END3 - BACSU - GREMLIN Contacts

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END3 - Endonuclease III

UniProt:	P39788	Sequences: MLNLKQIEFCLDKIGDMFPHAECELVHSNPFELVVAVALSAQCTDALVNRVTKTLFQKYKRPEDYLAVPLEELQQDIKSIGLYRNKAKNIQKLSKMIIEDYGGEVPRDRDELVKLPGVGRKTANVVVSVAFGVPAIAVDTHVERVSKRLGICRWKDSVLEVEKTLMRKVPKEDWSVTHHRLIFFGRYHCKAQSPRCAECPLLSLCREGQKRDKKGLVKR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	219 (199)
Sequences:	8434 (5317)
Seq/√Len:	376.9

ECOLI - END3 MUTY
BACSU - END3 YFHQ
HALSA - Q9HRQ5 Q9HS56 Q9HPQ6
SULSO - Q7LXY0 Q97VX0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
108_D	111_E	3.930	1.00
61_R	64_D	3.502	1.00
195_R	198_E	3.247	1.00
96_M	100_D	3.169	1.00
190_K	195_R	2.683	1.00
58_K	72_E	2.678	1.00
96_M	116_P	2.580	1.00
107_R	133_V	2.487	1.00
73_L	91_Q	2.416	1.00
91_Q	95_K	2.400	1.00
15_G	173_D	2.362	1.00
58_K	76_D	2.319	1.00
75_Q	78_K	2.239	1.00
109_R	113_V	2.234	1.00
101_Y	114_K	2.226	1.00
63_E	98_I	2.067	1.00
29_N	32_E	2.008	1.00
202_L	208_G	2.003	1.00
38_A	93_L	1.974	1.00
69_P	72_E	1.927	1.00
95_K	99_E	1.925	1.00
60_K	64_D	1.892	1.00
159_L	163_K	1.864	1.00
89_N	92_K	1.854	1.00
92_K	116_P	1.826	1.00
70_L	74_Q	1.817	1.00
85_N	89_N	1.797	1.00
70_L	91_Q	1.791	1.00
15_G	176_V	1.764	1.00
63_E	67_A	1.730	1.00
100_D	114_K	1.720	1.00
35_V	90_I	1.688	1.00
31_F	62_P	1.659	1.00
13_K	203_S	1.623	1.00
143_E	161_V	1.622	1.00
53_K	57_Q	1.597	1.00
111_E	114_K	1.577	1.00
98_I	103_G	1.557	1.00
152_C	164_T	1.528	1.00
59_Y	76_D	1.500	1.00
59_Y	68_V	1.496	1.00
31_F	94_S	1.494	1.00
28_S	32_E	1.491	1.00
109_R	135_A	1.484	1.00
43_C	47_L	1.484	1.00
9_F	204_L	1.483	1.00
54_T	57_Q	1.463	1.00
92_K	95_K	1.428	1.00
21_A	26_V	1.426	1.00
104_E	107_R	1.421	1.00
32_E	56_F	1.399	1.00
85_N	88_K	1.389	1.00
109_R	127_V	1.378	1.00
162_E	166_M	1.368	1.00
173_D	176_V	1.361	1.00
149_L	201_L	1.347	1.00
120_R	162_E	1.334	1.00
54_T	76_D	1.328	1.00
74_Q	83_Y	1.324	1.00
68_V	73_L	1.305	1.00
151_I	206_R	1.303	1.00
107_R	131_F	1.292	1.00
149_L	204_L	1.289	1.00
183_F	187_Y	1.283	1.00
113_V	120_R	1.273	1.00
43_C	80_I	1.245	1.00
47_L	50_R	1.232	1.00
40_S	45_D	1.220	1.00
96_M	114_K	1.214	1.00
169_V	177_T	1.212	1.00
96_M	101_Y	1.207	1.00
9_F	12_D	1.202	1.00
71_E	74_Q	1.187	1.00
14_I	18_F	1.178	1.00
161_V	165_L	1.172	1.00
146_S	165_L	1.169	1.00
70_L	88_K	1.160	1.00
13_K	17_M	1.157	1.00
127_V	133_V	1.148	1.00
50_R	53_K	1.128	1.00
176_V	180_R	1.120	1.00
34_V	38_A	1.119	1.00
93_L	115_L	1.114	1.00
92_K	96_M	1.114	1.00
155_K	159_L	1.104	1.00
97_I	105_V	1.099	1.00
30_P	130_A	1.095	1.00
65_Y	73_L	1.086	1.00
162_E	165_L	1.082	1.00
69_P	91_Q	1.082	1.00
