GREMLIN Database
YFJD - UPF0053 inner membrane protein YfjD
UniProt: P37908 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12442
Length: 428 (406)
Sequences: 8094 (5247)
Seq/√Len: 260.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
214_I315_L4.1631.00
386_E392_T3.7321.00
351_I416_V3.6311.00
395_R400_D3.4181.00
393_R400_D3.2031.00
393_R402_D3.1041.00
242_R247_D3.0951.00
380_I414_V2.9661.00
222_D225_S2.9631.00
282_V291_Q2.9391.00
221_D225_S2.8211.00
350_I404_L2.8071.00
216_G241_Y2.7471.00
256_E277_D2.7271.00
242_R273_L2.6621.00
345_N348_S2.6501.00
402_D417_F2.6271.00
400_D417_F2.5891.00
144_W148_A2.5331.00
350_I413_Q2.5261.00
120_Y123_K2.5151.00
271_T274_R2.5121.00
219_I242_R2.4981.00
240_L276_A2.4961.00
400_D419_V2.4011.00
204_V291_Q2.3741.00
133_A137_I2.3671.00
103_F149_I2.3371.00
304_L315_L2.3371.00
286_T294_K2.2801.00
216_G245_L2.2591.00
214_I312_I2.2451.00
51_R133_A2.1691.00
360_I364_F2.1411.00
38_L52_V2.1401.00
404_L415_K2.1051.00
379_V396_I2.0601.00
219_I249_I2.0531.00
51_R130_F2.0511.00
291_Q316_V2.0391.00
344_Q348_S2.0361.00
304_L312_I2.0251.00
376_V414_V2.0181.00
20_S74_N2.0031.00
42_A53_E2.0031.00
219_I273_L1.9991.00
61_R140_M1.9811.00
217_I226_I1.9621.00
207_I288_L1.9611.00
152_M156_M1.9601.00
22_Y131_L1.9481.00
251_M279_I1.9471.00
207_I316_V1.9431.00
405_D413_Q1.9251.00
348_S415_K1.9221.00
54_K133_A1.8271.00
360_I416_V1.8201.00
217_I240_L1.8151.00
127_P131_L1.7991.00
348_S417_F1.7711.00
46_N126_Y1.7711.00
37_R122_E1.7581.00
355_A360_I1.7461.00
41_M126_Y1.7271.00
241_Y248_A1.7221.00
407_Q412_K1.7051.00
341_V355_A1.6681.00
228_R232_H1.6641.00
236_G253_R1.6621.00
405_D412_K1.6611.00
178_V193_L1.6411.00
51_R129_S1.6141.00
302_V315_L1.6021.00
221_D226_I1.5971.00
319_E323_E1.5971.00
355_A376_V1.5861.00
343_P349_V1.5711.00
220_N242_R1.5701.00
148_A152_M1.5681.00
350_I415_K1.5601.00
196_V325_I1.5531.00
402_D415_K1.5431.00
202_M206_D1.5391.00
26_S128_S1.5311.00
360_I376_V1.5181.00
361_N366_W1.5111.00
401_I414_V1.4951.00
351_I376_V1.4951.00
218_D221_D1.4941.00
284_E313_Q1.4931.00
286_T291_Q1.4901.00
95_A99_G1.4831.00
343_P346_D1.4711.00
192_M196_V1.4711.00
380_I401_I1.4681.00
344_Q350_I1.4641.00
215_I229_Q1.4471.00
395_R419_V1.4431.00
20_S70_N1.4391.00
123_K127_P1.4351.00
288_L321_I1.4291.00
242_R249_I1.4281.00
398_E419_V1.4151.00
244_S247_D1.4101.00
39_R43_K1.4061.00
344_Q415_K1.4011.00
380_I403_I1.3971.00
399_Y418_P1.3961.00
75_I78_S1.3771.00
351_I360_I1.3701.00
251_M302_V1.3551.00
215_I235_H1.3551.00
11_I15_I1.3551.00
381_L411_I1.3531.00
380_I394_V1.3531.00
