YOKL - BACSU - GREMLIN Contacts

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YOKL - SPBc2 prophage-derived uncharacterized N-acetyltransferase YokL

UniProt:	O31995	Sequences: MAVTYWTGENLTLRAIQPEDIVIFDSLDDEILRNMDSLHFPRSANNMREWVEEQLEKDEFRFIAVESDNNIVGMIETFDCDRKNGTFGYYLAVFEPYRGKGFAKEMILMVLRFFFLELAYQKVNTTVYSFNNPSIRLHEKLGFMKEGQLRKIIFTKGAYYDGICFGMTREEFELNHG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	177 (163)
Sequences:	19792 (15296)
Seq/√Len:	1198.0

ECOLI - RIMJ RIML ATDA YHHY MNAT
BACSU - YOKL YDAF YJCK YNAD YOAA YJDG YKKB YWNH
HALSA - Q9HNJ3 Q9HRY6 Q9HMZ2 Q9HRY5 Q9HSL3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
125_T	138_H	2.940	1.00
104_K	140_K	2.796	1.00
14_R	20_D	2.461	1.00
146_E	166_G	2.427	1.00
127_V	135_I	2.362	1.00
10_N	105_E	2.290	1.00
145_K	163_I	2.286	1.00
87_F	120_Y	2.276	1.00
77_T	114_F	2.276	1.00
145_K	148_Q	2.180	1.00
8_G	109_M	2.178	1.00
127_V	138_H	2.115	1.00
135_I	139_E	2.046	1.00
8_G	105_E	2.019	1.00
89_Y	107_I	1.976	1.00
136_R	139_E	1.975	1.00
111_L	143_F	1.881	1.00
112_R	116_L	1.867	1.00
23_I	71_I	1.800	1.00
148_Q	163_I	1.786	1.00
121_Q	151_K	1.769	1.00
75_I	106_M	1.754	1.00
111_L	123_V	1.731	1.00
135_I	163_I	1.726	1.00
14_R	65_V	1.696	1.00
107_I	141_L	1.689	1.00
44_A	48_R	1.658	1.00
21_I	48_R	1.657	1.00
154_F	159_Y	1.649	1.00
30_E	95_E	1.605	1.00
135_I	145_K	1.594	1.00
22_V	44_A	1.556	1.00
109_M	112_R	1.551	1.00
129_S	161_D	1.538	1.00
18_P	52_E	1.530	1.00
94_F	97_Y	1.496	1.00
93_V	103_A	1.488	1.00
50_W	54_Q	1.465	1.00
139_E	145_K	1.449	1.00
7_T	67_S	1.420	1.00
121_Q	159_Y	1.419	1.00
43_S	46_N	1.416	1.00
132_N	135_I	1.413	1.00
6_W	109_M	1.396	1.00
7_T	12_T	1.379	1.00
152_I	162_G	1.363	1.00
104_K	137_L	1.362	1.00
122_K	166_G	1.355	1.00
135_I	165_F	1.355	1.00
75_I	110_V	1.336	1.00
113_F	117_E	1.330	1.00
72_V	97_Y	1.313	1.00
129_S	148_Q	1.310	1.00
130_F	160_Y	1.295	1.00
23_I	70_N	1.287	1.00
63_I	67_S	1.287	1.00
91_L	138_H	1.281	1.00
149_L	164_C	1.249	1.00
70_N	97_Y	1.200	1.00
48_R	52_E	1.199	1.00
114_F	123_V	1.198	1.00
74_M	92_A	1.182	1.00
103_A	137_L	1.172	1.00
63_I	66_E	1.172	1.00
27_L	92_A	1.152	1.00
98_R	133_P	1.133	1.00
127_V	165_F	1.131	1.00
88_G	126_T	1.113	1.00
25_D	44_A	1.107	1.00
6_W	113_F	1.103	1.00
145_K	165_F	1.099	1.00
104_K	108_L	1.098	1.00
70_N	96_P	1.095	1.00
6_W	13_L	1.092	1.00
114_F	118_L	1.087	1.00
27_L	94_F	1.080	1.00
21_I	51_V	1.068	1.00
8_G	11_L	1.067	1.00
148_Q	161_D	1.061	1.00
113_F	118_L	1.060	1.00
95_E	98_R	1.059	1.00
86_T	124_N	1.057	1.00
125_T	143_F	1.057	1.00
81_D	84_N	1.055	1.00
41_P	47_M	1.054	1.00
111_L	167_M	1.047	1.00
151_K	161_D	1.032	1.00
65_V	69_N	1.032	1.00
42_R	46_N	1.026	1.00
128_Y	160_Y	1.010	1.00
49_E	53_E	1.010	1.00
21_I	44_A	1.009	1.00
23_I	26_S	0.991	1.00
18_P	48_R	0.991	1.00
91_L	134_S	0.987	1.00
134_S	138_H	0.982	1.00
16_I	63_I	0.965	1.00
150_R	161_D	0.956	1.00
129_S	163_I	0.953	1.00
111_L	141_L	0.952	1.00
137_L	141_L	0.945	1.00
77_T	110_V	0.943	1.00
122_K	146_E	0.942	1.00
108_L	112_R	0.941	1.00
30_E	94_F	0.935	1.00
132_N	136_R	0.922	1.00
150_R	166_G	0.921	1.00
16_I	74_M	0.919	1.00
25_D	29_D	0.913	1.00
11_L	102_F	0.907	1.00
33_R	36_D	0.905	1.00
30_E	96_P	0.905	1.00
91_L	103_A	0.904	1.00
138_H	143_F	0.903	1.00
104_K	141_L	0.898	1.00
143_F	167_M	0.895	1.00
32_L	98_R	0.887	1.00
86_T	122_K	0.885	1.00
