NLPI - ECOLI - GREMLIN Contacts

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

NLPI - Lipoprotein NlpI

UniProt:	P0AFB1	Sequences: MKPFLRWCFVATALTLAGCSNTSWRKSEVLAVPLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHRYALLELSLLGQDQDDLAESDQQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12371
Length:	294 (233)
Sequences:	13536 (12214)
Seq/√Len:	800.2

ECOLI - NLPI LPSRP HEMY PGAA BAMD YBEQ BCSC YFBP NRFG YJCO
BACSU - YVCD RAPE YPIA RAPB RAPG RAPJ RAPF RAPH RAPA RAPI RAPK RAPC RAPD YRRB
HALSA - Q9HMM8
SULSO - Q97V36 Q97VC4 Q97WM3 Q97ZS3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
145_R	148_L	4.277	1.00
111_N	114_A	3.997	1.00
77_L	80_L	3.844	1.00
249_D	252_S	3.700	1.00
211_S	214_T	3.422	1.00
39_Q	42_V	3.163	1.00
65_L	84_D	2.828	1.00
103_G	119_F	2.612	1.00
241_G	257_F	2.571	1.00
137_G	153_L	2.567	1.00
99_F	118_A	2.531	1.00
69_G	85_F	2.498	1.00
237_N	256_L	2.480	1.00
133_H	152_D	2.411	1.00
120_D	136_R	2.361	1.00
171_Y	186_L	2.246	1.00
85_F	101_Y	2.116	1.00
153_L	169_W	2.102	1.00
203_V	219_L	2.089	1.00
68_R	84_D	2.048	1.00
102_L	118_A	2.044	1.00
136_R	152_D	2.015	1.00
167_S	185_V	1.969	1.00
119_F	135_N	1.918	1.00
47_M	67_E	1.879	1.00
154_L	170_L	1.877	1.00
72_Y	80_L	1.876	1.00
86_S	102_L	1.825	1.00
140_L	152_D	1.821	1.00
199_G	218_R	1.790	1.00
48_E	68_R	1.778	1.00
106_L	118_A	1.687	1.00
140_L	148_L	1.652	1.00
206_Y	218_R	1.643	1.00
116_Y	120_D	1.636	1.00
174_E	185_V	1.628	1.00
72_Y	84_D	1.604	1.00
202_I	206_Y	1.601	1.00
150_Q	154_L	1.596	1.00
106_L	114_A	1.584	1.00
170_L	185_V	1.566	1.00
136_R	140_L	1.559	1.00
68_R	72_Y	1.556	1.00
187_K	202_I	1.533	1.00
140_L	145_R	1.521	1.00
82_R	86_S	1.518	1.00
186_L	201_N	1.500	1.00
183_K	187_K	1.469	1.00
102_L	106_L	1.458	1.00
170_L	174_E	1.422	1.00
174_E	181_Q	1.411	1.00
148_L	151_D	1.410	1.00
72_Y	77_L	1.377	1.00
156_F	166_R	1.375	1.00
219_L	239_Y	1.370	1.00
116_Y	143_G	1.364	1.00
133_H	155_A	1.350	1.00
244_Y	256_L	1.327	1.00
202_I	218_R	1.322	1.00
79_A	109_A	1.313	1.00
183_K	209_N	1.302	1.00
62_A	88_A	1.298	1.00
244_Y	252_S	1.294	1.00
113_D	143_G	1.282	1.00
216_M	220_K	1.267	1.00
240_L	244_Y	1.265	1.00
150_Q	170_L	1.258	1.00
126_D	129_Y	1.253	1.00
150_Q	174_E	1.247	1.00
106_L	111_N	1.242	1.00
171_Y	189_H	1.235	1.00
206_Y	214_T	1.216	1.00
