YPJG - BACSU - GREMLIN Contacts

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YPJG - Uncharacterized deacetylase YpjG

UniProt:	P42981	Sequences: MYNADVLAFGAHSDDVEIGMGGTIAKFVKQEKKVMICDLTEAELSSNGTVSLRKEEAAEAARILGADKRIQLTLPDRGLIMSDQAIRSIVTVIRICRPKAVFMPYKKDRHPDHGNAAALVEEAIFSAGIHKYKDEKSLPAHKVSKVYYYMINGFHQPDFVIDISDTIEAKKQSLNAYKSQFIPSKDSVSTPLTNGYIEIVEAREKLYGKEAGVEYAEGFFSKRMLMLDHDVLGGEQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	236 (192)
Sequences:	4752 (3298)
Seq/√Len:	238.0

ECOLI - YAIS
BACSU - YPJG YOJG
SULSO - Q97UU2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
22_G	163_I	3.214	1.00
29_K	169_A	3.093	1.00
74_L	88_S	3.062	1.00
5_D	33_K	3.040	1.00
59_E	62_R	2.930	1.00
39_L	116_A	2.870	1.00
35_M	96_C	2.863	1.00
26_K	30_Q	2.816	1.00
29_K	166_T	2.766	1.00
27_F	32_K	2.483	1.00
63_I	176_A	2.478	1.00
8_A	24_I	2.417	1.00
115_N	118_A	2.358	1.00
35_M	70_I	2.339	1.00
9_F	120_V	2.289	1.00
26_K	166_T	2.219	1.00
6_V	27_F	2.166	1.00
37_C	92_V	2.159	1.00
103_M	120_V	2.091	1.00
41_E	54_K	2.033	1.00
70_I	95_I	2.012	1.00
55_E	59_E	1.984	1.00
25_A	169_A	1.948	1.00
172_Q	175_N	1.864	1.00
201_E	205_K	1.849	1.00
59_E	176_A	1.795	1.00
38_D	57_A	1.788	1.00
17_E	60_A	1.772	1.00
54_K	58_A	1.757	1.00
27_F	102_F	1.718	1.00
7_L	93_I	1.691	1.00
7_L	37_C	1.681	1.00
101_V	124_I	1.677	1.00
33_K	67_D	1.671	1.00
28_V	34_V	1.656	1.00
70_I	92_V	1.642	1.00
5_D	99_K	1.566	1.00
85_A	119_L	1.539	1.00
9_F	37_C	1.535	1.00
35_M	68_K	1.531	1.00
8_A	102_F	1.512	1.00
90_V	126_S	1.502	1.00
24_I	28_V	1.501	1.00
8_A	16_V	1.470	1.00
63_I	169_A	1.458	1.00
20_M	102_F	1.453	1.00
5_D	35_M	1.447	1.00
88_S	91_T	1.432	1.00
114_G	118_A	1.429	1.00
41_E	73_T	1.416	1.00
11_A	104_P	1.404	1.00
92_V	96_C	1.399	1.00
171_K	175_N	1.395	1.00
86_I	122_E	1.394	1.00
22_G	170_K	1.379	1.00
25_A	29_K	1.335	1.00
24_I	64_L	1.318	1.00
169_A	172_Q	1.311	1.00
63_I	172_Q	1.305	1.00
70_I	96_C	1.303	1.00
26_K	165_D	1.297	1.00
54_K	73_T	1.259	1.00
23_T	27_F	1.251	1.00
64_L	173_S	1.247	1.00
93_I	101_V	1.204	1.00
59_E	178_K	1.195	1.00
24_I	34_V	1.194	1.00
84_Q	88_S	1.189	1.00
168_E	172_Q	1.168	1.00
101_V	120_V	1.163	1.00
92_V	95_I	1.159	1.00
55_E	58_A	1.145	1.00
197_I	201_E	1.145	1.00
10_G	16_V	1.141	1.00
54_K	71_Q	1.136	1.00
28_V	67_D	1.130	1.00
72_L	88_S	1.127	1.00
58_A	62_R	1.125	1.00
36_I	61_A	1.124	1.00
25_A	173_S	1.123	1.00
10_G	104_P	1.123	1.00
29_K	165_D	1.120	1.00
90_V	94_R	1.119	1.00
4_A	99_K	1.113	1.00
60_A	173_S	1.101	1.00
25_A	64_L	1.098	1.00
201_E	204_E	1.073	1.00
