RAPK - BACSU - GREMLIN Contacts

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RAPK - Response regulator aspartate phosphatase K

UniProt:	O34930	Sequences: MSKIASEVVATTLNDWYIAIKKQKVDESIKYYSEIKKLFDEMEEDQEVLAYYSLLEERHKMLLHSSRGEPLQKHTYFTEDNQNFITKTNDKLEYNFYLFEAMYEAYNKNYDRAINLYGLAEKKLAEIPDEIEAAEFYSKVSYLYTLVKQSIVAQHYIKNAISIYKRHPDYKCKLATSTMIAAANYADMKRFEEAEQYYLEAIDIAKETKDEFLKAQLFHNLSIVYSDWNKPDKCIESLEKAIGNESWLHSIYYINSLFMMIKELFKIDEKMKAINFYNKAQERLILMENKVYEAKISILYNLYCGELKNNFNNCISNIEFLKQQNELESVDELSYIAAKRFESIGAFEEATSFFNAKIWAEQKMNQVEGIL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	371 (313)
Sequences:	1531 (1382)
Seq/√Len:	78.1

ECOLI - LPSRP HEMY NLPI
BACSU - RAPK RAPH RAPG RAPF RAPA RAPI RAPB RAPJ RAPC RAPE RAPD YVCD YPIA
HALSA - Q9HMM8
SULSO - Q97V36 Q97WM3 Q97ZS3 Q97VC4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
269_E	272_K	4.980	1.00
222_S	238_L	4.592	1.00
190_R	193_E	4.583	1.00
230_K	233_K	4.368	1.00
182_A	198_Y	4.329	1.00
137_Y	156_Y	4.315	1.00
141_S	157_I	4.136	1.00
346_A	349_E	3.693	1.00
149_Q	152_V	3.318	1.00
101_A	117_Y	3.115	1.00
264_L	269_E	3.064	1.00
109_N	112_R	2.992	1.00
195_E	221_L	2.871	1.00
97_Y	116_L	2.694	1.00
178_T	197_Y	2.539	1.00
218_F	237_S	2.454	1.00
261_I	277_Y	2.403	1.00
181_A	185_Y	2.395	1.00
186_A	198_Y	2.385	1.00
260_M	264_L	2.378	1.00
235_I	263_E	2.373	1.00
314_C	317_N	2.369	1.00
218_F	240_K	2.324	1.00
342_E	355_N	2.299	1.00
264_L	272_K	2.218	1.00
235_I	267_I	2.212	1.00
225_Y	233_K	2.196	1.00
154_Q	181_A	2.182	1.00
100_E	104_E	2.128	1.00
260_M	276_F	2.118	1.00
238_L	259_M	2.055	1.00
338_A	354_F	2.031	1.00
104_E	112_R	2.031	1.00
144_Y	152_V	2.025	1.00
97_Y	119_L	1.998	1.00
341_F	346_A	1.996	1.00
137_Y	159_N	1.953	1.00
157_I	180_I	1.944	1.00
195_E	228_W	1.938	1.00
334_S	353_F	1.895	1.00
257_L	276_F	1.871	1.00
349_E	352_S	1.851	1.00
215_A	241_A	1.840	1.00
337_A	341_F	1.828	1.00
333_L	337_A	1.791	1.00
232_D	267_I	1.785	1.00
334_S	356_A	1.769	1.00
231_P	263_E	1.765	1.00
198_Y	220_N	1.707	1.00
222_S	234_C	1.703	1.00
272_K	275_N	1.700	1.00
235_I	239_E	1.680	1.00
239_E	260_M	1.644	1.00
140_V	144_Y	1.636	1.00
223_I	238_L	1.621	1.00
195_E	225_Y	1.605	1.00
235_I	264_L	1.582	1.00
104_E	109_N	1.579	1.00
134_A	160_A	1.572	0.99
101_A	120_A	1.572	0.99
219_H	259_M	1.571	0.99
46_Q	49_L	1.569	0.99
59_H	63_L	1.512	0.99
322_K	356_A	1.499	0.99
79_E	83_N	1.474	0.99
182_A	201_A	1.466	0.99
56_E	60_K	1.453	0.99
185_Y	193_E	1.447	0.99
