DUF2196 - PFAM28P - GREMLIN Contacts

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

DUF2196 - Uncharacterized conserved protein (DUF2196)

PFAM:	PF09962	Sequences: DGTNRSNIKPGLRVEIVLKQDQRTGKLTEGIVKDILTKSPTHPHGIKVRLEDGQVGRVKEI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	61 (60)
Sequences:	6714 (2815)
Seq/√Len:	363.4
META:	0.906

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
34_D	49_R	3.694	1.00
15_E	60_E	3.267	1.00
15_E	29_E	3.267	1.00
13_R	29_E	2.879	1.00
18_L	21_D	2.683	1.00
15_E	27_L	2.610	1.00
4_N	41_T	2.167	1.00
18_L	54_Q	2.157	1.00
21_D	26_K	2.151	1.00
8_I	32_V	2.146	1.00
4_N	7_N	1.933	1.00
9_K	12_L	1.790	1.00
13_R	31_I	1.671	1.00
16_I	54_Q	1.619	1.00
27_L	59_K	1.606	1.00
3_T	7_N	1.514	1.00
10_P	34_D	1.384	1.00
31_I	51_E	1.324	1.00
33_K	51_E	1.222	1.00
33_K	49_R	1.209	1.00
27_L	60_E	1.205	1.00
44_H	59_K	1.193	1.00
3_T	41_T	1.096	1.00
37_T	42_H	1.068	1.00
17_V	59_K	1.040	1.00
6_S	40_P	0.943	1.00
12_L	61_I	0.935	1.00
19_K	55_V	0.910	1.00
47_K	55_V	0.858	1.00
19_K	22_Q	0.857	1.00
49_R	55_V	0.847	1.00
19_K	47_K	0.816	1.00
42_H	57_R	0.798	1.00
8_I	12_L	0.788	1.00
36_L	42_H	0.773	1.00
5_R	35_I	0.766	1.00
42_H	47_K	0.755	1.00
10_P	35_I	0.749	1.00
17_V	25_G	0.743	1.00
20_Q	54_Q	0.742	1.00
16_I	50_L	0.733	1.00
39_S	46_I	0.728	1.00
49_R	52_D	0.726	1.00
31_I	52_D	0.726	1.00
39_S	44_H	0.698	0.99
14_V	32_V	0.695	0.99
44_H	47_K	0.693	0.99
45_G	56_G	0.692	0.99
16_I	48_V	0.680	0.99
17_V	22_Q	0.679	0.99
20_Q	26_K	0.663	0.99
10_P	51_E	0.660	0.99
16_I	56_G	0.660	0.99
8_I	58_V	0.658	0.99
33_K	53_G	0.657	0.99
3_T	59_K	0.650	0.99
49_R	53_G	0.640	0.99
18_L	28_T	0.639	0.99
35_I	46_I	0.624	0.99
22_Q	25_G	0.616	0.98
33_K	52_D	0.607	0.98
3_T	15_E	0.596	0.98
28_T	54_Q	0.594	0.98
36_L	44_H	0.594	0.98
5_R	8_I	0.586	0.98
28_T	52_D	0.584	0.98
12_L	32_V	0.568	0.97
8_I	35_I	0.568	0.97
22_Q	36_L	0.563	0.97
5_R	46_I	0.559	0.97
17_V	23_R	0.549	0.97
10_P	33_K	0.549	0.97
46_I	61_I	0.547	0.97
31_I	40_P	0.540	0.97
6_S	9_K	0.539	0.96
21_D	28_T	0.537	0.96
13_R	41_T	0.533	0.96
24_T	28_T	0.532	0.96
22_Q	47_K	0.525	0.96
24_T	40_P	0.524	0.96
3_T	44_H	0.522	0.96
25_G	28_T	0.521	0.96
36_L	47_K	0.520	0.96
19_K	24_T	0.516	0.95
14_V	56_G	0.514	0.95
47_K	57_R	0.508	0.95
50_L	56_G	0.506	0.95
10_P	31_I	0.503	0.95
38_K	44_H	0.502	0.95
4_N	40_P	0.500	0.95

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
1vw4Q	1	0.9016	17.3	0.853	Contact Map
3dlmA	1	0.8361	15.3	0.857	Contact Map
4hikA	1	0.9508	13.9	0.859	Contact Map
1kl9A	2	0.7213	13.2	0.86	Contact Map
4w20Y	1	0.9344	13	0.861	Contact Map
3j61Y	1	0.8852	12.1	0.863	Contact Map
3bboW	1	0.8689	10.3	0.867	Contact Map
3psiA	1	0.9016	9.5	0.869	Contact Map
1vq8T	1	0.9344	8.9	0.871	Contact Map
2j5uA	4	0.8525	8.7	0.871	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 0.0044 seconds.