SUPH - ECOLI - GREMLIN Contacts

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SUPH - Sugar phosphatase YbiV

UniProt:	P75792	Sequences: MSVKVIVTDMDGTFLNDAKTYNQPRFMAQYQELKKRGIKFVVASGNQYYQLISFFPELKDEISFVAENGALVYEHGKQLFHGELTRHESRIVIGELLKDKQLNFVACGLQSAYVSENAPEAFVALMAKHYHRLKPVKDYQEIDDVLFKFSLNLPDEQIPLVIDKLHVALDGIMKPVTSGFGFIDLIIPGLHKANGISRLLKRWDLSPQNVVAIGDSGNDAEMLKMARYSFAMGNAAENIKQIARYATDDNNHEGALNVIQAVLDNTSPFNS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13327
Length:	271 (256)
Sequences:	10940 (8923)
Seq/√Len:	557.7

ECOLI - SUPH YBJI YIDA YBHA COF YIGL MPGP
BACSU - YKRA YHAX YWPJ YXEH YITU YWTE YCSE NTDB
HALSA - PGP
SULSO - PGP1 PGP2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
248_D	257_N	4.234	1.00
17_D	251_N	3.453	1.00
212_A	226_A	3.085	1.00
223_L	229_S	2.788	1.00
4_K	209_N	2.782	1.00
249_D	252_H	2.777	1.00
22_N	253_E	2.731	1.00
25_R	253_E	2.542	1.00
200_L	210_V	2.527	1.00
224_K	242_I	2.407	1.00
197_S	225_M	2.404	1.00
237_E	241_Q	2.391	1.00
16_N	20_T	2.388	1.00
8_T	40_F	2.366	1.00
25_R	260_Q	2.362	1.00
44_S	51_L	2.185	1.00
207_P	225_M	2.138	1.00
191_H	221_E	1.997	1.00
80_F	198_R	1.957	1.00
220_A	239_I	1.932	1.00
217_G	238_N	1.879	1.00
229_S	244_R	1.840	1.00
231_A	243_A	1.839	1.00
32_E	35_K	1.820	1.00
24_P	28_A	1.810	1.00
220_A	242_I	1.794	1.00
217_G	236_A	1.786	1.00
30_Y	40_F	1.785	1.00
32_E	260_Q	1.783	1.00
3_V	211_V	1.763	1.00
85_T	88_E	1.733	1.00
74_E	77_K	1.731	1.00
206_S	209_N	1.725	1.00
33_L	38_I	1.715	1.00
248_D	252_H	1.709	1.00
198_R	202_R	1.704	1.00
5_V	41_V	1.677	1.00
7_V	196_I	1.671	1.00
237_E	240_K	1.670	1.00
197_S	201_K	1.664	1.00
27_M	57_E	1.647	1.00
32_E	36_R	1.644	1.00
228_Y	245_Y	1.619	1.00
198_R	201_K	1.605	1.00
228_Y	244_R	1.599	1.00
230_F	258_V	1.592	1.00
193_A	225_M	1.566	1.00
196_I	222_M	1.566	1.00
194_N	197_S	1.565	1.00
245_Y	262_V	1.530	1.00
82_G	198_R	1.524	1.00
39_K	203_W	1.503	1.00
96_L	151_L	1.501	1.00
3_V	38_I	1.499	1.00
25_R	257_N	1.482	1.00
22_N	26_F	1.482	1.00
239_I	242_I	1.475	1.00
28_A	32_E	1.461	1.00
10_M	15_L	1.453	1.00
34_K	61_E	1.445	1.00
212_A	222_M	1.437	1.00
26_F	253_E	1.428	1.00
91_I	172_I	1.425	1.00
213_I	255_A	1.424	1.00
208_Q	227_R	1.423	1.00
8_T	213_I	1.415	1.00
27_M	31_Q	1.399	1.00
245_Y	258_V	1.375	1.00
162_I	166_H	1.360	1.00
3_V	228_Y	1.325	1.00
220_A	224_K	1.313	1.00
88_E	91_I	1.312	1.00
7_V	43_A	1.310	1.00
78_Q	81_H	1.308	1.00
29_Q	256_L	1.307	1.00
231_A	235_A	1.305	1.00
86_R	90_R	1.304	1.00
3_V	209_N	1.301	1.00
