.00
124_T127_Q2.0811.00
350_H354_R2.0681.00
127_Q130_S2.0481.00
215_I243_F2.0421.00
363_V367_D2.0121.00
178_R192_I1.9991.00
345_N348_E1.9801.00
323_E327_S1.9711.00
267_D275_K1.9671.00
316_N320_E1.9121.00
352_R356_E1.8761.00
81_P116_K1.8581.00
269_P344_N1.8161.00
277_M337_Q1.8141.00
320_E323_E1.7891.00
137_L364_F1.7671.00
203_M231_L1.7511.00
108_Y208_R1.7371.00
285_Q297_N1.7351.00
218_D236_A1.7061.00
76_Y112_T1.6941.00
252_G258_N1.6871.00
351_R355_E1.6831.00
101_E148_K1.6721.00
228_A236_A1.6501.00
273_E340_I1.6441.00
203_M228_A1.6371.00
136_I140_I1.6181.00
316_N324_E1.5931.00
345_N350_H1.5901.00
338_I342_K1.5681.00
333_G337_Q1.5541.00
189_I193_F1.5541.00
137_L358_K1.5381.00
73_F209_C1.5271.00
317_R338_I1.5241.00
356_E360_L1.4861.00
276_I343_L1.4851.00
74_F108_Y1.4811.00
246_P261_T1.4681.00
360_L363_V1.4671.00
362_H366_Y1.4641.00
120_N123_F1.4631.00
169_A193_F1.4571.00
132_A153_Q1.4541.00
174_F178_R1.4321.00
318_I322_E1.4271.00
310_F342_K1.4201.00
307_L339_L1.4141.00
301_D322_E1.4081.00
269_P348_E1.4051.00
144_F149_T1.3951.00
221_W238_Q1.3951.00
341_D345_N1.3911.00
95_F98_W1.3901.00
328_G331_L1.3901.00
218_D238_Q1.3811.00
283_G286_P1.3801.00
328_G334_E1.3691.00
81_P111_I1.3661.00
293_K296_G1.3631.00
77_T92_P1.3621.00
267_D271_T1.3531.00
334_E337_Q1.3531.00
177_V189_I1.3511.00
352_R355_E1.3451.00
79_R139_I1.3401.00
272_V344_N1.3401.00
152_F156_E1.3381.00
142_V350_H1.3361.00
234_Y238_Q1.3161.00
119_R123_F1.3071.00
114_D162_Y1.3071.00
349_E352_R1.2941.00
127_Q131_W1.2891.00
181_F185_A1.2861.00
140_I357_A1.2791.00
152_F205_E1.2621.00
199_I224_Q1.2601.00
111_I136_I1.2581.00
301_D305_Q1.2271.00
324_E338_I1.2221.00
150_F205_E1.2221.00
354_R358_K1.2181.00
340_I344_N1.2181.00
292_R301_D1.2111.00
246_P258_N1.2091.00
136_I364_F1.1861.00
264_Y267_D1.1861.00
77_T212_P1.1791.00
173_T176_E1.1791.00
74_F208_R1.1751.00
100_Q149_T1.1651.00
98_W102_K1.1621.00
161_M164_I1.1561.00
92_P241_S1.1541.00
246_P252_G1.1481.00
153_Q156_E1.1421.00
315_D319_K1.1391.00
76_Y108_Y1.1391.00
165_T169_A1.1341.00
297_N300_I1.1301.00
136_I139_I1.1231.00
176_E226_D1.1191.00
123_F131_W1.1061.00
273_E341_D1.1021.00
138_D354_R1.1021.00
341_D357_A1.0941.00
145_N148_K1.0841.00
161_M205_E1.0761.00
76_Y208_R1.0741.00
360_L366_Y1.0731.00
113_D155_T1.0671.00
304_F321_I1.0641.00
210_L237_A1.0631.00
174_F183_L1.0621.00
126_D130_S1.0611.00
143_G146_P1.0541.00
98_W101_E1.0531.00
248_T252_G1.0521.00
355_E358_K1.0421.00
203_M232_G1.0401.00
91_I309_Y1.0331.00
321_I325_Y1.0321.00
304_F318_I1.0221.00
133_Y136_I1.0161.00
273_E344_N1.0161.00
304_F322_E1.0121.00
311_F342_K1.0111.00
79_R92_P1.0041.00
85_M135_N1.0011.00
328_G332_T0.9911.00
339_L342_K0.9891.00
78_G110_E0.9861.00
129_R133_Y0.9761.00
113_D156_E0.9761.00
342_K345_N0.9761.00
293_K301_D0.9721.00
75_L99_L0.9721.00
338_I341_D0.9681.00
73_F105_A0.9641.00
