YBXB - BACSU - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

YBXB - Uncharacterized protein YbxB

UniProt:	P37872	Sequences: MSEHYYSEKPSVKSNKQTWSFRLRNKDFTFTSDSGVFSKKEVDFGSRLLIDSFEEPEVEGGILDVGCGYGPIGLSLASDFKDRTIHMIDVNERAVELSNENAEQNGITNVKIYQSDLFSNVDSAQTFASILTNPPIRAGKKVVHAIFEKSAEHLKASGELWIVIQKKQGAPSAIEKLEELFDEVSVVQKKKGYYIIKAKKV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	201 (182)
Sequences:	9184 (6706)
Seq/√Len:	497.1

ECOLI - PRMB PRMC RSMC RLMG TRMN6
BACSU - YBXB PRMC YABB
HALSA - Q9HQH3
SULSO - Q980C4 Q7LXK7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
9_K	14_S	3.944	1.00
31_T	100_E	3.749	1.00
22_R	29_T	3.402	1.00
73_G	87_M	2.788	1.00
63_L	127_F	2.709	1.00
86_H	113_Y	2.638	1.00
128_A	155_K	2.632	1.00
86_H	127_F	2.376	1.00
35_G	93_R	2.360	1.00
92_E	114_Q	2.354	1.00
115_S	120_N	2.254	1.00
61_G	84_T	2.075	1.00
150_S	160_L	2.064	1.00
73_G	85_I	2.057	1.00
26_K	79_D	1.990	1.00
31_T	104_Q	1.931	1.00
33_D	97_L	1.923	1.00
102_A	112_I	1.903	1.00
28_F	78_S	1.893	1.00
67_C	98_S	1.875	1.00
147_F	177_L	1.851	1.00
24_R	29_T	1.783	1.00
76_L	131_L	1.768	1.00
52_S	187_V	1.758	1.00
154_L	158_G	1.754	1.00
17_Q	23_L	1.736	1.00
118_F	153_H	1.732	1.00
145_A	149_K	1.591	1.00
74_L	107_I	1.570	1.00
162_I	177_L	1.568	1.00
45_G	48_L	1.555	1.00
77_A	85_I	1.527	1.00
95_V	112_I	1.526	1.00
57_E	60_G	1.504	1.00
21_F	31_T	1.480	1.00
169_G	186_V	1.479	1.00
74_L	102_A	1.470	1.00
116_D	145_A	1.465	1.00
95_V	114_Q	1.432	1.00
138_A	144_H	1.391	1.00
117_L	142_V	1.387	1.00
46_S	72_I	1.376	1.00
148_E	180_L	1.363	1.00
61_G	86_H	1.362	1.00
86_H	111_K	1.348	1.00
67_C	89_D	1.347	1.00
49_L	161_W	1.344	1.00
126_T	155_K	1.340	1.00
28_F	79_D	1.336	1.00
53_F	161_W	1.330	1.00
175_E	179_E	1.319	1.00
28_F	75_S	1.312	1.00
36_V	69_Y	1.311	1.00
174_I	178_E	1.306	1.00
54_E	80_F	1.302	1.00
80_F	83_R	1.301	1.00
149_K	152_E	1.291	1.00
89_D	95_V	1.289	1.00
24_R	27_D	1.279	1.00
52_S	55_E	1.277	1.00
30_F	75_S	1.268	1.00
87_M	112_I	1.252	1.00
14_S	34_S	1.247	1.00
98_S	112_I	1.247	1.00
118_F	149_K	1.238	1.00
53_F	131_L	1.223	1.00
116_D	119_S	1.220	1.00
67_C	73_G	1.218	1.00
143_V	162_I	1.214	1.00
84_T	111_K	1.206	1.00
53_F	129_S	1.204	1.00
29_T	104_Q	1.199	1.00
87_M	110_V	1.196	1.00
166_K	193_Y	1.188	1.00
100_E	104_Q	1.185	1.00
26_K	51_D	1.171	1.00
48_L	190_K	1.169	1.00
62_I	83_R	1.163	1.00
61_G	155_K	1.154	1.00
14_S	19_W	1.145	1.00
132_T	162_I	1.125	1.00
