MHQR - BACSU - GREMLIN Contacts

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MHQR - HTH-type transcriptional regulator MhqR

UniProt:	O31672	Sequences: MTEKSLKLFIVLSRAYRSINDHMNKHIHKHGLNPTEFAVLELLYHKGDQPLQQIGDKILLASGSITYVVDKLEQKELLIRKASPTDRRVTFAQITEKGIGLLNDIFPDHAAEIDEMISVLSEEEVEMCTEMLKRVGLNAKQFHNK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	145 (131)
Sequences:	23912 (17427)
Seq/√Len:	1522.6

ECOLI - SLYA MPRA MARR
BACSU - MHQR YFIV YETL YUSO YWAE YCGE YXAD YYBA YKOM YSMB YWOH OHRR YDGG YDGJ YPOP YHJH YWHA YDCH YVMB YVNA YBFA
SULSO - Q97Z53 Q97YG9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
81_K	93_Q	3.149	1.00
124_E	134_R	2.943	1.00
50_P	89_V	2.667	1.00
83_S	91_F	2.645	1.00
79_I	93_Q	2.633	1.00
48_D	93_Q	2.400	1.00
121_S	124_E	2.379	1.00
127_M	131_M	2.281	1.00
127_M	130_E	2.245	1.00
82_A	90_T	2.076	1.00
44_Y	102_L	2.061	1.00
50_P	53_Q	2.017	1.00
119_V	138_N	1.890	1.00
36_E	75_K	1.890	1.00
120_L	131_M	1.859	1.00
124_E	127_M	1.855	1.00
83_S	89_V	1.827	1.00
44_Y	94_I	1.782	1.00
73_E	80_R	1.680	1.00
97_K	101_L	1.632	1.00
128_C	131_M	1.596	1.00
76_E	97_K	1.565	1.00
36_E	71_K	1.556	1.00
51_L	69_V	1.522	1.00
11_V	133_K	1.510	1.00
124_E	130_E	1.486	1.00
46_K	57_K	1.462	1.00
69_V	92_A	1.461	1.00
39_V	68_V	1.455	1.00
33_N	36_E	1.455	1.00
97_K	100_G	1.453	1.00
101_L	104_D	1.449	1.00
70_D	74_Q	1.403	1.00
42_L	57_K	1.372	1.00
44_Y	99_I	1.366	1.00
131_M	134_R	1.329	1.00
11_V	129_T	1.312	1.00
30_H	108_D	1.294	1.00
53_Q	56_D	1.261	1.00
70_D	87_R	1.261	1.00
11_V	136_G	1.245	1.00
30_H	104_D	1.213	1.00
26_H	108_D	1.210	1.00
80_R	90_T	1.195	1.00
61_A	64_S	1.185	1.00
130_E	134_R	1.182	1.00
39_V	65_I	1.178	1.00
52_Q	62_S	1.166	1.00
15_A	136_G	1.163	1.00
51_L	90_T	1.158	1.00
100_G	104_D	1.154	1.00
52_Q	56_D	1.141	1.00
48_D	91_F	1.130	1.00
124_E	131_M	1.111	1.00
60_L	64_S	1.106	1.00
77_L	101_L	1.078	1.00
125_V	129_T	1.074	1.00
123_E	127_M	1.072	1.00
129_T	133_K	1.069	1.00
24_N	28_H	1.067	1.00
51_L	62_S	1.057	1.00
49_Q	53_Q	1.048	1.00
51_L	92_A	1.047	1.00
46_K	49_Q	1.022	1.00
29_K	108_D	1.021	1.00
14_R	136_G	1.019	1.00
51_L	65_I	0.993	1.00
13_S	16_Y	0.989	1.00
53_Q	57_K	0.982	1.00
63_G	66_T	0.972	1.00
79_I	95_T	0.965	1.00
66_T	70_D	0.957	1.00
60_L	65_I	0.952	1.00
108_D	111_A	0.949	1.00
49_Q	57_K	0.938	1.00
70_D	73_E	0.938	1.00
94_I	98_G	0.926	1.00
96_E	99_I	0.916	1.00
47_G	99_I	0.911	1.00
35_T	68_V	0.910	1.00
99_I	103_N	0.907	1.00
77_L	97_K	0.905	1.00
18_S	136_G	0.904	1.00
64_S	67_Y	0.903	1.00
30_H	105_I	0.902	1.00
75_K	101_L	0.893	1.00
16_Y	20_N	0.891	1.00
107_P	111_A	0.882	1.00
109_H	113_I	0.875	1.00
26_H	115_E	0.874	1.00
75_K	97_K	0.871	1.00
81_K	91_F	0.866	1.00
43_L	78_L	0.864	1.00
61_A	67_Y	0.863	1.00
113_I	116_M	0.862	1.00
