RMLB - BACSU - GREMLIN Contacts

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RMLB - dTDP-glucose 4,6-dehydratase

UniProt:	P39630	Sequences: MAKSYLITGGAGFIGLTFTKLMLRETDARITVLDKLTYASHPEEMEKLKQNSRFRFVKGDISVQEDIDRAFDETYDGVIHFAAESHVDRSISQAEPFITTNVMGTYRLAEAVLKGKAKKLIHISTDEVYGDLKADDPAFTETTPLSPNNPYSASKASSDLLVLSYVKTHKLPAIITRCSNNYGPYQHSEKMIPTIIRHAKQGLPVPLYGDGLQIRDWLFAEDHCRAIKLILEKGTDGEVYNIGGGNERTNKELASVILKHLGCEELFAHVEDRKGHDRRYAINASKLKNELGWRQEVTFEEGIARTIQWYTDNDR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	315 (287)
Sequences:	60677 (41794)
Seq/√Len:	2467.0

ECOLI - RMLB2 GM4D RMLB1 GALE HLDD YBJS FCL YFCH RMLD YEEZ QOR2 YBJT ARNA YRAR
BACSU - RMLB YTCB YFNG GALE SPSK YFHF YTBQ YESF YWNB YHFK YHEG EPSC
HALSA - Q9HSU9 Q9HSV1 Q9HRD1 Q9HS50 Q9HSE7 Q9HML4 Q9HSQ3 Q9HNV3 Q9HPF1 Q9HR86
SULSO - Q980W1 Q97VN5 Q7LXG5 Q97XJ9 Q97XG1 Q7LXE8 Q97UM3 Q7LX44 Q7LXE6 Q97XF9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
10_G	32_V	3.166	1.00
4_S	29_R	2.829	1.00
256_V	300_E	2.714	1.00
21_L	225_R	2.634	1.00
226_A	242_I	2.568	1.00
238_E	286_K	2.473	1.00
68_D	114_K	2.417	1.00
99_T	103_M	2.404	1.00
240_Y	290_E	2.348	1.00
123_I	227_I	2.278	1.00
77_G	231_L	2.277	1.00
80_H	122_H	2.151	1.00
33_L	59_G	2.131	1.00
93_Q	96_P	2.122	1.00
259_K	300_E	2.121	1.00
298_T	301_E	2.107	1.00
8_T	80_H	2.090	1.00
119_K	172_P	2.089	1.00
21_L	25_E	2.046	1.00
63_V	66_D	2.040	1.00
21_L	228_K	2.005	1.00
79_I	231_L	1.992	1.00
182_Y	302_G	1.988	1.00
288_K	294_R	1.957	1.00
225_R	296_E	1.953	1.00
4_S	31_T	1.917	1.00
251_K	255_S	1.892	1.00
6_L	75_Y	1.887	1.00
140_T	143_T	1.879	1.00
260_H	304_A	1.873	1.00
7_I	19_T	1.848	1.00
178_C	227_I	1.845	1.00
31_T	55_R	1.827	1.00
25_E	232_E	1.821	1.00
59_G	66_D	1.819	1.00
256_V	259_K	1.801	1.00
221_E	305_R	1.795	1.00
31_T	75_Y	1.788	1.00
225_R	229_L	1.754	1.00
162_V	173_A	1.747	1.00
29_R	55_R	1.728	1.00
249_T	252_E	1.714	1.00
176_T	230_I	1.672	1.00
31_T	57_V	1.665	1.00
18_F	224_C	1.653	1.00
245_G	288_K	1.625	1.00
106_Y	161_L	1.616	1.00
18_F	79_I	1.599	1.00
62_S	99_T	1.590	1.00
124_S	128_V	1.587	1.00
106_Y	110_E	1.579	1.00
219_F	305_R	1.575	1.00
36_L	56_F	1.542	1.00
64_Q	110_E	1.534	1.00
68_D	111_A	1.534	1.00
25_E	228_K	1.532	1.00
197_R	201_Q	1.530	1.00
103_M	106_Y	1.489	1.00
98_I	157_S	1.487	1.00
