YQGH - BACSU - GREMLIN Contacts

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YQGH - Probable ABC transporter permease protein YqgH

UniProt:	P46339	Sequences: MINNRENMSVSERLISSRQNRQLDEVRGRMIVTACALIMIAASVAITIFLGVKGLQSFLVNGVSPIEFLTSLNWNPTDSDPKYGVLPFIFGSFAVTILSALIAAPLGIAGAIFMTEIAPNWGKKVLQPVIELLVGIPSVVYGFIGLTVLVPFIAQFKSSGTGHSLLAGTIVLSVMILPTITSISADAMASLPKSLREGSYALGATRWQTIRKVLVPAAFPTLMTAVVLGMARAFGEALAVQMVIGNTRVLPESPFDTAGTLTTIITLNMGHTTYGSVENNTLWSMGLVLLVMSFLFILLIRYLSSRRKV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	309 (255)
Sequences:	70264 (46245)
Seq/√Len:	2896.0

ECOLI - PSTA POTH YDCU PSTC UGPA YCJO CYSW YCJP MALG POTI YDCV CYST THIP UGPE POTC POTB YNJC MALF MODB TAUC PHNE SSUC YEHY YEHW PROW METI YECS GLNP
BACSU - YQGH GANP MDXF ARAP YTEP LPLB AMYD YURM YESQ GANQ MDXG YURN YESP YQGI AMYC LPLC ARAQ YTCP YTLD SSUC OPUAB YVGM METP TCYB YXEN OPUCB TCYL OPUBD OPUCD OPUBB ARTQ
HALSA - Q9HML6 Q9HS11 Q9HP01 Q9HMT4 Q9HHQ6 Q9HP02 Q9HHQ7 Q9HR05 Q9HPK3 Q9HNI9 Q9HS12 Q9HML7
SULSO - Q97YY2 Q97UF3 Q97YY3 Q97ZT6 Q97ZT7 Q97UZ0 Q97UY9 Q97ZC1 Q97VC0 Q97UF4 Q97ZC2 Q97Z98

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
208_Q	212_K	4.084	1.00
90_F	94_A	3.221	1.00
200_Y	209_T	3.024	1.00
185_A	189_A	2.998	1.00
87_P	90_F	2.625	1.00
88_F	264_I	2.607	1.00
205_T	208_Q	2.573	1.00
116_E	196_R	2.556	1.00
54_G	76_P	2.552	1.00
196_R	214_L	2.488	1.00
199_S	209_T	2.465	1.00
98_L	169_T	2.407	1.00
187_A	221_T	2.398	1.00
86_L	90_F	2.352	1.00
102_I	173_S	2.345	1.00
259_G	267_L	2.329	1.00
100_A	226_V	2.272	1.00
206_R	209_T	2.250	1.00
207_W	211_R	2.249	1.00
184_S	222_L	2.245	1.00
119_P	122_G	2.204	1.00
77_T	81_P	2.167	1.00
108_I	210_I	2.040	1.00
204_A	208_Q	2.019	1.00
208_Q	211_R	1.988	1.00
188_M	218_A	1.969	1.00
180_I	225_A	1.964	1.00
115_T	189_A	1.945	1.00
195_L	217_A	1.942	1.00
48_I	52_V	1.908	1.00
94_A	165_L	1.843	1.00
199_S	204_A	1.832	1.00
68_F	71_S	1.806	1.00
52_V	56_Q	1.804	1.00
108_I	218_A	1.770	1.00
87_P	91_G	1.762	1.00
200_Y	206_R	1.712	1.00
127_Q	185_A	1.707	1.00
104_A	226_V	1.703	1.00
107_G	180_I	1.700	1.00
72_L	77_T	1.698	1.00
196_R	209_T	1.685	1.00
96_T	230_M	1.678	1.00
94_A	98_L	1.651	1.00
278_E	281_T	1.648	1.00
99_S	233_A	1.643	1.00
108_I	184_S	1.600	1.00
114_M	181_T	1.595	1.00
110_G	181_T	1.585	1.00
119_P	123_K	1.582	1.00
196_R	200_Y	1.562	1.00
298_L	302_Y	1.557	1.00
165_L	258_A	1.527	1.00
69_L	72_L	1.494	1.00
78_D	281_T	1.489	1.00
33_T	37_L	1.460	1.00
51_G	287_L	1.450	1.00
193_K	196_R	1.426	1.00
224_T	228_L	1.398	1.00
122_G	125_V	1.386	1.00
264_I	268_N	1.385	1.00
72_L	78_D	1.383	1.00
237_A	241_Q	1.375	1.00