52_V129_S1.3521.00
396_I401_I1.3501.00
23_F69_G1.3461.00
53_E57_R1.3451.00
322_L326_V1.3411.00
12_I80_L1.3401.00
65_L135_L1.3371.00
52_V125_A1.3321.00
42_A50_K1.3281.00
192_M325_I1.3211.00
140_M144_W1.3191.00
215_I238_I1.3151.00
293_V296_Q1.3111.00
225_S228_R1.3101.00
302_V317_T1.3081.00
137_I140_M1.3041.00
131_L134_P1.3011.00
19_I73_V1.2971.00
237_R301_K1.2971.00
48_S126_Y1.2961.00
344_Q347_G1.2951.00
331_T334_S1.2941.00
10_I14_I1.2901.00
50_K54_K1.2901.00
212_S311_D1.2891.00
398_E418_P1.2881.00
128_S131_L1.2851.00
246_D311_D1.2831.00
383_A396_I1.2831.00
373_A382_E1.2831.00
270_E274_R1.2691.00
404_L413_Q1.2681.00
130_F134_P1.2641.00
25_G124_V1.2631.00
45_G49_A1.2631.00
8_T12_I1.2461.00
294_K298_N1.2361.00
260_L275_A1.2321.00
91_D95_A1.2291.00
39_R53_E1.2271.00
380_I384_L1.2211.00
211_R246_D1.2111.00
148_A151_R1.1981.00
48_S130_F1.1861.00
23_F135_L1.1791.00
204_V305_V1.1671.00
215_I233_S1.1591.00
41_M46_N1.1571.00
357_V361_N1.1551.00
399_Y416_V1.1491.00
233_S238_I1.1451.00
28_T31_M1.1441.00
329_F334_S1.1431.00
347_G418_P1.1431.00
279_I304_L1.1411.00
248_A304_L1.1341.00
249_I276_A1.1321.00
47_R50_K1.1311.00
13_L77_A1.1311.00
46_N49_A1.1311.00
221_D229_Q1.1251.00
246_D312_I1.1171.00
38_L53_E1.1151.00
341_V363_A1.1101.00
67_L70_N1.1031.00
211_R311_D1.1001.00
205_D284_E1.0981.00
65_L143_V1.0981.00
48_S52_V1.0921.00
112_L153_L1.0911.00
237_R319_E1.0851.00
134_P137_I1.0831.00
15_I19_I1.0811.00
283_P286_T1.0811.00
204_V282_V1.0741.00
364_F399_Y1.0581.00
361_N368_L1.0531.00
116_I159_I1.0481.00
154_M159_I1.0471.00
319_E329_F1.0371.00
216_G312_I1.0361.00
74_N105_V1.0311.00
70_N74_N1.0301.00
81_G101_L1.0261.00
17_V104_V1.0241.00
174_L181_S1.0231.00
342_T350_I1.0151.00
361_N367_H1.0131.00
394_V401_I1.0051.00
377_N381_L0.9971.00
55_L129_S0.9971.00
401_I416_V0.9971.00
22_Y128_S0.9951.00
280_Y294_K0.9911.00
381_L387_I0.9881.00
20_S24_S0.9881.00
340_E352_D0.9871.00
282_V303_G0.9871.00
252_L275_A0.9771.00
282_V305_V0.9761.00
390_A405_D0.9671.00
78_S82_T0.9541.00
90_G93_G0.9511.00
169_L177_I0.9501.00
13_L101_L0.9491.00
24_S28_T0.9461.00
54_K58_K0.9431.00
86_M90_G0.9421.00
207_I321_I0.9401.00
25_G117_A0.9391.00
384_L394_V0.9391.00
27_E114_K0.9301.00
141_P145_L0.9281.00
110_E114_K0.9271.00
55_L62_L0.9261.00
224_K228_R0.9251.00
136_Q140_M0.9231.00
286_T290_T0.9181.00
58_K61_R0.9171.00
213_E410_M0.9151.00
352_D413_Q0.9131.00
152_M155_R0.9131.00
218_D243_D0.9121.00
356_N359_E0.9091.00
109_A114_K0.9091.00
70_N73_V0.9081.00
49_A126_Y0.9061.00
227_L231_S0.9051.00
77_A101_L0.9051.00
145_L148_A0.9041.00
