GREMLIN Database
YBHR - Inner membrane transport permease YbhR
UniProt: P0AFP9 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13674
Length: 368 (348)
Sequences: 11105 (9157)
Seq/√Len: 490.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
51_A95_A5.3451.00
86_I98_L4.7151.00
259_T327_I4.7111.00
82_S85_E4.1831.00
104_D108_K3.8071.00
108_K113_Q3.7291.00
89_T95_A3.6681.00
8_L221_G3.5761.00
10_R14_Q3.2891.00
88_P92_T3.1981.00
9_I228_I3.1501.00
83_P87_R2.9331.00
9_I224_V2.7271.00
87_R91_D2.6421.00
5_L224_V2.5031.00
12_E222_K2.4981.00
310_V314_N2.4971.00
214_T217_Q2.4841.00
80_L89_T2.4471.00
5_L9_I2.4121.00
89_T94_K2.3971.00
90_I98_L2.3731.00
51_A80_L2.3661.00
100_R120_I2.3011.00
101_F105_F2.2831.00
342_W346_W2.2421.00
85_E89_T2.2291.00
265_L352_T2.2201.00
273_L358_A2.2161.00
260_M324_F2.1841.00
235_T257_Y2.1661.00
239_A243_W2.1031.00
346_W350_V2.1031.00
54_D57_N2.0761.00
52_I65_T2.0551.00
262_I349_L2.0281.00
263_Y324_F2.0191.00
83_P100_R1.9861.00
266_S352_T1.9771.00
55_E83_P1.9731.00
54_D61_S1.9611.00
350_V354_T1.9451.00
81_K85_E1.9071.00
55_E100_R1.9041.00
14_Q17_L1.8501.00
316_T322_R1.8351.00
351_I355_T1.8011.00
337_S340_I1.7581.00
88_P91_D1.7491.00
53_Y86_I1.7241.00
269_G352_T1.7211.00
58_G61_S1.7151.00
255_L331_I1.7111.00
234_A260_M1.6951.00
6_W10_R1.6861.00
47_N75_T1.6811.00
227_L261_V1.6711.00
262_I352_T1.6611.00
56_D106_S1.6551.00
326_D344_S1.6241.00
254_A258_F1.6171.00
199_E222_K1.6101.00
49_T77_V1.5981.00
14_Q18_R1.5841.00
54_D58_G1.5781.00
11_K199_E1.5521.00
95_A98_L1.5461.00
263_Y267_L1.5371.00
227_L265_L1.5291.00
317_W323_H1.5291.00
230_A264_G1.5141.00
49_T75_T1.5141.00
317_W322_R1.5021.00
270_F291_F1.4931.00
305_V316_T1.4861.00
13_L232_F1.4831.00
60_H106_S1.4651.00
58_G106_S1.4631.00
170_D173_W1.4631.00
84_Q87_R1.4621.00
179_L182_M1.4481.00
128_S131_I1.4381.00
5_L217_Q1.4371.00
60_H109_L1.4301.00
266_S355_T1.3961.00
280_T283_Q1.3891.00
259_T345_L1.3821.00
347_P351_I1.3741.00
55_E103_A1.3671.00
262_I345_L1.3651.00
343_N347_P1.3651.00
276_S362_M1.3611.00
193_S284_A1.3491.00
63_E66_Q1.3471.00
67_R70_R1.3391.00
61_S106_S1.3331.00
66_Q69_A1.3321.00
357_S361_A1.3321.00
85_E88_P1.3131.00
87_R120_I1.3001.00
231_T261_V1.2941.00
273_L359_A1.2941.00
239_A242_I1.2921.00
104_D107_R1.2911.00
140_V144_Q1.2801.00
313_Q317_W1.2791.00
330_Q336_A1.2791.00
56_D104_D1.2771.00
310_V313_Q1.2721.00
100_R118_Q1.2681.00
216_W360_Y1.2601.00
68_F136_L1.2591.00
322_R326_D1.2511.00
192_T196_V1.2421.00
311_W314_N1.2391.00
51_A89_T1.2371.00
137_Q141_K1.2321.00
252_S255_L1.2321.00
9_I221_G1.2261.00
13_L228_I1.2261.00
240_I244_A1.2251.00
5_L220_I1.2171.00
314_N318_I1.2161.00
128_S132_A1.2111.00
259_T331_I1.2031.00
330_Q334_K1.2011.00
17_L20_P1.1991.00
216_W220_I1.1951.00
347_P350_V1.1941.00
