VIT1 - PFAM28P - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

VIT1 - VIT family

PFAM:	PF01988	Sequences: LRAAVLGANDGLVSTASLVAGVAGAGAGSRSAVLLAGLAGLVAGALSMAAGEYVSVSSQRDTEEAELARERRELEEDPALEEEREELALIYEARGLSPELARQVAEQLTADPDAWLDAHAREELGIDPDEARPLQAALASAASFAVGALIPLLPYLLAPSGSAALPVSVVLSLVALFLLGALKARFTGASPLRSGLRVLLIGALAAAVTYGIGR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	214 (209)
Sequences:	22883 (13275)
Seq/√Len:	918.3
META:	0.873

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
72_R	76_E	4.674	1.00
84_R	106_E	3.511	1.00
88_A	102_R	3.355	1.00
77_D	82_E	2.912	1.00
67_L	120_A	2.896	1.00
92_E	98_P	2.861	1.00
100_L	103_Q	2.805	1.00
177_F	195_G	2.769	1.00
98_P	102_R	2.354	1.00
177_F	199_L	2.337	1.00
102_R	106_E	2.313	1.00
181_A	191_P	2.301	1.00
18_L	40_G	2.287	1.00
185_R	191_P	2.277	1.00
84_R	109_T	2.271	1.00
29_S	32_A	2.262	1.00
68_A	71_R	2.199	1.00
99_E	103_Q	2.143	1.00
88_A	92_E	2.038	1.00
190_S	193_R	2.022	1.00
85_E	89_L	2.019	1.00
173_L	199_L	2.017	1.00
75_E	112_P	2.007	1.00
173_L	203_A	1.957	1.00
50_A	201_I	1.953	1.00
67_L	71_R	1.901	1.00
154_P	171_L	1.897	1.00
100_L	107_Q	1.847	1.00
74_L	116_L	1.825	1.00
89_L	92_E	1.768	1.00
97_S	107_Q	1.732	1.00
84_R	88_A	1.717	1.00
66_E	69_R	1.681	1.00
103_Q	107_Q	1.670	1.00
166_P	170_V	1.666	1.00
118_A	122_E	1.652	1.00
84_R	102_R	1.650	1.00
103_Q	106_E	1.644	1.00
78_P	84_R	1.633	1.00
111_D	114_A	1.615	1.00
113_D	117_D	1.599	1.00
138_L	142_A	1.587	1.00
164_A	168_S	1.582	1.00
163_A	167_V	1.565	1.00
96_L	104_V	1.520	1.00
60_R	64_E	1.503	1.00
25_A	35_L	1.467	1.00
181_A	195_G	1.465	1.00
71_R	113_D	1.460	1.00
72_R	75_E	1.452	1.00
46_L	50_A	1.447	1.00
163_A	166_P	1.431	1.00
68_A	72_R	1.423	1.00
104_V	108_L	1.418	1.00
32_A	36_A	1.417	1.00
134_L	138_L	1.409	1.00
88_A	98_P	1.384	1.00
97_S	100_L	1.379	1.00
41_L	148_A	1.370	1.00
158_A	167_V	1.354	1.00
26_G	29_S	1.340	1.00
71_R	75_E	1.333	1.00
183_K	194_S	1.324	1.00
71_R	116_L	1.317	1.00
98_P	101_A	1.303	1.00
90_I	122_E	1.294	1.00
150_I	175_A	1.276	1.00
94_R	122_E	1.260	1.00
176_L	202_G	1.254	1.00
189_A	193_R	1.251	1.00
81_E	84_R	1.231	1.00
162_S	166_P	1.229	1.00
107_Q	110_A	1.224	1.00
78_P	81_E	1.223	1.00
91_Y	118_A	1.212	1.00
89_L	93_A	1.209	1.00
85_E	102_R	1.206	1.00
85_E	88_A	1.204	1.00
19_V	155_Y	1.200	1.00
49_A	141_A	1.180	1.00
106_E	110_A	1.173	1.00
117_D	121_R	1.150	1.00
70_E	86_E	1.148	1.00
69_R	73_E	1.142	1.00
64_E	68_A	1.136	1.00
207_A	211_G	1.129	1.00
184_A	194_S	1.127	1.00
37_G	152_L	1.110	1.00
96_L	100_L	1.098	1.00
171_L	175_A	1.096	1.00
46_L	208_V	1.091	1.00
52_E	140_S	1.089	1.00
132_R	135_Q	1.084	1.00
92_E	101_A	1.067	1.00
26_G	32_A	1.064	1.00
22_V	36_A	1.043	1.00
192_L	196_L	1.040	1.00
