PDRP - BACSU - GREMLIN Contacts

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PDRP - Putative pyruvate, phosphate dikinase regulatory protein

UniProt:	P54470	Sequences: MNNRIIYVVSDSVGETAELVVKAALSQFNGSADDTHVRRIPYVEDIGTINEVISLAKADGGIICFTLVVPEIREYLIAEAEKANVLYYDIIGPLIDKMETAYGLTAKYEPGRVRQLDEDYFKKVEAIEFAVKYDDGRDPRGILKADIVLIGVSRTSKTPLSQYLAHKRLKVANVPIVPEVDPPEELFNVDPKKCIGLKISPDKLNHIRKERLKSLGLNDKAIYANINRIKEELEYFEKIVDRIGCQVVDVSNKAVEETANIIHHLKTKNI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	270 (250)
Sequences:	1470 (922)
Seq/√Len:	58.3

ECOLI - PSRP
BACSU - PDRP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
161_S	171_V	5.585	1.00
147_I	169_L	4.635	1.00
99_E	106_A	3.981	1.00
50_N	75_Y	3.934	1.00
205_N	229_I	3.246	1.00
46_I	71_E	3.243	1.00
147_I	266_K	2.840	1.00
40_I	52_V	2.713	1.00
237_E	241_D	2.648	1.00
65_F	87_Y	2.612	1.00
142_I	174_V	2.591	1.00
179_E	228_R	2.485	1.00
60_G	101_A	2.461	1.00
73_R	92_G	2.454	1.00
133_Y	141_G	2.405	1.00
57_K	83_A	2.397	1.00
145_A	172_A	2.394	1.00
8_V	21_V	2.380	1.00
169_L	263_H	2.353	1.00
184_E	188_N	2.339	1.00
236_F	240_V	2.321	1.00
199_I	204_L	2.167	1.00
44_E	48_T	2.155	1.00
246_Q	265_L	2.155	1.00
199_I	251_S	2.132	1.00
130_A	133_Y	2.097	1.00
49_I	72_I	1.973	1.00
53_I	85_V	1.970	1.00
198_K	237_E	1.911	1.00
124_V	255_V	1.888	1.00
176_I	236_F	1.882	1.00
99_E	105_T	1.858	1.00
98_M	102_Y	1.808	0.99
210_E	213_K	1.785	0.99
187_F	242_R	1.719	0.99
5_I	38_R	1.691	0.99
21_V	64_C	1.689	0.99
46_I	75_Y	1.687	0.99
64_C	94_L	1.654	0.99
230_K	234_E	1.653	0.99
67_L	72_I	1.648	0.99
9_V	76_L	1.621	0.99
56_A	61_G	1.620	0.99
161_S	169_L	1.619	0.99
148_V	189_V	1.604	0.99
196_G	240_V	1.598	0.99
127_I	255_V	1.595	0.99
150_I	174_V	1.589	0.99
7_Y	40_I	1.576	0.98
178_P	228_R	1.570	0.98
166_H	255_V	1.544	0.98
22_K	37_V	1.542	0.98
16_T	111_G	1.500	0.98
201_P	233_L	1.469	0.98
149_L	162_Q	1.462	0.98
138_D	141_G	1.454	0.97
24_A	98_M	1.452	0.97
230_K	241_D	1.445	0.97
86_L	100_T	1.443	0.97
62_I	98_M	1.439	0.97
11_D	16_T	1.437	0.97
155_T	250_V	1.406	0.97
9_V	52_V	1.393	0.97
125_E	128_E	1.386	0.97
240_V	247_V	1.384	0.97
261_I	264_H	1.366	0.96
57_K	84_N	1.362	0.96
133_Y	138_D	1.362	0.96
97_K	101_A	1.357	0.96
8_V	22_K	1.356	0.96
29_N	107_K	1.354	0.96
152_V	204_L	1.347	0.96
46_I	72_I	1.344	0.96
89_D	92_G	1.317	0.95
152_V	236_F	1.303	0.95
53_I	75_Y	1.297	0.95
129_F	132_K	1.293	0.95
144_K	170_K	1.284	0.95
8_V	37_V	1.280	0.95
