GREMLIN Database
YTRF - ABC transporter permease YtrF
UniProt: O35005 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 436 (363)
Sequences: 36261 (31074)
Seq/√Len: 1631.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
185_T207_D3.7381.00
142_Y215_K3.5981.00
327_I344_F3.4181.00
187_E207_D3.3851.00
185_T209_K3.3661.00
142_Y146_K2.9301.00
137_E209_K2.9041.00
137_E211_V2.8891.00
427_N430_T2.6521.00
74_K77_D2.6111.00
323_R347_E2.5941.00
138_I227_I2.5901.00
145_A213_I2.5831.00
125_E215_K2.4171.00
15_K18_R2.3941.00
336_S339_I2.3771.00
356_C405_V2.3671.00
266_T270_T2.3531.00
138_I208_F2.3301.00
331_K337_P2.3161.00
139_V212_G2.2811.00
261_N264_Q2.2621.00
417_M421_R2.2541.00
348_S416_G2.2131.00
78_L82_D2.2111.00
421_R425_K2.1771.00
139_V214_T2.1491.00
264_Q268_D2.0521.00
79_E82_D2.0501.00
352_G412_A2.0381.00
140_V145_A2.0171.00
29_T358_I2.0041.00
359_G363_S1.9671.00
397_P400_L1.9541.00
262_V266_T1.9271.00
144_F148_L1.9151.00
36_V363_S1.9151.00
25_I29_T1.9121.00
263_E266_T1.8971.00
126_L131_V1.8751.00
130_R211_V1.8691.00
134_S137_E1.8691.00
88_V257_D1.8601.00
86_S257_D1.8311.00
323_R326_E1.8281.00
341_R421_R1.7941.00
230_S233_F1.7621.00
86_S268_D1.7611.00
138_I229_I1.7451.00
232_Q235_K1.7431.00
47_K51_D1.7291.00
75_K79_E1.6981.00
80_K83_H1.6931.00
114_T118_D1.6551.00
208_F233_F1.6381.00
229_I234_K1.6331.00
33_A362_I1.6301.00
187_E205_T1.6081.00
140_V210_I1.6011.00
79_E83_H1.6001.00
136_N233_F1.5951.00
267_N270_T1.5911.00
25_I355_G1.5811.00
77_D80_K1.5731.00
140_V227_I1.5701.00
29_T362_I1.5681.00
268_D271_D1.5581.00
139_V211_V1.5241.00
143_D216_K1.5171.00
138_I186_I1.5171.00
143_D146_K1.5151.00
76_A80_K1.5151.00
339_I342_R1.5151.00
258_K261_N1.5061.00
267_N271_D1.5051.00
88_V255_F1.5041.00
141_G214_T1.5031.00
231_D235_K1.5021.00
337_P424_T1.4961.00
182_L213_I1.4931.00
73_I77_D1.4901.00
398_A402_I1.4881.00
127_E142_Y1.4821.00
140_V144_F1.4731.00
130_R137_E1.4681.00
12_R15_K1.4591.00
52_M55_S1.4521.00
263_E267_N1.4421.00
420_A424_T1.4401.00
252_I256_A1.4361.00
43_F397_P1.4251.00
13_N347_E1.4251.00
365_G369_L1.4191.00
256_A265_L1.4151.00
278_S281_T1.3931.00
399_S403_I1.3911.00
229_I233_F1.3711.00
338_S342_R1.3651.00
355_G359_G1.3501.00
132_A137_E1.3471.00
132_A211_V1.3371.00
415_S419_P1.3321.00
28_T355_G1.3311.00
14_M21_V1.3271.00
51_D54_M1.3071.00
326_E330_M1.3071.00
352_G356_C1.3051.00
76_A79_E1.3011.00
29_T33_A1.3001.00
102_G105_T1.2931.00
40_S367_S1.2901.00
324_T431_A1.2901.00
327_I340_I1.2831.00
365_G368_Y1.2801.00
298_I302_C1.2741.00
150_T184_K1.2701.00
89_E255_F1.2661.00
32_C359_G1.2651.00
328_G431_A1.2651.00
84_V268_D1.2631.00
20_R322_E1.2571.00
51_D55_S1.2551.00
335_A339_I1.2511.00
141_G144_F1.2391.00
324_T426_T1.2381.00
265_L269_L1.2291.00
127_E215_K1.2261.00
422_K425_K1.2251.00
10_I346_M1.2241.00
342_R346_M1.2201.00
131_V139_V1.2131.00
119_E131_V1.2101.00
61_K65_M1.2021.00
132_A139_V1.2011.00
