YGEG - ECOLI - GREMLIN Contacts

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YGEG - Uncharacterized protein YgeG

UniProt:	Q46787	Sequences: MSTETIEIFNNSDEWANQLKHALSKGENLALLHGLTPDILDRIYAYAFDYHEKGNITDAEIYYKFLCIYAFENHEYLKDFASVCQPKKKYQQAYDLYKLSYNYFPYDDYSVIYRMGQCQIGAKNIDNAMQCFYHIINNCEDDSVKSKAQAYIELLNDNSEDNG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13037
Length:	163 (128)
Sequences:	34056 (30059)
Seq/√Len:	2656.9

ECOLI - YGEG NRFG NLPI YBGF YBBN YFBP LPSRP HEMY YFGM YGEH BAMD BEPA BCSC CCMH PGAA CADC YPHG YBEQ YJCO DJLC SIRB1
BACSU - YSOA YVCD RAPC YPIA RAPB RAPA RAPK RAPJ RAPG RAPF RAPI RAPH RAPD YRRB RAPE SUNS GLUP GUTR GSIB
HALSA - Q9HMM8
SULSO - Q97WM3 Q97V36 Q97ZS3 Q97VC4 Q97U18

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
112_I	131_C	2.771	1.00
89_K	92_Q	2.732	1.00
43_I	62_Y	2.578	1.00
124_N	127_N	2.569	1.00
55_N	58_D	2.492	1.00
77_L	96_L	2.457	1.00
81_A	97_Y	2.450	1.00
47_A	63_Y	2.443	1.00
116_G	132_F	2.339	1.00
115_M	131_C	2.294	1.00
46_Y	62_Y	2.267	1.00
98_K	115_M	2.210	1.00
80_F	96_L	2.018	1.00
21_H	24_S	2.005	1.00
64_K	80_F	1.972	1.00
84_C	96_L	1.964	1.00
63_Y	79_D	1.947	1.00
84_C	92_Q	1.909	1.00
29_L	45_A	1.898	1.00
119_Q	131_C	1.853	1.00
50_Y	58_D	1.806	1.00
97_Y	114_R	1.778	1.00
119_Q	127_N	1.769	1.00
50_Y	62_Y	1.760	1.00
60_E	64_K	1.563	1.00
94_Y	98_K	1.512	1.00
60_E	87_K	1.504	1.00
30_A	46_Y	1.456	1.00
60_E	84_C	1.410	1.00
129_M	133_Y	1.394	1.00
94_Y	119_Q	1.385	1.00
94_Y	122_A	1.304	1.00
67_C	77_L	1.292	1.00
100_S	111_V	1.280	1.00
77_L	99_L	1.271	1.00
115_M	119_Q	1.249	1.00
119_Q	124_N	1.249	1.00
26_G	30_A	1.241	1.00
66_L	76_Y	1.237	1.00
80_F	84_C	1.223	1.00
26_G	53_K	1.221	1.00
50_Y	55_N	1.211	1.00
32_L	42_R	1.196	1.00
101_Y	112_I	1.185	1.00
84_C	89_K	1.170	1.00
108_D	111_V	1.169	1.00
39_I	42_R	1.167	1.00
82_S	114_R	1.163	1.00
43_I	65_F	1.160	1.00
46_Y	50_Y	1.158	1.00
139_C	142_D	1.146	1.00
26_G	50_Y	1.126	1.00
112_I	134_H	1.125	1.00
73_N	76_Y	1.100	1.00
105_P	108_D	1.099	1.00
33_H	43_I	1.093	1.00
94_Y	115_M	1.058	1.00
142_D	145_K	1.058	1.00
60_E	80_F	1.044	1.00
113_Y	117_Q	1.026	1.00
51_H	79_D	1.023	1.00
48_F	79_D	1.006	1.00
134_H	138_N	0.996	1.00
101_Y	111_V	0.995	1.00
92_Q	95_D	0.994	1.00
99_L	103_Y	0.985	1.00
44_Y	48_F	0.957	1.00
78_K	114_R	0.948	1.00
81_A	93_A	0.936	1.00
33_H	46_Y	0.934	1.00
67_C	76_Y	0.934	1.00
70_A	73_N	0.931	1.00
109_Y	139_C	0.928	1.00
114_R	117_Q	0.927	1.00
112_I	135_I	0.927	1.00
65_F	69_Y	0.913	1.00
36_T	39_I	0.905	1.00
60_E	83_V	0.904	1.00
43_I	66_L	0.903	1.00
116_G	128_A	0.900	1.00
127_N	130_Q	0.897	1.00
78_K	82_S	0.894	1.00
116_G	135_I	0.890	1.00
85_Q	114_R	0.890	1.00
94_Y	118_C	0.886	1.00
44_Y	76_Y	0.883	1.00
91_Q	122_A	0.880	1.00
57_T	87_K	0.877	1.00
58_D	61_I	0.858	1.00
90_Y	118_C	0.855	1.00
