Q7LXE6 - SULSO - GREMLIN Contacts

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Q7LXE6 - dTDP-4-dehydrorhamnose reductase (RfbD-1)

UniProt:	Q7LXE6	Sequences: MEDFIIKTRPDVIINTAAMTDVDKCEVEREKAYKINAEAVKHMVRASRVVEAYFIHVSTDYVFDGTKGNYKEDDLPNPINYYGLTKLLGETFALSYDDSLVIRTSGVFRHKGFPVYVYKTLKEGKTVFAYKGYYSPISARKLASAIEELLALRKTGLLNVAGERISRYELALKIKEKFNLPGEVKEVDEVKGWTARRPFDSSLDYSKAKKILSVDFYSLDLEGMVL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	226 (212)
Sequences:	40920 (25675)
Seq/√Len:	1763.3

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
173_K	221_L	2.757	1.00
158_L	211_I	2.741	1.00
34_K	38_E	2.628	1.00
28_E	31_K	2.584	1.00
156_G	207_K	2.494	1.00
145_A	160_V	2.368	1.00
12_V	150_L	2.259	1.00
219_L	222_E	2.204	1.00
104_T	146_I	2.187	1.00
144_S	217_Y	2.179	1.00
126_T	185_K	2.165	1.00
57_V	146_I	2.156	1.00
209_K	215_D	2.098	1.00
206_S	210_K	2.087	1.00
168_Y	172_L	2.053	1.00
128_F	185_K	2.050	1.00
102_I	149_L	2.010	1.00
71_K	74_D	1.947	1.00
144_S	148_E	1.936	1.00
14_I	150_L	1.933	1.00
176_E	221_L	1.928	1.00
108_F	223_G	1.905	1.00
15_N	56_H	1.865	1.00
173_K	176_E	1.856	1.00
166_S	169_E	1.841	1.00
40_V	89_G	1.782	1.00
163_E	209_K	1.739	1.00
72_E	207_K	1.732	1.00
41_K	92_F	1.728	1.00
76_P	87_L	1.670	1.00
87_L	91_T	1.650	1.00
119_K	123_E	1.631	1.00
208_A	212_L	1.606	1.00
173_K	177_K	1.578	1.00
156_G	211_I	1.571	1.00
147_E	151_A	1.569	1.00
15_N	40_V	1.566	1.00
38_E	41_K	1.555	1.00
105_S	203_L	1.553	1.00
168_Y	186_E	1.552	1.00
41_K	45_R	1.546	1.00
16_T	57_V	1.539	1.00
133_Y	164_R	1.535	1.00
58_S	62_V	1.520	1.00
47_S	52_A	1.513	1.00
33_Y	88_L	1.474	1.00
205_Y	209_K	1.469	1.00
56_H	89_G	1.464	1.00
68_G	74_D	1.417	1.00
91_T	94_L	1.407	1.00
68_G	71_K	1.406	1.00
46_A	50_V	1.379	1.00
128_F	187_V	1.378	1.00
161_A	203_L	1.377	1.00
169_E	172_L	1.353	1.00
104_T	142_L	1.353	1.00
14_I	146_I	1.336	1.00
139_A	143_A	1.319	1.00
56_H	101_V	1.317	1.00
120_T	125_K	1.317	1.00
47_S	54_F	1.314	1.00
135_S	163_E	1.311	1.00
84_L	88_L	1.309	1.00
30_E	34_K	1.309	1.00
43_M	54_F	1.306	1.00
44_V	96_Y	1.300	1.00
13_I	47_S	1.292	1.00
207_K	211_I	1.288	1.00
70_Y	74_D	1.285	1.00
36_N	85_T	1.273	1.00
126_T	183_E	1.272	1.00
53_Y	100_L	1.272	1.00
148_E	152_L	1.270	1.00
57_V	104_T	1.268	1.00
35_I	39_A	1.265	1.00
137_I	142_L	1.261	1.00
71_K	204_D	1.259	1.00
94_L	101_V	1.258	1.00
44_V	93_A	1.250	1.00
24_K	28_E	1.248	1.00
45_R	48_R	1.245	1.00
175_K	181_P	1.242	1.00
19_M	35_I	1.235	1.00
37_A	88_L	1.235	1.00
164_R	202_S	1.228	1.00
54_F	93_A	1.223	1.00
56_H	93_A	1.221	1.00
165_I	220_D	1.209	1.00
164_R	200_D	1.194	1.00
161_A	205_Y	1.192	1.00
138_S	223_G	1.185	1.00
172_L	175_K	1.180	1.00
102_I	146_I	1.170	1.00
44_V	54_F	1.149	1.00
165_I	169_E	1.148	1.00
33_Y	37_A	1.144	1.00
63_F	159_N	1.137	1.00
48_R	99_S	1.136	1.00
