GREMLIN Database
YHJD - Inner membrane protein YhjD
UniProt: P37642 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12248
Length: 337 (270)
Sequences: 5214 (3809)
Seq/√Len: 231.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
64_R318_A5.8531.00
65_L162_A3.9001.00
273_F309_F3.3091.00
276_I308_F3.1571.00
67_N311_R3.1371.00
183_L187_I2.9231.00
268_L319_W2.9211.00
265_G320_I2.7991.00
160_I317_A2.7551.00
57_A315_F2.6451.00
68_Q72_A2.5881.00
71_A76_F2.5311.00
154_G182_Y2.5101.00
246_F259_K2.4971.00
118_T121_A2.4811.00
268_L272_G2.4201.00
246_F266_T2.3201.00
61_F311_R2.2901.00
61_F66_G2.2681.00
53_H57_A2.2661.00
177_K180_V2.2171.00
56_R326_K2.1151.00
249_F269_A2.0471.00
64_R169_E2.0291.00
51_I55_I2.0161.00
65_L158_E1.9981.00
160_I252_L1.9951.00
161_R253_P1.9531.00
242_Y267_F1.9331.00
73_I310_A1.9101.00
110_I114_I1.8581.00
264_R320_I1.8351.00
57_A319_W1.8301.00
262_L266_T1.8221.00
249_F316_C1.8091.00
128_N132_Q1.7901.00
242_Y263_I1.7371.00
280_M284_L1.7311.00
60_R169_E1.7131.00
56_R322_T1.7111.00
121_A124_K1.7091.00
269_A316_C1.6741.00
159_A314_L1.6641.00
284_L301_G1.6621.00
242_Y270_A1.6591.00
227_P231_L1.6511.00
168_W320_I1.6481.00
279_V282_Y1.6001.00
55_I59_E1.5901.00
125_N128_N1.5821.00
161_R254_R1.5821.00
282_Y286_S1.5821.00
238_I270_A1.5641.00
150_I182_Y1.5541.00
60_R64_R1.5511.00
60_R318_A1.5431.00
274_E277_K1.5371.00
250_W259_K1.5291.00
258_R261_A1.5211.00
139_L143_A1.5091.00
58_T62_N1.4981.00
179_W183_L1.4921.00
143_A147_Y1.4841.00
60_R322_T1.4701.00
80_S152_W1.4491.00
182_Y185_D1.4371.00
167_V314_L1.4311.00
157_R252_L1.4131.00
65_L68_Q1.4121.00
124_K128_N1.4091.00
57_A322_T1.4051.00
257_P262_L1.3861.00
157_R185_D1.3791.00
246_F262_L1.3761.00
175_Q254_R1.3731.00
70_G314_L1.3711.00
176_E184_R1.3701.00
52_A55_I1.3671.00
60_R321_A1.3631.00
54_L57_A1.3621.00
263_I267_F1.3541.00
211_Q215_S1.3451.00
245_F313_T1.3181.00
121_A125_N1.3171.00
161_R170_R1.3131.00
105_D108_D1.3111.00
117_P121_A1.2981.00
59_E63_D1.2931.00
70_G311_R1.2911.00
264_R268_L1.2491.00
76_F80_S1.2441.00
245_F270_A1.2421.00
178_F182_Y1.2401.00
107_F120_A1.2391.00
140_V144_V1.2361.00
119_L122_T1.2221.00
68_Q158_E1.2141.00
261_A324_E1.2101.00
73_I314_L1.1921.00
53_H323_A1.1911.00
186_F190_I1.1881.00
57_A66_G1.1661.00
271_I275_V1.1501.00
272_G312_L1.1341.00
111_L120_A1.1341.00
319_W323_A1.1281.00
277_K305_F1.1171.00
214_I218_H1.1161.00
261_A323_A1.1161.00
74_T310_A1.1151.00
53_H319_W1.1051.00
245_F273_F1.1011.00
51_I54_L1.0971.00
108_D111_L1.0941.00
71_A307_Y1.0901.00
135_T138_G1.0861.00
126_T129_T1.0851.00
263_I266_T1.0821.00
52_A326_K1.0751.00
65_L69_F1.0571.00
250_W262_L1.0541.00
47_R51_I1.0411.00
180_V184_R1.0371.00
60_R325_Y1.0361.00
247_W251_R1.0361.00
242_Y266_T1.0331.00
170_R254_R1.0251.00
123_L126_T1.0251.00
66_G315_F1.0211.00
107_F124_K1.0181.00
59_E62_N1.0161.00
77_S306_F1.0071.00
242_Y246_F1.0071.00
69_F162_A1.0071.00
167_V318_A0.9931.00
149_G189_L0.9821.00