30_V40_A1.1901.00
345_L349_L1.1841.00
97_L132_A1.1811.00
323_H347_P1.1741.00
9_I225_P1.1731.00
90_I95_A1.1691.00
83_P98_L1.1681.00
311_W315_L1.1671.00
135_Y139_I1.1561.00
289_F293_M1.1501.00
266_S348_L1.1461.00
133_A137_Q1.1421.00
314_N317_W1.1351.00
56_D101_F1.1331.00
271_G275_S1.1321.00
136_L139_I1.1301.00
219_F360_Y1.1281.00
53_Y80_L1.1251.00
293_M296_I1.1241.00
266_S351_I1.1231.00
217_Q221_G1.1221.00
106_S110_D1.1211.00
309_P313_Q1.1161.00
273_L362_M1.1151.00
228_I232_F1.1131.00
6_W9_I1.1081.00
5_L221_G1.1011.00
238_L260_M1.0981.00
319_N322_R1.0941.00
197_A200_R1.0801.00
35_I39_F1.0521.00
199_E204_T1.0501.00
305_V308_M1.0501.00
84_Q88_P1.0401.00
162_R165_Y1.0331.00
323_H344_S1.0261.00
50_I99_V1.0241.00
221_G225_P1.0201.00
98_L120_I1.0161.00
181_A324_F1.0081.00
256_F328_T1.0081.00
308_M313_Q1.0081.00
130_Q133_A1.0061.00
8_L213_L0.9941.00
141_K145_Q0.9911.00
254_A257_Y0.9901.00
138_Q142_N0.9841.00
197_A284_A0.9831.00
264_G268_V0.9831.00
177_P181_A0.9821.00
81_K89_T0.9811.00
269_G356_G0.9721.00
273_L355_T0.9641.00
49_T96_L0.9611.00
34_V38_P0.9541.00
80_L95_A0.9541.00
180_I188_V0.9521.00
182_M188_V0.9481.00
354_T358_A0.9471.00
19_E22_T0.9431.00
177_P182_M0.9411.00
53_Y98_L0.9371.00
335_D338_L0.9321.00
336_A340_I0.9291.00
11_K14_Q0.9291.00
34_V37_F0.9271.00
62_V66_Q0.9271.00
238_L256_F0.9241.00
34_V241_G0.9191.00
352_T356_G0.9131.00
339_D343_N0.9101.00
231_T235_T0.8991.00
290_V294_P0.8991.00
300_G304_P0.8981.00
99_V119_L0.8961.00
154_P157_S0.8951.00
255_L258_F0.8891.00
35_I240_I0.8871.00
61_S101_F0.8861.00
349_L353_A0.8811.00
61_S65_T0.8791.00
326_D330_Q0.8751.00
223_A268_V0.8731.00
81_K86_I0.8711.00
13_L225_P0.8691.00
61_S64_L0.8541.00
269_G355_T0.8541.00
57_N103_A0.8531.00
355_T359_A0.8491.00
227_L268_V0.8481.00
135_Y138_Q0.8471.00
50_I97_L0.8441.00
122_D125_N0.8441.00
65_T69_A0.8321.00
132_A135_Y0.8321.00
197_A201_E0.8301.00
309_P312_L0.8291.00
119_L122_D0.8281.00
73_A77_V0.8281.00
352_T355_T0.8271.00
260_M328_T0.8271.00
286_I289_F0.8261.00
13_L17_L0.8241.00
185_T267_L0.8231.00
33_Q37_F0.8201.00
278_C287_G0.8191.00
344_S348_L0.8171.00
184_T188_V0.8151.00
270_F355_T0.8131.00
323_H326_D0.8121.00
86_I89_T0.8121.00
223_A265_L0.8111.00
112_F115_A0.8081.00
12_E225_P0.8061.00
99_V117_L0.8011.00
182_M186_I0.8011.00
208_L218_I0.8011.00
77_V81_K0.8011.00
273_L277_L0.8001.00
83_P86_I0.7991.00
253_L257_Y0.7991.00
81_K95_A0.7971.00
185_T188_V0.7961.00
296_I299_S0.7931.00
278_C283_Q0.7881.00
292_M296_I0.7871.00
30_V33_Q0.7871.00
341_V345_L0.7861.00
198_R202_Q0.7831.00
31_L35_I0.7821.00
196_V199_E0.7751.00
178_S183_I0.7751.00
80_L86_I0.7721.00
348_L351_I0.7701.00
187_G233_Q0.7681.00
176_V179_L0.7641.00
63_E67_R0.7631.00
259_T341_V0.7631.00
54_D65_T0.7571.00
156_N159_L0.7561.00
