PLBAC - BACSU - GREMLIN Contacts

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PLBAC - Phospholipase YtpA

UniProt:	O34705	Sequences: MWTWKADRPVAVIVIIHGASEYHGRYKWLIEMWRSSGYHVVMGDLPGQGTTTRARGHIRSFQEYIDEVDAWIDKARTFDLPVFLLGHSMGGLVAIEWVKQQRNPRITGIILSSPCLGLQIKVNKALDLASKGLNVIAPSLKVDSGLSIDMATRNEDVIEADQNDSLYVRKVSVRWYRELLKTIESAMVPTEAFLKVPLLVMQAGDDKLVDKTMVIKWFNGVASHNKAYREWEGLYHEIFNEPEREDVFKAARAFTDQYI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	259 (239)
Sequences:	57233 (48146)
Seq/√Len:	3114.3

ECOLI - RUTD YBFF PLDB MHPC BIOH MENH YCJY YFHR YJFP YNBC FRSA DLHH YGHX
BACSU - PLBAC YBFK YUGF RSBQ YFHM NAP YDJP YISY YBAC YCGS EST YRAK MENH YVAM YBDG YQJL YCLE YQKD CAH YTMA YITV YTAP
HALSA - Q9HPT9 Q9HHP4 Q9HRJ0 Q9HPY2 Q9HP29
SULSO - PIP Q7LXY9 Q97WG0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
83_F	108_G	4.765	1.00
46_P	67_E	4.104	1.00
29_L	248_F	3.373	1.00
69_D	97_W	3.094	1.00
204_G	232_E	3.051	1.00
229_R	250_A	3.048	1.00
113_S	206_D	2.898	1.00
231_W	250_A	2.871	1.00
83_F	107_T	2.785	1.00
81_P	107_T	2.731	1.00
242_P	246_D	2.689	1.00
112_S	247_V	2.556	1.00
204_G	230_E	2.272	1.00
97_W	101_Q	2.206	1.00
69_D	101_Q	2.201	1.00
218_F	226_K	2.190	1.00
69_D	73_D	2.174	1.00
72_I	82_V	2.120	1.00
69_D	105_R	2.089	1.00
32_M	248_F	2.083	1.00
84_L	94_A	2.067	1.00
91_G	114_P	1.998	1.00
11_A	83_F	1.968	1.00
73_D	105_R	1.964	1.00
12_V	39_H	1.957	1.00
12_V	41_V	1.951	1.00
37_G	252_R	1.902	1.00
234_L	242_P	1.891	1.00
96_E	100_Q	1.857	1.00
98_V	109_I	1.848	1.00
211_K	230_E	1.845	1.00
11_A	107_T	1.805	1.00
17_H	45_L	1.732	1.00
216_K	220_G	1.708	1.00
83_F	255_T	1.704	1.00
198_L	221_V	1.689	1.00
16_I	45_L	1.686	1.00
21_E	25_R	1.682	1.00
43_G	68_V	1.681	1.00
12_V	77_T	1.677	1.00
83_F	110_I	1.675	1.00
45_L	93_V	1.661	1.00
199_L	229_R	1.658	1.00
250_A	253_A	1.655	1.00
38_Y	83_F	1.654	1.00
16_I	68_V	1.648	1.00
68_V	97_W	1.627	1.00
65_I	96_E	1.612	1.00
17_H	48_Q	1.584	1.00
94_A	109_I	1.578	1.00
101_Q	104_P	1.510	1.00
32_M	252_R	1.508	1.00
66_D	100_Q	1.493	1.00
97_W	106_I	1.473	1.00
23_H	50_T	1.473	1.00
111_L	114_P	1.465	1.00
246_D	250_A	1.448	1.00
62_Q	100_Q	1.445	1.00
101_Q	105_R	1.422	1.00
87_H	239_F	1.396	1.00
96_E	99_K	1.387	1.00
23_H	44_D	1.372	1.00
95_I	111_L	1.366	1.00
41_V	71_W	1.364	1.00
202_Q	214_V	1.352	1.00
30_I	42_M	1.351	1.00
199_L	254_F	1.348	1.00
15_I	85_L	1.346	1.00
