YTKL - BACSU - GREMLIN Contacts

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YTKL - UPF0173 metal-dependent hydrolase YtkL

UniProt:	Q795U4	Sequences: MKVTYHGHSVITVETKDHHIIFDPFLTGNSLTDIKPEDVKADVILLTHGHNDHVGDTEQIAKQNNALVIAPNELAVYLGWKGLNVHPMHIGGSRQFDFGKVKLTQAFHGSAITDEENKTITYTGMPAGILLTVEDKTIFHAGDTALFSDMKLIGELNHIDLAFLPIGDNFTMGPEDAKLAAEWLRAKQVVPVHYNTFPVIEQDPEAFADSLPGGVGKVMSVGETIEL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	227 (207)
Sequences:	5090 (3525)
Seq/√Len:	245.0

ECOLI - ULAG
BACSU - YTKL YDDR
HALSA - Y1038 Q9HR59 Q9HR33
SULSO - Y099 Q97W37

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
11_I	192_V	3.407	1.00
103_L	127_A	3.246	1.00
132_T	137_T	2.995	1.00
100_K	132_T	2.853	1.00
14_E	19_H	2.836	1.00
104_T	130_L	2.780	1.00
67_L	86_H	2.770	1.00
181_A	189_V	2.736	1.00
162_A	186_A	2.684	1.00
93_S	100_K	2.629	1.00
47_T	140_H	2.606	1.00
175_E	210_S	2.312	1.00
146_L	183_W	2.311	1.00
20_I	43_V	2.300	1.00
130_L	159_I	2.243	1.00
102_K	132_T	2.205	1.00
95_Q	100_K	2.201	1.00
172_M	180_A	2.152	1.00
75_A	87_P	2.115	1.00
141_A	165_P	2.113	1.00
160_D	187_K	2.098	1.00
104_T	128_G	2.085	1.00
163_F	190_V	2.083	1.00
151_K	155_E	2.070	1.00
138_I	163_F	2.037	1.00
22_F	47_T	2.037	1.00
18_H	97_D	2.012	1.00
93_S	102_K	1.989	1.00
11_I	163_F	1.937	1.00
88_M	103_L	1.931	1.00
35_K	38_D	1.904	1.00
12_T	19_H	1.888	1.00
168_D	173_G	1.869	1.00
151_K	183_W	1.832	1.00
45_L	131_L	1.770	1.00
181_A	186_A	1.765	1.00
205_E	209_D	1.761	1.00
109_G	170_F	1.701	1.00
75_A	79_G	1.688	1.00
179_L	183_W	1.682	1.00
3_V	161_L	1.672	1.00
179_L	182_E	1.647	1.00
56_D	60_I	1.629	1.00
141_A	164_L	1.622	1.00
206_A	210_S	1.617	1.00
45_L	129_I	1.615	1.00
27_T	55_G	1.534	1.00
57_T	60_I	1.510	1.00
95_Q	98_F	1.488	1.00
161_L	190_V	1.486	1.00
22_F	140_H	1.440	1.00
43_V	67_L	1.434	1.00
15_T	133_V	1.432	1.00
140_H	192_V	1.415	1.00
166_I	177_A	1.409	1.00
43_V	96_F	1.398	1.00
154_G	185_R	1.356	1.00
86_H	94_R	1.341	1.00
163_F	192_V	1.338	1.00
72_N	89_H	1.306	1.00
137_T	159_I	1.298	1.00
22_F	131_L	1.257	1.00
45_L	101_V	1.242	1.00
49_G	77_Y	1.239	1.00
13_V	138_I	1.238	1.00
91_G	105_Q	1.233	1.00
150_M	180_A	1.211	1.00
43_V	69_I	1.211	1.00
6_H	33_D	1.204	1.00
173_G	176_D	1.202	1.00
3_V	11_I	1.201	1.00
18_H	42_D	1.200	1.00
44_I	68_V	1.186	1.00
177_A	189_V	1.171	1.00
89_H	109_G	1.158	1.00
141_A	162_A	1.152	1.00
4_T	14_E	1.139	1.00
57_T	68_V	1.128	1.00
91_G	156_L	1.120	1.00
103_L	129_I	1.119	1.00
18_H	99_G	1.119	1.00
206_A	209_D	1.104	1.00
101_V	129_I	1.099	1.00
161_L	188_Q	1.088	1.00
89_H	92_G	1.085	1.00
70_A	74_L	1.085	1.00
6_H	10_V	1.084	1.00
152_L	156_L	1.080	1.00
128_G	141_A	1.077	1.00
10_V	22_F	1.077	1.00
181_A	211_L	1.065	1.00
13_V	22_F	1.047	1.00