37_C	89_I	1.069	1.00
91_T	95_I	1.056	1.00
178_K	182_I	1.040	1.00
56_E	180_Q	1.038	1.00
74_L	85_A	1.034	1.00
86_I	126_S	1.024	1.00
26_K	161_I	1.019	1.00
140_A	143_V	1.013	1.00
57_A	71_Q	1.010	1.00
75_P	78_G	1.007	1.00
59_E	63_I	0.999	1.00
40_T	79_L	0.986	1.00
25_A	166_T	0.986	1.00
115_N	119_L	0.966	1.00
21_G	64_L	0.965	1.00
42_A	76_D	0.964	1.00
16_V	36_I	0.958	1.00
48_G	51_S	0.947	1.00
162_D	166_T	0.942	1.00
58_A	69_R	0.942	1.00
167_I	171_K	0.938	1.00
94_R	127_A	0.937	1.00
116_A	120_V	0.928	1.00
7_L	96_C	0.925	1.00
22_G	162_D	0.924	1.00
86_I	90_V	0.916	1.00
6_V	32_K	0.911	1.00
198_E	201_E	0.910	1.00
130_H	133_K	0.901	1.00
89_I	119_L	0.893	1.00
7_L	98_P	0.891	0.99
6_V	102_F	0.889	0.99
23_T	161_I	0.888	0.99
56_E	179_S	0.872	0.99
39_L	72_L	0.866	0.99
7_L	92_V	0.861	0.99
61_A	69_R	0.860	0.99
43_E	75_P	0.853	0.99
28_V	65_G	0.845	0.99
44_L	75_P	0.843	0.99
32_K	99_K	0.841	0.99
76_D	112_D	0.837	0.99
129_I	133_K	0.836	0.99
105_Y	108_D	0.835	0.99
9_F	116_A	0.835	0.99
117_A	121_E	0.834	0.99
35_M	67_D	0.831	0.99
6_V	100_A	0.830	0.99
9_F	89_I	0.830	0.99
58_A	71_Q	0.828	0.99
41_E	50_V	0.820	0.99
88_S	92_V	0.816	0.99
38_D	69_R	0.814	0.99
74_L	79_L	0.813	0.99
9_F	39_L	0.808	0.99
128_G	143_V	0.805	0.99
163_I	166_T	0.803	0.99
13_S	42_A	0.803	0.99
24_I	36_I	0.800	0.99
87_R	126_S	0.798	0.99
171_K	201_E	0.797	0.99
202_A	206_L	0.786	0.99
4_A	35_M	0.782	0.99
44_L	78_G	0.782	0.99
52_L	179_S	0.776	0.99
103_M	117_A	0.774	0.99
5_D	32_K	0.773	0.99
82_S	85_A	0.769	0.99
167_I	201_E	0.768	0.99
57_A	61_A	0.767	0.98
36_I	66_A	0.762	0.98
129_I	132_Y	0.762	0.98
17_E	177_Y	0.761	0.98
144_S	147_Y	0.760	0.98
167_I	204_E	0.759	0.98
122_E	125_F	0.759	0.98
53_R	76_D	0.755	0.98
198_E	202_A	0.745	0.98
138_L	142_K	0.744	0.98
80_I	83_D	0.744	0.98
131_K	134_D	0.736	0.98
168_E	171_K	0.721	0.98
166_T	169_A	0.721	0.98
68_K	96_C	0.720	0.98
172_Q	176_A	0.717	0.98
32_K	102_F	0.709	0.97
79_L	85_A	0.708	0.97
21_G	170_K	0.702	0.97
25_A	28_V	0.700	0.97
37_C	96_C	0.698	0.97
21_G	173_S	0.697	0.97
44_L	77_R	0.693	0.97
43_E	50_V	0.693	0.97
79_L	112_D	0.690	0.97
198_E	205_K	0.689	0.97
79_L	115_N	0.686	0.97
203_R	206_L	0.686	0.97
145_K	148_Y	0.686	0.97
86_I	123_A	0.677	0.97
53_R	180_Q	0.677	0.97
199_I	206_L	0.676	0.97
106_K	117_A	0.675	0.97
14_D	113_H	0.675	0.97
45_S	76_D	0.674	0.97
38_D	71_Q	0.673	0.97
89_I	120_V	0.673	0.97
129_I	134_D	0.673	0.97
61_A	66_A	0.671	0.97
145_K	149_Y	0.669	0.96
138_L	141_H	0.669	0.96
104_P	108_D	0.665	0.96
22_G	166_T	0.659	0.96
83_D	87_R	0.651	0.96
