Q97WF2 - SULSO - GREMLIN Contacts

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Q97WF2 - Dihydrodipicolinate synthase (DapA-1)

UniProt:	Q97WF2	Sequences: MKENISALVTPYDDKENINTEALQQLLDFLIKKGIKDFWVLGTSGEFNMLSQDERILVVSKIREMVKGKIYVGVNENSTRNSLILAKKYYDLGVDYIFSVPPIYHKPSEKGLISYFSELRNAIDLPLFIYNIPSFTGYNVPLHIIEKLAREYVLDGMKYSTTDFVSFLKYLKALKGVNKNFKVFIGEDRMILSALILDTDGAVSGISNLVPELVTNLFLEFDRGNIQRAIEIQRILNKLVDVVSLGDYPSGIKIGLRYRGINVGSVRKPLLEDSRAEGEIYNVLKELGI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	289 (279)
Sequences:	10349 (6782)
Seq/√Len:	406.0

ECOLI - DAPA YAGE YJHH NANA
BACSU - DAPA KDGD
HALSA - DAPAL
SULSO - Q97WF2 Q97UF0 Q97UI2 KDGA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
225_N	228_R	3.734	1.00
28_D	65_M	3.351	1.00
113_I	147_K	3.107	1.00
13_D	17_N	3.064	1.00
258_Y	281_Y	2.979	1.00
24_Q	65_M	2.852	1.00
20_T	57_L	2.775	1.00
24_Q	61_K	2.698	1.00
20_T	61_K	2.649	1.00
90_Y	124_D	2.604	1.00
56_I	88_K	2.602	1.00
220_E	228_R	2.506	1.00
74_V	86_A	2.486	1.00
194_A	199_T	2.367	1.00
86_A	97_I	2.232	1.00
228_R	231_E	2.108	1.00
215_T	219_L	2.043	1.00
29_F	33_K	2.019	1.00
146_E	173_A	2.014	1.00
220_E	225_N	2.004	1.00
109_E	141_P	1.986	1.00
117_S	151_E	1.985	1.00
219_L	223_R	1.976	1.00
5_I	37_D	1.970	1.00
195_L	221_F	1.922	1.00
281_Y	285_K	1.917	1.00
19_N	22_A	1.904	1.00
57_L	60_S	1.903	1.00
117_S	121_N	1.903	1.00
109_E	144_I	1.876	1.00
36_K	219_L	1.867	1.00
52_Q	81_N	1.862	1.00
121_N	151_E	1.855	1.00
79_T	115_Y	1.848	1.00
110_K	114_S	1.842	1.00
213_L	235_I	1.834	1.00
33_K	212_E	1.828	1.00
139_N	166_S	1.817	1.00
113_I	117_S	1.796	1.00
27_L	62_I	1.768	1.00
24_Q	64_E	1.758	1.00
28_D	32_K	1.754	1.00
110_K	147_K	1.751	1.00
57_L	61_K	1.714	1.00
23_L	62_I	1.679	1.00
60_S	64_E	1.672	1.00
63_R	70_I	1.653	1.00
257_R	264_G	1.651	1.00
128_F	156_G	1.650	1.00
114_S	117_S	1.638	1.00
6_S	207_S	1.623	1.00
22_A	25_Q	1.620	1.00
61_K	65_M	1.600	1.00
145_I	157_M	1.591	1.00
99_S	119_L	1.571	1.00
40_V	62_I	1.570	1.00
86_A	123_I	1.542	1.00
141_P	144_I	1.529	1.00
59_V	72_V	1.500	1.00
278_G	281_Y	1.486	1.00
231_E	235_I	1.484	1.00
54_E	267_R	1.480	1.00
23_L	58_V	1.452	1.00
82_S	119_L	1.424	1.00
90_Y	125_L	1.412	1.00
90_Y	123_I	1.401	1.00
114_S	118_E	1.397	1.00
11_P	23_L	1.394	1.00
245_L	279_E	1.384	1.00
254_I	258_Y	1.374	1.00
88_K	91_D	1.363	1.00
216_N	220_E	1.360	1.00
5_I	39_W	1.356	1.00
61_K	64_E	1.354	1.00
36_K	215_T	1.352	1.00
275_R	278_G	1.347	1.00
278_G	282_N	1.344	1.00
9_V	256_L	1.337	1.00
113_I	151_E	1.325	1.00
76_E	82_S	1.319	1.00
78_S	81_N	1.317	1.00
52_Q	84_I	1.314	1.00
216_N	228_R	1.314	1.00
169_K	173_A	1.311	1.00
29_F	261_I	1.297	1.00
212_E	216_N	1.295	1.00
274_S	277_E	1.295	1.00