62_I	101_A	1.261	0.94
227_N	231_E	1.255	0.94
66_T	114_R	1.229	0.93
206_H	252_N	1.223	0.93
54_S	58_A	1.222	0.93
179_E	243_I	1.214	0.93
49_I	76_L	1.204	0.93
30_G	104_L	1.199	0.92
27_Q	68_V	1.197	0.92
8_V	17_A	1.195	0.92
201_P	226_I	1.191	0.92
68_V	111_G	1.179	0.92
143_L	188_N	1.176	0.92
127_I	166_H	1.174	0.92
151_G	155_T	1.169	0.91
49_I	75_Y	1.162	0.91
150_I	194_C	1.151	0.91
25_L	98_M	1.140	0.90
133_Y	163_Y	1.139	0.90
69_V	123_K	1.136	0.90
65_F	76_L	1.136	0.90
226_I	230_K	1.114	0.89
52_V	234_E	1.104	0.89
200_S	251_S	1.099	0.89
221_A	224_A	1.091	0.88
199_I	207_I	1.090	0.88
195_I	265_L	1.090	0.88
133_Y	137_R	1.074	0.88
230_K	237_E	1.058	0.87
65_F	224_A	1.051	0.86
70_P	108_Y	1.050	0.86
130_A	142_I	1.050	0.86
186_L	194_C	1.046	0.86
28_F	95_I	1.036	0.86
146_D	170_K	1.033	0.85
9_V	43_V	1.032	0.85
10_S	16_T	1.025	0.85
81_E	87_Y	1.023	0.85
16_T	68_V	1.017	0.85
190_D	193_K	1.016	0.85
150_I	186_L	1.011	0.84
38_R	114_R	1.011	0.84
25_L	123_K	1.007	0.84
120_Y	124_V	0.999	0.84
14_G	27_Q	0.994	0.83
176_I	240_V	0.992	0.83
38_R	55_L	0.984	0.83
7_Y	56_A	0.983	0.83
129_F	138_D	0.977	0.82
99_E	103_G	0.972	0.82
45_D	48_T	0.968	0.82
254_A	257_E	0.964	0.81
49_I	67_L	0.963	0.81
152_V	240_V	0.958	0.81
162_Q	236_F	0.946	0.80
132_K	138_D	0.943	0.80
182_P	186_L	0.926	0.79
85_V	229_I	0.925	0.78
127_I	179_E	0.922	0.78
28_F	99_E	0.918	0.78
12_S	16_T	0.915	0.78
14_G	111_G	0.914	0.78
144_K	262_I	0.912	0.78
31_S	35_T	0.910	0.77
250_V	258_T	0.907	0.77
56_A	85_V	0.904	0.77
96_D	100_T	0.900	0.77
70_P	74_E	0.886	0.75
25_L	148_V	0.883	0.75
7_Y	59_D	0.876	0.75
64_C	88_Y	0.873	0.74
150_I	170_K	0.872	0.74
85_V	92_G	0.872	0.74
20_V	90_I	0.872	0.74
43_V	104_L	0.869	0.74
69_V	72_I	0.867	0.74
162_Q	165_A	0.866	0.74
130_A	171_V	0.865	0.74
95_I	99_E	0.864	0.74
55_L	97_K	0.859	0.73
235_Y	239_I	0.856	0.73
147_I	171_V	0.855	0.73
129_F	133_Y	0.852	0.73
194_C	243_I	0.851	0.72
129_F	249_D	0.849	0.72
181_D	184_E	0.848	0.72
86_L	101_A	0.843	0.72
46_I	262_I	0.838	0.71
9_V	53_I	0.836	0.71
138_D	142_I	0.836	0.71
171_V	251_S	0.835	0.71
135_D	175_P	0.833	0.71
130_A	137_R	0.832	0.71
221_A	225_N	0.831	0.71
109_E	112_R	0.831	0.71
253_K	258_T	0.827	0.70
64_C	90_I	0.817	0.69
129_F	168_R	0.816	0.69
122_K	234_E	0.809	0.69
60_G	105_T	0.809	0.69
150_I	240_V	0.807	0.68
61_G	85_V	0.802	0.68
29_N	161_S	0.801	0.68
225_N	237_E	0.797	0.67
201_P	230_K	0.796	0.67
40_I	43_V	0.796	0.67
136_G	175_P	0.792	0.67
