RACX - BACSU - GREMLIN Contacts

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RACX - Probable amino-acid racemase

UniProt:	P32960	Sequences: MIGILAGMGPKSTSPFIDKVIDYCQKLYGASNDIDYPHMMIYSCPTPFYADRPIDHDEMKKAIIDGAVKLEKTGVDFIALPCNTAHVYYEEIQQALSVPMLHIVEETIKEIPHPAKKAVVLGTEPTIQSAIYQKVLKGNGQEVIHKDHWQQAVNQLIAAIKQPNHMQHTQALWQTLYEEISQHADIIISACTDLNAVLDHIQSEIPIIDSSACLAKSTVSTYLAYQS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	227 (218)
Sequences:	2249 (1711)
Seq/√Len:	115.9

ECOLI - YGEA
BACSU - RACX

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
55_D	58_E	3.754	1.00
117_K	142_E	3.429	1.00
155_Q	159_A	3.067	1.00
4_I	81_P	3.062	1.00
149_W	178_E	3.029	1.00
79_A	218_T	2.856	1.00
77_F	221_T	2.758	1.00
128_Q	150_Q	2.671	1.00
71_E	97_S	2.575	1.00
35_D	45_P	2.525	1.00
119_V	179_E	2.480	1.00
105_E	135_V	2.469	1.00
18_D	22_D	2.468	1.00
80_L	100_M	2.441	1.00
116_K	185_D	2.373	1.00
130_A	134_K	2.321	1.00
106_E	213_C	2.091	1.00
40_M	73_T	2.091	1.00
124_E	151_Q	2.073	1.00
13_T	41_I	2.061	1.00
176_L	187_I	2.050	1.00
71_E	98_V	2.005	1.00
110_E	113_H	1.971	1.00
152_A	171_A	1.959	1.00
2_I	77_F	1.933	1.00
23_Y	216_K	1.922	1.00
89_Y	100_M	1.876	1.00
83_N	132_Y	1.776	1.00
17_I	41_I	1.757	1.00
156_L	168_H	1.738	1.00
20_V	219_V	1.727	1.00
60_K	64_I	1.679	1.00
110_E	216_K	1.673	1.00
111_I	208_I	1.659	1.00
152_A	155_Q	1.629	1.00
111_I	118_A	1.617	1.00
208_I	213_C	1.604	1.00
30_A	220_S	1.601	1.00
34_I	161_K	1.593	1.00
180_I	205_I	1.591	1.00
71_E	96_L	1.580	1.00
147_D	182_Q	1.556	1.00
107_T	210_S	1.550	1.00
23_Y	219_V	1.548	1.00
42_Y	69_K	1.542	1.00
195_N	209_D	1.520	1.00
171_A	174_Q	1.519	1.00
42_Y	66_G	1.475	1.00
60_K	91_E	1.474	1.00
109_K	217_S	1.458	1.00
2_I	222_Y	1.456	1.00
15_P	195_N	1.450	1.00
144_I	184_A	1.435	1.00
124_E	154_N	1.402	1.00
217_S	220_S	1.393	1.00
115_A	186_I	1.390	1.00
176_L	198_L	1.387	1.00
109_K	139_N	1.380	1.00
108_I	139_N	1.351	1.00
8_M	82_C	1.345	1.00
15_P	18_D	1.345	1.00
189_S	194_L	1.327	1.00
67_A	96_L	1.316	1.00
217_S	221_T	1.305	1.00
186_I	208_I	1.301	1.00
60_K	88_Y	1.289	1.00
64_I	95_A	1.288	1.00
119_V	187_I	1.262	0.99
171_A	175_T	1.261	0.99
5_L	66_G	1.254	0.99
2_I	218_T	1.251	0.99
169_T	202_Q	1.250	0.99
115_A	185_D	1.247	0.99
154_N	158_A	1.246	0.99
20_V	39_M	1.208	0.99
212_A	216_K	1.189	0.99
90_E	93_Q	1.188	0.99
87_V	129_S	1.185	0.99
130_A	133_Q	1.185	0.99
134_K	137_K	1.185	0.99
80_L	92_I	1.184	0.99
15_P	211_S	1.174	0.99
60_K	92_I	1.163	0.99
106_E	109_K	1.154	0.99
40_M	70_L	1.154	0.99
58_E	91_E	1.154	0.99
177_Y	181_S	1.151	0.99
19_K	212_A	1.130	0.99
120_V	126_T	1.117	0.99
215_A	219_V	1.116	0.99
152_A	156_L	1.115	0.99
172_L	197_V	1.114	0.99
172_L	194_L	1.111	0.99
38_H	48_F	1.103	0.98
58_E	61_K	1.098	0.98
93_Q	100_M	1.094	0.98
67_A	78_I	1.089	0.98
110_E	213_C	1.088	0.98
125_P	154_N	1.073	0.98
