NHAX - BACSU - GREMLIN Contacts

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NHAX - Stress response protein NhaX

UniProt:	O07552	Sequences: MFHADRIIVAFDGSENSKKALLTAIDLAKTVNAAITVAHSHDMKDNQTVIDPPRPAAEASYISGGMTSVPDPLISDVTSPEPMIYEDRTEEVIAEARMMLNEQQADGDIDILEGDPAESIIEHANRISADMIVTGSRDQNRLKKLIFGSVSEKLSAKSDIPVLIVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	166 (138)
Sequences:	18187 (14507)
Seq/√Len:	1234.9

ECOLI - USPE USPF USPG USPC USPD USPA
BACSU - NHAX YXIE
HALSA - Q9HPP5 Q9HRD8 Q9HNX9 Q9HRP5 Q9HMI9 Q9HPQ8 Q9HHV8 Q9HHX5 Q9HMJ0 Q9HPF7 Q9HP90 Q9HHY0 Q9HMU1
SULSO - Q97V57 Q97X90 Q7LXW4 Q97U40

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
36_T	110_D	3.142	1.00
6_R	36_T	2.695	1.00
117_A	153_K	2.666	1.00
8_I	129_A	2.561	1.00
34_A	108_D	2.554	1.00
23_T	163_L	2.527	1.00
6_R	34_A	2.367	1.00
131_M	163_L	2.325	1.00
110_D	123_H	2.267	1.00
123_H	127_I	2.087	1.00
114_G	119_S	2.057	1.00
134_T	154_L	2.030	1.00
124_A	132_I	1.891	1.00
152_E	156_A	1.886	1.00
36_T	108_D	1.881	1.00
22_L	99_M	1.828	1.00
34_A	106_D	1.805	1.00
97_R	109_I	1.801	1.00
10_A	134_T	1.791	1.00
132_I	160_I	1.785	1.00
36_T	127_I	1.784	1.00
112_L	119_S	1.766	1.00
36_T	129_A	1.736	1.00
36_T	123_H	1.674	1.00
40_S	119_S	1.671	1.00
9_V	24_A	1.650	1.00
38_A	123_H	1.636	1.00
10_A	120_I	1.573	1.00
119_S	122_E	1.541	1.00
97_R	101_N	1.539	1.00
6_R	130_D	1.489	1.00
86_E	90_E	1.477	1.00
125_N	159_D	1.465	1.00
33_A	130_D	1.458	1.00
27_L	31_V	1.454	1.00
124_A	159_D	1.385	1.00
90_E	94_A	1.375	1.00
112_L	123_H	1.365	1.00
121_I	157_K	1.354	1.00
39_H	89_T	1.338	1.00
24_A	28_A	1.334	1.00
132_I	158_S	1.328	1.00
18_K	99_M	1.320	1.00
153_K	157_K	1.319	1.00
9_V	21_L	1.306	1.00
132_I	154_L	1.260	1.00
110_D	127_I	1.250	1.00
158_S	162_V	1.226	1.00
92_V	96_A	1.208	1.00
82_P	86_E	1.123	1.00
116_P	150_V	1.118	1.00
38_A	112_L	1.107	1.00
94_A	97_R	1.098	1.00
123_H	126_R	1.092	1.00
144_K	152_E	1.090	1.00
136_S	164_I	1.083	1.00
7_I	131_M	1.082	1.00
142_L	146_I	1.077	1.00
85_Y	88_R	1.042	1.00
155_S	164_I	1.029	1.00
38_A	120_I	0.991	1.00
40_S	116_P	0.991	1.00
23_T	27_L	0.983	1.00
151_S	164_I	0.983	1.00
17_S	20_A	0.976	1.00
93_I	109_I	0.974	1.00
21_L	96_A	0.969	1.00
122_E	126_R	0.968	1.00
21_L	37_V	0.961	1.00
94_A	98_M	0.957	1.00
11_F	96_A	0.956	1.00
94_A	109_I	0.955	1.00
23_T	165_V	0.955	1.00
83_M	87_D	0.954	1.00
26_D	30_T	0.953	1.00
25_I	100_L	0.949	1.00
23_T	26_D	0.943	1.00
89_T	93_I	0.938	1.00
6_R	127_I	0.937	1.00
18_K	95_E	0.932	1.00
112_L	126_R	0.930	1.00
87_D	91_E	0.925	1.00
11_F	37_V	0.915	1.00
121_I	124_A	0.906	1.00
37_V	107_G	0.903	1.00
96_A	99_M	0.900	1.00
77_V	80_P	0.897	1.00
134_T	151_S	0.890	1.00
124_A	129_A	0.886	1.00
6_R	129_A	0.885	1.00
96_A	100_L	0.877	1.00
13_G	39_H	0.873	1.00
99_M	102_E	0.871	1.00
89_T	111_I	0.870	1.00
84_I	88_R	0.869	1.00
25_I	105_A	0.869	1.00
124_A	160_I	0.869	1.00
23_T	161_P	0.863	1.00
99_M	103_Q	0.859	1.00
