BGLJ - ECOLI - GREMLIN Contacts

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BGLJ - Transcriptional activator protein BglJ

UniProt:	P39404	Sequences: MEHSRIKKRNVALIEKCVMSSIGIESLFRKFAGNPYKLHTYTSQESFQDAMSRISFAAVIFSFSAMRSERREGLSCLTELAIKFPRTRRLVIADDDIEARLIGSLSPSPLDGVLSKASTLEIFHQELFLSLNGVRQATDRLNNQWYINQSRTLSPTEREILRFMSRGYSMTQIAEQLKRNIKTIRAHKFNVMSKLGVSSDAGLLEAADILLCMRHCETSNVLHPY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12594
Length:	225 (189)
Sequences:	72158 (50293)
Seq/√Len:	3658.3

ECOLI - BGLJ YJJQ EVGA YHJB RCSB NARP UVRY FIMZ YGEK CUSR NARL RCSA YEDW CREB OMPR UHPA PHOP CSGD DPIA BAER ARCA PHOB BASR QSEB KDPE DCUR RSTA CPXR TORR BARA ARCB TORS RCSC RSSB YPDB CHEB YEHT GLRR ZRAR NTRC ATOC EVGS RCSD
BACSU - YXJL LIAR CMPA DEGU YVFU YFIK PHOP MALR YHCZ DESR CITT YDFI YKOG RESD YVRH YXDJ YCBL DCTR YVCP YYCF YCLJ YRKP CSSR BCER YESN YBDJ GLNL CHEB NATR LYTT SP0A CHEV
HALSA - Q9HR09 Q9HNM3 Q9HRE5 CHEB O51970 BAT