21_L	24_R	1.473	1.00
18_F	81_F	1.466	1.00
228_K	232_E	1.463	1.00
287_L	291_L	1.457	1.00
156_A	160_L	1.449	1.00
141_E	286_K	1.447	1.00
5_Y	28_A	1.445	1.00
256_V	260_H	1.443	1.00
178_C	223_H	1.433	1.00
204_P	268_A	1.431	1.00
219_F	302_G	1.419	1.00
14_I	181_N	1.409	1.00
21_L	224_C	1.403	1.00
76_D	118_K	1.399	1.00
284_A	288_K	1.395	1.00
105_T	158_S	1.392	1.00
113_L	169_H	1.390	1.00
95_E	99_T	1.388	1.00
129_Y	241_N	1.383	1.00
151_Y	155_K	1.378	1.00
176_T	227_I	1.375	1.00
119_K	174_I	1.365	1.00
80_H	105_T	1.356	1.00
81_F	123_I	1.351	1.00
229_L	233_K	1.351	1.00
79_I	227_I	1.344	1.00
252_E	255_S	1.338	1.00
123_I	178_C	1.335	1.00
78_V	112_V	1.329	1.00
145_L	156_A	1.321	1.00
220_A	224_C	1.320	1.00
19_T	32_V	1.311	1.00
179_S	282_I	1.309	1.00
101_N	154_S	1.308	1.00
64_Q	107_R	1.303	1.00
68_D	115_G	1.301	1.00
28_A	232_E	1.280	1.00
25_E	28_A	1.268	1.00
251_K	269_H	1.260	1.00
160_L	163_L	1.249	1.00
198_H	203_L	1.248	1.00
218_L	223_H	1.237	1.00
20_K	185_Y	1.230	1.00
10_G	19_T	1.220	1.00
301_E	304_A	1.218	1.00
206_P	268_A	1.215	1.00
108_L	120_L	1.205	1.00
64_Q	68_D	1.204	1.00
66_D	69_R	1.200	1.00
177_R	239_V	1.196	1.00
301_E	305_R	1.193	1.00
214_I	247_E	1.189	1.00
216_D	245_G	1.178	1.00
110_E	113_L	1.165	1.00
122_H	158_S	1.159	1.00
109_A	165_Y	1.151	1.00
22_M	228_K	1.150	1.00
61_I	104_G	1.146	1.00
140_T	283_N	1.146	1.00
11_A	34_D	1.139	1.00
163_L	175_I	1.129	1.00
110_E	114_K	1.117	1.00
5_Y	22_M	1.115	1.00
284_A	295_Q	1.108	1.00
23_L	54_F	1.107	1.00
71_F	75_Y	1.107	1.00
159_D	177_R	1.106	1.00
153_A	157_S	1.101	1.00
72_D	115_G	1.097	1.00
61_I	82_A	1.096	1.00
112_V	120_L	1.090	1.00
69_R	72_D	1.086	1.00
13_F	183_G	1.080	1.00
71_F	78_V	1.078	1.00
17_T	221_E	1.076	1.00
20_K	24_R	1.075	1.00
6_L	33_L	1.075	1.00
248_R	299_F	1.074	1.00
21_L	221_E	1.073	1.00
226_A	287_L	1.072	1.00
238_E	290_E	1.069	1.00
172_P	236_D	1.066	1.00
32_V	54_F	1.065	1.00
121_I	176_T	1.065	1.00
163_L	239_V	1.060	1.00
136_D	140_T	1.059	1.00
122_H	162_V	1.057	1.00
166_V	173_A	1.053	1.00
286_K	290_E	1.047	1.00
161_L	164_S	1.043	1.00
136_D	143_T	1.034	1.00
177_R	241_N	1.029	1.00
139_F	143_T	1.029	1.00
212_L	251_K	1.028	1.00
258_L	264_E	1.026	1.00
142_T	286_K	1.024	1.00
81_F	227_I	1.023	1.00
225_R	293_W	1.012	1.00
219_F	222_D	1.011	1.00
68_D	72_D	1.007	1.00