112_L	127_V	1.070	1.00
132_G	175_S	1.068	1.00
188_H	200_P	1.062	1.00
100_D	111_E	1.058	1.00
11_L	15_G	1.057	1.00
34_V	126_V	1.051	1.00
10_C	201_L	1.051	1.00
24_E	187_Y	1.043	1.00
35_V	56_F	1.039	1.00
101_Y	111_E	1.038	1.00
44_T	47_L	1.038	1.00
70_L	87_A	1.037	1.00
12_D	16_D	1.035	1.00
196_C	205_C	1.008	1.00
9_F	13_K	0.997	1.00
32_E	52_T	0.992	1.00
127_V	135_A	0.982	1.00
31_F	65_Y	0.979	1.00
52_T	56_F	0.978	1.00
49_N	53_K	0.968	1.00
70_L	95_K	0.966	1.00
154_W	161_V	0.962	1.00
65_Y	94_S	0.959	1.00
136_I	166_M	0.948	1.00
189_C	199_C	0.945	1.00
17_M	200_P	0.944	1.00
163_K	166_M	0.941	1.00
201_L	204_L	0.941	1.00
171_K	174_W	0.938	1.00
166_M	169_V	0.935	1.00
93_L	96_M	0.935	1.00
189_C	196_C	0.934	1.00
184_F	188_H	0.930	1.00
157_S	160_E	0.930	1.00
46_A	50_R	0.927	1.00
62_P	98_I	0.916	1.00
88_K	92_K	0.907	1.00
27_H	32_E	0.902	1.00
128_S	137_A	0.894	1.00
66_L	94_S	0.894	1.00
13_K	200_P	0.885	1.00
13_K	16_D	0.880	1.00
18_F	183_F	0.879	1.00
34_V	93_L	0.878	1.00
93_L	97_I	0.874	1.00
128_S	178_H	0.873	1.00
147_K	161_V	0.870	1.00
146_S	181_L	0.869	1.00
184_F	200_P	0.868	1.00
72_E	76_D	0.866	1.00
41_A	122_T	0.857	1.00
26_V	53_K	0.850	1.00
134_P	171_K	0.845	1.00
110_D	113_V	0.839	1.00
21_A	24_E	0.830	1.00
159_L	162_E	0.829	1.00
66_L	98_I	0.822	1.00
160_E	164_T	0.821	1.00
51_V	54_T	0.819	1.00
177_T	181_L	0.816	1.00
35_V	93_L	0.808	1.00
54_T	79_S	0.802	1.00
37_V	126_V	0.801	1.00
164_T	167_R	0.801	1.00
68_V	72_E	0.797	1.00
127_V	131_F	0.794	1.00
62_P	105_V	0.789	1.00
47_L	79_S	0.785	1.00
109_R	124_N	0.782	1.00
128_S	175_S	0.781	1.00
206_R	209_Q	0.780	1.00
188_H	198_E	0.776	1.00
147_K	152_C	0.776	1.00
27_H	33_L	0.773	1.00
137_A	178_H	0.771	1.00
109_R	133_V	0.770	1.00
136_I	174_W	0.765	1.00
8_E	12_D	0.764	1.00
165_L	169_V	0.760	1.00
109_R	123_A	0.760	1.00
118_V	122_T	0.756	1.00
54_T	58_K	0.754	1.00
105_V	112_L	0.750	1.00
153_R	157_S	0.746	1.00
72_E	75_Q	0.745	1.00
163_K	167_R	0.741	1.00
143_E	147_K	0.737	1.00
33_L	130_A	0.734	1.00
138_V	161_V	0.732	1.00
160_E	163_K	0.731	1.00
154_W	157_S	0.724	1.00
14_I	179_H	0.717	1.00
124_N	136_I	0.716	1.00
50_R	54_T	0.714	1.00
129_V	175_S	0.712	1.00
66_L	95_K	0.704	0.99
47_L	80_I	0.700	0.99
90_I	94_S	0.698	0.99
145_V	184_F	0.698	0.99
166_M	174_W	0.695	0.99
155_K	158_V	0.686	0.99
12_D	15_G	0.683	0.99
196_C	199_C	0.683	0.99
8_E	173_D	0.680	0.99
66_L	91_Q	0.676	0.99
63_E	103_G	0.675	0.99
59_Y	72_E	0.673	0.99
37_V	129_V	0.668	0.99
32_E	60_K	0.668	0.99
15_G	180_R	0.663	0.99
46_A	49_N	0.662	0.99
37_V	122_T	0.662	0.99
184_F	187_Y	0.660	0.99
11_L	176_V	0.657	0.99
13_K	204_L	0.657	0.99
66_L	69_P	0.651	0.99
