YJAB - ECOLI - GREMLIN Contacts

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YJAB - Uncharacterized N-acetyltransferase YjaB

UniProt:	P09163	Sequences: MVISIRRSRHEEGEELVAIWCRSVDATHDFLSAEYRTELEDLVRSFLPEAPLWVAVNERDQPVGFMLLSGQHMDALFIDPDVRGCGVGRVLVEHALSMAPELTTNVNEQNEQAVGFYKKVGFKVTGRSEVDDLGKPYPLLNLAYVGA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11207
Length:	147 (128)
Sequences:	6708 (5364)
Seq/√Len:	474.1

ECOLI - YJAB YIAC YAFP MNAT YPEA YJGM PHNO RIMI YEDL YHHY YHBS
BACSU - PAIA YUAI YTMI YWNH YHFO RIMI YQJY YYCN YESJ YYAR YSNE YDGE YBFA YHDJ YBBJ YRKN YOKL BLTD SPSD YNAD
HALSA - Q9HRK6 Q9HSL3 Q9HQD2 Q9HMF0 Q9HMI8
SULSO - Y209 Q7LXZ8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
22_R	79_D	3.256	1.00
6_R	56_V	3.256	1.00
89_R	120_V	3.240	1.00
96_L	122_F	2.690	1.00
53_W	94_H	2.573	1.00
66_M	95_A	2.573	1.00
55_A	87_V	2.398	1.00
114_V	118_K	2.340	1.00
6_R	12_E	2.258	1.00
64_G	78_I	2.223	1.00
63_V	82_V	2.109	1.00
54_V	62_P	1.998	1.00
57_N	82_V	1.950	1.00
92_V	120_V	1.884	1.00
66_M	73_M	1.879	1.00
94_H	97_S	1.744	1.00
124_V	127_R	1.715	1.00
18_A	22_R	1.702	1.00
93_E	120_V	1.681	1.00
19_I	62_P	1.680	1.00
57_N	63_V	1.647	1.00
115_G	118_K	1.630	1.00
8_S	16_L	1.610	1.00
83_R	112_Q	1.592	1.00
114_V	124_V	1.567	1.00
118_K	124_V	1.540	1.00
26_A	80_P	1.528	1.00
15_E	18_A	1.507	1.00
82_V	85_C	1.504	1.00
94_H	98_M	1.486	1.00
35_Y	39_L	1.430	1.00
21_C	25_D	1.413	1.00
19_I	23_S	1.399	1.00
56_V	60_D	1.388	1.00
71_Q	99_A	1.378	1.00
22_R	80_P	1.366	1.00
57_N	85_C	1.339	1.00
69_S	74_D	1.318	1.00
108_E	127_R	1.310	1.00
63_V	87_V	1.290	1.00
5_I	53_W	1.274	1.00
61_Q	79_D	1.248	1.00
68_L	99_A	1.248	1.00
68_L	95_A	1.246	1.00
8_S	54_V	1.229	1.00
56_V	62_P	1.223	1.00
72_H	103_T	1.223	1.00
89_R	93_E	1.216	1.00
55_A	63_V	1.194	1.00
8_S	13_G	1.188	1.00
104_T	117_Y	1.178	1.00
52_L	67_L	1.173	1.00
61_Q	82_V	1.141	1.00
33_A	37_T	1.140	1.00
15_E	62_P	1.131	1.00
57_N	61_Q	1.111	1.00
98_M	101_E	1.097	1.00
79_D	82_V	1.073	1.00
40_E	44_R	1.073	1.00
7_R	98_M	1.064	1.00
67_L	75_A	1.060	1.00
102_L	122_F	1.040	1.00
23_S	77_F	1.037	1.00
36_R	40_E	1.031	1.00
20_W	65_F	1.028	1.00
61_Q	81_D	1.021	1.00
96_L	102_L	1.020	1.00
15_E	19_I	1.017	1.00
22_R	81_D	1.013	1.00
35_Y	38_E	1.009	1.00
15_E	61_Q	1.001	1.00
89_R	119_K	0.998	1.00
23_S	83_R	0.983	1.00
93_E	97_S	0.980	1.00
19_I	79_D	0.954	1.00
26_A	83_R	0.953	1.00
77_F	116_F	0.951	1.00
16_L	65_F	0.949	1.00
14_E	18_A	0.942	1.00
68_L	98_M	0.925	1.00
7_R	53_W	0.923	1.00
28_H	33_A	0.904	1.00
113_A	117_Y	0.899	1.00
29_D	32_S	0.890	1.00
47_L	50_A	0.889	1.00
104_T	113_A	0.882	1.00
17_V	21_C	0.877	1.00
30_F	34_E	0.868	1.00
73_M	92_V	0.865	1.00
13_G	17_V	0.853	1.00
78_I	87_V	0.841	1.00
