RBSC - BACSU - GREMLIN Contacts

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RBSC - Ribose transport system permease protein RbsC

UniProt:	P36948	Sequences: MKTEQLQTEQKRIHFDGVMQKLGPFLGLFILVIIVSILNPSFLEPLNILNLLRQVAINGLIAFGMTFVILTGGIDLSVGAILALSSALVAGMIVSGVDPVLAIILGCIIGAVLGMINGLLITKGKMAPFIATLATMTVFRGLTLVYTDGNPITGLGTNYGFQMFGRGYFLGIPVPAITMVLAFVILWVLLHKTPFGRRTYAIGGNEKAALISGIKVTRVKVMIYSLAGLLSALAGAILTSRLHSAQPTAGESYELDAIAAVVLGGTSLSGGRGRIVGTLIGVLIIGTLNNGLNLLGVSSFYQLVVKGIVILIAVLLDRKKSA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	322 (267)
Sequences:	31284 (19594)
Seq/√Len:	1199.1

ECOLI - RBSC ARAH ALSC YPHD YTFT XYLH MGLC LSRC LSRD YJFF LIVM LIVH
BACSU - RBSC YUFP YUFQ
HALSA - Q9HR22 Q9HR23
SULSO - Q97UZ9 Q97UZ8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
107_C	229_L	3.830	1.00
111_A	225_S	3.505	1.00
111_A	229_L	3.000	1.00
88_L	109_I	2.937	1.00
115_M	225_S	2.911	1.00
206_E	220_K	2.788	1.00
92_M	105_L	2.719	1.00
59_G	179_M	2.523	1.00
66_T	278_T	2.517	1.00
199_T	223_I	2.516	1.00
215_K	218_R	2.493	1.00
123_K	217_T	2.386	1.00
189_L	195_F	2.354	1.00
218_R	222_M	2.330	1.00
187_W	191_H	2.292	1.00
188_V	192_K	2.273	1.00
110_G	232_A	2.232	1.00
115_M	221_V	2.200	1.00
114_G	228_G	2.192	1.00
198_R	219_V	2.162	1.00
117_N	135_T	2.145	1.00
256_D	289_N	2.139	1.00
119_L	123_K	2.122	1.00
98_D	101_L	2.073	1.00
195_F	222_M	2.066	1.00
185_I	189_L	2.051	1.00
89_V	106_G	1.958	1.00
100_V	104_I	1.942	1.00
61_I	257_A	1.937	1.00
83_A	143_T	1.920	1.00
107_C	233_L	1.912	1.00
89_V	236_A	1.824	1.00
110_G	228_G	1.772	1.00
55_V	286_G	1.754	1.00
62_A	278_T	1.741	1.00
103_I	236_A	1.730	1.00
202_I	219_V	1.718	1.00
184_V	188_V	1.716	1.00
137_T	140_R	1.698	1.00
91_G	95_S	1.690	1.00
68_V	227_A	1.654	1.00
201_A	209_A	1.645	1.00
67_F	186_L	1.640	1.00
118_G	221_V	1.627	1.00
194_P	198_R	1.611	1.00
93_I	102_A	1.556	1.00
55_V	283_L	1.556	1.00
59_G	282_V	1.553	1.00
113_L	139_F	1.515	1.00
70_L	200_Y	1.511	1.00
256_D	306_K	1.495	1.00
123_K	221_V	1.493	1.00
84_L	113_L	1.482	1.00
107_C	236_A	1.481	1.00
207_K	210_L	1.454	1.00
222_M	225_S	1.452	1.00
97_V	101_L	1.446	1.00
195_F	199_T	1.440	1.00
80_A	140_R	1.431	1.00
91_G	146_Y	1.421	1.00
206_E	210_L	1.410	1.00
163_M	166_R	1.406	1.00
153_T	156_G	1.398	1.00
61_I	82_L	1.396	1.00
101_L	104_I	1.381	1.00
82_L	238_L	1.379	1.00
198_R	214_I	1.376	1.00
183_F	279_L	1.372	1.00
135_T	139_F	1.372	1.00
274_R	277_G	1.361	1.00
167_G	170_L	1.325	1.00
71_T	223_I	1.323	1.00
60_L	234_A	1.321	1.00
198_R	209_A	1.319	1.00
264_G	277_G	1.300	1.00
64_G	230_L	1.278	1.00
162_Q	165_G	1.266	1.00
209_A	214_I	1.265	1.00
264_G	281_G	1.259	1.00