204_P	207_F	1.041	1.00
146_L	179_L	1.039	1.00
152_L	155_E	1.037	1.00
67_L	84_N	1.033	1.00
164_L	180_A	1.029	1.00
25_F	30_S	1.016	1.00
26_L	36_P	1.015	1.00
69_I	88_M	1.013	1.00
69_I	94_R	1.008	1.00
137_T	157_N	1.003	1.00
203_D	206_A	0.998	1.00
70_A	75_A	0.997	1.00
202_Q	207_F	0.997	1.00
21_I	41_A	0.987	1.00
5_Y	192_V	0.974	1.00
32_T	35_K	0.970	1.00
104_T	139_F	0.963	1.00
71_P	127_A	0.957	1.00
72_N	76_V	0.955	1.00
20_I	99_G	0.950	1.00
6_H	12_T	0.949	1.00
162_A	184_L	0.948	1.00
12_T	41_A	0.944	1.00
131_L	138_I	0.931	1.00
132_T	135_D	0.927	1.00
6_H	26_L	0.926	1.00
78_L	83_L	0.926	1.00
78_L	81_K	0.924	1.00
57_T	61_A	0.919	1.00
205_E	208_A	0.915	1.00
164_L	184_L	0.913	1.00
3_V	163_F	0.910	1.00
19_H	40_K	0.908	1.00
68_V	83_L	0.897	1.00
130_L	153_I	0.896	1.00
107_F	147_F	0.892	1.00
19_H	42_D	0.891	1.00
88_M	94_R	0.885	1.00
74_L	124_G	0.884	1.00
19_H	41_A	0.883	1.00
43_V	101_V	0.883	1.00
12_T	21_I	0.879	1.00
58_E	62_K	0.876	0.99
166_I	194_Y	0.867	0.99
148_S	151_K	0.867	0.99
48_H	143_D	0.866	0.99
88_M	92_G	0.865	0.99
154_G	184_L	0.863	0.99
86_H	169_N	0.849	0.99
162_A	181_A	0.844	0.99
139_F	180_A	0.840	0.99
65_N	84_N	0.833	0.99
106_A	144_T	0.831	0.99
141_A	144_T	0.827	0.99
133_V	138_I	0.825	0.99
194_Y	208_A	0.824	0.99
69_I	129_I	0.821	0.99
148_S	152_L	0.815	0.99
20_I	101_V	0.813	0.99
208_A	212_P	0.813	0.99
137_T	160_D	0.809	0.99
188_Q	191_P	0.800	0.99
45_L	127_A	0.799	0.99
49_G	124_G	0.797	0.99
18_H	43_V	0.797	0.99
164_L	181_A	0.794	0.99
22_F	45_L	0.792	0.99
77_Y	81_K	0.791	0.99
174_P	206_A	0.781	0.99
6_H	32_T	0.780	0.99
182_E	214_G	0.777	0.99
75_A	85_V	0.776	0.99
70_A	129_I	0.775	0.99
26_L	56_D	0.775	0.99
76_V	79_G	0.773	0.99
11_I	190_V	0.772	0.99
101_V	131_L	0.767	0.99
111_A	122_Y	0.766	0.99
59_Q	63_Q	0.765	0.99
14_E	17_D	0.754	0.98
69_I	101_V	0.754	0.98
210_S	213_G	0.744	0.98
63_Q	66_A	0.743	0.98
56_D	59_Q	0.743	0.98
173_G	177_A	0.741	0.98
178_K	182_E	0.739	0.98
164_L	172_M	0.728	0.98
72_N	87_P	0.725	0.98
10_V	26_L	0.725	0.98
154_G	162_A	0.716	0.98
209_D	213_G	0.715	0.98
154_G	159_I	0.713	0.98
13_V	20_I	0.711	0.98
210_S	214_G	0.705	0.98
9_S	165_P	0.699	0.97
102_K	130_L	0.697	0.97
50_H	143_D	0.696	0.97
168_D	202_Q	0.695	0.97
34_I	38_D	0.693	0.97
68_V	78_L	0.690	0.97
167_G	171_T	0.688	0.97
90_I	127_A	0.685	0.97
15_T	20_I	0.680	0.97
133_V	136_K	0.678	0.97
178_K	210_S	0.677	0.97
174_P	202_Q	0.676	0.97
12_T	39_V	0.675	0.97
3_V	190_V	0.673	0.97
61_A	68_V	0.671	0.97
48_H	193_H	0.670	0.97
71_P	74_L	0.670	0.97
18_H	98_F	0.670	0.97
186_A	189_V	0.667	0.97
139_F	184_L	0.664	0.97
128_G	139_F	0.663	0.97
70_A	85_V	0.659	0.96
90_I	145_A	0.658	0.96
57_T	78_L	0.656	0.96
174_P	178_K	0.651	0.96
10_V	32_T	0.651	0.96
4_T	12_T	0.649	0.96
