GREMLIN Database
YBGF - Uncharacterized amino acid permease YbgF
UniProt: O31462 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 470 (425)
Sequences: 24816 (16301)
Seq/√Len: 790.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
141_F347_M4.4481.00
329_T341_N4.3501.00
389_M393_R3.4231.00
58_A252_S3.2841.00
332_K341_N3.0791.00
238_K242_K3.0701.00
381_M419_F2.9881.00
17_K234_V2.8891.00
82_H323_E2.8521.00
233_S239_T2.7831.00
321_S331_A2.6981.00
173_G261_V2.6961.00
235_D238_K2.6851.00
98_A320_L2.6491.00
22_F246_T2.6271.00
334_T340_F2.6211.00
134_A351_I2.5911.00
329_T332_K2.4701.00
18_S246_T2.4361.00
231_G322_K2.4351.00
171_L175_S2.4061.00
70_E391_R2.3741.00
289_Y293_I2.3301.00
450_Y454_Y2.2331.00
142_L146_F2.2191.00
86_A94_G2.2041.00
344_V348_I2.2031.00
318_W322_K2.1981.00
384_A418_A2.1931.00
232_E315_R2.1861.00
138_L351_I2.1451.00
440_Y444_P2.1441.00
18_S22_F2.1151.00
18_S239_T2.1121.00
141_F343_L2.1031.00
149_K153_E2.1001.00
21_L233_S2.0921.00
416_I420_L2.0621.00
280_A283_D2.0531.00
145_A340_F2.0331.00
89_I389_M2.0291.00
446_M450_Y2.0121.00
134_A354_L2.0071.00
22_F250_R1.9911.00
242_K246_T1.9891.00
12_F333_L1.9831.00
86_A91_P1.9721.00
133_S354_L1.9541.00
267_P270_D1.9461.00
160_S164_L1.9401.00
41_T50_T1.9351.00
17_K20_H1.9231.00
67_C384_A1.9131.00
59_G63_L1.9101.00
102_W346_S1.9101.00
324_K328_P1.8971.00
330_F345_F1.8861.00
89_I385_A1.8761.00
270_D284_R1.8691.00
451_A455_V1.8441.00
245_K249_W1.8191.00
413_F417_A1.7911.00
138_L347_M1.7721.00
280_A284_R1.7681.00
144_N307_N1.7631.00
85_A97_V1.7581.00
235_D239_T1.7491.00
20_H156_F1.7421.00
16_M20_H1.7191.00
145_A344_V1.7111.00
334_T338_T1.7001.00
420_L424_A1.6831.00
25_S247_T1.6791.00
90_G93_T1.6721.00
97_V382_G1.6661.00
53_A212_T1.6551.00
137_A350_G1.6291.00
385_A419_F1.6201.00
164_L168_L1.6201.00
447_A451_A1.6191.00
191_M194_N1.6141.00
389_M392_K1.5931.00
448_I452_I1.5831.00
60_I421_L1.5701.00
192_L195_F1.5671.00
109_L350_G1.5661.00
452_I456_K1.5651.00
113_F306_A1.5611.00
249_W253_L1.5571.00
229_A311_Y1.5151.00
235_D242_K1.5081.00
436_R439_L1.5071.00
317_L342_A1.5071.00
120_M132_W1.5041.00
283_D291_A1.4971.00
163_V167_V1.4681.00
341_N345_F1.4651.00
165_A297_V1.4631.00
116_A299_L1.4611.00
85_A382_G1.4591.00
89_I93_T1.4581.00
63_L417_A1.4521.00
59_G417_A1.4491.00
134_A138_L1.4471.00
174_G261_V1.4461.00
137_A347_M1.4231.00
78_T231_G1.4171.00
116_A136_F1.4111.00
313_S346_S1.4091.00
318_W333_L1.4061.00
12_F318_W1.4051.00
13_Q337_G1.4031.00
450_Y453_Y1.4021.00
57_G216_V1.4011.00
328_P331_A1.3931.00
385_A389_M1.3931.00
65_M248_V1.3831.00
449_C453_Y1.3741.00
328_P332_K1.3641.00
20_H152_A1.3581.00
276_S280_A1.3531.00
314_S343_L1.3521.00
113_F137_A1.3491.00