239_E	272_K	1.441	0.99
178_T	200_E	1.439	0.99
158_K	181_A	1.411	0.99
195_E	199_L	1.399	0.99
179_M	220_N	1.397	0.99
206_K	214_K	1.396	0.99
233_K	236_E	1.396	0.99
154_Q	184_N	1.383	0.99
71_L	74_H	1.366	0.99
242_I	260_M	1.357	0.98
310_N	314_C	1.343	0.98
101_A	116_L	1.337	0.98
242_I	257_L	1.333	0.98
182_A	197_Y	1.330	0.98
114_I	144_Y	1.325	0.98
138_S	180_I	1.314	0.98
94_Y	120_A	1.312	0.98
265_F	277_Y	1.304	0.98
225_Y	230_K	1.302	0.98
101_A	105_A	1.294	0.98
93_E	97_Y	1.282	0.98
38_L	42_M	1.273	0.98
182_A	224_V	1.269	0.98
296_I	299_L	1.269	0.98
105_A	117_Y	1.255	0.97
341_F	349_E	1.251	0.97
157_I	177_S	1.250	0.97
141_S	160_A	1.247	0.97
195_E	224_V	1.244	0.97
202_I	214_K	1.227	0.97
310_N	317_N	1.226	0.97
254_I	261_I	1.226	0.97
37_K	40_D	1.224	0.97
261_I	280_A	1.220	0.97
102_M	117_Y	1.217	0.97
222_S	237_S	1.216	0.97
310_N	313_N	1.215	0.97
138_S	177_S	1.211	0.97
112_R	115_N	1.211	0.97
263_E	267_I	1.201	0.97
36_K	39_F	1.192	0.97
179_M	217_L	1.155	0.96
37_K	43_E	1.152	0.96
175_A	205_A	1.150	0.96
223_I	259_M	1.140	0.96
159_N	162_S	1.123	0.95
161_I	178_T	1.122	0.95
178_T	204_I	1.121	0.95
49_L	52_Y	1.118	0.95
154_Q	188_M	1.108	0.95
52_Y	59_H	1.108	0.95
47_E	50_A	1.106	0.95
221_L	260_M	1.097	0.95
183_A	220_N	1.096	0.94
351_T	355_N	1.090	0.94
199_L	237_S	1.076	0.94
117_Y	139_K	1.070	0.94
183_A	198_Y	1.056	0.93
350_A	358_I	1.055	0.93
177_S	180_I	1.046	0.93
186_A	224_V	1.045	0.93
119_L	122_K	1.043	0.93
98_L	139_K	1.034	0.93
342_E	354_F	1.026	0.92
218_F	241_A	1.022	0.92
318_I	321_L	1.020	0.92
242_I	256_S	1.018	0.92
221_L	225_Y	1.016	0.92
199_L	221_L	1.012	0.92
194_A	224_V	1.012	0.92
154_Q	185_Y	1.012	0.92
77_F	81_N	1.004	0.91
235_I	260_M	1.001	0.91
166_R	169_D	0.999	0.91
314_C	319_E	0.998	0.91
165_K	169_D	0.998	0.91
264_L	276_F	0.995	0.91
51_Y	54_L	0.994	0.91
138_S	198_Y	0.991	0.91
205_A	214_K	0.990	0.91
45_D	51_Y	0.979	0.90
259_M	262_K	0.978	0.90
114_I	118_G	0.977	0.90
143_L	147_V	0.973	0.90
53_S	56_E	0.970	0.90
55_L	60_K	0.967	0.90
98_L	143_L	0.965	0.90
327_L	330_V	0.964	0.90
300_Y	305_G	0.960	0.90
316_S	319_E	0.958	0.89
184_N	188_M	0.958	0.89
315_I	319_E	0.948	0.89
153_A	184_N	0.947	0.89
139_K	142_Y	0.947	0.89
275_N	279_K	0.943	0.89
114_I	149_Q	0.939	0.88
136_F	139_K	0.936	0.88
47_E	53_S	0.923	0.88
318_I	329_S	0.918	0.87
349_E	353_F	0.918	0.87
137_Y	160_A	0.914	0.87
300_Y	303_Y	0.905	0.87
214_K	218_F	0.897	0.86
49_L	53_S	0.889	0.86
36_K	41_E	0.875	0.85
