OPENSEQ.org - SLYD - ECOLI GREMLIN

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SLYD - FKBP-type peptidyl-prolyl cis-trans isomerase SlyD

UniProt:	P0A9K9	Sequence MKVAKDLVVSLAYQVRTEDGVLVDESPVSAPLDYLHGHGSLISGLETALEGHEVGDKFDVAVGANDAYGQYDENLVQRVPKDVFMGVDELQVGMRFLAETDQGPVPVEITAVEDDHVVVDGNHMLAGQNLKFNVEVVAIREATEEELAHGHVHGAHDHHHDHDHDGCCGGHGHDHGHEHGGEGCCGGKGNGGCGCH	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG11663
Length:	196 (166)
Sequences:	601
Seq/Len:	3.62

SLYD
Paralog alert: 0.08 [within 20: 0.00] - ratio of genomes with paralogs
Cluster includes: FKBX SLYD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Scaled Score	Prob
64_A	129_N	4.591	1.00
57_K	135_E	3.827	1.00
7_L	141_E	3.112	1.00
2_K	53_E	2.962	1.00
149_H	153_H	2.711	1.00
65_N	70_Q	2.697	1.00
59_D	133_N	2.667	1.00
47_T	66_D	2.527	1.00
92_V	112_V	2.194	1.00
14_Q	25_E	2.161	1.00
8_V	152_V	2.103	1.00
52_H	58_F	2.034	1.00
53_E	56_D	1.959	1.00
42_I	62_V	1.929	1.00
63_G	129_N	1.91	1.00
95_R	108_E	1.868	1.00
45_L	134_V	1.737	0.99
81_K	117_V	1.725	0.99
54_V	139_I	1.686	0.99
63_G	66_D	1.668	0.99
42_I	67_A	1.627	0.98
24_D	32_L	1.626	0.98
54_V	138_A	1.585	0.98
6_D	38_H	1.49	0.97
17_T	21_V	1.478	0.97
3_V	139_I	1.468	0.96
144_E	148_A	1.466	0.96
154_G	157_D	1.431	0.96
111_A	118_V	1.419	0.95
62_V	67_A	1.4	0.95
90_L	109_I	1.396	0.95
3_V	9_V	1.391	0.95
48_A	60_V	1.363	0.94
52_H	56_D	1.35	0.94
113_E	118_V	1.318	0.93
78_R	116_H	1.308	0.92
80_P	116_H	1.307	0.92
111_A	114_D	1.304	0.92
44_G	62_V	1.298	0.92
5_K	50_E	1.286	0.91
157_D	160_H	1.277	0.91
61_A	129_N	1.27	0.91
24_D	125_L	1.258	0.90
58_F	134_V	1.243	0.89
41_L	60_V	1.236	0.89
12_A	135_E	1.234	0.89
75_L	121_G	1.234	0.89
18_E	131_K	1.211	0.88
44_G	47_T	1.205	0.87
8_V	150_G	1.204	0.87
17_T	128_Q	1.199	0.87
84_F	119_V	1.188	0.86
54_V	76_V	1.182	0.86
140_R	146_E	1.17	0.85
14_Q	133_N	1.165	0.85
34_Y	50_E	1.162	0.85
7_L	139_I	1.155	0.84
156_H	160_H	1.154	0.84
8_V	140_R	1.14	0.83
154_G	158_H	1.135	0.83
36_H	50_E	1.128	0.82
25_E	28_V	1.119	0.81
45_L	60_V	1.097	0.80
81_K	115_D	1.089	0.79
90_L	96_F	1.077	0.78
24_D	89_E	1.076	0.78
169_G	173_H	1.073	0.78
78_R	118_V	1.07	0.77
84_F	117_V	1.067	0.77
57_K	133_N	1.062	0.77
109_I	112_V	1.049	0.75
11_L	136_V	1.047	0.75
9_V	139_I	1.026	0.73
10_S	138_A	1.012	0.72
17_T	23_V	1.008	0.71
63_G	144_E	1.002	0.70

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Scaled Score = (raw_score/average(raw_scores)) > 1 are listed. For all 3L/2 predictions, click on one of the links below.

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling

HHsearch Results: GREMLIN results overlayed on top 10 PDB hits:

Legend: Blue filled circles are GREMLIN results (Scaled_score >1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 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	P(%)	HHΔ		Acc
2kfwA	1	1	100	0.192	Contact Map	0.605
2k8iA	1	0.8724	100	0.335	Contact Map	0.658
3cgmA	1	0.801	100	0.375	Contact Map	0.798
4dt4A	1	0.7398	100	0.415	Contact Map	0.77
2kr7A	1	0.7347	100	0.418	Contact Map	0.644
1ix5A	1	0.6939	100	0.47	Contact Map	0.794
3pr9A	1	0.7245	100	0.475	Contact Map	0.827
3prbA	2	0.9082	100	0.505	Contact Map	0.849
2lknA	1	0.699	99.9	0.655	Contact Map	0.598
1q1cA	1	0.7347	99.8	0.73	Contact Map	0.383

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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