DNAI - BACSU - GREMLIN Contacts

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DNAI - Primosomal protein DnaI

UniProt:	P06567	Sequences: MEPIGRSLQGVTGRPDFQKRLEQMKEKVMKDQDVQAFLKENEEVIDQKMIEKSLNKLYEYIEQSKNCSYCSEDENCNNLLEGYHPKLVVNGRSIDIEYYECPVKRKLDQQKKQQSLMKSMYIQQDLLGATFQQVDISDPSRLAMFQHVTDFLKSYNETGKGKGLYLYGKFGVGKTFMLAAIANELAEKEYSSMIVYVPEFVRELKNSLQDQTLEEKLNMVKTTPVLMLDDIGAESMTSWVRDEVIGTVLQHRMSQQLPTFFSSNFSPDELKHHFTYSQRGEKEEVKAARLMERILYLAAPIRLDGENRRHP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	311 (259)
Sequences:	1689 (1387)
Seq/√Len:	86.2

ECOLI - DNAC YDAV DNAA
BACSU - DNAI YQAM XKDC DNAA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
184_E	187_E	5.043	1.00
148_V	181_I	4.301	1.00
41_N	44_V	3.566	1.00
176_F	180_A	3.263	1.00
292_E	307_N	3.225	1.00
67_C	70_C	3.101	1.00
147_H	299_A	3.076	1.00
178_L	262_S	3.065	1.00
266_S	269_E	2.808	1.00
201_V	240_V	2.742	1.00
193_M	223_T	2.642	1.00
178_L	227_M	2.636	1.00
182_A	227_M	2.601	1.00
190_Y	224_P	2.509	1.00
145_F	149_T	2.482	1.00
197_V	228_L	2.390	1.00
178_L	260_F	2.384	1.00
111_K	114_Q	2.374	1.00
246_G	250_Q	2.341	1.00
224_P	257_L	2.329	1.00
149_T	153_K	2.187	1.00
110_Q	114_Q	2.031	1.00
131_F	152_L	1.978	1.00
47_Q	51_E	1.972	1.00
182_A	192_S	1.970	1.00
183_N	187_E	1.919	1.00
151_F	155_Y	1.915	1.00
89_V	102_P	1.894	1.00
165_Y	263_S	1.891	1.00
170_F	292_E	1.873	1.00
181_I	260_F	1.868	1.00
150_D	154_S	1.867	1.00
200_F	220_V	1.849	1.00
87_L	90_N	1.845	1.00
147_H	301_I	1.812	1.00
231_I	261_F	1.803	1.00
131_F	180_A	1.796	1.00
75_N	79_L	1.780	1.00
152_L	184_E	1.759	1.00
144_M	177_M	1.748	1.00
152_L	185_L	1.737	1.00
227_M	262_S	1.695	1.00
126_L	129_A	1.669	1.00
192_S	227_M	1.614	1.00
134_V	177_M	1.575	1.00
104_K	108_D	1.544	1.00
110_Q	113_Q	1.537	1.00
166_L	303_L	1.535	1.00
139_P	142_L	1.526	1.00
129_A	179_A	1.504	1.00
167_Y	302_R	1.497	0.99
205_K	237_T	1.482	0.99
197_V	204_L	1.481	0.99
214_E	218_N	1.470	0.99
151_F	164_L	1.462	0.99
73_D	76_C	1.460	0.99
162_K	299_A	1.452	0.99
167_Y	300_P	1.435	0.99
204_L	211_Q	1.422	0.99
172_V	303_L	1.421	0.99
101_C	105_R	1.416	0.99
133_Q	176_F	1.401	0.99
97_E	100_E	1.392	0.99
151_F	258_P	1.389	0.99
131_F	134_V	1.388	0.99
171_G	293_R	1.381	0.99
232_G	264_N	1.374	0.99
184_E	188_K	1.373	0.99
45_I	49_M	1.347	0.99
107_L	110_Q	1.345	0.99
116_L	189_E	1.333	0.99
193_M	219_M	1.326	0.99
271_K	288_A	1.324	0.99
252_R	259_T	1.314	0.99
196_Y	246_G	1.310	0.99
212_T	215_E	1.309	0.99
198_P	233_A	1.299	0.99
267_P	298_A	1.293	0.99
236_M	273_H	1.292	0.99
72_E	82_G	1.292	0.99