14_S	17_S	0.847	1.00
28_A	35_I	0.843	1.00
11_F	20_A	0.841	1.00
31_V	130_D	0.838	1.00
92_V	95_E	0.838	1.00
136_S	151_S	0.837	1.00
88_R	92_V	0.833	1.00
41_H	111_I	0.832	1.00
24_A	133_V	0.814	1.00
8_I	38_A	0.814	1.00
95_E	99_M	0.811	1.00
100_L	107_G	0.811	1.00
121_I	154_L	0.808	1.00
139_Q	143_K	0.798	1.00
95_E	98_M	0.796	1.00
21_L	25_I	0.794	1.00
24_A	35_I	0.794	1.00
89_T	92_V	0.793	1.00
85_Y	89_T	0.791	1.00
14_S	138_D	0.789	1.00
8_I	132_I	0.785	1.00
88_R	91_E	0.783	1.00
121_I	158_S	0.783	1.00
10_A	135_G	0.779	1.00
28_A	31_V	0.769	1.00
138_D	147_F	0.768	1.00
37_V	96_A	0.767	1.00
28_A	33_A	0.766	1.00
79_S	83_M	0.764	1.00
41_H	113_E	0.764	1.00
11_F	21_L	0.764	1.00
18_K	22_L	0.761	1.00
87_D	90_E	0.759	1.00
29_K	104_Q	0.742	1.00
133_V	163_L	0.740	1.00
26_D	29_K	0.739	1.00
9_V	35_I	0.738	1.00
39_H	92_V	0.734	1.00
29_K	103_Q	0.726	1.00
19_K	22_L	0.725	1.00
141_R	144_K	0.723	1.00
123_H	129_A	0.718	1.00
11_F	17_S	0.716	1.00
97_R	107_G	0.714	1.00
108_D	127_I	0.710	1.00
120_I	154_L	0.698	1.00
115_D	118_E	0.696	1.00
5_D	33_A	0.693	1.00
98_M	102_E	0.691	1.00
91_E	95_E	0.689	1.00
84_I	87_D	0.685	1.00
13_G	92_V	0.679	1.00
142_L	145_L	0.674	1.00
141_R	145_L	0.670	1.00
80_P	83_M	0.669	1.00
18_K	96_A	0.665	1.00
134_T	164_I	0.665	1.00
80_P	84_I	0.657	1.00
90_E	109_I	0.656	1.00
25_I	103_Q	0.650	1.00
11_F	18_K	0.649	1.00
8_I	123_H	0.648	1.00
37_V	100_L	0.633	1.00
98_M	101_N	0.627	1.00
117_A	154_L	0.622	1.00
83_M	86_E	0.621	1.00
22_L	103_Q	0.620	1.00
79_S	82_P	0.619	1.00
38_A	119_S	0.619	1.00
119_S	123_H	0.607	1.00
9_V	20_A	0.606	1.00
93_I	97_R	0.605	1.00
117_A	121_I	0.603	1.00
7_I	28_A	0.603	1.00
43_M	113_E	0.601	1.00
27_L	133_V	0.596	1.00
138_D	148_G	0.593	1.00
135_G	165_V	0.593	1.00
27_L	30_T	0.592	1.00
91_E	94_A	0.585	1.00
136_S	146_I	0.583	1.00
13_G	96_A	0.581	1.00
100_L	103_Q	0.581	1.00
147_F	151_S	0.580	1.00
118_E	122_E	0.577	1.00
20_A	133_V	0.574	1.00
40_S	114_G	0.570	1.00
128_S	160_I	0.563	1.00
154_L	162_V	0.558	1.00
47_Q	51_D	0.556	1.00
25_I	29_K	0.552	1.00
25_I	99_M	0.552	1.00
15_E	18_K	0.551	1.00
24_A	33_A	0.549	1.00
5_D	130_D	0.549	1.00
16_N	19_K	0.548	1.00
6_R	33_A	0.545	1.00
81_E	85_Y	0.545	1.00
114_G	122_E	0.544	1.00
7_I	133_V	0.537	1.00
117_A	157_K	0.537	1.00
78_T	81_E	0.532	1.00
41_H	89_T	0.528	1.00
27_L	163_L	0.505	1.00
93_I	111_I	0.504	1.00
138_D	141_R	0.503	1.00
125_N	160_I	0.502	1.00
117_A	150_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
5ahwA	4	0.8614	99.9	0.21	Contact Map
1mjhA	2	0.8434	99.9	0.225	Contact Map
2gm3A	2	0.7711	99.9	0.235	Contact Map
4wnyA	2	0.7711	99.9	0.237	Contact Map
3s3tA	4	0.8554	99.9	0.237	Contact Map
2dumA	2	0.8373	99.9	0.24	Contact Map
4r2kA	2	0.8675	99.9	0.248	Contact Map
3hgmA	2	0.8675	99.9	0.252	Contact Map
4wy2A	2	0.8675	99.9	0.253	Contact Map
3tnjA	2	0.759	99.9	0.255	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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