239_T242_K1.3261.00
332_K340_F1.3251.00
141_F344_V1.3241.00
410_L414_V1.3231.00
88_Y386_S1.3171.00
65_M244_I1.3111.00
16_M21_L1.3041.00
75_M87_K1.3031.00
236_P241_P1.3011.00
177_M264_G1.2891.00
449_C452_I1.2871.00
191_M195_F1.2861.00
170_I257_G1.2851.00
292_D296_F1.2831.00
66_L245_K1.2811.00
18_S242_K1.2801.00
64_V384_A1.2781.00
253_L257_G1.2751.00
411_Y415_P1.2621.00
175_S180_I1.2571.00
140_I306_A1.2571.00
317_L326_L1.2561.00
19_R23_M1.2501.00
190_P193_S1.2381.00
444_P447_A1.2361.00
67_C415_P1.2311.00
130_W134_A1.2261.00
29_V251_L1.2091.00
51_I260_F1.2011.00
83_T87_K1.2011.00
445_F449_C1.1971.00
169_F173_G1.1971.00
92_G453_Y1.1921.00
77_V83_T1.1921.00
173_G265_L1.1891.00
437_I440_Y1.1881.00
16_M152_A1.1861.00
74_A404_L1.1841.00
283_D288_P1.1821.00
395_I404_L1.1761.00
274_I280_A1.1741.00
36_L115_A1.1741.00
392_K395_I1.1721.00
174_G178_F1.1721.00
126_H129_V1.1701.00
234_V239_T1.1691.00
112_E305_A1.1661.00
68_L81_F1.1651.00
446_M449_C1.1621.00
412_P416_I1.1611.00
424_A428_G1.1611.00
444_P448_I1.1501.00
102_W317_L1.1471.00
410_L413_F1.1461.00
48_A209_I1.1451.00
25_S226_I1.1431.00
154_S158_F1.1401.00
143_L154_S1.1401.00
95_F99_W1.1371.00
21_L243_A1.1361.00
24_L229_A1.1321.00
388_F416_I1.1201.00
205_G208_P1.1191.00
438_A442_G1.1181.00
128_S131_M1.1151.00
436_R440_Y1.1151.00
131_M135_V1.1141.00
155_E307_N1.1091.00
77_V87_K1.1041.00
341_N344_V1.1011.00
168_L172_L1.0941.00
42_I50_T1.0841.00
381_M423_L1.0811.00
85_A93_T1.0771.00
15_S234_V1.0751.00
404_L407_R1.0751.00
387_Q415_P1.0701.00
153_E157_W1.0661.00
82_H319_S1.0661.00
178_F181_I1.0641.00
167_V171_L1.0641.00
72_S84_Y1.0611.00
87_K394_Y1.0541.00
117_G132_W1.0501.00
423_L427_V1.0491.00
437_I444_P1.0461.00
450_Y456_K1.0421.00
26_L250_R1.0381.00
191_M196_T1.0371.00
138_L142_L1.0361.00
413_F416_I1.0361.00
402_T405_K1.0301.00
70_E73_V1.0291.00
322_K331_A1.0261.00
135_V139_F1.0221.00
145_A338_T1.0221.00
435_Q438_A1.0111.00
333_L337_G1.0101.00
26_L251_L1.0091.00
430_A434_N1.0081.00
148_V311_Y1.0051.00
348_I352_L1.0001.00
230_A240_I0.9961.00
406_Y409_P0.9921.00
74_A402_T0.9911.00
419_F423_L0.9861.00
434_N437_I0.9851.00
381_M422_C0.9711.00
51_I263_S0.9671.00
55_L256_V0.9661.00
402_T407_R0.9621.00
158_F304_S0.9611.00
141_F145_A0.9611.00
381_M385_A0.9571.00
175_S179_G0.9571.00
163_V254_F0.9511.00
391_R395_I0.9491.00
30_I33_G0.9421.00
111_S218_F0.9421.00
267_P284_R0.9411.00
426_V429_I0.9391.00
162_K301_A0.9351.00
224_E228_I0.9291.00
221_S376_V0.9281.00
79_G83_T0.9281.00
286_G290_A0.9271.00
288_P292_D0.9251.00
310_L347_M0.9231.00
111_S369_V0.9201.00
145_A334_T0.9161.00
433_P436_R0.9151.00
140_I307_N0.9151.00
23_M156_F0.9121.00
127_T131_M0.9111.00
110_G113_F0.9081.00
120_M299_L0.9061.00