74_H	100_S	0.852	1.00
40_L	66_L	0.844	1.00
47_A	59_A	0.843	1.00
28_N	31_L	0.840	1.00
77_L	100_S	0.839	1.00
131_C	134_H	0.836	1.00
99_L	102_N	0.835	1.00
82_S	85_Q	0.830	1.00
85_Q	121_G	0.828	1.00
120_I	125_I	0.824	1.00
51_H	86_P	0.821	1.00
44_Y	79_D	0.817	1.00
48_F	51_H	0.815	1.00
109_Y	135_I	0.814	1.00
33_H	42_R	0.810	1.00
56_I	83_V	0.804	1.00
135_I	145_K	0.799	1.00
56_I	86_P	0.798	1.00
117_Q	120_I	0.797	1.00
51_H	83_V	0.794	1.00
90_Y	121_G	0.794	1.00
83_V	87_K	0.792	1.00
49_D	53_K	0.788	1.00
62_Y	65_F	0.774	1.00
96_L	99_L	0.764	1.00
32_L	35_L	0.761	1.00
118_C	122_A	0.758	1.00
134_H	137_N	0.748	1.00
117_Q	121_G	0.748	1.00
78_K	108_D	0.743	1.00
74_H	105_P	0.734	1.00
94_Y	124_N	0.734	1.00
120_I	132_F	0.728	1.00
48_F	52_E	0.728	1.00
44_Y	73_N	0.725	1.00
17_N	45_A	0.724	1.00
43_I	69_Y	0.723	1.00
127_N	131_C	0.722	1.00
60_E	89_K	0.719	1.00
112_I	138_N	0.707	1.00
97_Y	118_C	0.705	1.00
45_A	48_F	0.702	1.00
113_Y	135_I	0.702	1.00
85_Q	93_A	0.699	1.00
67_C	80_F	0.688	1.00
26_G	46_Y	0.681	1.00
40_L	70_A	0.676	1.00
23_L	53_K	0.673	1.00
82_S	86_P	0.668	1.00
77_L	103_Y	0.650	1.00
26_G	49_D	0.649	1.00
74_H	108_D	0.647	1.00
31_L	35_L	0.645	1.00
85_Q	90_Y	0.640	1.00
22_A	49_D	0.630	1.00
24_S	27_E	0.630	1.00
56_I	87_K	0.626	1.00
47_A	66_L	0.625	1.00
85_Q	118_C	0.622	1.00
29_L	46_Y	0.621	1.00
100_S	103_Y	0.612	1.00
81_A	100_S	0.611	1.00
65_F	68_I	0.611	1.00
98_K	131_C	0.604	1.00
90_Y	122_A	0.602	1.00
64_K	96_L	0.600	1.00
58_D	62_Y	0.596	1.00
27_E	31_L	0.595	1.00
98_K	119_Q	0.589	1.00
119_Q	122_A	0.588	1.00
51_H	56_I	0.587	1.00
113_Y	142_D	0.584	1.00
28_N	32_L	0.581	1.00
79_D	82_S	0.580	1.00
59_A	83_V	0.579	1.00
136_I	145_K	0.576	1.00
130_Q	134_H	0.571	1.00
120_I	128_A	0.568	1.00
40_L	47_A	0.563	1.00
78_K	111_V	0.563	1.00
125_I	129_M	0.561	1.00
92_Q	96_L	0.548	1.00
59_A	63_Y	0.539	1.00
51_H	59_A	0.533	1.00
133_Y	136_I	0.530	1.00
130_Q	133_Y	0.529	1.00
101_Y	115_M	0.528	1.00
85_Q	117_Q	0.525	1.00
95_D	99_L	0.521	1.00
133_Y	137_N	0.518	1.00
51_H	63_Y	0.518	1.00
25_K	32_L	0.518	1.00
61_I	65_F	0.518	1.00
78_K	110_S	0.515	1.00
93_A	97_Y	0.509	1.00
24_S	28_N	0.506	1.00
66_L	69_Y	0.503	1.00
17_N	22_A	0.503	1.00
22_A	52_E	0.502	1.00
93_A	118_C	0.502	1.00
82_S	97_Y	0.501	1.00
98_K	101_Y	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
2pziA	1	0.9571	99.8	0.133	Contact Map
4l9pA	1	0.9939	99.8	0.167	Contact Map
3dssA	1	0.9816	99.8	0.17	Contact Map
3q7aA	1	0.9755	99.8	0.173	Contact Map
2h6fA	1	0.9939	99.7	0.177	Contact Map
2e2eA	2	0.9632	99.7	0.179	Contact Map
1dceA	1	0.9939	99.7	0.181	Contact Map
2vsyA	1	0.7669	99.7	0.184	Contact Map
3urzA	1	0.9509	99.7	0.187	Contact Map
4gywA	2	0.9816	99.7	0.191	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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