DUF2294 - PFAM28P - GREMLIN Contacts

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DUF2294 - Uncharacterized conserved protein (DUF2294)

PFAM:	PF10057	Sequences: TKGELEAAISNAIVRLEKEYTGRGPTKARTYLIDDLVVVVLEGVLTPAERTLVESGEGRDLVKEVRRQLQEAMRPELEAAVERITGRKVRAFHSDISTDTGEAVEVFVLER	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	111 (107)
Sequences:	10220 (5651)
Seq/√Len:	546.3
META:	0.921

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
10_S	30_T	3.236	1.00
12_A	80_A	3.018	1.00
82_E	88_K	2.877	1.00
74_R	78_E	2.832	1.00
88_K	110_E	2.233	1.00
57_E	68_Q	2.206	1.00
51_T	54_E	2.157	1.00
7_A	11_N	2.092	1.00
97_S	100_T	2.021	1.00
80_A	83_R	1.941	1.00
27_K	42_E	1.926	1.00
37_V	109_L	1.913	1.00
79_A	83_R	1.885	1.00
26_T	43_G	1.851	1.00
60_D	64_E	1.768	1.00
12_A	83_R	1.665	1.00
14_V	28_A	1.663	1.00
20_Y	73_M	1.634	1.00
13_I	77_L	1.576	1.00
80_A	84_I	1.567	1.00
61_L	64_E	1.550	1.00
75_P	79_A	1.474	1.00
5_L	84_I	1.472	1.00
38_V	106_V	1.450	1.00
13_I	39_V	1.397	1.00
61_L	68_Q	1.390	1.00
36_L	40_V	1.380	1.00
30_T	39_V	1.374	1.00
32_L	37_V	1.373	1.00
10_S	28_A	1.365	1.00
12_A	84_I	1.362	1.00
55_S	72_A	1.312	1.00
9_I	37_V	1.304	1.00
61_L	65_V	1.285	1.00
18_K	24_G	1.280	1.00
91_A	97_S	1.277	1.00
47_P	50_R	1.204	1.00
8_A	12_A	1.188	1.00
9_I	81_V	1.180	1.00
42_E	90_R	1.170	1.00
15_R	19_E	1.168	1.00
70_Q	105_E	1.166	1.00
17_E	21_T	1.153	1.00
5_L	85_T	1.129	1.00
12_A	15_R	1.124	1.00
78_E	82_E	1.123	1.00
57_E	61_L	1.119	1.00
37_V	85_T	1.116	1.00
87_R	110_E	1.110	1.00
67_R	95_D	1.088	1.00
31_Y	34_D	1.073	1.00
16_L	77_L	1.057	1.00
11_N	15_R	1.053	1.00
50_R	101_G	1.041	1.00
96_I	103_A	1.039	1.00
70_Q	94_S	1.001	1.00
48_A	69_L	0.998	1.00
8_A	84_I	0.994	1.00
8_A	11_N	0.989	1.00
44_V	103_A	0.986	1.00
36_L	106_V	0.985	1.00
93_H	102_E	0.980	1.00
45_L	53_V	0.975	1.00
31_Y	40_V	0.967	1.00
76_E	79_A	0.960	1.00
64_E	68_Q	0.936	1.00
70_Q	92_F	0.930	1.00
67_R	71_E	0.930	1.00
57_E	71_E	0.925	1.00
93_H	104_V	0.925	1.00
75_P	78_E	0.922	1.00
65_V	68_Q	0.921	1.00
79_A	82_E	0.918	1.00
9_I	30_T	0.910	1.00
45_L	96_I	0.907	1.00
19_E	76_E	0.907	1.00
6_E	32_L	0.902	1.00
93_H	97_S	0.897	1.00
40_V	104_V	0.862	1.00
63_K	98_T	0.860	1.00
94_S	105_E	0.859	1.00
104_V	108_V	0.842	1.00
57_E	60_D	0.841	1.00
16_L	80_A	0.827	1.00
59_R	99_D	0.812	1.00
71_E	74_R	0.811	1.00
33_I	38_V	0.794	1.00
40_V	108_V	0.793	1.00
17_E	103_A	0.781	1.00
33_I	36_L	0.776	1.00
21_T	69_L	0.772	1.00
10_S	14_V	0.765	1.00
91_A	100_T	0.761	1.00
24_G	29_R	0.753	1.00
6_E	31_Y	0.740	1.00
46_T	66_R	0.740	1.00
20_Y	76_E	0.739	1.00
63_K	96_I	0.737	1.00
29_R	35_D	0.727	1.00
13_I	41_L	0.727	1.00
41_L	44_V	0.724	1.00
102_E	108_V	0.702	1.00
50_R	54_E	0.697	1.00
10_S	39_V	0.694	1.00
50_R	53_V	0.684	1.00
4_E	7_A	0.679	1.00
95_D	104_V	0.677	1.00
62_V	65_V	0.676	1.00
7_A	10_S	0.673	1.00
63_K	95_D	0.669	1.00
48_A	65_V	0.660	1.00
89_V	107_F	0.655	1.00
53_V	62_V	0.654	1.00
51_T	55_S	0.650	1.00
17_E	41_L	0.649	1.00
16_L	73_M	0.644	1.00
51_T	76_E	0.642	1.00
4_E	8_A	0.639	1.00
20_Y	69_L	0.633	1.00
92_F	105_E	0.633	1.00
90_R	110_E	0.630	1.00
59_R	63_K	0.615	1.00
57_E	72_A	0.614	1.00
93_H	96_I	0.613	1.00
81_V	85_T	0.612	1.00
6_E	30_T	0.608	1.00
29_R	34_D	0.608	1.00
19_E	47_P	0.586	1.00
5_L	9_I	0.584	1.00
8_A	83_R	0.582	0.99
77_L	107_F	0.580	0.99
22_G	25_P	0.569	0.99
46_T	49_E	0.568	0.99
35_D	40_V	0.564	0.99
94_S	103_A	0.563	0.99
63_K	71_E	0.560	0.99
43_G	50_R	0.557	0.99
44_V	65_V	0.553	0.99
18_K	26_T	0.550	0.99
26_T	42_E	0.549	0.99
97_S	102_E	0.548	0.99
35_D	87_R	0.545	0.99
78_E	92_F	0.541	0.99
19_E	88_K	0.540	0.99
46_T	103_A	0.540	0.99
27_K	43_G	0.538	0.99
42_E	102_E	0.537	0.99
58_G	62_V	0.533	0.99
91_A	102_E	0.533	0.99
35_D	42_E	0.533	0.99
63_K	67_R	0.528	0.99
59_R	68_Q	0.527	0.99
41_L	103_A	0.525	0.99
82_E	89_V	0.522	0.99
55_S	68_Q	0.507	0.99
55_S	58_G	0.506	0.99
59_R	71_E	0.504	0.99
49_E	62_V	0.503	0.99
85_T	88_K	0.501	0.98
17_E	65_V	0.500	0.98

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
2x4kA	4	0.4414	27	0.867	Contact Map
3kanA	3	0.4505	26.6	0.867	Contact Map
2opaA	4	0.4595	23.3	0.871	Contact Map
3ej9A	3	0.4865	18.5	0.877	Contact Map
1gyxA	2	0.5495	17.9	0.877	Contact Map
3djhA	3	0.4324	15.7	0.88	Contact Map
2os5A	7	0.4685	14.5	0.882	Contact Map
1uizA	3	0.4324	14.5	0.882	Contact Map
3m21A	4	0.4775	13.6	0.884	Contact Map
3t5sA	3	0.2703	13.3	0.884	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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