RL24 - HALSA - GREMLIN Contacts

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RL24 - 50S ribosomal protein L24P

UniProt:	Q9HPC3	Sequences: MSEQPHKQRTRTKRASLHEKQDQVRATLSEELREEYGQRNVRVNVGDTVEVMRGDDAGEDGEVTDVDLRDAEVFVEGVTVEAADGEETPRPVESSNLRVTDLDLDDDMRVERLEGDNE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	118 (114)
Sequences:	478 (280)
Seq/√Len:	26.2

HALSA - RL24
SULSO - RL24

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
73_V	97_L	6.926	1.00
52_M	98_R	3.406	1.00
33_R	39_R	2.611	0.99
38_Q	113_L	2.499	0.99
23_Q	71_A	2.312	0.98
2_S	8_Q	2.191	0.97
112_R	115_G	2.170	0.97
27_T	97_L	2.126	0.97
41_V	99_V	2.076	0.96
16_S	19_E	1.845	0.93
63_V	73_V	1.843	0.93
78_V	90_R	1.763	0.91
27_T	52_M	1.733	0.91
24_V	42_R	1.693	0.90
74_F	91_P	1.686	0.89
17_L	21_Q	1.617	0.87
75_V	78_V	1.616	0.87
5_P	12_T	1.595	0.87
53_R	58_G	1.562	0.85
5_P	9_R	1.534	0.84
21_Q	68_L	1.516	0.84
33_R	58_G	1.462	0.81
51_V	78_V	1.429	0.80
28_L	32_L	1.402	0.78
37_G	113_L	1.400	0.78
22_D	116_D	1.390	0.78
41_V	113_L	1.300	0.73
19_E	22_D	1.295	0.73
82_A	85_G	1.287	0.72
22_D	69_R	1.276	0.71
43_V	73_V	1.230	0.69
79_T	89_P	1.228	0.68
38_Q	41_V	1.219	0.68
24_V	68_L	1.218	0.68
64_T	74_F	1.212	0.67
43_V	71_A	1.200	0.67
5_P	13_K	1.199	0.67
41_V	102_L	1.193	0.66
37_G	45_V	1.191	0.66
51_V	75_V	1.185	0.66
84_D	103_D	1.175	0.65
55_D	59_E	1.173	0.65
110_V	116_D	1.157	0.64
56_D	59_E	1.145	0.63
19_E	58_G	1.139	0.63
104_L	113_L	1.138	0.62
42_R	71_A	1.132	0.62
14_R	114_E	1.118	0.61
26_A	101_D	1.106	0.60
50_E	98_R	1.100	0.60
35_E	38_Q	1.097	0.60
30_E	43_V	1.085	0.59
56_D	90_R	1.064	0.57
39_R	96_N	1.060	0.57
36_Y	113_L	1.047	0.56
62_E	76_E	1.037	0.55
27_T	96_N	1.026	0.54
12_T	23_Q	1.018	0.54
70_D	107_D	1.007	0.53
17_L	68_L	1.005	0.53
20_K	109_R	1.004	0.53
61_G	75_V	1.001	0.53
30_E	99_V	0.995	0.52
60_D	100_T	0.983	0.51
79_T	110_V	0.974	0.51
47_D	109_R	0.968	0.50
62_E	107_D	0.965	0.50
42_R	113_L	0.961	0.50
70_D	82_A	0.950	0.49
51_V	92_V	0.941	0.48
67_D	70_D	0.938	0.48
45_V	73_V	0.930	0.47
54_G	66_V	0.925	0.47
80_V	90_R	0.914	0.46
25_R	40_N	0.909	0.46
30_E	35_E	0.909	0.46
54_G	61_G	0.906	0.46
38_Q	99_V	0.897	0.45
9_R	20_K	0.881	0.44
72_E	93_E	0.871	0.43
48_T	100_T	0.865	0.43
25_R	42_R	0.846	0.41
2_S	101_D	0.838	0.41
50_E	58_G	0.829	0.40
24_V	71_A	0.821	0.39
58_G	112_R	0.815	0.39
24_V	73_V	0.806	0.38