79_A82_T0.8991.00
295_F303_G0.8971.00
40_H44_Q0.8951.00
8_T11_I0.8941.00
67_L78_S0.8941.00
93_G97_A0.8921.00
395_R398_E0.8901.00
218_D241_Y0.8871.00
379_V401_I0.8871.00
219_I276_A0.8871.00
42_A46_N0.8861.00
220_N273_L0.8851.00
127_P130_F0.8851.00
243_D247_D0.8841.00
384_L388_P0.8801.00
368_L379_V0.8791.00
81_G85_G0.8791.00
341_V349_V0.8741.00
199_L289_S0.8741.00
33_L121_P0.8701.00
82_T97_A0.8691.00
230_L238_I0.8661.00
99_G103_F0.8641.00
383_A394_V0.8591.00
217_I272_M0.8551.00
307_N310_G0.8551.00
228_R262_S0.8500.99
353_G376_V0.8460.99
270_E275_A0.8450.99
341_V351_I0.8450.99
280_Y303_G0.8430.99
79_A98_T0.8350.99
33_L38_L0.8320.99
307_N313_Q0.8300.99
223_W226_I0.8260.99
228_R231_S0.8240.99
283_P308_E0.8240.99
357_V368_L0.8220.99
65_L136_Q0.8210.99
301_K322_L0.8190.99
38_L56_L0.8190.99
37_R41_M0.8160.99
199_L321_I0.8120.99
369_P373_A0.8100.99
377_N410_M0.8090.99
214_I245_L0.8060.99
151_R155_R0.8050.99
213_E354_T0.8040.99
203_T206_D0.8030.99
379_V383_A0.8030.99
51_R54_K0.8010.99
211_R307_N0.7980.99
219_I226_I0.7950.99
230_L257_A0.7940.99
21_A25_G0.7930.99
75_I82_T0.7920.99
204_V316_V0.7900.99
199_L292_L0.7880.99
13_L84_V0.7870.99
319_E324_E0.7830.99
26_S132_L0.7830.99
223_W270_E0.7810.99
25_G29_G0.7810.99
352_D355_A0.7790.99
68_I142_L0.7770.99
70_N110_E0.7770.99
256_E333_M0.7740.99
35_R57_R0.7730.99
78_S81_G0.7720.99
353_G377_N0.7710.99
67_L71_N0.7700.99
323_E328_D0.7700.99
236_G255_R0.7690.99
307_N311_D0.7690.99
261_M264_K0.7660.99
28_T117_A0.7650.99
12_I15_I0.7650.99
92_A96_I0.7570.99
280_Y298_N0.7560.99
294_K297_R0.7540.99
319_E328_D0.7540.99
174_L185_I0.7530.99
319_E331_T0.7530.99
70_N105_V0.7510.99
160_K164_V0.7480.99
59_P62_L0.7420.99
319_E332_S0.7420.99
16_M76_L0.7410.99
353_G411_I0.7360.99
20_S105_V0.7340.99
190_Q194_L0.7330.98
82_T86_M0.7330.98
273_L276_A0.7330.98
86_M93_G0.7320.98
366_W399_Y0.7290.98
67_L74_N0.7230.98
71_N114_K0.7220.98
239_V248_A0.7200.98
12_I16_M0.7170.98
73_V77_A0.7160.98
323_E331_T0.7130.98
18_V21_A0.7100.98
301_K319_E0.7100.98
230_L254_V0.7090.98
171_K201_K0.7070.98
239_V251_M0.7060.98
41_M45_G0.7030.98
384_L392_T0.7020.98
231_S259_R0.7020.98
66_V132_L0.7020.98
20_S73_V0.7010.98
319_E334_S0.7000.98
237_R253_R0.6990.98
387_I406_V0.6990.98
22_Y69_G0.6990.98
71_N105_V0.6970.98
248_A312_I0.6970.98
205_D313_Q0.6970.98
383_A397_G0.6960.98
229_Q232_H0.6960.98
75_I79_A0.6950.98
241_Y244_S0.6950.98
60_D151_R0.6910.98
390_A406_V0.6910.98
195_S325_I0.6900.98
239_V304_L0.6900.98
61_R136_Q0.6890.98
373_A379_V0.6880.98
253_R256_E0.6840.98
71_N75_I0.6840.98
342_T413_Q0.6830.98