207_F	211_L	0.644	0.96
58_E	81_K	0.643	0.96
69_I	96_F	0.643	0.96
165_P	177_A	0.640	0.96
111_A	121_T	0.639	0.96
91_G	152_L	0.639	0.96
176_D	179_L	0.638	0.96
10_V	25_F	0.636	0.96
191_P	194_Y	0.633	0.96
91_G	104_T	0.632	0.95
61_A	65_N	0.629	0.95
203_D	207_F	0.629	0.95
138_I	161_L	0.626	0.95
58_E	83_L	0.626	0.95
106_A	128_G	0.626	0.95
111_A	114_D	0.623	0.95
146_L	150_M	0.623	0.95
5_Y	194_Y	0.622	0.95
10_V	55_G	0.619	0.95
130_L	137_T	0.616	0.95
180_A	184_L	0.615	0.95
15_T	134_E	0.615	0.95
178_K	189_V	0.613	0.95
3_V	13_V	0.613	0.95
166_I	191_P	0.612	0.95
144_T	150_M	0.610	0.95
178_K	211_L	0.608	0.94
71_P	129_I	0.596	0.94
140_H	163_F	0.594	0.94
27_T	59_Q	0.593	0.94
16_K	133_V	0.591	0.94
102_K	157_N	0.590	0.94
98_F	134_E	0.590	0.94
144_T	172_M	0.589	0.93
153_I	159_I	0.589	0.93
15_T	99_G	0.582	0.93
79_G	82_G	0.579	0.93
15_T	131_L	0.575	0.93
131_L	140_H	0.571	0.92
47_T	129_I	0.571	0.92
9_S	192_V	0.570	0.92
107_F	145_A	0.563	0.92
32_T	44_I	0.562	0.92
40_K	64_N	0.561	0.92
16_K	135_D	0.556	0.91
48_H	52_D	0.553	0.91
71_P	103_L	0.552	0.91
178_K	214_G	0.551	0.91
15_T	136_K	0.551	0.91
109_G	121_T	0.551	0.91
49_G	123_T	0.550	0.91
143_D	193_H	0.550	0.91
91_G	153_I	0.547	0.91
144_T	147_F	0.546	0.91
174_P	210_S	0.545	0.91
170_F	200_I	0.545	0.91
150_M	153_I	0.545	0.91
21_I	39_V	0.540	0.90
136_K	161_L	0.540	0.90
182_E	185_R	0.533	0.90
197_F	200_I	0.532	0.90
28_G	55_G	0.532	0.90
96_F	99_G	0.529	0.89
90_I	125_M	0.527	0.89
41_A	44_I	0.526	0.89
168_D	199_V	0.525	0.89
158_H	185_R	0.524	0.89
110_S	124_G	0.523	0.89
27_T	31_L	0.523	0.89
5_Y	195_N	0.523	0.89
15_T	18_H	0.522	0.89
147_F	150_M	0.522	0.89
155_E	185_R	0.520	0.88
60_I	63_Q	0.519	0.88
10_V	36_P	0.517	0.88
105_Q	149_D	0.517	0.88
195_N	208_A	0.516	0.88
130_L	139_F	0.515	0.88
5_Y	11_I	0.512	0.88
159_I	162_A	0.512	0.88
16_K	136_K	0.512	0.88
136_K	160_D	0.510	0.87
104_T	153_I	0.510	0.87
26_L	108_H	0.510	0.87
158_H	187_K	0.508	0.87
154_G	183_W	0.507	0.87
149_D	152_L	0.507	0.87
104_T	156_L	0.507	0.87
8_H	51_N	0.507	0.87
165_P	173_G	0.505	0.87
162_A	189_V	0.504	0.87
34_I	39_V	0.503	0.87
20_I	96_F	0.502	0.87
31_L	201_E	0.502	0.87
72_N	75_A	0.502	0.87
74_L	78_L	0.501	0.87
49_G	125_M	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
4qn9A	2	0.9824	100	0.345	Contact Map
3rpcA	2	0.9912	100	0.364	Contact Map
3bv6A	5	1	100	0.449	Contact Map
2wylA	5	0.9559	100	0.463	Contact Map
4jo0A	2	0.9515	100	0.494	Contact Map
3kl7A	1	0.8899	100	0.528	Contact Map
1zkpA	2	0.9251	100	0.541	Contact Map
2cbnA	2	0.9868	100	0.546	Contact Map
1vjnA	1	0.7797	100	0.554	Contact Map
3jxpA	2	0.9604	100	0.557	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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