YJHH - ECOLI - GREMLIN Contacts

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YJHH - Uncharacterized lyase YjhH

UniProt:	P39359	Sequences: MKKFSGIIPPVSSTFHRDGTLDKKAMREVADFLINKGVDGLFYLGTGGEFSQMNTAQRMALAEEAVTIVDGRVPVLIGVGSPSTDEAVKLAQHAQAYGADGIVAINPYYWKVAPRNLDDYYQQIARSVTLPVILYNFPDLTGQDLTPETVTRLALQNENIVGIKDTIDSVGHLRTMINTVKSVRPSFSVFCGYDDHLLNTMLLGGDGAITASANFAPELSVGIYRAWREGDLATAATLNKKLLQLPAIYALETPFVSLIKYSMQCVGLPVETYCLPPILEASEEAKDKVHVLLTAQGILPV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12550
Length:	301 (285)
Sequences:	10370 (6828)
Seq/√Len:	404.5

ECOLI - YJHH YAGE DAPA NANA
BACSU - DAPA KDGD
HALSA - DAPAL
SULSO - Q97UF0 Q97WF2 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
231_D	234_T	3.826	1.00
31_D	68_I	3.334	1.00
16_H	20_T	3.197	1.00
118_D	152_R	3.121	1.00
265_C	290_H	2.918	1.00
27_R	68_I	2.813	1.00
23_K	60_A	2.738	1.00
23_K	64_E	2.639	1.00
95_Q	129_T	2.633	1.00
27_R	64_E	2.560	1.00
79_V	91_A	2.544	1.00
200_T	205_G	2.516	1.00
59_M	93_H	2.484	1.00
226_A	234_T	2.484	1.00
91_A	102_I	2.277	1.00
234_T	237_T	2.166	1.00
31_D	72_R	2.105	1.00
226_A	231_D	2.024	1.00
201_M	227_W	2.021	1.00
8_I	40_G	2.016	1.00
114_P	149_T	2.011	1.00
122_Q	157_N	2.002	1.00
114_P	146_T	1.999	1.00
225_R	229_E	1.999	1.00
126_R	157_N	1.992	1.00
221_V	225_R	1.977	1.00
32_F	36_K	1.973	1.00
84_T	120_Y	1.960	1.00
39_D	225_R	1.898	1.00
60_A	63_E	1.884	1.00
290_H	294_T	1.882	1.00
122_Q	126_R	1.872	1.00
115_R	119_D	1.871	1.00
115_R	152_R	1.863	1.00
144_D	172_H	1.862	1.00
27_R	67_T	1.850	1.00
22_D	25_A	1.847	1.00
31_D	35_N	1.846	1.00
55_T	86_E	1.829	1.00
261_Y	286_K	1.822	1.00
219_L	241_K	1.792	1.00
30_A	65_A	1.746	1.00
118_D	122_Q	1.733	1.00
36_K	218_E	1.726	1.00
60_A	64_E	1.684	1.00
63_E	67_T	1.684	1.00
26_M	65_A	1.683	1.00
133_I	162_G	1.681	1.00
66_V	75_V	1.676	1.00
9_P	213_A	1.675	1.00
125_A	157_N	1.658	1.00
57_Q	275_L	1.617	1.00
119_D	122_Q	1.614	1.00
287_D	290_H	1.613	1.00
104_A	124_I	1.582	1.00
146_T	149_T	1.561	1.00
25_A	28_E	1.554	1.00
43_Y	65_A	1.550	1.00
64_E	68_I	1.536	1.00
91_A	128_V	1.529	1.00
150_V	163_I	1.526	1.00
237_T	241_K	1.520	1.00
62_A	77_I	1.505	1.00
14_T	26_M	1.495	1.00
26_M	61_L	1.468	1.00
152_R	156_Q	1.451	1.00
34_I	73_V	1.449	1.00
95_Q	128_V	1.403	1.00
87_A	124_I	1.389	1.00
222_G	226_A	1.386	1.00
283_E	286_K	1.362	1.00
119_D	123_Q	1.353	1.00
12_S	263_M	1.341	1.00
283_E	287_D	1.337	1.00
222_G	234_T	1.336	1.00
8_I	42_F	1.336	1.00
261_Y	265_C	1.334	1.00
39_D	221_V	1.332	1.00
264_Q	271_E	1.323	1.00
95_Q	130_L	1.320	1.00
81_S	87_A	1.316	1.00
122_Q	156_Q	1.315	1.00
93_H	96_A	1.312	1.00
287_D	291_V	1.309	1.00
251_L	288_K	1.306	1.00
264_Q	269_P	1.290	1.00
102_I	128_V	1.289	1.00
55_T	89_K	1.287	1.00
177_I	189_V	1.276	1.00