83_L	118_E	1.290	1.00
56_I	84_I	1.284	1.00
171_L	183_V	1.281	1.00
52_Q	88_K	1.270	1.00
221_F	226_I	1.267	1.00
120_R	151_E	1.265	1.00
128_F	203_V	1.251	1.00
118_E	268_K	1.245	1.00
4_N	35_I	1.245	1.00
56_I	60_S	1.243	1.00
257_R	262_N	1.238	1.00
53_D	57_L	1.232	1.00
182_K	200_D	1.225	1.00
71_Y	96_Y	1.217	1.00
27_L	66_V	1.216	1.00
97_I	123_I	1.214	1.00
226_I	230_I	1.206	1.00
218_F	222_D	1.188	1.00
59_V	89_Y	1.171	1.00
120_R	153_V	1.170	1.00
118_E	122_A	1.151	1.00
46_E	253_K	1.142	1.00
17_N	80_R	1.141	1.00
60_S	88_K	1.135	1.00
60_S	92_L	1.131	1.00
192_L	229_A	1.129	1.00
13_D	19_N	1.129	1.00
41_L	58_V	1.126	1.00
118_E	121_N	1.111	1.00
147_K	150_R	1.107	1.00
87_K	91_D	1.106	1.00
255_G	284_L	1.101	1.00
66_V	70_I	1.097	1.00
56_I	91_D	1.096	1.00
87_K	122_A	1.094	1.00
20_T	24_Q	1.087	1.00
216_N	219_L	1.087	1.00
12_Y	50_L	1.077	1.00
227_Q	230_I	1.076	1.00
63_R	95_D	1.071	1.00
71_Y	128_F	1.064	1.00
282_N	285_K	1.063	1.00
97_I	125_L	1.061	1.00
169_K	241_D	1.058	1.00
254_I	257_R	1.058	1.00
254_I	281_Y	1.058	1.00
31_I	66_V	1.056	1.00
88_K	92_L	1.053	1.00
196_I	226_I	1.053	1.00
21_E	24_Q	1.047	1.00
273_D	280_I	1.045	1.00
83_L	87_K	1.031	1.00
143_H	173_A	1.030	1.00
27_L	65_M	1.030	1.00
242_V	283_V	1.028	1.00
14_D	265_S	1.011	1.00
72_V	94_V	1.010	1.00
110_K	274_S	1.010	1.00
148_L	154_L	1.009	1.00
167_F	194_A	1.002	1.00
74_V	89_Y	1.001	1.00
110_K	113_I	1.001	1.00
52_Q	85_L	0.998	1.00
273_D	277_E	0.997	1.00
6_S	30_L	0.995	1.00
279_E	282_N	0.991	1.00
6_S	35_I	0.988	1.00
84_I	88_K	0.986	1.00
120_R	127_L	0.980	1.00
228_R	232_I	0.979	1.00
22_A	263_V	0.978	1.00
97_I	127_L	0.977	1.00
220_E	232_I	0.977	1.00
114_S	271_L	0.976	1.00
22_A	262_N	0.970	1.00
4_N	215_T	0.969	1.00
14_D	263_V	0.962	1.00
83_L	122_A	0.961	1.00
230_I	234_R	0.954	1.00
206_I	240_V	0.952	1.00
149_A	181_F	0.945	1.00
113_I	144_I	0.938	1.00
24_Q	28_D	0.937	1.00
129_I	145_I	0.934	1.00
195_L	218_F	0.931	1.00
55_R	85_L	0.930	1.00
196_I	230_I	0.928	1.00
63_R	94_V	0.928	1.00
101_P	138_Y	0.928	1.00
112_L	138_Y	0.923	1.00
109_E	147_K	0.920	1.00
26_L	256_L	0.917	1.00
16_E	80_R	0.917	1.00
258_Y	285_K	0.917	1.00
8_L	30_L	0.905	1.00
131_N	139_N	0.903	1.00
142_L	173_A	0.902	1.00
76_E	81_N	0.902	1.00
75_N	100_V	0.902	1.00
28_D	31_I	0.901	1.00
63_R	92_L	0.900	1.00
36_K	218_F	0.900	1.00
39_W	98_F	0.897	1.00
53_D	84_I	0.896	1.00
84_I	87_K	0.895	1.00
146_E	150_R	0.892	1.00
87_K	90_Y	0.888	1.00
227_Q	231_E	0.888	1.00
16_E	268_K	0.884	1.00
196_I	221_F	0.883	1.00
70_I	94_V	0.882	1.00
257_R	263_V	0.875	1.00
204_S	207_S	0.864	1.00
74_V	97_I	0.862	1.00
120_R	154_L	0.857	1.00
276_A	279_E	0.856	1.00
210_V	239_L	0.850	1.00
12_Y	267_R	0.848	1.00
79_T	83_L	0.848	1.00
