GREMLIN Database
YBIR - Inner membrane protein YbiR
UniProt: P75788 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13323
Length: 372 (350)
Sequences: 4483 (2993)
Seq/√Len: 160.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
325_L335_L3.4191.00
202_L206_C3.2441.00
77_T80_R3.2191.00
109_T127_E3.1951.00
70_K74_R3.1411.00
346_R349_L2.8371.00
35_S264_Q2.7481.00
209_L216_A2.4831.00
134_G171_M2.4211.00
49_S249_L2.4161.00
102_L131_V2.3851.00
208_G212_V2.3761.00
201_R205_S2.3681.00
213_F216_A2.3251.00
351_S355_L2.3191.00
102_L334_A2.3021.00
206_C214_L2.2951.00
209_L212_V2.2571.00
206_C212_V2.2281.00
66_V70_K2.2071.00
206_C210_Y2.1601.00
288_I359_A2.1591.00
204_W208_G2.1271.00
205_S215_T2.1271.00
211_I214_L2.1241.00
211_I215_T2.0701.00
124_I334_A2.0681.00
208_G215_T2.0521.00
155_S158_G2.0481.00
207_L215_T2.0161.00
204_W212_V1.9931.00
212_V216_A1.9831.00
212_V215_T1.9791.00
147_L304_L1.9671.00
206_C213_F1.9431.00
292_Q323_G1.9381.00
205_S212_V1.9291.00
139_P149_W1.9251.00
60_L239_R1.9111.00
207_L211_I1.9101.00
210_Y213_F1.8921.00
110_I343_I1.8921.00
219_F222_E1.8881.00
157_A161_A1.8691.00
208_G211_I1.8501.00
205_S216_A1.8321.00
352_I355_L1.8221.00
201_R216_A1.8141.00
205_S209_L1.8091.00
135_S142_N1.7971.00
312_L316_A1.7811.00
89_A105_V1.7761.00
208_G214_L1.7701.00
205_S208_G1.7401.00
201_R212_V1.7371.00
202_L205_S1.7321.00
66_V69_R1.7291.00
237_A240_V1.7101.00
269_Q273_G1.6941.00
210_Y214_L1.6741.00
206_C216_A1.6421.00
205_S214_L1.6391.00
203_V206_C1.6381.00
201_R215_T1.6361.00
87_L171_M1.6331.00
226_L229_V1.6261.00
200_P204_W1.6171.00
285_L363_Y1.6151.00
114_R341_R1.6111.00
203_V207_L1.5941.00
176_L180_C1.5861.00
119_P185_K1.5761.00
204_W215_T1.5701.00
158_G161_A1.5641.00
347_F351_S1.5591.00
69_R73_R1.5391.00
79_R179_W1.5351.00
164_A168_G1.5311.00
169_A365_L1.5241.00
348_H352_I1.5181.00
220_K223_L1.5171.00
136_L167_A1.5131.00
205_S213_F1.5111.00
197_E200_P1.4781.00
202_L214_L1.4741.00
201_R211_I1.4591.00
203_V214_L1.4511.00
106_V124_I1.4451.00
32_A35_S1.4331.00
231_A235_L1.4261.00
289_G293_V1.4171.00
201_R204_W1.4151.00
128_A334_A1.4131.00
229_V233_F1.4131.00
312_L366_L1.4121.00
201_R214_L1.4101.00
203_V216_A1.4011.00
182_F350_Y1.4001.00
176_L179_W1.3911.00
58_V63_Y1.3861.00
207_L214_L1.3761.00
232_G236_L1.3671.00
36_W39_A1.3671.00
203_V215_T1.3631.00
209_L213_F1.3531.00
325_L332_L1.3501.00
65_D69_R1.3331.00
97_T100_V1.3301.00
75_F84_F1.3151.00
18_L25_L1.3071.00
230_A234_A1.3071.00
345_W348_H1.3011.00
26_S29_V1.2931.00
113_K123_L1.2901.00
227_V231_A1.2901.00
218_E223_L1.2891.00
285_L289_G1.2891.00
21_V25_L1.2841.00
22_G25_L1.2831.00
204_W214_L1.2831.00
170_M358_A1.2821.00
15_F18_L1.2771.00
204_W210_Y1.2571.00
203_V213_F1.2571.00
198_W209_L1.2501.00
345_W349_L1.2471.00
37_P41_D1.2431.00
36_W40_I1.2411.00