111_A	184_S	1.368	1.00
180_I	229_G	1.362	1.00
45_A	49_F	1.360	1.00
215_V	222_L	1.345	1.00
188_M	214_L	1.343	1.00
84_G	87_P	1.343	1.00
115_T	185_A	1.340	1.00
95_V	260_T	1.340	1.00
78_D	81_P	1.325	1.00
246_N	257_T	1.315	1.00
49_F	53_K	1.315	1.00
184_S	225_A	1.294	1.00
103_A	229_G	1.291	1.00
239_A	243_V	1.272	1.00
105_P	109_A	1.269	1.00
116_E	193_K	1.264	1.00
237_A	266_T	1.256	1.00
193_K	197_E	1.243	1.00
244_I	258_A	1.241	1.00
199_S	213_V	1.234	1.00
118_A	123_K	1.231	1.00
92_S	261_L	1.229	1.00
171_V	243_V	1.226	1.00
65_P	68_F	1.217	1.00
194_S	197_E	1.217	1.00
164_S	258_A	1.207	1.00
37_L	41_A	1.204	1.00
108_I	222_L	1.191	1.00
112_I	188_M	1.191	1.00
98_L	101_L	1.173	1.00
260_T	263_T	1.168	1.00
26_V	30_M	1.164	1.00
67_E	70_T	1.156	1.00
268_N	278_E	1.148	1.00
205_T	209_T	1.145	1.00
57_S	60_V	1.143	1.00
63_V	66_I	1.141	1.00
259_G	264_I	1.139	1.00
91_G	94_A	1.129	1.00
101_L	105_P	1.128	1.00
50_L	287_L	1.115	1.00
125_V	128_P	1.112	1.00
161_T	166_L	1.107	1.00
28_G	32_V	1.107	1.00
149_L	167_A	1.102	1.00
168_G	240_V	1.100	1.00
191_L	217_A	1.089	1.00
66_I	70_T	1.084	1.00
268_N	272_T	1.079	1.00
184_S	221_T	1.078	1.00
104_A	222_L	1.078	1.00
65_P	70_T	1.077	1.00
177_L	181_T	1.077	1.00
27_R	31_I	1.073	1.00
163_H	166_L	1.065	1.00
196_R	206_R	1.063	1.00
219_F	223_M	1.061	1.00
78_D	82_K	1.061	1.00
27_R	30_M	1.061	1.00
30_M	34_A	1.045	1.00
217_A	220_P	1.037	1.00
267_L	271_H	1.032	1.00
125_V	129_V	1.031	1.00
63_V	70_T	1.025	1.00
183_I	225_A	1.023	1.00
112_I	206_R	1.014	1.00
49_F	52_V	1.012	1.00
259_G	263_T	1.012	1.00
99_S	103_A	1.005	1.00
93_F	97_I	1.005	1.00
147_T	151_P	1.003	1.00
102_I	169_T	1.003	1.00
25_E	28_G	0.994	1.00
160_G	163_H	0.994	1.00
115_T	188_M	0.988	1.00
98_L	102_I	0.986	1.00
53_K	283_W	0.975	1.00
161_T	164_S	0.966	1.00
109_A	113_F	0.965	1.00
99_S	172_L	0.965	1.00
165_L	169_T	0.964	1.00
112_I	210_I	0.964	1.00
30_M	33_T	0.961	1.00
300_I	303_L	0.958	1.00
166_L	170_I	0.956	1.00
89_I	261_L	0.954	1.00
240_V	260_T	0.954	1.00
236_E	239_A	0.940	1.00
264_I	285_M	0.935	1.00
123_K	189_A	0.933	1.00
68_F	72_L	0.929	1.00
76_P	287_L	0.926	1.00
67_E	71_S	0.925	1.00
236_E	240_V	0.924	1.00
162_G	166_L	0.918	1.00
204_A	209_T	0.913	1.00
145_G	243_V	0.909	1.00
172_L	233_A	0.909	1.00
187_A	218_A	0.908	1.00
264_I	267_L	0.906	1.00
64_S	67_E	0.900	1.00
209_T	212_K	0.898	1.00
246_N	258_A	0.895	1.00
266_T	270_G	0.890	1.00
80_D	86_L	0.889	1.00
269_M	282_L	0.888	1.00
97_I	101_L	0.887	1.00
121_W	124_K	0.884	1.00
56_Q	60_V	0.884	1.00
102_I	105_P	0.875	1.00
111_A	115_T	0.871	1.00
107_G	181_T	0.868	1.00
75_N	280_N	0.861	1.00
219_F	222_L	0.857	1.00