97_W	105_R	1.345	1.00
249_K	253_A	1.341	1.00
73_D	101_Q	1.333	1.00
110_I	251_A	1.332	1.00
60_S	63_E	1.332	1.00
20_S	48_Q	1.320	1.00
23_H	42_M	1.293	1.00
85_L	112_S	1.273	1.00
32_M	35_S	1.272	1.00
11_A	38_Y	1.271	1.00
71_W	75_A	1.268	1.00
246_D	249_K	1.233	1.00
110_I	199_L	1.225	1.00
16_I	94_A	1.224	1.00
231_W	234_L	1.206	1.00
15_I	40_V	1.203	1.00
11_A	81_P	1.185	1.00
13_I	38_Y	1.175	1.00
18_G	88_S	1.165	1.00
77_T	82_V	1.164	1.00
20_S	88_S	1.160	1.00
202_Q	230_E	1.140	1.00
138_P	141_K	1.135	1.00
218_F	228_Y	1.126	1.00
211_K	215_I	1.120	1.00
215_I	219_N	1.113	1.00
202_Q	228_Y	1.103	1.00
227_A	250_A	1.068	1.00
14_V	72_I	1.065	1.00
82_V	106_I	1.050	1.00
221_V	226_K	1.049	1.00
140_L	143_D	1.049	1.00
44_D	49_G	1.048	1.00
201_M	231_W	1.044	1.00
41_V	75_A	1.034	1.00
32_M	245_E	1.033	1.00
88_S	236_H	1.028	1.00
43_G	71_W	1.021	1.00
77_T	81_P	1.019	1.00
85_L	251_A	1.018	1.00
34_R	37_G	1.016	1.00
154_N	157_V	1.010	1.00
108_G	197_P	1.006	1.00
169_R	172_S	0.993	1.00
87_H	237_E	0.990	1.00
25_R	239_F	0.989	1.00
199_L	227_A	0.986	1.00
235_Y	241_E	0.985	1.00
216_K	219_N	0.981	1.00
16_I	84_L	0.980	1.00
112_S	239_F	0.977	1.00
124_K	128_L	0.976	1.00
202_Q	211_K	0.972	1.00
86_G	94_A	0.965	1.00
126_L	130_S	0.964	1.00
45_L	89_M	0.960	1.00
234_L	241_E	0.958	1.00
160_A	164_D	0.957	1.00
69_D	100_Q	0.952	1.00
231_W	246_D	0.949	1.00
112_S	238_I	0.946	1.00
7_D	10_V	0.943	1.00
247_V	251_A	0.943	1.00
34_R	40_V	0.935	1.00
215_I	228_Y	0.933	1.00
14_V	82_V	0.933	1.00
10_V	39_H	0.932	1.00
72_I	97_W	0.931	1.00
174_R	178_E	0.931	1.00
215_I	230_E	0.929	1.00
176_Y	180_L	0.924	1.00
65_I	93_V	0.916	1.00
27_K	42_M	0.912	1.00
38_Y	255_T	0.911	1.00
229_R	246_D	0.906	1.00
72_I	77_T	0.904	1.00
192_A	220_G	0.902	1.00
28_W	31_E	0.899	1.00
245_E	249_K	0.899	1.00
201_M	250_A	0.882	1.00
62_Q	96_E	0.881	1.00
82_V	105_R	0.881	1.00
215_I	218_F	0.877	1.00
173_V	176_Y	0.876	1.00
76_R	80_L	0.869	1.00
229_R	253_A	0.867	1.00
222_A	225_N	0.866	1.00
159_E	163_N	0.864	1.00
172_S	175_W	0.864	1.00
168_V	172_S	0.858	1.00
178_E	181_K	0.854	1.00
200_V	226_K	0.849	1.00
179_L	182_T	0.837	1.00
16_I	43_G	0.835	1.00
30_I	40_V	0.833	1.00
31_E	34_R	0.828	1.00
64_Y	89_M	0.827	1.00
159_E	162_Q	0.826	1.00
204_G	233_G	0.823	1.00
98_V	106_I	0.820	1.00
13_I	85_L	0.819	1.00
19_A	89_M	0.805	1.00
109_I	198_L	0.804	1.00
70_A	74_K	0.803	1.00
8_R	39_H	0.802	1.00