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
21_S	40_T	3.691	1.00
21_S	42_T	3.108	1.00
25_E	40_T	2.988	1.00
14_I	47_F	2.665	1.00
45_E	67_R	2.572	1.00
43_S	67_R	2.507	1.00
39_H	56_F	2.477	1.00
48_Q	79_E	2.390	1.00
52_S	83_K	2.338	1.00
44_Q	68_S	2.292	1.00
68_S	79_E	2.214	1.00
10_N	35_P	2.144	1.00
27_L	120_L	2.069	1.00
10_N	39_H	2.029	1.00
102_I	122_I	2.025	1.00
25_E	29_R	2.007	1.00
182_K	185_R	1.974	1.00
156_T	159_E	1.916	1.00
31_F	124_H	1.894	1.00
41_Y	50_A	1.881	1.00
42_T	46_S	1.861	1.00
39_H	50_A	1.851	1.00
64_S	95_D	1.815	1.00
61_F	76_C	1.792	1.00
43_S	46_S	1.782	1.00
99_A	119_T	1.769	1.00
170_M	185_R	1.747	1.00
77_L	89_R	1.722	1.00
39_H	54_I	1.695	1.00
91_V	105_L	1.693	1.00
12_A	41_Y	1.654	1.00
33_G	128_F	1.640	1.00
91_V	110_L	1.611	1.00
81_A	111_D	1.606	1.00
28_F	127_L	1.574	1.00
187_H	190_N	1.571	1.00
72_E	75_S	1.569	1.00
79_E	83_K	1.531	1.00
162_R	166_R	1.530	1.00
44_Q	76_C	1.520	1.00
9_R	131_L	1.477	1.00
68_S	75_S	1.472	1.00
163_F	176_Q	1.452	1.00
157_E	194_K	1.431	1.00
79_E	82_I	1.425	1.00
112_G	126_E	1.418	1.00
50_A	54_I	1.417	1.00
95_D	101_L	1.416	1.00
58_A	127_L	1.415	1.00
77_L	91_V	1.389	1.00
48_Q	76_C	1.382	1.00
168_Y	176_Q	1.378	1.00
50_A	53_R	1.363	1.00
59_V	87_T	1.350	1.00
84_F	87_T	1.348	1.00
169_S	172_Q	1.345	1.00
90_L	130_S	1.334	1.00
15_E	21_S	1.332	1.00
75_S	78_T	1.330	1.00
61_F	77_L	1.323	1.00
63_F	91_V	1.319	1.00
51_M	80_L	1.313	1.00
18_V	42_T	1.309	1.00
45_E	68_S	1.292	1.00
14_I	65_A	1.229	1.00
111_D	133_G	1.228	1.00
49_D	53_R	1.216	1.00
78_T	108_S	1.206	1.00
63_F	74_L	1.205	1.00
107_P	128_F	1.198	1.00
31_F	128_F	1.190	1.00
41_Y	47_F	1.184	1.00
98_E	101_L	1.178	1.00
48_Q	68_S	1.167	1.00
10_N	54_I	1.156	1.00
46_S	49_D	1.151	1.00
50_A	56_F	1.150	1.00
45_E	49_D	1.148	1.00
16_K	62_S	1.141	1.00
46_S	50_A	1.137	1.00
12_A	47_F	1.136	1.00
158_R	162_R	1.101	1.00
12_A	56_F	1.095	1.00
58_A	131_L	1.084	1.00
124_H	128_F	1.082	1.00
163_F	167_G	1.069	1.00
74_L	104_S	1.067	1.00
171_T	181_I	1.061	1.00
186_A	189_F	1.059	1.00
78_T	104_S	1.044	1.00
163_F	168_Y	1.037	1.00
172_Q	176_Q	1.026	1.00
99_A	103_G	1.011	1.00
122_I	125_Q	1.005	1.00
74_L	108_S	1.001	1.00
168_Y	172_Q	0.991	1.00
14_I	59_V	0.980	1.00
156_T	178_K	0.979	1.00
182_K	186_A	0.977	1.00
111_D	130_S	0.977	1.00
104_S	108_S	0.977	1.00
47_F	51_M	0.973	1.00
159_E	162_R	0.972	1.00
163_F	173_I	0.956	1.00
61_F	89_R	0.955	1.00
74_L	105_L	0.954	1.00
100_R	104_S	0.953	1.00
24_I	92_I	0.952	1.00
12_A	50_A	0.952	1.00
125_Q	129_L	0.932	1.00
59_V	80_L	0.929	1.00
41_Y	46_S	0.924	1.00
18_V	21_S	0.920	1.00
196_G	199_S	0.917	1.00
35_P	39_H	0.908	1.00
51_M	84_F	0.906	1.00
18_V	22_I	0.905	1.00
145_W	150_S	0.900	1.00
102_I	115_S	0.894	1.00
63_F	72_E	0.890	1.00
47_F	76_C	0.888	1.00
130_S	133_G	0.883	1.00
103_G	107_P	0.881	1.00
19_M	23_G	0.879	1.00
10_N	56_F	0.877	1.00
155_P	159_E	0.875	1.00
183_T	187_H	0.875	1.00
48_Q	52_S	0.871	1.00
12_A	51_M	0.871	1.00
65_A	76_C	0.869	1.00
22_I	40_T	0.869	1.00
13_L	24_I	0.866	1.00
25_E	36_Y	0.863	1.00
49_D	52_S	0.855	1.00
24_I	123_F	0.853	1.00
181_I	185_R	0.852	1.00
14_I	41_Y	0.851	1.00
77_L	108_S	0.849	1.00
60_I	123_F	0.846	1.00
154_S	194_K	0.845	1.00
188_K	192_M	0.843	1.00
99_A	102_I	0.842	1.00
122_I	126_E	0.841	1.00
13_L	36_Y	0.841	1.00
104_S	107_P	0.841	1.00
12_A	39_H	0.836	1.00
77_L	110_L	0.833	1.00
75_S	79_E	0.826	1.00
61_F	91_V	0.822	1.00
171_T	175_E	0.821	1.00
103_G	121_E	0.821	1.00
60_I	92_I	0.813	1.00
26_S	30_K	0.812	1.00
106_S	126_E	0.803	1.00
