CDC50 - PFAM28P - GREMLIN Contacts

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CDC50 - LEM3 (ligand-effect modulator 3) family / CDC50 family

PFAM:	PF03381	Sequences: LYASNSVVEIVIDYTDCCNSTNCTCTITFTIPEDMKGPVYVYYQLTNFYQNHRRYVKSRDDDQLRGKAVSASDLSDCDPLATNGDNGNGKPIYPCGLIANSLFNDTFSLSYLNNNSGSKNVPLNKKGIAWKSDKEVKFKNPGTVPPPNWQKRYPYTEIPNLSENEDFIVWMRTAALPTFRKLYGRIDTDDLPAGTYTVTITNNYPVTSFGGTKSIVLSTTSWLGGKNPFLGIAYIVVGGLCLLLGIVFLIIHLIKPRKLG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	260 (254)
Sequences:	1297 (933)
Seq/√Len:	58.5
META:	0.221

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
125_K	166_D	5.719	1.00
46_T	212_T	4.598	1.00
166_D	184_G	4.299	1.00
37_G	190_D	3.874	1.00
34_D	192_P	3.415	1.00
129_A	134_K	3.145	1.00
198_V	215_I	3.101	1.00
11_V	44_Q	2.812	1.00
28_T	197_T	2.792	1.00
133_D	172_R	2.460	1.00
42_Y	182_L	2.428	1.00
60_D	69_V	2.407	1.00
34_D	193_A	2.390	1.00
45_L	48_F	2.379	1.00
31_I	35_M	2.321	1.00
123_L	184_G	2.301	1.00
206_V	209_F	2.283	1.00
45_L	204_Y	2.216	1.00
48_F	204_Y	2.209	1.00
55_Y	98_I	2.160	1.00
128_I	165_E	2.156	1.00
12_I	29_F	2.151	1.00
26_T	199_T	2.123	1.00
166_D	183_Y	2.092	1.00
30_T	195_T	2.067	1.00
160_N	163_E	2.006	1.00
41_V	107_F	1.970	1.00
40_Y	185_R	1.967	1.00
250_I	254_I	1.951	1.00
149_W	196_Y	1.941	1.00
126_K	165_E	1.938	1.00
110_S	191_L	1.936	1.00
124_N	127_G	1.905	1.00
229_F	234_Y	1.901	1.00
127_G	165_E	1.899	1.00
26_T	197_T	1.888	1.00
62_D	67_K	1.881	1.00
50_Q	174_A	1.792	0.99
8_V	33_E	1.736	0.99
104_N	203_N	1.735	0.99
249_L	253_L	1.731	0.99
138_F	168_I	1.706	0.99
13_D	212_T	1.702	0.99
140_N	162_S	1.692	0.99
56_V	173_T	1.692	0.99
80_L	97_L	1.686	0.99
232_I	236_V	1.677	0.99
174_A	179_F	1.675	0.99
35_M	39_V	1.671	0.99
107_F	183_Y	1.667	0.99
8_V	35_M	1.652	0.99
77_C	95_C	1.652	0.99
12_I	27_I	1.623	0.99
106_T	205_P	1.600	0.99
2_Y	6_S	1.549	0.98
129_A	165_E	1.534	0.98
84_G	89_G	1.523	0.98
13_D	17_C	1.507	0.98
204_Y	209_F	1.502	0.98
3_A	6_S	1.498	0.98
49_Y	177_P	1.491	0.98
24_T	201_T	1.491	0.98
41_V	184_G	1.481	0.98
51_N	55_Y	1.480	0.98
18_C	202_N	1.454	0.97
104_N	205_P	1.448	0.97
134_K	168_I	1.445	0.97
80_L	100_N	1.445	0.97
36_K	190_D	1.396	0.97
112_L	115_N	1.391	0.97
44_Q	216_V	1.373	0.96
41_V	198_V	1.371	0.96
55_Y	101_S	1.368	0.96
130_W	172_R	1.365	0.96
71_A	91_P	1.346	0.96
35_M	219_T	1.345	0.96
44_Q	180_R	1.331	0.96
152_R	155_Y	1.327	0.96
124_N	187_D	1.316	0.95
102_L	164_N	1.313	0.95
126_K	185_R	1.297	0.95