127_D	131_K	0.800	1.00
182_T	185_S	0.798	1.00
171_V	175_W	0.795	1.00
23_H	43_G	0.793	1.00
12_V	82_V	0.787	1.00
201_M	247_V	0.784	1.00
15_I	26_Y	0.782	1.00
113_S	238_I	0.780	1.00
137_A	141_K	0.780	1.00
234_L	238_I	0.780	1.00
13_I	40_V	0.779	1.00
11_A	108_G	0.779	1.00
214_V	228_Y	0.779	1.00
113_S	203_A	0.778	1.00
172_S	176_Y	0.776	1.00
213_M	216_K	0.772	1.00
70_A	73_D	0.771	1.00
174_R	177_R	0.765	1.00
176_Y	179_L	0.760	1.00
65_I	100_Q	0.758	1.00
155_E	158_I	0.755	1.00
138_P	142_V	0.753	1.00
27_K	31_E	0.753	1.00
179_L	183_I	0.752	1.00
125_A	129_A	0.752	1.00
85_L	110_I	0.751	1.00
87_H	113_S	0.751	1.00
183_I	186_A	0.750	1.00
44_D	50_T	0.749	1.00
45_L	64_Y	0.745	1.00
63_E	66_D	0.745	1.00
133_L	137_A	0.745	1.00
169_R	176_Y	0.740	1.00
175_W	179_L	0.736	1.00
86_G	91_G	0.735	1.00
160_A	163_N	0.733	1.00
69_D	72_I	0.730	1.00
248_F	252_R	0.730	1.00
158_I	161_D	0.729	1.00
92_L	115_C	0.729	1.00
139_S	143_D	0.727	1.00
12_V	38_Y	0.727	1.00
156_D	159_E	0.723	1.00
137_A	140_L	0.722	1.00
108_G	255_T	0.722	1.00
244_R	248_F	0.711	1.00
24_G	27_K	0.711	1.00
231_W	242_P	0.710	1.00
157_V	160_A	0.709	1.00
110_I	255_T	0.707	1.00
84_L	106_I	0.706	1.00
124_K	127_D	0.704	1.00
156_D	160_A	0.701	1.00
161_D	165_S	0.701	1.00
95_I	116_L	0.700	1.00
170_K	174_R	0.700	1.00
221_V	225_N	0.700	1.00
169_R	173_V	0.700	1.00
134_N	138_P	0.700	1.00
173_V	177_R	0.699	1.00
135_V	139_S	0.697	1.00
178_E	182_T	0.697	1.00
99_K	193_F	0.695	1.00
113_S	202_Q	0.694	1.00
14_V	84_L	0.694	1.00
30_I	34_R	0.694	1.00
162_Q	165_S	0.694	1.00
127_D	130_S	0.679	1.00
180_L	183_I	0.677	1.00
14_V	68_V	0.676	1.00
66_D	69_D	0.676	1.00
58_I	63_E	0.672	1.00
31_E	35_S	0.671	1.00
190_T	193_F	0.671	1.00
98_V	196_V	0.670	1.00
204_G	211_K	0.665	1.00
182_T	186_A	0.663	1.00
151_A	154_N	0.662	1.00
175_W	180_L	0.661	1.00
46_P	64_Y	0.660	1.00
45_L	48_Q	0.660	1.00
162_Q	166_L	0.658	1.00
106_I	196_V	0.658	1.00
205_D	233_G	0.655	1.00
38_Y	252_R	0.653	1.00
66_D	70_A	0.653	1.00
84_L	97_W	0.652	1.00
37_G	40_V	0.650	1.00
161_D	166_L	0.650	1.00
9_P	39_H	0.647	1.00
77_T	80_L	0.647	1.00
135_V	138_P	0.644	1.00
108_G	254_F	0.644	1.00
181_K	185_S	0.644	1.00
177_R	181_K	0.642	1.00
82_V	107_T	0.640	1.00
212_T	215_I	0.637	1.00
161_D	164_D	0.631	1.00
123_N	127_D	0.630	1.00
183_I	187_M	0.629	1.00
233_G	242_P	0.627	1.00
87_H	112_S	0.621	1.00
128_L	131_K	0.619	1.00
39_H	77_T	0.619	1.00
