GREMLIN Database
YDBI - UPF0118 membrane protein YdbI
UniProt: P96604 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 350 (315)
Sequences: 10931 (8468)
Seq/√Len: 477.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
220_A273_V5.0391.00
218_F233_S4.9531.00
52_V56_F4.8291.00
304_V324_F3.1361.00
44_F196_A2.8511.00
54_R65_Q2.8201.00
214_C237_F2.6681.00
265_M269_Y2.6171.00
64_S67_V2.4931.00
42_F159_S2.4641.00
268_L272_L2.4641.00
218_F222_W2.4131.00
52_V55_Q2.3661.00
255_S271_V2.3601.00
214_C233_S2.3221.00
63_V71_F2.1601.00
328_L332_D2.1221.00
23_T27_Y2.0871.00
221_L226_F2.0251.00
190_F333_V1.9651.00
255_S267_V1.9401.00
47_D51_L1.9281.00
101_Q104_H1.8761.00
272_L276_A1.8631.00
39_T159_S1.8601.00
207_F241_L1.8321.00
24_G28_L1.8251.00
205_A289_L1.7981.00
160_M164_F1.7941.00
194_K333_V1.7941.00
269_Y272_L1.7551.00
235_M239_L1.7231.00
195_F326_F1.7221.00
50_E72_L1.7151.00
66_R70_T1.7061.00
69_I160_M1.6921.00
117_E120_S1.6791.00
217_T236_V1.6781.00
229_L233_S1.6711.00
50_E69_I1.6621.00
174_A189_A1.6571.00
219_I222_W1.6561.00
107_Y110_D1.6461.00
217_T277_I1.6421.00
263_G266_Y1.6421.00
47_D65_Q1.6371.00
158_L299_F1.6341.00
112_I115_F1.5971.00
81_T85_F1.5901.00
288_K292_A1.5811.00
69_I73_Y1.5801.00
119_T123_G1.5761.00
66_R164_F1.5741.00
155_A159_S1.5671.00
222_W229_L1.5631.00
227_P261_T1.5551.00
111_S115_F1.5541.00
266_Y269_Y1.5501.00
218_F229_L1.5481.00
99_V103_K1.5361.00
94_Q99_V1.5351.00
165_E297_P1.5301.00
36_I303_T1.5211.00
177_K188_I1.5191.00
108_H111_S1.5021.00
50_E65_Q1.4861.00
216_L277_I1.4821.00
285_L289_L1.4811.00
49_L72_L1.4711.00
110_D114_F1.4501.00
19_F23_T1.4491.00
239_L250_S1.4321.00
104_H108_H1.4261.00
309_E317_L1.4231.00
213_N240_G1.4211.00
53_V75_L1.4201.00
63_V67_V1.3901.00
121_V124_D1.3731.00
104_H107_Y1.3721.00
120_S123_G1.3681.00
158_L162_F1.3661.00
46_M163_L1.3631.00
275_F279_A1.3511.00
96_Q100_K1.3401.00
232_L254_L1.3201.00
171_E175_K1.3181.00
258_A270_I1.3171.00
265_M268_L1.3101.00
251_L255_S1.3031.00
126_N129_S1.3011.00
39_T155_A1.2891.00
77_A81_T1.2731.00
220_A269_Y1.2601.00
108_H112_I1.2601.00
122_F125_I1.2551.00
103_K107_Y1.2551.00
254_L270_I1.2491.00
271_V275_F1.2321.00
220_A224_M1.2291.00
305_L317_L1.2271.00
50_E163_L1.2251.00
27_Y30_K1.2241.00
209_I281_E1.2021.00
165_E168_R1.1961.00
178_T182_R1.1931.00
120_S124_D1.1911.00
13_V17_S1.1901.00
204_E208_I1.1871.00
280_I285_L1.1811.00
93_A97_Q1.1811.00
70_T74_M1.1781.00
24_G27_Y1.1741.00
213_N277_I1.1701.00
49_L52_V1.1681.00
43_T162_F1.1681.00
226_F258_A1.1671.00
