GREMLIN Database
YHHJ - Inner membrane transport permease YhhJ
UniProt: P0AGH1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11767
Length: 374 (356)
Sequences: 11397 (9478)
Seq/√Len: 502.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
53_A95_Y5.1561.00
262_G330_L5.0511.00
86_M98_A4.5721.00
82_T85_E4.0121.00
104_N108_D3.7231.00
89_G95_Y3.6651.00
108_D113_R3.5551.00
10_L223_A3.5191.00
12_I16_R3.1361.00
7_I226_W3.0401.00
88_A92_A2.8101.00
11_G226_W2.6731.00
83_A87_D2.6441.00
90_L98_A2.5261.00
14_E224_K2.5231.00
11_G230_L2.4641.00
263_V327_F2.4281.00
313_Q317_D2.3761.00
89_G94_R2.3741.00
349_L353_A2.3301.00
87_D91_D2.3241.00
276_F361_I2.3151.00
216_T219_E2.3081.00
268_F355_G2.3081.00
57_M83_A2.2871.00
345_W349_L2.2691.00
80_M89_G2.2681.00
135_Y139_I2.2341.00
7_I11_G2.1951.00
101_I105_F2.1611.00
32_F35_S2.1321.00
54_I67_V2.1291.00
265_L352_M2.1081.00
100_N120_N2.0901.00
56_D63_S2.0771.00
85_E89_G2.0601.00
16_R19_L2.0601.00
353_A357_A2.0531.00
13_K201_E2.0361.00
243_M247_V2.0231.00
144_V147_F2.0221.00
242_L246_G1.9781.00
8_F12_I1.9741.00
53_A80_M1.9341.00
269_A355_G1.9081.00
83_A100_N1.8401.00
266_S327_F1.8221.00
81_I85_E1.8181.00
32_F42_V1.8181.00
308_R319_M1.8151.00
32_F38_S1.7931.00
272_S355_G1.7681.00
319_M325_T1.7541.00
265_L355_G1.7361.00
237_G260_M1.7321.00
49_L77_P1.7161.00
88_A91_D1.7161.00
340_G343_I1.7121.00
57_M100_N1.6941.00
266_S270_T1.6671.00
320_L326_H1.6661.00
60_S63_S1.6621.00
56_D60_S1.6491.00
58_D106_Q1.6181.00
262_G334_I1.6111.00
329_S347_Q1.5791.00
229_G268_F1.5641.00
63_S106_Q1.5581.00
232_V267_L1.5481.00
320_L325_T1.5431.00
85_E88_A1.5371.00
131_T135_Y1.5351.00
56_D59_Q1.5321.00
84_D87_D1.5181.00
333_A337_R1.5021.00
257_P261_L1.4941.00
354_I358_F1.4881.00
95_Y98_A1.4851.00
172_D175_W1.4741.00
258_L334_I1.4651.00
55_A86_M1.4611.00
19_L22_K1.4551.00
229_G264_A1.4371.00
68_N71_Y1.4351.00
262_G348_F1.4301.00
35_S39_S1.3831.00
346_P350_T1.3821.00
265_L348_F1.3761.00
180_M183_I1.3511.00
65_R68_N1.3471.00
233_L264_A1.3251.00
57_M103_P1.3201.00
144_V148_V1.3061.00
201_E224_K1.2941.00
279_T365_R1.2891.00
269_A351_L1.2821.00
78_P81_I1.2821.00
314_M317_D1.2821.00
147_F150_R1.2801.00
16_R20_G1.2651.00
60_S106_Q1.2591.00
84_D88_A1.2521.00
15_L234_V1.2501.00
255_S258_L1.2411.00
199_I202_R1.2361.00
35_S38_S1.2271.00
308_R311_M1.2221.00
350_T354_I1.2171.00
62_L109_V1.2151.00
199_I287_L1.2151.00
90_L95_Y1.2091.00
143_E147_F1.2041.00
269_A358_F1.2001.00
156_E159_V1.1811.00
333_A339_A1.1801.00
360_T364_L1.1791.00
316_Q320_L1.1781.00
350_T353_A1.1721.00
322_M325_T1.1681.00
283_S286_Q1.1661.00
61_Q64_N1.1571.00
273_I294_V1.1511.00
53_A89_G1.1501.00
81_I89_G1.1491.00
201_E206_T1.1471.00
58_D104_N1.1431.00
106_Q110_L1.1381.00
218_F222_M1.1351.00
11_G223_A1.1341.00
189_L192_V1.1271.00
69_S72_R1.1241.00
184_N327_F1.1241.00
