SapC - PFAM28P - GREMLIN Contacts

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PFAM:	PF07277	Sequences: LNSERHADLRVRPGDGAAFAANVNAVPLTAAEFAAAAREYPIVFAKDAEGGEFVPVALLGLREGENLFVDEDGRWDARYVPAYVRRYPFLLAAGEDGDELVLCIDEDSPRVSEEEGEPLFDEDGEPSPYLKNILEFLEEFEAGLQRTRAFCAALAELDLLEPFELDITLDDGEPLRLTGFYTVDEEKLRALDDEALLELHRSGYLPLIYAHLASLGNFRRL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	221 (220)
Sequences:	6901 (5156)
Seq/√Len:	347.6
META:	0.864

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
161_E	184_D	3.381	1.00
193_D	197_L	3.068	1.00
28_L	36_A	3.056	1.00
196_L	200_H	2.965	1.00
152_A	156_E	2.790	1.00
33_F	55_P	2.775	1.00
192_D	195_A	2.749	1.00
121_D	125_E	2.467	1.00
157_L	195_A	2.331	1.00
158_D	187_K	2.283	1.00
128_P	132_N	2.267	1.00
186_E	190_A	2.253	1.00
8_D	113_E	2.167	1.00
53_F	181_Y	2.096	1.00
210_A	213_A	2.092	1.00
155_A	158_D	2.071	1.00
193_D	201_R	2.033	1.00
70_D	74_R	1.970	1.00
197_L	201_R	1.962	1.00
125_E	131_K	1.909	1.00
168_T	174_P	1.888	1.00
26_V	59_L	1.868	1.00
2_N	5_R	1.842	1.00
153_A	157_L	1.836	1.00
153_A	156_E	1.835	1.00
52_E	148_R	1.783	1.00
198_E	202_S	1.765	1.00
135_E	138_E	1.726	1.00
44_F	211_H	1.682	1.00
157_L	199_L	1.679	1.00
62_R	65_E	1.642	1.00
118_P	122_E	1.609	1.00
200_H	205_L	1.602	1.00
153_A	198_E	1.589	1.00
135_E	139_E	1.588	1.00
138_E	142_A	1.581	1.00
128_P	131_K	1.580	1.00
153_A	204_Y	1.573	1.00
31_A	143_G	1.570	1.00
12_R	115_E	1.554	1.00
10_R	118_P	1.552	1.00
199_L	204_Y	1.551	1.00
195_A	198_E	1.535	1.00
39_E	78_R	1.534	1.00
38_R	217_N	1.524	1.00
9_L	113_E	1.499	1.00
30_A	147_T	1.487	1.00
22_N	64_G	1.479	1.00
150_F	208_I	1.455	1.00
40_Y	68_F	1.436	1.00
154_L	208_I	1.423	1.00
196_L	205_L	1.365	1.00
193_D	196_L	1.355	1.00
197_L	200_H	1.354	1.00
150_F	154_L	1.351	1.00
36_A	79_Y	1.350	1.00
129_Y	133_I	1.347	1.00
131_K	135_E	1.343	1.00
33_F	42_I	1.342	1.00
3_S	125_E	1.340	1.00
126_P	131_K	1.336	1.00
217_N	220_R	1.326	1.00
5_R	106_E	1.305	1.00
183_V	208_I	1.304	1.00
28_L	57_A	1.300	1.00
211_H	215_L	1.290	1.00
43_V	180_F	1.275	1.00
145_Q	148_R	1.269	1.00
92_A	103_C	1.259	1.00
53_F	155_A	1.257	1.00
126_P	134_L	1.251	1.00
37_A	213_A	1.243	1.00
150_F	204_Y	1.243	1.00
102_L	134_L	1.239	1.00
55_P	151_C	1.238	1.00
13_P	117_E	1.227	1.00
26_V	84_V	1.222	1.00
45_A	56_V	1.222	1.00
82_A	136_F	1.217	1.00
10_R	115_E	1.215	1.00
52_E	152_A	1.202	1.00
166_D	174_P	1.200	1.00
28_L	42_I	1.197	1.00
11_V	129_Y	1.192	1.00
185_E	212_L	1.191	1.00
148_R	152_A	1.186	1.00
85_R	136_F	1.174	1.00
126_P	130_L	1.169	1.00
46_K	155_A	1.161	1.00
132_N	135_E	1.158	1.00
83_Y	140_F	1.155	1.00
185_E	206_P	1.148	1.00
153_A	202_S	1.146	1.00
100_L	141_E	1.140	1.00
44_F	160_L	1.136	1.00
155_A	181_Y	1.130	1.00
166_D	176_R	1.126	1.00
41_P	68_F	1.116	1.00
102_L	137_L	1.113	1.00
149_A	152_A	1.108	1.00
139_E	143_G	1.105	1.00
206_P	209_Y	1.105	1.00
