GREMLIN Database
RFAG - Lipopolysaccharide core biosynthesis protein RfaG
UniProt: P25740 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11339
Length: 374 (341)
Sequences: 57125 (48461)
Seq/√Len: 2624.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
200_L271_A4.8761.00
230_L256_H3.8021.00
139_K163_Q3.2971.00
274_L290_A3.2871.00
198_L232_F3.1551.00
85_V368_I2.9411.00
220_S328_N2.8841.00
232_F258_F2.8641.00
201_Q211_V2.7571.00
196_Q230_L2.7301.00
216_E245_L2.6571.00
222_P254_N2.4881.00
216_E324_Q2.2871.00
210_G213_R2.2501.00
35_R81_A2.2391.00
148_I152_Q2.2341.00
197_N335_L2.2121.00
245_L249_L2.1671.00
35_R79_H2.1551.00
301_A306_A2.1221.00
198_L230_L2.1151.00
330_V333_K2.0861.00
232_F256_H2.0691.00
234_V267_L2.0631.00
32_H365_A2.0451.00
351_Y354_T2.0391.00
218_L231_L2.0171.00
198_L270_A2.0121.00
337_Q340_L2.0041.00
197_N272_D1.9901.00
199_L273_L1.9791.00
220_S325_E1.9681.00
333_K340_L1.9291.00
310_A313_N1.9021.00
341_R345_A1.8941.00
294_G349_R1.8881.00
219_A249_L1.8631.00
210_G279_Y1.8601.00
314_C351_Y1.8431.00
309_I315_G1.8311.00
316_T330_V1.8071.00
359_S363_K1.7891.00
85_V109_Q1.7801.00
214_S231_L1.7601.00
333_K337_Q1.7591.00
274_L295_L1.7531.00
145_D148_I1.7521.00
35_R52_I1.7411.00
168_G357_L1.7391.00
310_A351_Y1.7211.00
139_K367_I1.7091.00
142_M162_F1.7051.00
202_V264_V1.6931.00
320_E326_Q1.6901.00
148_I164_I1.6861.00
30_R362_E1.6771.00
247_E252_R1.6691.00
145_D307_H1.6461.00
332_R336_T1.6361.00
218_L229_T1.6261.00
214_S275_L1.6001.00
313_N347_N1.5871.00
316_T333_K1.5651.00
365_A369_T1.5561.00
145_D164_I1.5541.00
340_L343_A1.5461.00
26_T358_Y1.5331.00
326_Q330_V1.5291.00
148_I162_F1.5291.00
234_V258_F1.5131.00
323_S326_Q1.5121.00
213_R279_Y1.5021.00
26_T29_A1.4981.00
21_M25_S1.4941.00
310_A314_C1.4911.00
343_A347_N1.4861.00
26_T361_P1.4851.00
208_R280_Q1.4781.00
30_R365_A1.4721.00
212_D245_L1.4521.00
221_L332_R1.4511.00
301_A320_E1.4501.00
213_R324_Q1.4481.00
232_F267_L1.4301.00
299_T305_Y1.4261.00
265_S293_A1.4101.00
271_A295_L1.3991.00
142_M148_I1.3951.00
226_R332_R1.3901.00
198_L272_D1.3861.00
324_Q328_N1.3781.00
232_F271_A1.3721.00
211_V233_V1.3641.00
261_R267_L1.3491.00
318_I330_V1.3431.00
220_S324_Q1.3421.00
201_Q214_S1.3391.00
205_D233_V1.3361.00
283_A288_L1.3261.00
217_A327_L1.3191.00
258_F261_R1.3161.00
141_M367_I1.3091.00
5_F87_F1.3021.00
199_L331_L1.2871.00
35_R50_E1.2851.00
326_Q329_E1.2601.00
199_L275_L1.2561.00
141_M364_A1.2551.00
200_L234_V1.2511.00
174_K293_A1.2501.00
347_N350_H1.2461.00
108_A135_G1.2411.00
363_K366_D1.2291.00
359_S362_E1.2291.00
350_H353_D1.2251.00
234_V261_R1.2241.00
5_F27_V1.2241.00
263_D266_E1.2181.00
269_A293_A1.2151.00
245_L248_K1.2131.00
158_E161_R1.2091.00
328_N332_R1.2081.00
86_G106_K1.1991.00
226_R336_T1.1951.00
