GREMLIN Database
YERD - Glutamate synthase large subunit-like protein YerD
UniProt: O34849 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 525 (438)
Sequences: 1981 (695)
Seq/√Len: 33.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
416_A484_L5.4541.00
495_S498_H5.2501.00
493_I499_F4.7781.00
357_I401_L4.5941.00
138_N476_Y4.2471.00
488_A499_F4.1021.00
225_A260_K3.8421.00
135_D139_L3.6951.00
156_L506_Y3.6181.00
227_I260_K3.6001.00
172_P482_E3.5771.00
357_I403_I3.3591.00
127_I435_S3.3351.00
100_F104_G3.3111.00
168_T494_N3.2651.00
176_K204_A3.1821.00
72_P75_R3.1251.00
405_A418_A3.0541.00
101_D104_G2.9801.00
240_K323_V2.9731.00
197_L473_V2.9491.00
494_N498_H2.9451.00
136_A486_N2.8901.00
447_N457_D2.8891.00
459_K462_K2.8721.00
98_R104_G2.8711.00
348_Q357_I2.8681.00
62_Y73_F2.8521.00
99_D103_P2.8041.00
132_Y136_A2.7821.00
196_A436_V2.7571.00
493_I504_V2.6351.00
340_L359_I2.6111.00
416_A487_L2.6001.00
199_K203_L2.5731.00
488_A496_P2.5631.00
132_Y486_N2.5281.00
98_R102_K2.5071.00
186_Y285_E2.5051.00
348_Q401_L2.5041.00
499_F504_V2.5011.00
98_R103_P2.4461.00
204_A474_C2.4310.99
441_A450_P2.4110.99
231_I262_F2.4020.99
186_Y289_I2.3970.99
102_K105_Y2.3970.99
122_N137_D2.3740.99
158_P506_Y2.3450.99
195_T224_G2.3250.99
420_A499_F2.2740.99
98_R105_Y2.2540.99
101_D105_Y2.2360.99
98_R101_D2.1820.99
139_L483_G2.1280.99
191_E195_T2.1100.99
160_D164_I2.0960.98
116_R119_M2.0890.98
488_A495_S2.0880.98
99_D105_Y2.0090.98
203_L474_C1.9430.97
171_K174_Y1.9340.97
340_L388_V1.8910.97
484_L488_A1.8880.97
487_L490_A1.8850.97
405_A409_L1.8610.97
99_D104_G1.8580.97
173_F478_I1.8520.97
415_I480_L1.8490.97
156_L508_K1.8320.96
496_P499_F1.8030.96
172_P478_I1.8000.96
161_V493_I1.7900.96
180_G404_F1.7820.96
469_K472_R1.7630.95
173_F176_K1.7520.95
157_H491_A1.7520.95
100_F103_P1.7460.95
135_D476_Y1.7430.95
261_A327_P1.7240.95
99_D102_K1.7170.95
329_G356_F1.6880.94
416_A499_F1.6840.94
176_K478_I1.6820.94
78_Y82_V1.6700.94
262_F328_V1.6560.94
77_E81_T1.6560.94
100_F105_Y1.6470.93
159_D506_Y1.6320.93
484_L496_P1.6300.93
71_Q75_R1.6140.93
334_A379_L1.6010.92
263_E404_F1.5960.92
488_A493_I1.5820.92
388_V403_I1.5710.92
413_D417_V1.5680.92
182_S429_A1.5480.91
420_A493_I1.5460.91
183_A210_N1.5300.91
191_E285_E1.5270.90
186_Y191_E1.5160.90
199_K470_Q1.5130.90
218_E254_S1.4950.90
501_K504_V1.4940.89
416_A496_P1.4880.89
254_S258_Q1.4810.89
327_P402_K1.4730.89
476_Y480_L1.4640.89
471_H474_C1.4630.88
197_L432_M1.4600.88
84_S88_K1.4480.88
159_D163_V1.4350.87
79_E515_N1.4300.87
58_E76_K1.4160.87
192_R461_Q1.4140.87
358_T427_N1.4100.87
128_E472_R1.4080.86
161_V504_V1.4020.86
188_S454_A1.3810.85
285_E289_I1.3800.85
483_G486_N1.3800.85
132_Y482_E1.3780.85
174_Y177_G1.3690.85
145_H150_K1.3660.85
79_E514_I1.3650.85
279_G295_G1.3570.84
139_L480_L1.3540.84
