OPPB - BACSU - GREMLIN Contacts

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

OPPB - Oligopeptide transport system permease protein OppB

UniProt:	P24138	Sequences: MLKYIGRRLVYMIITLFVIVTVTFFLMQAAPGGPFSGEKKLPPEIEANLNAHYGLDKPLFVQYVSYLKSVAMWDFGPSFKYKGQSVNDLISSGFPVSFTLGAEAILLALALGVLFGVIAALYHNKWQDYTVAILTIFGISVPSFIMAAVLQYVFSMKLGLFPVAGWDSWAYTFLPSIALASMPMAFIARLSRSSMIEVLNSDYIRTAKAKGLSRPAVTVRHAIRNALLPVVTYMGPMAAQVLTGSFIIETIFGIPGLGAHFVNSITNRDYTVIMGVTVFFSVILLLCVLIVDVLYGIIDPRIKLSKAKKGA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	311 (274)
Sequences:	26225 (17206)
Seq/√Len:	1039.5

ECOLI - YEJB NIKB DDPB DPPB GSIC OPPB SAPB YEJE DPPC NIKC DDPC SAPC GSID OPPC
BACSU - OPPB DPPB APPB DPPC APPC OPPC
HALSA - Q9HMW3 Q9HMX0 Q9HMI2 Q9HMW2 Q9HMI1 Q9HMX1
SULSO - Q97VF8 Q97VK6 Q97YQ0 Q97UH1 Q97YP1 Q97UG4 Q97VK7 Q97UG3 Q97YP2 Q97UH2 Q97YP9 Q97VF6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
57_K	61_V	3.036	1.00
57_K	65_S	2.995	1.00
28_Q	62_Q	2.870	1.00
195_M	222_A	2.764	1.00
68_K	72_M	2.582	1.00
64_V	68_K	2.547	1.00
51_A	56_D	2.444	1.00
128_D	192_R	2.404	1.00
198_V	203_Y	2.388	1.00
115_F	131_V	2.350	1.00
96_V	254_I	2.345	1.00
208_K	214_R	2.343	1.00
103_E	176_S	2.325	1.00
43_P	47_A	2.305	1.00
216_A	220_R	2.280	1.00
259_A	263_N	2.256	1.00
198_V	201_S	2.239	1.00
212_L	216_A	2.201	1.00
213_S	216_A	2.133	1.00
204_I	222_A	2.089	1.00
215_P	219_V	2.068	1.00
107_L	180_A	2.055	1.00
235_G	291_V	2.000	1.00
89_L	260_H	1.934	1.00
60_F	64_V	1.885	1.00
85_S	88_D	1.870	1.00
118_I	122_Y	1.868	1.00
204_I	217_V	1.841	1.00
110_A	114_L	1.840	1.00
122_Y	125_K	1.833	1.00
45_I	48_N	1.832	1.00
202_D	205_R	1.824	1.00
122_Y	214_R	1.821	1.00
33_G	50_N	1.799	1.00
117_V	195_M	1.798	1.00
126_W	130_T	1.754	1.00
46_E	50_N	1.753	1.00
122_Y	127_Q	1.734	1.00
33_G	36_S	1.720	1.00
48_N	52_H	1.706	1.00
199_L	222_A	1.704	1.00
120_A	195_M	1.683	1.00
82_K	89_L	1.673	1.00
24_F	94_F	1.673	1.00
121_L	214_R	1.661	1.00
16_L	282_V	1.654	1.00
187_I	237_M	1.634	1.00
198_V	226_A	1.634	1.00
71_A	74_D	1.634	1.00
87_N	91_S	1.616	1.00
3_K	7_R	1.597	1.00
203_Y	225_N	1.596	1.00
75_F	275_G	1.568	1.00
69_S	74_D	1.562	1.00
47_A	50_N	1.561	1.00
61_V	65_S	1.559	1.00
78_S	84_Q	1.557	1.00
86_V	275_G	1.554	1.00
127_Q	131_V	1.553	1.00
111_L	114_L	1.552	1.00
99_T	103_E	1.534	1.00
118_I	127_Q	1.523	1.00
176_S	180_A	1.515	1.00
121_L	218_T	1.515	1.00
111_L	184_M	1.507	1.00
84_Q	88_D	1.499	1.00
17_F	21_T	1.466	1.00
108_A	183_P	1.466	1.00
109_L	234_M	1.436	1.00
47_A	51_A	1.418	1.00
92_S	95_P	1.415	1.00
264_S	272_V	1.402	1.00
13_I	286_L	1.401	1.00
131_V	188_A	1.381	1.00
261_F	276_V	1.377	1.00
206_T	210_K	1.377	1.00
65_S	68_K	1.361	1.00
112_G	191_S	1.356	1.00