185_L	225_V	1.285	0.98
264_N	293_R	1.283	0.98
289_R	293_R	1.282	0.98
141_R	303_L	1.278	0.98
91_G	94_I	1.271	0.98
217_L	248_V	1.271	0.98
48_K	51_E	1.264	0.98
48_K	52_K	1.249	0.98
67_C	71_S	1.234	0.98
75_N	84_H	1.216	0.98
136_I	145_F	1.214	0.98
34_V	38_L	1.211	0.98
230_D	289_R	1.207	0.98
90_N	93_S	1.207	0.98
248_V	252_R	1.203	0.98
181_I	206_N	1.189	0.97
107_L	111_K	1.185	0.97
148_V	164_L	1.182	0.97
261_F	298_A	1.163	0.97
78_N	81_E	1.158	0.97
264_N	289_R	1.157	0.97
191_S	224_P	1.153	0.97
40_E	46_D	1.151	0.97
259_T	298_A	1.148	0.97
196_Y	199_E	1.141	0.97
45_I	89_V	1.133	0.97
126_L	180_A	1.130	0.96
94_I	103_V	1.116	0.96
34_V	41_N	1.113	0.96
134_V	145_F	1.111	0.96
51_E	55_N	1.096	0.96
59_E	67_C	1.096	0.96
198_P	221_K	1.089	0.96
140_S	180_A	1.088	0.96
197_V	201_V	1.086	0.96
150_D	153_K	1.077	0.95
233_A	289_R	1.077	0.95
221_K	243_E	1.072	0.95
92_R	95_D	1.071	0.95
181_I	227_M	1.060	0.95
129_A	175_T	1.060	0.95
97_E	101_C	1.060	0.95
37_F	41_N	1.050	0.95
163_G	297_L	1.049	0.95
194_I	262_S	1.044	0.95
165_Y	294_I	1.043	0.95
85_P	96_I	1.039	0.94
228_L	245_I	1.032	0.94
103_V	107_L	1.028	0.94
101_C	104_K	1.026	0.94
100_E	105_R	1.023	0.94
289_R	294_I	1.022	0.94
128_G	256_Q	1.021	0.94
144_M	148_V	1.012	0.94
58_Y	62_E	0.992	0.93
141_R	301_I	0.989	0.93
106_K	109_Q	0.972	0.92
109_Q	113_Q	0.969	0.92
46_D	49_M	0.963	0.92
130_T	187_E	0.962	0.92
85_P	88_V	0.957	0.92
261_F	294_I	0.953	0.91
97_E	104_K	0.953	0.91
39_K	42_E	0.952	0.91
291_M	295_L	0.950	0.91
144_M	301_I	0.944	0.91
198_P	243_E	0.940	0.91
196_Y	250_Q	0.935	0.91
90_N	107_L	0.933	0.90
163_G	258_P	0.931	0.90
42_E	50_I	0.930	0.90
198_P	247_T	0.922	0.90
139_P	256_Q	0.919	0.90
260_F	297_L	0.916	0.90
129_A	134_V	0.914	0.90
206_N	212_T	0.910	0.89
53_S	56_K	0.910	0.89
236_M	240_V	0.909	0.89
39_K	43_E	0.907	0.89
185_L	239_W	0.897	0.89
101_C	107_L	0.895	0.89
265_F	270_L	0.886	0.88
36_A	40_E	0.885	0.88
101_C	109_Q	0.883	0.88
218_N	222_T	0.879	0.88
182_A	262_S	0.877	0.88
116_L	191_S	0.865	0.87
250_Q	292_E	0.856	0.86
112_K	116_L	0.848	0.86
65_K	68_S	0.845	0.86
122_I	194_I	0.843	0.85
36_A	39_K	0.840	0.85
233_A	264_N	0.837	0.85
122_I	125_D	0.837	0.85
217_L	221_K	0.837	0.85
169_K	288_A	0.833	0.85
204_L	208_L	0.831	0.85
130_T	183_N	0.829	0.84
34_V	69_Y	0.821	0.84
35_Q	39_K	0.821	0.84
203_E	216_K	0.817	0.84
201_V	237_T	0.817	0.84
47_Q	56_K	0.815	0.83
76_C	82_G	0.813	0.83
79_L	83_Y	0.808	0.83
100_E	104_K	0.807	0.83
126_L	179_A	0.794	0.82
221_K	251_H	0.793	0.82
169_K	304_D	0.791	0.82
76_C	101_C	0.791	0.82
221_K	248_V	0.788	0.81
