YQEF - BACSU - GREMLIN Contacts

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YQEF - Uncharacterized lipoprotein YqeF

UniProt:	P54451	Sequences: MKHFIILFLLLFVTAGCEGRGYEDVVAFGDSNTRGSNWDYRDYPKAQQWVNILKTAERGNLDILNAGIGGQTTEDARLRFQTDVLDQKPKYLFIMFGTNDAAILTEGKPRVSKQRFRENLVYFIEESRKHGIKPILMTCIPIIEGNGKHHLFYYSRYQAAAFEPKGGARKWHNSYNDITRDVSKRLDVPLVDNWKHFIEADGGKATDEALIQSGLIDPSGNHMTPKGARIVYEGIQDGQILQR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	243 (189)
Sequences:	7927 (5985)
Seq/√Len:	435.4

ECOLI - TESA
BACSU - YQEF YPMR RHGT1 RHGT2 LIPC YXIM
SULSO - Q97UG8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
138_T	190_L	3.779	1.00
117_R	181_D	3.474	1.00
121_V	186_L	3.226	1.00
92_L	127_S	2.940	1.00
121_V	185_R	2.896	1.00
27_A	33_T	2.821	1.00
125_E	186_L	2.756	1.00
76_A	96_F	2.656	1.00
81_Q	126_E	2.552	1.00
73_T	119_N	2.461	1.00
183_S	190_L	2.112	1.00
77_R	122_Y	2.085	1.00
71_Q	79_R	2.068	1.00
92_L	132_I	2.014	1.00
117_R	178_I	2.008	1.00
28_F	76_A	1.964	1.00
193_N	231_V	1.932	1.00
25_V	93_F	1.902	1.00
121_V	125_E	1.841	1.00
229_R	233_E	1.838	1.00
32_N	223_M	1.815	1.00
139_C	176_N	1.700	1.00
223_M	231_V	1.679	1.00
24_D	62_D	1.663	1.00
230_I	233_E	1.660	1.00
128_R	186_L	1.636	1.00
192_D	195_K	1.623	1.00
27_A	93_F	1.612	1.00
180_R	190_L	1.608	1.00
36_S	69_G	1.602	1.00
136_L	179_T	1.592	1.00
133_K	189_P	1.565	1.00
234_G	237_D	1.518	1.00
127_S	132_I	1.511	1.00
39_D	225_P	1.511	1.00
34_R	69_G	1.510	1.00
177_D	181_D	1.475	1.00
126_E	130_H	1.440	1.00
73_T	116_F	1.434	1.00
117_R	121_V	1.427	1.00
33_T	67_G	1.427	1.00
124_I	136_L	1.414	1.00
47_Q	225_P	1.386	1.00
98_T	221_N	1.381	1.00
191_V	238_G	1.380	1.00
226_K	229_R	1.362	1.00
112_S	115_R	1.353	1.00
52_I	229_R	1.348	1.00
120_L	179_T	1.341	1.00
136_L	183_S	1.341	1.00
138_T	192_D	1.340	1.00
73_T	123_F	1.335	1.00
124_I	188_V	1.325	1.00
178_I	181_D	1.322	1.00
196_H	234_G	1.312	1.00
80_F	127_S	1.310	1.00
117_R	185_R	1.297	1.00
32_N	98_T	1.290	1.00
23_E	61_L	1.278	1.00
124_I	186_L	1.272	1.00
77_R	119_N	1.269	1.00
124_I	182_V	1.265	1.00
56_A	236_Q	1.250	1.00
138_T	180_R	1.250	1.00
77_R	126_E	1.229	1.00
116_F	179_T	1.228	1.00
23_E	90_K	1.228	1.00
75_D	78_L	1.223	1.00
137_M	235_I	1.213	1.00
122_Y	126_E	1.211	1.00
94_I	123_F	1.209	1.00
80_F	123_F	1.208	1.00
116_F	175_Y	1.192	1.00
182_V	186_L	1.188	1.00
68_I	79_R	1.186	1.00
73_T	120_L	1.180	1.00
135_I	191_V	1.154	1.00
93_F	137_M	1.142	1.00
71_Q	75_D	1.133	1.00
48_Q	51_N	1.132	1.00
115_R	118_E	1.125	1.00
140_I	223_M	1.124	1.00
56_A	233_E	1.117	1.00