218_S	222_E	1.136	1.00
140_R	218_S	1.131	1.00
116_Y	120_T	1.131	1.00
73_D	207_K	1.128	1.00
113_F	117_V	1.128	1.00
45_R	49_V	1.120	1.00
16_T	146_I	1.118	1.00
138_S	218_S	1.112	1.00
45_R	96_Y	1.111	1.00
103_R	157_L	1.109	1.00
133_Y	200_D	1.100	1.00
53_Y	153_R	1.083	1.00
94_L	157_L	1.059	1.00
58_S	90_E	1.050	1.00
107_V	142_L	1.045	1.00
158_L	207_K	1.043	1.00
205_Y	216_F	1.037	1.00
64_D	77_N	1.036	1.00
133_Y	166_S	1.034	1.00
40_V	93_A	1.027	1.00
145_A	208_A	1.009	1.00
38_E	42_H	1.008	1.00
33_Y	85_T	1.006	1.00
141_K	162_G	1.005	1.00
33_Y	38_E	1.003	1.00
160_V	208_A	1.001	1.00
206_S	209_K	0.995	1.00
46_A	49_V	0.994	1.00
62_V	76_P	0.993	1.00
100_L	149_L	0.987	1.00
29_R	84_L	0.977	1.00
144_S	218_S	0.972	1.00
149_L	212_L	0.970	1.00
108_F	138_S	0.967	1.00
175_K	182_G	0.959	1.00
66_T	70_Y	0.951	1.00
94_L	97_D	0.948	1.00
101_V	157_L	0.946	1.00
116_Y	119_K	0.944	1.00
15_N	43_M	0.933	1.00
165_I	170_L	0.928	1.00
121_L	175_K	0.927	1.00
19_M	32_A	0.915	1.00
82_Y	86_K	0.914	1.00
42_H	46_A	0.910	1.00
84_L	91_T	0.910	1.00
19_M	31_K	0.905	1.00
12_V	53_Y	0.904	1.00
148_E	151_A	0.903	1.00
72_E	208_A	0.902	1.00
48_R	96_Y	0.895	1.00
218_S	223_G	0.882	1.00
84_L	95_S	0.880	1.00
138_S	141_K	0.878	1.00
144_S	147_E	0.876	1.00
67_K	74_D	0.868	1.00
96_Y	99_S	0.868	1.00
169_E	173_K	0.863	1.00
89_G	93_A	0.861	1.00
207_K	210_K	0.853	1.00
90_E	103_R	0.851	1.00
118_Y	174_I	0.848	1.00
103_R	159_N	0.848	1.00
60_D	203_L	0.847	1.00
175_K	180_L	0.847	1.00
31_K	35_I	0.844	1.00
106_G	134_Y	0.842	1.00
110_H	138_S	0.832	1.00
40_V	44_V	0.828	1.00
60_D	105_S	0.825	1.00
88_L	91_T	0.824	1.00
101_V	155_T	0.817	1.00
25_C	32_A	0.809	1.00
163_E	205_Y	0.805	1.00
88_L	92_F	0.804	1.00
175_K	184_V	0.804	1.00
148_E	212_L	0.796	1.00
62_V	90_E	0.796	1.00
26_E	81_Y	0.792	1.00
132_G	167_R	0.791	1.00
172_L	176_E	0.787	1.00
44_V	92_F	0.786	1.00
92_F	95_S	0.785	1.00
209_K	216_F	0.785	1.00
100_L	153_R	0.778	1.00
145_A	214_V	0.778	1.00
149_L	208_A	0.777	1.00
102_I	145_A	0.775	1.00
107_V	137_I	0.772	1.00
42_H	45_R	0.768	1.00
148_E	213_S	0.767	1.00
69_N	202_S	0.765	1.00
65_G	79_I	0.764	1.00
55_I	102_I	0.764	1.00
104_T	107_V	0.757	1.00
31_K	34_K	0.754	1.00
114_P	170_L	0.750	1.00
154_K	211_I	0.750	1.00
121_L	174_I	0.749	1.00
65_G	199_F	0.747	1.00
143_A	147_E	0.742	1.00
21_D	24_K	0.741	1.00
48_R	98_D	0.738	1.00
124_G	180_L	0.736	1.00
117_V	121_L	0.736	1.00
91_T	95_S	0.735	1.00
32_A	85_T	0.734	1.00
100_L	158_L	0.734	1.00
39_A	42_H	0.733	1.00
81_Y	84_L	0.728	1.00
69_N	204_D	0.727	1.00
141_K	144_S	0.720	1.00
78_P	87_L	0.717	1.00
55_I	146_I	0.716	1.00
102_I	160_V	0.696	1.00
71_K	206_S	0.691	1.00
177_K	221_L	0.683	1.00
100_L	155_T	0.679	1.00
119_K	122_K	0.678	1.00
144_S	214_V	0.677	1.00
29_R	81_Y	0.677	1.00
30_E	41_K	0.676	1.00
198_P	201_S	0.672	1.00
