GREMLIN Database
SYH - Histidine--tRNA ligase
UniProt: Q980L3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 426 (406)
Sequences: 8015 (5195)
Seq/√Len: 257.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
399_M412_S3.7751.00
30_D150_K3.3691.00
160_K265_D3.3391.00
302_E308_P3.2811.00
404_N407_T3.0541.00
103_Y125_G3.0441.00
149_D157_I2.9991.00
67_K71_D2.8261.00
231_A249_L2.7131.00
256_S262_F2.6191.00
397_K412_S2.5891.00
414_P417_N2.5731.00
348_A351_T2.5621.00
351_T355_M2.5421.00
417_N420_D2.5291.00
401_T410_Q2.3371.00
393_Q397_K2.3371.00
399_M414_P2.3141.00
27_T150_K2.3011.00
353_S363_V2.3001.00
67_K73_E2.2811.00
31_L150_K2.2741.00
387_A405_L2.2121.00
335_N362_K2.1831.00
26_S30_D2.1521.00
138_V254_I2.1421.00
32_A124_A2.1231.00
29_R39_E2.1151.00
28_F147_F2.0911.00
22_R25_E2.0521.00
10_M45_V2.0281.00
130_G133_S2.0221.00
392_K396_E2.0201.00
344_E396_E2.0081.00
338_V353_S2.0001.00
306_G310_P1.9961.00
371_P374_K1.9791.00
130_G137_D1.9221.00
48_F52_E1.9111.00
40_I87_A1.9011.00
336_V361_Y1.9001.00
17_D326_K1.8761.00
348_A395_L1.8421.00
22_R39_E1.8411.00
65_V73_E1.8051.00
275_Y278_L1.7991.00
23_Y27_T1.7921.00
386_L402_V1.7831.00
20_K326_K1.7811.00
35_Y146_N1.7731.00
126_I140_V1.7611.00
144_L282_V1.7591.00
376_L389_I1.7381.00
34_K146_N1.7281.00
24_L322_L1.7191.00
68_D72_R1.7131.00
158_T263_K1.7131.00
40_I84_V1.7131.00
34_K150_K1.6861.00
248_L264_V1.6821.00
28_F318_V1.6651.00
353_S365_I1.6571.00
335_N361_Y1.6411.00
142_D146_N1.6411.00
393_Q396_E1.6411.00
44_V105_G1.6361.00
37_Y100_R1.6211.00
146_N354_R1.6091.00
33_K102_F1.6061.00
44_V108_Y1.5981.00
388_I400_I1.5941.00
228_E232_E1.5821.00
30_D34_K1.5751.00
122_R319_E1.5581.00
355_M358_K1.5571.00
218_T257_S1.5501.00
77_R105_G1.5461.00
169_K238_K1.5451.00
353_S357_R1.5431.00
372_L376_L1.5331.00
295_G299_K1.5311.00
48_F75_S1.5141.00
252_S256_S1.5071.00
135_L292_A1.5071.00
253_R257_S1.5071.00
106_T120_E1.5031.00
242_K246_E1.5001.00
183_H236_V1.4971.00
182_E186_H1.4961.00
145_Y149_D1.4871.00
201_E204_I1.4771.00
142_D258_L1.4651.00
347_P351_T1.4611.00
344_E392_K1.4591.00
177_E180_L1.4561.00
135_L139_E1.4461.00
355_M415_L1.4371.00
22_R29_R1.4351.00
48_F73_E1.4341.00
249_L253_R1.4271.00
80_I103_Y1.4101.00
133_S136_A1.4061.00
400_I415_L1.3991.00
337_I379_Y1.3991.00
340_G349_M1.3921.00
225_E229_S1.3911.00
166_I169_K1.3841.00
80_I125_G1.3821.00
386_L404_N1.3821.00
128_M136_A1.3821.00
126_I143_L1.3761.00
7_V45_V1.3681.00
325_I331_E1.3571.00
158_T285_P1.3571.00
306_G309_S1.3451.00
221_E226_D1.3321.00
144_L292_A1.3271.00
85_A301_I1.3241.00
133_S137_D1.3231.00