80_L	269_E	0.786	0.81
204_L	217_L	0.786	0.81
57_L	69_Y	0.784	0.81
154_S	157_E	0.784	0.81
34_V	67_C	0.779	0.81
169_K	172_V	0.775	0.80
233_A	242_D	0.765	0.79
197_V	233_A	0.764	0.79
119_S	122_I	0.764	0.79
56_K	59_E	0.757	0.79
118_K	122_I	0.757	0.79
196_Y	245_I	0.756	0.79
268_D	295_L	0.755	0.78
198_P	242_D	0.752	0.78
108_D	111_K	0.742	0.77
207_S	213_L	0.741	0.77
156_N	188_K	0.741	0.77
116_L	186_A	0.740	0.77
72_E	76_C	0.738	0.77
41_N	45_I	0.738	0.77
125_D	256_Q	0.736	0.77
134_V	141_R	0.732	0.76
92_R	107_L	0.729	0.76
81_E	84_H	0.721	0.75
192_S	224_P	0.721	0.75
169_K	227_M	0.720	0.75
158_T	161_G	0.717	0.75
193_M	215_E	0.717	0.75
87_L	94_I	0.716	0.75
85_P	92_R	0.716	0.75
252_R	258_P	0.713	0.74
172_V	205_K	0.707	0.74
196_Y	202_R	0.707	0.74
88_V	91_G	0.705	0.74
116_L	119_S	0.704	0.74
60_Y	256_Q	0.702	0.73
221_K	247_T	0.702	0.73
128_G	133_Q	0.699	0.73
94_I	101_C	0.698	0.73
144_M	303_L	0.697	0.73
89_V	96_I	0.697	0.73
202_R	243_E	0.696	0.73
178_L	225_V	0.696	0.73
59_E	63_Q	0.695	0.73
70_C	76_C	0.695	0.73
109_Q	112_K	0.694	0.72
204_L	220_V	0.691	0.72
232_G	252_R	0.691	0.72
234_E	264_N	0.690	0.72
237_T	243_E	0.687	0.72
231_I	245_I	0.687	0.72
104_K	107_L	0.686	0.72
62_E	65_K	0.682	0.71
193_M	261_F	0.681	0.71
144_M	164_L	0.678	0.71
251_H	255_Q	0.677	0.71
121_Y	175_T	0.676	0.70
35_Q	40_E	0.675	0.70
151_F	201_V	0.673	0.70
207_S	216_K	0.671	0.70
197_V	240_V	0.671	0.70
174_K	229_D	0.671	0.70
165_Y	270_L	0.668	0.70
134_V	176_F	0.667	0.69
198_P	252_R	0.664	0.69
85_P	90_N	0.658	0.68
44_V	132_Q	0.656	0.68
63_Q	66_N	0.656	0.68
85_P	98_Y	0.655	0.68
234_E	274_F	0.654	0.68
170_F	233_A	0.654	0.68
172_V	305_G	0.652	0.68
225_V	260_F	0.651	0.68
67_C	103_V	0.649	0.67
147_H	150_D	0.645	0.67
241_R	273_H	0.644	0.67
100_E	108_D	0.635	0.66
105_R	109_Q	0.634	0.66
113_Q	116_L	0.631	0.65
141_R	144_M	0.629	0.65
198_P	248_V	0.629	0.65
122_I	126_L	0.627	0.65
90_N	94_I	0.624	0.64
130_T	180_A	0.624	0.64
268_D	306_E	0.618	0.64
146_Q	238_S	0.617	0.63
199_E	203_E	0.617	0.63
196_Y	247_T	0.615	0.63
170_F	242_D	0.615	0.63
243_E	247_T	0.614	0.63
113_Q	117_M	0.614	0.63
143_A	147_H	0.613	0.63
246_G	267_P	0.613	0.63
59_E	62_E	0.610	0.63
230_D	233_A	0.609	0.62
85_P	91_G	0.609	0.62
173_G	230_D	0.607	0.62
194_I	227_M	0.607	0.62
230_D	293_R	0.607	0.62
50_I	204_L	0.607	0.62
96_I	99_Y	0.605	0.62
129_A	133_Q	0.605	0.62
172_V	290_L	0.605	0.62
208_L	213_L	0.605	0.62
241_R	290_L	0.604	0.62
185_L	204_L	0.602	0.62
163_G	252_R	0.601	0.61
144_M	246_G	0.597	0.61
91_G	95_D	0.597	0.61
232_G	265_F	0.596	0.61