213_I	258_V	1.297	1.00
233_G	249_D	1.279	1.00
207_P	210_V	1.274	1.00
223_L	239_I	1.268	1.00
82_G	187_I	1.247	1.00
81_H	145_V	1.241	1.00
200_L	207_P	1.239	1.00
240_K	246_A	1.232	1.00
120_E	124_A	1.231	1.00
29_Q	260_Q	1.230	1.00
258_V	262_V	1.221	1.00
174_K	221_E	1.219	1.00
138_D	141_E	1.211	1.00
238_N	241_Q	1.205	1.00
120_E	123_V	1.196	1.00
22_N	25_R	1.191	1.00
157_Q	160_L	1.187	1.00
31_Q	35_K	1.185	1.00
71_L	78_Q	1.184	1.00
6_I	259_I	1.178	1.00
25_R	29_Q	1.172	1.00
245_Y	261_A	1.171	1.00
6_I	33_L	1.170	1.00
81_H	147_F	1.159	1.00
16_N	251_N	1.150	1.00
5_V	205_L	1.148	1.00
41_V	199_L	1.139	1.00
211_V	262_V	1.135	1.00
63_S	203_W	1.134	1.00
255_A	259_I	1.133	1.00
34_K	62_I	1.130	1.00
174_K	189_G	1.126	1.00
210_V	226_A	1.118	1.00
65_V	195_G	1.117	1.00
88_E	173_M	1.114	1.00
212_A	223_L	1.104	1.00
41_V	63_S	1.103	1.00
72_V	198_R	1.102	1.00
247_T	258_V	1.102	1.00
5_V	200_L	1.078	1.00
6_I	38_I	1.070	1.00
159_P	177_T	1.063	1.00
153_L	157_Q	1.058	1.00
256_L	260_Q	1.057	1.00
31_Q	34_K	1.057	1.00
159_P	163_D	1.056	1.00
17_D	250_N	1.043	1.00
232_M	254_G	1.039	1.00
7_V	210_V	1.038	1.00
234_N	250_N	1.037	1.00
176_V	186_I	1.033	1.00
207_P	227_R	1.031	1.00
10_M	54_F	1.030	1.00
24_P	27_M	1.029	1.00
230_F	247_T	1.027	1.00
230_F	245_Y	1.026	1.00
247_T	254_G	1.023	1.00
191_H	194_N	1.020	1.00
257_N	261_A	1.014	1.00
258_V	261_A	1.013	1.00
236_A	239_I	1.008	1.00
72_V	80_F	1.006	1.00
193_A	221_E	1.002	1.00
226_A	229_S	0.999	1.00
31_Q	59_K	0.993	1.00
200_L	225_M	0.992	1.00
82_G	189_G	0.989	1.00
83_E	145_V	0.989	1.00
196_I	226_A	0.988	1.00
187_I	190_L	0.987	1.00
211_V	230_F	0.987	1.00
148_K	184_D	0.985	1.00
216_S	236_A	0.980	1.00
5_V	210_V	0.974	1.00
90_R	94_G	0.974	1.00
14_F	30_Y	0.973	1.00
81_H	109_L	0.973	1.00
14_F	26_F	0.973	1.00
197_S	207_P	0.969	1.00
70_A	190_L	0.957	1.00
233_G	240_K	0.956	1.00
211_V	228_Y	0.954	1.00
257_N	260_Q	0.954	1.00
211_V	258_V	0.939	1.00
231_A	239_I	0.937	1.00
199_L	203_W	0.936	1.00
171_G	188_P	0.935	1.00
160_L	164_K	0.933	1.00
48_Y	66_A	0.932	1.00
160_L	163_D	0.932	1.00
235_A	240_K	0.927	1.00
217_G	220_A	0.926	1.00
88_E	172_I	0.918	1.00
8_T	255_A	0.916	1.00
28_A	31_Q	0.916	1.00
233_G	248_D	0.915	1.00
200_L	205_L	0.913	1.00
52_I	76_G	0.911	1.00
163_D	166_H	0.909	1.00
238_N	242_I	0.899	1.00
66_A	71_L	0.899	1.00
100_K	164_K	0.898	1.00
73_Y	78_Q	0.886	1.00
7_V	41_V	0.883	1.00
248_D	254_G	0.881	1.00
72_V	195_G	0.876	1.00
153_L	158_I	0.874	1.00
33_L	40_F	0.864	1.00
44_S	66_A	0.864	1.00
91_I	94_G	0.852	1.00