137_D140_F1.3460.84
225_A258_Q1.3360.83
159_D490_A1.3320.83
391_L394_Q1.3140.82
495_S499_F1.3120.82
112_F149_I1.3110.82
160_D163_V1.3060.82
510_D513_I1.2810.81
261_A329_G1.2800.81
58_E62_Y1.2770.80
164_I494_N1.2710.80
284_E288_D1.2670.80
188_S429_A1.2630.80
221_L254_S1.2270.78
263_E329_G1.2250.78
130_Q475_N1.2180.77
159_D162_Q1.2130.77
181_Q197_L1.2120.77
358_T424_D1.2080.77
283_S447_N1.1980.76
186_Y443_V1.1950.76
359_I388_V1.1870.75
60_R63_L1.1670.74
257_D323_V1.1670.74
482_E486_N1.1650.74
345_S391_L1.1590.74
340_L405_A1.1550.73
183_A188_S1.1410.72
327_P356_F1.1350.72
186_Y286_V1.1320.72
219_Y288_D1.1320.72
189_L454_A1.1290.72
139_L143_K1.1160.71
284_E443_V1.1140.71
420_A502_E1.1030.70
160_D493_I1.0950.69
140_F144_E1.0950.69
156_L159_D1.0930.69
79_E83_I1.0930.69
419_L496_P1.0930.69
409_L426_V1.0930.69
155_F507_R1.0820.68
150_K153_P1.0750.68
412_P483_G1.0730.68
336_H383_T1.0690.67
418_A426_V1.0660.67
404_F477_V1.0630.67
221_L258_Q1.0530.66
183_A263_E1.0450.66
58_E72_P1.0380.65
404_F408_K1.0350.65
288_D291_N1.0350.65
168_T498_H1.0280.64
145_H434_F1.0230.64
309_N312_E1.0220.64
142_R145_H1.0210.64
165_G168_T1.0200.64
65_S336_H1.0150.63
285_E288_D1.0150.63
67_D383_T1.0140.63
506_Y510_D1.0140.63
114_K150_K1.0120.63
431_G476_Y1.0020.62
203_L470_Q1.0000.62
474_C478_I0.9960.62
58_E73_F0.9940.62
386_P421_L0.9940.62
73_F76_K0.9880.61
419_L426_V0.9850.61
327_P358_T0.9800.60
181_Q432_M0.9690.60
396_G399_S0.9680.59
221_L369_S0.9640.59
210_N263_E0.9590.59
112_F116_R0.9550.58
389_D393_K0.9540.58
436_V473_V0.9490.58
207_T227_I0.9390.57
139_L411_T0.9320.57
157_H416_A0.9290.56
432_M478_I0.9270.56
206_G260_K0.9230.56
286_V447_N0.9230.56
159_D493_I0.9210.56
335_G388_V0.9170.55
176_K206_G0.9150.55
280_A284_E0.9070.55
161_V490_A0.9060.54
371_Y408_K0.9030.54
458_P462_K0.9020.54
439_I451_A0.9010.54
409_L415_I0.8990.54
115_Q443_V0.8990.54
218_E291_N0.8990.54
262_F326_K0.8990.54
318_E322_D0.8970.54
404_F410_L0.8950.54
116_R141_K0.8920.53
157_H487_L0.8880.53
262_F288_D0.8860.53
145_H153_P0.8840.53
122_N134_M0.8820.52
484_L487_L0.8790.52
127_I477_V0.8780.52
211_T260_K0.8760.52
159_D164_I0.8710.52
280_A371_Y0.8640.51
161_V501_K0.8580.50
276_H369_S0.8580.50
148_H153_P0.8570.50
222_K254_S0.8550.50
415_I419_L0.8530.50
381_I418_A0.8500.50
68_N357_I0.8500.50
186_Y405_A0.8470.50
432_M473_V0.8460.49
293_E296_K0.8440.49
283_S443_V0.8420.49
136_A140_F0.8410.49
59_L66_N0.8390.49
284_E294_P0.8350.48
484_L499_F0.8280.48
334_A359_I0.8270.48
115_Q285_E0.8260.48
402_K497_I0.8250.48
60_R64_Y0.8240.48
164_I489_A0.8230.47
408_K429_A0.8230.47
436_V453_V0.8210.47
96_S100_F0.8170.47
416_A419_L0.8170.47
193_A436_V0.8160.47
188_S433_M0.8150.47
150_K363_E0.8120.47
90_R140_F0.8120.47
172_P176_K0.8110.46
385_L405_A0.8100.46
153_P458_P0.8090.46
78_Y85_G0.8080.46