218_E	222_G	1.267	1.00
88_V	123_Q	1.266	1.00
59_M	89_K	1.263	1.00
282_S	285_A	1.261	1.00
133_I	209_I	1.259	1.00
7_I	38_V	1.258	1.00
64_E	67_T	1.254	1.00
32_F	268_L	1.254	1.00
291_V	295_A	1.251	1.00
5_S	228_R	1.243	1.00
83_S	86_E	1.232	1.00
76_L	101_G	1.232	1.00
49_E	260_K	1.228	1.00
59_M	63_E	1.211	1.00
198_L	235_A	1.208	1.00
227_W	232_L	1.206	1.00
34_I	72_R	1.202	1.00
55_T	93_H	1.194	1.00
62_A	94_A	1.192	1.00
56_A	60_A	1.191	1.00
44_L	61_L	1.187	1.00
232_L	236_A	1.160	1.00
30_A	69_V	1.156	1.00
66_V	100_D	1.151	1.00
125_A	159_N	1.142	1.00
123_Q	276_P	1.142	1.00
92_Q	96_A	1.135	1.00
63_E	93_H	1.129	1.00
20_T	85_D	1.129	1.00
262_S	293_L	1.120	1.00
16_H	22_D	1.116	1.00
233_A	236_A	1.112	1.00
224_Y	228_R	1.110	1.00
222_G	225_R	1.109	1.00
69_V	75_V	1.107	1.00
24_K	27_R	1.098	1.00
123_Q	126_R	1.097	1.00
188_S	206_D	1.097	1.00
25_A	270_V	1.088	1.00
15_F	53_M	1.081	1.00
291_V	294_T	1.079	1.00
261_Y	264_Q	1.076	1.00
123_Q	127_S	1.073	1.00
76_L	133_I	1.073	1.00
261_Y	290_H	1.068	1.00
59_M	96_A	1.063	1.00
23_K	27_R	1.062	1.00
92_Q	127_S	1.050	1.00
30_A	68_I	1.044	1.00
79_V	94_A	1.043	1.00
9_P	33_L	1.042	1.00
63_E	97_Y	1.037	1.00
115_R	282_S	1.024	1.00
115_R	118_D	1.019	1.00
88_V	92_Q	1.017	1.00
7_I	221_V	1.016	1.00
102_I	130_L	1.014	1.00
5_S	206_D	1.012	1.00
77_I	99_A	1.011	1.00
42_F	103_V	1.009	1.00
175_T	247_A	1.008	1.00
234_T	238_L	1.007	1.00
153_L	160_I	1.007	1.00
93_H	97_Y	1.005	1.00
281_A	289_V	0.996	1.00
9_P	38_V	0.993	1.00
281_A	285_A	0.991	1.00
134_L	150_V	0.983	1.00
55_T	90_L	0.982	1.00
27_R	31_D	0.975	1.00
102_I	132_V	0.975	1.00
154_A	187_F	0.973	1.00
80_G	105_I	0.965	1.00
248_I	292_L	0.965	1.00
286_K	290_H	0.962	1.00
173_L	200_T	0.956	1.00
118_D	156_Q	0.956	1.00
29_V	263_M	0.949	1.00
202_L	232_L	0.949	1.00
11_V	33_L	0.947	1.00
236_A	240_K	0.943	1.00
19_G	85_D	0.943	1.00
264_Q	286_K	0.941	1.00
66_V	99_A	0.941	1.00
288_K	291_V	0.938	1.00
226_A	238_L	0.938	1.00
151_T	183_V	0.937	1.00
58_R	90_L	0.931	1.00
136_N	144_D	0.929	1.00
125_A	132_V	0.924	1.00
118_D	149_T	0.922	1.00
114_P	152_R	0.920	1.00
88_V	127_S	0.919	1.00
56_A	89_K	0.917	1.00
285_A	288_K	0.914	1.00
79_V	102_I	0.910	1.00
39_D	224_Y	0.909	1.00
15_F	275_L	0.905	1.00
272_T	280_E	0.903	1.00
81_S	86_E	0.902	1.00
34_I	69_V	0.901	1.00
89_K	93_H	0.897	1.00
106_N	143_Q	0.896	1.00
43_Y	61_L	0.894	1.00
66_V	97_Y	0.891	1.00
30_A	64_E	0.890	1.00
284_E	287_D	0.889	1.00
119_D	279_L	0.889	1.00
212_S	246_P	0.888	1.00
75_V	99_A	0.888	1.00
89_K	92_Q	0.888	1.00
117_L	143_Q	0.887	1.00
216_A	245_L	0.877	1.00
202_L	227_W	0.868	1.00
197_L	208_A	0.864	1.00
19_G	276_P	0.855	1.00
25_A	269_P	0.855	1.00
223_I	238_L	0.854	1.00
265_C	294_T	0.853	1.00
244_Q	295_A	0.853	1.00
201_M	224_Y	0.850	1.00