270_G273_G1.2381.00
177_L357_W1.2261.00
21_V26_S1.2221.00
172_L176_L1.2211.00
353_P356_L1.2161.00
144_Q318_N1.2091.00
352_I356_L1.1911.00
173_T361_V1.1911.00
218_E221_Q1.1901.00
33_P36_W1.1831.00
206_C209_L1.1801.00
129_L354_M1.1791.00
286_T290_L1.1781.00
360_L364_V1.1751.00
201_R208_G1.1721.00
83_M179_W1.1721.00
193_V198_W1.1701.00
201_R209_L1.1691.00
34_K38_A1.1671.00
287_A313_L1.1631.00
33_P37_P1.1621.00
356_L360_L1.1621.00
83_M175_L1.1621.00
32_A36_W1.1521.00
182_F185_K1.1471.00
161_A165_P1.1471.00
60_L243_S1.1471.00
206_C215_T1.1461.00
207_L210_Y1.1461.00
86_V126_F1.1371.00
204_W207_L1.1311.00
122_R178_C1.1191.00
201_R210_Y1.1131.00
197_E201_R1.1131.00
125_I350_Y1.1001.00
18_L22_G1.1001.00
252_F321_G1.0981.00
70_K73_R1.0941.00
203_V208_G1.0941.00
22_G26_S1.0880.99
209_L215_T1.0850.99
25_L29_V1.0780.99
270_G274_N1.0780.99
19_I23_I1.0770.99
34_K40_I1.0770.99
300_T317_V1.0770.99
76_A80_R1.0740.99
88_A92_L1.0700.99
53_L241_V1.0670.99
210_Y215_T1.0660.99
99_D142_N1.0440.99
91_L95_F1.0430.99
106_V334_A1.0400.99
64_F68_G1.0360.99
87_L91_L1.0250.99
202_L213_F1.0200.99
323_G355_L1.0200.99
202_L208_G1.0190.99
92_L101_A1.0180.99
355_L359_A1.0150.99
222_E226_L1.0100.99
199_K205_S1.0100.99
59_E243_S1.0080.99
202_L215_T1.0060.99
143_P256_F1.0010.99
199_K203_V0.9950.99
18_L26_S0.9830.99
18_L27_F0.9770.99
287_A317_V0.9750.99
207_L213_F0.9740.99
180_C184_G0.9730.99
50_G226_L0.9650.99
199_K210_Y0.9620.99
291_S317_V0.9610.99
274_N278_L0.9600.99
121_N346_R0.9600.99
23_I26_S0.9540.99
316_A320_G0.9530.99
204_W216_A0.9520.99
38_A41_D0.9450.99
292_Q295_S0.9420.99
287_A316_A0.9390.98
193_V200_P0.9350.98
23_I27_F0.9330.98
17_L21_V0.9310.98
124_I338_A0.9280.98
274_N277_H0.9220.98
348_H351_S0.9220.98
56_K59_E0.9180.98
204_W213_F0.9150.98
44_T51_L0.9140.98
25_L30_P0.9040.98
226_L233_F0.8980.98
99_D135_S0.8960.98
273_G277_H0.8960.98
163_M314_V0.8950.98
201_R207_L0.8920.98
138_T141_G0.8910.98
97_T135_S0.8900.98
21_V36_W0.8880.98
208_G216_A0.8850.98
199_K216_A0.8840.98
349_L352_I0.8810.98
321_G331_N0.8800.98
325_L344_W0.8770.98
166_L315_W0.8760.98
199_K202_L0.8750.98
24_G28_F0.8730.98
136_L163_M0.8710.98
200_P216_A0.8690.97
226_L232_G0.8670.97
85_M109_T0.8670.97
18_L21_V0.8670.97
42_W49_S0.8660.97
203_V210_Y0.8650.97
35_S38_A0.8620.97
100_V251_V0.8620.97
147_L297_V0.8600.97
314_V317_V0.8570.97
137_L167_A0.8550.97
203_V211_I0.8460.97
144_Q297_V0.8440.97
287_A303_L0.8430.97
50_G230_A0.8420.97
260_H264_Q0.8410.97
337_M341_R0.8350.97
62_G65_D0.8350.97
348_H355_L0.8350.97
173_T177_L0.8330.97
34_K37_P0.8310.97
261_L265_L0.8280.97
106_V337_M0.8280.97
363_Y367_V0.8280.97
225_G230_A0.8240.97
203_V209_L0.8230.97
299_S303_L0.8180.96
31_F36_W0.8110.96
134_G141_G0.8110.96
169_A361_V0.8110.96
278_L282_G0.8050.96
207_L216_A0.8040.96
