DAPB - BACSU - GREMLIN Contacts

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DAPB - 4-hydroxy-tetrahydrodipicolinate reductase

UniProt:	P42976	Sequences: MSNETIKLVIAGPRGRMGQEAVKLAERTPHFDLVGAIDHTYDQQKLSDVMPVESDAFIYTDIHACFTETQPDVLIDLTTPEIGKVHTKIALEHGVRPVVGTTGFSEADLKELTSLTEEKGIGAIIAPNFALGAILMMKFSKMAANYFEDVEIIELHHDQKLDAPSGTALKTAEMISEVRKEKQQGHPDEKEILPGARGAEQNGIRLHSVRLPGLIAHQEVMFGMDGQTLQIRHDSYNRASFMSGVKLSVEQVMKIDQLVYGLENIID	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	267 (240)
Sequences:	3788 (2305)
Seq/√Len:	148.8

ECOLI - DAPB
BACSU - DAPB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
127_P	170_K	3.805	1.00
7_K	32_D	3.573	1.00
138_K	142_M	3.236	1.00
28_T	250_E	3.184	1.00
88_K	111_E	2.628	1.00
30_H	250_E	2.575	1.00
61_D	64_A	2.333	1.00
141_K	177_E	2.309	1.00
139_F	143_A	2.297	1.00
9_V	71_P	2.293	1.00
84_K	108_D	2.276	1.00
172_A	206_L	2.261	1.00
105_S	108_D	2.198	1.00
75_I	249_V	2.194	1.00
219_E	232_R	2.175	1.00
20_E	23_K	2.123	1.00
124_I	265_I	2.055	1.00
155_L	214_L	2.051	1.00
136_M	231_I	2.043	1.00
24_L	246_K	2.027	1.00
34_V	71_P	2.009	1.00
8_L	31_F	1.997	1.00
114_S	117_E	1.982	1.00
96_R	122_G	1.978	1.00
219_E	230_Q	1.966	1.00
110_K	113_T	1.952	1.00
10_I	21_A	1.934	1.00
142_M	145_N	1.854	1.00
13_P	36_A	1.826	1.00
150_V	175_I	1.780	1.00
83_G	104_F	1.736	1.00
228_T	236_Y	1.731	1.00
153_I	209_V	1.728	1.00
182_K	185_G	1.716	1.00
91_L	120_G	1.713	1.00
109_L	125_I	1.680	1.00
25_A	33_L	1.671	1.00
198_G	203_G	1.661	1.00
79_T	161_L	1.651	1.00
63_H	92_E	1.640	1.00
21_A	77_L	1.634	1.00
124_I	252_V	1.599	1.00
113_T	117_E	1.596	1.00
74_L	90_A	1.596	1.00
89_I	93_H	1.587	1.00
23_K	27_R	1.576	1.00
71_P	95_V	1.558	1.00
140_S	171_T	1.551	1.00
16_R	159_Q	1.548	1.00
19_Q	23_K	1.544	1.00
31_F	250_E	1.541	1.00
113_T	259_V	1.540	1.00
141_K	263_E	1.535	1.00
137_M	174_M	1.512	1.00
124_I	248_S	1.492	1.00
9_V	35_G	1.450	1.00
170_K	174_M	1.447	1.00
23_K	239_A	1.439	1.00
84_K	111_E	1.435	1.00
230_Q	234_D	1.427	1.00
211_L	223_G	1.414	1.00
11_A	74_L	1.406	1.00
217_H	234_D	1.398	1.00
257_Q	260_Y	1.396	1.00
7_K	72_D	1.388	1.00
132_G	233_H	1.385	1.00
20_E	239_A	1.376	1.00
25_A	31_F	1.366	1.00
134_I	262_L	1.329	1.00
85_V	88_K	1.324	1.00
84_K	104_F	1.316	1.00
188_D	191_E	1.306	1.00
96_R	253_M	1.306	1.00
10_I	25_A	1.303	1.00
137_M	171_T	1.301	1.00
