YFJP - ECOLI - GREMLIN Contacts

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YFJP - Uncharacterized protein YfjP

UniProt:	P52131	Sequences: MKNFEVLQPLQNSLSGLPLWVSERILQQINQLTHYEPVIGIMGKTGAGKSSLCNALFAGEVSPVSDVAACTRDPLRFRLQIGEHFMTIVDLPGVGESGVRDTEYAALYREQLPRLDLILWLIKADDRALATDEHFYRQVIGEAYRHKMLFVISQSDKAEPTSGGNILSTEQKQNISRKICLLHELFQPVHPVCAVSVRLQWGLRVMAERMIKCLPREASSPVVALLQHPFRTTVAREQARDDFGETVGAILDTVSTFPLIPAPVRTIIQAVRSSVVSVARAVWDFFF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13202
Length:	287 (227)
Sequences:	7660 (5641)
Seq/√Len:	374.4

ECOLI - YFJP YKFA ERA DER MNME CRFC ENGB HFLX OBG
BACSU - ERA MNME YPBR DER ENGB HFLX OBG
HALSA - Q9HQ88 Q9HMC2 Q9HMD6 ENGB Y1111
SULSO - HFLX Q7LXR6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
191_P	209_R	3.269	1.00
55_A	203_L	3.061	1.00
119_L	151_V	2.980	1.00
209_R	212_K	2.864	1.00
180_C	183_H	2.806	1.00
55_A	200_Q	2.685	1.00
193_C	209_R	2.374	1.00
243_F	247_V	2.353	1.00
124_A	152_I	2.301	1.00
41_I	53_C	2.292	1.00
130_A	134_H	2.168	1.00
40_G	115_L	2.149	1.00
202_G	205_V	2.108	1.00
44_K	132_D	2.100	1.00
209_R	213_C	2.084	1.00
119_L	210_M	2.081	1.00
101_D	104_Y	2.046	1.00
181_L	185_L	2.026	1.00
153_S	197_V	1.971	1.00
122_I	150_F	1.960	1.00
213_C	217_E	1.921	1.00
237_E	240_R	1.856	1.00
151_V	195_V	1.827	1.00
233_T	237_E	1.773	1.00
52_L	121_L	1.768	1.00
154_Q	157_K	1.742	1.00
173_Q	176_S	1.741	1.00
76_R	87_T	1.727	1.00
103_E	106_A	1.705	1.00
259_L	262_A	1.692	1.00
51_S	197_V	1.691	1.00
56_L	203_L	1.674	1.00
241_D	245_E	1.659	1.00
78_R	85_F	1.652	1.00
149_L	209_R	1.643	1.00
121_L	153_S	1.634	1.00
133_E	137_R	1.629	1.00
41_I	119_L	1.628	1.00
84_H	211_I	1.616	1.00
80_Q	85_F	1.596	1.00
155_S	194_A	1.573	1.00
181_L	184_E	1.566	1.00
128_A	132_D	1.547	1.00
208_E	212_K	1.525	1.00
152_I	194_A	1.473	1.00
123_K	153_S	1.466	1.00
250_I	254_V	1.465	1.00
38_V	87_T	1.465	1.00
228_H	232_T	1.456	1.00
265_R	269_Q	1.441	1.00
39_I	86_M	1.409	1.00
136_Y	140_I	1.399	1.00
151_V	206_M	1.395	1.00
119_L	206_M	1.393	1.00
236_R	240_R	1.387	1.00
251_L	255_S	1.360	1.00
249_A	252_D	1.357	1.00
244_G	248_G	1.350	1.00
206_M	210_M	1.349	1.00
239_A	243_F	1.336	1.00
250_I	253_T	1.320	1.00
234_V	238_Q	1.316	1.00
235_A	238_Q	1.315	1.00
78_R	87_T	1.313	1.00
241_D	244_G	1.286	1.00
137_R	140_I	1.282	1.00
260_I	263_P	1.277	1.00