112_G	187_I	1.348	1.00
135_T	188_A	1.337	1.00
10_V	14_I	1.335	1.00
198_V	204_I	1.330	1.00
198_V	222_A	1.322	1.00
105_I	234_M	1.317	1.00
231_V	298_I	1.300	1.00
232_T	295_Y	1.298	1.00
10_V	293_V	1.298	1.00
194_S	197_E	1.294	1.00
75_F	87_N	1.281	1.00
239_A	284_L	1.280	1.00
116_G	120_A	1.278	1.00
145_I	149_V	1.277	1.00
190_L	233_Y	1.274	1.00
197_E	201_S	1.272	1.00
96_V	99_T	1.272	1.00
295_Y	299_D	1.271	1.00
58_P	61_V	1.270	1.00
294_L	297_I	1.264	1.00
150_L	178_A	1.251	1.00
79_F	263_N	1.250	1.00
73_W	85_S	1.250	1.00
180_A	184_M	1.244	1.00
19_I	281_S	1.242	1.00
192_R	196_I	1.239	1.00
115_F	188_A	1.233	1.00
54_G	57_K	1.232	1.00
65_S	69_S	1.230	1.00
84_Q	92_S	1.229	1.00
49_L	52_H	1.228	1.00
20_V	66_Y	1.224	1.00
57_K	60_F	1.218	1.00
70_V	75_F	1.210	1.00
84_Q	89_L	1.196	1.00
124_N	128_D	1.186	1.00
120_A	199_L	1.183	1.00
126_W	129_Y	1.182	1.00
173_F	177_I	1.180	1.00
119_A	131_V	1.179	1.00
133_I	136_I	1.163	1.00
270_Y	274_M	1.144	1.00
61_V	64_V	1.136	1.00
138_G	185_A	1.133	1.00
49_L	53_Y	1.126	1.00
207_A	221_H	1.115	1.00
116_G	191_S	1.112	1.00
207_A	217_V	1.110	1.00
117_V	218_T	1.109	1.00
195_M	226_A	1.106	1.00
178_A	182_M	1.102	1.00
21_T	25_F	1.092	1.00
207_A	212_L	1.084	1.00
210_K	221_H	1.080	1.00
191_S	230_V	1.080	1.00
69_S	72_M	1.080	1.00
67_L	70_V	1.076	1.00
77_P	85_S	1.074	1.00
27_M	92_S	1.067	1.00
262_V	266_T	1.057	1.00
6_G	10_V	1.057	1.00
191_S	195_M	1.053	1.00
134_L	138_G	1.052	1.00
141_V	146_M	1.046	1.00
117_V	223_I	1.039	1.00
99_T	172_T	1.008	1.00
260_H	272_V	1.006	1.00
114_L	117_V	1.005	1.00
276_V	280_F	1.003	1.00
9_L	13_I	1.002	1.00
147_A	178_A	0.992	1.00
48_N	51_A	0.990	1.00
287_C	291_V	0.987	1.00
113_V	191_S	0.978	1.00
216_A	219_V	0.976	1.00
89_L	272_V	0.973	1.00
194_S	198_V	0.971	1.00
22_V	26_L	0.969	1.00
35_F	46_E	0.961	1.00
132_A	188_A	0.960	1.00
36_S	46_E	0.959	1.00
90_I	279_F	0.949	1.00
54_G	65_S	0.944	1.00
12_M	285_L	0.942	1.00
293_V	297_I	0.941	1.00
88_D	92_S	0.939	1.00
104_A	180_A	0.938	1.00
205_R	208_K	0.937	1.00
128_D	196_I	0.936	1.00
129_Y	133_I	0.924	1.00
231_V	291_V	0.923	1.00
100_L	249_E	0.920	1.00
13_I	293_V	0.918	1.00
228_L	295_Y	0.915	1.00
18_V	22_V	0.906	1.00
93_G	260_H	0.905	1.00
75_F	90_I	0.903	1.00
238_A	287_C	0.902	1.00
99_T	102_A	0.901	1.00
86_V	272_V	0.895	1.00
191_S	226_A	0.894	1.00
262_V	265_I	0.889	1.00
184_M	188_A	0.889	1.00
20_V	283_I	0.883	1.00
171_Y	174_L	0.879	1.00
23_T	91_S	0.878	1.00
89_L	92_S	0.876	1.00
212_L	217_V	0.875	1.00
8_R	11_Y	0.873	1.00
104_A	108_A	0.872	1.00
86_V	260_H	0.869	1.00
226_A	229_P	0.863	1.00
17_F	286_L	0.862	1.00
208_K	217_V	0.862	1.00
130_T	134_L	0.860	1.00
104_A	179_L	0.859	1.00
129_Y	132_A	0.858	1.00
143_S	248_I	0.852	1.00