53_L89_I1.3231.00
7_V10_M1.3221.00
253_R347_P1.3221.00
401_T412_S1.3061.00
342_S345_A1.3031.00
169_K244_E1.3001.00
197_L205_K1.2981.00
20_K322_L1.2931.00
336_V356_L1.2861.00
257_S347_P1.2861.00
342_S392_K1.2801.00
272_L275_Y1.2771.00
48_F65_V1.2721.00
25_E41_I1.2701.00
338_V349_M1.2691.00
295_G311_A1.2681.00
202_K205_K1.2661.00
139_E142_D1.2621.00
246_E250_R1.2561.00
22_R33_K1.2551.00
145_Y159_I1.2551.00
16_I19_E1.2541.00
402_V413_I1.2501.00
253_R256_S1.2491.00
336_V388_I1.2481.00
218_T280_F1.2471.00
22_R26_S1.2401.00
354_R358_K1.2361.00
7_V74_I1.2321.00
100_R364_V1.2301.00
160_K263_K1.2291.00
250_R254_I1.2211.00
340_G375_L1.2161.00
402_V418_V1.2121.00
21_I122_R1.2121.00
160_K283_L1.2091.00
355_M359_E1.2071.00
238_K244_E1.2041.00
72_R110_Y1.2011.00
370_Q374_K1.1941.00
268_F271_G1.1891.00
69_K110_Y1.1891.00
243_N246_E1.1871.00
35_Y143_L1.1861.00
37_Y128_M1.1861.00
145_Y157_I1.1851.00
250_R253_R1.1831.00
206_N210_M1.1781.00
398_N416_E1.1771.00
80_I107_V1.1671.00
21_I319_E1.1631.00
44_V120_E1.1521.00
124_A318_V1.1481.00
44_V106_T1.1461.00
359_E419_L1.1441.00
230_L233_L1.1431.00
336_V363_V1.1391.00
189_D209_I1.1361.00
18_A22_R1.1351.00
14_I87_A1.1351.00
403_R410_Q1.1331.00
85_A129_I1.1331.00
118_Y319_E1.1321.00
204_I218_T1.1251.00
39_E102_F1.1251.00
393_Q412_S1.1181.00
214_N217_L1.1171.00
385_K404_N1.1101.00
28_F124_A1.1101.00
45_V76_L1.1031.00
19_E33_K1.1021.00
88_Y101_L1.0981.00
252_S264_V1.0951.00
248_L251_L1.0931.00
25_E29_R1.0901.00
252_S262_F1.0891.00
271_G274_Y1.0881.00
245_F249_L1.0871.00
350_F354_R1.0831.00
376_L380_A1.0761.00
27_T151_L1.0731.00
246_E249_L1.0681.00
222_A225_E1.0641.00
269_V272_L1.0631.00
355_M419_L1.0611.00
413_I418_V1.0561.00
242_K245_F1.0501.00
341_I372_L1.0441.00
28_F32_A1.0421.00
340_G365_I1.0411.00
345_A348_A1.0401.00
29_R104_F1.0361.00
52_E73_E1.0351.00
166_I238_K1.0321.00
180_L184_V1.0321.00
42_T83_S1.0311.00
348_A390_I1.0261.00
188_I215_M1.0261.00
415_L419_L1.0241.00
348_A415_L1.0231.00
13_Y21_I1.0181.00
26_S29_R1.0141.00
338_V352_V1.0131.00
400_I413_I1.0111.00
245_F248_L1.0101.00
121_F315_A1.0081.00
8_R112_E1.0071.00
254_I258_L1.0061.00
181_Q185_L1.0021.00
403_R408_R0.9961.00
35_Y100_R0.9951.00
140_V312_I0.9901.00
11_K319_E0.9901.00
338_V363_V0.9871.00
249_L252_S0.9851.00
92_L95_S0.9831.00
7_V47_E0.9811.00
80_I105_G0.9791.00
380_A403_R0.9771.00
19_E38_S0.9771.00
55_G58_E0.9741.00
339_V372_L0.9711.00
221_E225_E0.9681.00
388_I402_V0.9631.00
380_A405_L0.9601.00
146_N358_K0.9551.00
198_V202_K0.9521.00
131_D305_G0.9491.00
323_L326_K0.9421.00
