GREMLIN Database
YDFU - Uncharacterized protein YdfU
UniProt: P76162 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13833
Length: 349 (329)
Sequences: 126 (94)
Seq/√Len: 5.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
278_C313_H4.8260.97
313_H328_Y4.4740.95
251_E260_R3.8650.89
159_R164_A3.5810.85
159_R162_S3.4380.82
8_V12_E3.3160.80
259_R344_A3.3050.80
265_E269_R3.1100.75
71_R177_D2.8540.68
278_C328_Y2.8060.67
249_S347_V2.4240.55
265_E268_T2.3670.53
341_R345_I2.3520.52
313_H316_E2.2850.50
335_I339_I2.2750.50
10_V15_L2.2700.50
289_L307_L2.2650.50
182_A200_R2.2630.50
83_S107_I2.2390.49
334_L338_F2.2010.47
270_W296_G2.1760.47
268_T306_V2.1630.46
66_F170_A2.1450.46
294_Q340_D2.1310.45
304_L343_L2.0720.43
335_I338_F2.0300.42
101_H270_W2.0090.41
243_I304_L2.0000.41
73_I144_W1.9980.41
251_E268_T1.9180.38
42_M338_F1.9130.38
259_R340_D1.8480.36
180_P183_V1.8370.36
210_T342_A1.8160.35
41_S104_E1.7990.35
289_L335_I1.7910.34
163_L183_V1.7680.34
248_E253_F1.7500.33
51_P60_D1.7490.33
18_L75_A1.7410.33
338_F342_A1.7240.32
304_L334_L1.7140.32
289_L348_L1.6910.32
63_L170_A1.6780.31
270_W299_T1.6470.30
272_K311_R1.6400.30
315_N319_T1.6370.30
251_E319_T1.6270.30
281_M313_H1.6200.30
166_L170_A1.6090.29
69_N178_A1.5980.29
63_L115_M1.5920.29
292_H332_L1.5880.29
249_S344_A1.5820.28
296_G299_T1.5620.28
315_N334_L1.5570.28
297_M322_V1.5540.28
35_V120_H1.5460.28
146_I161_L1.5400.27
254_M267_Y1.5300.27
171_V341_R1.5260.27
274_Q284_D1.5210.27
108_H115_M1.5170.27
175_V180_P1.5100.27
83_S109_R1.5030.26
102_H106_V1.5030.26
324_F328_Y1.4810.26
294_Q321_T1.4810.26
33_V211_A1.4510.25
66_F100_Y1.4470.25
106_V122_D1.4380.25
284_D311_R1.4370.25
274_Q317_L1.4290.25
35_V158_E1.4260.24
200_R210_T1.4240.24
260_R319_T1.4130.24
277_A313_H1.4090.24
101_H296_G1.4050.24
14_G32_R1.4010.24
10_V22_R1.3950.24
101_H299_T1.3830.23
294_Q336_F1.3750.23
294_Q344_A1.3710.23
274_Q311_R1.3660.23
249_S319_T1.3620.23
310_C340_D1.3600.23
12_E17_V1.3580.23
314_H331_Q1.3510.23
300_K331_Q1.3510.23
300_K314_H1.3510.23
285_D311_R1.3470.23
10_V17_V1.3350.22
289_L313_H1.3190.22
313_H348_L1.3150.22
136_L170_A1.3120.22
261_R317_L1.3090.22
10_V59_E1.3080.22
162_S174_Q1.3000.22
42_M75_A1.3000.22
21_G126_R1.2990.21
50_V213_S1.2950.21
279_C310_C1.2900.21
340_D344_A1.2860.21
316_E328_Y1.2810.21
10_V277_A1.2790.21
314_H318_H1.2720.21
300_K318_H1.2720.21
318_H331_Q1.2720.21
304_L315_N1.2690.21
116_V164_A1.2620.21
5_L20_P1.2480.20
251_E344_A1.2340.20
289_L294_Q1.2140.20
37_P239_T1.2070.20
292_H336_F1.2040.19
272_K285_D1.2040.19
3_V31_P1.2010.19
4_L38_E1.2000.19
251_E347_V1.1980.19
40_K145_V1.1960.19