361_I365_G1.2001.00
46_Q50_T1.1971.00
330_M335_A1.1931.00
47_K395_Y1.1911.00
363_S367_S1.1861.00
309_A415_S1.1831.00
33_A366_V1.1801.00
328_G332_A1.1771.00
151_K184_K1.1761.00
36_V404_A1.1751.00
143_D147_R1.1751.00
75_K78_L1.1701.00
93_V251_N1.1691.00
330_M343_M1.1651.00
140_V213_I1.1631.00
21_V351_I1.1621.00
117_N120_L1.1601.00
43_F46_Q1.1501.00
357_V361_I1.1491.00
33_A363_S1.1431.00
182_L211_V1.1411.00
189_S205_T1.1381.00
233_F236_D1.1371.00
402_I406_V1.1371.00
31_A301_G1.1351.00
142_Y216_K1.1341.00
295_I299_F1.1171.00
17_N322_E1.1151.00
19_L22_F1.1111.00
133_K136_N1.1101.00
43_F400_L1.1011.00
190_V204_K1.1001.00
284_E288_T1.0991.00
136_N206_Y1.0981.00
86_S265_L1.0901.00
316_M348_S1.0891.00
33_A359_G1.0821.00
395_Y398_A1.0781.00
150_T210_I1.0741.00
421_R424_T1.0591.00
11_R15_K1.0581.00
47_K50_T1.0451.00
399_S402_I1.0441.00
126_L212_G1.0431.00
369_L373_A1.0431.00
358_I361_I1.0401.00
356_C408_C1.0381.00
370_V374_V1.0361.00
128_K182_L1.0341.00
192_K204_K1.0321.00
368_Y372_L1.0321.00
84_V87_V1.0271.00
46_Q294_K1.0261.00
262_V265_L1.0131.00
60_T64_V1.0101.00
22_F26_L1.0081.00
287_N291_M1.0051.00
25_I354_L1.0051.00
77_D81_Y0.9991.00
84_V265_L0.9991.00
341_R417_M0.9961.00
422_K426_T0.9871.00
133_K137_E0.9831.00
264_Q267_N0.9801.00
304_A311_G0.9771.00
280_T284_E0.9701.00
50_T54_M0.9651.00
89_E121_K0.9641.00
426_T430_T0.9641.00
43_F47_K0.9581.00
135_E232_Q0.9571.00
281_T284_E0.9551.00
53_T56_Q0.9501.00
349_A413_V0.9461.00
234_K237_F0.9451.00
250_T253_G0.9441.00
313_F317_T0.9431.00
288_T291_M0.9401.00
290_F294_K0.9401.00
256_A262_V0.9381.00
128_K213_I0.9321.00
408_C412_A0.9311.00
291_M295_I0.9291.00
309_A411_V0.9251.00
352_G408_C0.9221.00
348_S352_G0.9221.00
370_V373_A0.9211.00
335_A340_I0.9151.00
360_I401_V0.9131.00
231_D234_K0.9051.00
369_L372_L0.9051.00
323_R344_F0.9051.00
89_E120_L0.9021.00
418_N421_R0.9021.00
266_T278_S0.8951.00
25_I358_I0.8931.00
420_A423_A0.8931.00
337_P425_K0.8921.00
40_S44_G0.8921.00
372_L375_P0.8891.00
17_N20_R0.8861.00
29_T32_C0.8791.00
74_K78_L0.8791.00
142_Y145_A0.8781.00
29_T355_G0.8781.00
32_C408_C0.8771.00
101_L104_R0.8761.00
73_I76_A0.8741.00
337_P341_R0.8731.00
403_I406_V0.8711.00
141_G216_K0.8641.00
426_T431_A0.8521.00
78_L92_Q0.8521.00
48_T52_M0.8511.00
257_D261_N0.8511.00
331_K428_V0.8491.00
91_T115_N0.8481.00
428_V431_A0.8461.00
27_A311_G0.8431.00
35_L39_S0.8421.00
396_I401_V0.8381.00
82_D90_R0.8361.00
140_V150_T0.8331.00
61_K66_G0.8301.00
404_A408_C0.8301.00
368_Y371_N0.8281.00
341_R424_T0.8271.00
345_L413_V0.8251.00
321_T324_T0.8221.00
78_L81_Y0.8201.00
61_K64_V0.8191.00
115_N118_D0.8181.00
403_I407_I0.8171.00
324_T328_G0.8161.00
28_T32_C0.8161.00
341_R420_A0.8131.00
27_A31_A0.8101.00
120_L131_V0.8081.00
111_L229_I0.8081.00
109_S144_F0.8071.00
237_F240_F0.8071.00
60_T63_S0.8051.00
356_C412_A0.8021.00
361_I364_Y0.8011.00
234_K238_S0.8011.00