125_P129_T0.8060.46
435_S477_V0.8030.46
143_K153_P0.7990.46
199_K224_G0.7970.45
415_I484_L0.7970.45
115_Q434_F0.7960.45
165_G494_N0.7960.45
112_F147_E0.7960.45
335_G343_L0.7920.45
131_I134_M0.7900.45
270_A277_V0.7850.44
263_E356_F0.7700.43
404_F441_A0.7680.43
431_G478_I0.7680.43
196_A453_V0.7670.43
62_Y276_H0.7660.43
180_G477_V0.7600.42
289_I353_H0.7600.42
127_I472_R0.7590.42
97_V100_F0.7590.42
435_S476_Y0.7580.42
126_K479_S0.7550.42
114_K434_F0.7540.42
371_Y477_V0.7540.42
410_L477_V0.7510.42
227_I424_D0.7510.42
231_I320_L0.7500.41
134_M137_D0.7490.41
206_G506_Y0.7490.41
261_A358_T0.7460.41
362_S453_V0.7320.40
285_E447_N0.7260.40
231_I328_V0.7210.39
84_S197_L0.7210.39
61_Q73_F0.7200.39
122_N497_I0.7160.39
254_S257_D0.7140.39
307_F313_M0.7130.39
194_V220_H0.7130.39
61_Q64_Y0.7070.38
348_Q403_I0.7050.38
119_M142_R0.7030.38
490_A493_I0.7030.38
137_D141_K0.7010.38
418_A496_P0.6990.37
425_F450_P0.6990.37
181_Q441_A0.6990.37
270_A369_S0.6980.37
478_I482_E0.6980.37
496_P504_V0.6970.37
86_K99_D0.6960.37
103_P375_D0.6950.37
443_V448_T0.6940.37
220_H226_D0.6940.37
67_D379_L0.6930.37
106_Y254_S0.6890.37
197_L228_I0.6890.37
120_H405_A0.6880.37
79_E376_T0.6880.37
297_S318_E0.6870.36
434_F440_R0.6870.36
186_Y284_E0.6860.36
435_S469_K0.6850.36
79_E369_S0.6830.36
375_D476_Y0.6820.36
189_L193_A0.6820.36
182_S206_G0.6800.36
132_Y479_S0.6780.36
435_S472_R0.6780.36
190_G456_T0.6770.36
64_Y211_T0.6770.36
196_A469_K0.6770.36
371_Y410_L0.6770.36
133_K137_D0.6760.36
297_S323_V0.6750.36
127_I479_S0.6730.35
107_I110_A0.6730.35
58_E63_L0.6730.35
114_K144_E0.6730.35
115_Q431_G0.6720.35
175_V399_S0.6720.35
80_Q262_F0.6710.35
135_D143_K0.6710.35
405_A426_V0.6700.35
114_K369_S0.6700.35
176_K263_E0.6690.35
204_A478_I0.6680.35
264_L313_M0.6680.35
162_Q166_E0.6650.35
71_Q76_K0.6630.35
318_E424_D0.6630.35
217_S285_E0.6630.35
128_E288_D0.6610.34
179_V428_I0.6610.34
412_P480_L0.6610.34
453_V465_S0.6610.34
186_Y283_S0.6600.34
207_T356_F0.6590.34
363_E381_I0.6590.34
403_I510_D0.6590.34
157_H413_D0.6590.34
77_E80_Q0.6560.34
375_D463_A0.6560.34
130_Q134_M0.6540.34
311_P346_H0.6530.34
180_G261_A0.6520.34
74_S78_Y0.6500.34
431_G480_L0.6500.34
493_I501_K0.6480.34
263_E441_A0.6460.33
97_V104_G0.6440.33
507_R510_D0.6430.33
224_G263_E0.6430.33
305_Y308_S0.6410.33
115_Q457_D0.6380.33
186_Y328_V0.6380.33
207_T425_F0.6370.33
163_V490_A0.6370.33
258_Q322_D0.6370.33
356_F402_K0.6360.33
97_V102_K0.6360.33
182_S329_G0.6350.33
411_T445_H0.6340.32
149_I153_P0.6330.32
186_Y293_E0.6310.32
428_I432_M0.6280.32
186_Y362_S0.6270.32
59_L63_L0.6270.32
130_Q478_I0.6250.32
89_S94_F0.6250.32
61_Q416_A0.6240.32
211_T418_A0.6240.32
309_N330_I0.6230.32
349_K397_L0.6230.32
146_A153_P0.6230.32
240_K254_S0.6220.32
164_I169_C0.6210.32
235_L306_E0.6200.31
285_E429_A0.6200.31