82_S86_I0.7551.00
156_N161_V0.7541.00
200_R203_G0.7521.00
118_Q121_L0.7511.00
30_V36_L0.7511.00
183_I188_V0.7511.00
56_D61_S0.7501.00
199_E203_G0.7501.00
276_S359_A0.7451.00
316_T319_N0.7431.00
96_L122_D0.7381.00
36_L39_F0.7371.00
71_A74_F0.7371.00
69_A76_H0.7361.00
178_S181_A0.7341.00
213_L218_I0.7331.00
343_N350_V0.7321.00
224_V228_I0.7311.00
153_K156_N0.7311.00
64_L105_F0.7261.00
223_A269_G0.7261.00
73_A76_H0.7251.00
181_A188_V0.7211.00
181_A321_I0.7211.00
51_A98_L0.7181.00
201_E281_Q0.7171.00
141_K144_Q0.7161.00
155_N158_E0.7141.00
174_F188_V0.7121.00
54_D101_F0.7121.00
205_L218_I0.7111.00
305_V313_Q0.7101.00
132_A140_V0.7051.00
330_Q344_S0.7031.00
262_I348_L0.6971.00
286_I295_A0.6961.00
9_I13_L0.6961.00
272_L359_A0.6931.00
11_K15_S0.6911.00
356_G360_Y0.6901.00
344_S347_P0.6881.00
323_H351_I0.6861.00
194_L197_A0.6861.00
87_R98_L0.6861.00
64_L101_F0.6861.00
344_S351_I0.6851.00
97_L136_L0.6831.00
257_Y260_M0.6821.00
159_L162_R0.6811.00
209_L218_I0.6761.00
340_I343_N0.6751.00
53_Y56_D0.6741.00
80_L83_P0.6741.00
161_V164_W0.6741.00
320_P332_Y0.6661.00
133_A136_L0.6631.00
308_M312_L0.6631.00
24_A28_L0.6621.00
7_T10_R0.6571.00
291_F295_A0.6571.00
255_L341_V0.6541.00
246_Q249_F0.6541.00
53_Y82_S0.6501.00
273_L276_S0.6501.00
222_K226_A0.6491.00
52_I55_E0.6471.00
71_A76_H0.6471.00
89_T92_T0.6461.00
274_I278_C0.6421.00
349_L352_T0.6411.00
12_E16_L0.6411.00
60_H63_E0.6391.00
8_L218_I0.6341.00
121_L129_A0.6331.00
324_F327_I0.6331.00
192_T199_E0.6311.00
38_P245_Y0.6311.00
60_H65_T0.6301.00
131_I135_Y0.6291.00
200_R205_L0.6271.00
5_L216_W0.6271.00
196_V200_R0.6261.00
175_V179_L0.6261.00
355_T358_A0.6251.00
191_V195_S0.6221.00
105_F115_A0.6201.00
219_F272_L0.6191.00
330_Q340_I0.6181.00
177_P184_T0.6171.00
233_Q237_V0.6171.00
30_V284_A0.6160.99
160_V163_N0.6140.99
129_A135_Y0.6140.99
90_I93_Q0.6140.99
286_I294_P0.6140.99
157_S161_V0.6130.99
255_L345_L0.6130.99
52_I76_H0.6120.99
327_I331_I0.6110.99
287_G294_P0.6100.99
195_S199_E0.6100.99
343_N346_W0.6100.99
77_V80_L0.6090.99
338_L342_W0.6080.99
238_L253_L0.6080.99
227_L231_T0.6070.99
116_P160_V0.6060.99
134_N138_Q0.6060.99
327_I330_Q0.6050.99
176_V187_G0.6030.99
39_F244_A0.6030.99
347_P354_T0.5990.99
26_L29_P0.5990.99
130_Q134_N0.5980.99
295_A319_N0.5980.99
294_P297_L0.5960.99
346_W349_L0.5960.99
183_I187_G0.5960.99
347_P355_T0.5950.99
7_T11_K0.5950.99
329_K332_Y0.5940.99
74_F77_V0.5940.99
342_W345_L0.5930.99
132_A139_I0.5880.99
27_I232_F0.5880.99
192_T226_A0.5870.99
77_V95_A0.5870.99
64_L140_V0.5860.99
358_A362_M0.5860.99
132_A136_L0.5840.99
135_Y140_V0.5840.99
208_L211_S0.5810.99
105_F143_Y0.5810.99
172_K176_V0.5800.99
86_I97_L0.5790.99
305_V322_R0.5790.99
20_P23_R0.5780.99
134_N139_I0.5780.99
194_L281_Q0.5780.99
235_T238_L0.5770.99