48_Y	73_Y	0.851	1.00
52_I	56_P	0.850	1.00
200_L	227_R	0.849	1.00
63_S	199_L	0.846	1.00
232_M	247_T	0.841	1.00
186_I	191_H	0.840	1.00
26_F	256_L	0.836	1.00
16_N	22_N	0.834	1.00
84_L	187_I	0.829	1.00
65_V	199_L	0.828	1.00
73_Y	76_G	0.826	1.00
79_L	202_R	0.825	1.00
6_I	211_V	0.822	1.00
95_E	100_K	0.822	1.00
212_A	229_S	0.819	1.00
43_A	65_V	0.818	1.00
210_V	227_R	0.813	1.00
95_E	169_L	0.808	1.00
29_Q	32_E	0.808	1.00
210_V	225_M	0.803	1.00
25_R	256_L	0.798	1.00
227_R	244_R	0.798	1.00
39_K	63_S	0.797	1.00
139_Y	142_I	0.792	1.00
223_L	242_I	0.791	1.00
63_S	74_E	0.791	1.00
87_H	91_I	0.790	1.00
159_P	162_I	0.786	1.00
94_G	140_Q	0.782	1.00
233_G	252_H	0.781	1.00
98_K	115_S	0.777	1.00
175_P	185_L	0.775	1.00
99_D	164_K	0.774	1.00
162_I	177_T	0.773	1.00
8_T	14_F	0.770	1.00
26_F	29_Q	0.767	1.00
10_M	42_V	0.766	1.00
47_Q	67_E	0.758	1.00
91_I	95_E	0.757	1.00
83_E	147_F	0.757	1.00
66_A	73_Y	0.756	1.00
38_I	211_V	0.755	1.00
194_N	198_R	0.752	1.00
248_D	261_A	0.752	1.00
33_L	259_I	0.748	1.00
137_K	140_Q	0.745	1.00
95_E	164_K	0.742	1.00
197_S	200_L	0.726	1.00
18_A	251_N	0.723	1.00
209_N	227_R	0.720	1.00
51_L	66_A	0.719	1.00
223_L	243_A	0.719	1.00
127_A	130_Y	0.716	1.00
235_A	239_I	0.715	1.00
196_I	212_A	0.699	1.00
232_M	235_A	0.699	1.00
111_S	134_K	0.697	1.00
48_Y	52_I	0.696	1.00
14_F	21_Y	0.695	1.00
91_I	169_L	0.695	1.00
164_K	167_V	0.694	1.00
68_N	184_D	0.691	1.00
174_K	191_H	0.688	1.00
77_K	202_R	0.687	1.00
109_L	145_V	0.687	1.00
190_L	194_N	0.686	1.00
245_Y	257_N	0.685	1.00
86_R	145_V	0.684	1.00
42_V	51_L	0.681	1.00
89_S	146_L	0.680	1.00
51_L	64_F	0.679	1.00
16_N	250_N	0.678	1.00
43_A	222_M	0.677	1.00
71_L	147_F	0.674	1.00
172_I	188_P	0.673	1.00
108_G	144_D	0.670	1.00
215_D	235_A	0.667	1.00
25_R	28_A	0.664	1.00
221_E	224_K	0.664	1.00
10_M	51_L	0.663	1.00
108_G	146_L	0.662	1.00
94_G	99_D	0.659	1.00
70_A	187_I	0.655	1.00
78_Q	109_L	0.655	1.00
228_Y	258_V	0.653	1.00
213_I	247_T	0.649	1.00
220_A	223_L	0.647	1.00
12_G	232_M	0.647	1.00
174_K	188_P	0.647	1.00
14_F	250_N	0.644	1.00
253_E	256_L	0.641	1.00
121_A	124_A	0.641	1.00
95_E	99_D	0.640	1.00
213_I	230_F	0.636	1.00
229_S	239_I	0.636	1.00
122_F	125_L	0.634	1.00
150_S	184_D	0.633	1.00
163_D	167_V	0.633	1.00
55_F	64_F	0.631	1.00
245_Y	248_D	0.628	1.00
174_K	186_I	0.626	1.00
100_K	160_L	0.623	1.00
72_V	199_L	0.621	1.00
86_R	143_D	0.620	1.00
193_A	197_S	0.617	1.00
229_S	243_A	0.615	1.00
10_M	14_F	0.615	1.00
179_G	216_S	0.612	1.00
123_V	127_A	0.611	1.00