37_K	41_E	0.875	0.85
257_L	279_K	0.873	0.85
124_L	160_A	0.870	0.84
280_A	296_I	0.868	0.84
145_T	184_N	0.867	0.84
104_E	116_L	0.863	0.84
339_K	354_F	0.863	0.84
36_K	42_M	0.863	0.84
140_V	156_Y	0.863	0.84
36_K	43_E	0.860	0.84
175_A	201_A	0.858	0.83
193_E	196_Q	0.855	0.83
117_Y	143_L	0.854	0.83
179_M	183_A	0.850	0.83
348_E	352_S	0.848	0.83
185_Y	190_R	0.848	0.83
40_D	43_E	0.844	0.82
104_E	141_S	0.843	0.82
303_Y	307_L	0.842	0.82
85_I	88_T	0.841	0.82
236_E	240_K	0.838	0.82
296_I	303_Y	0.837	0.82
284_L	288_E	0.836	0.82
114_I	143_L	0.836	0.82
186_A	189_K	0.833	0.82
226_S	231_P	0.832	0.82
89_N	119_L	0.832	0.82
36_K	40_D	0.830	0.81
338_A	357_K	0.829	0.81
106_Y	110_Y	0.825	0.81
52_Y	58_R	0.824	0.81
108_K	112_R	0.821	0.81
105_A	143_L	0.817	0.80
36_K	61_M	0.815	0.80
70_P	73_K	0.815	0.80
57_E	60_K	0.814	0.80
47_E	51_Y	0.814	0.80
48_V	52_Y	0.810	0.80
40_D	45_D	0.809	0.80
74_H	81_N	0.808	0.80
51_Y	62_L	0.807	0.80
222_S	259_M	0.807	0.80
336_I	339_K	0.807	0.80
300_Y	304_C	0.806	0.79
133_A	137_Y	0.805	0.79
287_M	290_K	0.805	0.79
195_E	198_Y	0.797	0.79
201_A	217_L	0.797	0.79
179_M	219_H	0.796	0.79
240_K	244_N	0.790	0.78
45_D	52_Y	0.789	0.78
120_A	139_K	0.787	0.78
241_A	245_E	0.786	0.78
144_Y	156_Y	0.783	0.77
97_Y	120_A	0.780	0.77
320_F	323_Q	0.780	0.77
221_L	237_S	0.779	0.77
114_I	147_V	0.777	0.77
61_M	65_S	0.777	0.77
173_K	176_T	0.773	0.77
258_F	277_Y	0.773	0.77
99_F	102_M	0.770	0.76
270_K	274_I	0.770	0.76
295_K	298_I	0.768	0.76
96_F	103_Y	0.764	0.76
38_L	43_E	0.762	0.76
51_Y	57_E	0.761	0.75
245_E	256_S	0.760	0.75
340_R	344_I	0.759	0.75
45_D	56_E	0.757	0.75
241_A	244_N	0.756	0.75
174_L	177_S	0.755	0.75
41_E	50_A	0.755	0.75
137_Y	144_Y	0.755	0.75
213_L	280_A	0.750	0.74
144_Y	280_A	0.742	0.74
35_I	38_L	0.741	0.74
74_H	80_D	0.738	0.73
297_S	302_L	0.738	0.73
121_E	136_F	0.736	0.73
231_P	238_L	0.736	0.73
118_G	140_V	0.735	0.73
112_R	126_E	0.735	0.73
279_K	283_R	0.735	0.73
100_E	116_L	0.729	0.72
344_I	352_S	0.728	0.72
150_S	184_N	0.728	0.72
59_H	65_S	0.727	0.72
42_M	46_Q	0.722	0.72
285_I	288_E	0.721	0.71
43_E	48_V	0.721	0.71
331_D	338_A	0.719	0.71
286_L	332_E	0.715	0.71
325_N	345_G	0.715	0.71
295_K	300_Y	0.715	0.71
131_I	167_H	0.714	0.71
161_I	174_L	0.713	0.71
72_Q	76_Y	0.712	0.71
77_F	85_I	0.711	0.70
226_S	255_N	0.711	0.70
118_G	156_Y	0.710	0.70
328_E	336_I	0.709	0.70
271_M	274_I	0.708	0.70
301_N	349_E	0.708	0.70
185_Y	197_Y	0.707	0.70
108_K	148_K	0.706	0.70
94_Y	124_L	0.703	0.70