93_Y	162_S	1.296	0.95
10_I	31_I	1.274	0.95
78_D	81_A	1.272	0.94
206_V	211_G	1.261	0.94
107_F	198_V	1.254	0.94
92_I	184_G	1.248	0.94
161_L	164_N	1.230	0.93
30_T	193_A	1.219	0.93
152_R	164_N	1.211	0.93
83_N	92_I	1.208	0.93
125_K	184_G	1.204	0.93
140_N	161_L	1.199	0.93
38_P	186_I	1.196	0.92
69_V	73_D	1.196	0.92
128_I	169_V	1.194	0.92
47_N	179_F	1.190	0.92
41_V	123_L	1.184	0.92
92_I	162_S	1.173	0.92
34_D	190_D	1.169	0.92
23_C	202_N	1.166	0.91
167_F	171_M	1.155	0.91
50_Q	216_V	1.154	0.91
24_T	199_T	1.146	0.91
58_S	79_P	1.133	0.90
162_S	167_F	1.133	0.90
102_L	167_F	1.132	0.90
46_T	178_T	1.127	0.90
232_I	239_G	1.113	0.89
230_L	234_Y	1.104	0.89
29_F	194_G	1.101	0.89
241_C	248_F	1.073	0.88
169_V	172_R	1.069	0.87
9_E	180_R	1.058	0.87
237_V	248_F	1.051	0.87
10_I	29_F	1.027	0.85
113_N	116_S	1.027	0.85
68_A	141_P	1.024	0.85
56_V	98_I	1.022	0.85
108_S	199_T	1.016	0.85
129_A	133_D	1.007	0.84
229_F	233_A	1.006	0.84
13_D	16_D	1.000	0.84
124_N	184_G	0.977	0.82
123_L	183_Y	0.970	0.82
50_Q	55_Y	0.969	0.82
151_K	157_E	0.968	0.82
2_Y	5_N	0.968	0.82
141_P	164_N	0.961	0.81
191_L	196_Y	0.958	0.81
53_R	227_N	0.949	0.80
127_G	134_K	0.946	0.80
218_S	225_G	0.943	0.80
117_G	120_N	0.940	0.80
132_S	137_K	0.939	0.80
235_I	239_G	0.929	0.79
143_T	158_I	0.929	0.79
141_P	161_L	0.928	0.79
83_N	89_G	0.926	0.79
251_I	255_K	0.924	0.79
27_I	200_I	0.920	0.78
71_A	74_L	0.913	0.78
133_D	169_V	0.911	0.78
165_E	185_R	0.910	0.77
44_Q	178_T	0.907	0.77
134_K	165_E	0.903	0.77
11_V	214_S	0.901	0.77
144_V	217_L	0.899	0.77
67_K	139_K	0.893	0.76
70_S	73_D	0.891	0.76
178_T	223_L	0.889	0.76
134_K	163_E	0.887	0.76
82_T	89_G	0.886	0.76
10_I	217_L	0.884	0.75
131_K	135_E	0.878	0.75
139_K	163_E	0.873	0.74
176_L	206_V	0.869	0.74
124_N	166_D	0.868	0.74
46_T	214_S	0.866	0.74
40_Y	221_S	0.863	0.74
100_N	146_P	0.862	0.74
237_V	241_C	0.861	0.73
12_I	15_T	0.856	0.73
92_I	100_N	0.854	0.73
39_V	217_L	0.853	0.73
180_R	216_V	0.853	0.73
31_I	191_L	0.852	0.73
174_A	219_T	0.841	0.72
41_V	217_L	0.836	0.71
137_K	216_V	0.835	0.71
102_L	162_S	0.833	0.71
4_S	231_G	0.832	0.71
105_D	213_K	0.829	0.71
180_R	221_S	0.822	0.70
12_I	17_C	0.817	0.69
127_G	185_R	0.813	0.69
5_N	228_P	0.806	0.68
15_T	212_T	0.805	0.68
140_N	160_N	0.802	0.68
114_N	117_G	0.798	0.68
13_D	214_S	0.792	0.67
99_A	103_F	0.783	0.66
47_N	210_G	0.783	0.66
29_F	196_Y	0.780	0.66
131_K	134_K	0.780	0.66
60_D	74_L	0.779	0.66
3_A	222_W	0.773	0.65
145_P	152_R	0.771	0.65
