DUF932 - PFAM28P - GREMLIN Contacts

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DUF932 - Domain of unknown function (DUF932)

PFAM:	PF06067	Sequences: PLGVVSDRYKPVQNEEVFEFLDDLLGAGGFEYETAGSLRGGRRVFALARLPDEIEVKGGDEVEPYLLLTNSHDGSSALTVAFTPIRVVCSNTLVAADGSAGSVKIRHTGNFDERLEEAKEALGLALEYFDEFEEQAERLASTKLTDEEAEEFAKKLLPLPKEEEKKQKKRAREALLELFEAGEDRGNDLAGAGGTAWGAYNAVTEYLDHGRGTRSVDDQDVKRNRSLW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	228 (213)
Sequences:	12746 (9559)
Seq/√Len:	655.0
META:	0.938

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
71_S	76_S	2.961	1.00
36_G	45_F	2.757	1.00
77_A	104_K	2.556	1.00
71_S	75_S	2.426	1.00
88_V	92_T	2.410	1.00
90_S	94_V	2.365	1.00
39_R	42_R	2.325	1.00
132_F	136_A	2.273	1.00
142_T	196_A	2.239	1.00
49_R	63_E	2.197	1.00
14_N	72_H	2.155	1.00
149_A	199_A	2.135	1.00
145_T	148_E	2.098	1.00
133_E	137_E	2.073	1.00
139_L	196_A	2.063	1.00
70_N	78_L	2.017	1.00
175_L	179_F	2.014	1.00
16_E	19_E	1.940	1.00
14_N	70_N	1.885	1.00
136_A	197_W	1.876	1.00
87_V	92_T	1.875	1.00
79_T	104_K	1.857	1.00
148_E	151_E	1.838	1.00
55_E	61_E	1.824	1.00
149_A	153_A	1.796	1.00
131_E	134_E	1.768	1.00
117_E	120_E	1.749	1.00
12_V	111_F	1.730	1.00
204_T	208_D	1.721	1.00
69_T	79_T	1.676	1.00
9_Y	71_S	1.674	1.00
188_D	198_G	1.671	1.00
144_L	199_A	1.669	1.00
62_V	84_P	1.646	1.00
39_R	43_R	1.644	1.00
55_E	59_G	1.621	1.00
47_L	67_L	1.567	1.00
60_D	86_R	1.564	1.00
12_V	78_L	1.555	1.00
69_T	76_S	1.541	1.00
22_D	26_G	1.536	1.00
19_E	22_D	1.513	1.00
174_A	178_L	1.505	1.00
195_T	198_G	1.504	1.00
205_E	210_G	1.497	1.00
13_Q	16_E	1.485	1.00
176_L	180_E	1.476	1.00
64_P	129_F	1.448	1.00
86_R	201_N	1.441	1.00
174_A	177_E	1.436	1.00
33_E	49_R	1.420	1.00
81_A	102_S	1.418	1.00
152_F	199_A	1.410	1.00
50_L	53_E	1.409	1.00
68_L	80_V	1.407	1.00
135_Q	138_R	1.404	1.00
138_R	142_T	1.403	1.00
138_R	141_S	1.395	1.00
79_T	102_S	1.388	1.00
151_E	155_K	1.377	1.00
116_E	119_K	1.374	1.00
150_E	154_K	1.365	1.00
92_T	96_A	1.363	1.00
93_L	200_Y	1.350	1.00
184_D	188_D	1.338	1.00
67_L	83_T	1.337	1.00
87_V	96_A	1.317	1.00
42_R	73_D	1.302	1.00
146_D	150_E	1.297	1.00
97_D	100_A	1.291	1.00
81_A	96_A	1.283	1.00
149_A	202_A	1.278	1.00
32_Y	35_A	1.278	1.00
39_R	90_S	1.278	1.00
184_D	187_N	1.275	1.00
192_A	198_G	1.270	1.00
62_V	197_W	1.266	1.00
67_L	87_V	1.263	1.00
16_E	112_D	1.262	1.00
110_N	113_E	1.249	1.00
49_R	65_Y	1.242	1.00
43_R	76_S	1.229	1.00
18_F	46_A	1.228	1.00
194_G	198_G	1.227	1.00
5_V	74_G	1.219	1.00
64_P	84_P	1.217	1.00
21_L	48_A	1.214	1.00
144_L	196_A	1.207	1.00
10_K	109_G	1.204	1.00
63_E	87_V	1.198	1.00
165_K	168_K	1.196	1.00
134_E	137_E	1.189	1.00
65_Y	83_T	1.184	1.00
77_A	106_R	1.182	1.00
105_I	111_F	1.182	1.00
78_L	111_F	1.174	1.00
134_E	138_R	1.171	1.00
185_R	188_D	1.167	1.00