442_G446_M0.9011.00
139_F303_L0.9001.00
190_P194_N0.8941.00
260_F264_G0.8911.00
252_S256_V0.8901.00
90_G454_Y0.8901.00
210_L424_A0.8901.00
418_A422_C0.8881.00
340_F344_V0.8841.00
448_I454_Y0.8841.00
246_T250_R0.8801.00
384_A419_F0.8791.00
332_K335_S0.8751.00
63_L414_V0.8741.00
15_S149_K0.8731.00
443_V447_A0.8731.00
116_A303_L0.8711.00
99_W326_L0.8691.00
452_I455_V0.8691.00
170_I174_G0.8661.00
451_A454_Y0.8661.00
433_P437_I0.8661.00
92_G96_T0.8611.00
20_H153_E0.8611.00
403_D407_R0.8601.00
12_F232_E0.8561.00
170_I261_V0.8561.00
432_D436_R0.8551.00
73_V405_K0.8501.00
19_R156_F0.8481.00
12_F315_R0.8481.00
276_S279_V0.8481.00
225_L312_A0.8461.00
86_A323_E0.8451.00
132_W135_V0.8441.00
177_M180_I0.8421.00
62_Y66_L0.8411.00
30_I35_F0.8391.00
206_F209_I0.8371.00
120_M124_F0.8371.00
287_V290_A0.8331.00
93_T382_G0.8301.00
58_A220_F0.8281.00
265_L281_V0.8271.00
326_L330_F0.8251.00
18_S243_A0.8251.00
79_G82_H0.8241.00
71_L387_Q0.8221.00
438_A444_P0.8201.00
435_Q439_L0.8191.00
52_L209_I0.8171.00
142_L145_A0.8171.00
396_E404_L0.8121.00
371_I375_A0.8121.00
432_D435_Q0.8111.00
347_M351_I0.8101.00
101_Y105_W0.8071.00
330_F341_N0.8071.00
55_L59_G0.8071.00
90_G94_G0.8051.00
130_W354_L0.8041.00
424_A427_V0.7991.00
153_E156_F0.7971.00
409_P413_F0.7971.00
277_P282_F0.7931.00
392_K412_P0.7921.00
63_L67_C0.7901.00
437_I450_Y0.7861.00
439_L442_G0.7841.00
211_M215_S0.7831.00
117_G133_S0.7821.00
45_A48_A0.7811.00
403_D406_Y0.7781.00
140_I310_L0.7771.00
85_A386_S0.7771.00
394_Y402_T0.7761.00
194_N197_A0.7761.00
174_G257_G0.7761.00
221_S380_W0.7741.00
348_I351_I0.7711.00
116_A120_M0.7711.00
169_F282_F0.7681.00
175_S178_F0.7651.00
415_P419_F0.7641.00
418_A421_L0.7641.00
453_Y456_K0.7601.00
114_T368_L0.7561.00
30_I162_K0.7541.00
282_F285_V0.7541.00
62_Y245_K0.7541.00
435_Q440_Y0.7511.00
335_S340_F0.7511.00
106_T349_G0.7511.00
447_A450_Y0.7501.00
29_V247_T0.7491.00
235_D241_P0.7481.00
192_L264_G0.7481.00
71_L84_Y0.7471.00
177_M261_V0.7471.00
388_F392_K0.7441.00
144_N343_L0.7441.00
277_P285_V0.7421.00
22_F243_A0.7411.00
146_F150_F0.7371.00
31_G35_F0.7341.00
434_N438_A0.7331.00
241_P244_I0.7301.00
440_Y443_V0.7301.00
116_A302_I0.7291.00
68_L383_I0.7281.00
34_L258_T0.7241.00
334_T337_G0.7221.00
15_S148_V0.7211.00
47_P263_S0.7181.00
277_P281_V0.7161.00
27_G159_S0.7151.00
15_S19_R0.7151.00
137_A354_L0.7141.00
88_Y389_M0.7131.00
52_L56_V0.7131.00
282_F287_V0.7101.00
330_F342_A0.7101.00
121_Q125_P0.7081.00
64_V422_C0.7061.00
415_P422_C0.7051.00
412_P415_P0.7051.00
52_L55_L0.7041.00
170_I258_T0.7031.00
199_G203_P0.7021.00
442_G445_F0.6981.00
449_C456_K0.6971.00
130_W133_S0.6971.00
110_G368_L0.6971.00
74_A395_I0.6931.00
19_R153_E0.6881.00
