CWLD - BACSU - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

CWLD - Germination-specific N-acetylmuramoyl-L-alanine amidase

UniProt:	P50864	Sequences: MRKKLKWLSFLLGFIILLFLFKYQFSNNDSWKPWSLPLSGKIIYLDPGHGGPDGGAVGGKLLEKDVTLEVAFRVRDYLQEQGALVIMTRESDTDLAPEGTKGYSRRKAEDLRQRVKLINHSEAELYISIHLNAIPSQKWSGAQSFYYGKYAENEKVAKYIQDELRRNLENTTRKAKRIHGIYLMQNVTKPGALIEVGFLSNPSEATLLGKPKYQDKVASSIYKGILRYFTEKGDPPE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	237 (187)
Sequences:	5365 (4025)
Seq/√Len:	294.3

ECOLI - AMIC AMIB AMIA
BACSU - CWLD YRVJ CWLC YQII LYTC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
75_R	79_Q	3.011	1.00
73_R	215_D	2.974	1.00
45_L	71_A	2.729	1.00
160_I	192_A	2.642	1.00
70_V	196_V	2.632	1.00
163_E	227_R	2.584	1.00
75_R	87_M	2.582	1.00
132_N	143_Q	2.553	1.00
42_I	84_L	2.540	1.00
77_Y	219_S	2.532	1.00
47_P	71_A	2.502	1.00
69_E	214_Q	2.209	1.00
86_I	121_S	2.157	1.00
62_L	65_D	2.126	1.00
44_Y	123_A	2.086	1.00
81_Q	226_L	2.014	1.00
61_L	209_G	1.976	1.00
110_D	113_Q	1.948	1.00
113_Q	116_K	1.891	1.00
67_T	131_L	1.854	1.00
71_A	129_I	1.823	1.00
44_Y	88_T	1.813	1.00
119_N	188_T	1.765	1.00
64_K	92_D	1.750	1.00
59_G	205_A	1.740	1.00
144_S	161_Q	1.685	1.00
44_Y	117_L	1.671	1.00
58_G	205_A	1.654	1.00
81_Q	222_Y	1.652	1.00
163_E	223_K	1.649	1.00
69_E	73_R	1.626	1.00
77_Y	215_D	1.610	1.00
77_Y	222_Y	1.610	1.00
71_A	87_M	1.597	1.00
73_R	211_P	1.582	1.00
161_Q	172_T	1.579	1.00
86_I	117_L	1.551	1.00
207_L	213_Y	1.492	1.00
133_A	200_S	1.488	1.00
74_V	221_I	1.479	1.00
41_K	229_F	1.465	1.00
42_I	86_I	1.451	1.00
61_L	205_A	1.443	1.00
194_I	221_I	1.438	1.00
182_Y	186_N	1.436	1.00
126_Y	183_L	1.432	1.00
43_I	83_A	1.430	1.00
83_A	226_L	1.414	1.00
127_I	225_I	1.401	1.00
73_R	214_Q	1.393	1.00
116_K	120_H	1.389	1.00
125_L	156_V	1.386	1.00
66_V	131_L	1.379	1.00
125_L	225_I	1.354	1.00
147_Y	151_A	1.353	1.00
70_V	131_L	1.347	1.00
79_Q	85_V	1.327	1.00
154_E	158_K	1.326	1.00
134_I	139_W	1.326	1.00
143_Q	176_K	1.324	1.00
56_A	199_L	1.312	1.00
73_R	77_Y	1.303	1.00
140_S	203_S	1.301	1.00
117_L	121_S	1.292	1.00
38_L	83_A	1.280	1.00
159_Y	227_R	1.278	1.00
74_V	218_A	1.272	1.00
146_Y	154_E	1.262	1.00
75_R	90_E	1.257	1.00
40_G	83_A	1.250	1.00
112_R	182_Y	1.236	1.00
41_K	124_E	1.231	1.00
210_K	213_Y	1.221	1.00
118_I	189_K	1.218	1.00
163_E	166_R	1.216	1.00
40_G	84_L	1.206	1.00
159_Y	224_G	1.204	1.00
47_P	88_T	1.195	1.00
54_G	62_L	1.173	1.00
77_Y	81_Q	1.169	1.00
78_L	222_Y	1.157	1.00
78_L	83_A	1.145	1.00
213_Y	217_V	1.144	1.00