119_L	221_V	1.255	1.00
67_F	223_I	1.253	1.00
92_M	97_V	1.250	1.00
202_I	216_V	1.245	1.00
221_V	225_S	1.233	1.00
59_G	279_L	1.228	1.00
106_G	110_G	1.225	1.00
102_A	106_G	1.223	1.00
104_I	108_I	1.220	1.00
47_N	290_N	1.220	1.00
122_T	217_T	1.211	1.00
73_G	220_K	1.201	1.00
78_V	231_S	1.198	1.00
51_L	287_T	1.193	1.00
60_L	237_I	1.189	1.00
51_L	286_G	1.189	1.00
63_F	186_L	1.179	1.00
191_H	200_Y	1.176	1.00
214_I	219_V	1.174	1.00
202_I	209_A	1.169	1.00
162_Q	166_R	1.169	1.00
73_G	128_P	1.159	1.00
65_M	261_V	1.157	1.00
225_S	229_L	1.148	1.00
91_G	147_T	1.147	1.00
157_T	160_G	1.144	1.00
168_Y	171_G	1.141	1.00
65_M	257_A	1.140	1.00
290_N	293_N	1.134	1.00
161_F	164_F	1.131	1.00
182_A	230_L	1.128	1.00
187_W	192_K	1.124	1.00
88_L	92_M	1.124	1.00
108_I	111_A	1.118	1.00
80_A	139_F	1.104	1.00
150_N	153_T	1.104	1.00
90_A	94_V	1.101	1.00
62_A	260_A	1.096	1.00
112_V	115_M	1.091	1.00
55_V	282_V	1.082	1.00
73_G	224_Y	1.074	1.00
81_I	113_L	1.074	1.00
64_G	78_V	1.071	1.00
210_L	216_V	1.069	1.00
210_L	217_T	1.061	1.00
120_L	131_A	1.061	1.00
140_R	144_L	1.055	1.00
219_V	222_M	1.054	1.00
222_M	226_L	1.048	1.00
253_Y	256_D	1.048	1.00
186_L	226_L	1.046	1.00
183_F	230_L	1.042	1.00
228_G	232_A	1.037	1.00
301_Y	304_V	1.035	1.00
111_A	232_A	1.033	1.00
89_V	240_S	1.025	1.00
87_A	143_T	1.021	1.00
97_V	105_L	1.017	1.00
136_M	140_R	1.014	1.00
303_L	306_K	1.010	1.00
289_N	306_K	1.007	1.00
66_T	261_V	1.007	1.00
117_N	131_A	1.006	1.00
104_I	107_C	1.006	1.00
199_T	219_V	1.003	1.00
70_L	273_G	0.999	1.00
106_G	236_A	0.998	1.00
62_A	261_V	0.996	1.00
226_L	230_L	0.994	1.00
181_L	185_I	0.991	1.00
177_I	181_L	0.991	1.00
92_M	95_S	0.988	1.00
119_L	124_G	0.986	1.00
184_V	187_W	0.984	1.00
49_L	53_R	0.977	1.00
61_I	234_A	0.970	1.00
122_T	132_T	0.966	1.00
260_A	282_V	0.965	1.00
160_G	163_M	0.964	1.00
92_M	102_A	0.948	1.00
291_G	295_L	0.946	1.00
87_A	247_P	0.944	1.00
80_A	136_M	0.942	1.00
195_F	219_V	0.941	1.00
260_A	281_G	0.935	1.00
170_L	177_I	0.931	1.00
87_A	147_T	0.927	1.00
84_L	88_L	0.925	1.00
46_L	49_L	0.923	1.00
218_R	221_V	0.920	1.00
187_W	276_V	0.916	1.00
85_S	106_G	0.913	1.00
69_I	261_V	0.912	1.00
121_I	131_A	0.911	1.00
235_G	239_T	0.911	1.00
276_V	280_I	0.910	1.00
66_T	273_G	0.907	1.00
227_A	231_S	0.905	1.00
120_L	124_G	0.903	1.00
54_Q	58_N	0.903	1.00
174_V	177_I	0.901	1.00
180_V	184_V	0.900	1.00
197_R	200_Y	0.896	1.00
85_S	110_G	0.895	1.00
48_I	291_G	0.893	1.00
125_K	206_E	0.892	1.00
208_A	212_S	0.888	1.00
108_I	112_V	0.887	1.00
82_L	253_Y	0.886	1.00
89_V	93_I	0.886	1.00
62_A	282_V	0.880	1.00
252_S	256_D	0.878	1.00
142_L	146_Y	0.877	1.00
70_L	191_H	0.871	1.00
