YAIX - ECOLI - GREMLIN Contacts

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YAIX - Putative uncharacterized acetyltransferase YaiX

UniProt:	P75697	Sequences: MDLLPFLLDANLSATNPPAIPHWWKRQPLIPNLLSQELKNYLKLNVKEKNIQIADQVIIDETAGEVVIGANTRICHGAVIQGPVVIGANCLIGNYAFIRPGTIISNGVKIGFATEIKNAVIEAEATIGPQCFIADSVVANQAYLGAQVRTSNHRLDEQPVSVRTPEGIIATGCDKLGCYIGQRSRLGVQVIILPGRIISPNTQLGPRVIVERNLPTGTYSLRQELIRTGD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14236
Length:	230 (186)
Sequences:	1954 (1381)
Seq/√Len:	101.3

ECOLI - YAIX LPXD LPXA GLMU
BACSU - GLMU DAPH
HALSA - Q9HSZ8 Q9HSZ9
SULSO - Q7LXK9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
90_C	108_V	2.779	1.00
69_G	88_A	2.675	1.00
107_G	124_E	2.660	1.00
183_R	201_N	2.653	1.00
67_V	85_V	2.561	1.00
124_E	141_Q	2.534	1.00
182_Q	200_P	2.456	1.00
106_N	123_A	2.340	1.00
39_K	43_K	2.337	1.00
205_G	221_L	2.335	1.00
68_I	72_T	2.248	1.00
200_P	216_T	2.216	1.00
63_A	82_G	2.196	1.00
88_A	106_N	2.190	1.00
132_F	136_S	2.187	1.00
207_R	223_Q	2.180	1.00
164_T	182_Q	2.175	1.00
77_G	95_Y	2.152	1.00
71_N	89_N	2.123	1.00
85_V	103_I	2.069	1.00
56_Q	77_G	2.065	1.00
78_A	92_I	2.000	1.00
165_P	183_R	1.982	1.00
89_N	107_G	1.962	1.00
38_L	42_L	1.935	1.00
127_I	131_C	1.919	1.00
179_Y	197_I	1.916	1.00
83_P	101_G	1.896	1.00
63_A	66_V	1.876	1.00
72_T	90_C	1.845	1.00
68_I	74_I	1.776	1.00
65_E	83_P	1.731	1.00
132_F	137_V	1.686	1.00
181_G	200_P	1.657	1.00
199_S	216_T	1.627	1.00
132_F	135_D	1.624	1.00
70_A	88_A	1.618	1.00
153_H	157_E	1.591	1.00
135_D	157_E	1.559	1.00
101_G	118_N	1.528	1.00
95_Y	113_A	1.518	1.00
201_N	217_G	1.507	1.00
116_I	119_A	1.501	1.00
149_R	152_N	1.490	1.00
96_A	110_I	1.487	1.00
204_L	210_V	1.475	1.00
105_S	123_A	1.442	1.00
149_R	153_H	1.432	1.00
197_I	213_N	1.426	1.00
186_L	190_V	1.415	1.00
39_K	42_L	1.413	1.00
81_Q	100_P	1.402	1.00
193_L	196_R	1.401	1.00
186_L	192_I	1.371	0.99
38_L	43_K	1.357	0.99
215_P	218_T	1.351	0.99
90_C	104_I	1.337	0.99
189_Q	207_R	1.318	0.99
130_Q	147_Q	1.308	0.99
90_C	123_A	1.301	0.99
190_V	204_L	1.300	0.99
80_I	84_V	1.294	0.99
69_G	72_T	1.281	0.99
161_S	179_Y	1.254	0.99
121_I	125_A	1.253	0.99
171_T	189_Q	1.248	0.99
153_H	156_D	1.222	0.99
178_C	194_P	1.218	0.99
38_L	41_Y	1.211	0.99
87_G	106_N	1.210	0.99
186_L	204_L	1.205	0.99
54_A	76_H	1.203	0.99
121_I	127_I	1.199	0.99
90_C	106_N	1.194	0.99
108_V	123_A	1.189	0.98
166_E	184_S	1.185	0.98
214_L	220_S	1.157	0.98
65_E	82_G	1.148	0.98
152_N	155_L	1.148	0.98
201_N	216_T	1.133	0.98
152_N	156_D	1.126	0.98