96_Q99_V1.1661.00
20_V24_G1.1631.00
12_G16_F1.1551.00
35_L39_T1.1551.00
198_T325_V1.1521.00
102_I105_I1.1511.00
194_K332_D1.1461.00
46_M76_L1.1451.00
300_F324_F1.1421.00
88_Y92_A1.1391.00
50_E68_V1.1391.00
278_H282_T1.1361.00
47_D166_K1.1351.00
117_E121_V1.1341.00
42_F155_A1.1311.00
233_S237_F1.1301.00
168_R171_E1.1281.00
101_Q105_I1.1271.00
264_G267_V1.1261.00
219_I223_I1.1261.00
67_V70_T1.1251.00
68_V72_L1.1211.00
118_I121_V1.1131.00
65_Q167_K1.1121.00
66_R160_M1.1121.00
224_M273_V1.1111.00
116_D120_S1.1091.00
259_Y267_V1.1081.00
308_S312_F1.1071.00
264_G268_L1.1071.00
267_V271_V1.1061.00
191_F330_I1.1041.00
97_Q100_K1.1001.00
258_A267_V1.0901.00
179_S182_R1.0871.00
50_E54_R1.0831.00
210_A240_G1.0791.00
107_Y111_S1.0741.00
315_W319_I1.0711.00
127_I130_Y1.0701.00
15_R19_F1.0661.00
129_S132_K1.0641.00
54_R68_V1.0601.00
209_I285_L1.0601.00
105_I109_P1.0571.00
190_F194_K1.0531.00
304_V308_S1.0471.00
39_T43_T1.0421.00
23_T26_L1.0391.00
36_I158_L1.0391.00
218_F230_F1.0331.00
224_M266_Y1.0301.00
220_A277_I1.0281.00
63_V68_V1.0281.00
207_F211_L1.0211.00
73_Y159_S1.0171.00
158_L303_T1.0171.00
40_F162_F1.0131.00
130_Y134_G1.0121.00
224_M270_I1.0121.00
38_L155_A1.0021.00
111_S114_F0.9941.00
211_L237_F0.9921.00
214_C218_F0.9901.00
148_F152_V0.9881.00
142_L146_S0.9851.00
208_I212_V0.9851.00
257_I261_T0.9811.00
206_Q286_N0.9811.00
138_V142_L0.9741.00
201_K293_K0.9731.00
52_V62_R0.9701.00
221_L232_L0.9671.00
172_F175_K0.9661.00
174_A178_T0.9651.00
201_K205_A0.9641.00
308_S324_F0.9631.00
85_F89_P0.9601.00
284_F288_K0.9521.00
209_I213_N0.9501.00
221_L236_V0.9501.00
154_M158_L0.9481.00
18_I22_L0.9401.00
174_A182_R0.9391.00
213_N247_V0.9381.00
304_V320_G0.9371.00
90_V93_A0.9351.00
121_V125_I0.9331.00
116_D119_T0.9301.00
273_V277_I0.9281.00
269_Y273_V0.9281.00
106_A110_D0.9281.00
282_T286_N0.9271.00
51_L54_R0.9271.00
300_F328_L0.9271.00
166_K170_S0.9251.00
280_I284_F0.9221.00
221_L270_I0.9201.00
129_S133_E0.9171.00
14_R28_L0.9151.00
237_F241_L0.9141.00
215_I219_I0.9141.00
131_V134_G0.9121.00
235_M250_S0.9091.00
53_V72_L0.9091.00
233_S236_V0.9051.00
278_H281_E0.9041.00
90_V94_Q0.9041.00
330_I334_T0.9011.00
249_I253_P0.9011.00
213_N217_T0.8981.00
327_L331_L0.8971.00
16_F20_V0.8941.00
276_A280_I0.8811.00
228_Q231_G0.8811.00
215_I218_F0.8771.00
93_A96_Q0.8741.00
128_S132_K0.8721.00
178_T181_L0.8661.00
290_M301_T0.8641.00
197_R201_K0.8621.00
32_M307_F0.8541.00
281_E286_N0.8541.00
46_M72_L0.8531.00
170_S174_A0.8511.00
209_I286_N0.8501.00
56_F62_R0.8481.00
224_M269_Y0.8461.00
