GLNH - BACSU - GREMLIN Contacts

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GLNH - ABC transporter glutamine-binding protein GlnH

UniProt:	O34563	Sequences: MKKIFSLALISLFAVILLAACGSKGSNGEASKESKKDTLAAIKDNDKIVFGVKTDTRLFGLKNPSSGEIEGFDIDIAKQIAKDILGDEKKAQFKEVTSKTRIPMLQNGDIDAIVATMTITEERKKEVDFSDVYFEAGQSLLVKKGSKIKSVENLGKGSKVLAVKGSTSSQNIREKAPEASVLEFENYAEAFTALKSGQGDALTTDNAILYGMADENKNYQLTGKPFTDEPYGIAVKKGQSALAKEINASLKKMKSDGRYDEIYKKWIKEDPAE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	273 (229)
Sequences:	20762 (14212)
Seq/√Len:	939.1

ECOLI - FLIY GLTI YHDW HISJ ARGT GLNH ARTJ ARTI MLTF EVGS
BACSU - GLNH TCYA YCKB TCYK TCYJ YXEM ARTP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
51_G	110_I	3.686	1.00
161_L	199_G	3.545	1.00
47_K	92_Q	3.349	1.00
83_D	252_K	2.817	1.00
169_S	183_E	2.382	1.00
184_F	193_A	2.345	1.00
63_N	66_S	2.231	1.00
104_M	110_I	2.221	1.00
186_N	189_E	2.219	1.00
131_D	251_K	2.215	1.00
47_K	90_K	2.126	1.00
119_I	124_K	2.125	1.00
63_N	70_E	2.123	1.00
119_I	232_G	2.120	1.00
49_V	92_Q	2.114	1.00
169_S	173_R	2.034	1.00
121_E	124_K	2.002	1.00
79_Q	82_K	1.997	1.00
260_D	264_K	1.992	1.00
49_V	94_K	1.990	1.00
258_R	261_E	1.988	1.00
106_Q	126_E	1.974	1.00
159_K	182_L	1.943	1.00
251_K	255_S	1.942	1.00
235_V	243_A	1.910	1.00
128_D	243_A	1.909	1.00
127_V	234_A	1.883	1.00
81_A	91_A	1.861	1.00
243_A	247_N	1.839	1.00
190_A	202_L	1.834	1.00
83_D	249_S	1.806	1.00
131_D	247_N	1.801	1.00
150_S	153_N	1.787	1.00
204_T	209_L	1.783	1.00
235_V	246_I	1.754	1.00
50_F	77_A	1.712	1.00
240_S	244_K	1.703	1.00
114_V	233_I	1.663	1.00
193_A	198_Q	1.660	1.00
159_K	180_S	1.657	1.00
141_L	209_L	1.650	1.00
149_K	153_N	1.623	1.00
79_Q	258_R	1.605	1.00
79_Q	83_D	1.545	1.00
79_Q	253_M	1.544	1.00
143_K	197_G	1.526	1.00
143_K	146_S	1.514	1.00
164_K	185_E	1.496	1.00
104_M	109_D	1.486	1.00
236_K	239_Q	1.476	1.00
63_N	68_E	1.473	1.00
130_S	247_N	1.465	1.00
171_N	175_K	1.448	1.00
40_A	44_D	1.448	1.00
170_Q	174_E	1.436	1.00
244_K	248_A	1.414	1.00
144_K	218_N	1.406	1.00
83_D	256_D	1.381	1.00
135_E	230_P	1.377	1.00
84_I	89_K	1.347	1.00
102_I	127_V	1.328	1.00
61_L	70_E	1.324	1.00
145_G	220_Q	1.320	1.00
245_E	248_A	1.318	1.00
78_K	93_F	1.301	1.00
101_R	113_I	1.301	1.00
75_D	265_K	1.299	1.00
193_A	199_G	1.289	1.00