65_V	117_L	1.122	1.00
174_I	186_V	1.121	1.00
91_N	94_A	1.112	1.00
62_I	129_S	1.112	1.00
62_I	85_I	1.110	1.00
61_G	128_A	1.105	1.00
88_I	121_V	1.103	1.00
61_G	125_Q	1.093	1.00
117_L	145_A	1.092	1.00
62_I	76_L	1.091	1.00
144_H	176_K	1.082	1.00
17_Q	38_S	1.079	1.00
61_G	127_F	1.075	1.00
99_N	103_E	1.067	1.00
102_A	110_V	1.048	1.00
72_I	131_L	1.043	1.00
30_F	74_L	1.037	1.00
75_S	79_D	1.023	1.00
73_G	110_V	1.012	1.00
138_A	141_K	1.012	1.00
164_I	169_G	0.999	1.00
100_E	103_E	0.996	1.00
50_I	75_S	0.982	1.00
140_K	172_S	0.977	1.00
164_I	196_I	0.972	1.00
48_L	195_I	0.971	1.00
35_G	97_L	0.969	1.00
102_A	107_I	0.965	1.00
127_F	130_I	0.958	1.00
88_I	115_S	0.957	1.00
64_D	73_G	0.956	1.00
60_G	128_A	0.948	1.00
165_Q	168_Q	0.935	1.00
52_S	195_I	0.922	1.00
147_F	176_K	0.917	1.00
111_K	125_Q	0.912	1.00
86_H	125_Q	0.907	1.00
78_S	105_N	0.899	1.00
129_S	161_W	0.898	1.00
150_S	181_F	0.883	1.00
26_K	78_S	0.881	1.00
66_G	142_V	0.867	1.00
143_V	173_A	0.859	1.00
65_V	146_I	0.850	1.00
28_F	105_N	0.849	1.00
171_P	175_E	0.846	1.00
143_V	164_I	0.839	1.00
32_S	97_L	0.838	1.00
26_K	75_S	0.835	1.00
74_L	105_N	0.830	1.00
187_V	195_I	0.828	1.00
54_E	79_D	0.827	1.00
186_V	196_I	0.823	1.00
73_G	77_A	0.821	1.00
33_D	100_E	0.819	1.00
176_K	180_L	0.816	1.00
18_T	38_S	0.813	1.00
140_K	176_K	0.808	1.00
36_V	97_L	0.806	1.00
78_S	107_I	0.802	1.00
103_E	108_T	0.799	1.00
96_E	99_N	0.793	1.00
142_V	145_A	0.786	1.00
175_E	178_E	0.784	1.00
77_A	110_V	0.777	1.00
46_S	50_I	0.775	1.00
56_P	60_G	0.773	1.00
60_G	83_R	0.773	1.00
65_V	88_I	0.769	1.00
95_V	99_N	0.769	1.00
47_R	51_D	0.767	1.00
30_F	71_P	0.764	1.00
87_M	98_S	0.756	1.00
148_E	176_K	0.752	1.00
189_K	194_Y	0.751	1.00
48_L	52_S	0.746	1.00
44_F	47_R	0.746	1.00
115_S	118_F	0.740	1.00
64_D	67_C	0.740	1.00
99_N	102_A	0.737	1.00
56_P	59_E	0.735	1.00
44_F	190_K	0.735	1.00
147_F	173_A	0.731	1.00
115_S	121_V	0.729	1.00
144_H	148_E	0.729	1.00
32_S	36_V	0.716	1.00
50_I	72_I	0.716	1.00
61_G	126_T	0.714	1.00
30_F	69_Y	0.712	1.00
74_L	101_N	0.712	1.00
10_P	19_W	0.709	1.00
77_A	108_T	0.702	1.00
140_K	144_H	0.702	1.00
174_I	196_I	0.700	1.00
65_V	118_F	0.699	1.00
132_T	146_I	0.696	1.00
52_S	161_W	0.687	1.00
161_W	187_V	0.685	1.00
16_K	100_E	0.677	1.00
164_I	173_A	0.673	1.00
16_K	20_S	0.672	1.00
92_E	96_E	0.672	1.00
141_K	145_A	0.669	1.00
76_L	83_R	0.668	1.00
60_G	80_F	0.668	1.00
169_G	193_Y	0.663	1.00
118_F	130_I	0.662	1.00
63_L	88_I	0.659	1.00