129_I301_I0.9411.00
275_Y280_F0.9401.00
345_A395_L0.9401.00
280_F283_L0.9401.00
84_V125_G0.9311.00
77_R80_I0.9311.00
177_E184_V0.9301.00
231_A238_K0.9251.00
385_K406_I0.9251.00
224_L256_S0.9221.00
224_L233_L0.9211.00
65_V75_S0.9201.00
278_L282_V0.9201.00
42_T84_V0.9201.00
154_S328_L0.9201.00
199_I202_K0.9191.00
337_I384_F0.9181.00
271_G275_Y0.9141.00
45_V74_I0.9141.00
11_K17_D0.9121.00
400_I418_V0.9121.00
146_N149_D0.9101.00
264_V268_F0.9091.00
374_K377_P0.9091.00
201_E218_T0.9071.00
317_G320_R0.9061.00
146_N150_K0.8991.00
141_L159_I0.8981.00
414_P418_V0.8971.00
27_T30_D0.8961.00
275_Y279_I0.8961.00
29_R102_F0.8951.00
49_K52_E0.8911.00
339_V387_A0.8911.00
52_E58_E0.8891.00
390_I400_I0.8881.00
57_E75_S0.8871.00
351_T415_L0.8821.00
224_L230_L0.8801.00
223_K227_I0.8801.00
26_S33_K0.8751.00
70_A110_Y0.8751.00
31_L147_F0.8711.00
277_G280_F0.8711.00
404_N409_K0.8711.00
203_N206_N0.8701.00
279_I282_V0.8681.00
307_L310_P0.8601.00
27_T31_L0.8601.00
271_G276_T0.8581.00
299_K302_E0.8571.00
25_E39_E0.8571.00
296_R300_L0.8560.99
366_N370_Q0.8510.99
352_V355_M0.8510.99
100_R126_I0.8500.99
274_Y279_I0.8490.99
380_A387_A0.8460.99
195_E198_V0.8430.99
147_F316_I0.8400.99
158_T261_K0.8330.99
34_K361_Y0.8320.99
186_H189_D0.8290.99
159_I282_V0.8260.99
45_V64_Y0.8250.99
373_S377_P0.8250.99
18_A21_I0.8230.99
388_I418_V0.8210.99
68_D71_D0.8150.99
231_A246_E0.8140.99
145_Y261_K0.8130.99
66_F74_I0.8120.99
148_Y157_I0.8120.99
166_I244_E0.8070.99
254_I257_S0.8060.99
45_V66_F0.8050.99
220_K283_L0.8040.99
31_L146_N0.8030.99
104_F124_A0.8020.99
29_R33_K0.8010.99
265_D268_F0.7980.99
84_V101_L0.7980.99
23_Y362_K0.7980.99
387_A410_Q0.7970.99
11_K118_Y0.7950.99
6_T90_Q0.7920.99
117_R317_G0.7920.99
219_K230_L0.7910.99
18_A41_I0.7820.99
208_D215_M0.7820.99
269_V273_A0.7810.99
44_V76_L0.7760.99
275_Y281_E0.7740.99
138_V172_D0.7740.99
340_G346_I0.7720.99
364_V384_F0.7710.99
247_Y277_G0.7690.99
121_F320_R0.7690.99
138_V258_L0.7650.99
141_L172_D0.7620.99
346_I350_F0.7610.99
229_S232_E0.7600.99
283_L290_S0.7570.99
108_Y120_E0.7560.99
198_V201_E0.7560.99
372_L389_I0.7550.99
23_Y26_S0.7540.99
25_E318_V0.7490.99
357_R363_V0.7490.99
336_V418_V0.7480.99
275_Y282_V0.7480.99
33_K362_K0.7410.99
345_A392_K0.7380.99
338_V388_I0.7380.99
247_Y251_L0.7370.98
184_V187_L0.7360.98
62_T65_V0.7340.98
21_I41_I0.7340.98
180_L187_L0.7330.98
225_E228_E0.7330.98
111_D320_R0.7310.98
248_L252_S0.7300.98
115_Y327_D0.7280.98
35_Y357_R0.7280.98
88_Y129_I0.7190.98
227_I231_A0.7180.98
220_K223_K0.7170.98
268_F279_I0.7160.98
10_M42_T0.7160.98
224_L227_I0.7140.98