244_A248_K1.1931.00
197_N273_L1.1811.00
145_D149_A1.1621.00
19_D285_I1.1601.00
264_V268_M1.1531.00
276_H287_L1.1481.00
287_L305_Y1.1421.00
357_L360_L1.1401.00
345_A348_A1.1351.00
356_D359_S1.1301.00
342_M346_E1.1281.00
212_D216_E1.1221.00
303_C306_A1.1201.00
173_R265_S1.1191.00
198_L271_A1.1161.00
213_R216_E1.1151.00
197_N229_T1.1111.00
294_G346_E1.1071.00
268_M293_A1.0991.00
213_R300_T1.0961.00
149_A152_Q1.0931.00
360_L363_K1.0831.00
219_A223_E1.0831.00
318_I327_L1.0821.00
311_D330_V1.0821.00
143_L147_Q1.0761.00
340_L344_W1.0751.00
316_T344_W1.0731.00
276_H286_V1.0711.00
295_L345_A1.0701.00
240_R244_A1.0701.00
143_L167_P1.0631.00
26_T30_R1.0621.00
334_A344_W1.0611.00
28_A31_G1.0611.00
243_E247_E1.0591.00
236_Q260_G1.0581.00
111_K285_I1.0521.00
279_Y322_F1.0491.00
213_R322_F1.0491.00
300_T318_I1.0421.00
338_S341_R1.0411.00
142_M151_F1.0281.00
346_E350_H1.0271.00
265_S269_A1.0261.00
199_L218_L1.0251.00
299_T317_V1.0241.00
258_F267_L1.0241.00
277_P327_L1.0231.00
274_L286_V1.0221.00
193_K196_Q1.0221.00
196_Q228_N1.0171.00
200_L267_L1.0141.00
202_V234_V1.0141.00
197_N228_N1.0101.00
304_G307_H1.0101.00
232_F270_A1.0041.00
284_G305_Y1.0041.00
287_L299_T1.0011.00
278_A281_E0.9991.00
142_M147_Q0.9941.00
86_G108_A0.9931.00
329_E333_K0.9921.00
22_R25_S0.9901.00
212_D279_Y0.9901.00
222_P226_R0.9901.00
240_R243_E0.9901.00
360_L364_A0.9831.00
216_E249_L0.9821.00
5_F24_A0.9821.00
22_R357_L0.9761.00
291_I297_V0.9741.00
167_P285_I0.9691.00
204_S208_R0.9681.00
174_K265_S0.9641.00
70_A74_N0.9611.00
206_F238_K0.9611.00
215_I246_A0.9611.00
202_V268_M0.9561.00
212_D241_K0.9561.00
246_A257_F0.9541.00
316_T334_A0.9451.00
338_S342_M0.9391.00
171_P356_D0.9371.00
87_F111_K0.9351.00
14_G17_Q0.9331.00
168_G360_L0.9321.00
362_E366_D0.9311.00
221_L331_L0.9301.00
218_L254_N0.9281.00
201_Q233_V0.9251.00
291_I348_A0.9231.00
143_L282_A0.9211.00
24_A36_V0.9191.00
345_A349_R0.9181.00
299_T309_I0.9171.00
349_R353_D0.9161.00
150_D153_K0.9141.00
163_Q367_I0.9131.00
214_S277_P0.9091.00
221_L229_T0.9081.00
150_D154_H0.9001.00
73_Q101_V0.9001.00
287_L297_V0.9001.00
290_A295_L0.8991.00
281_E284_G0.8981.00
149_A153_K0.8931.00
342_M345_A0.8891.00
246_A251_V0.8881.00
24_A28_A0.8871.00
230_L254_N0.8851.00
213_R327_L0.8821.00
316_T340_L0.8791.00
344_W347_N0.8781.00
320_E323_S0.8711.00
220_S223_E0.8711.00
217_A328_N0.8671.00
73_Q77_K0.8661.00
209_K281_E0.8661.00
298_L318_I0.8661.00
314_C348_A0.8651.00
291_I351_Y0.8631.00
273_L334_A0.8611.00
221_L335_L0.8591.00
221_L328_N0.8551.00
170_Y173_R0.8541.00
18_R22_R0.8531.00
302_V305_Y0.8481.00
241_K244_A0.8471.00
201_Q277_P0.8441.00
241_K245_L0.8421.00
229_T335_L0.8401.00
19_D111_K0.8401.00
276_H305_Y0.8401.00
152_Q162_F0.8371.00
291_I314_C0.8371.00
268_M295_L0.8341.00