7_I	224_Y	0.849	1.00
190_F	207_G	0.848	1.00
233_A	237_T	0.846	1.00
92_Q	95_Q	0.846	1.00
157_N	160_I	0.844	1.00
84_T	88_V	0.840	1.00
125_A	160_I	0.839	1.00
22_D	269_P	0.835	1.00
202_L	236_A	0.830	1.00
38_V	217_P	0.828	1.00
284_E	288_K	0.826	1.00
292_L	295_A	0.825	1.00
147_P	151_T	0.824	1.00
44_L	77_I	0.822	1.00
210_T	213_A	0.819	1.00
11_V	41_L	0.817	1.00
104_A	132_V	0.816	1.00
28_E	268_L	0.809	1.00
7_I	208_A	0.802	1.00
191_C	200_T	0.800	1.00
7_I	213_A	0.797	1.00
46_T	109_Y	0.793	1.00
62_A	97_Y	0.792	1.00
265_C	286_K	0.784	1.00
11_V	26_M	0.784	1.00
69_V	72_R	0.782	1.00
230_G	233_A	0.781	1.00
118_D	157_N	0.779	1.00
36_K	217_P	0.776	1.00
94_A	99_A	0.774	1.00
62_A	99_A	0.773	1.00
24_K	28_E	0.771	1.00
56_A	59_M	0.769	1.00
243_L	247_A	0.765	1.00
216_A	242_L	0.755	1.00
184_R	187_F	0.753	1.00
175_T	178_N	0.751	1.00
53_M	61_L	0.748	1.00
137_F	141_T	0.747	1.00
26_M	30_A	0.747	1.00
147_P	175_T	0.746	1.00
239_N	243_L	0.745	1.00
216_A	219_L	0.744	1.00
171_G	195_D	0.744	1.00
150_V	176_M	0.737	1.00
264_Q	272_T	0.734	1.00
85_D	89_K	0.733	1.00
74_P	100_D	0.729	1.00
183_V	186_S	0.728	1.00
87_A	104_A	0.728	1.00
222_G	238_L	0.728	1.00
34_I	68_I	0.727	1.00
147_P	172_H	0.726	1.00
98_G	130_L	0.724	1.00
264_Q	270_V	0.722	1.00
257_S	274_C	0.721	1.00
114_P	148_E	0.720	1.00
16_H	24_K	0.719	1.00
30_A	41_L	0.716	1.00
106_N	145_L	0.711	1.00
40_G	76_L	0.707	1.00
198_L	227_W	0.707	1.00
17_R	272_T	0.706	1.00
271_E	274_C	0.703	1.00
219_L	222_G	0.699	1.00
122_Q	152_R	0.696	1.00
199_N	202_L	0.695	1.00
135_Y	164_K	0.694	1.00
59_M	90_L	0.691	1.00
144_D	169_S	0.689	1.00
119_D	276_P	0.689	1.00
251_L	285_A	0.688	1.00
79_V	104_A	0.687	1.00
218_E	266_V	0.686	1.00
174_R	178_N	0.685	1.00
223_I	227_W	0.684	1.00
33_L	38_V	0.683	1.00
84_T	123_Q	0.681	1.00
21_L	26_M	0.679	0.99
62_A	66_V	0.678	0.99
41_L	69_V	0.676	0.99
136_N	165_D	0.676	0.99
229_E	234_T	0.675	0.99
274_C	278_I	0.674	0.99
21_L	61_L	0.673	0.99
50_F	78_G	0.668	0.99
59_M	97_Y	0.667	0.99
44_L	53_M	0.667	0.99
199_N	203_L	0.666	0.99
116_N	279_L	0.664	0.99
133_I	161_V	0.663	0.99
145_L	150_V	0.662	0.99
198_L	232_L	0.662	0.99
173_L	189_V	0.659	0.99
178_N	240_K	0.659	0.99
113_A	257_S	0.658	0.99
59_M	94_A	0.657	0.99
134_L	145_L	0.656	0.99
16_H	19_G	0.655	0.99
32_F	266_V	0.654	0.99
177_I	183_V	0.653	0.99
263_M	268_L	0.651	0.99
257_S	281_A	0.649	0.99
263_M	266_V	0.648	0.99
33_L	36_K	0.646	0.99
55_T	59_M	0.645	0.99
8_I	76_L	0.643	0.99
69_V	73_V	0.643	0.99
43_Y	75_V	0.642	0.99
63_E	96_A	0.640	0.99
287_D	294_T	0.639	0.99
173_L	177_I	0.637	0.99
11_V	65_A	0.637	0.99
199_N	239_N	0.637	0.99
174_R	199_N	0.636	0.99
281_A	286_K	0.635	0.99
197_L	223_I	0.634	0.99
29_V	33_L	0.625	0.99
288_K	292_L	0.625	0.99
148_E	175_T	0.624	0.99
129_T	159_N	0.623	0.99