88_Y97_K0.7140.98
338_V365_I0.7140.98
282_V292_A0.7130.98
86_R90_Q0.7130.98
34_K357_R0.7060.98
305_G309_S0.7060.98
157_I282_V0.7050.98
377_P380_A0.7040.98
276_T280_F0.7020.98
165_G247_Y0.7010.98
148_Y292_A0.6960.98
292_A316_I0.6930.98
272_L278_L0.6920.98
252_S255_L0.6920.98
177_E187_L0.6920.98
134_I292_A0.6880.98
270_R273_A0.6850.98
352_V415_L0.6820.98
212_F215_M0.6820.98
244_E248_L0.6820.98
274_Y281_E0.6810.97
35_Y140_V0.6800.97
339_V375_L0.6780.97
258_L350_F0.6750.97
355_M416_E0.6750.97
109_R121_F0.6750.97
49_K72_R0.6740.97
197_L208_D0.6740.97
335_N384_F0.6720.97
340_G343_E0.6710.97
89_I304_Y0.6710.97
211_D214_N0.6700.97
139_E357_R0.6690.97
79_E82_P0.6680.97
13_Y17_D0.6680.97
106_T122_R0.6660.97
31_L35_Y0.6650.97
25_E104_F0.6640.97
111_D317_G0.6620.97
200_L203_N0.6620.97
88_Y99_I0.6610.97
396_E399_M0.6560.97
111_D117_R0.6550.97
249_L256_S0.6550.97
186_H190_K0.6530.97
128_M140_V0.6520.97
141_L290_S0.6500.97
84_V103_Y0.6490.97
268_F274_Y0.6480.97
414_P419_L0.6470.97
276_T279_I0.6460.97
132_S298_D0.6460.97
343_E350_F0.6420.96
227_I230_L0.6410.96
337_I340_G0.6400.96
272_L279_I0.6400.96
59_L62_T0.6390.96
251_L278_L0.6380.96
141_L145_Y0.6370.96
274_Y278_L0.6360.96
88_Y309_S0.6350.96
185_L189_D0.6350.96
377_P381_S0.6340.96
210_M213_L0.6330.96
277_G281_E0.6320.96
277_G282_V0.6320.96
349_M365_I0.6310.96
301_I309_S0.6300.96
404_N408_R0.6300.96
208_D211_D0.6290.96
18_A39_E0.6290.96
270_R275_Y0.6290.96
376_L387_A0.6270.96
231_A236_V0.6270.96
411_I415_L0.6270.96
224_L229_S0.6260.96
8_R113_P0.6240.96
126_I314_F0.6230.96
151_L321_T0.6180.96
407_T411_I0.6180.96
376_L405_L0.6180.96
218_T223_K0.6150.95
197_L209_I0.6150.95
27_T147_F0.6140.95
41_I105_G0.6140.95
148_Y316_I0.6130.95
356_L418_V0.6100.95
389_I410_Q0.6090.95
205_K209_I0.6080.95
325_I329_K0.6080.95
31_L34_K0.6080.95
272_L280_F0.6060.95
398_N415_L0.6050.95
255_L260_V0.6040.95
179_N182_E0.6020.95
148_Y321_T0.6020.95
232_E235_E0.6010.95
153_L324_V0.5990.95
270_R281_E0.5990.95
274_Y282_V0.5980.95
242_K256_S0.5970.95
216_I219_K0.5960.95
336_V386_L0.5960.95
272_L276_T0.5950.95
218_T283_L0.5940.95
335_N385_K0.5910.94
269_V279_I0.5910.94
206_N209_I0.5910.94
277_G283_L0.5900.94
339_V389_I0.5890.94
54_K58_E0.5890.94
269_V282_V0.5890.94
251_L255_L0.5880.94
404_N411_I0.5880.94
256_S259_N0.5870.94
271_G281_E0.5860.94
121_F317_G0.5850.94
184_V188_I0.5840.94
190_K196_A0.5830.94
268_F275_Y0.5780.94
343_E346_I0.5780.94
380_A408_R0.5770.94
338_V390_I0.5750.94
117_R121_F0.5750.94
12_D42_T0.5740.93
269_V275_Y0.5730.93
207_K211_D0.5720.93
40_I101_L0.5720.93