45_L	74_V	1.133	1.00
115_V	182_Y	1.119	1.00
68_L	72_F	1.115	1.00
167_N	220_S	1.110	1.00
131_L	208_L	1.106	1.00
143_Q	173_R	1.105	1.00
94_D	110_D	1.105	1.00
75_R	85_V	1.081	1.00
219_S	223_K	1.080	1.00
129_I	196_V	1.078	1.00
205_A	209_G	1.077	1.00
49_H	130_H	1.076	1.00
52_P	94_D	1.066	1.00
76_D	79_Q	1.064	1.00
119_N	187_V	1.060	1.00
57_V	62_L	1.030	1.00
77_Y	80_E	1.028	1.00
54_G	57_V	1.024	1.00
112_R	116_K	1.018	1.00
74_V	222_Y	1.011	1.00
123_A	189_K	1.008	1.00
156_V	192_A	1.008	1.00
167_N	223_K	0.994	1.00
215_D	219_S	0.992	1.00
95_L	110_D	0.983	1.00
140_S	207_L	0.983	1.00
115_V	119_N	0.981	1.00
76_D	80_E	0.976	1.00
78_L	225_I	0.967	1.00
180_G	185_Q	0.957	1.00
49_H	195_E	0.953	1.00
222_Y	226_L	0.944	1.00
203_S	207_L	0.942	1.00
44_Y	86_I	0.939	1.00
131_L	199_L	0.939	1.00
163_E	220_S	0.933	1.00
61_L	66_V	0.921	1.00
40_G	82_G	0.918	1.00
73_R	76_D	0.916	1.00
155_K	159_Y	0.898	1.00
158_K	162_D	0.891	1.00
145_F	179_H	0.890	1.00
173_R	198_F	0.880	1.00
212_K	216_K	0.875	1.00
196_V	217_V	0.870	1.00
68_L	89_R	0.870	1.00
140_S	171_T	0.865	1.00
207_L	216_K	0.858	1.00
72_F	75_R	0.857	1.00
197_G	204_E	0.854	1.00
136_S	139_W	0.853	1.00
119_N	189_K	0.852	1.00
115_V	186_N	0.850	1.00
162_D	227_R	0.849	1.00
73_R	218_A	0.843	1.00
44_Y	121_S	0.840	1.00
161_Q	165_R	0.836	1.00
111_L	182_Y	0.830	1.00
145_F	181_I	0.830	1.00
152_E	155_K	0.829	1.00
142_A	164_L	0.828	1.00
74_V	129_I	0.820	1.00
130_H	195_E	0.817	1.00
199_L	205_A	0.812	1.00
146_Y	157_A	0.803	1.00
196_V	221_I	0.799	0.99
134_I	137_Q	0.798	0.99
142_A	168_L	0.784	0.99
181_I	184_M	0.776	0.99
126_Y	191_G	0.774	0.99
118_I	126_Y	0.765	0.99
156_V	160_I	0.764	0.99
78_L	85_V	0.758	0.99
146_Y	177_R	0.758	0.99
164_L	220_S	0.752	0.99
38_L	41_K	0.750	0.99
181_I	193_L	0.748	0.99
159_Y	163_E	0.742	0.99
131_L	196_V	0.742	0.99
159_Y	231_E	0.738	0.99
50_G	64_K	0.731	0.99
71_A	74_V	0.729	0.99
46_D	114_R	0.725	0.99
168_L	220_S	0.722	0.99
156_V	228_Y	0.712	0.99
220_S	224_G	0.710	0.99
53_D	94_D	0.708	0.99
115_V	187_V	0.704	0.99
70_V	218_A	0.703	0.99
125_L	229_F	0.700	0.99
157_A	192_A	0.699	0.99
118_I	187_V	0.697	0.99
164_L	194_I	0.697	0.99
143_Q	198_F	0.692	0.99
51_G	89_R	0.691	0.99
127_I	192_A	0.691	0.99
43_I	78_L	0.690	0.99
56_A	133_A	0.690	0.99
45_L	75_R	0.689	0.99
70_V	129_I	0.687	0.98
77_Y	218_A	0.680	0.98
145_F	176_K	0.678	0.98
182_Y	185_Q	0.671	0.98
140_S	204_E	0.668	0.98
203_S	206_T	0.667	0.98
164_L	217_V	0.666	0.98
223_K	227_R	0.661	0.98
145_F	198_F	0.660	0.98
142_A	170_N	0.655	0.98
142_A	197_G	0.649	0.98