126_L	129_A	0.619	1.00
163_N	166_L	0.617	1.00
175_W	178_E	0.617	1.00
29_L	32_M	0.614	1.00
17_H	43_G	0.606	1.00
155_E	159_E	0.606	1.00
33_W	251_A	0.605	1.00
170_K	173_V	0.604	1.00
242_P	245_E	0.602	1.00
167_Y	172_S	0.598	1.00
132_G	136_I	0.594	1.00
150_M	153_R	0.593	1.00
13_I	83_F	0.593	1.00
65_I	97_W	0.591	1.00
111_L	200_V	0.589	1.00
123_N	126_L	0.587	1.00
171_V	176_Y	0.587	1.00
136_I	140_L	0.587	1.00
148_I	151_A	0.587	1.00
181_K	184_E	0.585	1.00
35_S	252_R	0.584	1.00
62_Q	66_D	0.584	1.00
41_V	77_T	0.583	1.00
76_R	81_P	0.582	1.00
158_I	164_D	0.582	1.00
86_G	90_G	0.577	1.00
133_L	138_P	0.577	1.00
249_K	252_R	0.576	1.00
167_Y	170_K	0.576	1.00
132_G	135_V	0.575	1.00
203_A	238_I	0.573	1.00
171_V	179_L	0.573	1.00
171_V	174_R	0.570	1.00
21_E	240_N	0.570	1.00
158_I	162_Q	0.569	1.00
160_A	165_S	0.568	1.00
172_S	183_I	0.567	1.00
154_N	158_I	0.561	1.00
13_I	255_T	0.559	1.00
200_V	228_Y	0.554	1.00
200_V	214_V	0.552	1.00
194_L	221_V	0.551	1.00
139_S	142_V	0.550	1.00
28_W	244_R	0.550	1.00
160_A	166_L	0.549	1.00
65_I	69_D	0.548	1.00
125_A	128_L	0.545	1.00
25_R	87_H	0.544	1.00
20_S	89_M	0.543	1.00
222_A	226_K	0.542	1.00
238_I	247_V	0.541	1.00
13_I	33_W	0.540	1.00
122_V	126_L	0.539	1.00
80_L	105_R	0.539	1.00
128_L	132_G	0.538	1.00
168_V	171_V	0.538	1.00
14_V	43_G	0.536	1.00
95_I	114_P	0.533	1.00
71_W	74_K	0.531	1.00
10_V	38_Y	0.526	1.00
72_I	105_R	0.524	1.00
167_Y	175_W	0.523	1.00
133_L	140_L	0.520	1.00
239_F	247_V	0.519	1.00
135_V	140_L	0.514	1.00
44_D	51_T	0.514	1.00
158_I	163_N	0.514	1.00
237_E	240_N	0.513	1.00
137_A	142_V	0.512	1.00
19_A	48_Q	0.509	1.00
194_L	198_L	0.507	1.00
18_G	87_H	0.504	1.00
64_Y	93_V	0.504	1.00
7_D	39_H	0.503	1.00
26_Y	30_I	0.503	1.00
201_M	229_R	0.503	1.00
136_I	143_D	0.503	1.00
154_N	160_A	0.501	1.00
157_V	162_Q	0.501	1.00
195_K	222_A	0.500	1.00
159_E	165_S	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
4ns4A	1	0.9151	100	0.166	Contact Map
3bf7A	1	0.9498	100	0.172	Contact Map
4inzA	1	0.9459	100	0.175	Contact Map
4opmA	2	0.9691	100	0.177	Contact Map
2xmzA	1	0.9653	100	0.179	Contact Map
3om8A	4	0.9382	100	0.18	Contact Map
1womA	1	0.9614	100	0.181	Contact Map
3v48A	2	0.9614	100	0.183	Contact Map
4psuA	1	0.9498	100	0.184	Contact Map
3oosA	1	0.9421	100	0.184	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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