13_N326_E0.8011.00
279_V282_E0.7991.00
53_T57_Q0.7981.00
87_V90_R0.7971.00
313_F415_S0.7971.00
24_T27_A0.7931.00
320_V327_I0.7901.00
405_V409_G0.7881.00
360_I405_V0.7871.00
331_K340_I0.7871.00
250_T254_V0.7861.00
149_L184_K0.7851.00
367_S371_N0.7801.00
24_T315_T0.7791.00
214_T228_F0.7781.00
256_A259_F0.7761.00
265_L268_D0.7761.00
111_L227_I0.7731.00
406_V410_G0.7721.00
63_S66_G0.7711.00
400_L403_I0.7711.00
401_V405_V0.7691.00
285_G288_T0.7691.00
113_F234_K0.7691.00
146_K151_K0.7651.00
410_G414_I0.7641.00
92_Q115_N0.7621.00
354_L357_V0.7561.00
99_A102_G0.7541.00
23_M27_A0.7501.00
18_R22_F0.7501.00
188_L208_F0.7501.00
98_K101_L0.7491.00
124_M214_T0.7461.00
50_T53_T0.7431.00
9_F13_N0.7401.00
241_L247_N0.7381.00
319_A347_E0.7381.00
126_L214_T0.7371.00
395_Y399_S0.7371.00
145_A151_K0.7361.00
328_G428_V0.7361.00
93_V96_P0.7321.00
151_K182_L0.7311.00
349_A412_A0.7291.00
260_E265_L0.7281.00
429_L433_R0.7281.00
37_V366_V0.7251.00
260_E264_Q0.7241.00
109_S227_I0.7231.00
94_Y234_K0.7221.00
418_N422_K0.7211.00
364_Y396_I0.7211.00
348_S419_P0.7191.00
283_L287_N0.7181.00
346_M349_A0.7171.00
54_M57_Q0.7171.00
362_I365_G0.7161.00
9_F343_M0.7141.00
182_L212_G0.7141.00
88_V91_T0.7141.00
93_V253_G0.7101.00
356_C360_I0.7091.00
78_L90_R0.7091.00
314_N318_M0.7081.00
356_C409_G0.7081.00
301_G305_V0.7081.00
140_V186_I0.7081.00
48_T51_D0.7071.00
429_L432_L0.7061.00
325_Q329_I0.7041.00
316_M319_A0.7031.00
319_A323_R0.7021.00
249_E252_I0.7021.00
311_G314_N0.7021.00
348_S420_A0.7001.00
36_V40_S0.6981.00
138_I210_I0.6971.00
9_F330_M0.6951.00
27_A314_N0.6941.00
13_N323_R0.6931.00
141_G225_S0.6931.00
135_E230_S0.6921.00
346_M350_Y0.6921.00
407_I410_G0.6921.00
206_Y236_D0.6921.00
226_N230_S0.6911.00
94_Y97_N0.6891.00
191_S204_K0.6871.00
416_G420_A0.6861.00
302_C306_I0.6851.00
89_E92_Q0.6831.00
183_N209_K0.6801.00
88_V92_Q0.6801.00
364_Y368_Y0.6791.00
99_A106_N0.6781.00
329_I332_A0.6761.00
89_E117_N0.6751.00
226_N229_I0.6711.00
257_D260_E0.6691.00
122_A125_E0.6681.00
92_Q249_E0.6651.00
145_A182_L0.6621.00
113_F116_M0.6591.00
37_V363_S0.6591.00
308_S311_G0.6581.00
82_D89_E0.6581.00
19_L23_M0.6571.00
126_L130_R0.6571.00
125_E129_G0.6561.00
141_G226_N0.6561.00
290_F293_F0.6561.00
252_I255_F0.6541.00
348_S412_A0.6521.00
39_S43_F0.6511.00
90_R93_V0.6501.00
42_G294_K0.6501.00
304_A308_S0.6491.00
87_V254_V0.6471.00
288_T292_V0.6451.00
419_P423_A0.6441.00
128_K145_A0.6441.00
253_G256_A0.6421.00
115_N231_D0.6421.00
53_T58_I0.6411.00
315_T319_A0.6411.00
10_I343_M0.6401.00
398_A401_V0.6391.00
345_L417_M0.6381.00
411_V415_S0.6361.00
81_Y269_L0.6351.00
52_M56_Q0.6341.00
117_N121_K0.6331.00
129_G132_A0.6291.00
353_I409_G0.6281.00
277_T282_E0.6261.00
92_Q95_E0.6251.00
392_T395_Y0.6251.00
400_L404_A0.6241.00
126_L139_V0.6231.00
126_L132_A0.6221.00
251_N254_V0.6211.00
81_Y84_V0.6201.00
142_Y213_I0.6191.00
31_A311_G0.6191.00
208_F229_I0.6181.00