278_L281_E0.5720.93
169_K173_K0.5710.93
144_L314_F0.5700.93
355_M420_D0.5700.93
244_E252_S0.5700.93
266_L275_Y0.5690.93
344_E347_P0.5690.93
351_T354_R0.5690.93
250_R256_S0.5680.93
119_R317_G0.5670.93
84_V129_I0.5660.93
30_D360_E0.5660.93
214_N218_T0.5660.93
411_I417_N0.5650.93
12_D43_P0.5640.93
257_S260_V0.5630.93
413_I419_L0.5630.93
269_V274_Y0.5630.93
138_V251_L0.5620.93
180_L183_H0.5620.93
6_T12_D0.5610.93
6_T91_N0.5610.93
269_V278_L0.5600.93
149_D154_S0.5590.93
37_Y126_I0.5580.93
137_D140_V0.5550.92
242_K255_L0.5530.92
117_R320_R0.5510.92
21_I25_E0.5510.92
12_D86_R0.5500.92
299_K308_P0.5500.92
134_I251_L0.5500.92
142_D145_Y0.5490.92
158_T283_L0.5490.92
111_D121_F0.5470.92
41_I106_T0.5450.92
189_D197_L0.5450.92
32_A126_I0.5450.92
341_I389_I0.5440.92
255_L259_N0.5440.92
153_L325_I0.5430.91
136_A139_E0.5420.91
53_L57_E0.5420.91
134_I138_V0.5390.91
107_V125_G0.5370.91
352_V390_I0.5370.91
268_F283_L0.5370.91
54_K59_L0.5360.91
149_D358_K0.5340.91
86_R89_I0.5330.91
35_Y142_D0.5310.91
267_G272_L0.5300.91
271_G278_L0.5290.90
119_R271_G0.5290.90
242_K249_L0.5280.90
196_A199_I0.5280.90
332_E385_K0.5280.90
163_N247_Y0.5280.90
64_Y74_I0.5260.90
54_K293_G0.5260.90
228_E231_A0.5260.90
344_E348_A0.5250.90
50_L304_Y0.5250.90
244_E247_Y0.5250.90
201_E223_K0.5240.90
135_L254_I0.5230.90
233_L236_V0.5230.90
268_F272_L0.5220.90
221_E229_S0.5210.90
63_M75_S0.5210.90
278_L283_L0.5210.90
334_I362_K0.5200.90
326_K329_K0.5200.90
247_Y250_R0.5190.90
24_L27_T0.5180.90
267_G275_Y0.5180.90
289_F320_R0.5180.90
378_Y382_Q0.5160.89
242_K254_I0.5160.89
271_G279_I0.5150.89
405_L408_R0.5150.89
50_L86_R0.5150.89
87_A91_N0.5150.89
272_L281_E0.5140.89
373_S376_L0.5140.89
69_K74_I0.5130.89
364_V382_Q0.5130.89
212_F217_L0.5120.89
334_I384_F0.5100.89
407_T410_Q0.5100.89
142_D354_R0.5090.89
100_R128_M0.5080.89
52_E63_M0.5080.89
270_R274_Y0.5080.89
83_S105_G0.5070.88
329_K406_I0.5060.88
34_K363_V0.5050.88
187_L284_H0.5040.88
291_I321_T0.5030.88
19_E362_K0.5010.88
183_H186_H0.5010.88
368_K373_S0.5000.88
404_N410_Q0.5000.88
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  
1wu7A 2 0.9671 100 0.196 Contact Map
4phcA 2 0.9742 100 0.202 Contact Map
3netA 2 0.9624 100 0.204 Contact Map
3lc0A 2 0.9413 100 0.211 Contact Map
4g84A 2 0.9695 100 0.219 Contact Map
1httA 2 0.8333 100 0.222 Contact Map
1h4vB 2 0.9272 100 0.233 Contact Map
3od1A 2 0.885 100 0.24 Contact Map
4e51A 2 0.9437 100 0.245 Contact Map
1qe0A 2 0.8897 100 0.247 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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