232_Y	236_Q	1.102	1.00
27_A	50_V	1.096	1.00
74_E	115_R	1.091	1.00
52_I	232_Y	1.079	1.00
194_W	198_I	1.074	1.00
91_Y	135_I	1.072	1.00
113_K	174_S	1.072	1.00
180_R	184_K	1.070	1.00
195_K	198_I	1.069	1.00
118_E	121_V	1.057	1.00
127_S	134_P	1.051	1.00
118_E	122_Y	1.048	1.00
169_R	173_N	1.041	1.00
120_L	124_I	1.038	1.00
33_T	95_M	1.037	1.00
136_L	182_V	1.035	1.00
91_Y	133_K	1.028	1.00
172_H	176_N	1.023	1.00
171_W	174_S	1.022	1.00
116_F	178_I	1.019	1.00
122_Y	125_E	1.008	1.00
121_V	182_V	1.006	1.00
73_T	96_F	1.005	1.00
126_E	129_K	1.000	1.00
230_I	234_G	0.995	1.00
170_K	174_S	0.987	1.00
30_D	97_G	0.981	1.00
38_W	225_P	0.975	1.00
26_V	89_P	0.969	1.00
119_N	123_F	0.969	1.00
125_E	129_K	0.964	1.00
24_D	64_L	0.959	1.00
173_N	177_D	0.957	1.00
81_Q	85_L	0.945	1.00
114_Q	118_E	0.945	1.00
52_I	56_A	0.944	1.00
131_G	134_P	0.925	1.00
89_P	132_I	0.925	1.00
137_M	193_N	0.922	1.00
74_E	78_L	0.911	1.00
113_K	117_R	0.909	1.00
181_D	185_R	0.905	1.00
85_L	130_H	0.902	1.00
47_Q	52_I	0.899	1.00
115_R	119_N	0.893	1.00
72_T	75_D	0.880	1.00
73_T	77_R	0.879	1.00
66_A	87_Q	0.876	1.00
76_A	123_F	0.874	1.00
95_M	140_I	0.873	1.00
195_K	199_E	0.868	1.00
176_N	180_R	0.863	1.00
216_I	220_G	0.861	1.00
25_V	63_I	0.861	1.00
125_E	128_R	0.860	1.00
124_I	134_P	0.849	1.00
79_R	83_D	0.846	1.00
191_V	235_I	0.841	1.00
81_Q	86_D	0.829	1.00
82_T	85_L	0.829	1.00
140_I	197_F	0.822	1.00
141_P	197_F	0.815	1.00
135_I	189_P	0.813	1.00
74_E	119_N	0.811	1.00
228_A	231_V	0.808	1.00
183_S	188_V	0.808	1.00
51_N	54_K	0.807	1.00
176_N	179_T	0.806	1.00
28_F	83_D	0.805	1.00
98_T	139_C	0.801	1.00
18_E	21_G	0.799	1.00
124_I	128_R	0.791	1.00
175_Y	179_T	0.791	1.00
93_F	135_I	0.791	1.00
226_K	230_I	0.789	1.00
102_A	221_N	0.789	1.00
95_M	98_T	0.786	1.00
182_V	185_R	0.785	1.00
234_G	238_G	0.781	1.00
68_I	71_Q	0.776	1.00
34_R	67_G	0.770	1.00
28_F	80_F	0.770	1.00
215_L	230_I	0.766	1.00
177_D	180_R	0.765	1.00
196_H	199_E	0.757	1.00
24_D	87_Q	0.757	1.00
33_T	235_I	0.755	1.00
26_V	66_A	0.752	1.00
30_D	95_M	0.750	1.00
80_F	83_D	0.749	1.00
98_T	142_I	0.748	1.00
24_D	90_K	0.746	1.00
114_Q	117_R	0.744	1.00
26_V	64_L	0.742	1.00
52_I	55_T	0.741	1.00
98_T	102_A	0.733	1.00
169_R	172_H	0.728	1.00
25_V	91_Y	0.726	1.00
120_L	182_V	0.724	1.00
117_R	182_V	0.714	1.00
181_D	184_K	0.709	1.00
174_S	177_D	0.697	1.00
114_Q	174_S	0.694	1.00
93_F	235_I	0.688	1.00
27_A	53_L	0.688	1.00
49_W	52_I	0.686	1.00
180_R	192_D	0.686	1.00
23_E	91_Y	0.682	1.00
100_D	119_N	0.679	1.00
28_F	123_F	0.677	1.00
101_A	175_Y	0.665	1.00
182_V	188_V	0.664	1.00
