POTC - ECOLI - GREMLIN Contacts

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POTC - Spermidine/putrescine transport system permease protein PotC

UniProt:	P0AFK6	Sequences: MIGRLLRGGFMTAIYAYLYIPIIILIVNSFNSSRFGINWQGFTTKWYSLLMNNDSLLQAAQHSLTMAVFSATFATLIGSLTAVALYRYRFRGKPFVSGMLFVVMMSPDIVMAISLLVLFMLLGIQLGFWSLLFSHITFCLPFVVVTVYSRLKGFDVRMLEAAKDLGASEFTILRKIILPLAMPAVAAGWVLSFTLSMDDVVVSSFVTGPSYEILPLKIYSMVKVGVSPEVNALATILLVLSLVMVIASQLIARDKTKGNTGDVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10751
Length:	264 (247)
Sequences:	73447 (47290)
Seq/√Len:	3009.0

ECOLI - POTC POTI POTH POTB YDCV YCJP YCJO UGPE MALG UGPA PSTA PSTC YDCU CYST CYSW YNJC THIP MODB SSUC MALF TAUC YEHW YEHY PROW METI PHNE YECS GLNP
BACSU - AMYD MDXG GANP GANQ AMYC ARAP YTEP YQGI YESP YESQ YURM LPLB YURN YTCP MDXF ARAQ YQGH LPLC YVGM SSUC YTLD OPUAB TCYB METP OPUCB TCYL YXEN OPUBD OPUBB OPUCD ARTQ GLNP YCKA
HALSA - Q9HML6 Q9HP02 Q9HMT4 Q9HP01 Q9HS11 Q9HHQ7 Q9HHQ6 Q9HPK3 Q9HR05 Q9HNI9 Q9HS12 Q9HML7
SULSO - Q97ZC1 Q97UF3 Q97UZ0 Q97YY2 Q97YY3 Q97UY9 Q97UF4 Q97ZT6 Q97ZC2 Q97ZT7 Q97VC0 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
171_T	175_K	3.883	1.00
61_Q	65_T	3.315	1.00
163_K	172_I	3.190	1.00
148_Y	152_K	2.991	1.00
59_A	217_K	2.636	1.00
58_Q	61_Q	2.605	1.00
150_R	184_A	2.598	1.00
168_S	171_T	2.559	1.00
162_A	172_I	2.541	1.00
69_F	132_L	2.515	1.00
73_F	136_I	2.485	1.00
87_R	159_L	2.468	1.00
159_L	177_I	2.449	1.00
212_E	220_S	2.446	1.00
29_S	47_Y	2.414	1.00
169_E	172_I	2.396	1.00
48_S	52_N	2.393	1.00
57_L	61_Q	2.370	1.00
170_F	174_R	2.300	1.00
226_V	229_E	2.289	1.00
45_K	48_S	2.252	1.00
71_A	189_W	2.220	1.00
147_V	185_V	2.160	1.00
90_F	93_K	2.143	1.00
45_K	49_L	2.055	1.00
167_A	171_T	2.052	1.00
171_T	174_R	1.988	1.00
86_Y	152_K	1.939	1.00
97_S	148_Y	1.882	1.00
158_M	180_L	1.878	1.00
143_V	188_G	1.877	1.00
162_A	167_A	1.869	1.00
151_L	181_A	1.862	1.00
27_V	31_N	1.860	1.00
79_S	173_L	1.829	1.00
79_S	181_A	1.818	1.00
23_I	27_V	1.811	1.00
159_L	172_I	1.792	1.00
246_I	250_L	1.778	1.00
58_Q	62_H	1.745	1.00
163_K	169_E	1.743	1.00
75_T	189_W	1.739	1.00
159_L	163_K	1.684	1.00
217_K	221_M	1.651	1.00
65_T	69_F	1.642	1.00
78_G	143_V	1.630	1.00
49_L	229_E	1.622	1.00
67_A	193_F	1.622	1.00
70_S	196_S	1.607	1.00
81_T	144_V	1.589	1.00
79_S	147_V	1.548	1.00
156_V	159_L	1.522	1.00
85_L	144_V	1.505	1.00
20_I	24_I	1.485	1.00
76_L	80_L	1.482	1.00
143_V	192_S	1.480	1.00
26_I	235_T	1.474	1.00
8_G	12_T	1.473	1.00
49_L	52_N	1.457	1.00
92_G	95_F	1.447	1.00