222_D	244_G	1.004	1.00
109_A	120_L	1.003	1.00
5_Y	77_G	0.994	1.00
182_Y	219_F	0.993	1.00
122_H	175_I	0.991	1.00
4_S	76_D	0.990	1.00
204_P	266_L	0.990	1.00
255_S	258_L	0.990	1.00
191_M	195_I	0.982	1.00
163_L	173_A	0.979	1.00
16_L	185_Y	0.979	1.00
300_E	304_A	0.977	1.00
23_L	53_R	0.975	1.00
17_T	220_A	0.963	1.00
100_T	104_G	0.962	1.00
4_S	75_Y	0.960	1.00
164_S	168_T	0.956	1.00
212_L	249_T	0.955	1.00
112_V	117_A	0.951	1.00
260_H	307_I	0.949	1.00
84_E	100_T	0.949	1.00
181_N	223_H	0.943	1.00
243_G	282_I	0.934	1.00
247_E	279_R	0.934	1.00
8_T	82_A	0.933	1.00
111_A	115_G	0.931	1.00
261_L	307_I	0.930	1.00
13_F	220_A	0.929	1.00
247_E	281_A	0.924	1.00
240_Y	286_K	0.923	1.00
107_R	110_E	0.923	1.00
229_L	291_L	0.922	1.00
174_I	230_I	0.922	1.00
97_F	154_S	0.918	1.00
120_L	162_V	0.916	1.00
33_L	67_I	0.909	1.00
98_I	102_V	0.906	1.00
124_S	159_D	0.903	1.00
113_L	171_L	0.901	1.00
67_I	111_A	0.899	1.00
103_M	107_R	0.898	1.00
57_V	70_A	0.888	1.00
8_T	108_L	0.887	1.00
65_E	68_D	0.885	1.00
214_I	249_T	0.884	1.00
36_L	39_A	0.884	1.00
71_F	111_A	0.881	1.00
163_L	167_K	0.879	1.00
65_E	69_R	0.879	1.00
31_T	74_T	0.878	1.00
181_N	218_L	0.877	1.00
248_R	252_E	0.875	1.00
270_V	273_R	0.872	1.00
66_D	70_A	0.871	1.00
18_F	22_M	0.871	1.00
197_R	200_K	0.870	1.00
35_K	60_D	0.870	1.00
109_A	162_V	0.869	1.00
271_E	274_K	0.867	1.00
4_S	28_A	0.865	1.00
5_Y	79_I	0.863	1.00
243_G	284_A	0.855	1.00
226_A	293_W	0.854	1.00
109_A	161_L	0.846	1.00
27_D	30_I	0.841	1.00
260_H	303_I	0.841	1.00
17_T	20_K	0.837	1.00
23_L	30_I	0.835	1.00
190_K	193_P	0.832	1.00
176_T	242_I	0.831	1.00
19_T	30_I	0.831	1.00
102_V	157_S	0.830	1.00
98_I	103_M	0.830	1.00
126_D	179_S	0.830	1.00
230_I	291_L	0.828	1.00
175_I	239_V	0.825	1.00
111_A	114_K	0.825	1.00
34_D	56_F	0.824	1.00
37_T	58_K	0.822	1.00
214_I	279_R	0.817	1.00
229_L	232_E	0.814	1.00
71_F	115_G	0.813	1.00
64_Q	114_K	0.810	1.00
33_L	70_A	0.807	1.00
28_A	76_D	0.805	1.00
36_L	58_K	0.803	1.00
77_G	119_K	0.802	1.00
260_H	300_E	0.802	1.00
157_S	160_L	0.802	1.00
235_T	238_E	0.799	1.00
17_T	21_L	0.797	1.00
258_L	263_C	0.791	1.00
225_R	228_K	0.787	1.00
194_T	198_H	0.787	1.00
33_L	66_D	0.786	1.00
5_Y	231_L	0.780	1.00
118_K	172_P	0.777	1.00
107_R	111_A	0.776	1.00
194_T	197_R	0.774	1.00
17_T	224_C	0.770	1.00