83_N	103_I	1.073	0.98
47_P	51_D	1.069	0.98
13_T	39_M	1.068	0.98
65_D	69_K	1.066	0.98
133_Q	137_K	1.065	0.98
20_V	215_A	1.064	0.98
68_V	71_E	1.061	0.98
23_Y	29_G	1.036	0.98
19_K	23_Y	1.036	0.98
63_I	88_Y	1.035	0.98
102_H	105_E	1.034	0.98
111_I	115_A	1.031	0.98
68_V	72_K	1.024	0.97
10_P	21_I	1.020	0.97
19_K	215_A	1.007	0.97
137_K	142_E	1.007	0.97
52_R	58_E	0.998	0.97
78_I	98_V	0.992	0.97
89_Y	93_Q	0.991	0.97
16_F	20_V	0.989	0.97
176_L	194_L	0.984	0.97
82_C	85_A	0.981	0.97
9_G	161_K	0.964	0.96
84_T	123_T	0.964	0.96
118_A	185_D	0.961	0.96
120_V	143_V	0.958	0.96
49_Y	53_P	0.954	0.96
83_N	210_S	0.945	0.96
49_Y	62_A	0.940	0.96
134_K	138_G	0.939	0.96
44_C	66_G	0.936	0.96
149_W	175_T	0.935	0.96
3_G	7_G	0.929	0.95
173_W	203_S	0.923	0.95
106_E	217_S	0.922	0.95
24_C	219_V	0.916	0.95
174_Q	178_E	0.909	0.95
50_A	158_A	0.907	0.95
152_A	174_Q	0.892	0.94
53_P	87_V	0.888	0.94
136_L	143_V	0.883	0.94
24_C	37_P	0.877	0.94
118_A	186_I	0.874	0.94
112_P	139_N	0.865	0.93
52_R	62_A	0.854	0.93
59_M	62_A	0.853	0.93
77_F	222_Y	0.850	0.93
14_S	18_D	0.849	0.93
50_A	54_I	0.848	0.93
5_L	67_A	0.847	0.93
15_P	19_K	0.840	0.92
169_T	173_W	0.838	0.92
173_W	177_Y	0.837	0.92
2_I	39_M	0.832	0.92
117_K	185_D	0.831	0.92
122_G	127_I	0.825	0.92
103_I	210_S	0.814	0.91
167_Q	170_Q	0.813	0.91
54_I	125_P	0.804	0.91
38_H	42_Y	0.804	0.91
133_Q	145_H	0.802	0.91
5_L	8_M	0.799	0.90
21_I	37_P	0.799	0.90
136_L	188_I	0.793	0.90
32_N	35_D	0.789	0.90
17_I	43_S	0.786	0.90
39_M	43_S	0.785	0.90
19_K	195_N	0.785	0.90
112_P	141_Q	0.782	0.89
117_K	144_I	0.782	0.89
70_L	78_I	0.779	0.89
11_K	163_P	0.779	0.89
69_K	72_K	0.778	0.89
108_I	136_L	0.778	0.89
91_E	94_Q	0.776	0.89
57_D	91_E	0.775	0.89
82_C	161_K	0.772	0.89
23_Y	212_A	0.769	0.89
151_Q	155_Q	0.768	0.89
199_D	202_Q	0.766	0.88
89_Y	102_H	0.766	0.88
101_L	217_S	0.761	0.88
120_V	145_H	0.759	0.88
54_I	59_M	0.757	0.88
54_I	158_A	0.755	0.88
76_D	222_Y	0.751	0.87
178_E	182_Q	0.748	0.87
66_G	69_K	0.744	0.87
53_P	59_M	0.743	0.87
16_F	214_L	0.740	0.87
67_A	92_I	0.740	0.87
147_D	178_E	0.739	0.87
81_P	214_L	0.736	0.86
64_I	68_V	0.736	0.86
38_H	45_P	0.732	0.86
144_I	182_Q	0.732	0.86
195_N	211_S	0.731	0.86
180_I	204_E	0.730	0.86
34_I	50_A	0.729	0.86
102_H	135_V	0.729	0.86
156_L	171_A	0.729	0.86
59_M	85_A	0.727	0.86
4_I	20_V	0.721	0.85
68_V	95_A	0.719	0.85
193_D	196_A	0.718	0.85
173_W	202_Q	0.714	0.85
195_N	212_A	0.704	0.84
50_A	125_P	0.702	0.84
118_A	188_I	0.702	0.84
121_L	179_E	0.701	0.84
109_K	113_H	0.698	0.83
148_H	151_Q	0.694	0.83
152_A	175_T	0.694	0.83
170_Q	174_Q	0.693	0.83
127_I	150_Q	0.687	0.82
170_Q	173_W	0.683	0.82
53_P	125_P	0.683	0.82
68_V	96_L	0.677	0.81
156_L	175_T	0.677	0.81
101_L	221_T	0.676	0.81
111_I	186_I	0.674	0.81
52_R	154_N	0.669	0.81
149_W	174_Q	0.666	0.80
119_V	144_I	0.666	0.80
38_H	46_T	0.662	0.80
198_L	207_I	0.661	0.80