130_D	134_E	1.163	1.00
172_R	176_L	1.158	1.00
188_D	191_G	1.147	1.00
131_E	135_Q	1.145	1.00
142_T	148_E	1.144	1.00
185_R	205_E	1.144	1.00
137_E	140_A	1.127	1.00
137_E	141_S	1.113	1.00
15_E	19_E	1.110	1.00
54_I	133_E	1.104	1.00
87_V	93_L	1.099	1.00
69_T	81_A	1.099	1.00
83_T	96_A	1.077	1.00
174_A	210_G	1.076	1.00
188_D	193_G	1.076	1.00
164_E	167_Q	1.074	1.00
205_E	208_D	1.067	1.00
193_G	198_G	1.060	1.00
173_E	176_L	1.058	1.00
170_R	173_E	1.054	1.00
166_K	169_K	1.040	1.00
150_E	176_L	1.038	1.00
67_L	81_A	1.029	1.00
151_E	154_K	1.016	1.00
53_E	63_E	1.008	1.00
172_R	178_L	1.002	1.00
189_L	192_A	1.002	1.00
31_E	51_P	0.999	1.00
147_E	151_E	0.995	1.00
186_G	198_G	0.980	1.00
13_Q	72_H	0.973	1.00
153_A	202_A	0.962	1.00
128_Y	131_E	0.960	1.00
147_E	150_E	0.959	1.00
159_L	162_E	0.944	1.00
184_D	189_L	0.942	1.00
197_W	201_N	0.940	1.00
14_N	44_V	0.928	1.00
153_A	199_A	0.927	1.00
187_N	198_G	0.925	1.00
47_L	65_Y	0.925	1.00
135_Q	139_L	0.920	1.00
186_G	189_L	0.912	1.00
76_S	79_T	0.911	1.00
43_R	73_D	0.909	1.00
62_V	140_A	0.907	1.00
203_V	207_L	0.906	1.00
112_D	116_E	0.901	1.00
35_A	38_L	0.898	1.00
179_F	202_A	0.891	1.00
85_I	90_S	0.890	1.00
88_V	93_L	0.884	1.00
9_Y	72_H	0.880	1.00
127_E	130_D	0.877	1.00
171_A	175_L	0.877	1.00
196_A	199_A	0.877	1.00
41_G	44_V	0.874	1.00
23_D	26_G	0.870	1.00
199_A	202_A	0.865	1.00
144_L	149_A	0.861	1.00
185_R	189_L	0.861	1.00
114_R	117_E	0.856	1.00
37_S	44_V	0.854	1.00
152_F	203_V	0.854	1.00
73_D	76_S	0.851	1.00
64_P	82_F	0.850	1.00
170_R	174_A	0.848	1.00
57_K	137_E	0.847	1.00
85_I	92_T	0.846	1.00
171_A	179_F	0.845	1.00
139_L	200_Y	0.844	1.00
10_K	112_D	0.841	1.00
124_L	127_E	0.835	1.00
116_E	120_E	0.829	1.00
155_K	158_P	0.826	1.00
97_D	101_G	0.825	1.00
84_P	129_F	0.823	1.00
173_E	177_E	0.821	1.00
174_A	179_F	0.818	1.00
34_T	37_S	0.811	1.00
11_P	72_H	0.806	1.00
146_D	180_E	0.798	1.00
163_E	167_Q	0.795	1.00
130_D	133_E	0.792	1.00
171_A	174_A	0.779	1.00
45_F	48_A	0.774	1.00
165_K	169_K	0.774	1.00
2_L	5_V	0.770	1.00
205_E	209_H	0.769	1.00
35_A	39_R	0.769	1.00
57_K	140_A	0.769	1.00
164_E	168_K	0.767	1.00
153_A	175_L	0.762	1.00
206_Y	211_R	0.760	1.00
172_R	175_L	0.758	1.00
120_E	123_G	0.757	1.00
152_F	196_A	0.756	1.00
144_L	148_E	0.753	1.00
53_E	61_E	0.748	1.00
113_E	116_E	0.748	1.00
85_I	95_A	0.742	1.00
55_E	58_G	0.740	1.00
44_V	70_N	0.731	1.00
171_A	178_L	0.727	1.00
154_K	158_P	0.727	1.00
163_E	166_K	0.727	1.00
10_K	111_F	0.723	1.00
32_Y	38_L	0.721	1.00
68_L	78_L	0.718	1.00
21_L	68_L	0.716	1.00
202_A	206_Y	0.715	1.00
170_R	178_L	0.714	1.00
171_A	177_E	0.709	1.00
27_A	30_F	0.701	1.00
32_Y	46_A	0.697	1.00
144_L	152_F	0.695	1.00
175_L	178_L	0.683	1.00
65_Y	85_I	0.681	1.00
38_L	41_G	0.681	1.00
178_L	205_E	0.680	1.00
136_A	140_A	0.680	1.00
35_A	46_A	0.673	1.00
