YJBJ - BACSU - GREMLIN Contacts

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YJBJ - Putative murein lytic transglycosylase YjbJ

UniProt:	O31608	Sequences: MLNSANTTAPSLLSAYGLNSYTSSNSGSVTKAAESTETAVADSASNKHEANQIRSGDFSIDSAIKKAADKYGVDEKLIRAVIKQESGFNAKAVSGAGAMGLMQLMPSTASSLGVSNPLDPQQNVEGGTKYLKQMLDKYDGNVSMALAAYNAGPGNVDRYGGIPPFQETQNYVKKITSVYYA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	181 (147)
Sequences:	3132 (2082)
Seq/√Len:	171.7

ECOLI - SLT MLTC EMTA MLTD MLTF
BACSU - YJBJ YOMI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
97_G	105_M	3.089	1.00
155_N	165_F	2.883	1.00
138_Y	157_D	2.686	1.00
132_K	136_D	2.636	1.00
64_I	82_I	2.632	1.00
137_K	157_D	2.575	1.00
65_K	75_E	2.512	1.00
77_L	146_L	2.507	1.00
78_I	128_T	2.357	1.00
81_V	131_L	2.314	1.00
93_V	118_L	2.299	1.00
67_A	70_K	2.224	1.00
99_M	118_L	2.217	1.00
84_Q	174_K	2.073	1.00
84_Q	178_V	1.981	1.00
112_L	133_Q	1.939	1.00
155_N	158_R	1.892	1.00
104_L	126_G	1.887	1.00
135_L	145_A	1.877	1.00
99_M	117_P	1.810	1.00
138_Y	148_A	1.785	1.00
147_A	172_V	1.755	1.00
114_V	126_G	1.753	1.00
96_A	105_M	1.747	1.00
104_L	109_A	1.735	1.00
67_A	125_E	1.722	1.00
116_N	122_Q	1.710	1.00
151_A	155_N	1.660	1.00
66_K	121_Q	1.658	1.00
82_I	124_V	1.569	1.00
108_T	130_Y	1.554	1.00
82_I	101_L	1.457	1.00
159_Y	164_P	1.446	1.00
79_R	88_F	1.420	1.00
63_A	121_Q	1.376	1.00
71_Y	132_K	1.374	1.00
111_S	153_P	1.372	1.00
71_Y	129_K	1.332	1.00
104_L	114_V	1.330	1.00
61_D	79_R	1.318	1.00
111_S	133_Q	1.296	1.00
71_Y	125_E	1.284	1.00
125_E	129_K	1.275	1.00
122_Q	126_G	1.267	1.00
112_L	153_P	1.267	1.00
64_I	79_R	1.244	1.00
170_N	174_K	1.224	1.00
78_I	102_M	1.223	1.00
70_K	125_E	1.218	1.00
67_A	128_T	1.205	1.00
134_M	153_P	1.200	1.00
81_V	102_M	1.179	1.00
102_M	124_V	1.151	1.00
104_L	123_N	1.124	1.00
83_K	87_G	1.118	1.00
119_D	122_Q	1.118	1.00
143_S	176_T	1.112	1.00
73_V	128_T	1.102	1.00
138_Y	153_P	1.100	1.00
151_A	168_T	1.091	1.00
71_Y	128_T	1.086	1.00
150_N	167_E	1.074	1.00
114_V	122_Q	1.065	1.00
101_L	120_P	1.062	1.00
130_Y	134_M	1.061	1.00
133_Q	137_K	1.054	1.00
148_A	153_P	1.041	0.99
67_A	71_Y	1.037	0.99
112_L	130_Y	1.012	0.99
146_L	175_I	1.010	0.99
89_N	92_A	1.002	0.99
141_N	144_M	0.987	0.99
135_L	140_G	0.978	0.99
134_M	148_A	0.973	0.99
64_I	88_F	0.972	0.99
61_D	65_K	0.971	0.99
67_A	124_V	0.969	0.99
147_A	168_T	0.959	0.99
82_I	127_G	0.957	0.99
35_S	39_A	0.951	0.99
102_M	127_G	0.949	0.99
113_G	126_G	0.948	0.99
99_M	106_P	0.944	0.99
151_A	165_F	0.944	0.99
109_A	117_P	0.938	0.99
84_Q	175_I	0.933	0.99
117_P	126_G	0.927	0.99
63_A	66_K	0.925	0.99
151_A	156_V	0.919	0.99
64_I	124_V	0.910	0.99
81_V	175_I	0.909	0.99
64_I	78_I	0.908	0.99
121_Q	125_E	0.907	0.98
93_V	99_M	0.901	0.98
60_I	101_L	0.900	0.98
105_M	108_T	0.898	0.98
107_S	111_S	0.888	0.98
68_A	128_T	0.886	0.98
130_Y	153_P	0.886	0.98
42_D	46_N	0.880	0.98
135_L	142_V	0.876	0.98
63_A	124_V	0.876	0.98
126_G	129_K	0.867	0.98
60_I	90_A	0.860	0.98
102_M	123_N	0.849	0.98
154_G	157_D	0.846	0.98
62_S	65_K	0.846	0.98
78_I	82_I	0.842	0.98