79_L83_G0.8441.00
134_G137_V0.8431.00
259_Y264_G0.8401.00
222_W225_H0.8391.00
51_L55_Q0.8371.00
141_Y145_I0.8331.00
222_W233_S0.8331.00
256_I260_S0.8301.00
39_T158_L0.8291.00
303_T307_F0.8281.00
251_L274_I0.8261.00
109_P112_I0.8251.00
168_R172_F0.8241.00
94_Q97_Q0.8231.00
97_Q101_Q0.8181.00
15_R18_I0.8141.00
320_G324_F0.8121.00
14_R18_I0.8121.00
177_K181_L0.8111.00
217_T221_L0.8111.00
95_I99_V0.8101.00
212_V285_L0.8051.00
211_L215_I0.8001.00
191_F333_V0.7991.00
18_I25_V0.7971.00
209_I240_G0.7921.00
36_I162_F0.7871.00
232_L257_I0.7751.00
279_A283_Y0.7751.00
258_A263_G0.7691.00
212_V216_L0.7691.00
296_L324_F0.7651.00
308_S323_I0.7641.00
144_D147_T0.7641.00
210_A241_L0.7631.00
210_A214_C0.7621.00
187_E333_V0.7621.00
240_G247_V0.7601.00
213_N286_N0.7581.00
17_S21_V0.7581.00
56_F63_V0.7511.00
20_V27_Y0.7491.00
53_V68_V0.7441.00
194_K329_D0.7421.00
20_V23_T0.7411.00
236_V240_G0.7401.00
189_A193_S0.7401.00
236_V250_S0.7401.00
21_V25_V0.7391.00
255_S259_Y0.7391.00
279_A282_T0.7361.00
43_T159_S0.7351.00
25_V29_F0.7351.00
209_I290_M0.7331.00
54_R62_R0.7301.00
159_S163_L0.7281.00
195_F329_D0.7261.00
187_E190_F0.7241.00
100_K104_H0.7231.00
208_I289_L0.7211.00
53_V63_V0.7151.00
43_T47_D0.7111.00
172_F176_F0.7111.00
51_L167_K0.7091.00
188_I192_G0.7071.00
261_T266_Y0.7071.00
134_G138_V0.7031.00
64_S68_V0.7021.00
54_R64_S0.6991.00
147_T151_Q0.6991.00
291_S301_T0.6971.00
13_V18_I0.6941.00
16_F19_F0.6931.00
217_T233_S0.6911.00
240_G286_N0.6881.00
176_F331_L0.6851.00
25_V28_L0.6851.00
208_I211_L0.6831.00
135_F138_V0.6801.00
171_E174_A0.6781.00
324_F328_L0.6721.00
200_G204_E0.6711.00
198_T201_K0.6701.00
133_E137_V0.6691.00
75_L78_V0.6691.00
244_V298_I0.6681.00
174_A177_K0.6671.00
286_N290_M0.6651.00
214_C234_I0.6621.00
247_V278_H0.6611.00
194_K198_T0.6601.00
294_T321_I0.6591.00
301_T321_I0.6561.00
84_G88_Y0.6551.00
171_E189_A0.6511.00
217_T273_V0.6491.00
35_L151_Q0.6481.00
133_E136_N0.6481.00
91_V95_I0.6471.00
240_G281_E0.6461.00
250_S254_L0.6441.00
47_D163_L0.6441.00
22_L25_V0.6431.00
92_A95_I0.6421.00
82_V86_V0.6411.00
286_N289_L0.6411.00
191_F195_F0.6391.00
73_Y160_M0.6371.00
139_Y143_A0.6351.00
126_N130_Y0.6331.00
92_A96_Q0.6291.00
314_I317_L0.6271.00
79_L82_V0.6261.00
126_N131_V0.6261.00
46_M49_L0.6250.99
152_V156_L0.6220.99
87_F91_V0.6190.99
193_S197_R0.6190.99
118_I125_I0.6170.99
214_C230_F0.6160.99
19_F22_L0.6160.99
35_L291_S0.6130.99
137_V141_Y0.6130.99
46_M159_S0.6130.99
172_F300_F0.6120.99
144_D148_F0.6090.99
154_M306_I0.6080.99
132_K136_N0.6050.99