108_V	125_A	1.109	0.98
166_E	182_Q	1.107	0.98
103_I	120_V	1.082	0.97
102_T	116_I	1.073	0.97
55_D	58_I	1.072	0.97
40_N	43_K	1.066	0.97
184_S	200_P	1.063	0.97
98_I	110_I	1.052	0.97
204_L	208_V	1.051	0.97
199_S	215_P	1.040	0.96
203_Q	219_Y	1.037	0.96
141_Q	183_R	1.031	0.96
199_S	202_T	1.028	0.96
104_I	116_I	1.012	0.96
78_A	96_A	1.008	0.96
54_A	58_I	0.999	0.96
133_I	136_S	0.974	0.95
192_I	198_I	0.973	0.95
137_V	177_G	0.969	0.95
71_N	88_A	0.960	0.95
74_I	78_A	0.957	0.94
152_N	157_E	0.956	0.94
184_S	202_T	0.945	0.94
149_R	156_D	0.941	0.94
191_I	206_P	0.934	0.94
54_A	57_V	0.931	0.94
150_T	180_I	0.929	0.93
222_R	225_L	0.914	0.93
104_I	108_V	0.907	0.93
202_T	216_T	0.905	0.93
159_P	170_A	0.905	0.93
99_R	112_F	0.901	0.92
122_E	140_N	0.894	0.92
92_I	98_I	0.892	0.92
69_G	87_G	0.890	0.92
149_R	155_L	0.885	0.92
173_C	191_I	0.882	0.92
84_V	102_T	0.879	0.91
89_N	106_N	0.878	0.91
86_I	98_I	0.875	0.91
134_A	137_V	0.869	0.91
160_V	174_D	0.864	0.91
149_R	154_R	0.859	0.91
56_Q	59_I	0.858	0.90
41_Y	44_L	0.853	0.90
154_R	157_E	0.847	0.90
169_I	187_G	0.845	0.90
202_T	214_L	0.845	0.90
58_I	79_V	0.840	0.90
59_I	66_V	0.838	0.89
137_V	179_Y	0.832	0.89
112_F	115_E	0.831	0.89
136_S	150_T	0.827	0.89
94_N	97_F	0.827	0.89
143_Y	146_A	0.819	0.88
114_T	131_C	0.819	0.88
55_D	59_I	0.819	0.88
196_R	213_N	0.806	0.88
66_V	81_Q	0.805	0.87
96_A	114_T	0.801	0.87
103_I	106_N	0.796	0.87
178_C	198_I	0.786	0.86
93_G	96_A	0.780	0.86
58_I	77_G	0.778	0.86
146_A	149_R	0.769	0.85
168_I	172_G	0.767	0.85
122_E	137_V	0.767	0.85
175_K	193_L	0.757	0.84
127_I	133_I	0.746	0.83
111_G	126_T	0.746	0.83
120_V	137_V	0.746	0.83
111_G	115_E	0.743	0.83
52_Q	73_R	0.742	0.83
140_N	182_Q	0.741	0.83
123_A	140_N	0.740	0.83
72_T	88_A	0.739	0.83
215_P	220_S	0.738	0.83
166_E	180_I	0.737	0.82
40_N	44_L	0.737	0.82
180_I	184_S	0.736	0.82
184_S	216_T	0.733	0.82
142_A	184_S	0.728	0.82
180_I	186_L	0.724	0.81
73_R	91_L	0.723	0.81
99_R	111_G	0.719	0.81
47_K	50_N	0.718	0.81
110_I	114_T	0.715	0.80
64_G	82_G	0.710	0.80
102_T	119_A	0.708	0.80
143_Y	152_N	0.704	0.79
98_I	102_T	0.700	0.79
75_C	94_N	0.699	0.79
193_L	206_P	0.698	0.79
93_G	97_F	0.697	0.79
93_G	99_R	0.696	0.79
111_G	129_P	0.695	0.79
92_I	96_A	0.694	0.78
177_G	195_G	0.693	0.78
72_T	106_N	0.686	0.78
80_I	86_I	0.684	0.77
173_C	189_Q	0.683	0.77
113_A	129_P	0.677	0.77
187_G	203_Q	0.671	0.76
86_I	90_C	0.670	0.76
38_L	44_L	0.669	0.76
189_Q	209_I	0.668	0.76
69_G	106_N	0.667	0.76
39_K	44_L	0.666	0.76
171_T	209_I	0.666	0.76
66_V	80_I	0.664	0.75
93_G	100_P	0.660	0.75