111_V	115_R	0.659	1.00
98_T	140_I	0.659	1.00
189_P	238_G	0.658	1.00
140_I	176_N	0.658	1.00
77_R	118_E	0.657	1.00
49_W	228_A	0.656	1.00
114_Q	178_I	0.656	1.00
85_L	126_E	0.654	0.99
186_L	189_P	0.650	0.99
119_N	122_Y	0.647	0.99
136_L	188_V	0.646	0.99
135_I	238_G	0.645	0.99
35_G	228_A	0.644	0.99
25_V	61_L	0.642	0.99
33_T	93_F	0.639	0.99
116_F	120_L	0.638	0.99
83_D	86_D	0.638	0.99
134_P	188_V	0.638	0.99
69_G	102_A	0.636	0.99
50_V	54_K	0.634	0.99
170_K	173_N	0.623	0.99
57_E	60_N	0.622	0.99
137_M	231_V	0.621	0.99
101_A	142_I	0.621	0.99
22_Y	60_N	0.620	0.99
113_K	178_I	0.619	0.99
27_A	67_G	0.618	0.99
57_E	61_L	0.616	0.99
67_G	79_R	0.612	0.99
77_R	81_Q	0.612	0.99
197_F	200_A	0.608	0.99
95_M	223_M	0.606	0.99
104_L	109_P	0.603	0.99
95_M	137_M	0.602	0.99
101_A	116_F	0.601	0.99
26_V	92_L	0.601	0.99
138_T	179_T	0.597	0.99
66_A	83_D	0.596	0.99
120_L	136_L	0.595	0.99
179_T	182_V	0.594	0.99
31_S	222_H	0.589	0.99
141_P	144_E	0.589	0.99
28_F	66_A	0.589	0.99
61_L	90_K	0.588	0.99
67_G	123_F	0.587	0.99
53_L	236_Q	0.587	0.99
179_T	183_S	0.583	0.99
225_P	229_R	0.577	0.99
27_A	63_I	0.577	0.99
36_S	228_A	0.576	0.99
213_S	216_I	0.571	0.99
214_G	226_K	0.570	0.99
215_L	218_P	0.568	0.99
176_N	194_W	0.566	0.99
200_A	204_K	0.563	0.98
223_M	228_A	0.560	0.98
35_G	48_Q	0.559	0.98
178_I	182_V	0.558	0.98
49_W	235_I	0.554	0.98
81_Q	84_V	0.551	0.98
96_F	120_L	0.550	0.98
164_P	169_R	0.550	0.98
32_N	95_M	0.549	0.98
142_I	168_A	0.548	0.98
49_W	54_K	0.546	0.98
55_T	229_R	0.545	0.98
102_A	168_A	0.545	0.98
173_N	176_N	0.544	0.98
111_V	116_F	0.543	0.98
201_D	204_K	0.540	0.98
77_R	123_F	0.539	0.98
80_F	126_E	0.538	0.98
101_A	172_H	0.536	0.98
67_G	227_G	0.528	0.98
168_A	171_W	0.524	0.98
142_I	221_N	0.520	0.97
26_V	87_Q	0.519	0.97
101_A	171_W	0.518	0.97
53_L	56_A	0.516	0.97
66_A	84_V	0.515	0.97
52_I	228_A	0.512	0.97
71_Q	96_F	0.511	0.97
47_Q	51_N	0.511	0.97
123_F	126_E	0.509	0.97
143_I	146_N	0.509	0.97
197_F	201_D	0.509	0.97
96_F	101_A	0.509	0.97
38_W	47_Q	0.503	0.97
199_E	202_G	0.500	0.97

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
4jggA	1	0.7284	100	0.348	Contact Map
4jhlA	5	0.8313	100	0.369	Contact Map
4q9aA	2	0.8519	100	0.373	Contact Map
3rjtA	2	0.8272	100	0.377	Contact Map
4rw0A	1	0.7449	100	0.379	Contact Map
2o14A	1	0.9012	100	0.379	Contact Map
3milA	2	0.8477	100	0.382	Contact Map
1k7cA	1	0.7984	100	0.392	Contact Map
1ivnA	2	0.7284	100	0.392	Contact Map
4q7qA	1	0.893	100	0.395	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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