89_R	93_K	1.419	1.00
55_S	58_Q	1.414	1.00
66_M	213_I	1.397	1.00
86_Y	148_Y	1.386	1.00
200_V	204_S	1.379	1.00
82_A	147_V	1.351	1.00
44_T	48_S	1.347	1.00
212_E	217_K	1.337	1.00
24_I	28_N	1.328	1.00
156_V	160_E	1.322	1.00
151_L	177_I	1.319	1.00
187_A	191_L	1.318	1.00
74_A	192_S	1.316	1.00
178_L	185_V	1.313	1.00
128_F	211_Y	1.297	1.00
43_T	46_W	1.291	1.00
147_V	188_G	1.289	1.00
157_R	160_E	1.282	1.00
162_A	176_I	1.255	1.00
79_S	185_V	1.251	1.00
95_F	98_G	1.245	1.00
62_H	65_T	1.240	1.00
83_V	151_L	1.232	1.00
87_R	156_V	1.230	1.00
221_M	224_V	1.228	1.00
72_T	76_L	1.226	1.00
200_V	219_Y	1.224	1.00
207_T	211_Y	1.218	1.00
154_F	180_L	1.189	1.00
221_M	226_V	1.175	1.00
220_S	223_K	1.172	1.00
134_S	206_V	1.169	1.00
168_S	172_I	1.165	1.00
86_Y	151_L	1.158	1.00
75_T	185_V	1.144	1.00
202_V	206_V	1.139	1.00
69_F	72_T	1.136	1.00
140_L	144_V	1.124	1.00
119_F	130_S	1.122	1.00
250_L	253_R	1.115	1.00
132_L	136_I	1.108	1.00
12_T	16_A	1.107	1.00
95_F	99_M	1.102	1.00
35_F	41_G	1.101	1.00
63_S	214_L	1.099	1.00
182_M	186_A	1.096	1.00
73_F	132_L	1.093	1.00
124_I	129_W	1.076	1.00
25_L	235_T	1.074	1.00
32_S	35_F	1.073	1.00
69_F	73_F	1.068	1.00
203_S	213_I	1.064	1.00
131_L	203_S	1.058	1.00
117_V	121_L	1.055	1.00
247_A	251_I	1.049	1.00
83_V	173_L	1.041	1.00
159_L	169_E	1.038	1.00
38_N	41_G	1.036	1.00
217_K	233_L	1.032	1.00
199_D	202_V	1.030	1.00
51_M	57_L	1.028	1.00
24_I	27_V	1.021	1.00
70_S	135_H	1.018	1.00
212_E	216_L	1.013	1.00
172_I	175_K	1.013	1.00
80_L	84_A	0.996	1.00
167_A	172_I	0.991	1.00
93_K	152_K	0.990	1.00
180_L	183_P	0.988	1.00
60_A	214_L	0.988	1.00
213_I	216_L	0.987	1.00
147_V	184_A	0.981	1.00
126_L	129_W	0.980	1.00
36_G	40_Q	0.977	1.00
70_S	74_A	0.976	1.00
64_L	68_V	0.968	1.00
146_T	188_G	0.968	1.00
122_L	125_Q	0.956	1.00
78_G	144_V	0.937	1.00
49_L	53_N	0.937	1.00
217_K	220_S	0.931	1.00
83_V	169_E	0.929	1.00
82_A	86_Y	0.924	1.00
36_G	39_W	0.919	1.00
72_T	189_W	0.919	1.00
247_A	250_L	0.917	1.00
70_S	132_L	0.903	1.00
221_M	229_E	0.899	1.00
167_A	175_K	0.896	1.00
65_T	68_V	0.892	1.00
221_M	233_L	0.890	1.00
65_T	128_F	0.888	1.00
7_R	11_M	0.887	1.00
47_Y	235_T	0.885	1.00
108_D	138_F	0.882	1.00
222_V	230_V	0.876	1.00
56_L	233_L	0.874	1.00
116_L	120_M	0.873	1.00
199_D	203_S	0.873	1.00
172_I	177_I	0.872	1.00
68_V	72_T	0.868	1.00
208_G	211_Y	0.865	1.00
134_S	202_V	0.858	1.00
147_V	181_A	0.855	1.00
182_M	185_V	0.855	1.00
91_R	94_P	0.853	1.00
150_R	181_A	0.853	1.00
204_S	216_L	0.850	1.00
15_Y	19_Y	0.847	1.00
181_A	184_A	0.846	1.00