170_K	173_E	1.300	1.00
11_A	86_H	1.299	1.00
136_M	229_L	1.288	1.00
94_G	120_G	1.284	1.00
109_L	113_T	1.278	1.00
159_Q	213_G	1.277	1.00
198_G	202_N	1.263	1.00
153_I	221_M	1.262	1.00
88_K	92_E	1.255	1.00
141_K	178_V	1.254	1.00
235_S	240_S	1.245	1.00
106_E	184_Q	1.233	1.00
79_T	82_I	1.232	1.00
140_S	175_I	1.206	1.00
14_R	38_D	1.203	1.00
137_M	170_K	1.197	1.00
106_E	110_K	1.178	1.00
181_E	202_N	1.172	1.00
60_T	64_A	1.166	1.00
138_K	263_E	1.164	1.00
107_A	111_E	1.161	1.00
91_L	121_I	1.155	1.00
138_K	141_K	1.153	1.00
110_K	114_S	1.152	1.00
13_P	22_V	1.152	1.00
25_A	246_K	1.134	1.00
98_V	252_V	1.131	0.99
213_G	226_G	1.128	0.99
17_M	77_L	1.126	0.99
134_I	137_M	1.123	0.99
235_S	241_F	1.120	0.99
28_T	31_F	1.110	0.99
63_H	93_H	1.106	0.99
80_P	108_D	1.102	0.99
87_T	91_L	1.102	0.99
141_K	145_N	1.096	0.99
73_V	249_V	1.096	0.99
159_Q	196_A	1.092	0.99
97_P	123_A	1.087	0.99
187_P	203_G	1.087	0.99
108_D	111_E	1.079	0.99
189_E	192_I	1.070	0.99
10_I	22_V	1.068	0.99
91_L	115_L	1.065	0.99
209_V	221_M	1.062	0.99
84_K	87_T	1.059	0.99
140_S	231_I	1.052	0.99
31_F	246_K	1.051	0.99
145_N	178_V	1.045	0.99
59_Y	69_T	1.037	0.99
16_R	238_R	1.032	0.99
140_S	220_V	1.029	0.99
136_M	171_T	1.026	0.99
225_D	239_A	1.026	0.99
153_I	207_H	0.998	0.99
214_L	217_H	0.991	0.99
141_K	174_M	0.990	0.99
116_T	259_V	0.987	0.99
41_Y	60_T	0.984	0.99
251_Q	254_K	0.983	0.99
62_I	89_I	0.980	0.99
251_Q	265_I	0.974	0.98
213_G	236_Y	0.973	0.98
155_L	209_V	0.972	0.98
251_Q	255_I	0.958	0.98
189_E	207_H	0.956	0.98
11_A	37_I	0.946	0.98
22_V	36_A	0.945	0.98
189_E	208_S	0.945	0.98
27_R	239_A	0.942	0.98
246_K	250_E	0.940	0.98
8_L	25_A	0.940	0.98
17_M	242_M	0.939	0.98
74_L	95_V	0.937	0.98
211_L	224_M	0.936	0.98
214_L	223_G	0.934	0.98
24_L	242_M	0.932	0.98
84_K	88_K	0.928	0.98
135_L	139_F	0.926	0.98
135_L	146_Y	0.916	0.98
87_T	99_V	0.914	0.98
80_P	101_T	0.909	0.98
122_G	260_Y	0.909	0.98
83_G	99_V	0.908	0.98
196_A	199_A	0.905	0.98
99_V	112_L	0.901	0.97
131_L	247_L	0.886	0.97
195_G	198_G	0.881	0.97
22_V	33_L	0.881	0.97
115_L	121_I	0.880	0.97
10_I	33_L	0.879	0.97
155_L	217_H	0.876	0.97
149_D	182_K	0.876	0.97
107_A	110_K	0.875	0.97
7_K	70_Q	0.868	0.97
9_V	34_V	0.861	0.97
81_E	108_D	0.861	0.97
152_I	172_A	0.860	0.97
11_A	76_D	0.859	0.97
77_L	245_V	0.858	0.97
139_F	231_I	0.857	0.97
87_T	112_L	0.853	0.96
89_I	92_E	0.852	0.96