127_I	145_H	0.658	0.80
117_K	183_H	0.657	0.80
177_Y	180_I	0.654	0.79
178_E	181_S	0.651	0.79
14_S	21_I	0.649	0.79
49_Y	59_M	0.649	0.79
17_I	39_M	0.649	0.79
38_H	76_D	0.649	0.79
165_H	168_H	0.648	0.79
136_L	141_Q	0.646	0.78
64_I	88_Y	0.644	0.78
203_S	207_I	0.644	0.78
48_F	123_T	0.643	0.78
36_Y	81_P	0.642	0.78
116_K	142_E	0.640	0.78
153_V	175_T	0.640	0.78
84_T	191_C	0.638	0.78
8_M	85_A	0.633	0.77
24_C	36_Y	0.632	0.77
5_L	69_K	0.630	0.77
101_L	218_T	0.627	0.76
54_I	154_N	0.625	0.76
118_A	141_Q	0.624	0.76
174_Q	177_Y	0.624	0.76
20_V	24_C	0.621	0.76
36_Y	161_K	0.619	0.75
200_H	207_I	0.616	0.75
49_Y	125_P	0.615	0.75
115_A	118_A	0.610	0.74
122_G	126_T	0.607	0.74
34_I	48_F	0.605	0.74
13_T	17_I	0.605	0.74
175_T	179_E	0.604	0.74
119_V	183_H	0.603	0.73
9_G	82_C	0.602	0.73
16_F	79_A	0.601	0.73
119_V	175_T	0.600	0.73
108_I	112_P	0.599	0.73
153_V	172_L	0.596	0.73
90_E	94_Q	0.594	0.72
3_G	6_A	0.586	0.71
107_T	208_I	0.582	0.71
31_S	35_D	0.582	0.71
52_R	125_P	0.582	0.71
78_I	96_L	0.579	0.70
39_M	77_F	0.577	0.70
169_T	197_V	0.576	0.70
21_I	24_C	0.575	0.70
4_I	79_A	0.574	0.70
3_G	70_L	0.573	0.70
64_I	67_A	0.572	0.70
67_A	71_E	0.571	0.69
157_I	191_C	0.570	0.69
19_K	22_D	0.566	0.69
15_P	196_A	0.566	0.69
124_E	128_Q	0.564	0.68
216_K	220_S	0.562	0.68
52_R	59_M	0.562	0.68
59_M	63_I	0.559	0.68
210_S	213_C	0.559	0.68
36_Y	43_S	0.559	0.68
36_Y	132_Y	0.558	0.68
149_W	182_Q	0.555	0.67
172_L	198_L	0.555	0.67
160_I	196_A	0.552	0.67
109_K	112_P	0.547	0.66
8_M	161_K	0.545	0.66
77_F	218_T	0.544	0.66
83_N	191_C	0.540	0.65
219_V	223_L	0.540	0.65
125_P	158_A	0.540	0.65
65_D	72_K	0.538	0.65
108_I	135_V	0.536	0.65
155_Q	171_A	0.535	0.64
45_P	214_L	0.534	0.64
24_C	222_Y	0.533	0.64
121_L	153_V	0.532	0.64
10_P	45_P	0.531	0.64
69_K	205_I	0.529	0.64
48_F	52_R	0.529	0.64
111_I	209_D	0.523	0.63
210_S	214_L	0.523	0.63
104_V	136_L	0.523	0.63
96_L	99_P	0.521	0.62
204_E	207_I	0.521	0.62
82_C	125_P	0.520	0.62
13_T	16_F	0.520	0.62
118_A	143_V	0.516	0.62
59_M	88_Y	0.514	0.61
38_H	44_C	0.514	0.61
96_L	100_M	0.513	0.61
164_N	167_Q	0.512	0.61
37_P	219_V	0.512	0.61
95_A	100_M	0.509	0.61
107_T	110_E	0.505	0.60
48_F	51_D	0.505	0.60
45_P	49_Y	0.504	0.60
48_F	58_E	0.504	0.60
67_A	100_M	0.501	0.59
72_K	138_G	0.501	0.59
50_A	157_I	0.500	0.59
124_E	150_Q	0.500	0.59

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
1jflA	2	0.9736	100	0.304	Contact Map
3s81A	2	0.9824	100	0.331	Contact Map
2zskA	2	0.9692	100	0.333	Contact Map
3ojcA	4	0.9692	100	0.342	Contact Map
4ix1A	2	0.8634	100	0.491	Contact Map
2jfnA	1	0.9339	100	0.507	Contact Map
2dgdA	4	0.8987	100	0.515	Contact Map
3outA	5	0.9207	100	0.523	Contact Map
2gzmA	3	0.9251	100	0.529	Contact Map
3uhfA	1	0.9031	100	0.533	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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