99_S	127_L	0.847	1.00
35_I	211_P	0.846	1.00
27_L	61_K	0.845	1.00
184_F	201_G	0.843	1.00
191_I	202_A	0.834	1.00
217_L	232_I	0.834	1.00
185_I	194_A	0.832	1.00
237_N	241_D	0.831	1.00
224_G	227_Q	0.830	1.00
21_E	25_Q	0.824	1.00
40_V	58_V	0.820	1.00
216_N	232_I	0.818	1.00
53_D	56_I	0.817	1.00
8_L	38_F	0.809	1.00
142_L	169_K	0.808	1.00
33_K	211_P	0.805	1.00
264_G	272_E	0.800	1.00
233_Q	237_N	0.797	1.00
50_L	58_V	0.794	1.00
142_L	146_E	0.792	1.00
25_Q	261_I	0.792	1.00
114_S	268_K	0.787	1.00
59_V	92_L	0.786	1.00
142_L	166_S	0.785	1.00
8_L	23_L	0.783	1.00
245_L	277_E	0.781	1.00
89_Y	94_V	0.780	1.00
80_R	84_I	0.774	1.00
210_V	213_L	0.773	1.00
59_V	94_V	0.767	1.00
41_L	72_V	0.761	1.00
169_K	172_K	0.759	1.00
210_V	236_L	0.758	1.00
38_F	66_V	0.754	1.00
4_N	207_S	0.747	1.00
82_S	99_S	0.745	1.00
23_L	27_L	0.744	1.00
4_N	202_A	0.741	1.00
213_L	216_N	0.738	1.00
27_L	38_F	0.733	1.00
265_S	272_E	0.733	1.00
167_F	183_V	0.729	1.00
147_K	151_E	0.723	1.00
250_S	273_D	0.719	1.00
165_V	189_R	0.716	1.00
93_G	125_L	0.715	1.00
37_D	71_Y	0.715	1.00
193_S	196_I	0.712	1.00
132_I	136_T	0.710	1.00
217_L	221_F	0.708	1.00
109_E	143_H	0.708	1.00
151_E	154_L	0.705	1.00
56_I	85_L	0.704	1.00
79_T	118_E	0.704	1.00
13_D	265_S	0.704	1.00
266_V	270_L	0.703	1.00
43_T	104_Y	0.703	1.00
18_I	23_L	0.702	1.00
16_E	265_S	0.702	1.00
167_F	171_L	0.699	1.00
31_I	65_M	0.698	1.00
278_G	285_K	0.696	1.00
111_G	271_L	0.696	1.00
145_I	170_Y	0.695	1.00
101_P	140_V	0.695	1.00
30_L	35_I	0.694	1.00
193_S	197_L	0.693	1.00
41_L	50_L	0.693	1.00
13_D	21_E	0.692	1.00
168_L	172_K	0.691	1.00
130_Y	158_K	0.690	1.00
250_S	266_V	0.689	1.00
52_Q	56_I	0.687	1.00
256_L	259_R	0.684	1.00
56_I	92_L	0.681	1.00
192_L	221_F	0.679	0.99
4_N	218_F	0.678	0.99
19_N	262_N	0.676	0.99
74_V	99_S	0.674	0.99
139_N	163_D	0.674	0.99
223_R	228_R	0.670	0.99
129_I	140_V	0.668	0.99
212_E	259_R	0.667	0.99
140_V	145_I	0.667	0.99
69_K	95_D	0.665	0.99
168_L	197_L	0.660	0.99
279_E	283_V	0.658	0.99
18_I	58_V	0.657	0.99
258_Y	284_L	0.656	0.99
131_N	159_Y	0.656	0.99
124_D	153_V	0.656	0.99
178_N	181_F	0.654	0.99
26_L	30_L	0.653	0.99
117_S	147_K	0.653	0.99
29_F	259_R	0.650	0.99
56_I	89_Y	0.649	0.99
60_S	91_D	0.648	0.99
220_E	223_R	0.645	0.99
155_D	182_K	0.643	0.99
108_S	250_S	0.643	0.99
168_L	193_S	0.641	0.99
51_S	80_R	0.641	0.99
172_K	234_R	0.641	0.99
47_F	73_G	0.637	0.99
192_L	226_I	0.636	0.99
108_S	111_G	0.636	0.99
40_V	70_I	0.633	0.99
30_L	33_K	0.632	0.99
246_G	277_E	0.628	0.99
8_L	62_I	0.627	0.99
254_I	266_V	0.627	0.99
256_L	261_I	0.626	0.99
191_I	217_L	0.625	0.99
143_H	169_K	0.624	0.99
108_S	246_G	0.620	0.99
140_V	144_I	0.617	0.99
143_H	146_E	0.616	0.99