17_E	57_A	0.650	0.96
87_R	91_T	0.647	0.96
139_P	143_V	0.645	0.96
33_K	68_K	0.640	0.95
39_L	79_L	0.639	0.95
14_D	110_H	0.638	0.95
138_L	147_Y	0.634	0.95
184_S	187_S	0.633	0.95
39_L	89_I	0.631	0.95
5_D	96_C	0.631	0.95
37_C	72_L	0.630	0.95
139_P	142_K	0.627	0.95
60_A	176_A	0.626	0.95
199_I	202_A	0.626	0.95
14_D	53_R	0.622	0.95
84_Q	87_R	0.618	0.94
79_L	116_A	0.612	0.94
51_S	55_E	0.611	0.94
16_V	57_A	0.610	0.94
15_D	113_H	0.610	0.94
99_K	144_S	0.606	0.94
51_S	54_K	0.606	0.94
21_G	25_A	0.603	0.94
118_A	122_E	0.602	0.94
42_A	77_R	0.602	0.94
181_F	186_D	0.602	0.94
146_V	149_Y	0.601	0.94
47_N	51_S	0.598	0.93
90_V	123_A	0.596	0.93
142_K	145_K	0.595	0.93
17_E	21_G	0.593	0.93
143_V	147_Y	0.591	0.93
163_I	170_K	0.588	0.93
57_A	177_Y	0.585	0.93
108_D	117_A	0.583	0.93
81_M	118_A	0.581	0.92
11_A	116_A	0.581	0.92
144_S	150_M	0.580	0.92
154_F	157_P	0.578	0.92
10_G	20_M	0.574	0.92
124_I	128_G	0.574	0.92
7_L	101_V	0.571	0.92
147_Y	150_M	0.570	0.92
41_E	71_Q	0.569	0.92
163_I	167_I	0.567	0.92
108_D	114_G	0.562	0.91
93_I	123_A	0.559	0.91
45_S	180_Q	0.558	0.91
20_M	23_T	0.557	0.91
124_I	143_V	0.554	0.91
142_K	146_V	0.551	0.90
85_A	88_S	0.551	0.90
93_I	124_I	0.548	0.90
174_L	181_F	0.545	0.90
49_T	180_Q	0.541	0.90
14_D	177_Y	0.540	0.90
17_E	61_A	0.540	0.90
45_S	49_T	0.539	0.89
153_G	157_P	0.538	0.89
23_T	102_F	0.535	0.89
144_S	148_Y	0.534	0.89
145_K	150_M	0.533	0.89
162_D	165_D	0.533	0.89
104_P	114_G	0.532	0.89
42_A	53_R	0.530	0.89
12_H	15_D	0.528	0.88
31_E	34_V	0.528	0.88
4_A	32_K	0.523	0.88
63_I	173_S	0.521	0.88
20_M	104_P	0.520	0.88
175_N	182_I	0.520	0.88
143_V	146_V	0.520	0.88
38_D	177_Y	0.520	0.88
77_R	111_P	0.518	0.88
197_I	204_E	0.518	0.88
94_R	141_H	0.513	0.87
139_P	145_K	0.510	0.87
53_R	56_E	0.509	0.87
93_I	98_P	0.507	0.86
199_I	205_K	0.506	0.86
40_T	53_R	0.505	0.86
140_A	147_Y	0.504	0.86
116_A	119_L	0.504	0.86
102_F	149_Y	0.502	0.86
103_M	116_A	0.502	0.86
18_I	21_G	0.501	0.86
23_T	26_K	0.500	0.86
143_V	149_Y	0.500	0.86

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
2ixdA	5	0.9831	100	0.18	Contact Map
1uanA	5	0.9322	100	0.208	Contact Map
4xlzA	5	0.9534	100	0.235	Contact Map
5bmoA	3	0.9195	100	0.253	Contact Map
3dfiA	1	0.8856	100	0.301	Contact Map
3dffA	1	0.911	100	0.303	Contact Map
1q74A	1	0.9153	100	0.333	Contact Map
3ot5A	2	0.9153	94.1	0.904	Contact Map
2iuyA	1	0.7331	89.4	0.916	Contact Map
4fkzA	2	0.9153	83.9	0.922	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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