82_I	102_M	0.840	0.98
112_L	126_G	0.839	0.97
115_S	122_Q	0.838	0.97
80_A	175_I	0.838	0.97
166_Q	170_N	0.829	0.97
68_A	77_L	0.829	0.97
96_A	99_M	0.816	0.97
66_K	70_K	0.815	0.97
151_A	169_Q	0.813	0.97
159_Y	163_P	0.804	0.97
53_I	58_F	0.802	0.97
68_A	75_E	0.796	0.97
67_A	121_Q	0.792	0.96
154_G	158_R	0.789	0.96
123_N	127_G	0.787	0.96
156_V	165_F	0.780	0.96
94_S	167_E	0.772	0.96
104_L	127_G	0.771	0.96
39_A	42_D	0.770	0.96
62_S	66_K	0.769	0.96
94_S	98_A	0.752	0.95
47_K	51_N	0.748	0.95
91_K	118_L	0.746	0.95
98_A	105_M	0.741	0.95
151_A	164_P	0.740	0.95
104_L	112_L	0.738	0.95
98_A	106_P	0.732	0.95
90_A	101_L	0.731	0.94
33_A	36_T	0.730	0.94
144_M	160_G	0.729	0.94
117_P	122_Q	0.729	0.94
133_Q	153_P	0.727	0.94
33_A	38_T	0.721	0.94
129_K	132_K	0.719	0.94
38_T	42_D	0.714	0.94
36_T	40_V	0.714	0.94
104_L	117_P	0.712	0.94
84_Q	87_G	0.708	0.94
82_I	88_F	0.706	0.93
116_N	119_D	0.704	0.93
112_L	129_K	0.699	0.93
60_I	120_P	0.694	0.93
128_T	132_K	0.689	0.93
60_I	63_A	0.679	0.92
137_K	153_P	0.678	0.92
109_A	130_Y	0.677	0.92
114_V	117_P	0.673	0.92
166_Q	169_Q	0.665	0.91
64_I	68_A	0.665	0.91
122_Q	125_E	0.664	0.91
98_A	103_Q	0.661	0.91
160_G	163_P	0.659	0.91
164_P	168_T	0.658	0.91
71_Y	78_I	0.657	0.91
46_N	49_E	0.655	0.91
33_A	37_E	0.648	0.90
133_Q	136_D	0.645	0.90
34_E	37_E	0.637	0.89
65_K	69_D	0.637	0.89
39_A	43_S	0.636	0.89
165_F	168_T	0.634	0.89
109_A	114_V	0.629	0.89
77_L	142_V	0.623	0.88
107_S	110_S	0.620	0.88
155_N	164_P	0.617	0.88
34_E	39_A	0.617	0.88
56_G	60_I	0.616	0.88
117_P	123_N	0.610	0.87
37_E	41_A	0.608	0.87
48_H	51_N	0.607	0.87
63_A	120_P	0.605	0.87
134_M	137_K	0.601	0.86
159_Y	165_F	0.601	0.86
98_A	168_T	0.600	0.86
32_A	39_A	0.595	0.86
130_Y	133_Q	0.594	0.86
32_A	35_S	0.593	0.86
98_A	167_E	0.592	0.86
155_N	159_Y	0.591	0.86
34_E	40_V	0.591	0.86
57_D	62_S	0.586	0.85
65_K	78_I	0.585	0.85
157_D	161_G	0.580	0.84
36_T	39_A	0.579	0.84
58_F	62_S	0.579	0.84
119_D	139_D	0.578	0.84
83_K	178_V	0.574	0.84
41_A	45_S	0.573	0.84
37_E	40_V	0.573	0.84
156_V	164_P	0.564	0.83
42_D	47_K	0.564	0.83
87_G	174_K	0.562	0.83
40_V	50_A	0.554	0.82
80_A	102_M	0.553	0.82
147_A	156_V	0.548	0.81
73_V	78_I	0.536	0.80
78_I	81_V	0.530	0.79
108_T	112_L	0.527	0.78
165_F	169_Q	0.526	0.78
69_D	121_Q	0.521	0.78
135_L	141_N	0.519	0.77
104_L	130_Y	0.516	0.77
68_A	78_I	0.515	0.77
84_Q	173_K	0.513	0.77
158_R	162_I	0.513	0.77
81_V	171_Y	0.512	0.76
49_E	52_Q	0.510	0.76
92_A	99_M	0.510	0.76
39_A	48_H	0.507	0.76
75_E	79_R	0.506	0.76
52_Q	56_G	0.501	0.75
147_A	167_E	0.500	0.75

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
1qsaA	1	1	100	0.243	Contact Map
4cfpA	1	0.9558	100	0.267	Contact Map
4hjzA	1	0.7735	100	0.288	Contact Map
4p0gA	1	0.9448	100	0.298	Contact Map
1gbsA	1	0.8674	100	0.347	Contact Map
3gxrA	1	0.884	100	0.354	Contact Map
4g9sA	1	0.9006	100	0.357	Contact Map
3w6bA	1	0.7514	100	0.36	Contact Map
3bkhA	1	1	100	0.447	Contact Map
4fdyA	1	0.6685	100	0.457	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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