202_P	206_T	0.647	0.98
157_A	175_A	0.641	0.98
48_G	130_H	0.641	0.98
163_E	167_N	0.639	0.98
113_Q	117_L	0.632	0.97
79_Q	84_L	0.631	0.97
118_I	123_A	0.631	0.97
197_G	208_L	0.629	0.97
51_G	64_K	0.627	0.97
201_N	204_E	0.623	0.97
69_E	72_F	0.621	0.97
197_G	213_Y	0.621	0.97
95_L	113_Q	0.618	0.97
144_S	194_I	0.615	0.97
50_G	53_D	0.612	0.97
184_M	191_G	0.612	0.97
179_H	184_M	0.610	0.97
88_T	117_L	0.607	0.97
211_P	214_Q	0.607	0.97
170_N	207_L	0.607	0.97
139_W	200_S	0.602	0.97
83_A	229_F	0.600	0.96
165_R	172_T	0.597	0.96
72_F	90_E	0.595	0.96
87_M	90_E	0.593	0.96
226_L	230_T	0.591	0.96
42_I	124_E	0.591	0.96
68_L	92_D	0.591	0.96
65_D	69_E	0.589	0.96
69_E	211_P	0.589	0.96
70_V	214_Q	0.586	0.96
113_Q	120_H	0.586	0.96
125_L	228_Y	0.585	0.96
170_N	204_E	0.584	0.96
132_N	198_F	0.578	0.96
163_E	224_G	0.578	0.96
68_L	90_E	0.577	0.96
47_P	87_M	0.577	0.96
43_I	125_L	0.577	0.96
227_R	231_E	0.575	0.95
51_G	92_D	0.575	0.95
160_I	221_I	0.574	0.95
167_N	219_S	0.573	0.95
159_Y	162_D	0.568	0.95
150_Y	153_N	0.566	0.95
144_S	192_A	0.565	0.95
142_A	165_R	0.562	0.95
64_K	89_R	0.557	0.95
135_P	200_S	0.555	0.95
58_G	61_L	0.554	0.94
45_L	85_V	0.552	0.94
154_E	177_R	0.550	0.94
67_T	70_V	0.550	0.94
152_E	228_Y	0.548	0.94
132_N	193_L	0.546	0.94
168_L	197_G	0.545	0.94
139_W	198_F	0.545	0.94
67_T	129_I	0.543	0.94
70_V	217_V	0.540	0.94
147_Y	150_Y	0.539	0.94
48_G	193_L	0.539	0.94
81_Q	223_K	0.538	0.94
144_S	160_I	0.537	0.94
207_L	210_K	0.537	0.94
170_N	213_Y	0.536	0.93
31_W	35_S	0.535	0.93
144_S	172_T	0.535	0.93
147_Y	184_M	0.535	0.93
46_D	88_T	0.532	0.93
211_P	215_D	0.529	0.93
148_G	151_A	0.529	0.93
48_G	195_E	0.528	0.93
136_S	200_S	0.528	0.93
165_R	170_N	0.526	0.93
173_R	176_K	0.526	0.93
64_K	68_L	0.524	0.93
94_D	111_L	0.523	0.93
147_Y	185_Q	0.523	0.93
74_V	225_I	0.523	0.93
222_Y	225_I	0.520	0.92
158_K	175_A	0.519	0.92
183_L	193_L	0.518	0.92
76_D	215_D	0.517	0.92
187_V	191_G	0.516	0.92
142_A	213_Y	0.503	0.91
137_Q	202_P	0.500	0.91
212_K	215_D	0.500	0.91

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
3ne8A	2	0.7764	100	0.191	Contact Map
4rn7A	1	0.7637	100	0.191	Contact Map
4binA	1	0.8734	100	0.195	Contact Map
1jwqA	1	0.7426	100	0.203	Contact Map
4lq6A	1	0.7595	100	0.213	Contact Map
1xovA	1	0.7637	100	0.218	Contact Map
3czxA	2	0.7426	100	0.237	Contact Map
3qayA	1	0.7384	100	0.267	Contact Map
3nh4A	2	0.7595	90.5	0.913	Contact Map
2gu2A	3	0.73	87.4	0.918	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.

Page generated in 0.008 seconds.