PP2 - PFAM28P - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

PP2 - Phloem protein 2

PFAM:	PF14299	Sequences: KKCYMLSARALSITWGDDPRYWRWISKLPESRFSEVAELLQVCWLEIRGKIETRMLSPGTTYAAYFVFKLGDRAYGWDIKPVEFSVSLGGPKEREDGWMEIELGEFFNEDGEVEFSLYEIDGGHWKGGLIVEGIEIRP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	138 (136)
Sequences:	1161 (790)
Seq/√Len:	67.7
META:	0.053

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
43_C	125_W	5.081	1.00
15_W	44_W	4.054	1.00
47_I	131_V	3.067	1.00
9_R	35_E	2.909	1.00
75_Y	127_G	2.901	1.00
106_F	113_V	2.600	1.00
15_W	21_Y	2.516	1.00
49_G	115_F	2.507	1.00
41_Q	127_G	2.457	1.00
115_F	136_I	2.227	1.00
9_R	24_W	2.216	1.00
100_E	137_R	2.173	1.00
41_Q	125_W	2.049	1.00
13_I	37_A	1.967	1.00
21_Y	44_W	1.920	1.00
23_R	38_E	1.886	1.00
15_W	42_V	1.832	1.00
21_Y	43_C	1.820	1.00
43_C	123_G	1.808	1.00
59_G	108_N	1.807	1.00
50_K	112_E	1.758	1.00
70_L	77_W	1.697	1.00
77_W	82_V	1.696	1.00
31_S	132_E	1.572	0.99
8_A	11_L	1.568	0.99
66_F	117_L	1.512	0.99
94_R	100_E	1.510	0.99
38_E	71_G	1.472	0.99
83_E	121_D	1.448	0.98
8_A	24_W	1.410	0.98
65_Y	137_R	1.408	0.98
56_L	60_T	1.405	0.98
5_M	67_V	1.396	0.98
23_R	40_L	1.378	0.98
66_F	103_L	1.362	0.98
22_W	128_G	1.360	0.98
14_T	46_E	1.348	0.97
46_E	120_I	1.346	0.97
9_R	13_I	1.340	0.97
94_R	97_G	1.308	0.97
13_I	22_W	1.291	0.97
64_A	134_I	1.262	0.96
52_E	112_E	1.242	0.96
96_D	100_E	1.238	0.96
14_T	125_W	1.222	0.95
115_F	134_I	1.194	0.95
39_L	44_W	1.186	0.95
8_A	131_V	1.177	0.94
97_G	100_E	1.147	0.94
46_E	116_S	1.146	0.94
128_G	131_V	1.138	0.93
4_Y	51_I	1.121	0.93
99_M	113_V	1.105	0.92
54_R	92_K	1.084	0.92
57_S	60_T	1.075	0.91
87_S	114_E	1.072	0.91
133_G	137_R	1.064	0.91
4_Y	28_L	1.046	0.90
83_E	86_V	1.044	0.90
15_W	125_W	1.039	0.90
92_K	120_I	1.039	0.90
112_E	115_F	1.035	0.90
86_V	89_G	1.026	0.89
66_F	77_W	1.008	0.88
18_D	21_Y	1.004	0.88
60_T	67_V	0.998	0.88
22_W	49_G	0.995	0.88
6_L	11_L	0.994	0.88
130_I	133_G	0.976	0.87
72_D	88_L	0.965	0.86
23_R	73_R	0.958	0.86
60_T	65_Y	0.956	0.85
41_Q	121_D	0.939	0.84
74_A	81_P	0.935	0.84
91_P	94_R	0.929	0.84
91_P	130_I	0.928	0.84
39_L	46_E	0.921	0.83
30_E	69_K	0.898	0.82
14_T	21_Y	0.898	0.82
39_L	126_K	0.895	0.81
100_E	133_G	0.894	0.81
54_R	84_F	0.884	0.81
14_T	18_D	0.877	0.80
90_G	97_G	0.874	0.80
48_R	118_Y	0.866	0.79
26_S	36_V	0.862	0.79
42_V	126_K	0.852	0.78
116_S	136_I	0.842	0.77
12_S	17_D	0.841	0.77
56_L	62_Y	0.837	0.77
14_T	86_V	0.836	0.77
65_Y	135_E	0.831	0.76
56_L	67_V	0.828	0.76
79_I	82_V	0.822	0.76
42_V	125_W	0.822	0.76
44_W	126_K	0.822	0.76
15_W	18_D	0.812	0.75
91_P	97_G	0.812	0.75
2_K	132_E	0.805	0.74
100_E	107_F	0.799	0.74
45_L	84_F	0.797	0.73
20_R	41_Q	0.797	0.73
83_E	89_G	0.796	0.73
43_C	124_H	0.794	0.73