115_L	206_V	0.845	1.00
101_F	145_V	0.844	1.00
82_A	151_L	0.844	1.00
216_L	220_S	0.842	1.00
74_A	78_G	0.837	1.00
94_P	97_S	0.832	1.00
28_N	32_S	0.831	1.00
115_L	134_S	0.830	1.00
174_R	178_L	0.828	1.00
28_N	31_N	0.826	1.00
84_A	90_F	0.826	1.00
61_Q	64_L	0.826	1.00
120_M	125_Q	0.824	1.00
135_H	196_S	0.823	1.00
60_A	64_L	0.819	1.00
192_S	196_S	0.813	1.00
85_L	97_S	0.810	1.00
81_T	140_L	0.808	1.00
143_V	147_V	0.805	1.00
71_A	193_F	0.804	1.00
73_F	76_L	0.800	1.00
31_N	35_F	0.800	1.00
46_W	228_P	0.786	1.00
173_L	178_L	0.785	1.00
85_L	148_Y	0.783	1.00
74_A	143_V	0.780	1.00
248_S	251_I	0.780	1.00
243_V	247_A	0.772	1.00
78_G	147_V	0.770	1.00
242_L	246_I	0.770	1.00
82_A	144_V	0.768	1.00
29_S	33_S	0.767	1.00
241_S	245_V	0.766	1.00
74_A	139_C	0.766	1.00
69_F	136_I	0.765	1.00
139_C	192_S	0.765	1.00
50_L	236_I	0.764	1.00
66_M	135_H	0.763	1.00
28_N	231_N	0.762	1.00
169_E	173_L	0.752	1.00
158_M	176_I	0.749	1.00
30_F	42_F	0.745	1.00
46_W	49_L	0.744	1.00
111_M	137_T	0.733	1.00
32_S	41_G	0.731	1.00
77_I	140_L	0.726	1.00
218_I	233_L	0.726	1.00
85_L	96_V	0.724	1.00
21_P	25_L	0.724	1.00
112_A	201_V	0.721	1.00
53_N	57_L	0.721	1.00
42_F	45_K	0.717	1.00
48_S	51_M	0.716	1.00
173_L	177_I	0.713	1.00
74_A	196_S	0.708	1.00
77_I	136_I	0.707	1.00
108_D	201_V	0.707	1.00
67_A	71_A	0.707	1.00
185_V	188_G	0.703	1.00
131_L	135_H	0.702	1.00
59_A	62_H	0.697	1.00
57_L	60_A	0.694	1.00
161_A	165_L	0.692	1.00
177_I	180_L	0.690	1.00
130_S	134_S	0.688	1.00
43_T	47_Y	0.687	1.00
156_V	163_K	0.686	1.00
229_E	233_L	0.685	1.00
161_A	164_D	0.681	1.00
35_F	40_Q	0.678	1.00
44_T	47_Y	0.678	1.00
66_M	131_L	0.677	1.00
75_T	147_V	0.677	1.00
214_L	237_L	0.675	1.00
54_D	58_Q	0.673	1.00
20_I	23_I	0.672	1.00
124_I	127_G	0.669	1.00
14_I	18_L	0.666	1.00
184_A	188_G	0.662	1.00
112_A	205_F	0.661	1.00
139_C	195_L	0.661	1.00
227_S	231_N	0.657	1.00
59_A	214_L	0.657	1.00
31_N	39_W	0.655	1.00
25_L	234_A	0.654	1.00
25_L	231_N	0.654	1.00
66_M	132_L	0.654	1.00
84_A	88_Y	0.652	1.00
182_M	251_I	0.652	1.00
101_F	104_M	0.651	1.00
91_R	95_F	0.646	1.00
41_G	45_K	0.644	1.00
154_F	181_A	0.643	1.00
122_L	126_L	0.641	1.00
17_Y	21_P	0.641	1.00
16_A	20_I	0.636	1.00
21_P	28_N	0.636	1.00
199_D	213_I	0.635	1.00
97_S	145_V	0.634	1.00
15_Y	18_L	0.630	1.00
81_T	100_L	0.629	1.00
63_S	197_M	0.628	1.00
89_R	94_P	0.627	1.00
32_S	40_Q	0.627	1.00
90_F	94_P	0.626	1.00
30_F	43_T	0.622	1.00
49_L	226_V	0.622	1.00
100_L	141_P	0.621	1.00
115_L	118_L	0.621	1.00
90_F	96_V	0.617	1.00
28_N	33_S	0.616	1.00
63_S	215_P	0.615	1.00