37_F41_A0.5740.99
340_I344_S0.5730.99
182_M187_G0.5730.99
198_R201_E0.5730.99
353_A357_S0.5730.99
16_L26_L0.5730.99
72_S75_T0.5720.99
16_L229_V0.5700.99
83_P120_I0.5690.99
336_A341_V0.5680.99
232_F235_T0.5680.99
29_P33_Q0.5670.99
11_K204_T0.5670.99
158_E161_V0.5660.99
59_E106_S0.5650.99
257_Y261_V0.5650.99
179_L185_T0.5650.99
174_F184_T0.5630.99
86_I90_I0.5620.99
52_I56_D0.5610.99
223_A272_L0.5610.99
177_P187_G0.5600.99
176_V188_V0.5600.99
283_Q286_I0.5590.99
188_V267_L0.5590.99
45_V48_A0.5580.99
235_T253_L0.5580.99
25_I29_P0.5530.99
303_S307_N0.5530.99
269_G359_A0.5520.99
185_T263_Y0.5520.99
192_T195_S0.5510.99
102_P116_P0.5510.99
321_I325_T0.5500.99
128_S139_I0.5500.99
249_F253_L0.5480.99
116_P158_E0.5480.99
161_V165_Y0.5470.99
139_I144_Q0.5450.99
108_K115_A0.5450.99
139_I143_Y0.5440.99
275_S286_I0.5440.99
131_I144_Q0.5440.99
319_N323_H0.5430.99
327_I336_A0.5420.99
289_F292_M0.5410.99
219_F356_G0.5410.99
175_V188_V0.5400.99
223_A227_L0.5400.99
327_I341_V0.5390.99
30_V34_V0.5380.99
154_P159_L0.5380.99
163_N167_P0.5380.99
62_V65_T0.5380.99
108_K116_P0.5370.99
34_V237_V0.5370.99
261_V265_L0.5350.99
168_N173_W0.5350.99
160_V164_W0.5340.99
353_A356_G0.5330.99
97_L119_L0.5330.99
292_M295_A0.5320.99
34_V40_A0.5300.98
297_L303_S0.5290.98
338_L341_V0.5290.98
328_T332_Y0.5280.98
90_I120_I0.5280.98
292_M297_L0.5280.98
234_A238_L0.5280.98
153_K157_S0.5280.98
173_W248_P0.5280.98
356_G359_A0.5270.98
132_A141_K0.5270.98
181_A185_T0.5260.98
57_N61_S0.5260.98
213_L217_Q0.5250.98
327_I348_L0.5250.98
155_N159_L0.5240.98
351_I354_T0.5240.98
30_V37_F0.5240.98
327_I344_S0.5230.98
181_A184_T0.5220.98
12_E218_I0.5210.98
35_I38_P0.5210.98
221_G224_V0.5210.98
88_P94_K0.5210.98
258_F262_I0.5210.98
135_Y142_N0.5200.98
282_Q286_I0.5200.98
101_F117_L0.5190.98
50_I55_E0.5170.98
28_L32_I0.5170.98
107_R111_T0.5140.98
339_D342_W0.5130.98
317_W320_P0.5130.98
266_S270_F0.5130.98
171_Y175_V0.5110.98
218_I221_G0.5100.98
29_P34_V0.5090.98
159_L165_Y0.5080.98
204_T212_P0.5080.98
175_V178_S0.5050.98
51_A55_E0.5040.98
140_V145_Q0.5040.98
178_S184_T0.5030.98
12_E15_S0.5020.98
171_Y174_F0.5020.98
60_H143_Y0.5020.98
173_W181_A0.5020.98
50_I74_F0.5010.98
58_G104_D0.5000.98
358_A361_A0.5000.98
269_G276_S0.5000.98
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 0.3696 99.6 0.709 Contact Map
2p0sA 2 0.3288 97.7 0.852 Contact Map
2qv0A 2 0.3098 13.7 0.951 Contact Map
3gt7A 1 0.2826 13.3 0.951 Contact Map
3cnbA 1 0.3071 12.7 0.952 Contact Map
3cg4A 1 0.3125 11.5 0.953 Contact Map
3i6vA 1 0.4103 11.3 0.953 Contact Map
4le1A 2 0.3397 11.3 0.953 Contact Map
2gkgA 1 0.3016 10.8 0.953 Contact Map
3cg0A 4 0.3125 10.7 0.953 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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