41_E	45_D	0.700	0.69
342_E	353_F	0.699	0.69
299_L	303_Y	0.697	0.69
210_D	214_K	0.696	0.69
117_Y	121_E	0.694	0.69
240_K	289_N	0.693	0.68
242_I	253_Y	0.690	0.68
49_L	56_E	0.689	0.68
144_Y	149_Q	0.689	0.68
37_K	48_V	0.686	0.68
229_N	268_D	0.686	0.68
300_Y	306_E	0.684	0.67
54_L	58_R	0.682	0.67
42_M	52_Y	0.681	0.67
158_K	193_E	0.680	0.67
210_D	238_L	0.679	0.67
186_A	191_F	0.677	0.67
36_K	140_V	0.676	0.67
134_A	163_I	0.676	0.67
197_Y	201_A	0.671	0.66
310_N	321_L	0.670	0.66
295_K	329_S	0.669	0.66
245_E	253_Y	0.669	0.66
37_K	42_M	0.668	0.66
41_E	48_V	0.666	0.65
288_E	291_V	0.662	0.65
315_I	352_S	0.658	0.64
331_D	357_K	0.658	0.64
38_L	50_A	0.656	0.64
125_A	133_A	0.656	0.64
48_V	58_R	0.656	0.64
280_A	284_L	0.656	0.64
211_E	214_K	0.655	0.64
57_E	62_L	0.654	0.64
102_M	138_S	0.652	0.64
50_A	57_E	0.651	0.64
98_L	102_M	0.651	0.64
35_I	42_M	0.650	0.64
211_E	244_N	0.650	0.64
222_S	241_A	0.650	0.64
45_D	49_L	0.650	0.64
76_Y	79_E	0.649	0.63
95_N	99_F	0.648	0.63
348_E	355_N	0.646	0.63
205_A	217_L	0.645	0.63
243_G	288_E	0.644	0.63
181_A	254_I	0.642	0.63
174_L	178_T	0.641	0.62
346_A	356_A	0.640	0.62
196_Q	235_I	0.639	0.62
355_N	358_I	0.638	0.62
325_N	358_I	0.635	0.62
223_I	226_S	0.633	0.61
161_I	165_K	0.632	0.61
84_F	87_K	0.631	0.61
338_A	358_I	0.631	0.61
201_A	241_A	0.631	0.61
181_A	221_L	0.629	0.61
233_K	237_S	0.629	0.61
45_D	48_V	0.629	0.61
101_A	139_K	0.627	0.61
101_A	277_Y	0.626	0.61
217_L	354_F	0.625	0.60
151_I	155_H	0.623	0.60
50_A	163_I	0.622	0.60
59_H	62_L	0.621	0.60
39_F	57_E	0.619	0.60
319_E	323_Q	0.617	0.59
183_A	186_A	0.617	0.59
219_H	262_K	0.616	0.59
347_F	351_T	0.616	0.59
141_S	222_S	0.616	0.59
62_L	66_S	0.616	0.59
319_E	322_K	0.614	0.59
352_S	355_N	0.614	0.59
192_E	303_Y	0.614	0.59
133_A	264_L	0.612	0.59
46_Q	277_Y	0.610	0.59
110_Y	153_A	0.609	0.59
315_I	318_I	0.608	0.58
58_R	65_S	0.607	0.58
138_S	179_M	0.606	0.58
39_F	43_E	0.605	0.58
229_N	266_K	0.604	0.58
80_D	85_I	0.601	0.58
42_M	53_S	0.596	0.57
311_F	314_C	0.596	0.57
332_E	345_G	0.596	0.57
144_Y	159_N	0.595	0.57
179_M	201_A	0.595	0.57
313_N	316_S	0.594	0.57
43_E	59_H	0.594	0.57
74_H	77_F	0.592	0.56
65_S	78_T	0.590	0.56
273_A	280_A	0.590	0.56
299_L	306_E	0.586	0.56
120_A	124_L	0.584	0.55
51_Y	59_H	0.584	0.55
306_E	311_F	0.583	0.55
294_A	301_N	0.583	0.55
254_I	258_F	0.582	0.55
75_T	79_E	0.580	0.55
135_E	139_K	0.579	0.55
54_L	59_H	0.576	0.54
50_A	67_R	0.576	0.54
285_I	315_I	0.574	0.54