174_I	184_V	0.658	1.00
167_K	193_Y	0.658	1.00
147_F	162_I	0.656	1.00
129_S	159_E	0.655	1.00
50_I	76_L	0.650	1.00
49_L	131_L	0.649	1.00
144_H	179_E	0.648	1.00
49_L	53_F	0.646	1.00
32_S	69_Y	0.643	1.00
99_N	112_I	0.642	1.00
172_S	175_E	0.641	1.00
22_R	104_Q	0.641	1.00
143_V	147_F	0.640	1.00
27_D	78_S	0.639	1.00
88_I	113_Y	0.638	1.00
67_C	112_I	0.637	1.00
164_I	186_V	0.634	1.00
169_G	174_I	0.633	1.00
166_K	169_G	0.631	1.00
178_E	184_V	0.631	1.00
53_F	76_L	0.630	1.00
51_D	55_E	0.630	1.00
141_K	144_H	0.627	1.00
130_I	153_H	0.625	1.00
59_E	82_D	0.621	1.00
67_C	87_M	0.613	1.00
130_I	150_S	0.611	0.99
190_K	193_Y	0.603	0.99
117_L	146_I	0.601	0.99
188_Q	192_G	0.599	0.99
27_D	79_D	0.596	0.99
77_A	107_I	0.595	0.99
9_K	12_V	0.594	0.99
18_T	35_G	0.592	0.99
146_I	160_L	0.587	0.99
75_S	78_S	0.583	0.99
50_I	71_P	0.582	0.99
145_A	148_E	0.580	0.99
151_A	180_L	0.576	0.99
162_I	173_A	0.574	0.99
147_F	180_L	0.573	0.99
77_A	102_A	0.572	0.99
83_R	128_A	0.571	0.99
76_L	80_F	0.565	0.99
32_S	39_K	0.565	0.99
22_R	31_T	0.564	0.99
30_F	105_N	0.564	0.99
48_L	51_D	0.560	0.99
50_I	54_E	0.559	0.99
148_E	151_A	0.554	0.99
171_P	174_I	0.554	0.99
186_V	189_K	0.553	0.99
122_D	153_H	0.552	0.99
59_E	84_T	0.552	0.99
149_K	153_H	0.552	0.99
58_V	82_D	0.551	0.99
66_G	117_L	0.551	0.99
160_L	177_L	0.547	0.99
68_G	133_N	0.546	0.99
96_E	100_E	0.545	0.99
89_D	98_S	0.543	0.99
33_D	93_R	0.541	0.99
164_I	174_I	0.539	0.99
181_F	184_V	0.538	0.99
93_R	96_E	0.536	0.99
113_Y	125_Q	0.535	0.99
18_T	32_S	0.534	0.99
62_I	80_F	0.530	0.99
14_S	18_T	0.528	0.99
45_G	195_I	0.520	0.98
102_A	105_N	0.516	0.98
16_K	23_L	0.516	0.98
49_L	195_I	0.514	0.98
134_P	173_A	0.511	0.98
11_S	16_K	0.510	0.98
90_V	114_Q	0.510	0.98
177_L	196_I	0.505	0.98
49_L	72_I	0.505	0.98
113_Y	120_N	0.504	0.98
151_A	181_F	0.503	0.98
45_G	191_K	0.503	0.98
188_Q	193_Y	0.503	0.98
72_I	132_T	0.500	0.98
33_D	96_E	0.500	0.98

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
2b3tA	1	0.9751	100	0.378	Contact Map
1nv8A	1	0.9353	100	0.392	Contact Map
4dcmA	1	0.9254	100	0.443	Contact Map
2pjdA	1	0.9602	100	0.491	Contact Map
3dmgA	1	0.9652	100	0.493	Contact Map
1dusA	1	0.9552	100	0.497	Contact Map
3c6kA	2	0.9652	99.9	0.52	Contact Map
3evzA	1	0.9104	99.9	0.542	Contact Map
4dzrA	2	0.7363	99.9	0.544	Contact Map
1uwvA	1	0.9403	99.9	0.556	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.

Page generated in 0.0073 seconds.