RPIA - HALSA - GREMLIN Contacts

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RPIA - Ribose-5-phosphate isomerase A

UniProt:	Q9HN33	Sequences: MKQAGGSAEQKRRAGEAAVAEEVTEGAVVGLGTGSTVAHAIRALGAEASDVSGVATSFESRRRAVDAGVTVTSLEAASVDVAIDGADQVADGVLVKGGGAAHTREKYVAASADRFVVVADPSKESDVVDVPVPVAVVPDAWPVVVDRVEALGGTATLRDAERKDGPVVTDTGSLVVDCDFGAIETPEAVAASLSAVPGVVEHGLFVGMADAVYVGTDDGVRVRDP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	225 (212)
Sequences:	2434 (1440)
Seq/√Len:	98.9

ECOLI - RPIA
HALSA - RPIA
SULSO - Q97ZD9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
100_A	167_V	4.728	1.00
17_A	21_E	3.859	1.00
82_A	112_A	3.293	1.00
78_S	113_D	3.276	1.00
43_A	46_A	3.087	1.00
190_A	202_H	3.012	1.00
145_V	176_V	2.819	1.00
119_A	214_V	2.782	1.00
185_T	188_A	2.749	1.00
28_V	79_V	2.682	1.00
16_E	43_A	2.470	1.00
40_A	83_I	2.401	1.00
88_Q	129_D	2.348	1.00
55_A	61_R	2.283	1.00
42_R	63_R	2.265	1.00
89_V	94_L	2.252	1.00
194_S	202_H	2.238	1.00
89_V	212_V	2.217	1.00
89_V	119_A	2.119	1.00
41_I	60_S	2.106	1.00
148_V	193_L	2.090	1.00
93_V	212_V	2.086	1.00
53_G	69_V	1.974	1.00
33_T	101_A	1.948	1.00
61_R	65_V	1.942	1.00
29_V	81_V	1.928	1.00
56_T	108_V	1.914	1.00
114_R	211_A	1.838	1.00
12_R	16_E	1.831	1.00
14_A	213_Y	1.816	1.00
58_F	61_R	1.809	1.00
31_L	64_A	1.806	1.00
10_Q	121_P	1.805	1.00
98_G	130_V	1.796	1.00
8_A	39_H	1.780	1.00
153_G	178_C	1.764	1.00
147_R	150_A	1.668	1.00
191_A	195_A	1.663	1.00
216_T	221_R	1.638	1.00
91_D	126_D	1.635	1.00
94_L	117_V	1.631	1.00
137_V	200_V	1.625	1.00
188_A	192_S	1.605	1.00
83_I	118_V	1.521	1.00
40_A	118_V	1.506	1.00
25_E	50_D	1.500	1.00
157_L	166_P	1.481	1.00
103_T	137_V	1.453	1.00
124_E	214_V	1.434	1.00
104_R	171_T	1.420	1.00
16_E	46_A	1.419	1.00
10_Q	217_D	1.378	0.99
24_T	27_A	1.365	0.99
80_D	113_D	1.363	0.99
136_V	176_V	1.349	0.99
82_A	115_F	1.345	0.99
134_V	178_C	1.323	0.99
22_E	116_V	1.305	0.99
52_S	72_T	1.301	0.99
37_V	40_A	1.300	0.99
12_R	39_H	1.290	0.99
143_V	197_P	1.275	0.99
151_L	192_S	1.269	0.99
19_V	40_A	1.259	0.99
121_P	216_T	1.249	0.99
9_E	12_R	1.236	0.99
160_A	163_K	1.226	0.99
190_A	194_S	1.219	0.99
19_V	43_A	1.210	0.99
194_S	197_P	1.198	0.98
74_L	111_S	1.194	0.98
153_G	180_F	1.192	0.98
100_A	175_V	1.185	0.98
37_V	55_A	1.184	0.98
62_R	66_D	1.183	0.98
145_V	149_E	1.180	0.98
38_A	59_E	1.174	0.98
110_A	197_P	1.171	0.98
187_E	207_G	1.170	0.98
40_A	44_L	1.161	0.98
119_A	212_V	1.153	0.98
89_V	214_V	1.147	0.98
213_Y	220_V	1.143	0.98
45_G	67_A	1.122	0.98
143_V	147_R	1.114	0.98
86_A	119_A	1.107	0.97
89_V	124_E	1.103	0.97
121_P	217_D	1.101	0.97
121_P	124_E	1.099	0.97
33_T	56_T	1.087	0.97
149_E	154_T	1.085	0.97
88_Q	125_S	1.077	0.97
58_F	62_R	1.071	0.97
193_L	199_V	1.071	0.97
54_V	79_V	1.066	0.97
82_A	109_A	1.056	0.97
27_A	81_V	1.047	0.96
