Flagellin_IN - PFAM28P - GREMLIN Contacts

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Flagellin_IN - Flagellin hook IN motif

PFAM:	PF07196	Sequences: TLTINGGGGSATVTITVAAGDTLADLADAINAASANTGVTASIVNDGGRLVLTSTD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	56 (53)
Sequences:	23993 (18002)
Seq/√Len:	2472.7
META:	0.903

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
21_D	29_A	2.793	1.00
33_A	36_N	2.662	1.00
27_A	43_I	2.321	1.00
21_D	25_D	1.984	1.00
45_N	48_G	1.941	1.00
40_T	55_T	1.792	1.00
22_T	25_D	1.752	1.00
18_A	21_D	1.707	1.00
24_A	43_I	1.694	1.00
24_A	28_D	1.679	1.00
46_D	49_R	1.523	1.00
43_I	48_G	1.471	1.00
24_A	27_A	1.466	1.00
44_V	47_G	1.450	1.00
5_N	9_G	1.372	1.00
44_V	49_R	1.371	1.00
40_T	53_T	1.349	1.00
3_T	12_T	1.341	1.00
44_V	51_V	1.307	1.00
42_S	53_T	1.279	1.00
18_A	29_A	1.181	1.00
26_L	30_I	1.150	1.00
34_S	37_T	1.139	1.00
28_D	32_A	1.103	1.00
42_S	51_V	1.085	1.00
17_V	26_L	1.049	1.00
25_D	29_A	1.034	1.00
6_G	10_S	1.032	1.00
5_N	8_G	1.030	1.00
30_I	52_L	1.012	1.00
6_G	9_G	0.985	1.00
7_G	10_S	0.944	1.00
43_I	47_G	0.939	1.00
23_L	43_I	0.931	1.00
44_V	48_G	0.929	1.00
23_L	26_L	0.917	1.00
39_V	52_L	0.912	1.00
29_A	32_A	0.901	1.00
27_A	31_N	0.896	1.00
33_A	37_T	0.865	1.00
6_G	11_A	0.830	1.00
6_G	37_T	0.822	1.00
28_D	34_S	0.799	1.00
41_A	52_L	0.785	1.00
3_T	10_S	0.778	1.00
5_N	10_S	0.768	1.00
9_G	12_T	0.756	1.00
34_S	40_T	0.743	1.00
8_G	11_A	0.733	1.00
27_A	50_L	0.723	1.00
14_T	17_V	0.718	1.00
43_I	46_D	0.688	1.00
48_G	51_V	0.684	1.00
5_N	11_A	0.678	1.00
23_L	27_A	0.665	1.00
23_L	50_L	0.664	1.00
2_L	5_N	0.664	1.00
3_T	6_G	0.654	1.00
3_T	14_T	0.649	1.00
17_V	22_T	0.639	1.00
4_I	39_V	0.621	1.00
7_G	11_A	0.612	1.00
32_A	36_N	0.605	1.00
30_I	39_V	0.601	1.00
16_T	20_G	0.592	1.00
3_T	8_G	0.592	1.00
17_V	20_G	0.583	1.00
27_A	42_S	0.583	1.00
16_T	19_A	0.573	1.00
29_A	33_A	0.570	1.00
17_V	29_A	0.564	1.00
3_T	11_A	0.564	1.00
27_A	41_A	0.563	1.00
30_I	41_A	0.547	1.00
37_T	52_L	0.528	1.00
38_G	55_T	0.527	1.00
25_D	28_D	0.527	1.00
15_I	33_A	0.513	1.00
18_A	23_L	0.506	1.00
15_I	22_T	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
3k8wA	1	0.9464	28.2	0.712	Contact Map
4nx9A	1	0.9464	16.8	0.741	Contact Map
4fxqA	1	1	13.6	0.751	Contact Map
3tixA	1	0.8393	6.7	0.783	Contact Map
1y8xB	1	0.8214	6.3	0.787	Contact Map
1q1oA	1	1	5.9	0.789	Contact Map
1se9A	1	0.9643	5.5	0.791	Contact Map
1io1A	1	0.9464	5.5	0.791	Contact Map
3v7oA	2	0.875	5.5	0.791	Contact Map
2ekeC	1	0.8393	4.8	0.797	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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