199_G	221_A	1.215	1.00
116_Y	139_A	1.212	1.00
82_R	102_L	1.208	1.00
44_L	48_E	1.207	1.00
71_L	75_L	1.200	1.00
241_G	260_A	1.198	1.00
240_L	256_L	1.189	1.00
116_Y	136_R	1.173	1.00
95_M	98_V	1.171	1.00
150_Q	177_L	1.171	1.00
183_K	206_Y	1.169	1.00
220_K	240_L	1.159	1.00
82_R	109_A	1.155	1.00
82_R	105_Y	1.155	1.00
88_A	98_V	1.152	1.00
254_T	258_K	1.148	1.00
237_N	259_L	1.143	1.00
116_Y	140_L	1.141	1.00
244_Y	249_D	1.137	1.00
80_L	83_N	1.133	1.00
180_K	209_N	1.132	1.00
122_V	132_A	1.113	1.00
133_H	156_F	1.109	1.00
181_Q	184_E	1.108	1.00
34_L	46_R	1.106	1.00
103_G	122_V	1.103	1.00
137_G	156_F	1.100	1.00
245_L	257_F	1.098	1.00
58_D	61_R	1.086	1.00
252_S	255_A	1.080	1.00
87_Q	90_A	1.079	1.00
157_Y	167_S	1.076	1.00
69_G	88_A	1.072	1.00
70_V	101_Y	1.070	1.00
160_D	163_D	1.067	1.00
150_Q	173_A	1.054	1.00
89_L	99_F	1.053	1.00
66_Y	70_V	1.040	1.00
147_K	177_L	1.039	1.00
41_E	75_L	1.038	1.00
99_F	121_S	1.035	1.00
203_V	215_L	1.031	1.00
238_F	242_K	1.027	1.00
114_A	117_E	1.020	1.00
104_I	135_N	1.019	1.00
139_A	143_G	1.018	1.00
134_L	169_W	1.016	1.00
89_L	98_V	1.014	1.00
206_Y	211_S	1.008	1.00
155_A	158_Q	1.007	1.00
183_K	202_I	1.002	1.00
34_L	42_V	1.002	1.00
82_R	106_L	0.996	1.00
65_L	87_Q	0.988	1.00
157_Y	166_R	0.978	1.00
123_L	132_A	0.978	1.00
141_Y	146_D	0.972	1.00
216_M	247_L	0.970	1.00
167_S	188_Q	0.969	1.00
172_L	201_N	0.967	1.00
155_A	159_D	0.967	1.00
138_I	169_W	0.957	1.00
100_N	135_N	0.948	1.00
203_V	222_D	0.948	1.00
123_L	133_H	0.946	1.00
190_F	199_G	0.941	1.00
213_Q	247_L	0.933	1.00
103_G	115_A	0.932	1.00
216_M	244_Y	0.915	1.00
92_R	95_M	0.912	1.00
156_F	159_D	0.912	1.00
256_L	259_L	0.907	1.00
214_T	217_E	0.906	1.00
44_L	72_Y	0.906	1.00
207_L	239_Y	0.904	1.00
171_Y	182_A	0.901	1.00
100_N	104_I	0.899	1.00
204_E	239_Y	0.896	1.00
243_Y	247_L	0.892	1.00
87_Q	91_I	0.890	1.00
78_R	105_Y	0.889	1.00
121_S	125_L	0.869	1.00
163_D	166_R	0.867	1.00
200_W	239_Y	0.866	1.00
134_L	138_I	0.865	1.00
146_D	173_A	0.862	1.00
167_S	189_H	0.859	1.00
121_S	124_E	0.854	1.00
154_L	158_Q	0.853	1.00
141_Y	169_W	0.848	1.00
216_M	243_Y	0.847	1.00
99_F	122_V	0.847	1.00
167_S	192_K	0.842	1.00
70_V	74_S	0.837	1.00
66_Y	101_Y	0.826	1.00
105_Y	109_A	0.822	1.00
218_R	221_A	0.820	1.00
50_I	53_S	0.802	1.00
44_L	71_L	0.799	1.00
205_F	209_N	0.798	1.00