5_I	11_Y	0.847	1.00
286_L	290_I	0.844	1.00
207_A	210_K	0.840	1.00
214_R	217_V	0.837	1.00
173_F	176_S	0.836	1.00
95_P	99_T	0.830	1.00
233_Y	237_M	0.829	1.00
177_I	180_A	0.828	1.00
88_D	91_S	0.826	1.00
261_F	264_S	0.825	1.00
263_N	267_N	0.808	1.00
116_G	195_M	0.808	1.00
91_S	95_P	0.806	1.00
113_V	230_V	0.798	1.00
264_S	273_I	0.798	1.00
120_A	196_I	0.797	1.00
20_V	278_V	0.792	1.00
5_I	293_V	0.791	1.00
77_P	83_G	0.791	1.00
124_N	129_Y	0.790	1.00
51_A	57_K	0.789	1.00
275_G	278_V	0.786	1.00
127_Q	130_T	0.783	1.00
31_P	34_P	0.781	1.00
25_F	28_Q	0.776	1.00
114_L	118_I	0.775	1.00
44_E	47_A	0.773	1.00
109_L	114_L	0.772	1.00
154_F	174_L	0.770	1.00
109_L	187_I	0.769	1.00
14_I	18_V	0.768	1.00
103_E	254_I	0.767	1.00
4_Y	296_G	0.767	1.00
12_M	289_L	0.766	1.00
90_I	275_G	0.765	1.00
172_T	176_S	0.763	1.00
150_L	174_L	0.763	1.00
135_T	185_A	0.762	1.00
205_R	209_A	0.762	1.00
143_S	147_A	0.762	1.00
9_L	289_L	0.760	1.00
32_G	35_F	0.759	1.00
102_A	106_L	0.757	1.00
260_H	276_V	0.756	1.00
263_N	266_T	0.746	1.00
73_W	77_P	0.746	1.00
16_L	286_L	0.743	1.00
78_S	269_D	0.742	1.00
16_L	20_V	0.741	1.00
271_T	275_G	0.740	1.00
28_Q	59_L	0.738	1.00
19_I	23_T	0.738	1.00
110_A	113_V	0.735	1.00
274_M	278_V	0.735	1.00
212_L	221_H	0.734	1.00
97_S	101_G	0.730	1.00
31_P	88_D	0.728	1.00
219_V	222_A	0.727	1.00
115_F	184_M	0.727	1.00
139_I	185_A	0.726	1.00
179_L	248_I	0.725	1.00
43_P	46_E	0.723	1.00
296_G	302_I	0.722	1.00
17_F	67_L	0.721	1.00
91_S	94_F	0.719	1.00
214_R	218_T	0.718	1.00
44_E	48_N	0.718	1.00
20_V	282_V	0.716	1.00
16_L	285_L	0.714	1.00
107_L	176_S	0.713	1.00
25_F	59_L	0.711	1.00
274_M	277_T	0.709	1.00
282_V	286_L	0.708	1.00
183_P	186_F	0.707	1.00
104_A	245_S	0.704	1.00
217_V	222_A	0.703	1.00
94_F	283_I	0.703	1.00
11_Y	15_T	0.702	1.00
68_K	71_A	0.698	1.00
35_F	49_L	0.698	1.00
112_G	116_G	0.697	1.00
128_D	132_A	0.696	1.00
28_Q	270_Y	0.695	1.00
15_T	19_I	0.694	1.00
14_I	17_F	0.693	1.00
109_L	113_V	0.691	1.00
74_D	85_S	0.688	1.00
26_L	29_A	0.687	1.00
21_T	59_L	0.686	1.00
174_L	177_I	0.684	1.00
260_H	264_S	0.683	1.00
201_S	205_R	0.683	1.00
11_Y	14_I	0.681	1.00
193_S	196_I	0.680	1.00
275_G	279_F	0.676	1.00
119_A	128_D	0.676	1.00
149_V	153_V	0.676	1.00
170_A	173_F	0.676	1.00
12_M	15_T	0.675	1.00
27_M	30_A	0.675	1.00
45_I	49_L	0.673	1.00
295_Y	302_I	0.669	1.00
194_S	226_A	0.666	1.00
70_V	278_V	0.665	1.00
280_F	284_L	0.665	1.00
239_A	287_C	0.665	1.00
111_L	180_A	0.658	1.00
290_I	294_L	0.657	1.00
122_Y	218_T	0.650	1.00
64_V	67_L	0.648	1.00
103_E	106_L	0.644	1.00
35_F	50_N	0.644	1.00
124_N	199_L	0.642	1.00
235_G	287_C	0.642	1.00
215_P	218_T	0.641	1.00
121_L	219_V	0.640	1.00
155_S	174_L	0.640	1.00
182_M	185_A	0.639	1.00
13_I	289_L	0.636	1.00