154_G	157_T	0.870	1.00
292_L	305_V	0.863	1.00
159_Y	162_Q	0.861	1.00
57_I	234_A	0.861	1.00
190_L	199_T	0.860	1.00
56_A	176_A	0.855	1.00
71_T	199_T	0.852	1.00
81_I	231_S	0.850	1.00
86_S	249_A	0.850	1.00
60_L	179_M	0.848	1.00
202_I	223_I	0.847	1.00
285_I	306_K	0.846	1.00
65_M	78_V	0.844	1.00
116_I	120_L	0.844	1.00
59_G	183_F	0.843	1.00
145_V	301_Y	0.842	1.00
63_F	182_A	0.840	1.00
217_T	220_K	0.840	1.00
79_G	254_E	0.837	1.00
75_D	78_V	0.831	1.00
101_L	105_L	0.830	1.00
173_P	177_I	0.828	1.00
86_S	239_T	0.828	1.00
179_M	183_F	0.823	1.00
115_M	119_L	0.823	1.00
205_N	208_A	0.820	1.00
274_R	278_T	0.818	1.00
88_L	91_G	0.816	1.00
68_V	75_D	0.809	1.00
166_R	169_F	0.803	1.00
141_G	144_L	0.803	1.00
63_F	278_T	0.802	1.00
216_V	220_K	0.802	1.00
118_G	122_T	0.802	1.00
155_L	158_N	0.801	1.00
81_I	110_G	0.801	1.00
176_A	180_V	0.801	1.00
175_P	237_I	0.801	1.00
272_R	276_V	0.799	1.00
231_S	235_G	0.797	1.00
312_I	316_L	0.793	1.00
229_L	232_A	0.791	1.00
67_F	226_L	0.781	1.00
82_L	250_G	0.778	1.00
67_F	190_L	0.777	1.00
107_C	232_A	0.776	1.00
112_V	116_I	0.774	1.00
202_I	220_K	0.773	1.00
86_S	245_A	0.770	1.00
85_S	235_G	0.767	1.00
278_T	282_V	0.760	1.00
79_G	252_S	0.760	1.00
217_T	221_V	0.759	1.00
174_V	178_T	0.759	1.00
61_I	78_V	0.754	1.00
90_A	245_A	0.753	1.00
238_L	242_L	0.749	1.00
50_N	54_Q	0.749	1.00
118_G	123_K	0.748	1.00
169_F	173_P	0.747	1.00
290_N	294_L	0.746	1.00
152_I	155_L	0.741	1.00
89_V	102_A	0.740	1.00
206_E	216_V	0.729	1.00
229_L	233_L	0.722	1.00
64_G	231_S	0.714	1.00
82_L	234_A	0.702	1.00
85_S	109_I	0.699	1.00
68_V	224_Y	0.695	1.00
107_C	111_A	0.694	1.00
189_L	192_K	0.694	1.00
169_F	177_I	0.693	1.00
198_R	215_K	0.691	1.00
167_G	171_G	0.690	1.00
185_I	188_V	0.687	1.00
283_L	287_T	0.687	1.00
282_V	286_G	0.684	1.00
61_I	64_G	0.682	1.00
76_L	258_I	0.676	1.00
308_I	312_I	0.673	1.00
60_L	182_A	0.671	1.00
97_V	100_V	0.671	1.00
84_L	110_G	0.670	1.00
183_F	187_W	0.663	1.00
128_P	224_Y	0.663	1.00
103_I	107_C	0.660	1.00
47_N	294_L	0.658	1.00
73_G	206_E	0.658	1.00
300_F	303_L	0.657	1.00
122_T	221_V	0.655	1.00
51_L	55_V	0.655	1.00
69_I	258_I	0.655	1.00
259_A	310_I	0.652	1.00
81_I	117_N	0.651	1.00
45_P	48_I	0.651	1.00
55_V	59_G	0.651	1.00
93_I	240_S	0.650	1.00
138_V	142_L	0.650	1.00
299_S	302_Q	0.650	1.00
58_N	256_D	0.649	1.00
81_I	85_S	0.648	1.00
151_P	154_G	0.648	1.00
52_L	56_A	0.630	1.00
81_I	228_G	0.628	1.00
216_V	219_V	0.627	1.00
66_T	70_L	0.624	1.00
238_L	253_Y	0.624	1.00
84_L	139_F	0.622	1.00
56_A	179_M	0.621	1.00
66_T	275_I	0.616	1.00
114_G	225_S	0.615	1.00
58_N	260_A	0.615	1.00
92_M	109_I	0.614	1.00
306_K	310_I	0.612	1.00
50_N	290_N	0.611	1.00