83_A98_A1.1231.00
7_I219_E1.1191.00
122_D125_R1.1191.00
326_H347_Q1.1121.00
7_I222_M1.1111.00
230_L234_V1.0981.00
326_H350_T1.0931.00
313_Q316_Q1.0901.00
51_P77_P1.0901.00
276_F362_A1.0831.00
104_N107_R1.0811.00
317_D321_T1.0791.00
314_M318_I1.0781.00
142_G146_S1.0751.00
100_N118_Q1.0751.00
33_T37_Y1.0691.00
295_L299_Q1.0651.00
52_I56_D1.0641.00
138_N142_G1.0541.00
195_G287_L1.0531.00
352_M356_G1.0441.00
157_P160_S1.0391.00
181_A184_N1.0391.00
219_E223_A1.0331.00
348_F352_M1.0301.00
156_E160_S1.0261.00
39_S42_V1.0241.00
62_L106_Q1.0201.00
119_V122_D1.0181.00
179_V183_I1.0131.00
312_P316_Q1.0121.00
35_S43_T1.0101.00
134_G138_N1.0081.00
179_V182_I1.0081.00
357_A361_I1.0081.00
87_D120_N1.0061.00
7_I223_A1.0011.00
187_T191_I1.0001.00
311_M316_Q0.9991.00
221_M363_L0.9981.00
39_S43_T0.9961.00
146_S150_R0.9941.00
15_L227_S0.9941.00
269_A354_I0.9921.00
276_F365_R0.9901.00
59_Q103_P0.9881.00
267_L271_T0.9861.00
130_F133_N0.9861.00
244_V247_V0.9841.00
325_T329_S0.9811.00
218_F363_L0.9791.00
182_I185_N0.9711.00
344_V348_F0.9701.00
276_F358_F0.9691.00
133_N136_I0.9671.00
188_M191_I0.9641.00
132_G135_Y0.9631.00
37_Y41_T0.9621.00
317_D320_L0.9601.00
56_D67_V0.9591.00
133_N137_Q0.9571.00
36_V39_S0.9521.00
32_F39_S0.9491.00
206_T209_H0.9451.00
272_S359_F0.9401.00
118_Q121_V0.9401.00
139_I143_E0.9341.00
223_A227_S0.9321.00
38_S42_V0.9281.00
51_P96_T0.9241.00
78_P89_G0.9241.00
243_M248_L0.9221.00
80_M95_Y0.9181.00
180_M184_N0.9181.00
15_L230_L0.9141.00
279_T362_A0.9131.00
32_F37_Y0.9131.00
53_A57_M0.9101.00
258_L261_L0.9091.00
296_L299_Q0.9081.00
35_S42_V0.9021.00
241_V245_K0.8981.00
145_N148_V0.8971.00
275_I362_A0.8931.00
52_I99_I0.8921.00
311_M314_M0.8911.00
240_L244_V0.8891.00
272_S362_A0.8881.00
259_F331_A0.8881.00
33_T38_S0.8831.00
132_G139_I0.8821.00
274_G278_G0.8771.00
242_L245_K0.8741.00
339_A343_I0.8731.00
140_I144_V0.8731.00
53_A98_A0.8641.00
13_K17_S0.8631.00
10_L215_I0.8631.00
83_A86_M0.8581.00
183_I191_I0.8551.00
299_Q302_S0.8531.00
122_D126_M0.8481.00
80_M86_M0.8471.00
211_L220_I0.8471.00
329_S333_A0.8471.00
210_L220_I0.8461.00
319_M322_M0.8451.00
323_P327_F0.8401.00
272_S358_F0.8391.00
32_F41_T0.8381.00
67_V71_Y0.8351.00
55_A98_A0.8341.00
26_T30_F0.8331.00
66_I101_I0.8321.00
119_V124_T0.8321.00
148_V151_Y0.8321.00
15_L19_L0.8311.00
326_H354_I0.8301.00
64_N68_N0.8301.00
55_A58_D0.8301.00
342_E346_P0.8291.00
226_W230_L0.8281.00
147_F151_Y0.8261.00
193_L196_S0.8261.00
132_G136_I0.8231.00
13_K16_R0.8221.00
355_G359_F0.8221.00
289_L292_I0.8221.00
8_F11_G0.8181.00
69_S146_S0.8171.00
295_L298_L0.8141.00
99_I119_V0.8131.00
141_N145_N0.8111.00
187_T190_A0.8101.00
159_V163_T0.8101.00
70_F136_I0.8051.00
327_F330_L0.8041.00
97_F132_G0.8031.00
195_G199_I0.8031.00
303_G307_P0.7991.00
281_A286_Q0.7871.00
137_Q141_N0.7851.00
256_I260_M0.7841.00