172_R	182_L	0.768	0.65
54_R	173_T	0.766	0.64
216_V	243_L	0.764	0.64
231_G	235_I	0.763	0.64
39_V	219_T	0.763	0.64
6_S	210_G	0.763	0.64
67_K	70_S	0.757	0.64
100_N	161_L	0.754	0.63
54_R	79_P	0.753	0.63
34_D	200_I	0.751	0.63
228_P	252_H	0.746	0.62
240_L	244_L	0.742	0.62
66_G	69_V	0.738	0.62
174_A	237_V	0.733	0.61
50_Q	204_Y	0.733	0.61
70_S	210_G	0.725	0.60
140_N	163_E	0.724	0.60
102_L	166_D	0.721	0.60
92_I	146_P	0.711	0.59
99_A	171_M	0.708	0.58
169_V	237_V	0.708	0.58
249_L	258_K	0.707	0.58
41_V	109_L	0.705	0.58
84_G	90_K	0.705	0.58
64_L	171_M	0.705	0.58
141_P	162_S	0.704	0.58
236_V	240_L	0.700	0.58
69_V	91_P	0.700	0.58
184_G	198_V	0.698	0.57
52_H	56_V	0.698	0.57
180_R	204_Y	0.694	0.57
226_K	229_F	0.693	0.57
116_S	119_K	0.691	0.57
58_S	211_G	0.685	0.56
186_I	190_D	0.684	0.56
35_M	217_L	0.683	0.56
54_R	225_G	0.680	0.55
50_Q	58_S	0.676	0.55
202_N	205_P	0.673	0.55
92_I	148_N	0.669	0.54
122_P	189_D	0.669	0.54
16_D	200_I	0.667	0.54
53_R	224_G	0.658	0.53
63_Q	77_C	0.654	0.52
55_Y	176_L	0.651	0.52
98_I	101_S	0.649	0.52
10_I	32_P	0.649	0.52
49_Y	52_H	0.648	0.52
102_L	125_K	0.646	0.52
145_P	149_W	0.645	0.51
29_F	155_Y	0.645	0.51
82_T	92_I	0.644	0.51
43_Y	103_F	0.644	0.51
50_Q	181_K	0.638	0.51
59_R	173_T	0.638	0.51
26_T	72_S	0.638	0.51
224_G	227_N	0.638	0.51
139_K	207_T	0.637	0.51
130_W	171_M	0.635	0.50
173_T	244_L	0.634	0.50
50_Q	172_R	0.634	0.50
5_N	246_I	0.634	0.50
128_I	133_D	0.633	0.50
232_I	235_I	0.631	0.50
172_R	245_G	0.631	0.50
106_T	147_P	0.629	0.50
110_S	113_N	0.627	0.49
121_V	186_I	0.624	0.49
129_A	168_I	0.621	0.49
133_D	181_K	0.617	0.48
100_N	149_W	0.616	0.48
10_I	89_G	0.616	0.48
51_N	101_S	0.614	0.48
137_K	176_L	0.613	0.48
4_S	9_E	0.612	0.48
11_V	33_E	0.611	0.48
4_S	226_K	0.611	0.48
41_V	215_I	0.610	0.48
164_N	168_I	0.608	0.47
164_N	203_N	0.607	0.47
251_I	254_I	0.607	0.47
125_K	164_N	0.605	0.47
36_K	39_V	0.604	0.47
30_T	84_G	0.603	0.47
54_R	58_S	0.602	0.47
64_L	167_F	0.598	0.46
68_A	102_L	0.597	0.46
96_G	170_W	0.595	0.46
48_F	123_L	0.593	0.46
111_Y	114_N	0.592	0.46
249_L	252_H	0.591	0.45
134_K	160_N	0.589	0.45
101_S	219_T	0.588	0.45
65_R	173_T	0.588	0.45
250_I	258_K	0.587	0.45
174_A	209_F	0.586	0.45
60_D	129_A	0.584	0.45
239_G	243_L	0.584	0.45
130_W	176_L	0.583	0.45
25_C	171_M	0.581	0.44
38_P	190_D	0.580	0.44
150_Q	203_N	0.580	0.44
139_K	240_L	0.579	0.44
148_N	248_F	0.578	0.44
82_T	246_I	0.578	0.44
76_D	81_A	0.577	0.44
130_W	137_K	0.576	0.44
16_D	212_T	0.575	0.44
