GREMLIN Database
YDIK - UPF0118 inner membrane protein YdiK
UniProt: P0AFS7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13970
Length: 370 (329)
Sequences: 10985 (8618)
Seq/√Len: 475.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
232_G284_W5.3861.00
230_G245_T5.2031.00
54_R58_I5.0021.00
314_G334_L3.3221.00
46_I208_A2.9851.00
56_Q63_R2.9631.00
226_A249_I2.7681.00
276_T280_V2.6161.00
62_R65_L2.6061.00
230_G234_A2.5071.00
54_R57_K2.4911.00
44_V174_S2.4761.00
266_I282_L2.4691.00
279_T283_V2.4591.00
226_A245_T2.3961.00
61_G69_V2.3201.00
338_W342_A2.2461.00
99_A102_S2.1831.00
280_V283_V2.0541.00
266_I278_G2.0181.00
233_L238_V1.9761.00
116_I119_I1.9621.00
25_V29_W1.9371.00
206_L343_A1.9061.00
41_A174_S1.9021.00
202_A343_A1.8971.00
49_W53_L1.8651.00
219_V253_L1.8331.00
64_S68_L1.8241.00
217_G299_L1.8171.00
175_A179_W1.8121.00
229_G248_M1.7901.00
207_A336_V1.7851.00
67_V175_A1.7531.00
170_M174_S1.7311.00
247_L251_S1.7131.00
52_L70_M1.7091.00
241_A245_T1.6971.00
124_Y128_H1.6961.00
189_R201_D1.6891.00
114_N117_P1.6841.00
52_L67_V1.6831.00
67_V71_T1.6781.00
137_A140_A1.6731.00
29_W32_Q1.6731.00
298_M302_M1.6641.00
230_G241_A1.6451.00
231_I234_A1.6411.00
26_A30_I1.6361.00
319_L327_L1.6341.00
277_W280_V1.6301.00
94_G98_K1.6271.00
105_M108_P1.6241.00
79_I83_A1.6241.00
64_S179_W1.6191.00
51_V70_M1.6171.00
274_D277_W1.6101.00
49_W63_R1.6021.00
192_A200_G1.5981.00
112_W115_T1.5791.00
21_A25_V1.5751.00
22_I26_A1.5681.00
225_Q252_C1.5611.00
180_R307_P1.5581.00
173_F309_I1.5261.00
55_L73_L1.5251.00
239_P272_T1.5231.00
173_F177_L1.5191.00
52_L63_R1.4901.00
106_T109_D1.4731.00
251_S261_V1.4721.00
234_A241_A1.4521.00
38_F313_S1.4411.00
133_M136_T1.4301.00
112_W116_I1.4271.00
286_G289_G1.4211.00
295_I299_L1.4181.00
229_G287_V1.3991.00
275_T279_T1.3811.00
262_L266_I1.3501.00
290_T295_I1.3341.00
180_R183_Q1.3261.00
48_T178_Y1.3221.00
139_M143_R1.3201.00
86_V90_V1.3171.00
102_S105_M1.3021.00
14_L18_L1.3011.00
228_L287_V1.2911.00
193_T197_G1.2901.00
210_A335_A1.2891.00
64_S175_A1.2771.00
52_L66_A1.2741.00
48_T74_L1.2711.00
269_L281_L1.2691.00
265_A281_L1.2681.00
63_R182_E1.2631.00
137_A141_K1.2611.00
288_V292_D1.2561.00
282_L286_G1.2551.00
61_G65_L1.2481.00
97_I101_S1.2391.00
221_T291_L1.2371.00
15_L19_F1.2331.00
18_L22_I1.2321.00
244_L265_A1.2301.00
102_S106_T1.2291.00
193_T196_A1.2221.00
194_R197_G1.2211.00
315_V327_L1.2211.00
45_V177_L1.2191.00
310_L334_L1.2121.00
112_W117_P1.2111.00
41_A170_M1.2101.00
276_T279_T1.2061.00
122_K125_A1.2051.00
278_G282_L1.2011.00
232_G236_S1.2001.00
101_S105_M1.1971.00
216_L220_V1.1951.00
121_A124_Y1.1911.00
232_G280_V1.1851.00