248_I252_L0.9821.00
213_I216_A0.9781.00
103_L107_F0.9771.00
155_N158_E0.9761.00
69_F75_Y0.9701.00
117_P120_A0.9691.00
69_F159_A0.9591.00
104_Q108_D0.9571.00
74_T307_Y0.9541.00
66_G311_R0.9531.00
295_A298_S0.9501.00
69_F72_A0.9491.00
73_I159_A0.9441.00
297_G301_G0.9411.00
283_T287_L0.9361.00
180_V183_L0.9331.00
54_L58_T0.9261.00
75_Y304_A0.9171.00
264_R267_F0.9131.00
249_F317_A0.9051.00
90_A141_G0.9041.00
200_L204_S0.9030.99
74_T303_M0.9030.99
126_T130_A0.9020.99
250_W256_R0.9000.99
306_F310_A0.8980.99
92_G96_L0.8960.99
322_T325_Y0.8930.99
99_H104_Q0.8910.99
68_Q155_N0.8860.99
270_A274_E0.8850.99
75_Y303_M0.8830.99
257_P261_A0.8820.99
129_T132_Q0.8790.99
245_F269_A0.8770.99
74_T306_F0.8750.99
73_I156_L0.8720.99
61_F67_N0.8700.99
273_F295_A0.8690.99
215_S218_H0.8680.99
210_Q214_I0.8680.99
114_I120_A0.8660.99
76_F148_S0.8660.99
109_K112_Q0.8640.99
246_F250_W0.8620.99
212_M216_A0.8610.99
76_F155_N0.8580.99
111_L114_I0.8570.99
315_F319_W0.8450.99
72_A155_N0.8450.99
63_D171_S0.8440.99
108_D226_K0.8380.99
268_L316_C0.8380.99
150_I189_L0.8360.99
61_F315_F0.8360.99
86_M90_A0.8330.99
275_V279_V0.8320.99
153_M157_R0.8320.99
246_F263_I0.8290.99
168_W277_K0.8280.99
266_T270_A0.8260.99
238_I242_Y0.8250.99
86_M141_G0.8250.99
207_G211_Q0.8160.99
82_I299_V0.8160.99
82_I115_S0.8150.99
75_Y79_L0.8120.99
66_G318_A0.8070.99
51_I268_L0.8060.99
282_Y285_P0.8040.99
260_K263_I0.8020.99
67_N70_G0.7990.99
255_H324_E0.7960.99
98_S104_Q0.7960.99
226_K229_W0.7900.99
84_I189_L0.7890.99
87_V145_A0.7870.99
79_L304_A0.7870.99
228_T231_L0.7840.99
114_I123_L0.7840.99
48_Q51_I0.7810.99
127_I155_N0.7790.99
131_V134_R0.7720.98
87_V141_G0.7720.98
226_K230_R0.7710.98
79_L300_L0.7700.98
66_G314_L0.7670.98
225_L229_W0.7660.98
279_V308_F0.7650.98
111_L124_K0.7650.98
75_Y151_N0.7620.98
280_M302_L0.7590.98
292_S295_A0.7520.98
184_R187_I0.7520.98
288_M301_G0.7470.98
286_S289_K0.7410.98
191_G297_G0.7370.98
110_I120_A0.7350.98
151_N182_Y0.7340.98
269_A312_L0.7320.98
83_P294_A0.7320.98
239_F242_Y0.7320.98
154_G158_E0.7300.98
305_F309_F0.7280.98
203_T274_E0.7270.98
141_G144_V0.7260.98
71_A74_T0.7210.98
109_K113_N0.7210.98
129_T133_Q0.7170.97
108_D112_Q0.7160.97
315_F318_A0.7160.97
248_I313_T0.7120.97
278_I282_Y0.7060.97
53_H322_T0.7050.97
103_L106_I0.7050.97
273_F306_F0.7010.97
322_T326_K0.7000.97
148_S155_N0.7000.97
231_L235_A0.6930.97
265_G268_L0.6930.97
262_L320_I0.6920.97
149_G318_A0.6880.97
193_L197_I0.6800.96
170_R255_H0.6760.96
302_L305_F0.6760.96
219_L239_F0.6760.96
181_K196_L0.6750.96
125_N129_T0.6710.96
77_S310_A0.6710.96
84_I203_T0.6700.96
85_L127_I0.6690.96
152_W310_A0.6680.96
241_N270_A0.6620.96
79_L148_S0.6590.96
268_L271_I0.6580.96
73_I80_S0.6550.96
140_V208_S0.6530.96
87_V193_L0.6510.96
160_I170_R0.6470.95
245_F262_L0.6430.95
213_I217_L0.6340.95
280_M301_G0.6340.95
174_D181_K0.6330.95
90_A138_G0.6320.95
62_N67_N0.6310.95
127_I131_V0.6310.95
307_Y312_L0.6290.95
153_M188_S0.6250.94