60_K	64_H	0.574	0.54
48_V	56_E	0.572	0.54
226_S	238_L	0.571	0.54
153_A	164_Y	0.570	0.54
71_L	78_T	0.570	0.54
185_Y	235_I	0.569	0.53
278_N	320_F	0.566	0.53
72_Q	82_Q	0.566	0.53
330_V	358_I	0.566	0.53
37_K	60_K	0.564	0.53
95_N	141_S	0.562	0.53
348_E	358_I	0.560	0.52
317_N	324_Q	0.559	0.52
330_V	334_S	0.558	0.52
217_L	221_L	0.557	0.52
162_S	232_D	0.556	0.52
119_L	274_I	0.554	0.52
124_L	133_A	0.554	0.52
326_E	329_S	0.554	0.52
46_Q	54_L	0.553	0.51
144_Y	264_L	0.553	0.51
348_E	354_F	0.553	0.51
316_S	320_F	0.553	0.51
106_Y	189_K	0.553	0.51
152_V	155_H	0.553	0.51
239_E	245_E	0.549	0.51
340_R	343_S	0.548	0.51
98_L	136_F	0.548	0.51
138_S	220_N	0.548	0.51
38_L	49_L	0.541	0.50
107_N	341_F	0.541	0.50
39_F	52_Y	0.541	0.50
134_A	164_Y	0.540	0.50
138_S	145_T	0.540	0.50
206_K	221_L	0.539	0.50
257_L	280_A	0.538	0.49
83_N	232_D	0.538	0.49
35_I	39_F	0.538	0.49
157_I	190_R	0.538	0.49
181_A	188_M	0.536	0.49
52_Y	56_E	0.534	0.49
41_E	49_L	0.534	0.49
57_E	61_M	0.533	0.49
311_F	315_I	0.532	0.49
162_S	272_K	0.532	0.49
324_Q	335_Y	0.530	0.48
57_E	63_L	0.530	0.48
340_R	347_F	0.529	0.48
240_K	243_G	0.529	0.48
46_Q	64_H	0.528	0.48
103_Y	107_N	0.527	0.48
102_M	106_Y	0.525	0.48
181_A	197_Y	0.525	0.48
102_M	105_A	0.523	0.48
186_A	239_E	0.522	0.47
302_L	307_L	0.521	0.47
63_L	67_R	0.520	0.47
88_T	119_L	0.517	0.47
43_E	46_Q	0.517	0.47
43_E	62_L	0.517	0.47
56_E	199_L	0.516	0.47
157_I	161_I	0.515	0.47
320_F	354_F	0.514	0.46
132_E	164_Y	0.513	0.46
202_I	218_F	0.513	0.46
47_E	58_R	0.513	0.46
345_G	348_E	0.513	0.46
273_A	330_V	0.512	0.46
231_P	234_C	0.508	0.46
217_L	224_V	0.508	0.46
317_N	320_F	0.507	0.46
54_L	60_K	0.507	0.46
50_A	56_E	0.507	0.46
51_Y	61_M	0.507	0.46
164_Y	167_H	0.507	0.46
67_R	75_T	0.506	0.45
261_I	300_Y	0.505	0.45
295_K	302_L	0.505	0.45
165_K	286_L	0.503	0.45
79_E	316_S	0.503	0.45
261_I	276_F	0.502	0.45
42_M	51_Y	0.501	0.45
55_L	61_M	0.500	0.45
46_Q	67_R	0.500	0.45

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
4i1aA	2	0.9623	100	0.225	Contact Map
3q15A	2	0.9784	100	0.225	Contact Map
3ulqA	1	0.9838	100	0.231	Contact Map
4gyoA	2	0.9704	100	0.236	Contact Map
4gpkA	3	0.9326	100	0.301	Contact Map
4l9pA	1	0.7547	100	0.39	Contact Map
3q7aA	1	0.7493	100	0.393	Contact Map
3dssA	1	0.7116	100	0.396	Contact Map
1w3bA	2	0.8194	100	0.397	Contact Map
4ui9C	2	0.9137	100	0.403	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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