44_V170_M1.1831.00
51_V54_R1.1761.00
275_T278_G1.1731.00
52_L178_Y1.1701.00
49_W181_G1.1671.00
68_L72_L1.1641.00
125_A129_N1.1641.00
26_A29_W1.1631.00
238_V269_L1.1621.00
75_V79_I1.1581.00
314_G318_G1.1561.00
186_Q190_H1.1531.00
206_L342_A1.1491.00
225_Q287_V1.1481.00
141_K144_P1.1361.00
318_G334_L1.1361.00
125_A128_H1.1361.00
231_I235_V1.1351.00
61_G66_A1.1331.00
37_G41_A1.1301.00
52_L56_Q1.1291.00
222_A252_C1.1291.00
66_A70_M1.1271.00
203_A340_L1.1261.00
269_L278_G1.1181.00
140_A144_P1.1031.00
126_G129_N1.1031.00
183_Q186_Q1.0811.00
140_A143_R1.0801.00
273_G277_W1.0741.00
318_G322_F1.0661.00
270_Y278_G1.0651.00
221_T225_Q1.0621.00
236_S281_L1.0611.00
202_A206_L1.0611.00
280_V284_W1.0581.00
230_G242_T1.0531.00
38_F173_F1.0501.00
292_D296_R1.0481.00
245_T249_I1.0461.00
226_A230_G1.0461.00
187_G190_H1.0441.00
65_L68_L1.0431.00
144_P147_G1.0431.00
91_D95_P1.0431.00
103_G107_L1.0411.00
56_Q66_A1.0371.00
219_V223_L1.0351.00
233_L248_M1.0351.00
314_G330_G1.0271.00
294_V298_M1.0251.00
133_M137_A1.0201.00
218_V296_R1.0201.00
122_K126_G1.0191.00
163_F167_C1.0171.00
117_P121_A1.0151.00
136_T139_M1.0131.00
20_L24_I1.0121.00
42_G177_L1.0101.00
40_W170_M1.0081.00
95_P98_K1.0021.00
128_H132_D1.0011.00
181_G185_A1.0001.00
223_L249_I0.9921.00
83_A87_N0.9881.00
213_A217_G0.9851.00
153_F157_A0.9801.00
249_I253_L0.9791.00
225_Q229_G0.9761.00
236_S277_W0.9761.00
236_S284_W0.9751.00
135_G138_I0.9751.00
169_L173_F0.9731.00
105_M109_D0.9701.00
54_R60_F0.9691.00
325_I329_I0.9681.00
142_V145_Y0.9671.00
220_V224_V0.9631.00
71_T174_S0.9621.00
113_L117_P0.9601.00
247_L261_V0.9551.00
41_A45_V0.9531.00
173_F313_S0.9501.00
157_A161_G0.9501.00
53_L57_K0.9471.00
34_F317_G0.9411.00
15_L18_L0.9401.00
225_Q258_P0.9391.00
268_W272_T0.9371.00
99_A103_G0.9341.00
240_Y243_L0.9331.00
145_Y149_T0.9321.00
17_V21_A0.9301.00
233_L281_L0.9271.00
245_T248_M0.9251.00
221_T295_I0.9221.00
221_T296_R0.9221.00
262_L285_S0.9181.00
156_Q160_I0.9161.00
310_L338_W0.9161.00
289_G293_N0.9151.00
90_V93_S0.9121.00
213_A303_G0.9111.00
189_R197_G0.9101.00
290_T294_V0.9071.00
337_S341_F0.9051.00
229_G233_L0.9001.00
95_P99_A0.8981.00
284_W287_V0.8951.00
300_I311_I0.8931.00
200_G204_V0.8871.00
129_N133_M0.8861.00
41_A173_F0.8831.00
233_L244_L0.8771.00
77_V81_P0.8611.00
203_A343_A0.8611.00
252_C258_P0.8601.00
143_R147_G0.8551.00
340_L344_W0.8541.00
224_V228_L0.8521.00
131_L134_G0.8511.00
330_G334_L0.8501.00
209_Q213_A0.8491.00
227_V230_G0.8481.00
25_V28_L0.8461.00
183_Q187_G0.8451.00
146_I149_T0.8421.00
55_L70_M0.8411.00
221_T252_C0.8341.00
22_I25_V0.8341.00
199_R202_A0.8321.00
313_S317_G0.8291.00
18_L21_A0.8281.00
