YIZA - BACSU - GREMLIN Contacts

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YIZA - Uncharacterized protein YizA

UniProt:	Q7WY73	Sequences: MMKFFEYNWQVRDQWFTWCHQLTTEELLKNRLGGVENILYTLFHIIDVEYSWIRAIQGKEDIAVQFADYQTLNKVKSLSNTFRTEIIDVLQTHSDQIKDELVSVPWETGVLYTRDEILHHIIAHEIHHIGQLSVWARELKLSPVSASFIGRTLKPIHSY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	159 (152)
Sequences:	131 (104)
Seq/√Len:	8.4

BACSU - YIZA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
16_F	79_S	4.258	0.98
115_D	119_H	3.598	0.96
112_Y	150_G	2.607	0.80
86_I	90_L	2.512	0.78
13_D	83_R	2.351	0.73
62_I	82_F	2.324	0.72
98_K	115_D	2.308	0.71
51_S	61_D	2.200	0.67
93_H	119_H	2.159	0.66
10_Q	151_R	2.126	0.65
54_R	85_E	2.125	0.65
98_K	119_H	2.113	0.64
79_S	114_R	2.075	0.63
64_V	82_F	2.049	0.62
3_K	148_F	2.033	0.61
93_H	115_D	2.014	0.60
23_T	29_K	1.954	0.58
50_Y	64_V	1.937	0.57
56_I	102_V	1.901	0.56
54_R	61_D	1.864	0.54
56_I	117_I	1.835	0.53
14_Q	54_R	1.770	0.50
17_T	20_H	1.767	0.50
116_E	152_T	1.727	0.48
54_R	78_L	1.647	0.45
79_S	112_Y	1.643	0.45
94_S	97_I	1.641	0.45
50_Y	79_S	1.634	0.44
23_T	32_L	1.624	0.44
22_L	129_I	1.612	0.43
5_F	8_N	1.580	0.42
101_L	111_L	1.489	0.38
63_A	82_F	1.390	0.35
21_Q	141_L	1.376	0.34
48_V	147_S	1.372	0.34
139_L	144_V	1.368	0.34
129_I	148_F	1.351	0.33
56_I	97_I	1.347	0.33
79_S	118_L	1.341	0.33
61_D	145_S	1.303	0.31
43_F	69_Y	1.296	0.31
55_A	72_L	1.291	0.31
74_K	129_I	1.271	0.30
136_A	150_G	1.270	0.30
41_T	57_Q	1.269	0.30
66_F	74_K	1.254	0.30
72_L	132_L	1.254	0.30
3_K	6_E	1.253	0.30
116_E	123_A	1.249	0.29
14_Q	151_R	1.229	0.29
28_L	75_V	1.228	0.29
66_F	141_L	1.222	0.29
65_Q	69_Y	1.217	0.28
50_Y	86_I	1.205	0.28
37_N	99_D	1.181	0.27
40_Y	117_I	1.181	0.27
72_L	75_V	1.177	0.27
114_R	145_S	1.165	0.27
69_Y	74_K	1.159	0.26
27_L	39_L	1.152	0.26
45_I	73_N	1.148	0.26
2_M	117_I	1.145	0.26
18_W	143_P	1.128	0.25
67_A	121_I	1.122	0.25
78_L	82_F	1.115	0.25
51_S	59_K	1.114	0.25
4_F	151_R	1.109	0.25
43_F	66_F	1.104	0.25
65_Q	139_L	1.085	0.24
10_Q	129_I	1.084	0.24
48_V	51_S	1.074	0.24
116_E	147_S	1.072	0.24
1_M	8_N	1.069	0.24
87_I	91_Q	1.069	0.24
134_V	148_F	1.066	0.24
6_E	87_I	1.054	0.23
104_V	150_G	1.043	0.23
59_K	85_E	1.041	0.23
102_V	114_R	1.018	0.22
16_F	114_R	1.018	0.22
119_H	140_K	1.009	0.22
17_T	77_S	1.005	0.22
53_I	146_A	0.992	0.21
50_Y	114_R	0.985	0.21
94_S	141_L	0.983	0.21
61_D	82_F	0.974	0.21
45_I	125_E	0.970	0.21
39_L	58_G	0.970	0.21
118_L	153_L	0.967	0.21
32_L	99_D	0.943	0.20
147_S	152_T	0.943	0.20
104_V	118_L	0.942	0.20
73_N	77_S	0.935	0.20
77_S	89_V	0.926	0.20
23_T	70_Q	0.925	0.20
123_A	146_A	0.914	0.19
65_Q	96_Q	0.908	0.19
1_M	5_F	0.907	0.19
100_E	134_V	0.907	0.19
122_I	136_A	0.906	0.19
19_C	48_V	0.889	0.19
90_L	134_V	0.887	0.19
115_D	152_T	0.875	0.18
76_K	86_I	0.868	0.18
7_Y	11_V	0.861	0.18
93_H	140_K	0.844	0.17
102_V	118_L	0.838	0.17
68_D	142_S	0.835	0.17
98_K	109_G	0.834	0.17
98_K	152_T	0.830	0.17
114_R	117_I	0.825	0.17
4_F	113_T	0.818	0.17
137_R	143_P	0.815	0.17
95_D	111_L	0.811	0.17
113_T	122_I	0.806	0.17