155_G159_R1.1890.19
311_R317_L1.1870.19
6_R12_E1.1810.19
159_R174_Q1.1760.19
336_F342_A1.1750.19
86_L97_N1.1630.19
172_C237_E1.1460.18
283_A334_L1.1420.18
45_L73_I1.1360.18
292_H326_D1.1310.18
11_P40_K1.1280.18
336_F343_L1.1180.18
252_S338_F1.1150.18
20_P24_S1.1150.18
52_A183_V1.1140.18
326_D337_R1.1080.18
58_A209_L1.1060.18
272_K284_D1.0990.17
108_H117_L1.0960.17
322_V348_L1.0910.17
272_K296_G1.0860.17
284_D307_L1.0860.17
248_E297_M1.0860.17
4_L7_P1.0830.17
149_I154_S1.0670.17
24_S31_P1.0670.17
66_F75_A1.0610.17
293_G318_H1.0540.17
289_L338_F1.0440.16
274_Q279_C1.0380.16
17_V35_V1.0350.16
268_T345_I1.0240.16
252_S344_A1.0220.16
18_L35_V1.0160.16
260_R304_L1.0100.16
170_A204_I1.0080.16
249_S260_R1.0030.16
75_A170_A0.9990.16
332_L337_R0.9890.15
274_Q285_D0.9880.15
280_G306_V0.9860.15
16_V20_P0.9850.15
280_G337_R0.9840.15
251_E254_M0.9790.15
50_V69_N0.9750.15
283_A298_G0.9740.15
296_G311_R0.9700.15
259_R294_Q0.9700.15
275_P280_G0.9690.15
98_G121_C0.9670.15
332_L336_F0.9660.15
186_R245_V0.9640.15
34_L39_P0.9630.15
304_L338_F0.9630.15
255_K268_T0.9630.15
19_K142_T0.9600.15
110_Y113_G0.9600.15
272_K279_C0.9590.15
319_T334_L0.9580.15
293_G300_K0.9540.15
293_G314_H0.9540.15
293_G331_Q0.9540.15
19_K75_A0.9470.15
319_T338_F0.9430.15
270_W311_R0.9400.15
281_M348_L0.9320.14
264_K344_A0.9280.14
121_C324_F0.9270.14
287_H293_G0.9260.14
3_V10_V0.9240.14
34_L166_L0.9240.14
178_A197_S0.9230.14
294_Q301_A0.9230.14
283_A317_L0.9220.14
50_V216_K0.9200.14
7_P16_V0.9200.14
310_C334_L0.9200.14
15_L74_R0.9180.14
252_S264_K0.9160.14
206_P211_A0.9150.14
61_K107_I0.9120.14
270_W274_Q0.9110.14
52_A150_R0.9100.14
287_H318_H0.9100.14
243_I315_N0.9080.14
267_Y338_F0.9070.14
344_A347_V0.9030.14
198_V215_L0.9030.14
287_H314_H0.9020.14
287_H300_K0.9020.14
287_H331_Q0.9020.14
106_V254_M0.9020.14
87_L102_H0.9010.14
294_Q313_H0.9000.14
297_M348_L0.9000.14
182_A212_T0.8990.14
41_S103_T0.8980.14
47_S313_H0.8970.14
284_D317_L0.8960.14
15_L35_V0.8950.14
249_S324_F0.8950.14
302_H305_F0.8910.14
86_L90_V0.8900.14
137_A250_P0.8870.14
162_S180_P0.8850.14
326_D330_S0.8850.14
277_A328_Y0.8840.14
290_I295_G0.8840.14
86_L168_W0.8810.14
9_L13_L0.8800.14
277_A324_F0.8800.14
261_R299_T0.8790.14
332_L338_F0.8780.14
86_L121_C0.8750.14
279_C313_H0.8750.14
8_V42_M0.8750.14
102_H119_W0.8750.14
144_W245_V0.8740.13
321_T348_L0.8730.13
10_V33_V0.8720.13
32_R165_E0.8720.13
253_F267_Y0.8710.13
86_L343_L0.8700.13
290_I313_H0.8640.13
181_E211_A0.8620.13
20_P262_W0.8610.13
298_G313_H0.8610.13
209_L213_S0.8560.13
267_Y342_A0.8530.13
295_G318_H0.8520.13
175_V297_M0.8510.13
291_G310_C0.8450.13
269_R298_G0.8440.13