306_L334_L0.8271.00
88_S91_D0.8271.00
48_T70_M0.8241.00
53_L56_Q0.8221.00
88_S92_G0.8211.00
132_D136_T0.8191.00
270_Y275_T0.8171.00
136_T140_A0.8121.00
227_V231_I0.8121.00
185_A189_R0.8081.00
115_T118_V0.8081.00
236_S280_V0.8071.00
187_G191_F0.8051.00
248_M261_V0.8041.00
162_R166_H0.8021.00
93_S97_I0.8021.00
58_I61_G0.7971.00
260_P264_P0.7961.00
234_A237_G0.7951.00
234_A245_T0.7941.00
126_G130_L0.7891.00
14_L17_V0.7871.00
119_I123_L0.7831.00
109_D115_T0.7801.00
115_T119_I0.7771.00
244_L268_W0.7751.00
221_T300_I0.7731.00
223_L227_V0.7721.00
17_V20_L0.7651.00
62_R66_A0.7641.00
224_V295_I0.7611.00
266_I270_Y0.7581.00
291_L296_R0.7581.00
55_L61_G0.7571.00
252_C296_R0.7561.00
138_I141_K0.7551.00
174_S178_Y0.7531.00
24_I27_C0.7511.00
225_Q296_R0.7491.00
248_M252_C0.7481.00
222_A226_A0.7481.00
27_C30_I0.7481.00
192_A196_A0.7471.00
267_I271_W0.7461.00
45_V174_S0.7451.00
149_T153_F0.7441.00
222_A253_L0.7391.00
92_G95_P0.7341.00
232_G287_V0.7341.00
127_W130_L0.7341.00
100_I103_G0.7281.00
134_G137_A0.7241.00
318_G333_L0.7191.00
53_L182_E0.7181.00
159_H163_F0.7151.00
212_R216_L0.7151.00
206_L339_R0.7151.00
304_A331_P0.7081.00
98_K102_S0.7071.00
258_P261_V0.7051.00
296_R300_I0.7041.00
199_R343_A0.7021.00
84_L88_S0.6991.00
16_S20_L0.6991.00
152_W156_Q0.6971.00
94_G97_I0.6961.00
13_I16_S0.6951.00
301_R311_I0.6941.00
201_D205_L0.6941.00
302_M305_D0.6941.00
269_L274_D0.6931.00
40_W44_V0.6921.00
186_Q201_D0.6911.00
144_P148_T0.6891.00
308_L312_L0.6881.00
222_A225_Q0.6881.00
159_H162_R0.6881.00
225_Q288_V0.6881.00
149_T152_W0.6801.00
150_T154_V0.6791.00
38_F177_L0.6781.00
113_L116_I0.6761.00
296_R299_L0.6721.00
55_L66_A0.6721.00
198_V202_A0.6711.00
203_A207_A0.6711.00
207_A339_R0.6711.00
104_D108_P0.6701.00
288_V291_L0.6691.00
22_I29_W0.6691.00
195_L198_V0.6671.00
226_A242_T0.6661.00
218_V222_A0.6621.00
45_V49_W0.6611.00
154_V158_A0.6611.00
148_T152_W0.6611.00
119_I122_K0.6591.00
191_F341_F0.6581.00
77_V80_I0.6521.00
141_K145_Y0.6501.00
187_G310_L0.6491.00
80_I84_L0.6491.00
85_L89_I0.6481.00
311_I331_P0.6481.00
49_W178_Y0.6461.00
21_A24_I0.6451.00
121_A125_A0.6441.00
73_L76_M0.6441.00
210_A213_A0.6401.00
20_L27_C0.6391.00
63_R67_V0.6381.00
197_G200_G0.6361.00
134_G138_I0.6361.00
334_L338_W0.6351.00
226_A246_V0.6351.00
71_T175_A0.6351.00
55_L69_V0.6351.00
48_T174_S0.6301.00
221_T299_L0.6301.00
206_L210_A0.6291.00
124_Y127_W0.6271.00
147_G151_T0.6260.99
229_G245_T0.6240.99
89_I93_S0.6200.99
123_L126_G0.6200.99
145_Y148_T0.6180.99
322_F326_G0.6170.99
289_G292_D0.6160.99
218_V221_T0.6140.99
108_P114_N0.6130.99
27_C31_V0.6120.99
176_L180_R0.6120.99
291_L295_I0.6110.99
19_F23_M0.6110.99