141_W	145_V	1.046	0.96
25_E	49_S	1.042	0.96
29_V	51_V	1.035	0.96
155_A	176_V	1.035	0.96
15_G	19_V	1.035	0.96
216_T	220_V	1.024	0.96
64_A	71_V	1.021	0.96
183_I	186_P	1.017	0.96
215_G	220_V	1.015	0.96
102_H	134_V	1.010	0.96
102_H	175_V	1.009	0.96
38_A	42_R	0.997	0.95
115_F	208_M	0.995	0.95
39_H	42_R	0.988	0.95
25_E	48_A	0.988	0.95
56_T	82_A	0.972	0.95
183_I	189_V	0.972	0.95
114_R	210_D	0.970	0.94
22_E	211_A	0.964	0.94
38_A	63_R	0.957	0.94
22_E	81_V	0.946	0.94
112_A	115_F	0.946	0.94
127_V	184_E	0.939	0.93
22_E	213_Y	0.934	0.93
157_L	174_L	0.934	0.93
144_V	196_V	0.932	0.93
168_V	172_G	0.922	0.93
73_S	76_A	0.917	0.93
145_V	155_A	0.916	0.93
10_Q	215_G	0.905	0.92
90_A	93_V	0.905	0.92
141_W	157_L	0.905	0.92
26_G	50_D	0.898	0.92
15_G	39_H	0.877	0.91
141_W	176_V	0.867	0.90
127_V	182_A	0.866	0.90
10_Q	220_V	0.859	0.90
77_A	146_D	0.858	0.90
41_I	63_R	0.856	0.90
31_L	60_S	0.853	0.90
160_A	165_G	0.850	0.90
110_A	147_R	0.848	0.89
17_A	213_Y	0.844	0.89
39_H	43_A	0.831	0.88
82_A	108_V	0.824	0.88
167_V	175_V	0.824	0.88
22_E	114_R	0.824	0.88
10_Q	216_T	0.823	0.88
168_V	174_L	0.822	0.88
62_R	65_V	0.819	0.88
12_R	42_R	0.817	0.88
131_P	179_D	0.814	0.87
42_R	67_A	0.813	0.87
63_R	67_A	0.811	0.87
132_V	204_L	0.806	0.87
8_A	12_R	0.805	0.87
136_V	144_V	0.804	0.87
104_R	139_D	0.800	0.86
88_Q	130_V	0.799	0.86
27_A	80_D	0.795	0.86
23_V	81_V	0.787	0.86
146_D	149_E	0.786	0.85
77_A	111_S	0.786	0.85
193_L	202_H	0.780	0.85
188_A	191_A	0.779	0.85
159_D	166_P	0.778	0.85
154_T	179_D	0.778	0.85
97_G	203_G	0.775	0.85
103_T	169_T	0.767	0.84
141_W	174_L	0.767	0.84
111_S	143_V	0.761	0.84
63_R	66_D	0.759	0.83
13_R	215_G	0.759	0.83
134_V	193_L	0.755	0.83
94_L	209_A	0.750	0.83
72_T	76_A	0.750	0.83
33_T	37_V	0.749	0.83
11_K	35_S	0.747	0.82
52_S	70_T	0.746	0.82
137_V	171_T	0.741	0.82
134_V	199_V	0.740	0.82
14_A	118_V	0.738	0.82
54_V	74_L	0.737	0.82
146_D	150_A	0.735	0.81
37_V	41_I	0.733	0.81
155_A	178_C	0.733	0.81
24_T	114_R	0.729	0.81
33_T	39_H	0.729	0.81
160_A	164_D	0.728	0.81
45_G	69_V	0.727	0.81
148_V	153_G	0.724	0.80
124_E	221_R	0.721	0.80
59_E	62_R	0.718	0.80
42_R	66_D	0.717	0.80
103_T	200_V	0.717	0.80
22_E	222_V	0.716	0.80
15_G	43_A	0.711	0.79
93_V	214_V	0.707	0.79
51_V	70_T	0.707	0.79
213_Y	222_V	0.705	0.79
218_D	221_R	0.704	0.79
216_T	219_G	0.703	0.79
148_V	199_V	0.703	0.79
119_A	124_E	0.702	0.78
97_G	133_P	0.697	0.78
169_T	175_V	0.696	0.78
11_K	36_T	0.695	0.78
183_I	204_L	0.690	0.77
189_V	204_L	0.689	0.77
23_V	47_E	0.687	0.77
133_P	203_G	0.683	0.76
75_E	141_W	0.679	0.76
156_T	179_D	0.678	0.76
10_Q	13_R	0.672	0.75
55_A	73_S	0.670	0.75
187_E	191_A	0.667	0.75
186_P	189_V	0.664	0.74
132_V	181_G	0.663	0.74
23_V	26_G	0.655	0.73
125_S	129_D	0.654	0.73
17_A	222_V	0.653	0.73
134_V	148_V	0.653	0.73