279_I302_V0.6830.98
138_L141_P0.6800.98
281_F306_V0.6790.98
77_A105_V0.6710.97
318_V329_F0.6700.97
46_N50_K0.6690.97
343_P347_G0.6690.97
42_A45_G0.6680.97
291_Q321_I0.6670.97
217_I229_Q0.6670.97
192_M199_L0.6670.97
217_I238_I0.6640.97
155_R160_K0.6640.97
70_N111_V0.6640.97
357_V373_A0.6630.97
48_S127_P0.6630.97
94_V98_T0.6620.97
63_I109_A0.6620.97
363_A366_W0.6610.97
119_L159_I0.6600.97
293_V297_R0.6590.97
52_V56_L0.6590.97
217_I230_L0.6550.97
308_E378_G0.6550.97
237_R332_S0.6550.97
48_S51_R0.6540.97
19_I23_F0.6540.97
71_N102_T0.6540.97
237_R302_V0.6520.97
17_V77_A0.6520.97
50_K53_E0.6500.97
154_M158_G0.6500.97
211_R308_E0.6490.97
215_I232_H0.6490.97
209_V330_T0.6480.97
58_K136_Q0.6480.97
225_S229_Q0.6470.97
344_Q405_D0.6450.97
60_D115_T0.6440.97
75_I98_T0.6430.97
324_E328_D0.6390.96
179_H194_L0.6380.96
29_G125_A0.6350.96
218_D247_D0.6350.96
372_D382_E0.6350.96
306_V312_I0.6350.96
14_I18_V0.6340.96
175_R194_L0.6330.96
70_N109_A0.6330.96
75_I97_A0.6310.96
160_K163_I0.6310.96
37_R40_H0.6260.96
24_S70_N0.6240.96
17_V20_S0.6240.96
20_S71_N0.6230.96
204_V286_T0.6220.96
33_L122_E0.6190.96
130_F133_A0.6190.96
63_I67_L0.6190.96
171_K200_E0.6180.96
76_L80_L0.6170.96
24_S110_E0.6170.96
33_L52_V0.6170.96
78_S83_I0.6160.96
102_T114_K0.6140.96
211_R309_Y0.6120.95
200_E289_S0.6120.95
369_P383_A0.6120.95
341_V360_I0.6110.95
75_I102_T0.6110.95
24_S105_V0.6110.95
253_R277_D0.6090.95
124_V128_S0.6090.95
41_M49_A0.6090.95
367_H397_G0.6090.95
217_I221_D0.6080.95
123_K126_Y0.6080.95
343_P348_S0.6070.95
39_R42_A0.6070.95
226_I230_L0.6070.95
231_S263_E0.6060.95
83_I86_M0.6050.95
71_N74_N0.6040.95
171_K197_L0.6040.95
249_I273_L0.6010.95
9_L13_L0.6000.95
406_V409_N0.6000.95
193_L197_L0.5980.95
41_M44_Q0.5970.95
360_I363_A0.5950.95
308_E311_D0.5930.95
210_P213_E0.5920.95
24_S66_V0.5910.95
108_F153_L0.5880.94
389_V392_T0.5870.94
411_I414_V0.5860.94
74_N80_L0.5860.94
395_R417_F0.5850.94
20_S67_L0.5850.94
191_D195_S0.5850.94
48_S129_S0.5830.94
121_P124_V0.5810.94
323_E334_S0.5790.94
260_L264_K0.5790.94
54_K57_R0.5760.94
55_L136_Q0.5740.94
251_M276_A0.5740.94
384_L393_R0.5740.94
51_R55_L0.5730.94
171_K175_R0.5720.94
175_R198_D0.5720.94
66_V98_T0.5720.94
330_T336_T0.5720.94
224_K262_S0.5710.93
175_R178_V0.5700.93
73_V102_T0.5700.93
291_Q295_F0.5700.93
116_I124_V0.5700.93
79_A94_V0.5700.93
377_N411_I0.5690.93
265_K269_K0.5670.93
260_L270_E0.5670.93
202_M324_E0.5670.93
226_I271_T0.5660.93
412_K415_K0.5650.93
70_N82_T0.5650.93
241_Y247_D0.5650.93
71_N98_T0.5640.93
199_L287_P0.5640.93
79_A83_I0.5630.93