61_V223_T0.6861.00
108_A372_S0.6851.00
388_F412_P0.6841.00
78_T318_W0.6831.00
387_Q391_R0.6821.00
314_S342_A0.6811.00
138_L141_F0.6801.00
339_P342_A0.6791.00
144_N311_Y0.6781.00
152_A156_F0.6771.00
240_I244_I0.6771.00
289_Y292_D0.6771.00
434_N439_L0.6761.00
117_G120_M0.6761.00
317_L345_F0.6741.00
329_T345_F0.6741.00
150_F153_E0.6731.00
448_I451_A0.6711.00
439_L444_P0.6701.00
310_L314_S0.6701.00
394_Y404_L0.6681.00
445_F453_Y0.6671.00
411_Y414_V0.6671.00
439_L443_V0.6671.00
441_C445_F0.6671.00
436_R442_G0.6641.00
70_E409_P0.6621.00
441_C444_P0.6611.00
82_H86_A0.6611.00
140_I303_L0.6601.00
37_S369_V0.6591.00
152_A307_N0.6581.00
246_T249_W0.6541.00
437_I442_G0.6531.00
51_I256_V0.6531.00
422_C425_S0.6521.00
136_F306_A0.6521.00
227_G244_I0.6511.00
38_S259_I0.6511.00
134_A355_L0.6501.00
74_A405_K0.6501.00
198_E201_L0.6471.00
122_R295_N0.6461.00
250_R254_F0.6461.00
425_S429_I0.6451.00
315_R318_W0.6441.00
145_A343_L0.6431.00
12_F15_S0.6421.00
51_I55_L0.6401.00
438_A446_M0.6401.00
88_Y390_F0.6401.00
231_G318_W0.6391.00
258_T262_L0.6391.00
50_T259_I0.6381.00
274_I277_P0.6381.00
28_G309_G0.6381.00
72_S227_G0.6381.00
190_P195_F0.6371.00
426_V434_N0.6371.00
261_V264_G0.6351.00
404_L408_T0.6351.00
66_L414_V0.6321.00
82_H98_A0.6311.00
66_L409_P0.6301.00
137_A351_I0.6301.00
321_S330_F0.6301.00
210_L428_G0.6301.00
190_P196_T0.6281.00
28_G308_S0.6281.00
221_S224_E0.6281.00
388_F415_P0.6271.00
106_T346_S0.6271.00
54_Y219_A0.6261.00
313_S317_L0.6261.00
148_V229_A0.6221.00
100_L379_V0.6211.00
194_N198_E0.6211.00
22_F25_S0.6181.00
408_T411_Y0.6171.00
136_F140_I0.6161.00
161_I297_V0.6151.00
278_F282_F0.6141.00
65_M223_T0.6141.00
336_K340_F0.6131.00
431_F434_N0.6121.00
386_S390_F0.6121.00
105_W309_G0.6111.00
447_A453_Y0.6111.00
448_I455_V0.6091.00
107_V110_G0.6091.00
444_P451_A0.6081.00
40_Y366_V0.6071.00
71_L88_Y0.6051.00
448_I453_Y0.6051.00
107_V371_I0.6041.00
422_C426_V0.6041.00
106_T110_G0.6041.00
237_D405_K0.6031.00
25_S29_V0.6031.00
89_I386_S0.6021.00
431_F435_Q0.6021.00
69_G73_V0.6001.00
81_F224_E0.5991.00
257_G261_V0.5981.00
119_L279_V0.5981.00
57_G220_F0.5971.00
433_P440_Y0.5971.00
172_L176_A0.5961.00
108_A111_S0.5961.00
147_S150_F0.5961.00
439_L446_M0.5941.00
391_R411_Y0.5931.00
417_A420_L0.5921.00
206_F210_L0.5911.00
407_R412_P0.5911.00
82_H94_G0.5911.00
110_G353_S0.5901.00
395_I402_T0.5891.00
120_M136_F0.5881.00
172_L287_V0.5881.00
232_E339_P0.5881.00
177_M265_L0.5881.00
443_V446_M0.5861.00
437_I441_C0.5861.00
146_F336_K0.5861.00
435_Q442_G0.5841.00
193_S196_T0.5831.00
392_K396_E0.5791.00
440_Y445_F0.5791.00
442_G447_A0.5791.00
161_I165_A0.5791.00
141_F310_L0.5791.00
236_P239_T0.5781.00
97_V379_V0.5771.00
72_S240_I0.5761.00
