Phage_TAC_11 - PFAM28P - GREMLIN Contacts

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Phage_TAC_11 - Phage tail tube protein, GTA-gp10

PFAM:	PF11836	Sequences: RGEVELVLGGEERTLRLTLGALAELEAALGAGLFALVERFESGRLSARDLLALIRAGLRGGGEDVTDADVLAAVIEGGRPLAGAARIAAALLAAAFGG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	98 (95)
Sequences:	3413 (2404)
Seq/√Len:	246.7
META:	0.834

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
18_T	21_A	3.860	1.00
5_E	12_E	3.841	1.00
7_V	12_E	3.335	1.00
39_R	49_D	2.740	1.00
35_A	44_R	2.621	1.00
23_A	48_R	2.480	1.00
26_E	33_L	2.443	1.00
13_R	63_E	2.196	1.00
86_R	90_A	2.125	1.00
29_L	36_L	2.116	1.00
55_R	67_D	2.106	1.00
24_E	59_R	1.839	1.00
66_T	69_D	1.831	1.00
1_R	16_R	1.733	1.00
55_R	59_R	1.673	1.00
31_A	39_R	1.671	1.00
50_L	88_A	1.652	1.00
6_L	87_I	1.596	1.00
28_A	52_A	1.492	1.00
91_L	95_A	1.488	1.00
5_E	14_T	1.431	1.00
90_A	94_A	1.347	1.00
3_E	16_R	1.334	1.00
54_I	91_L	1.305	1.00
58_L	70_V	1.271	1.00
34_F	38_E	1.263	1.00
7_V	10_G	1.233	1.00
38_E	44_R	1.199	1.00
27_A	46_S	1.186	1.00
57_G	91_L	1.161	1.00
75_I	84_A	1.160	1.00
89_A	93_A	1.155	1.00
37_V	41_E	1.141	1.00
50_L	84_A	1.129	1.00
83_G	86_R	1.128	1.00
29_L	52_A	1.127	1.00
3_E	14_T	1.096	1.00
54_I	84_A	1.079	1.00
31_A	36_L	1.073	1.00
68_A	72_A	1.064	1.00
31_A	35_A	1.058	1.00
13_R	58_L	1.032	1.00
29_L	32_G	1.024	1.00
51_L	77_G	1.016	1.00
9_G	74_V	1.007	1.00
8_L	13_R	1.001	1.00
30_G	46_S	0.973	1.00
22_L	33_L	0.966	1.00
24_E	28_A	0.966	1.00
6_L	15_L	0.964	1.00
83_G	87_I	0.955	1.00
21_A	56_A	0.951	1.00
34_F	45_L	0.938	1.00
24_E	56_A	0.936	1.00
8_L	15_L	0.923	1.00
64_D	72_A	0.917	1.00
45_L	85_A	0.885	1.00
32_G	35_A	0.880	1.00
19_L	23_A	0.877	1.00
38_E	42_S	0.869	0.99
73_A	78_G	0.862	0.99
27_A	48_R	0.861	0.99
94_A	97_G	0.860	0.99
4_V	7_V	0.860	0.99
82_A	86_R	0.855	0.99
87_I	91_L	0.848	0.99
51_L	70_V	0.836	0.99
10_G	75_I	0.834	0.99
17_L	91_L	0.829	0.99
17_L	57_G	0.828	0.99
88_A	92_L	0.818	0.99
68_A	71_L	0.817	0.99
10_G	13_R	0.805	0.99
15_L	87_I	0.799	0.99
69_D	73_A	0.799	0.99
65_V	73_A	0.790	0.99
59_R	62_G	0.776	0.99
70_V	74_V	0.772	0.99
52_A	56_A	0.762	0.99
64_D	67_D	0.759	0.99
25_L	57_G	0.750	0.98
84_A	87_I	0.746	0.98
52_A	55_R	0.742	0.98
54_I	88_A	0.737	0.98
70_V	73_A	0.735	0.98
51_L	71_L	0.725	0.98
15_L	91_L	0.699	0.98
7_V	76_E	0.694	0.97
26_E	48_R	0.689	0.97
72_A	76_E	0.686	0.97
85_A	89_A	0.679	0.97
40_F	53_L	0.675	0.97
1_R	15_L	0.675	0.97
67_D	70_V	0.673	0.97
38_E	41_E	0.663	0.97
35_A	38_E	0.645	0.96
25_L	36_L	0.644	0.96
57_G	61_G	0.643	0.96
81_L	84_A	0.641	0.96
40_F	92_L	0.633	0.96
34_F	85_A	0.630	0.95
90_A	93_A	0.629	0.95
34_F	41_E	0.628	0.95
65_V	69_D	0.628	0.95
76_E	84_A	0.625	0.95
46_S	49_D	0.625	0.95
34_F	50_L	0.620	0.95
20_G	24_E	0.614	0.95
13_R	61_G	0.607	0.95
31_A	46_S	0.605	0.94
25_L	56_A	0.603	0.94
64_D	68_A	0.600	0.94
25_L	40_F	0.599	0.94
16_R	20_G	0.593	0.94
25_L	53_L	0.593	0.94
23_A	47_A	0.592	0.94
31_A	34_F	0.587	0.93
11_E	64_D	0.584	0.93
40_F	85_A	0.582	0.93
81_L	85_A	0.579	0.93
20_G	23_A	0.575	0.93
57_G	60_G	0.574	0.93
19_L	25_L	0.573	0.93
19_L	47_A	0.572	0.93
85_A	93_A	0.565	0.92
74_V	78_G	0.561	0.92
58_L	61_G	0.560	0.92
55_R	65_V	0.557	0.92
30_G	35_A	0.555	0.91
53_L	88_A	0.552	0.91
9_G	13_R	0.548	0.91
31_A	37_V	0.541	0.90
59_R	68_A	0.537	0.90
29_L	53_L	0.520	0.89
77_G	84_A	0.519	0.89
19_L	77_G	0.518	0.88
35_A	46_S	0.515	0.88
51_L	74_V	0.513	0.88
38_E	43_G	0.512	0.88
54_I	57_G	0.509	0.88
17_L	60_G	0.501	0.87
32_G	46_S	0.500	0.87

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
2lojA	1	0.2755	19.6	0.865	Contact Map
4ynxA	2	0.2755	18.9	0.866	Contact Map
2jraA	2	0.2755	17.8	0.868	Contact Map
4p1mA	4	0.9286	6.7	0.891	Contact Map
2lc0A	1	0.8469	5.3	0.896	Contact Map
4e1rA	2	0.4082	5.1	0.896	Contact Map
1t3uA	4	0.9286	4.3	0.9	Contact Map
2mmvA	2	0.7959	4.3	0.9	Contact Map
4e1pA	2	0.4082	4.2	0.901	Contact Map
1b7yB	2	0.3878	3.9	0.902	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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