217_H	232_R	0.842	0.96
13_P	58_I	0.840	0.96
6_I	73_V	0.840	0.96
159_Q	225_D	0.838	0.96
12_G	15_G	0.832	0.96
63_H	89_I	0.828	0.96
104_F	112_L	0.822	0.96
211_L	214_L	0.819	0.96
174_M	178_V	0.819	0.96
73_V	252_V	0.817	0.95
152_I	206_L	0.811	0.95
89_I	95_V	0.805	0.95
96_R	252_V	0.802	0.95
221_M	228_T	0.800	0.95
86_H	97_P	0.799	0.95
228_T	234_D	0.791	0.95
130_A	227_Q	0.787	0.94
140_S	174_M	0.785	0.94
144_A	222_F	0.784	0.94
116_T	123_A	0.782	0.94
148_E	179_R	0.782	0.94
9_V	37_I	0.780	0.94
134_I	266_I	0.777	0.94
140_S	143_A	0.774	0.94
24_L	239_A	0.773	0.94
83_G	86_H	0.769	0.94
88_K	115_L	0.769	0.94
73_V	98_V	0.768	0.94
161_L	196_A	0.766	0.94
113_T	116_T	0.766	0.94
155_L	232_R	0.765	0.94
111_E	114_S	0.763	0.94
92_E	115_L	0.756	0.93
175_I	220_V	0.753	0.93
6_I	31_F	0.752	0.93
248_S	265_I	0.748	0.93
83_G	87_T	0.746	0.93
218_Q	233_H	0.744	0.93
179_R	182_K	0.743	0.93
21_A	25_A	0.742	0.93
136_M	218_Q	0.739	0.92
133_A	137_M	0.739	0.92
11_A	78_T	0.736	0.92
189_E	194_P	0.736	0.92
17_M	238_R	0.734	0.92
172_A	176_S	0.726	0.92
176_S	183_Q	0.726	0.92
20_E	24_L	0.724	0.92
28_T	246_K	0.722	0.92
92_E	120_G	0.721	0.91
124_I	129_F	0.720	0.91
7_K	34_V	0.717	0.91
104_F	108_D	0.717	0.91
215_I	237_N	0.716	0.91
24_L	28_T	0.714	0.91
78_T	100_G	0.710	0.91
122_G	257_Q	0.709	0.91
8_L	75_I	0.709	0.91
6_I	253_M	0.705	0.91
78_T	86_H	0.703	0.90
21_A	75_I	0.703	0.90
30_H	246_K	0.698	0.90
186_H	191_E	0.692	0.90
175_I	178_V	0.692	0.90
90_A	97_P	0.683	0.89
11_A	104_F	0.679	0.89
24_L	243_S	0.674	0.89
117_E	120_G	0.669	0.88
91_L	111_E	0.665	0.88
155_L	219_E	0.665	0.88
226_G	240_S	0.664	0.88
157_H	238_R	0.664	0.88
113_T	177_E	0.657	0.87
242_M	245_V	0.654	0.87
251_Q	262_L	0.650	0.87
90_A	121_I	0.646	0.86
23_K	26_E	0.645	0.86
216_A	238_R	0.644	0.86
94_G	121_I	0.641	0.86
130_A	235_S	0.638	0.86
35_G	65_C	0.638	0.86
40_T	60_T	0.636	0.85
183_Q	206_L	0.634	0.85
151_E	207_H	0.628	0.85
112_L	125_I	0.625	0.85
88_K	91_L	0.624	0.84
147_F	224_M	0.623	0.84
181_E	198_G	0.621	0.84
132_G	218_Q	0.619	0.84
185_G	202_N	0.619	0.84
109_L	173_E	0.617	0.84
100_G	129_F	0.615	0.84
84_K	112_L	0.614	0.83
10_I	13_P	0.612	0.83
7_K	71_P	0.611	0.83
155_L	221_M	0.611	0.83
104_F	125_I	0.610	0.83
193_L	196_A	0.610	0.83
6_I	250_E	0.609	0.83
127_P	137_M	0.609	0.83
11_A	82_I	0.607	0.83
9_V	65_C	0.604	0.82
195_G	199_A	0.602	0.82