26_V	83_Y	1.104	1.00
185_E	189_R	1.089	1.00
162_P	181_Y	1.089	1.00
60_G	67_L	1.088	1.00
30_A	207_L	1.073	1.00
58_L	218_F	1.073	1.00
29_T	147_T	1.068	1.00
163_F	182_T	1.063	1.00
193_D	200_H	1.059	1.00
161_E	182_T	1.052	1.00
62_R	173_E	1.051	1.00
156_E	198_E	1.044	1.00
141_E	145_Q	1.042	1.00
189_R	203_G	1.042	1.00
157_L	198_E	1.042	1.00
71_E	74_R	1.028	1.00
206_P	210_A	1.027	1.00
164_E	176_R	1.027	1.00
85_R	132_N	1.027	1.00
4_E	7_A	1.026	1.00
102_L	130_L	1.024	1.00
12_R	112_S	0.997	1.00
42_I	55_P	0.996	1.00
39_E	220_R	0.994	1.00
62_R	175_L	0.990	1.00
46_K	53_F	0.989	1.00
131_K	134_L	0.985	1.00
154_L	183_V	0.977	1.00
108_S	111_V	0.967	1.00
153_A	199_L	0.967	1.00
192_D	197_L	0.967	1.00
46_K	181_Y	0.963	1.00
187_K	190_A	0.961	1.00
143_G	146_R	0.960	1.00
10_R	116_G	0.957	1.00
8_D	118_P	0.952	1.00
38_R	216_G	0.949	1.00
86_R	136_F	0.947	1.00
142_A	146_R	0.942	1.00
200_H	209_Y	0.933	1.00
43_V	56_V	0.932	1.00
195_A	199_L	0.927	1.00
189_R	200_H	0.919	1.00
25_A	56_V	0.914	1.00
164_E	178_T	0.910	1.00
82_A	85_R	0.910	1.00
182_T	211_H	0.909	1.00
59_L	84_V	0.906	1.00
160_L	211_H	0.899	1.00
117_E	129_Y	0.892	1.00
184_D	187_K	0.892	1.00
121_D	127_S	0.891	1.00
104_I	119_L	0.890	1.00
9_L	104_I	0.888	1.00
89_F	133_I	0.886	1.00
141_E	144_L	0.883	1.00
134_L	138_E	0.880	1.00
23_V	84_V	0.880	1.00
147_T	151_C	0.877	1.00
10_R	114_E	0.877	1.00
112_S	115_E	0.872	1.00
69_V	73_G	0.871	1.00
70_D	76_D	0.868	1.00
20_A	69_V	0.855	1.00
152_A	155_A	0.851	1.00
91_L	102_L	0.842	1.00
83_Y	86_R	0.840	1.00
129_Y	132_N	0.836	1.00
156_E	195_A	0.836	1.00
139_E	142_A	0.835	1.00
59_L	75_W	0.828	1.00
209_Y	212_L	0.827	1.00
188_L	212_L	0.826	1.00
24_N	63_E	0.824	1.00
163_F	180_F	0.823	1.00
162_P	179_G	0.817	1.00
17_A	20_A	0.808	1.00
18_A	21_A	0.804	1.00
194_E	197_L	0.802	1.00
34_A	210_A	0.794	1.00
35_A	38_R	0.788	1.00
43_V	58_L	0.785	1.00
31_A	146_R	0.783	1.00
36_A	57_A	0.778	1.00
53_F	160_L	0.778	1.00
69_V	75_W	0.777	1.00
155_A	160_L	0.773	1.00
60_G	65_E	0.771	1.00
24_N	64_G	0.765	1.00
86_R	140_F	0.764	1.00
121_D	128_P	0.763	1.00
75_W	80_V	0.761	1.00
40_Y	57_A	0.759	1.00
11_V	111_V	0.752	1.00
34_A	185_E	0.744	1.00
3_S	7_A	0.741	1.00
36_A	42_I	0.734	0.99
198_E	201_R	0.732	0.99
79_Y	85_R	0.732	0.99
150_F	207_L	0.732	0.99
55_P	147_T	0.729	0.99
10_R	117_E	0.724	0.99
46_K	51_G	0.721	0.99
51_G	155_A	0.720	0.99
46_K	50_G	0.717	0.99
151_C	155_A	0.716	0.99
40_Y	77_A	0.716	0.99
154_L	158_D	0.712	0.99
91_L	137_L	0.712	0.99
146_R	149_A	0.710	0.99
186_E	189_R	0.710	0.99
36_A	39_E	0.710	0.99
43_V	218_F	0.709	0.99
39_E	77_A	0.708	0.99
208_I	211_H	0.705	0.99
145_Q	149_A	0.705	0.99
44_F	151_C	0.704	0.99
94_G	97_G	0.703	0.99
35_A	216_G	0.701	0.99
149_A	204_Y	0.698	0.99
188_L	208_I	0.692	0.99
95_E	98_D	0.690	0.99
199_L	208_I	0.690	0.99
44_F	55_P	0.690	0.99
142_A	145_Q	0.687	0.99
