YHDJ - BACSU - GREMLIN Contacts

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YHDJ - Uncharacterized N-acetyltransferase YhdJ

UniProt:	O07579	Sequences: MIHMKQLTSKEEWAESYPIMSELRTELDIETYLQRLEACVQKESYMLFALYENTAIRALCGALPRVSIHKGEHLWIADLVTTAPCRSKGYGKMLLDYASDWARKAGLGFVSLSSGLQRKDAHRFYTDKMGFTIESYLFRKPV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	142 (128)
Sequences:	5485 (4214)
Seq/√Len:	372.5

ECOLI - PHNO YEDL RIMI YPEA MNAT YJGM YAFP YIAC YJAB
BACSU - YHDJ YHFO YTMI YQJY YESJ YUAI YWNH PAIA YSNE YYAR RIMI YBFA YYCN YDGE SPSD YBBJ BLTD YVBK
HALSA - Q9HQD2 Q9HSL3 Q9HMF0 Q9HMI8 Q9HRK6
SULSO - Q7LXZ8 Q97UX1 Y209

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_E	82_T	2.912	1.00
97_Y	100_D	2.751	1.00
49_A	56_I	2.736	1.00
99_S	131_F	2.512	1.00
60_C	98_A	2.332	1.00
119_K	123_R	2.325	1.00
57_R	85_C	2.272	1.00
48_F	97_Y	2.242	1.00
5_K	51_Y	2.207	1.00
50_L	90_Y	2.204	1.00
74_L	102_A	2.037	1.00
101_W	104_K	2.027	1.00
15_E	18_P	1.967	1.00
126_T	133_I	1.890	1.00
92_K	128_K	1.828	1.00
52_E	85_C	1.784	1.00
101_W	105_A	1.784	1.00
92_K	129_M	1.780	1.00
114_S	122_H	1.744	1.00
48_F	101_W	1.703	1.00
100_D	104_K	1.657	1.00
46_M	105_A	1.639	1.00
95_L	129_M	1.612	1.00
99_S	110_V	1.603	1.00
52_E	57_R	1.591	1.00
50_L	58_A	1.587	1.00
85_C	88_K	1.585	1.00
51_Y	54_T	1.576	1.00
92_K	96_D	1.563	1.00
10_K	37_E	1.562	1.00
55_A	82_T	1.561	1.00
52_E	88_K	1.553	1.00
123_R	126_T	1.545	1.00
28_D	31_T	1.512	1.00
64_P	107_L	1.490	1.00
62_A	98_A	1.461	1.00
97_Y	101_W	1.455	1.00
22_E	83_A	1.434	1.00
51_Y	56_I	1.408	1.00
18_P	82_T	1.407	1.00
114_S	118_R	1.382	1.00
58_A	81_T	1.364	1.00
65_R	75_W	1.288	1.00
60_C	94_L	1.269	1.00
22_E	80_V	1.234	1.00
64_P	105_A	1.230	1.00
76_I	95_L	1.176	1.00
71_G	108_G	1.171	1.00
89_G	92_K	1.159	1.00
57_R	90_Y	1.150	1.00
15_E	56_I	1.147	1.00
60_C	76_I	1.147	1.00
55_A	84_P	1.119	1.00
112_L	131_F	1.109	1.00
23_L	26_E	1.095	1.00
75_W	113_S	1.093	1.00
46_M	101_W	1.083	1.00
120_D	123_R	1.063	1.00
82_T	85_C	1.057	1.00
102_A	107_L	1.057	1.00
15_E	55_A	1.048	1.00
10_K	40_V	1.043	1.00
114_S	121_A	1.034	1.00
118_R	122_H	1.032	1.00
32_Y	35_R	1.010	1.00
73_H	109_F	1.008	1.00
48_F	62_A	1.007	1.00
93_M	96_D	1.002	1.00
118_R	121_A	0.997	1.00
5_K	12_E	0.992	1.00
122_H	126_T	0.992	1.00
75_W	78_D	0.984	1.00
62_A	101_W	0.981	1.00
29_I	33_L	0.980	1.00
18_P	22_E	0.978	1.00
14_A	33_L	0.922	1.00
8_T	16_S	0.910	1.00
74_L	110_V	0.905	1.00
19_I	56_I	0.898	1.00
96_D	99_S	0.898	1.00
81_T	90_Y	0.897	1.00
33_L	37_E	0.895	1.00
44_S	72_E	0.894	1.00
95_L	131_F	0.892	1.00
46_M	62_A	0.882	1.00
59_L	80_V	0.876	1.00
100_D	103_R	0.872	1.00
74_L	98_A	0.866	1.00
37_E	41_Q	0.837	1.00
121_A	125_Y	0.837	1.00
8_T	12_E	0.823	1.00
37_E	40_V	0.818	1.00