51_S	64_V	1.277	1.00
264_V	267_I	1.266	1.00
125_D	157_K	1.263	1.00
149_L	193_C	1.263	1.00
52_L	56_L	1.262	1.00
109_R	138_Q	1.255	1.00
247_V	251_L	1.255	1.00
247_V	250_I	1.250	1.00
152_I	192_V	1.250	1.00
204_R	208_E	1.245	1.00
252_D	255_S	1.240	1.00
44_K	131_T	1.236	1.00
103_E	107_L	1.230	1.00
232_T	235_A	1.223	1.00
130_A	133_E	1.202	1.00
262_A	266_T	1.199	1.00
44_K	129_L	1.188	1.00
251_L	257_F	1.186	1.00
199_L	202_G	1.186	1.00
182_L	186_F	1.185	1.00
56_L	207_A	1.177	1.00
244_G	247_V	1.176	1.00
123_K	126_D	1.168	1.00
219_S	223_V	1.165	1.00
260_I	264_V	1.159	1.00
234_V	239_A	1.159	1.00
266_T	269_Q	1.138	1.00
259_L	263_P	1.131	1.00
120_W	136_Y	1.123	1.00
261_P	265_R	1.122	1.00
235_A	239_A	1.122	1.00
247_V	254_V	1.119	1.00
176_S	179_I	1.118	1.00
128_A	133_E	1.118	1.00
230_F	234_V	1.113	1.00
239_A	244_G	1.111	1.00
129_L	132_D	1.109	1.00
180_C	184_E	1.106	1.00
134_H	138_Q	1.105	1.00
249_A	253_T	1.099	1.00
253_T	257_F	1.097	1.00
243_F	246_T	1.093	1.00
240_R	244_G	1.092	1.00
51_S	195_V	1.091	1.00
74_P	77_F	1.086	1.00
232_T	236_R	1.083	1.00
205_V	208_E	1.075	1.00
246_T	250_I	1.074	1.00
222_V	225_L	1.073	1.00
243_F	255_S	1.071	1.00
174_N	177_R	1.069	1.00
56_L	79_L	1.067	1.00
105_A	108_Y	1.067	1.00
232_T	239_A	1.060	1.00
230_F	236_R	1.059	1.00
233_T	236_R	1.057	1.00
131_T	134_H	1.047	1.00
84_H	215_P	1.042	1.00
207_A	211_I	1.040	1.00
133_E	178_K	1.030	1.00
263_P	267_I	1.028	1.00
183_H	186_F	1.026	1.00
241_D	247_V	1.022	1.00
123_K	154_Q	1.016	1.00
258_P	262_A	1.016	1.00
177_R	180_C	1.005	1.00
52_L	195_V	1.000	1.00
53_C	88_I	0.993	1.00
253_T	256_T	0.990	1.00
117_L	149_L	0.989	1.00
156_D	196_S	0.989	1.00
242_D	245_E	0.986	1.00
264_V	268_I	0.983	1.00
238_Q	241_D	0.981	1.00
224_A	227_Q	0.977	1.00
230_F	237_E	0.977	1.00
207_A	210_M	0.972	1.00
229_P	233_T	0.971	1.00
236_R	239_A	0.967	1.00
242_D	246_T	0.966	1.00
252_D	256_T	0.960	1.00
242_D	247_V	0.950	1.00
224_A	228_H	0.944	1.00
106_A	110_E	0.939	1.00
173_Q	177_R	0.931	1.00
261_P	264_V	0.920	1.00
259_L	264_V	0.916	1.00
155_S	201_W	0.912	1.00
203_L	207_A	0.907	1.00
155_S	158_A	0.903	1.00
238_Q	242_D	0.899	1.00
99_V	102_T	0.895	1.00
249_A	254_V	0.893	1.00
260_I	267_I	0.891	1.00
107_L	111_Q	0.891	1.00
248_G	252_D	0.885	1.00
260_I	268_I	0.885	1.00
81_I	211_I	0.884	1.00
247_V	252_D	0.881	1.00
244_G	253_T	0.879	1.00