6_I	213_I	0.610	1.00
234_N	249_D	0.609	1.00
109_L	144_D	0.609	1.00
247_T	257_N	0.608	1.00
39_K	62_I	0.608	1.00
87_H	90_R	0.608	1.00
232_M	250_N	0.605	1.00
242_I	245_Y	0.603	1.00
42_V	55_F	0.603	1.00
101_Q	157_Q	0.603	1.00
105_V	150_S	0.599	1.00
137_K	141_E	0.597	1.00
74_E	79_L	0.594	1.00
215_D	232_M	0.591	1.00
217_G	239_I	0.590	1.00
5_V	199_L	0.589	1.00
234_N	240_K	0.589	1.00
94_G	98_K	0.589	1.00
106_A	146_L	0.588	1.00
126_M	130_Y	0.587	1.00
126_M	129_H	0.587	1.00
90_R	140_Q	0.585	1.00
109_L	147_F	0.584	1.00
108_G	111_S	0.583	1.00
74_E	202_R	0.581	1.00
248_D	258_V	0.577	0.99
136_V	139_Y	0.577	0.99
121_A	125_L	0.577	0.99
189_G	194_N	0.576	0.99
253_E	257_N	0.574	0.99
43_A	68_N	0.573	0.99
231_A	242_I	0.572	0.99
256_L	259_I	0.572	0.99
26_F	30_Y	0.571	0.99
71_L	109_L	0.571	0.99
14_F	42_V	0.570	0.99
148_K	178_S	0.569	0.99
239_I	243_A	0.568	0.99
175_P	183_I	0.568	0.99
72_V	202_R	0.568	0.99
4_K	38_I	0.567	0.99
16_N	253_E	0.566	0.99
60_D	63_S	0.566	0.99
156_E	160_L	0.566	0.99
119_P	122_F	0.565	0.99
29_Q	33_L	0.564	0.99
51_L	54_F	0.563	0.99
93_I	106_A	0.562	0.99
21_Y	27_M	0.561	0.99
205_L	227_R	0.559	0.99
129_H	133_L	0.556	0.99
52_I	55_F	0.552	0.99
89_S	93_I	0.552	0.99
158_I	162_I	0.552	0.99
38_I	209_N	0.552	0.99
28_A	260_Q	0.550	0.99
15_L	250_N	0.548	0.99
158_I	183_I	0.548	0.99
3_V	39_K	0.548	0.99
169_L	172_I	0.547	0.99
22_N	256_L	0.547	0.99
67_E	147_F	0.545	0.99
5_V	39_K	0.543	0.99
124_A	127_A	0.542	0.99
53_S	56_P	0.541	0.99
42_V	62_I	0.534	0.99
67_E	70_A	0.533	0.99
134_K	137_K	0.530	0.99
213_I	259_I	0.530	0.99
53_S	57_E	0.525	0.99
98_K	104_F	0.523	0.99
230_F	244_R	0.523	0.99
166_H	170_D	0.523	0.99
34_K	59_K	0.520	0.99
82_G	190_L	0.517	0.99
128_K	131_H	0.515	0.99
30_Y	259_I	0.513	0.99
33_L	256_L	0.513	0.99
3_V	6_I	0.508	0.99
158_I	177_T	0.507	0.99
7_V	200_L	0.506	0.99
152_N	182_F	0.505	0.99
196_I	200_L	0.505	0.99
132_R	135_P	0.503	0.99
205_L	210_V	0.502	0.99
125_L	129_H	0.501	0.99
166_H	175_P	0.500	0.99

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
3pgvA	3	0.9446	100	0.223	Contact Map
3l7yA	1	0.9668	100	0.223	Contact Map
1rlmA	1	0.9926	100	0.231	Contact Map
1nrwA	1	0.9483	100	0.24	Contact Map
2b30A	2	0.9631	100	0.241	Contact Map
3daoA	1	0.9631	100	0.246	Contact Map
1rkqA	1	0.9705	100	0.25	Contact Map
4qjbA	1	0.9668	100	0.253	Contact Map
1nf2A	4	0.9705	100	0.258	Contact Map
2pq0A	1	0.9483	100	0.263	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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