216_T	220_S	0.659	0.75
104_I	110_I	0.657	0.75
53_I	74_I	0.654	0.74
178_C	192_I	0.649	0.74
172_G	186_L	0.645	0.73
168_I	186_L	0.644	0.73
75_C	78_A	0.643	0.73
84_V	99_R	0.641	0.73
76_H	94_N	0.638	0.72
211_E	223_Q	0.635	0.72
113_A	130_Q	0.635	0.72
163_R	168_I	0.633	0.72
138_V	144_L	0.633	0.72
198_I	202_T	0.631	0.72
112_F	129_P	0.630	0.72
140_N	143_Y	0.623	0.71
188_V	206_P	0.619	0.70
202_T	218_T	0.616	0.70
162_V	166_E	0.615	0.70
59_I	80_I	0.610	0.69
110_I	116_I	0.610	0.69
53_I	57_V	0.610	0.69
74_I	80_I	0.609	0.69
116_I	121_I	0.607	0.69
84_V	98_I	0.606	0.69
220_S	225_L	0.606	0.69
79_V	94_N	0.606	0.69
54_A	79_V	0.603	0.68
134_A	145_G	0.603	0.68
134_A	146_A	0.602	0.68
93_G	109_K	0.602	0.68
175_K	192_I	0.601	0.68
119_A	135_D	0.600	0.68
142_A	146_A	0.597	0.67
98_I	104_I	0.594	0.67
85_V	88_A	0.591	0.67
77_G	113_A	0.589	0.66
199_S	217_G	0.589	0.66
68_I	86_I	0.587	0.66
66_V	82_G	0.587	0.66
191_I	209_I	0.584	0.66
69_G	90_C	0.582	0.65
160_V	178_C	0.581	0.65
92_I	104_I	0.577	0.65
99_R	117_K	0.577	0.65
212_R	225_L	0.577	0.65
67_V	88_A	0.576	0.65
108_V	121_I	0.575	0.65
193_L	209_I	0.575	0.65
165_P	201_N	0.575	0.65
119_A	136_S	0.574	0.64
109_K	126_T	0.572	0.64
54_A	73_R	0.568	0.64
166_E	200_P	0.563	0.63
178_C	193_L	0.563	0.63
51_I	56_Q	0.562	0.63
187_G	207_R	0.562	0.63
190_V	208_V	0.561	0.63
97_F	112_F	0.557	0.62
171_T	207_R	0.553	0.62
88_A	107_G	0.552	0.61
58_I	76_H	0.552	0.61
131_C	148_V	0.549	0.61
66_V	84_V	0.548	0.61
205_G	220_S	0.547	0.61
44_L	48_E	0.541	0.60
199_S	218_T	0.541	0.60
45_N	49_K	0.539	0.60
128_G	132_F	0.537	0.59
220_S	226_I	0.530	0.58
211_E	226_I	0.529	0.58
167_G	185_R	0.528	0.58
42_L	46_V	0.527	0.58
67_V	70_A	0.524	0.57
96_A	113_A	0.522	0.57
121_I	133_I	0.521	0.57
221_L	225_L	0.520	0.57
115_E	130_Q	0.518	0.57
78_A	113_A	0.516	0.56
170_A	178_C	0.513	0.56
48_E	51_I	0.510	0.55
64_G	80_I	0.509	0.55
117_K	135_D	0.507	0.55
82_G	100_P	0.507	0.55
67_V	89_N	0.506	0.55
212_R	221_L	0.506	0.55
50_N	73_R	0.500	0.54

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
2iu8A	3	0.9826	100	0.355	Contact Map
4g3qA	3	0.9739	100	0.371	Contact Map
1hm9A	3	0.9739	100	0.388	Contact Map
4e79A	3	0.9739	100	0.389	Contact Map
2v0hA	3	0.9783	100	0.389	Contact Map
3pmoA	3	0.9783	100	0.395	Contact Map
2ggoA	3	0.9348	100	0.395	Contact Map
4ihfA	4	0.9826	100	0.403	Contact Map
3t57A	3	0.7652	100	0.405	Contact Map
3fs8A	3	0.7957	100	0.406	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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