29_R	33_T	0.851	1.00
40_I	44_V	0.851	1.00
101_L	226_V	0.849	1.00
95_V	165_L	0.847	1.00
210_I	215_V	0.847	1.00
94_A	97_I	0.843	1.00
42_A	46_I	0.840	1.00
99_S	169_T	0.840	1.00
241_Q	263_T	0.838	1.00
169_T	173_S	0.836	1.00
32_V	36_A	0.835	1.00
89_I	93_F	0.835	1.00
131_E	182_S	0.831	1.00
85_V	285_M	0.829	1.00
124_K	127_Q	0.825	1.00
184_S	218_A	0.823	1.00
111_A	188_M	0.822	1.00
211_R	215_V	0.820	1.00
218_A	221_T	0.816	1.00
229_G	233_A	0.815	1.00
180_I	184_S	0.814	1.00
91_G	165_L	0.811	1.00
103_A	107_G	0.811	1.00
94_A	166_L	0.810	1.00
145_G	171_V	0.806	1.00
299_L	302_Y	0.806	1.00
64_S	70_T	0.806	1.00
25_E	29_R	0.803	1.00
162_G	165_L	0.800	1.00
65_P	71_S	0.799	1.00
146_L	150_V	0.797	1.00
103_A	176_I	0.796	1.00
78_D	278_E	0.792	1.00
113_F	119_P	0.779	1.00
50_L	283_W	0.775	1.00
163_H	246_N	0.775	1.00
166_L	169_T	0.775	1.00
209_T	214_L	0.774	1.00
171_V	239_A	0.774	1.00
90_F	93_F	0.767	1.00
268_N	285_M	0.759	1.00
293_S	297_I	0.756	1.00
103_A	180_I	0.754	1.00
95_V	172_L	0.753	1.00
281_T	285_M	0.753	1.00
150_V	162_G	0.749	1.00
268_N	281_T	0.748	1.00
114_M	127_Q	0.748	1.00
206_R	210_I	0.744	1.00
279_N	282_L	0.742	1.00
53_K	56_Q	0.742	1.00
142_G	238_L	0.740	1.00
142_G	242_M	0.734	1.00
96_T	100_A	0.733	1.00
50_L	286_G	0.729	1.00
191_L	218_A	0.728	1.00
67_E	72_L	0.728	1.00
138_S	175_M	0.725	1.00
82_K	86_L	0.724	1.00
195_L	213_V	0.724	1.00
31_I	34_A	0.723	1.00
111_A	181_T	0.720	1.00
210_I	214_L	0.720	1.00
79_S	288_V	0.719	1.00
76_P	80_D	0.714	1.00
45_A	48_I	0.711	1.00
98_L	173_S	0.710	1.00
164_S	167_A	0.710	1.00
71_S	77_T	0.708	1.00
104_A	184_S	0.707	1.00
88_F	261_L	0.706	1.00
88_F	91_G	0.705	1.00
34_A	37_L	0.700	1.00
95_V	168_G	0.695	1.00
114_M	126_L	0.692	1.00
131_E	134_V	0.690	1.00
163_H	167_A	0.687	1.00
184_S	188_M	0.683	1.00
198_G	202_L	0.682	1.00
193_K	200_Y	0.682	1.00
283_W	287_L	0.681	1.00
167_A	171_V	0.679	1.00
244_I	259_G	0.675	1.00
222_L	225_A	0.671	1.00
76_P	79_S	0.670	1.00
204_A	212_K	0.669	1.00
221_T	225_A	0.668	1.00
114_M	185_A	0.665	1.00
265_I	285_M	0.664	1.00
31_I	35_C	0.663	1.00
236_E	260_T	0.660	1.00
107_G	184_S	0.658	1.00
100_A	104_A	0.652	1.00
103_A	233_A	0.652	1.00
280_N	283_W	0.649	1.00
299_L	303_L	0.649	1.00
119_P	126_L	0.647	1.00
289_L	293_S	0.647	1.00
295_L	299_L	0.647	1.00
147_T	150_V	0.646	1.00
92_S	262_T	0.644	1.00
138_S	238_L	0.643	1.00
214_L	217_A	0.643	1.00
86_L	89_I	0.642	1.00
273_T	278_E	0.641	1.00
66_I	71_S	0.640	1.00
95_V	169_T	0.639	1.00
54_G	284_S	0.639	1.00
134_V	178_P	0.638	1.00
279_N	283_W	0.637	1.00
141_Y	174_V	0.632	1.00
222_L	226_V	0.632	1.00
263_T	267_L	0.631	1.00