82_I300_L0.6240.94
157_R181_K0.6190.94
88_S91_A0.6160.94
177_K182_Y0.6160.94
87_V153_M0.6160.94
126_T144_V0.6160.94
235_A239_F0.6150.94
141_G311_R0.6150.94
79_L287_L0.6130.94
57_A61_F0.6130.94
276_I312_L0.6130.94
257_P324_E0.6100.94
205_V208_S0.6090.94
49_P326_K0.6080.94
148_S151_N0.6070.94
194_I198_V0.6070.94
277_K295_A0.6070.94
157_R182_Y0.6070.94
64_R307_Y0.6020.93
251_R259_K0.6020.93
77_S87_V0.5970.93
276_I309_F0.5970.93
150_I185_D0.5960.93
241_N277_K0.5950.93
158_E162_A0.5950.93
249_F314_L0.5950.93
199_T240_A0.5930.93
197_I297_G0.5910.93
212_M215_S0.5910.93
238_I274_E0.5910.93
221_S239_F0.5870.92
246_F320_I0.5870.92
188_S252_L0.5870.92
115_S287_L0.5860.92
99_H105_D0.5860.92
67_N307_Y0.5850.92
272_G276_I0.5840.92
125_N215_S0.5820.92
227_P230_R0.5820.92
177_K195_A0.5810.92
107_F111_L0.5800.92
71_A75_Y0.5790.92
154_G185_D0.5770.92
159_A318_A0.5750.92
75_Y78_F0.5730.91
197_I200_L0.5720.91
126_T131_V0.5720.91
239_F243_L0.5720.91
157_R304_A0.5710.91
108_D273_F0.5700.91
102_L105_D0.5690.91
274_E278_I0.5690.91
76_F152_W0.5690.91
205_V295_A0.5660.91
232_I235_A0.5650.91
236_I239_F0.5650.91
75_Y313_T0.5650.91
235_A271_I0.5630.91
105_D110_I0.5630.91
206_A213_I0.5620.91
295_A299_V0.5610.91
56_R146_L0.5600.91
93_G97_A0.5580.90
76_F147_Y0.5580.90
92_G97_A0.5570.90
51_I58_T0.5560.90
65_L303_M0.5550.90
88_S127_I0.5550.90
86_M300_L0.5550.90
59_E146_L0.5550.90
81_M135_T0.5520.90
195_A244_L0.5510.90
55_I62_N0.5510.90
89_F159_A0.5510.90
151_N291_P0.5500.90
74_T78_F0.5480.90
321_A325_Y0.5450.89
206_A272_G0.5450.89
241_N274_E0.5430.89
203_T277_K0.5420.89
209_A212_M0.5410.89
239_F263_I0.5410.89
199_T202_I0.5400.89
76_F206_A0.5380.89
130_A293_G0.5360.89
146_L198_V0.5350.88
195_A199_T0.5330.88
72_A154_G0.5330.88
290_S295_A0.5320.88
78_F290_S0.5320.88
280_M283_T0.5320.88
249_F266_T0.5290.88
266_T320_I0.5280.88
112_Q217_L0.5270.88
241_N273_F0.5270.88
179_W182_Y0.5240.87
85_L210_Q0.5230.87
64_R322_T0.5220.87
98_S103_L0.5210.87
53_H326_K0.5210.87
81_M144_V0.5190.87
107_F110_I0.5180.87
220_N225_L0.5150.87
192_L302_L0.5150.87
239_F258_R0.5150.87
287_L292_S0.5140.86
184_R255_H0.5140.86
96_L99_H0.5120.86
107_F155_N0.5100.86
214_I217_L0.5080.86
160_I313_T0.5080.86
211_Q214_I0.5080.86
281_T285_P0.5070.86
78_F303_M0.5070.86
83_P146_L0.5070.86
80_S149_G0.5070.86
267_F270_A0.5060.86
74_T296_F0.5060.86
204_S277_K0.5020.85
104_Q124_K0.5020.85
189_L249_F0.5000.85
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  
3syjA 2 0 24.8 0.955 Contact Map
4qinA 2 0.4421 18.3 0.957 Contact Map
3j9pD 4 0.7478 17.2 0.958 Contact Map
4gx0A 3 0.3086 16.1 0.959 Contact Map
4cbcA 3 0 14.5 0.959 Contact Map
3wdoA 1 0.1899 14.4 0.959 Contact Map
3effK 4 0.3234 13.2 0.96 Contact Map
4p02A 1 0.3769 11.5 0.961 Contact Map
2xq2A 2 0.8368 11.2 0.961 Contact Map
2i68A 2 0.2255 9.5 0.962 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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