2_S	63_V	0.805	0.38
47_D	63_V	0.799	0.38
43_V	63_V	0.788	0.37
5_P	14_R	0.786	0.37
9_R	109_R	0.782	0.37
35_E	107_D	0.774	0.36
42_R	68_L	0.760	0.35
33_R	89_P	0.747	0.34
30_E	82_A	0.745	0.34
60_D	111_E	0.744	0.34
29_S	90_R	0.743	0.34
64_T	89_P	0.742	0.34
104_L	108_M	0.742	0.34
10_T	99_V	0.741	0.34
33_R	40_N	0.735	0.33
11_R	49_V	0.733	0.33
36_Y	100_T	0.732	0.33
42_R	112_R	0.725	0.33
25_R	39_R	0.714	0.32
26_A	97_L	0.708	0.32
25_R	105_D	0.707	0.32
55_D	90_R	0.702	0.31
27_T	39_R	0.701	0.31
76_E	81_E	0.699	0.31
51_V	56_D	0.697	0.31
46_G	67_D	0.696	0.31
99_V	115_G	0.693	0.31
65_D	96_N	0.688	0.30
30_E	56_D	0.688	0.30
61_G	109_R	0.686	0.30
41_V	90_R	0.682	0.30
8_Q	69_R	0.678	0.30
36_Y	76_E	0.675	0.30
104_L	110_V	0.674	0.30
30_E	83_A	0.672	0.29
4_Q	68_L	0.670	0.29
83_A	96_N	0.666	0.29
42_R	57_A	0.660	0.29
48_T	84_D	0.658	0.29
8_Q	18_H	0.648	0.28
53_R	96_N	0.645	0.28
2_S	76_E	0.641	0.28
44_N	115_G	0.637	0.27
24_V	66_V	0.636	0.27
5_P	8_Q	0.634	0.27
49_V	76_E	0.631	0.27
16_S	20_K	0.627	0.27
40_N	105_D	0.625	0.27
4_Q	91_P	0.623	0.26
51_V	90_R	0.623	0.26
103_D	114_E	0.618	0.26
32_L	39_R	0.616	0.26
41_V	112_R	0.608	0.26
24_V	28_L	0.605	0.25
39_R	113_L	0.599	0.25
22_D	66_V	0.598	0.25
9_R	53_R	0.598	0.25
110_V	114_E	0.594	0.25
31_E	34_E	0.588	0.25
24_V	94_S	0.587	0.24
51_V	96_N	0.584	0.24
38_Q	116_D	0.572	0.24
27_T	101_D	0.565	0.23
97_L	103_D	0.564	0.23
90_R	113_L	0.557	0.23
48_T	101_D	0.554	0.23
54_G	109_R	0.554	0.23
46_G	87_E	0.552	0.23
59_E	78_V	0.552	0.23
67_D	91_P	0.546	0.22
29_S	98_R	0.543	0.22
38_Q	42_R	0.536	0.22
2_S	45_V	0.530	0.21
26_A	45_V	0.530	0.21
44_N	113_L	0.526	0.21
50_E	77_G	0.525	0.21
40_N	71_A	0.520	0.21
48_T	68_L	0.517	0.21
51_V	114_E	0.517	0.21
60_D	78_V	0.512	0.21
53_R	109_R	0.510	0.20
12_T	72_E	0.508	0.20
42_R	94_S	0.501	0.20
14_R	18_H	0.500	0.20

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
3j61Y	1	0.9915	100	0.233	Contact Map
4ujrL	1	0.9915	100	0.241	Contact Map
3zf7Z	1	0.9915	100	0.241	Contact Map
1vx7Z	1	0.9831	100	0.242	Contact Map
1vq8T	1	0.9915	100	0.243	Contact Map
4w20Y	1	0.9915	100	0.245	Contact Map
4a17S	1	0.9915	100	0.248	Contact Map
3j21U	1	1	100	0.261	Contact Map
3j7yV	1	0.9068	99.9	0.495	Contact Map
3bboW	1	0.6441	99.9	0.52	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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