338_F345_I0.8420.13
22_R88_R0.8410.13
274_Q296_G0.8400.13
5_L21_G0.8320.13
175_V240_V0.8290.13
114_A149_I0.8290.13
145_V149_I0.8280.13
94_Q140_N0.8280.13
203_D264_K0.8220.13
36_E197_S0.8190.13
100_Y239_T0.8180.13
241_V321_T0.8150.13
285_D296_G0.8150.13
297_M321_T0.8120.13
125_L214_I0.8110.13
56_P102_H0.8100.13
33_V333_E0.8070.12
288_H293_G0.8070.12
336_F345_I0.7990.12
112_T130_S0.7980.12
249_S268_T0.7970.12
306_V337_R0.7940.12
306_V334_L0.7930.12
115_M171_V0.7920.12
20_P126_R0.7880.12
41_S102_H0.7860.12
42_M324_F0.7860.12
33_V210_T0.7840.12
299_T311_R0.7840.12
333_E338_F0.7840.12
95_W117_L0.7830.12
18_L217_Q0.7820.12
241_V289_L0.7790.12
280_G312_K0.7780.12
135_L173_N0.7760.12
48_G140_N0.7750.12
279_C311_R0.7750.12
142_T298_G0.7720.12
185_R298_G0.7700.12
98_G130_S0.7690.12
10_V13_L0.7670.12
278_C324_F0.7660.12
70_E107_I0.7640.12
10_V324_F0.7610.12
97_N121_C0.7580.12
14_G302_H0.7560.12
272_K317_L0.7550.12
197_S319_T0.7550.12
42_M347_V0.7520.12
302_H320_D0.7510.12
247_P278_C0.7500.12
4_L16_V0.7500.12
6_R283_A0.7440.12
26_Q34_L0.7410.12
65_P332_L0.7390.12
113_G324_F0.7350.11
146_I180_P0.7340.11
154_S189_G0.7330.11
288_H318_H0.7320.11
37_P343_L0.7300.11
279_C317_L0.7290.11
7_P18_L0.7290.11
167_S184_S0.7240.11
24_S247_P0.7220.11
24_S27_I0.7220.11
179_L199_Y0.7190.11
116_V157_Q0.7170.11
113_G206_P0.7170.11
7_P12_E0.7150.11
10_V347_V0.7090.11
279_C283_A0.7070.11
92_S114_A0.7070.11
291_G297_M0.7060.11
249_S306_V0.7050.11
46_P123_N0.7040.11
288_H331_Q0.7040.11
288_H300_K0.7040.11
288_H314_H0.7040.11
55_Q101_H0.7020.11
83_S114_A0.6950.11
113_G156_T0.6900.11
116_V159_R0.6890.11
198_V343_L0.6870.11
15_L147_D0.6870.11
69_N115_M0.6850.11
153_I174_Q0.6850.11
139_Q162_S0.6820.11
50_V104_E0.6820.11
85_W163_L0.6730.11
197_S289_L0.6660.11
97_N125_L0.6650.11
286_P311_R0.6640.11
35_V66_F0.6640.11
285_D295_G0.6640.11
301_A340_D0.6610.11
51_P85_W0.6610.11
150_R155_G0.6600.11
119_W343_L0.6590.11
76_A101_H0.6590.11
268_T319_T0.6580.10
249_S269_R0.6550.10
7_P14_G0.6550.10
111_G183_V0.6530.10
263_V266_K0.6490.10
60_D67_F0.6490.10
51_P128_Q0.6480.10
5_L16_V0.6470.10
338_F343_L0.6470.10
130_S153_I0.6440.10
167_S262_W0.6430.10
280_G327_K0.6420.10
4_L12_E0.6390.10
8_V15_L0.6380.10
185_R339_I0.6370.10
48_G94_Q0.6370.10
143_A282_P0.6360.10
33_V42_M0.6350.10
144_W256_L0.6340.10
245_V348_L0.6340.10
8_V17_V0.6340.10
73_I101_H0.6280.10
57_L347_V0.6280.10
272_K299_T0.6270.10
170_A186_R0.6250.10
117_L342_A0.6250.10
310_C313_H0.6220.10
219_T255_K0.6200.10
212_T245_V0.6200.10
9_L31_P0.6180.10
108_H130_S0.6170.10
56_P333_E0.6140.10
133_L340_D0.6080.10
260_R268_T0.6060.10
287_H295_G0.6060.10