26_S36_W0.8000.96
49_S53_L0.8000.96
225_G229_V0.7990.96
125_I129_L0.7970.96
205_S210_Y0.7930.96
93_S297_V0.7920.96
268_L278_L0.7880.96
142_N145_N0.7860.95
198_W205_S0.7830.95
68_G71_M0.7820.95
129_L174_L0.7810.95
131_V330_A0.7810.95
130_A171_M0.7760.95
182_F186_A0.7750.95
19_I22_G0.7740.95
364_V367_V0.7730.95
51_L55_T0.7700.95
167_A171_M0.7610.95
202_L211_I0.7600.95
210_Y216_A0.7560.94
297_V329_L0.7560.94
160_I164_A0.7530.94
16_Q26_S0.7520.94
136_L319_V0.7470.94
180_C183_P0.7470.94
136_L318_N0.7450.94
211_I216_A0.7450.94
42_W46_I0.7440.94
207_L212_V0.7430.94
26_S33_P0.7430.94
299_S302_L0.7410.94
96_L124_I0.7410.94
50_G54_L0.7320.93
232_G235_L0.7320.93
37_P40_I0.7250.93
188_Q191_T0.7240.93
238_R241_V0.7220.93
17_L22_G0.7220.93
19_I25_L0.7200.93
78_E82_A0.7190.93
20_L27_F0.7180.93
228_I232_G0.7180.93
288_I355_L0.7180.93
344_W355_L0.7170.93
20_L26_S0.7170.93
300_T304_L0.7160.93
69_R72_V0.7160.93
15_F19_I0.7150.93
98_N142_N0.7120.92
144_Q295_S0.7120.92
66_V73_R0.7110.92
218_E222_E0.7070.92
141_G321_G0.7040.92
134_G252_F0.7030.92
45_I253_M0.7020.92
39_A260_H0.7020.92
47_T51_L0.7010.92
26_S31_F0.7010.92
44_T54_L0.7000.92
328_S331_N0.6990.92
219_F223_L0.6980.92
86_V178_C0.6980.92
285_L359_A0.6970.92
88_A131_V0.6940.91
159_F163_M0.6910.91
238_R242_L0.6860.91
140_I156_F0.6850.91
245_D252_F0.6850.91
199_K209_L0.6810.91
113_K120_V0.6810.91
149_W156_F0.6780.91
99_D145_N0.6780.91
16_Q20_L0.6750.90
28_F31_F0.6740.90
296_N326_P0.6730.90
295_S321_G0.6720.90
239_R242_L0.6710.90
314_V331_N0.6700.90
68_G73_R0.6690.90
49_S244_V0.6650.90
199_K214_L0.6650.90
349_L353_P0.6650.90
322_F331_N0.6620.89
229_V232_G0.6610.89
46_I50_G0.6600.89
328_S332_L0.6600.89
99_D333_I0.6590.89
262_L265_L0.6570.89
59_E111_T0.6540.89
143_P331_N0.6530.89
151_R304_L0.6520.89
296_N321_G0.6490.89
351_S354_M0.6470.88
268_L272_L0.6470.88
118_I123_L0.6460.88
51_L100_V0.6440.88
344_W348_H0.6420.88
193_V199_K0.6420.88
278_L281_P0.6400.88
20_L24_G0.6400.88
19_I26_S0.6360.88
344_W347_F0.6360.88
80_R114_R0.6350.87
313_L334_A0.6350.87
355_L362_G0.6340.87
318_N321_G0.6330.87
252_F296_N0.6300.87
99_D107_P0.6300.87
323_G352_I0.6300.87
204_W211_I0.6290.87
275_V282_G0.6280.87
351_S362_G0.6270.87
98_N143_P0.6260.87
64_F73_R0.6250.87
25_L261_L0.6240.87
198_W215_T0.6240.87
289_G323_G0.6230.86
16_Q19_I0.6220.86
65_D68_G0.6220.86
86_V130_A0.6210.86
135_S144_Q0.6210.86
198_W201_R0.6210.86
266_P269_Q0.6200.86
169_A364_V0.6180.86
319_V358_A0.6180.86
202_L209_L0.6170.86
199_K204_W0.6170.86
15_F26_S0.6170.86
48_L52_M0.6170.86
200_P215_T0.6140.86
143_P321_G0.6140.86
291_S295_S0.6130.86
270_G280_E0.6130.86
24_G27_F0.6130.86
344_W351_S0.6100.85
203_V212_V0.6090.85
359_A362_G0.6090.85
90_A129_L0.6080.85
201_R206_C0.6070.85
147_L301_I0.6050.85
230_A233_F0.6050.85
318_N331_N0.6040.85