51_S	123_A	0.805	0.17
13_D	151_R	0.800	0.16
116_E	153_L	0.799	0.16
115_D	123_A	0.795	0.16
4_F	85_E	0.788	0.16
93_H	98_K	0.787	0.16
6_E	144_V	0.786	0.16
40_Y	87_I	0.786	0.16
56_I	106_W	0.782	0.16
4_F	64_V	0.781	0.16
117_I	153_L	0.781	0.16
106_W	112_Y	0.780	0.16
6_E	83_R	0.776	0.16
10_Q	79_S	0.775	0.16
51_S	85_E	0.774	0.16
17_T	30_N	0.772	0.16
2_M	103_S	0.770	0.16
61_D	148_F	0.767	0.16
11_V	84_T	0.761	0.16
75_V	86_I	0.759	0.16
21_Q	104_V	0.757	0.15
77_S	81_T	0.756	0.15
123_A	126_I	0.756	0.15
46_I	82_F	0.755	0.15
90_L	118_L	0.752	0.15
66_F	150_G	0.751	0.15
6_E	84_T	0.747	0.15
56_I	114_R	0.747	0.15
25_E	71_T	0.744	0.15
14_Q	125_E	0.743	0.15
145_S	150_G	0.743	0.15
2_M	104_V	0.742	0.15
89_V	93_H	0.715	0.15
10_Q	13_D	0.712	0.14
73_N	121_I	0.712	0.14
14_Q	71_T	0.712	0.14
76_K	80_N	0.685	0.14
100_E	114_R	0.682	0.14
102_V	150_G	0.679	0.14
46_I	73_N	0.679	0.14
54_R	88_D	0.679	0.14
109_G	140_K	0.679	0.14
85_E	151_R	0.673	0.14
70_Q	74_K	0.671	0.14
2_M	6_E	0.666	0.14
5_F	9_W	0.664	0.14
102_V	108_T	0.663	0.14
127_H	133_S	0.656	0.13
71_T	153_L	0.650	0.13
75_V	153_L	0.644	0.13
23_T	106_W	0.644	0.13
95_D	142_S	0.640	0.13
82_F	146_A	0.640	0.13
63_A	108_T	0.639	0.13
23_T	151_R	0.638	0.13
99_D	103_S	0.638	0.13
41_T	48_V	0.638	0.13
86_I	119_H	0.635	0.13
46_I	64_V	0.632	0.13
88_D	103_S	0.626	0.13
28_L	66_F	0.623	0.13
2_M	136_A	0.620	0.13
120_H	133_S	0.619	0.13
120_H	127_H	0.619	0.13
11_V	129_I	0.616	0.13
47_D	51_S	0.611	0.13
16_F	112_Y	0.611	0.13
56_I	148_F	0.609	0.12
60_E	86_I	0.591	0.12
21_Q	144_V	0.589	0.12
43_F	97_I	0.584	0.12
21_Q	106_W	0.584	0.12
4_F	96_Q	0.580	0.12
107_E	112_Y	0.577	0.12
54_R	64_V	0.577	0.12
94_S	139_L	0.572	0.12
32_L	100_E	0.572	0.12
22_L	74_K	0.570	0.12
90_L	98_K	0.567	0.12
32_L	94_S	0.565	0.12
121_I	152_T	0.563	0.12
123_A	152_T	0.562	0.12
29_K	46_I	0.561	0.12
96_Q	144_V	0.560	0.12
28_L	117_I	0.559	0.12
64_V	114_R	0.558	0.12
68_D	139_L	0.558	0.12
76_K	100_E	0.556	0.12
88_D	148_F	0.555	0.12
30_N	139_L	0.553	0.11
48_V	85_E	0.552	0.11
104_V	107_E	0.552	0.11
37_N	86_I	0.550	0.11
82_F	137_R	0.550	0.11
39_L	75_V	0.546	0.11
13_D	43_F	0.540	0.11
71_T	90_L	0.540	0.11
111_L	139_L	0.535	0.11
136_A	152_T	0.534	0.11
6_E	57_Q	0.534	0.11
36_E	75_V	0.532	0.11
60_E	84_T	0.531	0.11
80_N	101_L	0.531	0.11
106_W	121_I	0.527	0.11
18_W	129_I	0.525	0.11
106_W	134_V	0.524	0.11
55_A	136_A	0.519	0.11
6_E	73_N	0.516	0.11
55_A	87_I	0.513	0.11
93_H	152_T	0.509	0.11
66_F	94_S	0.508	0.11
65_Q	76_K	0.507	0.11
25_E	65_Q	0.500	0.11

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
2qe9A	2	1	100	0.687	Contact Map
3gorA	2	0.9371	99.8	0.775	Contact Map
2qnlA	2	0.8553	99.7	0.781	Contact Map
3dkaA	2	0.9371	99.7	0.784	Contact Map
2hkvA	2	0.8994	99.7	0.787	Contact Map
2f22A	2	0.8868	99.7	0.79	Contact Map
2p1aA	2	0.8868	99.7	0.792	Contact Map
2ou6A	2	0.8491	99.7	0.792	Contact Map
3cexA	2	0.8805	99.7	0.793	Contact Map
3di5A	1	0.9057	99.6	0.802	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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