93_Y	145_P	0.574	0.44
127_G	194_G	0.570	0.43
53_R	234_Y	0.569	0.43
110_S	120_N	0.569	0.43
186_I	189_D	0.568	0.43
42_Y	172_R	0.564	0.43
79_P	211_G	0.564	0.43
44_Q	214_S	0.564	0.43
16_D	20_S	0.563	0.42
42_Y	234_Y	0.560	0.42
54_R	172_R	0.560	0.42
101_S	209_F	0.560	0.42
7_V	218_S	0.560	0.42
130_W	174_A	0.559	0.42
15_T	44_Q	0.558	0.42
61_D	138_F	0.558	0.42
4_S	228_P	0.556	0.42
39_V	125_K	0.556	0.42
205_P	222_W	0.555	0.42
55_Y	133_D	0.554	0.41
62_D	69_V	0.553	0.41
16_D	167_F	0.552	0.41
250_I	256_P	0.550	0.41
206_V	213_K	0.550	0.41
54_R	234_Y	0.550	0.41
34_D	235_I	0.549	0.41
165_E	169_V	0.549	0.41
61_D	137_K	0.548	0.41
92_I	144_V	0.546	0.41
182_L	225_G	0.545	0.40
180_R	208_S	0.544	0.40
18_C	187_D	0.544	0.40
137_K	174_A	0.541	0.40
134_K	185_R	0.540	0.40
18_C	23_C	0.540	0.40
141_P	209_F	0.539	0.40
39_V	122_P	0.538	0.40
12_I	210_G	0.537	0.40
201_T	204_Y	0.536	0.40
79_P	103_F	0.535	0.39
114_N	191_L	0.534	0.39
81_A	131_K	0.532	0.39
55_Y	58_S	0.531	0.39
41_V	110_S	0.531	0.39
92_I	161_L	0.529	0.39
195_T	248_F	0.528	0.39
26_T	30_T	0.526	0.38
169_V	177_P	0.526	0.38
74_L	81_A	0.526	0.38
101_S	104_N	0.525	0.38
175_A	234_Y	0.525	0.38
90_K	236_V	0.525	0.38
14_Y	103_F	0.525	0.38
40_Y	133_D	0.525	0.38
109_L	184_G	0.523	0.38
6_S	76_D	0.522	0.38
114_N	118_S	0.522	0.38
51_N	176_L	0.522	0.38
112_L	117_G	0.521	0.38
7_V	225_G	0.521	0.38
102_L	183_Y	0.521	0.38
177_P	206_V	0.521	0.38
216_V	251_I	0.521	0.38
99_A	238_G	0.518	0.38
152_R	157_E	0.517	0.38
33_E	36_K	0.517	0.38
105_D	170_W	0.517	0.38
155_Y	159_P	0.516	0.37
139_K	144_V	0.516	0.37
46_T	60_D	0.513	0.37
12_I	20_S	0.513	0.37
10_I	62_D	0.512	0.37
98_I	173_T	0.511	0.37
70_S	75_S	0.511	0.37
115_N	119_K	0.509	0.37
174_A	177_P	0.509	0.37
7_V	221_S	0.508	0.37
57_K	180_R	0.508	0.37
31_I	202_N	0.507	0.37
9_E	219_T	0.507	0.37
58_S	98_I	0.506	0.36
15_T	202_N	0.504	0.36
218_S	231_G	0.503	0.36
72_S	208_S	0.501	0.36
196_Y	215_I	0.500	0.36

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
2m20A	2	0.1269	29	0.96	Contact Map
2kluA	1	0.1423	19.7	0.963	Contact Map
2l2tA	2	0.1538	17.6	0.964	Contact Map
2mfrA	1	0.1808	12.3	0.966	Contact Map
1iijA	1	0.1346	9.2	0.968	Contact Map
2k9yA	2	0.1577	7.5	0.969	Contact Map
2ks1B	1	0.1577	7.1	0.97	Contact Map
2l9uA	2	0.1385	6.4	0.97	Contact Map
2k1kA	2	0.1462	6.1	0.971	Contact Map
2lzlA	2	0.1654	5.2	0.971	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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