379_V394_V0.5620.93
32_T118_A0.5600.93
64_S71_N0.5580.93
292_L326_V0.5570.93
139_M142_L0.5570.93
135_L139_M0.5560.93
280_Y300_K0.5550.93
224_K269_K0.5540.92
16_M73_V0.5540.92
339_E342_T0.5530.92
340_E355_A0.5520.92
292_L295_F0.5510.92
241_Y245_L0.5500.92
31_M118_A0.5490.92
236_G332_S0.5490.92
198_D201_K0.5490.92
86_M89_Y0.5490.92
109_A113_P0.5480.92
219_I222_D0.5480.92
253_R301_K0.5480.92
30_M125_A0.5470.92
29_G124_V0.5460.92
226_I272_M0.5450.92
301_K329_F0.5450.92
56_L59_P0.5440.92
74_N77_A0.5440.92
38_L49_A0.5430.92
245_L312_I0.5430.92
400_D404_L0.5420.92
329_F332_S0.5420.92
77_A82_T0.5420.92
241_Y249_I0.5410.92
207_I324_E0.5400.91
28_T68_I0.5400.91
20_S66_V0.5390.91
361_N371_D0.5380.91
292_L321_I0.5380.91
361_N369_P0.5360.91
183_S190_Q0.5360.91
71_N82_T0.5360.91
204_V287_P0.5350.91
276_A279_I0.5340.91
147_N151_R0.5340.91
236_G331_T0.5330.91
17_V21_A0.5330.91
349_V364_F0.5320.91
358_R362_K0.5320.91
9_L84_V0.5320.91
17_V109_A0.5310.91
211_R310_G0.5310.91
85_G97_A0.5310.91
178_V185_I0.5310.91
35_R53_E0.5290.91
78_S102_T0.5280.91
211_R313_Q0.5270.90
351_I364_F0.5260.90
379_V397_G0.5240.90
83_I94_V0.5240.90
284_E308_E0.5230.90
76_L79_A0.5230.90
347_G417_F0.5230.90
87_R90_G0.5220.90
290_T293_V0.5200.90
206_D381_L0.5190.90
343_P418_P0.5190.90
98_T105_V0.5180.90
323_E329_F0.5170.90
27_E110_E0.5160.90
142_L146_L0.5160.90
287_P290_T0.5160.90
357_V370_E0.5150.89
68_I102_T0.5140.89
116_I120_Y0.5140.89
42_A48_S0.5140.89
397_G401_I0.5130.89
97_A101_L0.5130.89
265_K270_E0.5120.89
330_T334_S0.5110.89
229_Q233_S0.5100.89
67_L105_V0.5100.89
355_A359_E0.5100.89
21_A98_T0.5100.89
27_E71_N0.5100.89
205_D374_R0.5090.89
283_P306_V0.5090.89
64_S67_L0.5080.89
206_D374_R0.5080.89
98_T101_L0.5080.89
260_L263_E0.5070.89
318_V326_V0.5060.89
68_I71_N0.5060.89
218_D242_R0.5060.89
237_R331_T0.5060.89
73_V109_A0.5060.89
28_T59_P0.5060.89
357_V360_I0.5050.89
147_N150_T0.5050.89
33_L62_L0.5040.88
146_L150_T0.5030.88
115_T118_A0.5030.88
24_S71_N0.5000.88
54_K137_I0.5000.88
274_R278_E0.5000.88
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  
4hg0A 2 0.5421 100 0.5 Contact Map
3lhhA 1 0.2921 100 0.77 Contact Map
3ocoA 2 0.3154 99.9 0.779 Contact Map
3ocmA 5 0.3481 99.9 0.784 Contact Map
3oi8A 2 0.3598 99.9 0.788 Contact Map
2v8qE 1 0.5491 99.9 0.789 Contact Map
3kxrA 3 0.3715 99.9 0.794 Contact Map
3lv9A 2 0.3037 99.9 0.796 Contact Map
4iysA 2 0.3318 99.9 0.802 Contact Map
3dedA 2 0.2009 99.9 0.803 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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