230_I	287_L	0.770	1.00
62_S	100_T	0.769	1.00
211_G	251_K	0.769	1.00
255_S	259_K	0.759	1.00
105_T	162_V	0.757	1.00
245_G	284_A	0.756	1.00
248_R	253_L	0.754	1.00
71_F	112_V	0.752	1.00
6_L	59_G	0.750	1.00
285_S	288_K	0.749	1.00
235_T	290_E	0.746	1.00
128_V	159_D	0.745	1.00
14_I	223_H	0.744	1.00
229_L	292_G	0.743	1.00
18_F	227_I	0.738	1.00
78_V	108_L	0.738	1.00
147_P	152_S	0.734	1.00
105_T	109_A	0.734	1.00
113_L	170_K	0.734	1.00
165_Y	169_H	0.733	1.00
84_E	96_P	0.729	1.00
141_E	287_L	0.725	1.00
94_A	153_A	0.721	1.00
199_A	258_L	0.719	1.00
184_P	305_R	0.715	1.00
229_L	293_W	0.713	1.00
98_I	154_S	0.713	1.00
96_P	99_T	0.708	1.00
252_E	256_V	0.707	1.00
80_H	108_L	0.707	1.00
137_P	143_T	0.705	1.00
160_L	164_S	0.704	1.00
179_S	243_G	0.700	1.00
104_G	107_R	0.699	1.00
110_E	165_Y	0.694	1.00
91_I	150_P	0.693	1.00
206_P	270_V	0.690	1.00
242_I	287_L	0.690	1.00
84_E	97_F	0.689	1.00
78_V	120_L	0.687	1.00
246_N	298_T	0.685	1.00
22_M	231_L	0.684	1.00
128_V	145_L	0.677	1.00
196_I	200_K	0.676	1.00
60_D	63_V	0.675	1.00
216_D	244_G	0.675	1.00
126_D	282_I	0.674	1.00
267_F	270_V	0.674	1.00
138_A	283_N	0.673	1.00
51_N	54_F	0.666	1.00
125_T	155_K	0.663	1.00
84_E	101_N	0.662	1.00
16_L	20_K	0.661	1.00
6_L	78_V	0.661	1.00
256_V	299_F	0.660	1.00
157_S	161_L	0.659	1.00
222_D	225_R	0.659	1.00
90_S	97_F	0.658	1.00
266_L	269_H	0.658	1.00
63_V	67_I	0.657	1.00
149_N	152_S	0.653	1.00
184_P	219_F	0.653	1.00
253_L	299_F	0.650	1.00
268_A	271_E	0.649	1.00
4_S	74_T	0.648	1.00
158_S	162_V	0.646	1.00
288_K	295_Q	0.644	1.00
29_R	53_R	0.642	1.00
277_D	280_Y	0.641	1.00
178_C	181_N	0.637	1.00
224_C	228_K	0.636	1.00
67_I	107_R	0.635	1.00
154_S	158_S	0.635	1.00
96_P	100_T	0.634	1.00
147_P	156_A	0.630	1.00
196_I	307_I	0.630	1.00
180_N	215_R	0.628	1.00
258_L	265_E	0.627	1.00
25_E	225_R	0.623	1.00
141_E	241_N	0.620	1.00
196_I	257_I	0.620	1.00
153_A	160_L	0.619	1.00
113_L	165_Y	0.619	1.00
133_K	136_D	0.616	1.00
222_D	296_E	0.615	1.00
132_L	139_F	0.614	1.00
133_K	143_T	0.613	1.00
213_Q	250_N	0.608	1.00
98_I	153_A	0.606	1.00
83_A	101_N	0.605	1.00
25_E	229_L	0.604	1.00
28_A	77_G	0.604	1.00
101_N	151_Y	0.602	1.00
216_D	247_E	0.602	1.00
67_I	71_F	0.598	1.00
77_G	118_K	0.598	1.00
287_L	290_E	0.598	1.00
6_L	70_A	0.596	1.00
173_A	237_G	0.591	1.00