100_A	230_M	0.630	1.00
110_G	177_L	0.629	1.00
168_G	172_L	0.628	1.00
80_D	83_Y	0.626	1.00
145_G	148_V	0.623	1.00
298_L	301_R	0.622	1.00
64_S	68_F	0.620	1.00
262_T	289_L	0.619	1.00
106_L	173_S	0.619	1.00
79_S	281_T	0.619	1.00
57_S	67_E	0.618	1.00
24_D	28_G	0.616	1.00
283_W	286_G	0.616	1.00
40_I	43_S	0.615	1.00
92_S	234_F	0.615	1.00
240_V	263_T	0.612	1.00
83_Y	87_P	0.611	1.00
77_T	80_D	0.605	1.00
294_F	298_L	0.604	1.00
183_I	221_T	0.604	1.00
261_L	289_L	0.602	1.00
26_V	29_R	0.597	1.00
39_M	43_S	0.597	1.00
76_P	284_S	0.594	1.00
110_G	130_I	0.592	1.00
167_A	243_V	0.592	1.00
54_G	287_L	0.590	1.00
113_F	117_I	0.587	1.00
96_T	233_A	0.585	1.00
168_G	244_I	0.584	1.00
122_G	126_L	0.583	1.00
63_V	67_E	0.579	1.00
24_D	27_R	0.575	1.00
160_G	164_S	0.572	1.00
46_I	58_F	0.572	1.00
198_G	201_A	0.571	1.00
238_L	242_M	0.569	1.00
103_A	173_S	0.567	1.00
75_N	78_D	0.565	1.00
161_T	170_I	0.565	1.00
127_Q	182_S	0.564	1.00
172_L	240_V	0.560	1.00
231_A	235_G	0.557	1.00
76_P	81_P	0.556	1.00
70_T	75_N	0.556	1.00
36_A	40_I	0.554	1.00
95_V	99_S	0.552	1.00
72_L	75_N	0.550	1.00
205_T	211_R	0.548	1.00
263_T	266_T	0.547	1.00
63_V	69_L	0.547	1.00
146_L	162_G	0.546	1.00
130_I	178_P	0.545	1.00
121_W	125_V	0.544	1.00
226_V	229_G	0.543	1.00
84_G	264_I	0.542	1.00
66_I	69_L	0.541	1.00
129_V	133_L	0.540	1.00
29_R	32_V	0.540	1.00
209_T	213_V	0.539	1.00
134_V	179_T	0.538	1.00
176_I	229_G	0.538	1.00
83_Y	86_L	0.538	1.00
106_L	177_L	0.535	1.00
118_A	124_K	0.531	1.00
211_R	214_L	0.529	1.00
176_I	232_R	0.528	1.00
238_L	241_Q	0.527	1.00
292_M	295_L	0.527	1.00
172_L	236_E	0.526	1.00
223_M	226_V	0.526	1.00
44_V	48_I	0.526	1.00
51_G	55_L	0.525	1.00
104_A	109_A	0.525	1.00
111_A	185_A	0.525	1.00
112_I	214_L	0.523	1.00
117_I	123_K	0.523	1.00
139_V	242_M	0.522	1.00
118_A	193_K	0.520	1.00
191_L	196_R	0.516	1.00
53_K	57_S	0.515	1.00
232_R	235_G	0.515	1.00
265_I	286_G	0.512	1.00
63_V	68_F	0.510	1.00
100_A	233_A	0.509	1.00
110_G	113_F	0.507	1.00
118_A	121_W	0.507	1.00
56_Q	66_I	0.506	1.00
272_T	278_E	0.506	1.00
64_S	69_L	0.501	1.00
197_E	200_Y	0.501	1.00
52_V	55_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
2onkC	2	0.8091	100	0.324	Contact Map
3d31C	2	0.7896	100	0.341	Contact Map
4tquM	1	0.8738	100	0.35	Contact Map
3rlfG	1	0.8608	100	0.376	Contact Map
4tquN	1	0.8641	100	0.385	Contact Map
3rlfF	1	0.9385	100	0.393	Contact Map
4ymuD	2	0.6926	100	0.494	Contact Map
3tuiA	2	0.6796	99.9	0.515	Contact Map
2m8rA	1	0.1683	14.9	0.946	Contact Map
2kogA	1	0.1715	14.2	0.947	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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