128_D	238_G	1.283	1.00
195_K	218_N	1.280	1.00
159_K	200_D	1.262	1.00
80_I	249_S	1.258	1.00
206_N	210_Y	1.254	1.00
74_I	78_K	1.252	1.00
158_S	200_D	1.250	1.00
77_A	114_V	1.245	1.00
139_S	206_N	1.235	1.00
96_V	104_M	1.231	1.00
54_T	95_E	1.229	1.00
62_K	95_E	1.226	1.00
185_E	189_E	1.218	1.00
84_I	249_S	1.215	1.00
50_F	112_A	1.212	1.00
173_R	183_E	1.211	1.00
117_M	234_A	1.206	1.00
138_Q	168_S	1.203	1.00
108_G	236_K	1.190	1.00
194_L	219_Y	1.174	1.00
161_L	184_F	1.169	1.00
140_L	201_A	1.166	1.00
144_K	220_Q	1.156	1.00
41_A	45_N	1.143	1.00
128_D	240_S	1.143	1.00
103_P	106_Q	1.139	1.00
252_K	256_D	1.138	1.00
142_V	201_A	1.132	1.00
73_D	133_Y	1.125	1.00
249_S	252_K	1.117	1.00
192_T	195_K	1.114	1.00
113_I	117_M	1.109	1.00
245_E	249_S	1.108	1.00
254_K	259_Y	1.107	1.00
122_E	125_K	1.107	1.00
240_S	243_A	1.090	1.00
162_A	169_S	1.090	1.00
72_F	262_I	1.088	1.00
40_A	43_K	1.084	1.00
160_V	201_A	1.081	1.00
46_D	89_K	1.068	1.00
192_T	196_S	1.064	1.00
68_E	78_K	1.064	1.00
176_A	179_A	1.048	1.00
97_T	100_T	1.042	1.00
194_L	202_L	1.038	1.00
77_A	93_F	1.037	1.00
184_F	190_A	1.036	1.00
72_F	267_I	1.034	1.00
249_S	253_M	1.023	1.00
139_S	221_L	1.021	1.00
142_V	222_T	1.016	1.00
96_V	110_I	1.012	1.00
248_A	252_K	1.006	1.00
76_I	253_M	1.004	1.00
45_N	49_V	1.003	1.00
78_K	82_K	1.002	1.00
163_V	166_S	1.000	1.00
170_Q	173_R	0.998	1.00
39_L	42_I	0.997	1.00
128_D	237_K	0.996	1.00
72_F	263_Y	0.995	1.00
62_K	67_G	0.991	1.00
258_R	262_I	0.990	1.00
194_L	199_G	0.983	1.00
112_A	246_I	0.983	1.00
50_F	91_A	0.973	1.00
75_D	78_K	0.971	1.00
161_L	190_A	0.963	1.00
102_I	117_M	0.958	1.00
75_D	266_W	0.953	1.00
103_P	107_N	0.952	1.00
77_A	91_A	0.951	1.00
76_I	259_Y	0.950	1.00
142_V	146_S	0.948	1.00
89_K	245_E	0.947	1.00
37_D	241_A	0.946	1.00
253_M	258_R	0.945	1.00
164_K	183_E	0.945	1.00
211_G	215_E	0.944	1.00
112_A	235_V	0.935	1.00
259_Y	263_Y	0.920	1.00
241_A	245_E	0.919	1.00
189_E	192_T	0.919	1.00
120_T	123_R	0.916	1.00
69_I	74_I	0.915	1.00
195_K	216_N	0.914	1.00
131_D	254_K	0.910	1.00
42_I	45_N	0.899	1.00
261_E	264_K	0.899	1.00
80_I	246_I	0.891	1.00
130_S	246_I	0.890	1.00
72_F	259_Y	0.888	1.00
121_E	125_K	0.885	1.00
70_E	75_D	0.882	1.00
106_Q	127_V	0.880	1.00
112_A	233_I	0.878	1.00
83_D	258_R	0.871	1.00
54_T	69_I	0.868	1.00
136_A	207_A	0.867	1.00