67_C418_A0.5761.00
104_T376_V0.5761.00
57_G217_N0.5751.00
56_V213_M0.5751.00
44_Q211_M0.5751.00
445_F448_I0.5741.00
81_F228_I0.5721.00
70_E406_Y0.5721.00
301_A304_S0.5721.00
250_R253_L0.5691.00
19_R22_F0.5681.00
44_Q47_P0.5681.00
396_E403_D0.5661.00
296_F300_T0.5631.00
228_I312_A0.5611.00
159_S162_K0.5601.00
65_M69_G0.5601.00
352_L355_L0.5581.00
208_P211_M0.5571.00
30_I37_S0.5571.00
418_A429_I0.5561.00
119_L298_I0.5561.00
233_S240_I0.5551.00
11_T14_R0.5541.00
419_F422_C0.5541.00
375_A379_V0.5531.00
258_T278_F0.5531.00
238_K241_P0.5501.00
266_I270_D0.5501.00
122_R125_P0.5501.00
67_C408_T0.5491.00
115_A119_L0.5481.00
151_F311_Y0.5481.00
26_L159_S0.5471.00
156_F160_S0.5471.00
329_T333_L0.5461.00
89_I92_G0.5451.00
31_G255_F0.5451.00
315_R333_L0.5431.00
434_N450_Y0.5421.00
200_G203_P0.5411.00
447_A456_K0.5411.00
197_A201_L0.5401.00
438_A445_F0.5391.00
16_M148_V0.5391.00
105_W312_A0.5381.00
64_V224_E0.5351.00
440_Y450_Y0.5341.00
390_F395_I0.5341.00
450_Y455_V0.5321.00
440_Y446_M0.5321.00
420_L423_L0.5321.00
376_V379_V0.5321.00
221_S372_S0.5311.00
436_R443_V0.5311.00
421_L425_S0.5311.00
317_L321_S0.5301.00
197_A200_G0.5291.00
195_F198_E0.5281.00
109_L113_F0.5281.00
24_L27_G0.5281.00
155_E304_S0.5261.00
150_F154_S0.5261.00
224_E380_W0.5261.00
23_M159_S0.5241.00
108_A112_E0.5231.00
113_F140_I0.5221.00
40_Y44_Q0.5201.00
28_G225_L0.5201.00
396_E402_T0.5201.00
34_L37_S0.5191.00
355_L358_V0.5191.00
293_I297_V0.5181.00
138_L344_V0.5161.00
255_F259_I0.5161.00
48_A201_L0.5161.00
123_W296_F0.5161.00
310_L343_L0.5151.00
80_A227_G0.5151.00
415_P429_I0.5141.00
100_L104_T0.5141.00
136_F303_L0.5121.00
53_A56_V0.5121.00
345_F349_G0.5121.00
390_F394_Y0.5121.00
47_P51_I0.5111.00
440_Y447_A0.5111.00
393_R396_E0.5111.00
278_F281_V0.5101.00
100_L378_V0.5101.00
177_M181_I0.5101.00
226_I240_I0.5101.00
15_S337_G0.5091.00
35_F162_K0.5081.00
135_V138_L0.5081.00
51_I54_Y0.5081.00
139_F143_L0.5081.00
366_V369_V0.5061.00
232_E333_L0.5051.00
374_F426_V0.5041.00
436_R444_P0.5031.00
112_E306_A0.5031.00
408_T415_P0.5031.00
89_I94_G0.5031.00
191_M264_G0.5031.00
314_S346_S0.5011.00
198_E203_P0.5011.00
30_I254_F0.5011.00
14_R234_V0.5001.00
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  
3l1lA 2 0.8872 100 0.292 Contact Map
4djkA 2 0.8745 100 0.355 Contact Map
3giaA 1 0.9043 100 0.36 Contact Map
3dh4A 3 0.9149 99.1 0.85 Contact Map
2xq2A 2 0.917 99 0.855 Contact Map
2jlnA 1 0.8979 98.9 0.861 Contact Map
4wgvA 2 0.7809 97.9 0.895 Contact Map
4xp4A 1 0.9149 97.6 0.902 Contact Map
2a65A 2 0.9234 97.3 0.908 Contact Map
4us3A 1 0.8404 97 0.911 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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