298_I302_F0.6020.99
130_Y133_E0.6010.99
119_T122_F0.5980.99
43_T163_L0.5970.99
21_V24_G0.5970.99
38_L42_F0.5960.99
206_Q240_G0.5960.99
105_I108_H0.5950.99
131_V135_F0.5950.99
210_A237_F0.5950.99
80_L84_G0.5940.99
109_P113_P0.5930.99
312_F316_G0.5870.99
210_A213_N0.5870.99
53_V71_F0.5860.99
170_S193_S0.5830.99
74_M78_V0.5820.99
148_F151_Q0.5810.99
236_V274_I0.5790.99
226_F229_L0.5790.99
213_N281_E0.5770.99
186_E190_F0.5760.99
285_L288_K0.5750.99
288_K295_E0.5740.99
235_M253_P0.5740.99
86_V90_V0.5730.99
161_F165_E0.5720.99
69_I164_F0.5720.99
105_I112_I0.5710.99
236_V247_V0.5700.99
78_V81_T0.5680.99
206_Q210_A0.5680.99
22_L26_L0.5680.99
213_N278_H0.5670.99
150_L154_M0.5660.99
194_K197_R0.5640.99
226_F261_T0.5630.99
217_T237_F0.5610.99
35_L44_F0.5600.99
247_V250_S0.5580.99
106_A112_I0.5580.99
204_E293_K0.5580.99
258_A266_Y0.5570.99
209_I289_L0.5550.99
291_S295_E0.5550.99
239_L253_P0.5540.99
222_W230_F0.5540.99
198_T329_D0.5540.99
117_E122_F0.5510.99
210_A274_I0.5500.99
249_I278_H0.5500.99
25_V327_L0.5490.99
221_L233_S0.5460.99
12_G15_R0.5440.99
201_K204_E0.5430.99
162_F299_F0.5420.99
82_V85_F0.5420.99
142_L145_I0.5400.99
292_A295_E0.5390.99
118_I122_F0.5360.98
204_E207_F0.5340.98
65_Q69_I0.5320.98
296_L301_T0.5320.98
170_S192_G0.5310.98
251_L271_V0.5300.98
169_L172_F0.5280.98
206_Q209_I0.5280.98
209_I291_S0.5270.98
147_T283_Y0.5260.98
17_S20_V0.5260.98
237_F244_V0.5240.98
213_N216_L0.5230.98
13_V16_F0.5200.98
173_M176_F0.5190.98
94_Q101_Q0.5190.98
177_K182_R0.5180.98
199_F202_V0.5170.98
216_L220_A0.5170.98
206_Q241_L0.5170.98
99_V102_I0.5150.98
72_L76_L0.5150.98
226_F254_L0.5140.98
214_C251_L0.5140.98
103_K106_A0.5110.98
135_F139_Y0.5110.98
40_F166_K0.5110.98
205_A325_V0.5100.98
305_L321_I0.5090.98
254_L258_A0.5090.98
118_I123_G0.5080.98
140_T143_A0.5070.98
213_N237_F0.5060.98
198_T326_F0.5050.98
221_L274_I0.5030.98
101_Q227_P0.5020.98
158_L306_I0.5010.98
259_Y268_L0.5010.98
237_F240_G0.5010.98
81_T84_G0.5000.98
297_P300_F0.5000.98
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  
3w4tA 1 0.8657 58.3 0.941 Contact Map
4rp9A 2 0.88 36.1 0.948 Contact Map
4r0cA 3 0.62 34 0.949 Contact Map
4humA 1 0.8943 29.6 0.951 Contact Map
4ltoA 3 0.32 23.3 0.953 Contact Map
3mktA 1 0.8914 21.9 0.954 Contact Map
2kv5A 1 0.0943 18.3 0.955 Contact Map
4lz6A 1 0.8971 15 0.957 Contact Map
4tkrA 2 0.3171 13.9 0.958 Contact Map
4p6vB 1 0.1686 13.5 0.958 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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