247_N	251_K	0.864	1.00
156_K	178_E	0.862	1.00
247_N	250_L	0.859	1.00
59_F	134_F	0.852	1.00
57_R	61_L	0.844	1.00
98_S	101_R	0.839	1.00
38_T	41_A	0.838	1.00
171_N	174_E	0.838	1.00
37_D	40_A	0.823	1.00
42_I	46_D	0.821	1.00
188_A	192_T	0.819	1.00
100_T	104_M	0.815	1.00
123_R	129_F	0.815	1.00
77_A	233_I	0.812	1.00
62_K	69_I	0.811	1.00
39_L	43_K	0.810	1.00
263_Y	267_I	0.809	1.00
129_F	234_A	0.809	1.00
48_I	112_A	0.804	1.00
124_K	237_K	0.804	1.00
137_G	206_N	0.799	1.00
252_K	255_S	0.797	1.00
79_Q	249_S	0.788	1.00
182_L	193_A	0.784	1.00
37_D	41_A	0.782	1.00
261_E	265_K	0.777	1.00
52_V	74_I	0.772	1.00
48_I	89_K	0.771	1.00
49_V	111_D	0.769	1.00
48_I	81_A	0.768	1.00
113_I	234_A	0.755	1.00
142_V	220_Q	0.754	1.00
77_A	112_A	0.754	1.00
43_K	46_D	0.752	1.00
80_I	84_I	0.752	1.00
83_D	253_M	0.751	1.00
84_I	245_E	0.747	1.00
140_L	203_T	0.745	1.00
241_A	244_K	0.741	1.00
260_D	263_Y	0.740	1.00
253_M	256_D	0.737	1.00
118_T	229_E	0.736	1.00
154_L	201_A	0.735	1.00
52_V	93_F	0.731	1.00
130_S	235_V	0.729	1.00
141_L	219_Y	0.714	1.00
187_Y	204_T	0.712	1.00
152_E	156_K	0.711	1.00
191_F	195_K	0.709	1.00
161_L	193_A	0.708	1.00
80_I	114_V	0.703	1.00
61_L	266_W	0.702	1.00
253_M	257_G	0.699	1.00
248_A	251_K	0.697	1.00
42_I	89_K	0.697	1.00
233_I	246_I	0.693	1.00
105_L	113_I	0.693	1.00
119_I	132_V	0.691	1.00
105_L	110_I	0.687	1.00
136_A	206_N	0.687	1.00
210_Y	214_D	0.685	1.00
36_K	41_A	0.685	1.00
239_Q	242_L	0.683	1.00
47_K	89_K	0.683	1.00
94_K	109_D	0.682	1.00
76_I	250_L	0.678	1.00
147_K	220_Q	0.678	1.00
102_I	106_Q	0.676	1.00
184_F	199_G	0.673	1.00
253_M	259_Y	0.670	1.00
148_I	153_N	0.670	1.00
130_S	233_I	0.668	1.00
139_S	223_G	0.665	1.00
244_K	247_N	0.661	1.00
189_E	193_A	0.659	1.00
128_D	239_Q	0.658	1.00
52_V	115_A	0.657	1.00
172_I	181_V	0.657	1.00
53_K	60_G	0.657	1.00
54_T	60_G	0.655	1.00
100_T	103_P	0.655	1.00
135_E	228_D	0.652	1.00
56_T	116_T	0.650	1.00
173_R	181_V	0.648	1.00
129_F	232_G	0.646	1.00
78_K	91_A	0.645	1.00
109_D	198_Q	0.644	1.00
159_K	199_G	0.642	1.00
182_L	199_G	0.641	1.00
79_Q	262_I	0.639	1.00
53_K	98_S	0.634	1.00
52_V	69_I	0.634	1.00
50_F	93_F	0.632	1.00
143_K	218_N	0.632	1.00
191_F	219_Y	0.629	1.00
132_V	135_E	0.625	1.00
211_G	214_D	0.624	1.00
162_A	183_E	0.624	1.00
108_G	238_G	0.622	1.00