260_M263_V0.7821.00
136_I144_V0.7801.00
359_F363_L0.7801.00
304_G328_V0.7801.00
64_N67_V0.7791.00
178_G182_I0.7781.00
63_S101_I0.7781.00
229_G271_T0.7771.00
333_A347_Q0.7751.00
244_V248_L0.7741.00
37_Y40_A0.7721.00
203_E284_M0.7711.00
145_N149_A0.7701.00
257_P260_M0.7701.00
199_I203_E0.7641.00
86_M89_G0.7631.00
22_K25_L0.7621.00
139_I144_V0.7581.00
18_L28_I0.7571.00
146_S149_A0.7571.00
34_V38_S0.7531.00
56_D64_N0.7511.00
224_K228_M0.7501.00
358_F361_I0.7471.00
186_I190_A0.7471.00
172_D176_F0.7471.00
130_F137_Q0.7461.00
152_R156_E0.7451.00
300_M306_T0.7441.00
330_L344_V0.7421.00
155_S159_V0.7411.00
21_D24_M0.7391.00
263_V331_A0.7361.00
38_S41_T0.7341.00
276_F280_I0.7341.00
143_E148_V0.7331.00
115_P119_V0.7321.00
98_A120_N0.7291.00
215_I220_I0.7261.00
56_D101_I0.7251.00
243_M246_G0.7241.00
138_N141_N0.7241.00
225_I271_T0.7241.00
345_W348_F0.7211.00
194_T198_L0.7201.00
312_P315_V0.7181.00
42_V45_G0.7181.00
225_I272_S0.7171.00
249_G252_I0.7161.00
141_N144_V0.7051.00
112_G115_P0.7031.00
186_I191_I0.7001.00
286_Q289_L0.7001.00
134_G139_I0.6951.00
11_G15_L0.6931.00
80_M83_A0.6921.00
292_I296_L0.6911.00
276_F279_T0.6901.00
180_M187_T0.6841.00
33_T36_V0.6841.00
308_R316_Q0.6841.00
185_N188_M0.6811.00
65_R69_S0.6791.00
32_F45_G0.6791.00
161_L164_R0.6771.00
330_L347_Q0.6771.00
339_A344_V0.6761.00
262_G344_V0.6761.00
31_S35_S0.6741.00
54_I57_M0.6731.00
30_F35_S0.6691.00
210_L224_K0.6691.00
361_I365_R0.6681.00
135_Y138_N0.6681.00
155_S158_L0.6661.00
54_I58_D0.6651.00
241_V263_V0.6641.00
58_D101_I0.6631.00
358_F362_A0.6631.00
139_I142_G0.6611.00
139_I147_F0.6591.00
131_T139_I0.6561.00
281_A290_L0.6561.00
72_R75_F0.6551.00
356_G360_T0.6531.00
14_E227_S0.6531.00
298_L322_M0.6511.00
188_M192_V0.6501.00
160_S163_T0.6491.00
52_I97_F0.6481.00
273_I358_F0.6471.00
154_N160_S0.6461.00
27_L32_F0.6451.00
9_N12_I0.6441.00
245_K252_I0.6411.00
207_V220_I0.6381.00
221_M275_I0.6371.00
53_A78_P0.6351.00
86_M90_L0.6331.00
136_I140_I0.6311.00
184_N324_T0.6311.00
53_A56_D0.6291.00
152_R155_S0.6291.00
129_A133_N0.6281.00
135_Y143_E0.6271.00
245_K248_L0.6271.00
333_A343_I0.6271.00
196_S278_G0.6271.00
132_G140_I0.6261.00
129_A139_I0.6251.00
265_L351_L0.6231.00
82_T86_M0.6221.00
135_Y141_N0.6221.00
201_E205_G0.6221.00
323_P326_H0.6201.00
32_F287_L0.6201.00
62_L67_V0.6171.00
89_G92_A0.6171.00
326_H329_S0.6161.00
47_L51_P0.6141.00
164_R167_F0.6131.00
137_Q145_N0.6131.00
36_V42_V0.6121.00
99_I117_I0.6111.00
248_L252_I0.6101.00
36_V40_A0.6101.00
58_D63_S0.6090.99
14_E18_L0.6080.99
167_F170_N0.6080.99
298_L324_T0.6060.99
194_T271_T0.6050.99
202_R207_V0.6050.99
245_K249_G0.6040.99
123_A128_Q0.6020.99
355_G358_F0.6000.99
209_H213_M0.5990.99
351_L354_I0.5980.99
62_L65_R0.5980.99
34_V37_Y0.5980.99
170_N173_P0.5980.99
185_N189_L0.5960.99
341_F345_W0.5960.99
28_I31_S0.5950.99