46_R	49_Q	0.797	1.00
239_Y	242_K	0.797	1.00
241_G	253_A	0.794	1.00
73_D	85_F	0.794	1.00
35_Q	40_Q	0.790	1.00
101_Y	104_I	0.788	1.00
65_L	88_A	0.788	1.00
259_L	262_A	0.787	1.00
66_Y	98_V	0.787	1.00
199_G	222_D	0.786	1.00
189_H	192_K	0.781	1.00
168_L	172_L	0.780	1.00
45_A	49_Q	0.776	1.00
188_Q	191_E	0.776	1.00
130_N	156_F	0.773	1.00
173_A	177_L	0.772	1.00
61_R	65_L	0.771	1.00
172_L	186_L	0.770	1.00
169_W	172_L	0.768	1.00
168_L	201_N	0.765	1.00
104_I	119_F	0.765	1.00
107_T	119_F	0.763	1.00
234_S	260_A	0.763	1.00
88_A	91_I	0.762	1.00
133_H	159_D	0.759	1.00
44_L	68_R	0.755	1.00
252_S	256_L	0.752	1.00
35_Q	47_M	0.749	1.00
141_Y	153_L	0.749	1.00
200_W	204_E	0.746	1.00
117_E	121_S	0.745	1.00
207_L	212_E	0.742	1.00
34_L	39_Q	0.742	1.00
78_R	108_Q	0.738	1.00
223_A	237_N	0.736	1.00
223_A	236_T	0.732	1.00
86_S	90_A	0.732	1.00
215_L	243_Y	0.727	1.00
44_L	75_L	0.727	1.00
69_G	81_A	0.724	1.00
40_Q	71_L	0.720	1.00
96_P	122_V	0.719	1.00
151_D	155_A	0.718	1.00
204_E	207_L	0.718	1.00
73_D	105_Y	0.717	1.00
138_I	153_L	0.716	1.00
154_L	181_Q	0.716	1.00
48_E	52_A	0.715	1.00
258_K	262_A	0.714	1.00
233_L	237_N	0.713	1.00
137_G	149_A	0.712	1.00
70_V	73_D	0.710	1.00
152_D	155_A	0.708	1.00
107_T	139_A	0.703	1.00
84_D	87_Q	0.702	1.00
70_V	85_F	0.701	1.00
245_L	250_L	0.701	1.00
188_Q	192_K	0.699	1.00
42_V	45_A	0.696	1.00
207_L	219_L	0.695	1.00
179_E	205_F	0.694	1.00
222_D	236_T	0.693	1.00
123_L	136_R	0.684	1.00
141_Y	173_A	0.684	1.00
157_Y	170_L	0.683	1.00
214_T	218_R	0.681	1.00
212_E	216_M	0.680	1.00
183_K	205_F	0.679	1.00
185_V	188_Q	0.676	1.00
212_E	243_Y	0.671	1.00
62_A	69_G	0.667	1.00
181_Q	185_V	0.665	1.00
67_E	70_V	0.662	1.00
152_D	156_F	0.661	1.00
84_D	88_A	0.659	1.00
118_A	121_S	0.658	1.00
138_I	141_Y	0.658	1.00
153_L	173_A	0.653	1.00
43_I	47_M	0.652	1.00
135_N	138_I	0.652	1.00
187_K	191_E	0.651	1.00
65_L	91_I	0.651	1.00
48_E	80_L	0.650	1.00
80_L	84_D	0.649	1.00
134_L	166_R	0.645	1.00
120_D	124_E	0.643	1.00
100_N	132_A	0.642	1.00
86_S	114_A	0.641	1.00
113_D	117_E	0.641	1.00
82_R	111_N	0.639	1.00
216_M	240_L	0.638	1.00
50_I	64_L	0.636	1.00
134_L	156_F	0.633	1.00
32_V	47_M	0.633	1.00
148_L	152_D	0.632	1.00
112_F	139_A	0.631	1.00
204_E	208_G	0.627	1.00
255_A	258_K	0.623	1.00
83_N	86_S	0.623	1.00
46_R	50_I	0.619	1.00