106_Q	236_K	0.622	1.00
51_G	101_R	0.620	1.00
105_L	236_K	0.618	1.00
137_G	228_D	0.618	1.00
56_T	98_S	0.617	1.00
210_Y	221_L	0.613	1.00
251_K	254_K	0.612	1.00
51_G	113_I	0.611	1.00
70_E	266_W	0.610	1.00
98_S	117_M	0.609	1.00
209_L	213_A	0.609	1.00
105_L	127_V	0.608	1.00
131_D	250_L	0.607	1.00
81_A	86_G	0.605	1.00
219_Y	222_T	0.604	1.00
167_T	229_E	0.602	1.00
53_K	163_V	0.600	1.00
257_G	261_E	0.599	1.00
96_V	101_R	0.597	1.00
60_G	115_A	0.597	1.00
94_K	110_I	0.597	1.00
118_T	123_R	0.596	1.00
119_I	129_F	0.595	1.00
138_Q	203_T	0.594	1.00
77_A	81_A	0.593	1.00
141_L	213_A	0.593	1.00
141_L	191_F	0.591	1.00
117_M	127_V	0.590	1.00
172_I	176_A	0.590	1.00
172_I	203_T	0.589	1.00
137_G	225_P	0.588	1.00
81_A	84_I	0.575	1.00
130_S	250_L	0.574	1.00
43_K	245_E	0.574	1.00
139_S	209_L	0.573	1.00
73_D	116_T	0.572	1.00
204_T	208_I	0.569	1.00
147_K	158_S	0.563	1.00
38_T	236_K	0.562	1.00
195_K	219_Y	0.562	1.00
136_A	231_Y	0.561	1.00
53_K	115_A	0.559	1.00
74_I	93_F	0.557	1.00
213_A	216_N	0.551	1.00
80_I	233_I	0.550	1.00
137_G	227_T	0.546	1.00
41_A	44_D	0.545	1.00
213_A	217_K	0.545	1.00
118_T	167_T	0.544	1.00
75_D	262_I	0.542	1.00
45_N	111_D	0.542	1.00
253_M	262_I	0.541	1.00
254_K	257_G	0.540	1.00
36_K	40_A	0.539	1.00
54_T	62_K	0.539	1.00
57_R	215_E	0.538	1.00
257_G	260_D	0.535	1.00
193_A	196_S	0.535	1.00
164_K	169_S	0.534	1.00
38_T	42_I	0.534	1.00
213_A	219_Y	0.533	1.00
145_G	197_G	0.531	1.00
134_F	231_Y	0.530	1.00
205_D	231_Y	0.529	1.00
163_V	187_Y	0.525	1.00
101_R	117_M	0.525	1.00
162_A	172_I	0.524	1.00
160_V	179_A	0.523	1.00
124_K	128_D	0.520	1.00
140_L	154_L	0.516	1.00
82_K	258_R	0.511	1.00
83_D	245_E	0.511	1.00
77_A	80_I	0.510	1.00
39_L	89_K	0.505	1.00
235_V	239_Q	0.504	1.00
48_I	84_I	0.504	1.00
84_I	242_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
1xt8A	1	0.8681	100	0.24	Contact Map
2ylnA	1	0.8571	100	0.244	Contact Map
2yjpA	1	0.8571	100	0.245	Contact Map
1pb7A	1	0.9194	100	0.261	Contact Map
4ohnA	1	0.8608	100	0.267	Contact Map
3kbrA	4	0.8242	100	0.269	Contact Map
4ymxA	1	0.7985	100	0.271	Contact Map
4powA	1	0.8205	100	0.272	Contact Map
2vhaA	2	0.8755	100	0.276	Contact Map
3hv1A	2	0.8791	100	0.283	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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