33_Y	84_L	0.670	1.00
127_V	130_Y	0.667	1.00
76_P	157_L	0.667	1.00
41_K	96_Y	0.665	1.00
16_T	104_T	0.660	1.00
72_E	159_N	0.660	1.00
76_P	91_T	0.660	1.00
120_T	128_F	0.660	1.00
13_I	52_A	0.657	1.00
117_V	171_A	0.655	1.00
55_I	150_L	0.655	1.00
205_Y	214_V	0.652	1.00
175_K	178_F	0.648	1.00
61_Y	83_G	0.644	1.00
13_I	54_F	0.642	1.00
37_A	92_F	0.639	1.00
121_L	127_V	0.639	1.00
165_I	173_K	0.639	1.00
173_K	220_D	0.637	1.00
13_I	43_M	0.636	1.00
24_K	27_V	0.636	1.00
118_Y	178_F	0.635	1.00
171_A	175_K	0.635	1.00
109_R	139_A	0.633	1.00
170_L	220_D	0.631	1.00
194_T	197_R	0.631	1.00
113_F	116_Y	0.630	1.00
135_S	162_G	0.621	1.00
37_A	85_T	0.619	1.00
105_S	161_A	0.618	1.00
34_K	42_H	0.609	1.00
114_P	117_V	0.608	1.00
205_Y	208_A	0.607	1.00
12_V	55_I	0.606	1.00
118_Y	122_K	0.606	1.00
133_Y	202_S	0.605	1.00
93_A	101_V	0.604	1.00
40_V	56_H	0.603	1.00
9_R	50_V	0.601	1.00
62_V	103_R	0.600	1.00
127_V	184_V	0.600	1.00
117_V	127_V	0.600	1.00
113_F	121_L	0.597	1.00
43_M	47_S	0.596	1.00
37_A	41_K	0.595	1.00
47_S	50_V	0.590	1.00
10_P	50_V	0.589	1.00
92_F	96_Y	0.586	1.00
147_E	150_L	0.585	1.00
80_N	83_G	0.582	1.00
100_L	152_L	0.579	1.00
110_H	140_R	0.572	1.00
15_N	54_F	0.571	1.00
185_K	188_D	0.570	1.00
55_I	149_L	0.569	1.00
12_V	151_A	0.568	1.00
14_I	147_E	0.567	1.00
78_P	83_G	0.566	1.00
169_E	221_L	0.566	1.00
158_L	208_A	0.561	1.00
34_K	45_R	0.558	1.00
40_V	43_M	0.557	1.00
57_V	102_I	0.547	1.00
129_A	171_A	0.547	1.00
148_E	214_V	0.547	1.00
179_N	182_G	0.546	1.00
60_D	201_S	0.541	1.00
105_S	135_S	0.540	1.00
140_R	144_S	0.539	1.00
172_L	184_V	0.539	1.00
131_K	199_F	0.535	1.00
184_V	187_V	0.534	1.00
55_I	100_L	0.532	1.00
113_F	118_Y	0.529	1.00
95_S	98_D	0.529	1.00
152_L	211_I	0.528	1.00
163_E	215_D	0.528	1.00
66_T	74_D	0.524	1.00
59_T	62_V	0.522	1.00
136_P	170_L	0.522	1.00
27_V	194_T	0.522	1.00
53_Y	154_K	0.521	1.00
168_Y	184_V	0.520	1.00
23_D	27_V	0.519	1.00
220_D	223_G	0.518	1.00
134_Y	167_R	0.518	1.00
47_S	51_E	0.518	1.00
136_P	167_R	0.516	1.00
44_V	47_S	0.515	1.00
81_Y	85_T	0.515	1.00
121_L	178_F	0.514	1.00
115_V	119_K	0.513	1.00
208_A	211_I	0.509	1.00
20_T	60_D	0.505	1.00
100_L	156_G	0.503	1.00
112_G	115_V	0.502	1.00
115_V	118_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
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
2ggsA	1	0.9912	100	0.286	Contact Map
1rkxA	3	0.9646	100	0.295	Contact Map
1n7hA	4	0.9912	100	0.305	Contact Map
1i24A	4	0.9867	100	0.307	Contact Map
2z1mA	4	1	100	0.315	Contact Map
1vl0A	3	0.9956	100	0.316	Contact Map
1db3A	2	0.9956	100	0.316	Contact Map
1sb8A	2	0.9912	100	0.318	Contact Map
3sxpA	3	0.9558	100	0.318	Contact Map
1rpnA	4	0.9912	100	0.318	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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