127_I135_D0.6190.31
283_S288_D0.6180.31
114_K153_P0.6170.31
156_L160_D0.6170.31
181_Q477_V0.6170.31
276_H393_K0.6160.31
74_S81_T0.6150.31
439_I463_A0.6150.31
278_D369_S0.6140.31
206_G480_L0.6130.31
136_A139_L0.6120.31
420_A504_V0.6120.31
68_N151_A0.6120.31
82_V85_G0.6100.31
178_L267_A0.6090.31
153_P188_S0.6090.31
369_S377_V0.6080.31
234_G451_A0.6080.31
390_T394_Q0.6070.31
488_A504_V0.6070.31
136_A158_P0.6060.30
425_F439_I0.6050.30
197_L431_G0.6050.30
436_V469_K0.6050.30
266_L356_F0.6040.30
416_A504_V0.6030.30
219_Y222_K0.6030.30
85_G89_S0.6030.30
261_A436_V0.6010.30
182_S472_R0.6000.30
207_T389_D0.6000.30
182_S322_D0.6000.30
115_Q408_K0.5990.30
155_F476_Y0.5990.30
327_P427_N0.5980.30
59_L205_G0.5980.30
61_Q165_G0.5980.30
183_A206_G0.5970.30
180_G284_E0.5960.30
228_I357_I0.5950.30
327_P353_H0.5950.30
432_M477_V0.5940.30
72_P490_A0.5940.30
129_T134_M0.5930.30
155_F506_Y0.5920.29
82_V334_A0.5910.29
191_E224_G0.5910.29
228_I446_T0.5910.29
114_K363_E0.5900.29
342_E345_S0.5900.29
182_S441_A0.5900.29
308_S346_H0.5880.29
280_A288_D0.5880.29
173_F177_G0.5860.29
457_D465_S0.5860.29
420_A491_A0.5860.29
330_I346_H0.5850.29
370_F373_L0.5840.29
276_H373_L0.5840.29
108_R389_D0.5830.29
182_S191_E0.5830.29
284_E447_N0.5830.29
293_E297_S0.5810.29
343_L376_T0.5810.29
156_L509_E0.5810.29
67_D155_F0.5810.29
491_A499_F0.5810.29
181_Q184_M0.5800.29
126_K427_N0.5800.29
254_S424_D0.5790.29
191_E283_S0.5790.29
456_T461_Q0.5790.29
125_P134_M0.5790.29
408_K435_S0.5780.29
426_V496_P0.5780.29
80_Q362_S0.5780.29
122_N141_K0.5780.29
180_G443_V0.5760.28
296_K389_D0.5760.28
263_E358_T0.5750.28
309_N349_K0.5740.28
292_V296_K0.5740.28
94_F99_D0.5740.28
303_R308_S0.5740.28
415_I432_M0.5720.28
363_E443_V0.5710.28
261_A379_L0.5710.28
436_V474_C0.5660.28
120_H436_V0.5660.28
74_S85_G0.5660.28
389_D453_V0.5650.28
234_G495_S0.5650.28
356_F404_F0.5650.28
107_I439_I0.5650.28
169_C489_A0.5650.28
374_A389_D0.5640.28
176_K183_A0.5640.28
156_L490_A0.5640.28
260_K356_F0.5630.28
508_K511_G0.5630.28
453_V484_L0.5630.28
189_L327_P0.5620.27
138_N390_T0.5620.27
74_S487_L0.5610.27
172_P486_N0.5600.27
224_G328_V0.5590.27
270_A363_E0.5590.27
104_G375_D0.5590.27
180_G206_G0.5580.27
473_V477_V0.5580.27
283_S457_D0.5580.27
321_R353_H0.5580.27
415_I426_V0.5580.27
340_L418_A0.5580.27
448_T457_D0.5570.27
508_K512_S0.5570.27
420_A488_A0.5550.27
71_Q79_E0.5550.27
112_F409_L0.5540.27
385_L399_S0.5540.27
95_G167_H0.5530.27
416_A488_A0.5530.27
234_G454_A0.5530.27
61_Q356_F0.5530.27
95_G100_F0.5520.27
114_K410_L0.5520.27
315_D371_Y0.5510.27
276_H297_S0.5510.27
164_I498_H0.5500.27
78_Y328_V0.5490.27
191_E217_S0.5470.26
210_N329_G0.5470.26
431_G473_V0.5460.26
238_V307_F0.5460.26
196_A471_H0.5440.26
155_F350_S0.5440.26
71_Q318_E0.5430.26
186_Y497_I0.5430.26
180_G408_K0.5430.26