146_K149_A0.8341.00
209_K286_V0.8311.00
267_L270_A0.8281.00
287_L308_Y0.8271.00
126_A129_R0.8261.00
362_E365_A0.8251.00
107_V141_M0.8231.00
219_A222_P0.8221.00
296_P345_A0.8191.00
298_L330_V0.8141.00
217_A324_Q0.8101.00
165_L367_I0.8101.00
129_R133_E0.8091.00
275_L331_L0.8061.00
20_F87_F0.7961.00
216_E220_S0.7941.00
222_P227_H0.7941.00
105_E138_T0.7921.00
19_D109_Q0.7881.00
309_I317_V0.7871.00
351_Y355_Q0.7861.00
200_L268_M0.7861.00
75_H79_H0.7851.00
22_R170_Y0.7851.00
107_V139_K0.7831.00
244_A247_E0.7831.00
301_A317_V0.7831.00
216_E219_A0.7821.00
311_D314_C0.7801.00
356_D360_L0.7791.00
130_A134_Q0.7781.00
33_H50_E0.7781.00
273_L331_L0.7741.00
141_M165_L0.7741.00
266_E270_A0.7681.00
246_A249_L0.7681.00
201_Q231_L0.7621.00
219_A251_V0.7581.00
207_G212_D0.7571.00
357_L361_P0.7561.00
261_R264_V0.7541.00
30_R358_Y0.7531.00
272_D341_R0.7501.00
166_P363_K0.7491.00
266_E269_A0.7451.00
111_K143_L0.7441.00
296_P334_A0.7441.00
201_Q274_L0.7431.00
325_E329_E0.7431.00
112_G208_R0.7411.00
209_K278_A0.7401.00
163_Q363_K0.7401.00
146_K150_D0.7371.00
329_E332_R0.7371.00
246_A255_V0.7361.00
177_E269_A0.7341.00
19_D167_P0.7331.00
312_A333_K0.7291.00
22_R26_T0.7271.00
170_Y174_K0.7261.00
207_G279_Y0.7251.00
344_W348_A0.7221.00
349_R352_A0.7221.00
35_R39_Q0.7211.00
202_V274_L0.7201.00
358_Y362_E0.7201.00
69_Y73_Q0.7161.00
74_N78_E0.7161.00
99_A106_K0.7151.00
276_H284_G0.7151.00
343_A346_E0.7131.00
364_A368_I0.7121.00
226_R229_T0.7071.00
333_K336_T0.7011.00
203_G211_V0.6991.00
143_L285_I0.6961.00
166_P307_H0.6921.00
284_G287_L0.6921.00
194_E197_N0.6881.00
7_L20_F0.6881.00
165_L364_A0.6871.00
83_R107_V0.6871.00
18_R21_M0.6861.00
135_G138_T0.6861.00
98_A102_C0.6831.00
203_G209_K0.6831.00
28_A34_V0.6831.00
163_Q166_P0.6781.00
199_L229_T0.6771.00
106_K135_G0.6771.00
87_F109_Q0.6761.00
152_Q156_Q0.6711.00
166_P355_Q0.6691.00
334_A341_R0.6691.00
85_V364_A0.6651.00
199_L335_L0.6631.00
325_E328_N0.6631.00
83_R368_I0.6621.00
298_L334_A0.6621.00
5_F34_V0.6621.00
70_A73_Q0.6601.00
30_R361_P0.6591.00
14_G204_S0.6561.00
243_E257_F0.6531.00
283_A355_Q0.6531.00
300_T321_P0.6521.00
306_A317_V0.6511.00
288_L355_Q0.6431.00
107_V368_I0.6401.00
314_C347_N0.6381.00
192_I232_F0.6371.00
300_T327_L0.6371.00
311_D316_T0.6331.00
97_F101_V0.6321.00
337_Q341_R0.6311.00
348_A351_Y0.6311.00
366_D369_T0.6311.00
339_P343_A0.6261.00
171_P292_T0.6251.00
197_N200_L0.6221.00
275_L327_L0.6211.00
19_D364_A0.6211.00
67_E71_W0.6181.00
165_L363_K0.6171.00
218_L221_L0.6171.00
227_H336_T0.6171.00
9_K17_Q0.6151.00
28_A32_H0.6151.00
75_H78_E0.6151.00
321_P326_Q0.6141.00
101_V104_A0.6141.00
126_A130_A0.6121.00
197_N338_S0.6061.00
24_A34_V0.6051.00
205_D211_V0.6051.00
274_L297_V0.6051.00
264_V267_L0.6041.00
5_F85_V0.6011.00
29_A358_Y0.6011.00