64_S	94_D	0.800	1.00
182_K	189_F	0.799	1.00
10_N	57_A	0.797	1.00
96_D	115_S	0.796	1.00
190_N	193_S	0.795	1.00
145_W	148_N	0.788	1.00
201_A	204_L	0.787	1.00
189_F	193_S	0.776	1.00
22_I	25_E	0.774	1.00
78_T	82_I	0.773	1.00
101_L	104_S	0.770	1.00
88_R	111_D	0.770	1.00
44_Q	48_Q	0.758	1.00
59_V	89_R	0.758	1.00
129_L	132_N	0.756	1.00
9_R	135_R	0.754	1.00
172_Q	175_E	0.753	1.00
63_F	101_L	0.752	1.00
44_Q	67_R	0.751	1.00
76_C	80_L	0.750	1.00
164_M	188_K	0.742	1.00
100_R	121_E	0.740	1.00
129_L	134_V	0.740	1.00
68_S	76_C	0.739	1.00
90_L	126_E	0.739	1.00
198_S	201_A	0.735	1.00
185_R	188_K	0.727	1.00
120_L	124_H	0.724	1.00
51_M	87_T	0.719	1.00
13_L	25_E	0.718	1.00
20_S	118_S	0.717	1.00
15_E	65_A	0.712	1.00
14_I	76_C	0.706	1.00
51_M	56_F	0.705	1.00
80_L	85_P	0.701	1.00
90_L	112_G	0.699	1.00
199_S	202_G	0.697	1.00
63_F	95_D	0.695	1.00
198_S	202_G	0.693	1.00
48_Q	51_M	0.693	1.00
179_R	184_I	0.692	1.00
22_I	26_S	0.690	1.00
55_S	84_F	0.687	1.00
36_Y	39_H	0.682	1.00
166_R	176_Q	0.681	1.00
197_V	202_G	0.679	1.00
118_S	123_F	0.669	1.00
99_A	121_E	0.664	1.00
13_L	40_T	0.663	1.00
36_Y	40_T	0.661	1.00
107_P	125_Q	0.660	1.00
196_G	202_G	0.659	1.00
21_S	25_E	0.658	1.00
186_A	190_N	0.655	1.00
11_V	58_A	0.652	1.00
188_K	200_D	0.644	1.00
93_A	102_I	0.643	1.00
11_V	28_F	0.642	1.00
160_I	164_M	0.641	1.00
192_M	197_V	0.641	1.00
131_L	134_V	0.639	1.00
17_C	94_D	0.635	1.00
170_M	174_A	0.634	1.00
92_I	118_S	0.633	1.00
159_E	163_F	0.633	1.00
80_L	89_R	0.630	1.00
29_R	36_Y	0.628	1.00
23_G	27_L	0.627	1.00
52_S	79_E	0.626	1.00
121_E	125_Q	0.625	1.00
170_M	181_I	0.625	1.00
154_S	157_E	0.622	1.00
86_R	136_Q	0.619	1.00
62_S	116_K	0.618	1.00
60_I	127_L	0.616	1.00
63_F	105_L	0.616	1.00
156_T	187_H	0.613	1.00
29_R	35_P	0.612	1.00
51_M	59_V	0.610	1.00
146_Y	196_G	0.608	1.00
119_T	122_I	0.606	1.00
93_A	116_K	0.605	1.00
175_E	178_K	0.603	1.00
88_R	131_L	0.602	1.00
52_S	84_F	0.602	1.00
105_L	110_L	0.602	1.00
141_L	144_Q	0.600	1.00
161_L	203_L	0.598	1.00
61_F	65_A	0.593	1.00
17_C	20_S	0.591	1.00
102_I	119_T	0.582	1.00
27_L	124_H	0.581	1.00
126_E	130_S	0.579	1.00
33_G	124_H	0.574	1.00
16_K	93_A	0.566	1.00
60_I	90_L	0.565	1.00
44_Q	65_A	0.565	1.00
179_R	183_T	0.561	1.00
163_F	166_R	0.560	1.00
157_E	160_I	0.559	1.00
188_K	203_L	0.557	1.00
100_R	103_G	0.551	1.00
9_R	57_A	0.550	1.00
174_A	178_K	0.550	1.00
134_V	138_T	0.549	1.00
11_V	127_L	0.548	1.00
162_R	165_S	0.545	1.00
81_A	87_T	0.544	1.00
81_A	88_R	0.543	1.00
23_G	26_S	0.541	1.00
74_L	101_L	0.539	1.00
146_Y	149_Q	0.537	1.00
140_R	144_Q	0.536	1.00
146_Y	197_V	0.532	1.00
86_R	137_A	0.529	1.00
93_A	113_V	0.529	1.00
105_L	113_V	0.517	1.00
58_A	130_S	0.517	1.00
55_S	85_P	0.515	1.00
20_S	23_G	0.514	1.00
16_K	116_K	0.510	1.00
180_N	183_T	0.508	1.00
146_Y	198_S	0.505	1.00
48_Q	83_K	0.505	1.00
153_L	157_E	0.504	1.00
27_L	31_F	0.504	1.00
140_R	143_N	0.502	1.00
118_S	126_E	0.502	1.00
14_I	61_F	0.501	1.00
161_L	191_V	0.500	1.00

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
4gvpA	1	0.8978	100	0.249	Contact Map
3c3wA	2	0.8978	100	0.256	Contact Map
1a04A	1	0.8889	100	0.262	Contact Map
4ldzA	2	0.8756	100	0.271	Contact Map
1yioA	1	0.8756	100	0.278	Contact Map
3kloA	2	0.9067	100	0.293	Contact Map
4hyeA	2	0.8889	100	0.295	Contact Map
4b09A	2	0.8667	100	0.297	Contact Map
1ys7A	2	0.8978	100	0.303	Contact Map
3r0jA	2	0.8889	100	0.318	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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