240_R	243_F	0.878	1.00
231_R	234_V	0.875	1.00
191_P	213_C	0.869	1.00
150_F	189_V	0.857	1.00
256_T	259_L	0.850	1.00
176_S	182_L	0.849	1.00
262_A	269_Q	0.848	1.00
196_S	199_L	0.845	1.00
117_L	213_C	0.839	1.00
108_Y	112_L	0.839	1.00
212_K	216_R	0.838	1.00
159_E	194_A	0.820	1.00
52_L	206_M	0.812	1.00
231_R	235_A	0.812	1.00
39_I	117_L	0.811	1.00
250_I	255_S	0.805	1.00
174_N	178_K	0.805	1.00
139_V	148_M	0.802	1.00
261_P	268_I	0.800	1.00
178_K	181_L	0.797	1.00
52_L	203_L	0.791	1.00
232_T	243_F	0.787	1.00
79_L	207_A	0.782	1.00
72_R	77_F	0.778	1.00
178_K	182_L	0.776	1.00
135_F	138_Q	0.774	1.00
175_I	179_I	0.766	1.00
200_Q	203_L	0.766	1.00
117_L	210_M	0.765	1.00
89_V	111_Q	0.764	1.00
239_A	242_D	0.762	1.00
55_A	197_V	0.762	1.00
231_R	242_D	0.760	1.00
235_A	240_R	0.756	1.00
193_C	202_G	0.754	1.00
228_H	231_R	0.754	1.00
239_A	257_F	0.753	1.00
100_R	104_Y	0.751	1.00
258_P	263_P	0.744	1.00
230_F	233_T	0.740	1.00
231_R	236_R	0.739	1.00
133_E	185_L	0.738	1.00
195_V	198_R	0.733	1.00
263_P	269_Q	0.731	1.00
124_A	158_A	0.728	1.00
100_R	103_E	0.728	1.00
91_L	108_Y	0.726	1.00
179_I	183_H	0.726	1.00
244_G	250_I	0.726	1.00
261_P	267_I	0.725	1.00
107_L	110_E	0.718	1.00
150_F	190_H	0.716	1.00
61_V	77_F	0.715	1.00
119_L	149_L	0.714	1.00
179_I	182_L	0.714	1.00
40_G	91_L	0.712	1.00
62_S	65_S	0.710	1.00
83_E	211_I	0.709	1.00
38_V	116_D	0.709	1.00
244_G	251_L	0.706	0.99
263_P	266_T	0.704	0.99
89_V	114_R	0.700	0.99
262_A	265_R	0.700	0.99
231_R	238_Q	0.698	0.99
53_C	62_S	0.698	0.99
57_F	61_V	0.693	0.99
82_G	211_I	0.691	0.99
234_V	240_R	0.688	0.99
205_V	209_R	0.686	0.99
97_S	101_D	0.686	0.99
259_L	266_T	0.685	0.99
44_K	47_A	0.683	0.99
176_S	194_A	0.679	0.99
246_T	249_A	0.675	0.99
258_P	267_I	0.673	0.99
230_F	239_A	0.672	0.99
124_A	155_S	0.671	0.99
211_I	215_P	0.670	0.99
151_V	193_C	0.669	0.99
228_H	236_R	0.667	0.99
40_G	118_I	0.664	0.99
99_V	104_Y	0.659	0.99
265_R	268_I	0.659	0.99
237_E	241_D	0.659	0.99
179_I	186_F	0.658	0.99
183_H	192_V	0.650	0.99
236_R	243_F	0.649	0.99
70_C	75_L	0.649	0.99
243_F	251_L	0.648	0.99
45_T	68_A	0.646	0.99
240_R	247_V	0.644	0.99
90_D	93_G	0.641	0.99
136_Y	139_V	0.638	0.99
254_V	259_L	0.636	0.99
236_R	244_G	0.636	0.99
110_E	114_R	0.636	0.99
237_E	250_I	0.634	0.99
226_L	230_F	0.633	0.99
50_S	54_N	0.625	0.99
241_D	250_I	0.624	0.99