96_L	120_V	0.835	1.00
116_F	119_K	0.833	1.00
36_R	39_L	0.830	1.00
18_A	79_D	0.830	1.00
8_S	12_E	0.829	1.00
27_T	83_R	0.826	1.00
84_G	119_K	0.822	1.00
82_V	87_V	0.804	1.00
20_W	75_A	0.782	1.00
111_E	115_G	0.775	1.00
4_S	56_V	0.771	1.00
53_W	98_M	0.765	1.00
97_S	101_E	0.762	1.00
20_W	23_S	0.756	1.00
14_E	44_R	0.747	1.00
39_L	42_L	0.743	1.00
66_M	91_L	0.739	1.00
6_R	54_V	0.739	1.00
110_N	113_A	0.733	1.00
76_L	92_V	0.731	1.00
93_E	96_L	0.731	1.00
20_W	24_V	0.722	1.00
5_I	94_H	0.718	1.00
75_A	107_N	0.716	1.00
106_V	110_N	0.713	1.00
32_S	36_R	0.711	1.00
105_N	128_S	0.709	1.00
32_S	35_Y	0.705	1.00
20_W	77_F	0.700	1.00
116_F	120_V	0.693	1.00
78_I	91_L	0.689	1.00
40_E	43_V	0.685	1.00
84_G	112_Q	0.683	1.00
41_D	45_S	0.679	1.00
24_V	77_F	0.677	1.00
29_D	33_A	0.670	1.00
110_N	117_Y	0.670	1.00
99_A	102_L	0.662	1.00
73_M	122_F	0.658	1.00
20_W	43_V	0.657	1.00
22_R	25_D	0.655	1.00
106_V	114_V	0.651	1.00
64_G	91_L	0.649	1.00
106_V	113_A	0.643	1.00
96_L	100_P	0.642	1.00
31_L	34_E	0.639	1.00
12_E	56_V	0.637	1.00
17_V	20_W	0.635	1.00
16_L	62_P	0.635	1.00
92_V	116_F	0.633	1.00
109_Q	114_V	0.632	1.00
52_L	56_V	0.626	0.99
21_C	40_E	0.619	0.99
70_G	103_T	0.611	0.99
43_V	46_F	0.606	0.99
5_I	91_L	0.606	0.99
31_L	36_R	0.606	0.99
55_A	91_L	0.604	0.99
30_F	109_Q	0.603	0.99
53_W	66_M	0.603	0.99
118_K	123_K	0.600	0.99
51_P	99_A	0.599	0.99
80_P	83_R	0.595	0.99
47_L	51_P	0.592	0.99
87_V	90_V	0.592	0.99
55_A	64_G	0.590	0.99
9_R	12_E	0.586	0.99
77_F	107_N	0.584	0.99
7_R	51_P	0.581	0.99
73_M	76_L	0.579	0.99
104_T	110_N	0.577	0.99
4_S	7_R	0.576	0.99
17_V	40_E	0.576	0.99
10_H	13_G	0.573	0.99
24_V	27_T	0.563	0.99
76_L	117_Y	0.562	0.99
90_V	97_S	0.561	0.99
92_V	117_Y	0.560	0.99
64_G	87_V	0.559	0.99
72_H	75_A	0.547	0.99
24_V	75_A	0.545	0.99
92_V	122_F	0.544	0.99
43_V	47_L	0.539	0.98
90_V	93_E	0.538	0.98
63_V	79_D	0.533	0.98
8_S	52_L	0.529	0.98
42_L	45_S	0.529	0.98
111_E	114_V	0.524	0.98
46_F	51_P	0.523	0.98
34_E	37_T	0.521	0.98
87_V	91_L	0.520	0.98
18_A	61_Q	0.519	0.98
14_E	40_E	0.519	0.98
30_F	35_Y	0.517	0.98
13_G	43_V	0.513	0.98
72_H	105_N	0.512	0.98
31_L	35_Y	0.511	0.98
25_D	37_T	0.507	0.98
73_M	117_Y	0.505	0.98
25_D	36_R	0.502	0.98
84_G	115_G	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
2kcwA	1	1	99.9	0.267	Contact Map
3fncA	2	0.9864	99.8	0.325	Contact Map
2j8mA	2	0.9932	99.8	0.347	Contact Map
2cy2A	1	0.9864	99.8	0.359	Contact Map
2qecA	2	0.9864	99.8	0.36	Contact Map
1tiqA	1	0.9728	99.8	0.361	Contact Map
3i9sA	4	0.966	99.8	0.364	Contact Map
3dr6A	2	0.9864	99.8	0.365	Contact Map
3kkwA	1	0.966	99.8	0.376	Contact Map
2fiwA	2	0.9864	99.8	0.378	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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