90_I	94_L	0.787	0.66
9_V	85_V	0.787	0.66
150_I	245_C	0.784	0.66
176_I	209_K	0.776	0.65
7_Y	61_G	0.775	0.65
12_S	161_S	0.770	0.65
27_Q	259_A	0.768	0.65
51_E	74_E	0.767	0.64
253_K	261_I	0.767	0.64
142_I	182_P	0.766	0.64
12_S	15_E	0.762	0.64
18_E	210_E	0.760	0.64
152_V	199_I	0.759	0.64
65_F	90_I	0.757	0.63
224_A	240_V	0.756	0.63
140_R	144_K	0.751	0.63
123_K	246_Q	0.749	0.63
88_Y	97_K	0.749	0.63
53_I	63_I	0.745	0.62
71_E	75_Y	0.736	0.61
97_K	100_T	0.734	0.61
67_L	151_G	0.733	0.61
203_K	251_S	0.731	0.61
74_E	104_L	0.727	0.60
81_E	227_N	0.727	0.60
204_L	255_V	0.725	0.60
127_I	233_L	0.719	0.59
254_A	258_T	0.719	0.59
115_Q	149_L	0.716	0.59
84_N	122_K	0.716	0.59
212_L	221_A	0.714	0.59
150_I	176_I	0.709	0.58
168_R	203_K	0.706	0.58
5_I	36_H	0.705	0.58
155_T	259_A	0.704	0.58
54_S	84_N	0.703	0.58
212_L	224_A	0.702	0.58
43_V	60_G	0.702	0.58
129_F	139_P	0.699	0.57
6_I	255_V	0.695	0.57
161_S	177_V	0.693	0.57
53_I	83_A	0.692	0.57
23_A	91_I	0.692	0.57
111_G	255_V	0.689	0.56
40_I	98_M	0.687	0.56
155_T	207_I	0.686	0.56
225_N	228_R	0.684	0.56
193_K	239_I	0.683	0.56
131_V	160_L	0.682	0.55
6_I	249_D	0.682	0.55
143_L	190_D	0.680	0.55
45_D	255_V	0.679	0.55
26_S	113_V	0.677	0.55
210_E	240_V	0.675	0.55
150_I	187_F	0.673	0.54
7_Y	38_R	0.662	0.53
88_Y	163_Y	0.662	0.53
99_E	102_Y	0.661	0.53
187_F	239_I	0.660	0.53
90_I	96_D	0.654	0.52
110_P	204_L	0.653	0.52
50_N	54_S	0.651	0.52
26_S	112_R	0.650	0.52
20_V	23_A	0.650	0.52
39_R	160_L	0.649	0.52
137_R	156_S	0.647	0.52
203_K	206_H	0.647	0.52
162_Q	258_T	0.646	0.51
20_V	92_G	0.642	0.51
162_Q	240_V	0.639	0.51
86_L	97_K	0.636	0.50
22_K	150_I	0.635	0.50
140_R	169_L	0.634	0.50
45_D	124_V	0.631	0.50
46_I	49_I	0.627	0.49
200_S	233_L	0.626	0.49
128_E	141_G	0.625	0.49
29_N	112_R	0.624	0.49
128_E	233_L	0.620	0.49
39_R	247_V	0.618	0.48
142_I	172_A	0.618	0.48
89_D	131_V	0.618	0.48
73_R	207_I	0.616	0.48
48_T	144_K	0.615	0.48
95_I	193_K	0.613	0.48
111_G	114_R	0.613	0.48
156_S	229_I	0.611	0.48
42_Y	260_N	0.607	0.47
20_V	204_L	0.606	0.47
102_Y	176_I	0.605	0.47
40_I	55_L	0.604	0.47
47_G	50_N	0.604	0.47
69_V	74_E	0.603	0.47
138_D	177_V	0.602	0.47
45_D	57_K	0.601	0.46
42_Y	106_A	0.596	0.46
15_E	229_I	0.593	0.46
37_V	147_I	0.593	0.46
162_Q	260_N	0.593	0.46
180_V	221_A	0.591	0.45
107_K	114_R	0.589	0.45
139_P	189_V	0.589	0.45
66_T	170_K	0.588	0.45
88_Y	91_I	0.587	0.45
209_K	220_K	0.587	0.45
188_N	192_K	0.586	0.45
131_V	148_V	0.586	0.45