110_N113_F0.6181.00
101_L106_N0.6171.00
352_G416_G0.6151.00
407_I411_V0.6131.00
294_K298_I0.6111.00
127_E214_T0.6111.00
419_P424_T0.6101.00
65_M277_T0.6091.00
28_T312_I0.6071.00
347_E350_Y0.6061.00
135_E233_F0.6041.00
126_L215_K0.6041.00
396_I400_L0.6031.00
78_L252_I0.6031.00
320_V344_F0.6031.00
107_E147_R0.6031.00
364_Y401_V0.6021.00
45_I48_T0.6011.00
36_V359_G0.6001.00
31_A34_F0.6001.00
186_I208_F0.5961.00
277_T281_T0.5951.00
40_S363_S0.5931.00
49_I53_T0.5921.00
275_Y278_S0.5921.00
249_E253_G0.5911.00
235_K238_S0.5911.00
270_T276_V0.5911.00
33_A37_V0.5901.00
91_T94_Y0.5891.00
136_N209_K0.5891.00
54_M58_I0.5871.00
145_A148_L0.5871.00
329_I333_I0.5871.00
273_G276_V0.5861.00
343_M346_M0.5861.00
251_N255_F0.5851.00
256_A261_N0.5851.00
118_D121_K0.5851.00
11_R350_Y0.5851.00
292_V296_G0.5831.00
326_E329_I0.5831.00
390_N393_F0.5801.00
282_E285_G0.5791.00
90_R254_V0.5791.00
80_K84_V0.5791.00
109_S112_I0.5781.00
344_F348_S0.5781.00
321_T422_K0.5771.00
320_V423_A0.5761.00
139_V228_F0.5741.00
67_K70_D0.5731.00
129_G212_G0.5731.00
341_R345_L0.5711.00
43_F399_S0.5711.00
121_K255_F0.5691.00
307_I311_G0.5681.00
55_S58_I0.5681.00
98_K102_G0.5681.00
102_G106_N0.5671.00
233_F237_F0.5641.00
284_E287_N0.5631.00
324_T422_K0.5621.00
18_R21_V0.5611.00
345_L349_A0.5591.00
91_T121_K0.5591.00
274_Y278_S0.5581.00
296_G300_V0.5531.00
113_F231_D0.5511.00
112_I228_F0.5511.00
88_V256_A0.5511.00
183_N186_I0.5471.00
371_N374_V0.5461.00
62_V266_T0.5461.00
140_V149_L0.5461.00
127_E213_I0.5451.00
326_E347_E0.5441.00
262_V278_S0.5421.00
85_R88_V0.5371.00
100_T109_S0.5351.00
62_V254_V0.5351.00
95_E110_N0.5331.00
316_M416_G0.5331.00
344_F420_A0.5291.00
326_E343_M0.5291.00
42_G297_L0.5281.00
100_T103_N0.5281.00
256_A260_E0.5261.00
111_L114_T0.5251.00
184_K210_I0.5241.00
86_S261_N0.5241.00
236_D239_E0.5231.00
27_A318_M0.5231.00
24_T28_T0.5221.00
49_I52_M0.5211.00
287_N290_F0.5191.00
145_A210_I0.5191.00
218_S224_D0.5161.00
332_A428_V0.5151.00
228_F231_D0.5141.00
368_Y393_F0.5141.00
46_Q49_I0.5131.00
266_T269_L0.5131.00
338_S341_R0.5111.00
145_A150_T0.5101.00
61_K67_K0.5101.00
98_K111_L0.5101.00
235_K239_E0.5101.00
309_A313_F0.5091.00
428_V433_R0.5061.00
87_V265_L0.5041.00
367_S393_F0.5031.00
29_T359_G0.5031.00
360_I364_Y0.5031.00
111_L115_N0.5031.00
13_N20_R0.5031.00
112_I226_N0.5021.00
208_F237_F0.5011.00
344_F347_E0.5001.00
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  
3ftjA 1 0.4381 99.3 0.752 Contact Map
3is6A 2 0.4977 98.8 0.798 Contact Map
4il3A 1 0.4358 13.1 0.951 Contact Map
2f95B 2 0.1216 10.9 0.953 Contact Map
2kogA 1 0.094 9.1 0.955 Contact Map
4pl0A 2 0.2225 8.7 0.955 Contact Map
2l66A 2 0.1216 7.7 0.956 Contact Map
4gycB 2 0.1399 5.9 0.958 Contact Map
3zdqA 2 0.2225 5.7 0.958 Contact Map
1yfbA 2 0.1193 4.9 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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