73_E	123_E	1.039	1.00
66_E	124_L	1.038	1.00
67_L	117_D	1.038	1.00
27_A	32_A	1.037	1.00
8_A	179_L	1.019	1.00
96_L	107_Q	1.011	1.00
97_S	103_Q	1.006	1.00
191_P	195_G	1.001	1.00
101_A	105_A	1.001	1.00
97_S	101_A	0.998	1.00
41_L	145_A	0.993	1.00
73_E	86_E	0.990	1.00
27_A	36_A	0.989	1.00
105_A	108_L	0.989	1.00
16_A	172_S	0.977	1.00
31_S	35_L	0.975	1.00
119_H	123_E	0.962	1.00
154_P	158_A	0.961	1.00
161_G	164_A	0.941	1.00
57_S	197_R	0.940	1.00
184_A	187_T	0.936	1.00
106_E	109_T	0.926	1.00
178_L	182_L	0.921	1.00
65_A	69_R	0.909	1.00
61_D	64_E	0.909	1.00
200_L	203_A	0.907	1.00
57_S	60_R	0.905	1.00
15_T	18_L	0.903	1.00
86_E	123_E	0.902	1.00
83_E	86_E	0.901	1.00
44_G	144_F	0.894	1.00
177_F	181_A	0.886	1.00
67_L	116_L	0.885	1.00
92_E	102_R	0.881	1.00
69_R	124_L	0.880	1.00
24_G	210_Y	0.875	1.00
158_A	164_A	0.870	1.00
166_P	169_V	0.867	1.00
50_A	205_A	0.860	1.00
178_L	181_A	0.858	1.00
49_A	137_A	0.855	1.00
167_V	170_V	0.854	1.00
196_L	200_L	0.853	1.00
72_R	77_D	0.848	1.00
164_A	167_V	0.847	1.00
155_Y	168_S	0.845	1.00
70_E	83_E	0.843	1.00
82_E	85_E	0.840	1.00
192_L	195_G	0.839	1.00
104_V	107_Q	0.839	1.00
3_A	52_E	0.822	1.00
109_T	115_W	0.821	1.00
135_Q	138_L	0.819	1.00
182_L	185_R	0.817	1.00
33_V	36_A	0.813	1.00
167_V	171_L	0.809	1.00
71_R	112_P	0.802	1.00
170_V	174_V	0.799	1.00
195_G	199_L	0.793	1.00
34_L	156_L	0.790	1.00
20_A	165_L	0.787	1.00
14_S	40_G	0.785	1.00
6_L	140_S	0.782	1.00
3_A	6_L	0.782	1.00
73_E	124_L	0.779	1.00
142_A	146_V	0.778	1.00
19_V	33_V	0.774	1.00
114_A	117_D	0.769	1.00
127_D	130_E	0.764	1.00
91_Y	122_E	0.763	1.00
91_Y	104_V	0.757	1.00
165_L	169_V	0.756	1.00
19_V	168_S	0.749	1.00
32_A	35_L	0.748	1.00
20_A	210_Y	0.746	1.00
114_A	118_A	0.745	1.00
105_A	109_T	0.744	1.00
54_V	201_I	0.743	1.00
139_A	143_S	0.738	1.00
38_L	152_L	0.735	1.00
77_D	81_E	0.732	1.00
81_E	85_E	0.729	1.00
84_R	110_A	0.727	1.00
94_R	121_R	0.726	1.00
184_A	191_P	0.725	1.00
45_A	145_A	0.723	1.00
74_L	115_W	0.719	1.00
150_I	171_L	0.709	1.00
52_E	55_S	0.708	1.00
58_S	183_K	0.706	1.00
8_A	147_G	0.703	1.00
146_V	149_L	0.703	1.00
203_A	207_A	0.702	1.00
96_L	108_L	0.700	1.00
52_E	56_V	0.699	1.00
126_I	129_D	0.699	1.00
86_E	119_H	0.698	1.00
94_R	117_D	0.693	1.00
83_E	123_E	0.687	1.00
19_V	37_G	0.686	1.00
87_L	109_T	0.681	1.00
191_P	194_S	0.677	1.00
88_A	101_A	0.672	1.00
9_N	14_S	0.669	1.00
208_V	211_G	0.668	1.00
22_V	32_A	0.667	1.00
204_L	207_A	0.666	1.00
33_V	155_Y	0.662	1.00
30_R	34_L	0.662	1.00
63_E	126_I	0.660	1.00
61_D	189_A	0.660	1.00
84_R	105_A	0.659	1.00
15_T	41_L	0.653	1.00
87_L	118_A	0.652	1.00
17_S	206_A	0.650	1.00
165_L	168_S	0.648	1.00
16_A	169_V	0.648	1.00
201_I	205_A	0.647	1.00
91_Y	94_R	0.646	1.00
204_L	211_G	0.645	1.00