99_L237_A0.9591.00
155_T159_R0.9541.00
235_K238_Q0.9511.00
311_F315_D0.9491.00
334_E338_I0.9461.00
271_T274_R0.9461.00
172_L227_I0.9441.00
267_D272_V0.9411.00
270_K273_E0.9351.00
275_K344_N0.9280.99
75_L96_T0.9250.99
189_I196_A0.9190.99
95_F346_F0.9140.99
269_P351_R0.9080.99
134_D358_K0.9070.99
172_L223_L0.9060.99
79_R93_F0.9050.99
303_P308_Y0.9010.99
177_V196_A0.8950.99
173_T188_N0.8870.99
305_Q308_Y0.8830.99
108_Y152_F0.8800.99
168_I196_A0.8790.99
159_R163_P0.8770.99
123_F127_Q0.8740.99
324_E327_S0.8730.99
73_F210_L0.8710.99
310_F346_F0.8700.99
133_Y361_V0.8680.99
126_D129_R0.8620.99
228_A232_G0.8540.99
110_E152_F0.8520.99
169_A189_I0.8510.99
130_S133_Y0.8470.99
341_D353_R0.8450.99
274_R278_K0.8430.99
79_R85_M0.8410.99
277_M340_I0.8400.99
170_K190_G0.8380.99
303_P307_L0.8350.99
164_I200_A0.8340.99
301_D325_Y0.8310.99
93_F139_I0.8310.99
272_V347_L0.8280.99
345_N353_R0.8270.99
277_M333_G0.8220.99
324_E328_G0.8220.99
128_T131_W0.8190.99
168_I203_M0.8180.99
236_A239_I0.8170.99
72_G106_N0.8170.99
324_E330_M0.8160.99
119_R122_E0.8150.99
124_T128_T0.8150.99
133_Y137_L0.8150.99
122_E128_T0.8140.99
199_I223_L0.8140.99
85_M139_I0.8100.99
78_G112_T0.8100.99
258_N261_T0.8090.99
171_K230_S0.8050.99
87_I343_L0.8040.98
357_A360_L0.8040.98
358_K361_V0.8040.98
229_E233_Y0.8030.98
89_H93_F0.8020.98
123_F128_T0.8010.98
337_Q341_D0.7970.98
275_K343_L0.7960.98
226_D229_E0.7880.98
168_I200_A0.7860.98
325_Y335_L0.7850.98
325_Y332_T0.7850.98
357_A361_V0.7830.98
125_L128_T0.7790.98
245_P305_Q0.7780.98
234_Y237_A0.7780.98
99_L210_L0.7750.98
316_N319_K0.7690.98
84_G264_Y0.7670.98
344_N348_E0.7610.98
273_E337_Q0.7550.98
248_T258_N0.7550.98
140_I367_D0.7540.98
341_D354_R0.7530.98
265_L347_L0.7500.98
281_F284_G0.7490.98
321_I338_I0.7490.98
143_G147_D0.7470.98
272_V348_E0.7450.98
324_E334_E0.7440.98
239_I242_K0.7380.97
304_F335_L0.7370.97
143_G148_K0.7330.97
141_A144_F0.7320.97
355_E359_E0.7280.97
139_I151_I0.7270.97
299_E339_L0.7230.97
120_N124_T0.7210.97
193_F196_A0.7210.97
202_T224_Q0.7170.97
263_I276_I0.7170.97
307_L310_F0.7160.97
91_I310_F0.7140.97
358_K364_F0.7140.97
342_K346_F0.7040.97
84_G266_V0.7040.97
304_F308_Y0.7010.96
302_V306_W0.6980.96
308_Y318_I0.6980.96
120_N128_T0.6970.96
85_M89_H0.6920.96
331_L334_E0.6910.96
113_D153_Q0.6890.96
315_D318_I0.6880.96
308_Y321_I0.6850.96
349_E353_R0.6840.96
311_F321_I0.6830.96
169_A196_A0.6800.96
90_L95_F0.6800.96
79_R94_I0.6780.96
125_L129_R0.6750.96
113_D132_A0.6730.96
295_G301_D0.6700.95
292_R296_G0.6700.95
165_T193_F0.6680.95
286_P331_L0.6670.95
117_Y125_L0.6650.95
175_S179_A0.6630.95
361_V365_K0.6630.95
361_V364_F0.6620.95
169_A188_N0.6590.95
73_F104_N0.6540.95
140_I146_P0.6530.95
97_K109_I0.6520.95
308_Y322_E0.6490.95
353_R357_A0.6480.95
144_F147_D0.6450.94
171_K231_L0.6360.94
137_L140_I0.6350.94
258_N262_A0.6330.94