6_R204_I0.6050.10
261_R311_R0.6050.10
97_N110_Y0.6040.10
28_F101_H0.6010.10
300_K317_L0.6000.10
314_H317_L0.6000.10
317_L331_Q0.6000.10
71_R75_A0.5990.10
19_K67_F0.5980.10
77_G169_W0.5950.10
68_S114_A0.5930.10
78_G82_L0.5930.10
43_R187_S0.5900.10
82_L267_Y0.5890.10
18_L146_I0.5880.10
170_A175_V0.5880.10
283_A311_R0.5870.10
105_T174_Q0.5860.10
62_T324_F0.5860.10
308_P329_G0.5850.10
4_L13_L0.5850.10
121_C176_V0.5840.10
301_A310_C0.5830.10
179_L324_F0.5830.10
73_I296_G0.5800.10
183_V199_Y0.5800.10
66_F140_N0.5780.10
63_L66_F0.5770.10
18_L197_S0.5760.10
137_A297_M0.5750.10
310_C317_L0.5740.09
105_T278_C0.5740.09
136_L240_V0.5730.09
295_G300_K0.5730.09
295_G314_H0.5730.09
295_G331_Q0.5730.09
15_L84_D0.5720.09
182_A327_K0.5710.09
274_Q299_T0.5710.09
294_Q297_M0.5670.09
149_I236_Q0.5660.09
116_V162_S0.5660.09
15_L27_I0.5660.09
121_C193_E0.5640.09
283_A307_L0.5640.09
52_A159_R0.5610.09
171_V176_V0.5610.09
81_A147_D0.5610.09
20_P28_F0.5610.09
40_K347_V0.5600.09
137_A194_K0.5600.09
277_A280_G0.5590.09
81_A116_V0.5590.09
141_L147_D0.5580.09
254_M260_R0.5580.09
126_R262_W0.5580.09
268_T326_D0.5570.09
8_V324_F0.5570.09
3_V27_I0.5560.09
272_K286_P0.5540.09
303_D308_P0.5530.09
58_A70_E0.5510.09
73_I270_W0.5500.09
25_I198_V0.5500.09
182_A316_E0.5460.09
55_Q296_G0.5440.09
56_P103_T0.5430.09
299_T317_L0.5420.09
75_A104_E0.5420.09
284_D296_G0.5410.09
127_D263_V0.5410.09
42_M193_E0.5410.09
25_I28_F0.5400.09
9_L24_S0.5400.09
149_I173_N0.5380.09
23_E190_L0.5360.09
330_S343_L0.5340.09
20_P101_H0.5340.09
126_R302_H0.5330.09
210_T213_S0.5330.09
81_A178_A0.5310.09
209_L216_K0.5300.09
4_L188_L0.5270.09
168_W262_W0.5250.09
86_L116_V0.5250.09
274_Q283_A0.5200.09
51_P270_W0.5200.09
50_V158_E0.5190.09
189_G244_T0.5180.09
169_W267_Y0.5180.09
150_R157_Q0.5170.09
252_S315_N0.5170.09
159_R199_Y0.5160.09
180_P266_K0.5150.09
261_R272_K0.5150.09
137_A305_F0.5130.09
8_V33_V0.5120.09
95_W125_L0.5110.09
120_H240_V0.5090.09
53_V125_L0.5070.09
292_H338_F0.5070.09
98_G136_L0.5040.09
55_Q270_W0.5040.09
204_I279_C0.5020.09
192_A200_R0.5020.09
252_S334_L0.5000.09
88_R176_V0.5000.09
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  
3plwA 1 0.2436 100 0.808 Contact Map
3g27A 2 0.2063 100 0.834 Contact Map
4h9dA 3 0.2607 90.4 0.968 Contact Map
4ogeA 1 0.6562 40.5 0.979 Contact Map
3ec1A 1 0.063 18.8 0.982 Contact Map
2mrnA 2 0.1089 16.7 0.983 Contact Map
2f4mA 2 0.4327 14 0.983 Contact Map
1x3zA 1 0.4957 10.3 0.984 Contact Map
1yfbA 2 0.1089 9.8 0.984 Contact Map
4oonA 1 0.1003 9 0.985 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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