32_G	88_D	0.636	1.00
108_A	180_A	0.634	1.00
105_I	238_A	0.632	1.00
31_P	35_F	0.631	1.00
119_A	132_A	0.622	1.00
79_F	271_T	0.620	1.00
74_D	87_N	0.620	1.00
98_F	102_A	0.618	1.00
130_T	133_I	0.617	1.00
90_I	276_V	0.615	1.00
20_V	67_L	0.612	1.00
14_I	290_I	0.612	1.00
66_Y	70_V	0.612	1.00
296_G	303_K	0.610	1.00
70_V	73_W	0.603	1.00
191_S	194_S	0.601	1.00
186_F	233_Y	0.596	1.00
284_L	288_V	0.593	1.00
187_I	233_Y	0.593	1.00
23_T	277_T	0.591	1.00
212_L	215_P	0.588	1.00
194_S	229_P	0.588	1.00
186_F	237_M	0.586	1.00
10_V	13_I	0.584	1.00
32_G	268_R	0.584	1.00
237_M	240_Q	0.584	1.00
106_L	110_A	0.584	1.00
13_I	17_F	0.582	1.00
185_A	188_A	0.580	1.00
198_V	225_N	0.578	1.00
152_Y	156_M	0.576	1.00
111_L	115_F	0.576	1.00
23_T	94_F	0.573	1.00
245_S	248_I	0.573	1.00
195_M	199_L	0.572	1.00
250_T	259_A	0.571	1.00
95_P	98_F	0.570	1.00
273_I	277_T	0.570	1.00
125_K	128_D	0.567	1.00
143_S	146_M	0.566	1.00
247_I	250_T	0.565	1.00
4_Y	290_I	0.563	1.00
112_G	188_A	0.563	1.00
187_I	191_S	0.562	1.00
249_E	253_G	0.562	1.00
121_L	199_L	0.560	1.00
132_A	135_T	0.559	1.00
247_I	251_I	0.558	1.00
12_M	16_L	0.557	1.00
101_G	245_S	0.557	1.00
89_L	93_G	0.556	1.00
32_G	73_W	0.555	1.00
131_V	135_T	0.550	1.00
7_R	293_V	0.549	1.00
246_F	250_T	0.545	1.00
21_T	60_F	0.544	1.00
146_M	181_S	0.542	1.00
31_P	87_N	0.542	1.00
100_L	176_S	0.541	1.00
147_A	251_I	0.539	1.00
174_L	178_A	0.539	1.00
183_P	237_M	0.539	1.00
67_L	71_A	0.538	1.00
143_S	181_S	0.538	1.00
68_K	73_W	0.537	1.00
25_F	29_A	0.533	1.00
102_A	238_A	0.532	1.00
94_F	98_F	0.532	1.00
204_I	208_K	0.532	1.00
183_P	240_Q	0.531	1.00
105_I	237_M	0.528	1.00
23_T	27_M	0.528	1.00
261_F	280_F	0.527	1.00
190_L	194_S	0.526	1.00
248_I	251_I	0.525	1.00
7_R	10_V	0.524	1.00
120_A	128_D	0.518	1.00
109_L	230_V	0.517	1.00
293_V	296_G	0.517	1.00
196_I	199_L	0.515	1.00
151_Q	155_S	0.514	1.00
78_S	82_K	0.514	1.00
259_A	262_V	0.512	1.00
250_T	263_N	0.511	1.00
119_A	192_R	0.511	1.00
227_L	230_V	0.509	1.00
180_A	183_P	0.508	1.00
237_M	245_S	0.508	1.00
181_S	184_M	0.506	1.00
135_T	138_G	0.505	1.00
227_L	231_V	0.504	1.00
103_E	173_F	0.503	1.00
17_F	287_C	0.502	1.00
135_T	184_M	0.501	1.00
32_G	72_M	0.501	1.00
186_F	190_L	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
3tuiA	2	0.672	99.9	0.642	Contact Map
4tquM	1	0.8328	99.9	0.645	Contact Map
3rlfF	1	0.8457	99.9	0.666	Contact Map
2onkC	2	0.7974	99.8	0.672	Contact Map
3d31C	2	0.7846	99.8	0.673	Contact Map
4ymuD	2	0.6752	99.8	0.68	Contact Map
3rlfG	1	0.8521	99.8	0.693	Contact Map
4tquN	1	0.8296	99.8	0.694	Contact Map
4ltoA	3	0.3408	17.9	0.954	Contact Map
4cbcA	3	0.299	11.5	0.958	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 0.0101 seconds.