68_N276_H0.5420.26
225_A399_S0.5420.26
443_V457_D0.5420.26
484_L504_V0.5410.26
109_N222_K0.5410.26
330_I354_P0.5410.26
67_D380_P0.5400.26
266_L383_T0.5400.26
375_D445_H0.5390.26
77_E393_K0.5390.26
305_Y310_P0.5380.26
280_A283_S0.5380.26
191_E289_I0.5380.26
69_E86_K0.5370.26
485_F489_A0.5360.26
315_D319_K0.5360.26
152_D308_S0.5350.26
74_S399_S0.5350.26
129_T137_D0.5330.26
261_A285_E0.5330.26
130_Q472_R0.5330.26
239_R291_N0.5330.26
122_N127_I0.5320.25
308_S311_P0.5310.25
174_Y498_H0.5290.25
74_S162_Q0.5290.25
329_G389_D0.5280.25
311_P349_K0.5280.25
157_H403_I0.5280.25
87_Y99_D0.5280.25
207_T228_I0.5270.25
357_I510_D0.5260.25
427_N503_H0.5260.25
150_K362_S0.5260.25
341_H395_Y0.5260.25
282_V314_L0.5260.25
266_L270_A0.5250.25
188_S374_A0.5250.25
441_A446_T0.5250.25
180_G283_S0.5250.25
240_K297_S0.5240.25
65_S78_Y0.5240.25
180_G329_G0.5220.25
211_T297_S0.5210.25
180_G410_L0.5210.25
58_E118_E0.5200.25
257_D391_L0.5200.25
117_E210_N0.5200.25
293_E433_M0.5190.25
303_R316_F0.5180.25
285_E408_K0.5180.25
219_Y289_I0.5180.25
135_D138_N0.5170.25
276_H370_F0.5170.25
117_E123_Q0.5170.25
293_E327_P0.5160.24
297_S400_Q0.5160.24
159_D504_V0.5160.24
62_Y132_Y0.5160.24
309_N346_H0.5150.24
313_M330_I0.5150.24
310_P346_H0.5150.24
404_F432_M0.5150.24
171_K396_G0.5140.24
211_T286_V0.5140.24
142_R149_I0.5140.24
107_I448_T0.5130.24
235_L346_H0.5130.24
80_Q85_G0.5130.24
211_T258_Q0.5130.24
323_V340_L0.5120.24
161_V167_H0.5120.24
118_E122_N0.5120.24
61_Q453_V0.5120.24
80_Q369_S0.5110.24
404_F443_V0.5100.24
132_Y284_E0.5100.24
210_N363_E0.5100.24
83_I86_K0.5090.24
114_K231_I0.5090.24
500_S505_V0.5090.24
336_H486_N0.5080.24
458_P503_H0.5080.24
85_G90_R0.5070.24
180_G207_T0.5070.24
303_R311_P0.5060.24
198_S363_E0.5060.24
127_I470_Q0.5060.24
408_K469_K0.5050.24
236_F365_G0.5050.24
197_L297_S0.5050.24
82_V508_K0.5050.24
295_G320_L0.5040.24
425_F441_A0.5040.24
206_G510_D0.5040.24
106_Y116_R0.5040.24
391_L450_P0.5040.24
161_V171_K0.5030.24
206_G458_P0.5030.24
150_K399_S0.5030.24
75_R510_D0.5030.24
359_I402_K0.5030.24
396_G509_E0.5030.24
315_D350_S0.5020.24
75_R463_A0.5020.24
206_G329_G0.5020.24
308_S319_K0.5020.24
183_A408_K0.5010.24
164_I504_V0.5010.24
69_E81_T0.5010.24
408_K477_V0.5010.24
105_Y166_E0.5000.24
197_L369_S0.5000.24
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  
1ofdA 1 0.9086 100 0.517 Contact Map
1ea0A 1 0.9067 100 0.527 Contact Map
2qr6A 3 0.6552 100 0.865 Contact Map
3r2gA 3 0.581 100 0.867 Contact Map
2c6qA 4 0.5905 99.9 0.876 Contact Map
4zqmA 3 0.5714 99.9 0.877 Contact Map
1eepA 4 0.5524 99.9 0.878 Contact Map
1p0kA 4 0.5676 99.9 0.879 Contact Map
3vkjA 4 0.6286 99.9 0.88 Contact Map
4x3zA 3 0.6286 99.9 0.88 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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