272_T277_W0.6100.99
184_V187_G0.6080.99
165_V169_L0.6070.99
148_T151_T0.6070.99
218_V252_C0.6070.99
220_V299_L0.6060.99
247_L264_P0.6030.99
48_T51_V0.6020.99
78_F82_I0.6020.99
220_V223_L0.5980.99
306_L311_I0.5980.99
315_V331_P0.5960.99
298_M301_R0.5950.99
261_V265_A0.5950.99
37_G166_H0.5940.99
91_D94_G0.5940.99
205_L209_Q0.5940.99
100_I104_D0.5930.99
150_T153_F0.5910.99
36_L39_A0.5900.99
221_T258_P0.5860.99
269_L277_W0.5860.99
216_L303_G0.5860.99
177_L309_I0.5860.99
114_N118_V0.5850.99
30_I33_P0.5840.99
76_M79_I0.5840.99
163_F166_H0.5820.99
252_C291_L0.5820.99
213_A216_L0.5820.99
229_G284_W0.5820.99
90_V94_G0.5790.99
225_Q291_L0.5790.99
67_V179_W0.5780.99
92_G96_L0.5780.99
207_A211_I0.5760.99
82_I86_V0.5760.99
197_G201_D0.5760.99
258_P288_V0.5740.99
185_A205_L0.5730.99
207_A210_A0.5730.99
45_V178_Y0.5720.99
211_I214_V0.5710.99
132_D135_G0.5700.99
261_V288_V0.5700.99
228_L232_G0.5680.99
42_G181_G0.5670.99
66_A69_V0.5670.99
56_Q62_R0.5660.99
16_S19_F0.5630.99
189_R192_A0.5620.99
222_A249_I0.5530.99
324_M327_L0.5530.99
224_V291_L0.5530.99
233_L285_S0.5500.99
238_V241_A0.5490.99
238_V265_A0.5480.99
139_M142_V0.5470.99
130_L133_M0.5470.99
210_A339_R0.5470.99
339_R343_A0.5450.99
218_V253_L0.5440.99
262_L286_G0.5430.99
248_M258_P0.5410.99
206_L209_Q0.5400.99
295_I298_M0.5400.99
225_Q249_I0.5400.99
217_G303_G0.5390.98
23_M27_C0.5380.98
98_K101_S0.5360.98
128_H134_G0.5350.98
167_C171_L0.5340.98
252_C292_D0.5340.98
56_Q60_F0.5340.98
169_L316_I0.5330.98
37_G301_R0.5330.98
135_G141_K0.5330.98
252_C259_L0.5320.98
176_L308_L0.5320.98
248_M285_S0.5280.98
225_Q228_L0.5280.98
146_I150_T0.5280.98
27_C337_S0.5260.98
217_G335_A0.5240.98
173_F312_L0.5220.98
315_V318_G0.5210.98
285_S300_I0.5210.98
172_L293_N0.5190.98
154_V157_A0.5190.98
186_Q189_R0.5180.98
325_I330_G0.5170.98
161_G165_V0.5170.98
141_K146_I0.5150.98
19_F22_I0.5140.98
263_I267_I0.5140.98
162_R293_N0.5120.98
173_F316_I0.5120.98
24_I28_L0.5080.98
318_G330_G0.5070.98
293_N316_I0.5050.98
172_L308_L0.5030.98
261_V331_P0.5030.98
279_T282_L0.5030.98
160_I164_M0.5020.98
252_C327_L0.5000.98
222_A285_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  
3wdoA 1 0.9297 65.3 0.941 Contact Map
3mktA 1 0.9486 61.2 0.943 Contact Map
4tphA 2 0.8243 46.8 0.948 Contact Map
3w4tA 1 0.8595 38.6 0.95 Contact Map
2l16A 1 0.1405 19.7 0.957 Contact Map
4ltoA 3 0.3216 17.7 0.958 Contact Map
4pypA 1 0.8622 14 0.96 Contact Map
2kluA 1 0.1568 13.6 0.96 Contact Map
2kv5A 1 0.0892 13.1 0.96 Contact Map
4r0cA 3 0.6135 11 0.961 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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