188_L	209_Y	0.684	0.99
9_L	111_V	0.680	0.99
196_L	209_Y	0.679	0.99
118_P	127_S	0.679	0.99
93_A	97_G	0.676	0.99
29_T	140_F	0.676	0.99
29_T	143_G	0.674	0.99
27_P	83_Y	0.674	0.99
94_G	99_E	0.669	0.99
204_Y	207_L	0.664	0.99
119_L	130_L	0.659	0.99
149_A	202_S	0.658	0.99
183_V	211_H	0.657	0.99
161_E	187_K	0.655	0.99
26_V	57_A	0.655	0.99
10_R	112_S	0.654	0.99
3_S	126_P	0.654	0.99
183_V	188_L	0.653	0.99
12_R	15_D	0.653	0.99
20_A	84_V	0.651	0.99
111_V	119_L	0.650	0.99
29_T	144_L	0.645	0.99
27_P	30_A	0.638	0.99
87_Y	105_D	0.635	0.99
208_I	212_L	0.634	0.99
60_G	66_N	0.634	0.99
104_I	111_V	0.633	0.99
205_L	209_Y	0.632	0.98
53_F	151_C	0.630	0.98
185_E	213_A	0.629	0.98
78_R	220_R	0.628	0.98
36_A	40_Y	0.618	0.98
30_A	150_F	0.617	0.98
43_V	163_F	0.617	0.98
79_Y	82_A	0.615	0.98
191_L	199_L	0.613	0.98
43_V	215_L	0.613	0.98
41_P	218_F	0.612	0.98
37_A	42_I	0.609	0.98
169_L	175_L	0.602	0.98
90_L	103_C	0.602	0.98
175_L	178_T	0.601	0.98
20_A	75_W	0.593	0.98
192_D	198_E	0.592	0.98
133_I	137_L	0.590	0.98
127_S	130_L	0.588	0.98
16_G	19_F	0.586	0.98
144_L	148_R	0.586	0.98
165_L	218_F	0.584	0.97
189_R	206_P	0.581	0.97
9_L	106_E	0.578	0.97
24_N	58_L	0.578	0.97
71_E	76_D	0.578	0.97
34_A	213_A	0.577	0.97
160_L	181_Y	0.575	0.97
91_L	100_L	0.573	0.97
2_N	7_A	0.573	0.97
153_A	195_A	0.573	0.97
188_L	205_L	0.571	0.97
185_E	216_G	0.570	0.97
10_R	119_L	0.569	0.97
188_L	200_H	0.569	0.97
35_A	219_R	0.568	0.97
93_A	98_D	0.564	0.97
130_L	137_L	0.564	0.97
169_L	172_G	0.563	0.97
133_I	136_F	0.562	0.97
161_E	186_E	0.554	0.97
199_L	202_S	0.551	0.96
3_S	124_G	0.550	0.96
40_Y	84_V	0.547	0.96
86_R	90_L	0.543	0.96
9_L	109_P	0.541	0.96
185_E	209_Y	0.540	0.96
45_A	54_V	0.536	0.96
31_A	139_E	0.534	0.96
34_A	38_R	0.534	0.96
40_Y	78_R	0.532	0.96
202_S	207_L	0.529	0.96
106_E	113_E	0.529	0.96
15_D	74_R	0.527	0.95
16_G	74_R	0.526	0.95
12_R	113_E	0.526	0.95
169_L	173_E	0.524	0.95
41_P	57_A	0.524	0.95
40_Y	80_V	0.523	0.95
183_V	212_L	0.521	0.95
169_L	174_P	0.520	0.95
94_G	98_D	0.518	0.95
61_L	167_I	0.517	0.95
143_G	147_T	0.515	0.95
5_R	9_L	0.514	0.95
39_E	68_F	0.513	0.95
52_E	155_A	0.510	0.95
164_E	174_P	0.509	0.95
189_R	196_L	0.508	0.94
22_N	65_E	0.507	0.94
25_A	58_L	0.507	0.94
121_D	131_K	0.506	0.94
34_A	216_G	0.504	0.94
168_T	172_G	0.502	0.94
85_R	133_I	0.502	0.94
20_A	59_L	0.500	0.94

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
3a04A	2	0.2443	21.3	0.949	Contact Map
3jxeA	2	0.276	16.4	0.951	Contact Map
3tzeA	2	0.19	12.5	0.954	Contact Map
3hv0A	2	0.1946	12.4	0.954	Contact Map
2nwtA	2	0.3077	9.9	0.956	Contact Map
3khyA	2	0.5158	9.5	0.956	Contact Map
4j76A	2	0.2081	9.4	0.956	Contact Map
3i05A	2	0.2036	7	0.959	Contact Map
3ayhA	1	0.4932	6.6	0.959	Contact Map
2ip1A	1	0.1765	6.3	0.96	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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