31_D	34_I	0.618	0.99
51_S	110_W	0.613	0.99
265_C	293_L	0.612	0.99
174_R	203_L	0.610	0.99
274_C	279_L	0.609	0.99
54_N	85_D	0.607	0.99
226_A	229_E	0.605	0.99
161_V	188_S	0.605	0.99
4_F	101_G	0.603	0.99
165_D	173_L	0.598	0.99
113_A	116_N	0.596	0.99
23_K	68_I	0.595	0.99
126_R	159_N	0.595	0.99
149_T	152_R	0.595	0.99
113_A	253_T	0.592	0.99
17_R	271_E	0.591	0.99
174_R	239_N	0.591	0.99
86_E	89_K	0.590	0.99
225_R	228_R	0.585	0.98
46_T	135_Y	0.583	0.98
44_L	58_R	0.583	0.98
198_L	239_N	0.578	0.98
253_T	285_A	0.576	0.98
21_L	64_E	0.576	0.98
15_F	57_Q	0.575	0.98
38_V	221_V	0.572	0.98
99_A	130_L	0.571	0.98
261_Y	274_C	0.570	0.98
237_T	240_K	0.570	0.98
169_S	172_H	0.568	0.98
269_P	272_T	0.566	0.98
172_H	176_M	0.564	0.98
71_G	100_D	0.563	0.98
106_N	121_Y	0.559	0.98
17_R	270_V	0.559	0.98
215_F	262_S	0.558	0.98
42_F	76_L	0.557	0.98
111_K	139_D	0.557	0.98
12_S	259_I	0.557	0.98
283_E	290_H	0.553	0.98
120_Y	123_Q	0.552	0.98
148_E	151_T	0.550	0.98
253_T	282_S	0.549	0.98
162_G	188_S	0.549	0.98
271_E	286_K	0.547	0.98
95_Q	127_S	0.547	0.98
262_S	265_C	0.546	0.98
197_L	220_S	0.544	0.98
227_W	235_A	0.542	0.98
176_M	189_V	0.542	0.98
76_L	103_V	0.541	0.98
67_T	70_D	0.541	0.98
162_G	187_F	0.541	0.98
151_T	184_R	0.540	0.97
37_G	221_V	0.539	0.97
10_P	211_A	0.538	0.97
170_V	196_H	0.537	0.97
215_F	259_I	0.537	0.97
133_I	188_S	0.533	0.97
145_L	149_T	0.532	0.97
254_P	258_L	0.531	0.97
177_I	206_D	0.530	0.97
101_G	161_V	0.528	0.97
121_Y	160_I	0.527	0.97
88_V	124_I	0.527	0.97
10_P	210_T	0.526	0.97
178_N	244_Q	0.526	0.97
154_A	184_R	0.526	0.97
238_L	241_K	0.525	0.97
56_A	93_H	0.522	0.97
153_L	157_N	0.522	0.97
226_A	235_A	0.519	0.97
147_P	176_M	0.519	0.97
104_A	121_Y	0.518	0.97
245_L	249_Y	0.516	0.97
197_L	224_Y	0.516	0.97
211_A	259_I	0.515	0.97
198_L	202_L	0.515	0.97
77_I	94_A	0.514	0.97
5_S	39_D	0.514	0.97
65_A	69_V	0.513	0.97
90_L	94_A	0.513	0.97
32_F	217_P	0.512	0.97
258_L	281_A	0.511	0.96
52_Q	84_T	0.511	0.96
87_A	91_A	0.511	0.96
262_S	289_V	0.510	0.96
44_L	62_A	0.510	0.96
33_L	213_A	0.510	0.96
29_V	269_P	0.510	0.96
249_Y	259_I	0.510	0.96
29_V	32_F	0.509	0.96
29_V	268_L	0.507	0.96
115_R	279_L	0.507	0.96
201_M	228_R	0.503	0.96
88_V	128_V	0.502	0.96
214_N	217_P	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	0.9867	100	0.026	Contact Map
4i7wA	3	0.9668	100	0.03	Contact Map
3qzeA	2	0.9635	100	0.036	Contact Map
3na8A	3	0.9635	100	0.037	Contact Map
3si9A	3	0.9767	100	0.037	Contact Map
3fluA	3	0.9734	100	0.038	Contact Map
3l21A	5	0.9668	100	0.038	Contact Map
3cprA	3	0.9635	100	0.039	Contact Map
2ojpA	2	0.9635	100	0.04	Contact Map
1xkyA	3	0.9701	100	0.04	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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