177_E	180_E	0.666	1.00
34_T	92_T	0.663	1.00
157_L	161_K	0.662	1.00
28_G	31_E	0.660	1.00
36_G	40_G	0.660	1.00
17_V	78_L	0.659	1.00
87_V	90_S	0.659	1.00
110_N	114_R	0.659	1.00
187_N	192_A	0.658	1.00
146_D	194_G	0.654	1.00
17_V	68_L	0.646	1.00
33_E	38_L	0.643	1.00
31_E	49_R	0.642	1.00
3_G	74_G	0.640	1.00
173_E	178_L	0.638	1.00
146_D	149_A	0.635	1.00
199_A	203_V	0.633	1.00
23_D	119_K	0.631	1.00
82_F	125_A	0.629	1.00
78_L	115_L	0.622	1.00
41_G	48_A	0.614	1.00
81_A	99_S	0.611	1.00
201_N	204_T	0.608	1.00
17_V	70_N	0.608	1.00
10_K	110_N	0.608	1.00
124_L	128_Y	0.607	1.00
48_A	68_L	0.604	1.00
49_R	52_D	0.604	1.00
149_A	179_F	0.602	1.00
34_T	38_L	0.600	1.00
42_R	75_S	0.598	1.00
65_Y	92_T	0.591	1.00
84_P	136_A	0.590	1.00
103_V	118_A	0.589	1.00
33_E	65_Y	0.586	1.00
132_F	135_Q	0.582	1.00
86_R	197_W	0.581	1.00
160_P	163_E	0.580	1.00
37_S	40_G	0.579	1.00
173_E	179_F	0.577	1.00
19_E	23_D	0.576	1.00
88_V	96_A	0.576	1.00
80_V	103_V	0.575	1.00
33_E	37_S	0.573	1.00
189_L	198_G	0.573	1.00
159_L	163_E	0.572	1.00
120_E	124_L	0.572	1.00
143_K	194_G	0.571	1.00
121_A	125_A	0.570	1.00
127_E	131_E	0.570	1.00
198_G	202_A	0.570	1.00
33_E	36_G	0.569	1.00
37_S	42_R	0.569	1.00
143_K	146_D	0.568	1.00
6_S	108_T	0.567	1.00
186_G	191_G	0.566	1.00
111_F	114_R	0.564	1.00
200_Y	204_T	0.561	1.00
14_N	78_L	0.561	1.00
154_K	159_L	0.560	1.00
83_T	87_V	0.559	1.00
172_R	177_E	0.558	1.00
126_L	130_D	0.557	1.00
92_T	95_A	0.555	1.00
83_T	92_T	0.553	1.00
178_L	210_G	0.552	1.00
108_T	111_F	0.549	1.00
14_N	17_V	0.549	1.00
170_R	177_E	0.547	1.00
12_V	17_V	0.546	1.00
86_R	192_A	0.546	1.00
172_R	179_F	0.546	1.00
206_Y	210_G	0.545	1.00
177_E	183_E	0.543	1.00
174_A	180_E	0.542	1.00
22_D	32_Y	0.538	1.00
55_E	137_E	0.538	1.00
213_T	217_D	0.533	1.00
21_L	25_L	0.533	1.00
136_A	139_L	0.530	0.99
133_E	136_A	0.528	0.99
88_V	94_V	0.521	0.99
173_E	180_E	0.521	0.99
183_E	187_N	0.521	0.99
118_A	121_A	0.517	0.99
125_A	129_F	0.516	0.99
91_N	201_N	0.516	0.99
123_G	127_E	0.515	0.99
85_I	96_A	0.514	0.99
33_E	47_L	0.514	0.99
43_R	46_A	0.513	0.99
21_L	24_L	0.513	0.99
21_L	32_Y	0.513	0.99
8_R	108_T	0.510	0.99
67_L	93_L	0.509	0.99
43_R	71_S	0.508	0.99
17_V	21_L	0.504	0.99
66_L	80_V	0.503	0.99
38_L	92_T	0.500	0.99
161_K	167_Q	0.500	0.99

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
2l76A	1	0.3026	10.3	0.941	Contact Map
3goeA	1	0.2851	9.7	0.941	Contact Map
2ekeC	1	0.2939	6.7	0.945	Contact Map
4mgeA	3	0.1491	5.9	0.947	Contact Map
4pdbA	1	0.4737	5.6	0.948	Contact Map
3kydD	1	0.3026	5.4	0.948	Contact Map
4bkgA	1	0	5.3	0.948	Contact Map
3bbnH	1	0.4912	5.2	0.948	Contact Map
4npnA	4	0.2807	4.9	0.949	Contact Map
1seiA	2	0.4693	4.8	0.949	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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