255_S	259_L	0.622	0.99
80_Q	83_E	0.619	0.99
239_A	246_T	0.613	0.99
191_P	194_A	0.608	0.98
134_H	137_R	0.606	0.98
62_S	77_F	0.606	0.98
201_W	205_V	0.605	0.98
149_L	213_C	0.603	0.98
53_C	77_F	0.602	0.98
249_A	257_F	0.602	0.98
247_V	256_T	0.601	0.98
233_T	246_T	0.599	0.98
259_L	265_R	0.599	0.98
135_F	139_V	0.598	0.98
229_P	232_T	0.597	0.98
125_D	152_I	0.597	0.98
150_F	192_V	0.594	0.98
233_T	239_A	0.594	0.98
255_S	265_R	0.593	0.98
37_P	214_L	0.590	0.98
149_L	210_M	0.589	0.98
50_S	62_S	0.588	0.98
63_P	70_C	0.587	0.98
81_I	207_A	0.586	0.98
177_R	181_L	0.585	0.98
186_F	189_V	0.577	0.98
55_A	195_V	0.576	0.98
120_W	150_F	0.576	0.98
145_R	153_S	0.569	0.98
126_D	129_L	0.566	0.98
243_F	257_F	0.561	0.97
204_R	207_A	0.560	0.97
123_K	157_K	0.558	0.97
234_V	237_E	0.558	0.97
264_V	269_Q	0.557	0.97
182_L	185_L	0.555	0.97
120_W	148_M	0.555	0.97
60_E	63_P	0.550	0.97
53_C	57_F	0.548	0.97
257_F	260_I	0.548	0.97
261_P	266_T	0.548	0.97
104_Y	107_L	0.546	0.97
249_A	256_T	0.545	0.97
249_A	255_S	0.545	0.97
63_P	75_L	0.545	0.97
213_C	216_R	0.542	0.97
71_T	76_R	0.539	0.97
94_V	97_S	0.536	0.97
75_L	79_L	0.534	0.97
81_I	84_H	0.534	0.97
63_P	69_A	0.532	0.97
76_R	79_L	0.532	0.97
176_S	180_C	0.529	0.96
248_G	251_L	0.528	0.96
255_S	258_P	0.527	0.96
244_G	249_A	0.527	0.96
257_F	262_A	0.525	0.96
137_R	143_A	0.525	0.96
256_T	262_A	0.525	0.96
244_G	256_T	0.523	0.96
258_P	268_I	0.520	0.96
151_V	194_A	0.518	0.96
51_S	198_R	0.516	0.96
47_A	123_K	0.514	0.96
75_L	78_R	0.514	0.96
233_T	243_F	0.509	0.96
247_V	253_T	0.508	0.95
225_L	229_P	0.508	0.95
250_I	256_T	0.503	0.95
57_F	77_F	0.502	0.95
250_I	257_F	0.502	0.95
236_R	257_F	0.500	0.95
112_L	118_I	0.500	0.95

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

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

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
3ievA	1	0.8432	100	0.461	Contact Map
2j69A	1	0.9721	100	0.462	Contact Map
1xzpA	4	0.9233	100	0.474	Contact Map
3gehA	2	0.8571	100	0.476	Contact Map
1egaA	2	0.8397	100	0.481	Contact Map
3geeA	2	0.7979	100	0.482	Contact Map
1wf3A	1	0.8397	100	0.484	Contact Map
4aurA	1	0.9826	100	0.484	Contact Map
1mkyA	1	0.8746	100	0.489	Contact Map
4dcuA	1	0.9129	100	0.493	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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