54_D	57_L	0.615	1.00
215_P	237_L	0.614	1.00
201_V	204_S	0.614	1.00
207_T	212_E	0.613	1.00
117_V	120_M	0.613	1.00
33_S	39_W	0.611	1.00
9_G	12_T	0.610	1.00
209_P	212_E	0.606	1.00
10_F	14_I	0.604	1.00
185_V	189_W	0.603	1.00
83_V	177_I	0.603	1.00
66_M	70_S	0.596	1.00
147_V	151_L	0.594	1.00
109_I	205_F	0.590	1.00
231_N	235_T	0.589	1.00
94_P	98_G	0.588	1.00
186_A	189_W	0.587	1.00
50_L	233_L	0.586	1.00
174_R	177_I	0.586	1.00
55_S	212_E	0.584	1.00
189_W	192_S	0.583	1.00
82_A	148_Y	0.581	1.00
172_I	176_I	0.581	1.00
55_S	217_K	0.581	1.00
195_L	198_D	0.576	1.00
131_L	207_T	0.576	1.00
71_A	75_T	0.575	1.00
75_T	79_S	0.575	1.00
21_P	26_I	0.575	1.00
74_A	136_I	0.571	1.00
19_Y	23_I	0.570	1.00
92_G	96_V	0.570	1.00
67_A	197_M	0.570	1.00
11_M	15_Y	0.570	1.00
227_S	230_V	0.569	1.00
122_L	129_W	0.563	1.00
70_S	136_I	0.562	1.00
41_G	44_T	0.558	1.00
58_Q	65_T	0.557	1.00
97_S	152_K	0.556	1.00
47_Y	232_A	0.556	1.00
237_L	241_S	0.550	1.00
135_H	199_D	0.550	1.00
216_L	219_Y	0.549	1.00
77_I	80_L	0.549	1.00
62_H	211_Y	0.548	1.00
146_T	184_A	0.543	1.00
196_S	199_D	0.543	1.00
93_K	97_S	0.542	1.00
67_A	196_S	0.540	1.00
160_E	163_K	0.537	1.00
135_H	138_F	0.536	1.00
37_I	40_Q	0.536	1.00
104_M	141_P	0.535	1.00
87_R	177_I	0.535	1.00
234_A	237_L	0.535	1.00
188_G	192_S	0.535	1.00
203_S	207_T	0.533	1.00
126_L	208_G	0.532	1.00
76_L	79_S	0.532	1.00
66_M	128_F	0.530	1.00
228_P	231_N	0.530	1.00
138_F	202_V	0.529	1.00
8_G	11_M	0.529	1.00
50_L	229_E	0.528	1.00
29_S	235_T	0.527	1.00
71_A	196_S	0.527	1.00
112_A	116_L	0.525	1.00
81_T	84_A	0.524	1.00
98_G	102_V	0.524	1.00
83_V	87_R	0.524	1.00
108_D	112_A	0.522	1.00
245_V	249_Q	0.520	1.00
29_S	232_A	0.518	1.00
246_I	249_Q	0.518	1.00
177_I	181_A	0.518	1.00
88_Y	169_E	0.516	1.00
201_V	205_F	0.513	1.00
219_Y	223_K	0.511	1.00
194_T	198_D	0.506	1.00
122_L	127_G	0.505	1.00
104_M	142_F	0.504	1.00
99_M	103_V	0.504	1.00
25_L	29_S	0.503	1.00
72_T	75_T	0.502	1.00
97_S	144_V	0.502	1.00
203_S	216_L	0.500	1.00
168_S	174_R	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	0.9129	100	0.238	Contact Map
3d31C	2	0.8977	100	0.278	Contact Map
4tquM	1	0.9356	100	0.278	Contact Map
3rlfG	1	0.9848	100	0.321	Contact Map
4tquN	1	0.947	100	0.321	Contact Map
3rlfF	1	0.9167	100	0.333	Contact Map
4ymuD	2	0.8106	100	0.412	Contact Map
3tuiA	2	0.7841	99.9	0.463	Contact Map
2xq2A	2	0.7614	34.6	0.927	Contact Map
2a65A	2	0.8447	11.8	0.942	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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