166_L170_M0.6030.85
247_T250_L0.6030.85
31_F38_A0.6020.85
169_A362_G0.6010.84
109_T113_K0.5990.84
62_G68_G0.5990.84
295_S302_L0.5990.84
48_L134_G0.5970.84
132_N328_S0.5910.83
202_L216_A0.5910.83
269_Q272_L0.5900.83
290_L293_V0.5900.83
252_F256_F0.5900.83
144_Q292_Q0.5900.83
145_N298_P0.5870.83
208_G213_F0.5850.83
248_L333_I0.5850.83
97_T295_S0.5840.83
252_F297_V0.5820.82
130_A134_G0.5810.82
48_L97_T0.5800.82
98_N330_A0.5790.82
142_N292_Q0.5770.82
100_V322_F0.5770.82
331_N334_A0.5760.82
187_M190_H0.5750.82
97_T297_V0.5750.82
44_T52_M0.5750.82
290_L299_S0.5750.82
128_A351_S0.5730.82
21_V24_G0.5720.81
141_G256_F0.5720.81
183_P186_A0.5710.81
129_L133_A0.5700.81
142_N318_N0.5690.81
247_T339_N0.5690.81
44_T299_S0.5670.81
32_A39_A0.5640.81
35_S39_A0.5630.80
294_I299_S0.5610.80
316_A324_L0.5600.80
90_A171_M0.5590.80
73_R193_V0.5590.80
218_E225_G0.5580.80
62_G69_R0.5580.80
40_I253_M0.5570.80
113_K117_E0.5560.80
51_L97_T0.5560.80
173_T360_L0.5550.79
143_P322_F0.5530.79
64_F71_M0.5530.79
354_M359_A0.5510.79
348_H354_M0.5510.79
233_F236_L0.5500.79
318_N328_S0.5490.79
141_G331_N0.5490.79
64_F67_L0.5480.79
294_I298_P0.5450.78
322_F358_A0.5440.78
334_A338_A0.5440.78
142_N298_P0.5430.78
359_A363_Y0.5420.78
200_P209_L0.5410.78
179_W184_G0.5410.78
317_V320_G0.5400.78
355_L358_A0.5400.78
173_T357_W0.5390.77
198_W212_V0.5370.77
327_G332_L0.5370.77
352_I362_G0.5350.77
62_G66_V0.5350.77
202_L212_V0.5350.77
158_G162_Q0.5340.77
248_L336_R0.5330.77
318_N329_L0.5330.77
315_W319_V0.5330.77
319_V322_F0.5320.77
353_P357_W0.5310.76
39_A263_T0.5260.76
315_W362_G0.5250.76
156_F160_I0.5240.75
72_V112_L0.5240.75
273_G278_L0.5230.75
130_A141_G0.5190.75
222_E227_V0.5190.75
90_A94_T0.5180.75
193_V210_Y0.5180.75
193_V197_E0.5180.75
61_S64_F0.5180.75
90_A331_N0.5160.74
126_F174_L0.5150.74
135_S299_S0.5130.74
259_V330_A0.5120.74
26_S30_P0.5120.74
225_G233_F0.5120.74
276_S280_E0.5100.74
146_I316_A0.5090.73
197_E211_I0.5080.73
42_W50_G0.5080.73
248_L328_S0.5060.73
97_T142_N0.5060.73
86_V100_V0.5060.73
59_E65_D0.5040.73
25_L28_F0.5040.73
97_T103_F0.5040.73
129_L322_F0.5040.73
197_E215_T0.5040.73
123_L338_A0.5020.72
133_A170_M0.5020.72
324_L348_H0.5020.72
82_A178_C0.5010.72
144_Q333_I0.5010.72
304_L308_P0.5010.72
288_I302_L0.5000.72
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  
4f35D 2 0.9704 100 0.484 Contact Map
4r1iA 2 0.9866 99.7 0.768 Contact Map
4r0cA 3 0.9812 99.6 0.777 Contact Map
3aqpA 1 0.3817 16.9 0.962 Contact Map
3w9iA 3 0.3978 14.1 0.963 Contact Map
2mfrA 1 0.1532 10.4 0.965 Contact Map
3zojA 3 0.4382 8.9 0.966 Contact Map
4wgvA 2 0.5565 6 0.969 Contact Map
3ne5A 3 0.3091 5.5 0.969 Contact Map
4mt1A 3 0.3978 5.5 0.969 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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