34_G	215_T	0.615	0.99
5_I	71_Y	0.611	0.99
59_V	63_R	0.610	0.99
81_N	84_I	0.610	0.99
150_R	180_N	0.610	0.99
48_N	105_H	0.609	0.99
232_I	235_I	0.609	0.99
266_V	271_L	0.609	0.99
166_S	170_Y	0.606	0.99
219_L	222_D	0.603	0.99
128_F	155_D	0.603	0.99
195_L	222_D	0.602	0.99
68_G	95_D	0.602	0.99
110_K	271_L	0.601	0.99
13_D	16_E	0.601	0.99
172_K	238_K	0.599	0.99
193_S	233_Q	0.598	0.99
209_L	255_G	0.598	0.99
12_Y	54_E	0.598	0.99
63_R	67_K	0.597	0.99
150_R	178_N	0.597	0.99
246_G	274_S	0.596	0.99
20_T	65_M	0.594	0.99
144_I	147_K	0.592	0.99
18_I	61_K	0.592	0.99
192_L	233_Q	0.590	0.99
242_V	279_E	0.589	0.99
31_I	68_G	0.588	0.99
171_L	200_D	0.587	0.99
170_Y	183_V	0.587	0.99
163_D	166_S	0.587	0.99
94_V	125_L	0.585	0.99
41_L	55_R	0.582	0.98
159_Y	167_F	0.580	0.98
191_I	214_V	0.580	0.98
115_Y	118_E	0.573	0.98
41_L	59_V	0.571	0.98
168_L	233_Q	0.568	0.98
156_G	182_K	0.567	0.98
83_L	119_L	0.565	0.98
187_E	190_M	0.564	0.98
63_R	68_G	0.561	0.98
121_N	153_V	0.557	0.98
231_E	234_R	0.557	0.98
53_D	88_K	0.556	0.98
255_G	280_I	0.553	0.98
255_G	258_Y	0.553	0.98
71_Y	98_F	0.551	0.98
63_R	66_V	0.551	0.98
8_L	27_L	0.550	0.98
28_D	67_K	0.550	0.98
142_L	170_Y	0.550	0.98
101_P	116_F	0.549	0.98
254_I	273_D	0.545	0.98
247_D	251_G	0.544	0.98
39_W	71_Y	0.543	0.98
192_L	196_I	0.543	0.98
31_I	67_K	0.539	0.97
64_E	67_K	0.538	0.97
221_F	229_A	0.537	0.97
7_A	205_G	0.535	0.97
35_I	215_T	0.535	0.97
99_S	116_F	0.535	0.97
17_N	57_L	0.533	0.97
128_F	182_K	0.531	0.97
206_I	214_V	0.531	0.97
86_A	119_L	0.531	0.97
80_R	118_E	0.529	0.97
243_V	252_I	0.529	0.97
251_G	273_D	0.527	0.97
191_I	218_F	0.524	0.97
9_V	252_I	0.524	0.97
26_L	29_F	0.523	0.97
43_T	130_Y	0.522	0.97
146_E	178_N	0.521	0.97
213_L	232_I	0.521	0.97
275_R	281_Y	0.521	0.97
164_F	190_M	0.521	0.97
85_L	89_Y	0.519	0.97
51_S	54_E	0.519	0.97
117_S	150_R	0.518	0.97
209_L	256_L	0.517	0.97
206_I	210_V	0.516	0.97
14_D	262_N	0.516	0.97
205_G	252_I	0.516	0.97
156_G	181_F	0.516	0.97
116_F	154_L	0.514	0.97
171_L	197_L	0.511	0.97
239_L	243_V	0.507	0.96
90_Y	122_A	0.505	0.96
29_F	211_P	0.504	0.96
209_L	252_I	0.503	0.96
83_L	123_I	0.502	0.96
49_M	79_T	0.500	0.96
62_I	66_V	0.500	0.96

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
4oe7A	3	1	100	0.047	Contact Map
3qzeA	2	0.9896	100	0.052	Contact Map
3si9A	3	0.9896	100	0.052	Contact Map
2ojpA	2	0.9827	100	0.053	Contact Map
3na8A	3	0.9862	100	0.054	Contact Map
3cprA	3	0.9792	100	0.054	Contact Map
1o5kA	3	0.9931	100	0.054	Contact Map
3l21A	5	0.9792	100	0.054	Contact Map
4i7wA	3	0.9862	100	0.055	Contact Map
4pfmA	2	0.9862	100	0.056	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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