139_D	144_V	0.648	0.73
53_G	70_T	0.646	0.72
163_K	167_V	0.645	0.72
202_H	206_V	0.641	0.72
145_V	157_L	0.638	0.72
10_Q	219_G	0.638	0.72
24_T	191_A	0.637	0.71
140_A	144_V	0.631	0.71
194_S	201_E	0.625	0.70
74_L	143_V	0.624	0.70
45_G	48_A	0.622	0.70
61_R	71_V	0.618	0.69
24_T	80_D	0.617	0.69
152_G	155_A	0.616	0.69
88_Q	128_V	0.615	0.69
55_A	58_F	0.613	0.68
93_V	209_A	0.608	0.68
31_L	38_A	0.608	0.68
58_F	104_R	0.608	0.68
136_V	145_V	0.607	0.68
74_L	108_V	0.606	0.68
13_R	16_E	0.606	0.68
52_S	55_A	0.603	0.67
142_P	145_V	0.602	0.67
95_V	101_A	0.600	0.67
92_G	187_E	0.600	0.67
10_Q	14_A	0.599	0.67
14_A	215_G	0.596	0.66
51_V	69_V	0.593	0.66
140_A	143_V	0.586	0.65
138_P	174_L	0.585	0.65
151_L	193_L	0.583	0.65
55_A	71_V	0.582	0.65
103_T	201_E	0.581	0.64
148_V	176_V	0.581	0.64
104_R	170_D	0.579	0.64
23_V	51_V	0.577	0.64
101_A	203_G	0.573	0.63
33_T	203_G	0.571	0.63
91_D	124_E	0.571	0.63
37_V	61_R	0.564	0.62
33_T	175_V	0.562	0.62
72_T	77_A	0.561	0.62
14_A	39_H	0.561	0.62
86_A	117_V	0.560	0.62
97_G	101_A	0.558	0.61
26_G	29_V	0.558	0.61
41_I	67_A	0.557	0.61
134_V	176_V	0.555	0.61
10_Q	89_V	0.553	0.61
126_D	182_A	0.551	0.60
19_V	46_A	0.551	0.60
14_A	37_V	0.551	0.60
31_L	37_V	0.550	0.60
19_V	22_E	0.549	0.60
95_V	100_A	0.547	0.60
37_V	45_G	0.547	0.60
107_Y	197_P	0.546	0.60
217_D	220_V	0.545	0.59
42_R	46_A	0.543	0.59
144_V	176_V	0.543	0.59
54_V	72_T	0.542	0.59
58_F	174_L	0.537	0.58
37_V	59_E	0.535	0.58
12_R	43_A	0.534	0.58
96_K	99_G	0.532	0.58
95_V	132_V	0.529	0.57
26_G	51_V	0.529	0.57
127_V	183_I	0.529	0.57
150_A	182_A	0.528	0.57
40_A	60_S	0.527	0.57
25_E	156_T	0.526	0.57
90_A	186_P	0.526	0.57
18_A	109_A	0.526	0.57
173_S	200_V	0.525	0.57
29_V	43_A	0.525	0.57
47_E	50_D	0.524	0.57
64_A	139_D	0.519	0.56
190_A	206_V	0.518	0.56
151_L	180_F	0.518	0.56
109_A	208_M	0.516	0.55
91_D	127_V	0.515	0.55
159_D	164_D	0.515	0.55
132_V	183_I	0.513	0.55
45_G	64_A	0.511	0.55
35_S	164_D	0.510	0.55
86_A	203_G	0.509	0.54
19_V	47_E	0.508	0.54
31_L	71_V	0.507	0.54
135_A	173_S	0.507	0.54
138_P	168_V	0.505	0.54
84_D	105_E	0.504	0.54
33_T	97_G	0.503	0.54
94_L	119_A	0.503	0.54
147_R	196_V	0.503	0.54
60_S	63_R	0.503	0.54
55_A	60_S	0.502	0.53
141_W	155_A	0.501	0.53
16_E	39_H	0.500	0.53

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
2f8mA	2	0.9778	100	0.227	Contact Map
1xtzA	3	0.9644	100	0.231	Contact Map
1uj6A	2	0.9689	100	0.242	Contact Map
1lk5A	4	0.9778	100	0.244	Contact Map
3hheA	2	0.9644	100	0.251	Contact Map
4x84A	2	0.9689	100	0.253	Contact Map
4nmlA	2	0.9733	100	0.258	Contact Map
3uw1A	2	0.9822	100	0.259	Contact Map
3l7oA	2	0.9556	100	0.264	Contact Map
4gmkA	2	0.9733	100	0.267	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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