80_L	83_Y	0.594	0.61
262_S	274_F	0.594	0.61
90_N	95_D	0.592	0.60
234_E	239_W	0.592	0.60
223_T	226_L	0.590	0.60
196_Y	274_F	0.589	0.60
227_M	260_F	0.588	0.60
237_T	295_L	0.587	0.60
73_D	77_N	0.586	0.60
202_R	273_H	0.584	0.59
142_L	150_D	0.583	0.59
60_Y	64_S	0.582	0.59
47_Q	111_K	0.580	0.59
54_L	57_L	0.580	0.59
36_A	157_E	0.579	0.59
114_Q	121_Y	0.578	0.58
152_L	155_Y	0.577	0.58
68_S	218_N	0.576	0.58
99_Y	102_P	0.576	0.58
125_D	129_A	0.575	0.58
144_M	299_A	0.575	0.58
71_S	74_E	0.573	0.58
121_Y	170_F	0.572	0.58
151_F	161_G	0.572	0.58
62_E	109_Q	0.570	0.57
250_Q	254_S	0.568	0.57
157_E	268_D	0.568	0.57
167_Y	267_P	0.567	0.57
217_L	288_A	0.566	0.57
158_T	162_K	0.565	0.57
251_H	254_S	0.565	0.57
269_E	272_H	0.565	0.57
270_L	291_M	0.564	0.57
34_V	53_S	0.563	0.56
216_K	219_M	0.562	0.56
37_F	63_Q	0.561	0.56
69_Y	73_D	0.561	0.56
93_S	105_R	0.557	0.56
39_K	47_Q	0.556	0.56
198_P	237_T	0.554	0.55
156_N	190_Y	0.554	0.55
225_V	258_P	0.554	0.55
69_Y	77_N	0.553	0.55
87_L	93_S	0.552	0.55
75_N	81_E	0.551	0.55
214_E	255_Q	0.551	0.55
162_K	302_R	0.550	0.55
217_L	243_E	0.550	0.55
205_K	208_L	0.549	0.55
137_S	204_L	0.548	0.54
36_A	111_K	0.546	0.54
232_G	274_F	0.542	0.54
35_Q	48_K	0.539	0.53
85_P	94_I	0.539	0.53
197_V	259_T	0.538	0.53
105_R	187_E	0.534	0.53
208_L	240_V	0.533	0.52
211_Q	255_Q	0.532	0.52
89_V	94_I	0.531	0.52
105_R	114_Q	0.530	0.52
253_M	296_Y	0.529	0.52
129_A	135_D	0.529	0.52
248_V	251_H	0.529	0.52
99_Y	105_R	0.528	0.52
69_Y	166_L	0.526	0.52
155_Y	190_Y	0.526	0.52
141_R	163_G	0.525	0.51
124_Q	127_L	0.525	0.51
48_K	139_P	0.524	0.51
141_R	151_F	0.524	0.51
40_E	56_K	0.523	0.51
193_M	225_V	0.522	0.51
128_G	206_N	0.521	0.51
219_M	295_L	0.521	0.51
101_C	108_D	0.521	0.51
294_I	297_L	0.520	0.51
111_K	116_L	0.520	0.51
119_S	132_Q	0.520	0.51
70_C	73_D	0.516	0.50
200_F	245_I	0.515	0.50
144_M	200_F	0.515	0.50
72_E	77_N	0.514	0.50
144_M	176_F	0.508	0.49
140_S	144_M	0.507	0.49
186_A	224_P	0.506	0.49
92_R	101_C	0.506	0.49
87_L	92_R	0.500	0.48

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
4m4wJ	3	0.8296	100	0.331	Contact Map
2qgzA	1	0.582	100	0.405	Contact Map
2w58A	2	0.6302	100	0.557	Contact Map
3ec2A	1	0.5659	100	0.597	Contact Map
2z4sA	1	0.5466	99.9	0.626	Contact Map
1l8qA	1	0.5466	99.9	0.648	Contact Map
3bosA	2	0.5338	99.9	0.689	Contact Map
2vhjA	3	0.8039	99.8	0.699	Contact Map
1tueA	1	0.5498	99.7	0.746	Contact Map
2kjqA	1	0.4727	99.7	0.746	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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