122_G	252_V	0.601	0.82
33_L	36_A	0.601	0.82
126_A	170_K	0.595	0.82
151_E	197_R	0.590	0.81
39_H	81_E	0.589	0.81
143_A	222_F	0.585	0.80
223_G	228_T	0.584	0.80
84_K	115_L	0.584	0.80
158_D	212_P	0.582	0.80
159_Q	238_R	0.582	0.80
149_D	158_D	0.579	0.80
82_I	86_H	0.575	0.79
157_H	216_A	0.573	0.79
79_T	101_T	0.572	0.79
214_L	221_M	0.571	0.79
17_M	21_A	0.571	0.79
65_C	69_T	0.570	0.79
96_R	260_Y	0.569	0.79
25_A	34_V	0.565	0.78
223_G	236_Y	0.564	0.78
233_H	241_F	0.562	0.78
158_D	199_A	0.562	0.78
247_L	251_Q	0.561	0.78
123_A	259_V	0.561	0.78
99_V	123_A	0.561	0.78
148_E	212_P	0.560	0.77
24_L	27_R	0.559	0.77
171_T	175_I	0.556	0.77
191_E	194_P	0.556	0.77
39_H	42_D	0.552	0.76
186_H	189_E	0.550	0.76
221_M	232_R	0.549	0.76
155_L	211_L	0.549	0.76
117_E	257_Q	0.547	0.76
189_E	195_G	0.545	0.76
37_I	62_I	0.543	0.75
21_A	39_H	0.542	0.75
192_I	195_G	0.542	0.75
122_G	125_I	0.542	0.75
176_S	181_E	0.539	0.75
132_G	235_S	0.538	0.75
173_E	184_Q	0.537	0.75
72_D	95_V	0.536	0.74
213_G	228_T	0.535	0.74
256_D	260_Y	0.534	0.74
224_M	243_S	0.534	0.74
169_L	172_A	0.531	0.74
183_Q	186_H	0.531	0.74
252_V	260_Y	0.530	0.74
213_G	219_E	0.529	0.73
136_M	220_V	0.528	0.73
8_L	249_V	0.527	0.73
151_E	223_G	0.527	0.73
136_M	140_S	0.525	0.73
153_I	208_S	0.525	0.73
25_A	28_T	0.524	0.73
59_Y	64_A	0.524	0.73
99_V	104_F	0.523	0.73
129_F	251_Q	0.523	0.73
196_A	225_D	0.519	0.72
161_L	193_L	0.519	0.72
38_D	42_D	0.516	0.72
63_H	85_V	0.516	0.72
226_G	236_Y	0.515	0.71
262_L	265_I	0.512	0.71
247_L	250_E	0.512	0.71
134_I	263_E	0.511	0.71
217_H	236_Y	0.511	0.71
82_I	85_V	0.511	0.71
63_H	94_G	0.510	0.71
111_E	115_L	0.508	0.70
189_E	203_G	0.507	0.70
142_M	146_Y	0.506	0.70
8_L	73_V	0.504	0.70
9_V	95_V	0.504	0.70
173_E	186_H	0.503	0.70
171_T	218_Q	0.503	0.70
6_I	249_V	0.501	0.69
156_H	218_Q	0.500	0.69

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
4ywjA	3	0.9588	100	0.17	Contact Map
1vm6A	4	0.8052	100	0.184	Contact Map
1p9lA	4	0.9064	100	0.206	Contact Map
1dihA	4	0.9738	100	0.229	Contact Map
3ijpA	4	0.9625	100	0.258	Contact Map
3qy9A	3	0.8951	100	0.409	Contact Map
4f3yA	4	0.9663	100	0.45	Contact Map
3wb9A	5	0.9139	100	0.515	Contact Map
1j5pA	2	0.8352	100	0.604	Contact Map
3wycA	2	0.9326	100	0.614	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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