32_F36_V0.5940.99
123_A126_M0.5940.99
252_I256_I0.5930.99
71_Y74_W0.5920.99
347_Q351_L0.5920.99
47_L50_A0.5920.99
258_L344_V0.5910.99
346_P349_L0.5910.99
324_T328_V0.5910.99
61_Q65_R0.5910.99
344_V347_Q0.5900.99
11_G227_S0.5900.99
295_L300_M0.5890.99
55_A80_M0.5880.99
229_G233_L0.5870.99
125_R128_Q0.5860.99
225_I268_F0.5860.99
40_A43_T0.5850.99
52_I57_M0.5830.99
117_I121_V0.5820.99
133_N148_V0.5800.99
121_V128_Q0.5780.99
347_Q350_T0.5780.99
187_T192_V0.5770.99
123_A127_S0.5770.99
97_F102_P0.5740.99
220_I223_A0.5740.99
27_L31_S0.5730.99
10_L220_I0.5720.99
143_E146_S0.5720.99
248_L251_P0.5710.99
280_I365_R0.5710.99
38_S45_G0.5700.99
178_G181_A0.5700.99
64_N103_P0.5690.99
14_E228_M0.5680.99
129_A135_Y0.5670.99
56_D106_Q0.5650.99
7_I10_L0.5640.99
117_I120_N0.5640.99
297_P300_M0.5640.99
41_T44_P0.5610.99
258_L348_F0.5610.99
142_G145_N0.5610.99
63_S67_V0.5570.99
144_V149_A0.5570.99
130_F139_I0.5570.99
140_I148_V0.5560.99
58_D102_P0.5550.99
301_L306_T0.5550.99
34_V41_T0.5540.99
35_S40_A0.5540.99
332_Q336_Y0.5540.99
144_V151_Y0.5530.99
260_M264_A0.5530.99
266_S324_T0.5510.99
277_M281_A0.5500.99
210_L213_M0.5500.99
183_I187_T0.5500.99
268_F272_S0.5490.99
131_T134_G0.5480.99
349_L352_M0.5460.99
207_V221_M0.5460.99
285_P289_L0.5430.99
302_S305_S0.5430.99
22_K26_T0.5400.99
59_Q64_N0.5400.99
80_M85_E0.5380.99
225_I229_G0.5380.99
173_P176_F0.5370.99
153_D156_E0.5370.99
131_T148_V0.5370.99
300_M303_G0.5350.99
179_V184_N0.5340.99
101_I117_I0.5340.99
30_F37_Y0.5340.99
96_T122_D0.5330.99
254_G338_G0.5330.99
158_L165_M0.5330.99
133_N139_I0.5320.99
213_M224_K0.5310.99
252_I259_F0.5300.99
341_F344_V0.5280.99
81_I86_M0.5280.99
188_M270_T0.5270.99
133_N138_N0.5260.99
130_F136_I0.5240.98
130_F134_G0.5230.98
320_L323_P0.5220.98
191_I274_G0.5210.98
179_V185_N0.5200.98
293_L297_P0.5200.98
154_N161_L0.5200.98
261_L265_L0.5190.98
359_F362_A0.5180.98
275_I278_G0.5170.98
244_V252_I0.5160.98
29_V32_F0.5150.98
142_G147_F0.5150.98
18_L227_S0.5140.98
200_R204_H0.5140.98
14_E220_I0.5140.98
221_M362_A0.5140.98
364_L367_R0.5130.98
66_I105_F0.5130.98
205_G208_E0.5120.98
31_S34_V0.5060.98
133_N146_S0.5060.98
137_Q140_I0.5060.98
129_A137_Q0.5050.98
79_E85_E0.5050.98
294_V298_L0.5030.98
17_S20_G0.5030.98
116_D119_V0.5010.98
347_Q354_I0.5000.98
119_V125_R0.5000.98
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  
3cniA 2 0.369 99.5 0.734 Contact Map
2p0sA 2 0.3262 97.3 0.864 Contact Map
2z73A 2 0.5588 21 0.947 Contact Map
4ea3A 2 0.7513 13 0.951 Contact Map
4yayA 1 0.7326 10.7 0.953 Contact Map
4xesA 1 0.5401 9.6 0.954 Contact Map
4tllB 2 0.5134 8.2 0.956 Contact Map
4grvA 1 0.5241 5.9 0.959 Contact Map
4pxzA 1 0.516 5.4 0.959 Contact Map
2qv0A 2 0.2968 5.3 0.96 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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