17_Y	21_S	0.817	1.00
87_S	128_K	0.814	1.00
21_S	25_T	0.812	1.00
116_L	133_I	0.812	1.00
20_M	61_G	0.810	1.00
30_E	33_L	0.807	1.00
74_L	107_L	0.797	1.00
34_Q	37_E	0.793	1.00
36_L	40_V	0.792	1.00
20_M	59_L	0.792	1.00
20_M	78_D	0.786	1.00
115_G	118_R	0.784	1.00
31_T	35_R	0.769	1.00
93_M	97_Y	0.768	1.00
19_I	80_V	0.767	1.00
8_T	49_A	0.766	1.00
35_R	38_A	0.765	1.00
110_V	131_F	0.764	1.00
91_G	124_F	0.761	1.00
15_E	82_T	0.759	1.00
99_S	103_R	0.759	1.00
55_A	85_C	0.753	1.00
29_I	32_Y	0.752	1.00
32_Y	36_L	0.752	1.00
65_R	73_H	0.751	1.00
16_S	59_L	0.748	1.00
15_E	19_I	0.742	1.00
72_E	107_L	0.738	1.00
17_Y	32_Y	0.736	1.00
58_A	90_Y	0.735	1.00
112_L	125_Y	0.722	1.00
62_A	74_L	0.720	1.00
64_P	74_L	0.702	0.99
42_K	45_Y	0.699	0.99
123_R	128_K	0.699	0.99
70_K	108_G	0.680	0.99
102_A	110_V	0.666	0.99
52_E	55_A	0.666	0.99
58_A	94_L	0.665	0.99
97_Y	104_K	0.662	0.99
73_H	111_S	0.660	0.99
76_I	112_L	0.656	0.99
64_P	101_W	0.655	0.99
87_S	120_D	0.654	0.99
126_T	132_T	0.653	0.99
35_R	39_C	0.647	0.99
58_A	91_G	0.645	0.99
34_Q	38_A	0.642	0.99
96_D	129_M	0.640	0.99
45_Y	61_G	0.636	0.99
33_L	36_L	0.634	0.99
10_K	33_L	0.634	0.99
76_I	110_V	0.632	0.99
38_A	66_V	0.629	0.99
87_S	91_G	0.627	0.99
9_S	12_E	0.625	0.99
38_A	41_Q	0.625	0.99
18_P	21_S	0.617	0.99
119_K	122_H	0.609	0.98
66_V	72_E	0.609	0.98
81_T	94_L	0.608	0.98
6_Q	46_M	0.607	0.98
23_L	80_V	0.601	0.98
24_R	27_L	0.596	0.98
67_S	78_D	0.593	0.98
50_L	57_R	0.589	0.98
75_W	111_S	0.585	0.98
83_A	86_R	0.585	0.98
98_A	110_V	0.582	0.98
19_I	49_A	0.579	0.98
46_M	64_P	0.578	0.98
109_F	134_E	0.578	0.98
22_E	84_P	0.574	0.98
14_A	18_P	0.565	0.98
40_V	43_E	0.565	0.98
63_L	77_A	0.560	0.97
94_L	97_Y	0.560	0.97
6_Q	51_Y	0.552	0.97
52_E	90_Y	0.548	0.97
9_S	49_A	0.545	0.97
16_S	20_M	0.538	0.97
71_G	106_G	0.538	0.97
72_E	105_A	0.536	0.97
13_W	16_S	0.536	0.97
85_C	90_Y	0.532	0.96
12_E	51_Y	0.530	0.96
50_L	94_L	0.526	0.96
64_P	72_E	0.525	0.96
9_S	14_A	0.522	0.96
77_A	113_S	0.520	0.96
60_C	79_L	0.517	0.96
76_I	98_A	0.512	0.96
34_Q	39_C	0.512	0.96
67_S	73_H	0.511	0.96
76_I	79_L	0.509	0.95
70_K	109_F	0.509	0.95
17_Y	33_L	0.507	0.95
13_W	36_L	0.506	0.95
38_A	72_E	0.506	0.95
59_L	78_D	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
1s3zA	2	0.9859	99.9	0.315	Contact Map
3t9yA	2	0.9014	99.9	0.343	Contact Map
3fynA	2	0.9296	99.9	0.356	Contact Map
3dr6A	2	0.9789	99.9	0.358	Contact Map
1ufhA	3	0.9789	99.9	0.36	Contact Map
4yfjA	2	0.9859	99.9	0.363	Contact Map
1u6mA	1	0.9789	99.9	0.365	Contact Map
4evyA	2	0.9789	99.9	0.366	Contact Map
2j8mA	2	0.9789	99.9	0.37	Contact Map
3jvnA	2	0.7817	99.9	0.373	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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