39_L	48_V	0.651	0.99
173_D	180_R	0.647	0.99
204_L	208_G	0.646	0.99
98_I	101_Y	0.645	0.99
68_V	91_Q	0.644	0.99
120_R	124_N	0.641	0.99
194_P	205_C	0.639	0.99
128_S	135_A	0.637	0.99
18_F	184_F	0.633	0.99
118_V	123_A	0.625	0.99
97_I	103_G	0.624	0.99
22_E	25_L	0.624	0.99
76_D	79_S	0.624	0.99
189_C	205_C	0.624	0.99
21_A	183_F	0.623	0.99
59_Y	73_L	0.621	0.99
62_P	94_S	0.619	0.99
112_L	126_V	0.619	0.99
48_V	80_I	0.617	0.99
164_T	168_K	0.614	0.99
148_R	194_P	0.613	0.99
10_C	180_R	0.612	0.99
107_R	111_E	0.610	0.99
109_R	120_R	0.609	0.99
126_V	130_A	0.609	0.99
120_R	159_L	0.609	0.99
39_L	80_I	0.605	0.98
170_P	174_W	0.605	0.98
202_L	207_E	0.602	0.98
154_W	160_E	0.598	0.98
87_A	91_Q	0.596	0.98
87_A	90_I	0.595	0.98
32_E	65_Y	0.594	0.98
35_V	38_A	0.593	0.98
113_V	123_A	0.590	0.98
135_A	174_W	0.590	0.98
108_D	127_V	0.584	0.98
74_Q	87_A	0.583	0.98
202_L	209_Q	0.580	0.98
142_V	181_L	0.580	0.98
11_L	173_D	0.578	0.98
135_A	166_M	0.578	0.98
124_N	162_E	0.576	0.98
38_A	90_I	0.576	0.98
18_F	21_A	0.575	0.98
114_K	127_V	0.571	0.98
64_D	67_A	0.570	0.98
122_T	126_V	0.568	0.98
129_V	179_H	0.568	0.98
73_L	77_I	0.565	0.98
95_K	98_I	0.565	0.98
8_E	172_E	0.559	0.97
136_I	177_T	0.557	0.97
51_V	80_I	0.556	0.97
104_E	131_F	0.555	0.97
190_K	193_S	0.554	0.97
136_I	169_V	0.552	0.97
96_M	115_L	0.551	0.97
112_L	118_V	0.551	0.97
148_R	196_C	0.548	0.97
138_V	142_V	0.548	0.97
118_V	126_V	0.547	0.97
165_L	177_T	0.547	0.97
24_E	183_F	0.547	0.97
9_F	203_S	0.545	0.97
34_V	97_I	0.543	0.97
60_K	68_V	0.541	0.97
23_C	129_V	0.541	0.97
29_N	60_K	0.540	0.97
146_S	149_L	0.538	0.97
60_K	65_Y	0.537	0.97
158_V	162_E	0.529	0.96
14_I	180_R	0.528	0.96
140_T	191_A	0.528	0.96
29_N	33_L	0.526	0.96
15_G	19_P	0.523	0.96
36_A	52_T	0.521	0.96
18_F	176_V	0.521	0.96
124_N	137_A	0.520	0.96
149_L	206_R	0.514	0.96
197_A	202_L	0.512	0.96
30_P	131_F	0.512	0.96
67_A	98_I	0.511	0.96
138_V	143_E	0.510	0.96
162_E	169_V	0.509	0.96
174_W	178_H	0.507	0.96
11_L	169_V	0.507	0.96
154_W	164_T	0.506	0.95
165_L	168_K	0.505	0.95
155_K	160_E	0.505	0.95
50_R	79_S	0.503	0.95
136_I	165_L	0.500	0.95

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
1kg2A	1	0.9909	100	0.185	Contact Map
3fspA	1	0.9909	100	0.186	Contact Map
1ornA	1	0.9772	100	0.194	Contact Map
2abkA	1	0.9635	100	0.195	Contact Map
4unfA	1	0.9543	100	0.196	Contact Map
4uobA	1	0.9863	100	0.202	Contact Map
3n5nX	1	0.9909	100	0.203	Contact Map
1keaA	2	0.9589	100	0.221	Contact Map
1pu6A	1	0.8539	100	0.34	Contact Map
3s6iA	1	0.8265	100	0.462	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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