311_F317_R0.6320.94
321_I330_M0.6300.94
354_R357_A0.6290.94
87_I310_F0.6290.94
89_H92_P0.6240.93
180_T222_R0.6240.93
196_A227_I0.6230.93
79_R97_K0.6220.93
134_D354_R0.6150.93
234_Y239_I0.6110.93
276_I339_L0.6100.93
356_E359_E0.6080.92
247_L275_K0.6070.92
77_T97_K0.6050.92
344_N351_R0.6010.92
351_R354_R0.6010.92
94_I142_V0.6010.92
300_I322_E0.6000.92
77_T89_H0.5990.92
270_K274_R0.5990.92
165_T189_I0.5960.92
307_L311_F0.5960.92
298_P301_D0.5960.92
141_A145_N0.5950.92
128_T132_A0.5950.92
119_R128_T0.5930.92
120_N127_Q0.5930.92
136_I151_I0.5900.91
144_F151_I0.5890.91
176_E179_A0.5880.91
180_T223_L0.5870.91
269_P347_L0.5870.91
90_L346_F0.5830.91
316_N321_I0.5790.91
176_E230_S0.5790.91
267_D352_R0.5780.90
362_H365_K0.5780.90
131_W134_D0.5770.90
139_I142_V0.5770.90
135_N139_I0.5740.90
318_I321_I0.5720.90
140_I143_G0.5720.90
203_M227_I0.5720.90
359_E362_H0.5700.90
264_Y275_K0.5700.90
222_R225_R0.5690.90
330_M338_I0.5690.90
298_P326_R0.5680.90
136_I141_A0.5670.90
325_Y336_K0.5660.90
95_F241_S0.5660.90
129_R132_A0.5640.89
269_P273_E0.5640.89
150_F153_Q0.5630.89
166_V170_K0.5630.89
182_G185_A0.5620.89
303_P310_F0.5620.89
356_E363_V0.5610.89
74_F207_K0.5600.89
93_F97_K0.5600.89
330_M335_L0.5600.89
160_N164_I0.5600.89
301_D318_I0.5590.89
299_E322_E0.5580.89
270_K333_G0.5570.89
80_A135_N0.5560.89
245_P302_V0.5550.89
138_D142_V0.5550.89
281_F299_E0.5550.89
97_K139_I0.5540.89
322_E325_Y0.5520.88
84_G134_D0.5520.88
138_D266_V0.5510.88
221_W236_A0.5500.88
311_F318_I0.5500.88
164_I196_A0.5490.88
109_I139_I0.5480.88
136_I143_G0.5460.88
307_L335_L0.5450.88
92_P212_P0.5450.88
140_I151_I0.5420.87
344_N347_L0.5410.87
249_G261_T0.5400.87
301_D304_F0.5390.87
105_A210_L0.5380.87
181_F184_D0.5370.87
183_L186_S0.5360.87
265_L346_F0.5330.87
98_W104_N0.5310.86
297_N301_D0.5290.86
114_D167_K0.5280.86
176_E180_T0.5260.86
84_G131_W0.5230.86
101_E104_N0.5220.85
195_P199_I0.5200.85
177_V195_P0.5180.85
168_I199_I0.5160.85
197_L234_Y0.5130.84
91_I95_F0.5130.84
276_I341_D0.5130.84
259_P262_A0.5130.84
79_R109_I0.5120.84
199_I203_M0.5100.84
300_I303_P0.5080.84
79_R89_H0.5070.84
162_Y197_L0.5060.84
83_L89_H0.5050.84
209_C235_K0.5040.83
337_Q361_V0.5040.83
209_C234_Y0.5040.83
211_I221_W0.5030.83
152_F157_Y0.5030.83
294_Y301_D0.5020.83
131_W139_I0.5020.83
317_R342_K0.5000.83
296_G301_D0.5000.83
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  
3jxeA 2 0.9395 100 0.124 Contact Map
2ip1A 1 0.9263 100 0.171 Contact Map
3i05A 2 0.8395 100 0.174 Contact Map
3tzeA 2 0.9105 100 0.18 Contact Map
1r6uA 2 0.9684 100 0.182 Contact Map
3hv0A 2 0.8895 100 0.184 Contact Map
1r6tA 2 0.9658 100 0.19 Contact Map
3focA 4 0.9605 100 0.198 Contact Map
3a04A 2 0.9289 100 0.198 Contact Map
4j76A 2 0.9368 100 0.207 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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