346_E349_R0.6001.00
309_I314_C0.6001.00
267_L271_A0.5981.00
273_L298_L0.5981.00
135_G140_L0.5981.00
222_P228_N0.5961.00
152_Q158_E0.5941.00
88_N91_P0.5931.00
146_K306_A0.5931.00
175_Y178_Q0.5921.00
214_S218_L0.5921.00
109_Q364_A0.5921.00
193_K230_L0.5911.00
217_A331_L0.5911.00
291_I345_A0.5911.00
318_I326_Q0.5901.00
215_I255_V0.5901.00
144_T147_Q0.5891.00
198_L267_L0.5881.00
147_Q150_D0.5881.00
48_A51_L0.5871.00
7_L16_L0.5851.00
142_M164_I0.5851.00
86_G95_V0.5851.00
213_R217_A0.5831.00
99_A102_C0.5821.00
347_N351_Y0.5821.00
130_A133_E0.5801.00
111_K167_P0.5751.00
361_P365_A0.5751.00
81_A104_A0.5711.00
22_R285_I0.5711.00
200_L274_L0.5711.00
207_G239_P0.5691.00
210_G322_F0.5691.00
221_L226_R0.5671.00
210_G277_P0.5661.00
31_G34_V0.5631.00
290_A297_V0.5631.00
84_V104_A0.5621.00
128_E135_G0.5601.00
339_P342_M0.5601.00
286_V290_A0.5601.00
23_I364_A0.5591.00
52_I56_V0.5591.00
102_C105_E0.5581.00
25_S29_A0.5571.00
16_L88_N0.5571.00
106_K138_T0.5561.00
197_N341_R0.5561.00
242_F245_L0.5541.00
175_Y269_A0.5541.00
268_M286_V0.5521.00
122_R125_A0.5521.00
71_W74_N0.5501.00
288_L308_Y0.5471.00
166_P283_A0.5471.00
212_D239_P0.5471.00
243_E246_A0.5471.00
301_A321_P0.5451.00
302_V306_A0.5451.00
81_A84_V0.5441.00
19_D23_I0.5431.00
272_D338_S0.5431.00
192_I270_A0.5431.00
350_H354_T0.5421.00
277_P300_T0.5421.00
32_H369_T0.5411.00
221_L227_H0.5411.00
192_I198_L0.5391.00
19_D87_F0.5391.00
222_P229_T0.5381.00
145_D166_P0.5371.00
212_D242_F0.5331.00
298_L331_L0.5331.00
83_R86_G0.5311.00
234_V264_V0.5311.00
125_A129_R0.5291.00
296_P341_R0.5281.00
217_A221_L0.5281.00
228_N254_N0.5281.00
86_G92_G0.5281.00
26_T357_L0.5271.00
48_A53_Q0.5271.00
215_I242_F0.5271.00
171_P352_A0.5271.00
200_L295_L0.5261.00
291_I352_A0.5261.00
200_L232_F0.5261.00
210_G300_T0.5241.00
246_A252_R0.5231.00
205_D235_G0.5231.00
77_K102_C0.5221.00
125_A128_E0.5211.00
92_G95_V0.5211.00
278_A282_A0.5201.00
354_T359_S0.5191.00
122_R126_A0.5181.00
235_G259_S0.5161.00
53_Q56_V0.5141.00
25_S28_A0.5131.00
251_V254_N0.5131.00
147_Q282_A0.5111.00
127_F130_A0.5101.00
109_Q141_M0.5081.00
76_L81_A0.5071.00
195_Q228_N0.5071.00
139_K143_L0.5041.00
110_E113_F0.5021.00
207_G241_K0.5021.00
124_Y128_E0.5001.00
288_L352_A0.5001.00
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  
2iw1A 1 0.984 100 0.113 Contact Map
3c48A 2 0.9786 100 0.134 Contact Map
2r60A 1 0.9893 100 0.135 Contact Map
3froA 3 0.9786 100 0.151 Contact Map
1rzuA 1 0.9733 100 0.155 Contact Map
4n9wA 1 0.9118 100 0.159 Contact Map
2qzsA 1 0.9679 100 0.16 Contact Map
2jjmA 4 0.9358 100 0.167 Contact Map
2x6qA 1 0.9439 100 0.189 Contact Map
3okpA 1 0.9572 100 0.19 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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