2_K	7_S	0.789	0.73
98_W	104_G	0.785	0.72
59_G	71_G	0.781	0.72
60_T	101_I	0.780	0.72
72_D	124_H	0.772	0.71
68_F	84_F	0.758	0.70
68_F	89_G	0.757	0.69
6_L	101_I	0.754	0.69
51_I	56_L	0.753	0.69
79_I	90_G	0.751	0.69
13_I	21_Y	0.743	0.68
40_L	125_W	0.740	0.68
22_W	39_L	0.739	0.68
58_P	62_Y	0.737	0.67
61_T	107_F	0.734	0.67
81_P	122_G	0.729	0.67
5_M	133_G	0.728	0.66
45_L	50_K	0.727	0.66
45_L	129_L	0.727	0.66
65_Y	133_G	0.725	0.66
75_Y	78_D	0.719	0.66
52_E	111_G	0.706	0.64
96_D	102_E	0.706	0.64
24_W	37_A	0.705	0.64
52_E	117_L	0.705	0.64
53_T	113_V	0.696	0.63
41_Q	75_Y	0.694	0.63
114_E	127_G	0.691	0.62
11_L	134_I	0.684	0.62
33_F	102_E	0.674	0.61
13_I	110_D	0.669	0.60
59_G	63_A	0.662	0.59
109_E	112_E	0.658	0.59
100_E	135_E	0.657	0.59
35_E	64_A	0.652	0.58
3_C	7_S	0.650	0.58
7_S	33_F	0.649	0.58
6_L	93_E	0.648	0.58
76_G	126_K	0.646	0.57
56_L	69_K	0.642	0.57
32_R	96_D	0.640	0.57
45_L	56_L	0.640	0.57
77_W	84_F	0.639	0.56
7_S	46_E	0.638	0.56
31_S	67_V	0.632	0.56
8_A	37_A	0.631	0.56
92_K	136_I	0.629	0.55
20_R	23_R	0.625	0.55
14_T	44_W	0.618	0.54
15_W	43_C	0.617	0.54
15_W	22_W	0.612	0.53
11_L	50_K	0.609	0.53
30_E	46_E	0.609	0.53
8_A	67_V	0.609	0.53
16_G	19_P	0.596	0.51
23_R	99_M	0.591	0.51
7_S	136_I	0.588	0.50
25_I	38_E	0.588	0.50
119_E	128_G	0.588	0.50
20_R	54_R	0.587	0.50
33_F	100_E	0.583	0.50
117_L	131_V	0.583	0.50
13_I	24_W	0.582	0.50
63_A	67_V	0.582	0.50
23_R	82_V	0.578	0.49
74_A	124_H	0.578	0.49
106_F	111_G	0.578	0.49
105_E	136_I	0.577	0.49
18_D	131_V	0.575	0.49
45_L	118_Y	0.570	0.48
119_E	124_H	0.568	0.48
26_S	29_P	0.567	0.48
63_A	137_R	0.567	0.48
116_S	122_G	0.560	0.47
45_L	117_L	0.558	0.47
50_K	114_E	0.553	0.46
18_D	123_G	0.553	0.46
76_G	81_P	0.551	0.46
10_A	136_I	0.550	0.46
53_T	58_P	0.546	0.45
72_D	79_I	0.545	0.45
40_L	70_L	0.545	0.45
71_G	101_I	0.541	0.45
69_K	130_I	0.539	0.45
71_G	127_G	0.538	0.44
61_T	115_F	0.538	0.44
4_Y	38_E	0.535	0.44
77_W	101_I	0.533	0.44
47_I	71_G	0.531	0.44
20_R	71_G	0.531	0.44
72_D	113_V	0.531	0.44
133_G	138_P	0.528	0.43
34_S	63_A	0.525	0.43
61_T	117_L	0.521	0.42
35_E	111_G	0.519	0.42
24_W	56_L	0.519	0.42
29_P	36_V	0.513	0.42
64_A	67_V	0.510	0.41
53_T	82_V	0.507	0.41
6_L	10_A	0.500	0.40

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
1dyoA	1	0.9203	46.9	0.916	Contact Map
4xupA	1	0.9275	11	0.938	Contact Map
1bquA	2	0.6739	8.5	0.941	Contact Map
4xurA	1	0.8986	8.3	0.942	Contact Map
2q7nA	3	0.6087	5.7	0.946	Contact Map
4xuoA	1	0.8986	5.6	0.946	Contact Map
1i1rA	1	0.6159	5.1	0.947	Contact Map
3csgA	1	0.5362	5	0.947	Contact Map
2ocfD	1	0.5797	4.9	0.948	Contact Map
1fnfA	1	0.587	4.8	0.948	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.

Page generated in 0.0057 seconds.