73_D	101_Y	0.619	1.00
207_L	243_Y	0.615	1.00
233_L	236_T	0.615	1.00
49_Q	53_S	0.615	1.00
104_I	108_Q	0.613	1.00
259_L	263_N	0.610	1.00
242_K	257_F	0.609	1.00
207_L	246_S	0.608	1.00
73_D	78_R	0.607	1.00
241_G	256_L	0.607	1.00
175_Q	179_E	0.605	1.00
146_D	176_K	0.605	1.00
129_Y	132_A	0.605	1.00
114_A	118_A	0.604	1.00
118_A	122_V	0.604	1.00
200_W	203_V	0.603	1.00
175_Q	208_G	0.603	1.00
85_F	105_Y	0.603	1.00
237_N	260_A	0.599	1.00
122_V	125_L	0.587	1.00
42_V	46_R	0.586	1.00
78_R	82_R	0.585	1.00
112_F	143_G	0.583	1.00
217_E	221_A	0.582	1.00
190_F	202_I	0.581	1.00
107_T	142_Y	0.581	1.00
51_L	64_L	0.580	1.00
107_T	135_N	0.579	1.00
116_Y	145_R	0.577	1.00
175_Q	205_F	0.577	1.00
149_A	173_A	0.576	1.00
99_F	125_L	0.569	1.00
242_K	245_L	0.567	1.00
238_F	260_A	0.567	1.00
221_A	225_D	0.564	1.00
147_K	151_D	0.563	1.00
184_E	188_Q	0.563	1.00
254_T	261_V	0.559	1.00
212_E	247_L	0.558	1.00
217_E	220_K	0.558	1.00
115_A	139_A	0.558	1.00
175_Q	186_L	0.555	1.00
40_Q	43_I	0.555	1.00
253_A	257_F	0.554	1.00
174_E	177_L	0.552	1.00
201_N	204_E	0.551	1.00
86_S	106_L	0.550	1.00
41_E	45_A	0.549	1.00
33_P	37_T	0.543	1.00
220_K	252_S	0.541	1.00
179_E	183_K	0.538	1.00
257_F	261_V	0.536	1.00
141_Y	176_K	0.535	1.00
182_A	205_F	0.531	1.00
200_W	236_T	0.531	1.00
107_T	112_F	0.527	1.00
32_V	36_P	0.525	1.00
250_L	254_T	0.524	1.00
182_A	186_L	0.522	1.00
112_F	116_Y	0.521	1.00
180_K	184_E	0.521	1.00
85_F	102_L	0.520	1.00
100_N	122_V	0.518	1.00
95_M	99_F	0.514	1.00
35_Q	71_L	0.513	1.00
131_Y	135_N	0.513	1.00
218_R	222_D	0.512	1.00
69_G	84_D	0.512	1.00
141_Y	149_A	0.512	1.00
175_Q	201_N	0.510	1.00
187_K	190_F	0.509	1.00
244_Y	247_L	0.509	1.00
146_D	150_Q	0.507	1.00
264_N	267_N	0.505	1.00
234_S	264_N	0.505	1.00
43_I	71_L	0.502	1.00
137_G	152_D	0.501	1.00
215_L	222_D	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
3q7aA	1	0.9048	100	0.271	Contact Map
3dssA	1	0.9218	100	0.276	Contact Map
3draA	1	0.9286	100	0.292	Contact Map
1w3bA	2	0.9286	100	0.295	Contact Map
2h6fA	1	0.9422	100	0.296	Contact Map
4l9pA	1	0.9286	100	0.296	Contact Map
1xnfA	2	0.8912	100	0.303	Contact Map
4ui9J	2	0.949	100	0.318	Contact Map
4ui9C	2	0.9388	100	0.319	Contact Map
4r7sA	1	0.8639	100	0.323	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 0.0091 seconds.