99_G	133_P	0.884	1.00
12_T	69_N	0.880	1.00
26_S	94_F	0.872	1.00
108_L	141_L	0.870	1.00
11_L	106_M	0.865	1.00
114_F	120_Y	0.845	1.00
105_E	109_M	0.831	1.00
85_G	159_Y	0.825	1.00
18_P	21_I	0.825	1.00
22_V	26_S	0.819	1.00
12_T	67_S	0.819	1.00
149_L	152_I	0.818	1.00
21_I	25_D	0.813	1.00
97_Y	100_K	0.808	1.00
85_G	154_F	0.804	1.00
63_I	71_I	0.803	1.00
86_T	152_I	0.797	1.00
150_R	168_T	0.786	1.00
64_A	71_I	0.777	1.00
132_N	139_E	0.774	1.00
18_P	55_L	0.771	1.00
88_G	124_N	0.764	1.00
93_V	102_F	0.757	1.00
154_F	158_A	0.757	1.00
49_E	52_E	0.756	1.00
64_A	67_S	0.751	1.00
23_I	94_F	0.743	1.00
26_S	70_N	0.741	1.00
128_Y	155_T	0.740	1.00
126_T	162_G	0.735	1.00
70_N	94_F	0.735	1.00
126_T	149_L	0.728	1.00
47_M	50_W	0.727	1.00
107_I	137_L	0.727	1.00
25_D	47_M	0.722	1.00
99_G	104_K	0.718	1.00
139_E	165_F	0.717	1.00
10_N	101_G	0.716	1.00
127_V	134_S	0.715	1.00
26_S	96_P	0.711	1.00
62_F	65_V	0.706	1.00
122_K	168_T	0.705	1.00
127_V	163_I	0.701	1.00
146_E	150_R	0.700	1.00
151_K	159_Y	0.696	1.00
91_L	107_I	0.692	1.00
93_V	98_R	0.691	1.00
66_E	72_V	0.691	1.00
9_E	105_E	0.686	1.00
8_G	13_L	0.685	1.00
12_T	65_V	0.683	1.00
12_T	66_E	0.681	1.00
77_T	87_F	0.671	1.00
42_R	47_M	0.671	1.00
28_D	92_A	0.669	1.00
58_D	62_F	0.664	1.00
130_F	158_A	0.656	1.00
87_F	114_F	0.653	1.00
44_A	47_M	0.642	1.00
99_G	136_R	0.637	1.00
133_P	136_R	0.629	1.00
136_R	140_K	0.628	1.00
125_T	134_S	0.627	1.00
45_N	49_E	0.625	1.00
62_F	110_V	0.624	1.00
104_K	133_P	0.618	1.00
14_R	66_E	0.617	1.00
45_N	48_R	0.617	1.00
35_M	130_F	0.614	1.00
155_T	158_A	0.612	1.00
17_Q	20_D	0.611	1.00
102_F	105_E	0.610	1.00
124_N	149_L	0.608	1.00
103_A	107_I	0.607	1.00
111_L	115_F	0.606	1.00
46_N	49_E	0.604	1.00
71_I	74_M	0.603	1.00
153_I	162_G	0.602	1.00
11_L	105_E	0.602	1.00
35_M	128_Y	0.601	1.00
85_G	121_Q	0.600	1.00
125_T	165_F	0.600	1.00
14_R	64_A	0.599	1.00
26_S	30_E	0.594	1.00
72_V	102_F	0.591	1.00
51_V	55_L	0.590	1.00
141_L	167_M	0.589	1.00
32_L	36_D	0.589	1.00
151_K	168_T	0.588	1.00
33_R	38_L	0.584	1.00
126_T	164_C	0.583	1.00
76_E	90_Y	0.582	1.00
28_D	31_I	0.580	1.00
7_T	66_E	0.579	1.00
75_I	107_I	0.579	1.00
58_D	61_R	0.572	1.00
80_C	87_F	0.570	1.00
14_R	17_Q	0.566	1.00
93_V	97_Y	0.565	1.00
129_S	135_I	0.560	1.00
27_L	71_I	0.551	1.00
30_E	98_R	0.550	1.00
15_A	55_L	0.548	1.00
32_L	92_A	0.545	1.00
115_F	167_M	0.544	1.00
154_F	157_G	0.542	1.00
93_V	106_M	0.541	1.00
64_A	93_V	0.539	1.00
138_H	165_F	0.538	1.00
124_N	152_I	0.537	1.00
66_E	70_N	0.534	1.00
27_L	31_I	0.533	1.00
122_K	152_I	0.531	1.00
78_F	88_G	0.530	1.00
144_M	150_R	0.529	1.00
67_S	102_F	0.529	1.00
99_G	137_L	0.529	1.00
131_N	134_S	0.528	1.00
89_Y	123_V	0.527	1.00
155_T	160_Y	0.525	1.00
21_I	47_M	0.520	1.00
66_E	69_N	0.520	1.00
62_F	113_F	0.505	1.00
22_V	25_D	0.503	1.00
24_F	74_M	0.501	1.00
47_M	51_V	0.500	1.00

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
3pzjA	2	0.9774	100	0.304	Contact Map
2vzyA	3	0.9096	100	0.309	Contact Map
2z10A	2	1	100	0.316	Contact Map
1yreA	2	0.9548	100	0.316	Contact Map
3r9fA	1	0.9548	100	0.333	Contact Map
1nslA	3	0.9661	100	0.34	Contact Map
2fckA	2	0.9379	100	0.353	Contact Map
3tcvA	2	1	100	0.362	Contact Map
1s7kA	2	0.8757	100	0.362	Contact Map
4r9mA	5	0.9435	100	0.368	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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