20_A	24_G	0.641	1.00
12_L	175_A	0.640	1.00
164_A	169_V	0.640	1.00
88_A	105_A	0.640	1.00
163_A	168_S	0.639	1.00
83_E	119_H	0.630	1.00
4_A	139_A	0.629	1.00
101_A	109_T	0.629	1.00
67_L	128_P	0.628	1.00
100_L	104_V	0.626	1.00
12_L	172_S	0.624	1.00
199_L	203_A	0.617	1.00
110_A	114_A	0.616	1.00
22_V	35_L	0.615	1.00
91_Y	101_A	0.613	1.00
56_V	136_A	0.612	1.00
99_E	102_R	0.611	1.00
153_L	157_L	0.608	1.00
181_A	185_R	0.608	1.00
200_L	207_A	0.607	1.00
90_I	124_L	0.607	1.00
57_S	61_D	0.606	1.00
17_S	43_A	0.606	1.00
87_L	119_H	0.605	1.00
173_L	177_F	0.604	1.00
20_A	169_V	0.601	1.00
3_A	136_A	0.600	1.00
14_S	144_F	0.600	1.00
190_S	194_S	0.600	1.00
38_L	42_V	0.597	1.00
52_E	136_A	0.597	1.00
90_I	123_E	0.596	1.00
183_K	198_V	0.594	1.00
60_R	133_P	0.594	1.00
45_A	141_A	0.593	1.00
90_I	94_R	0.592	1.00
181_A	194_S	0.590	1.00
42_V	208_V	0.589	1.00
74_L	112_P	0.589	1.00
176_L	179_L	0.588	1.00
183_K	197_R	0.588	1.00
67_L	126_I	0.588	1.00
42_V	212_I	0.588	1.00
193_R	200_L	0.587	1.00
154_P	167_V	0.585	1.00
112_P	117_D	0.583	1.00
53_Y	57_S	0.582	1.00
34_L	38_L	0.581	1.00
172_S	175_A	0.579	1.00
59_Q	63_E	0.574	1.00
169_V	203_A	0.571	1.00
15_T	40_G	0.569	1.00
195_G	198_V	0.568	1.00
121_R	125_G	0.567	1.00
108_L	115_W	0.567	1.00
158_A	163_A	0.565	1.00
169_V	207_A	0.564	1.00
208_V	212_I	0.561	1.00
26_G	30_R	0.560	1.00
135_Q	139_A	0.560	1.00
138_L	141_A	0.558	1.00
107_Q	114_A	0.555	1.00
88_A	106_E	0.553	1.00
19_V	152_L	0.552	1.00
92_E	97_S	0.551	1.00
200_L	204_L	0.550	1.00
55_S	59_Q	0.548	1.00
153_L	156_L	0.546	1.00
16_A	206_A	0.545	1.00
193_R	196_L	0.544	1.00
70_E	119_H	0.544	1.00
6_L	14_S	0.543	1.00
15_T	148_A	0.541	1.00
13_V	205_A	0.541	1.00
57_S	64_E	0.537	1.00
70_E	123_E	0.535	1.00
23_A	155_Y	0.531	1.00
108_L	111_D	0.530	1.00
38_L	156_L	0.530	1.00
145_A	149_L	0.530	1.00
134_L	137_A	0.529	1.00
90_I	118_A	0.529	1.00
85_E	98_P	0.526	1.00
94_R	104_V	0.523	1.00
136_A	140_S	0.523	1.00
117_D	128_P	0.523	1.00
90_I	119_H	0.523	1.00
73_E	77_D	0.522	1.00
174_V	178_L	0.521	1.00
196_L	199_L	0.515	1.00
112_P	116_L	0.515	1.00
149_L	152_L	0.513	1.00
4_A	143_S	0.507	1.00
12_L	15_T	0.504	1.00
54_V	58_S	0.503	1.00
4_A	8_A	0.503	1.00
90_I	93_A	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
4aurA	1	0.5701	19.3	0.944	Contact Map
3wdoA	1	0.5421	17.4	0.945	Contact Map
1z96A	1	0.1776	14.4	0.947	Contact Map
4j05A	3	0.6636	14	0.948	Contact Map
3d31C	2	0.3131	11.4	0.95	Contact Map
1vegA	1	0.3879	10.8	0.95	Contact Map
3effK	4	0.3879	10.4	0.951	Contact Map
1dv0A	1	0.2103	9.2	0.952	Contact Map
3b9wA	3	0.3785	8.6	0.952	Contact Map
4un2B	1	0.1963	8	0.953	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.

Page generated in 0.0071 seconds.