125_T	128_V	0.591	1.00
162_V	175_I	0.591	1.00
105_T	122_H	0.590	1.00
121_I	231_L	0.588	1.00
94_A	150_P	0.585	1.00
150_P	153_A	0.582	1.00
153_A	164_S	0.581	1.00
176_T	226_A	0.580	1.00
202_G	205_V	0.580	1.00
138_A	281_A	0.579	1.00
6_L	71_F	0.578	1.00
150_P	154_S	0.578	1.00
246_N	300_E	0.576	1.00
57_V	66_D	0.572	1.00
214_I	281_A	0.570	1.00
77_G	121_I	0.567	1.00
130_G	146_S	0.567	1.00
190_K	194_T	0.566	1.00
80_H	120_L	0.563	1.00
161_L	165_Y	0.563	1.00
121_I	227_I	0.560	1.00
127_E	152_S	0.560	1.00
184_P	188_S	0.559	1.00
193_P	197_R	0.557	1.00
151_Y	154_S	0.556	1.00
32_V	56_F	0.556	1.00
155_K	158_S	0.555	1.00
128_V	177_R	0.555	1.00
258_L	261_L	0.555	1.00
17_T	185_Y	0.555	1.00
81_F	178_C	0.551	1.00
254_A	258_L	0.550	1.00
164_S	167_K	0.550	1.00
248_R	256_V	0.548	1.00
296_E	301_E	0.546	1.00
182_Y	244_G	0.546	1.00
121_I	230_I	0.546	1.00
11_A	36_L	0.546	1.00
223_H	242_I	0.545	1.00
207_L	269_H	0.541	1.00
256_V	303_I	0.540	1.00
20_K	221_E	0.539	1.00
31_T	70_A	0.538	1.00
19_T	23_L	0.537	1.00
70_A	75_Y	0.536	1.00
199_A	205_V	0.536	1.00
202_G	263_C	0.534	1.00
184_P	221_E	0.533	1.00
112_V	115_G	0.531	1.00
140_T	285_S	0.531	1.00
145_L	160_L	0.531	1.00
18_F	228_K	0.524	1.00
179_S	216_D	0.524	1.00
219_F	306_T	0.521	1.00
270_V	274_K	0.519	1.00
240_Y	287_L	0.519	1.00
36_L	40_S	0.518	1.00
123_I	176_T	0.517	1.00
7_I	22_M	0.516	1.00
228_K	231_L	0.515	1.00
192_I	195_I	0.511	1.00
11_A	32_V	0.510	1.00
195_I	199_A	0.510	1.00
302_G	305_R	0.509	1.00
145_L	239_V	0.508	1.00
183_G	220_A	0.507	1.00
109_A	113_L	0.506	1.00
287_L	295_Q	0.506	1.00
27_D	53_R	0.504	1.00
234_G	237_G	0.502	1.00
9_G	12_G	0.500	1.00
174_I	240_Y	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
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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
1sb8A	2	0.9841	100	0.173	Contact Map
3rufA	2	0.981	100	0.174	Contact Map
2hunA	2	0.9905	100	0.183	Contact Map
1orrA	3	0.9746	100	0.188	Contact Map
3m2pA	2	0.927	100	0.188	Contact Map
1oc2A	2	0.9841	100	0.191	Contact Map
1rpnA	4	0.9841	100	0.192	Contact Map
2q1sA	2	0.9397	100	0.192	Contact Map
1r6dA	2	0.9841	100	0.195	Contact Map
4wkgA	5	0.9714	100	0.196	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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