15_A	132_L	0.861	1.00
44_Y	103_N	0.860	1.00
96_E	100_G	0.859	1.00
82_A	87_R	0.856	1.00
31_G	75_K	0.846	1.00
26_H	112_E	0.834	1.00
44_Y	106_F	0.832	1.00
104_D	108_D	0.820	1.00
37_F	105_I	0.819	1.00
69_V	78_L	0.818	1.00
39_V	54_I	0.817	1.00
127_M	134_R	0.812	1.00
122_E	126_E	0.811	1.00
111_A	114_D	0.782	1.00
67_Y	71_K	0.781	1.00
73_E	78_L	0.780	1.00
26_H	111_A	0.778	1.00
84_P	91_F	0.767	1.00
73_E	79_I	0.766	1.00
71_K	74_Q	0.763	1.00
115_E	118_S	0.761	1.00
22_H	112_E	0.756	1.00
86_D	89_V	0.755	1.00
42_L	46_K	0.755	1.00
48_D	81_K	0.746	1.00
67_Y	70_D	0.743	1.00
46_K	53_Q	0.743	1.00
83_S	86_D	0.740	1.00
24_N	34_P	0.739	1.00
94_I	99_I	0.738	1.00
40_L	102_L	0.737	1.00
13_S	17_R	0.737	1.00
120_L	135_V	0.732	1.00
8_L	129_T	0.727	1.00
69_V	73_E	0.722	1.00
55_G	65_I	0.721	1.00
35_T	64_S	0.719	1.00
55_G	62_S	0.719	1.00
112_E	115_E	0.718	1.00
107_P	110_A	0.718	1.00
12_L	16_Y	0.714	1.00
121_S	125_V	0.706	1.00
117_I	125_V	0.702	1.00
42_L	58_I	0.700	1.00
38_A	58_I	0.699	1.00
111_A	115_E	0.688	1.00
47_G	93_Q	0.687	1.00
26_H	29_K	0.686	1.00
126_E	129_T	0.685	1.00
126_E	130_E	0.680	1.00
65_I	69_V	0.667	1.00
123_E	126_E	0.666	1.00
100_G	103_N	0.665	1.00
70_D	80_R	0.658	1.00
51_L	66_T	0.657	1.00
20_N	23_M	0.654	1.00
17_R	21_D	0.652	1.00
134_R	138_N	0.651	1.00
133_K	137_L	0.649	1.00
11_V	14_R	0.648	1.00
37_F	109_H	0.640	1.00
42_L	49_Q	0.640	1.00
110_A	114_D	0.638	1.00
43_L	94_I	0.634	1.00
39_V	58_I	0.632	1.00
20_N	24_N	0.632	1.00
43_L	49_Q	0.628	1.00
120_L	125_V	0.624	1.00
104_D	107_P	0.616	1.00
71_K	75_K	0.613	1.00
23_M	26_H	0.613	1.00
42_L	54_I	0.598	1.00
41_E	45_H	0.596	1.00
72_L	77_L	0.593	1.00
15_A	135_V	0.573	1.00
40_L	44_Y	0.572	1.00
36_E	68_V	0.572	1.00
12_L	15_A	0.570	1.00
22_H	115_E	0.570	1.00
41_E	106_F	0.569	1.00
38_A	42_L	0.564	1.00
14_R	18_S	0.559	1.00
32_L	105_I	0.558	1.00
12_L	132_L	0.555	1.00
54_I	92_A	0.550	1.00
131_M	135_V	0.547	1.00
37_F	102_L	0.545	1.00
76_E	79_I	0.540	1.00
34_P	38_A	0.536	1.00
41_E	102_L	0.533	1.00
131_M	138_N	0.533	1.00
80_R	92_A	0.531	1.00
95_T	98_G	0.529	1.00
130_E	133_K	0.528	1.00
102_L	106_F	0.527	1.00
22_H	25_K	0.525	1.00
133_K	136_G	0.522	1.00
52_Q	55_G	0.521	1.00
120_L	124_E	0.520	1.00
72_L	78_L	0.503	1.00
109_H	112_E	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
4yifA	2	0.9724	99.9	0.24	Contact Map
3u2rA	4	0.9103	99.9	0.251	Contact Map
3deuA	2	0.9034	99.9	0.251	Contact Map
3bj6A	2	1	99.9	0.252	Contact Map
3zplA	2	1	99.9	0.252	Contact Map
3cdhA	4	0.8966	99.9	0.255	Contact Map
3boqA	2	0.9172	99.9	0.255	Contact Map
3oopA	2	0.9379	99.9	0.259	Contact Map
2fbkA	2	0.9103	99.9	0.262	Contact Map
4rguA	4	0.9862	99.9	0.264	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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