237_E	249_D	0.585	0.45
119_D	170_K	0.583	0.45
16_T	66_T	0.582	0.44
13_V	133_Y	0.580	0.44
118_E	201_P	0.579	0.44
168_R	198_K	0.579	0.44
27_Q	111_G	0.578	0.44
59_D	104_L	0.578	0.44
109_E	115_Q	0.576	0.44
136_G	257_E	0.574	0.44
42_Y	179_E	0.574	0.44
148_V	172_A	0.574	0.44
83_A	237_E	0.574	0.44
11_D	23_A	0.573	0.43
27_Q	117_D	0.573	0.43
130_A	191_P	0.572	0.43
6_I	35_T	0.569	0.43
56_A	180_V	0.568	0.43
129_F	143_L	0.566	0.43
16_T	114_R	0.565	0.43
62_I	75_Y	0.563	0.42
17_A	66_T	0.563	0.42
153_S	223_Y	0.562	0.42
183_P	259_A	0.562	0.42
54_S	74_E	0.560	0.42
51_E	188_N	0.558	0.42
90_I	108_Y	0.551	0.41
209_K	227_N	0.550	0.41
54_S	57_K	0.550	0.41
54_S	231_E	0.549	0.41
65_F	73_R	0.546	0.41
117_D	156_S	0.545	0.40
107_K	263_H	0.544	0.40
186_L	266_K	0.544	0.40
199_I	250_V	0.543	0.40
162_Q	228_R	0.542	0.40
197_L	262_I	0.542	0.40
116_L	194_C	0.540	0.40
31_S	88_Y	0.539	0.40
152_V	155_T	0.537	0.40
81_E	192_K	0.536	0.39
20_V	93_P	0.536	0.39
15_E	167_K	0.534	0.39
240_V	245_C	0.534	0.39
210_E	245_C	0.533	0.39
130_A	184_E	0.532	0.39
16_T	120_Y	0.532	0.39
73_R	76_L	0.532	0.39
13_V	102_Y	0.531	0.39
200_S	249_D	0.531	0.39
63_I	83_A	0.530	0.39
185_E	188_N	0.529	0.39
76_L	171_V	0.527	0.38
189_V	194_C	0.521	0.38
143_L	189_V	0.520	0.38
15_E	26_S	0.519	0.38
150_I	255_V	0.518	0.38
48_T	198_K	0.517	0.37
145_A	226_I	0.517	0.37
17_A	123_K	0.516	0.37
114_R	230_K	0.515	0.37
52_V	61_G	0.514	0.37
91_I	131_V	0.514	0.37
64_C	251_S	0.513	0.37
118_E	122_K	0.513	0.37
240_V	243_I	0.513	0.37
200_S	203_K	0.513	0.37
125_E	170_K	0.513	0.37
142_I	261_I	0.512	0.37
107_K	266_K	0.511	0.37
58_A	184_E	0.510	0.37
227_N	230_K	0.509	0.37
26_S	261_I	0.508	0.37
52_V	57_K	0.507	0.36
53_I	57_K	0.506	0.36
222_I	228_R	0.506	0.36
119_D	249_D	0.505	0.36
22_K	259_A	0.504	0.36
129_F	142_I	0.504	0.36
105_T	263_H	0.504	0.36
231_E	235_Y	0.503	0.36
105_T	122_K	0.500	0.36

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
1ckeA	1	0.4444	97.3	0.928	Contact Map
1khtA	5	0.463	96.9	0.932	Contact Map
4cvnA	1	0.4481	96.9	0.932	Contact Map
2h92A	1	0.4444	96.8	0.933	Contact Map
4e22A	1	0.4407	96.8	0.933	Contact Map
1viaA	2	0.4556	96.7	0.934	Contact Map
3t61A	2	0.4481	96.6	0.934	Contact Map
2iyvA	1	0.4593	96.6	0.934	Contact Map
1e6cA	1	0.4593	96.5	0.935	Contact Map
1akyA	1	0.4593	96.5	0.935	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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