51_L	290_N	0.611	1.00
53_R	241_R	0.610	1.00
289_N	302_Q	0.608	1.00
159_Y	163_M	0.607	1.00
263_L	281_G	0.604	1.00
172_I	177_I	0.601	1.00
186_L	230_L	0.600	1.00
64_G	68_V	0.599	1.00
85_S	231_S	0.598	1.00
226_L	229_L	0.596	1.00
195_F	226_L	0.596	1.00
292_L	297_V	0.591	1.00
232_A	236_A	0.587	1.00
182_A	233_L	0.586	1.00
81_I	139_F	0.585	1.00
57_I	238_L	0.585	1.00
111_A	114_G	0.584	1.00
71_T	220_K	0.581	1.00
189_L	222_M	0.580	1.00
45_P	49_L	0.575	1.00
71_T	202_I	0.575	1.00
57_I	241_R	0.575	1.00
110_G	114_G	0.574	1.00
186_L	190_L	0.573	1.00
121_I	128_P	0.573	1.00
58_N	253_Y	0.572	1.00
160_G	164_F	0.570	1.00
156_G	159_Y	0.569	1.00
161_F	165_G	0.569	1.00
140_R	254_E	0.569	1.00
125_K	217_T	0.568	1.00
89_V	235_G	0.567	1.00
88_L	105_L	0.567	1.00
168_Y	172_I	0.567	1.00
188_V	191_H	0.566	1.00
58_N	282_V	0.565	1.00
107_C	110_G	0.564	1.00
121_I	224_Y	0.564	1.00
67_F	189_L	0.561	1.00
54_Q	290_N	0.561	1.00
81_I	114_G	0.559	1.00
207_K	211_I	0.557	1.00
63_F	183_F	0.554	1.00
260_A	278_T	0.550	1.00
63_F	187_W	0.549	1.00
53_R	176_A	0.548	1.00
256_D	303_L	0.547	1.00
92_M	96_G	0.547	1.00
52_L	55_V	0.545	1.00
261_V	278_T	0.545	1.00
159_Y	165_G	0.544	1.00
263_L	313_A	0.544	1.00
189_L	193_T	0.544	1.00
187_W	274_R	0.544	1.00
264_G	278_T	0.543	1.00
181_L	184_V	0.540	1.00
91_G	94_V	0.540	1.00
137_T	141_G	0.539	1.00
63_F	184_V	0.537	1.00
133_L	137_T	0.533	1.00
277_G	281_G	0.531	1.00
178_T	182_A	0.531	1.00
132_T	136_M	0.531	1.00
160_G	166_R	0.530	1.00
84_L	109_I	0.530	1.00
169_F	174_V	0.530	1.00
209_A	216_V	0.526	1.00
220_K	223_I	0.525	1.00
77_S	117_N	0.524	1.00
228_G	231_S	0.524	1.00
139_F	143_T	0.523	1.00
191_H	194_P	0.520	1.00
182_A	186_L	0.519	1.00
276_V	279_L	0.519	1.00
136_M	254_E	0.519	1.00
172_I	175_P	0.517	1.00
225_S	228_G	0.513	1.00
88_L	106_G	0.512	1.00
111_A	228_G	0.511	1.00
99_P	240_S	0.508	1.00
58_N	62_A	0.508	1.00
79_G	250_G	0.506	1.00
68_V	73_G	0.506	1.00
47_N	50_N	0.505	1.00
83_A	249_A	0.505	1.00
59_G	63_F	0.504	1.00
302_Q	306_K	0.503	1.00
251_E	254_E	0.502	1.00
48_I	52_L	0.501	1.00
133_L	136_M	0.501	1.00
248_T	251_E	0.501	1.00
163_M	168_Y	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
4g1uA	2	0.823	97.1	0.879	Contact Map
2nq2A	2	0.8571	96.3	0.89	Contact Map
2qi9A	2	0.9006	96	0.893	Contact Map
3d31C	2	0.736	22.9	0.95	Contact Map
1pw4A	1	0.587	22.4	0.95	Contact Map
2onkC	2	0.7422	20.9	0.951	Contact Map
2m8rA	1	0.1366	20	0.951	Contact Map
3o7qA	1	0.5497	18.3	0.952	Contact Map
1u7gA	3	0.5745	18	0.952	Contact Map
2gfpA	2	0.5559	11.1	0.957	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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