RIFK - HALSA - GREMLIN Contacts

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RIFK - Riboflavin kinase

UniProt:	Q9HNF4	Sequences: MSGATSTGDVGYDELAVLKLLALDGAHRGEVKVSCGDLASRLDASSQTASRRLQALDDADHVTRDLVSDGQWITVTDAGRHALKHEYEDYRRIFEDPGELALAGTVTSGMGEGRHYISLPGYNRQFAEKLGYEPYPGTLNVDLPPDGQRARAGIQALDGVDIDAWEDEDRTYGSATCYACTVVGDGTDFDGAHVIIPDRTHHDDDQLEIIAPVKLRERLGLLDDDEVTIRVEA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	233 (213)
Sequences:	161 (124)
Seq/√Len:	8.5

HALSA - RIFK
SULSO - RIFK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
102_L	143_L	3.436	0.94
21_L	26_A	3.102	0.91
90_Y	94_F	2.974	0.89
132_Y	193_H	2.843	0.86
115_H	165_W	2.745	0.84
174_S	198_D	2.652	0.82
127_A	133_E	2.528	0.79
129_K	163_D	2.425	0.76
159_G	178_Y	2.324	0.72
35_C	202_H	2.095	0.64
23_L	94_F	2.090	0.64
48_T	51_R	2.087	0.64
108_S	114_R	2.048	0.62
222_L	225_D	2.035	0.61
19_K	86_E	2.028	0.61
23_L	90_Y	2.027	0.61
21_L	172_Y	2.024	0.61
194_V	221_L	1.984	0.59
177_C	206_Q	1.954	0.58
71_Q	86_E	1.924	0.57
42_L	52_R	1.878	0.55
53_L	203_D	1.849	0.54
125_Q	129_K	1.820	0.53
45_S	48_T	1.802	0.52
195_I	203_D	1.780	0.51
86_E	90_Y	1.759	0.50
71_Q	126_F	1.745	0.49
34_S	117_I	1.740	0.49
91_R	141_V	1.721	0.48
100_L	198_D	1.718	0.48
115_H	202_H	1.708	0.48
216_R	223_D	1.694	0.47
70_G	147_G	1.651	0.45
126_F	177_C	1.621	0.44
164_A	209_I	1.616	0.44
33_V	182_V	1.614	0.44
102_L	117_I	1.593	0.43
49_A	125_Q	1.577	0.42
106_V	221_L	1.547	0.41
123_N	133_E	1.479	0.38
26_A	161_D	1.477	0.38
167_D	178_Y	1.467	0.38
84_K	93_I	1.465	0.38
75_V	169_D	1.455	0.37
172_Y	197_P	1.447	0.37
114_R	175_A	1.445	0.37
45_S	51_R	1.443	0.37
159_G	176_T	1.441	0.37
191_G	205_D	1.429	0.36
160_V	210_I	1.422	0.36
42_L	47_Q	1.421	0.36
36_G	157_L	1.403	0.35
35_C	71_Q	1.395	0.35
22_A	25_G	1.366	0.34
49_A	90_Y	1.359	0.34
31_V	231_V	1.356	0.34
83_L	197_P	1.355	0.34
125_Q	177_C	1.350	0.33
26_A	84_K	1.349	0.33
49_A	71_Q	1.344	0.33
214_K	217_E	1.338	0.33
32_K	67_V	1.332	0.33
143_L	151_R	1.329	0.33
45_S	86_E	1.323	0.32
47_Q	56_L	1.300	0.32
47_Q	50_S	1.292	0.31
42_L	50_S	1.289	0.31
71_Q	125_Q	1.277	0.31
21_L	58_D	1.276	0.31
159_G	180_C	1.270	0.30
160_V	211_A	1.270	0.30
60_D	73_I	1.254	0.30
93_I	209_I	1.248	0.30
86_E	172_Y	1.240	0.29
94_F	201_H	1.239	0.29
17_V	224_D	1.237	0.29
217_E	229_I	1.227	0.29
179_A	192_A	1.209	0.28
143_L	177_C	1.208	0.28
163_D	195_I	1.207	0.28
28_R	61_H	1.184	0.27
121_G	201_H	1.180	0.27
35_C	115_H	1.179	0.27
142_D	192_A	1.178	0.27
225_D	229_I	1.176	0.27
154_I	231_V	1.176	0.27
217_E	222_L	1.169	0.27
35_C	165_W	1.169	0.27
46_S	206_Q	1.163	0.27
115_H	172_Y	1.149	0.26
216_R	221_L	1.146	0.26
69_D	135_Y	1.144	0.26
184_G	221_L	1.141	0.26
172_Y	202_H	1.133	0.26
63_T	227_V	1.114	0.25
86_E	202_H	1.105	0.25
33_V	196_I	1.104	0.25
36_G	198_D	1.096	0.25
78_A	227_V	1.093	0.25
39_A	231_V	1.093	0.25
117_I	198_D	1.089	0.24
66_L	176_T	1.087	0.24
143_L	201_H	1.084	0.24
62_V	126_F	1.083	0.24
130_L	223_D	1.072	0.24
215_L	219_L	1.066	0.24
102_L	175_A	1.066	0.24
191_G	204_D	1.060	0.24
58_D	227_V	1.057	0.23
67_V	72_W	1.057	0.23
164_A	192_A	1.048	0.23
76_T	87_Y	1.040	0.23
18_L	79_G	1.029	0.23
102_L	167_D	1.029	0.23
166_E	190_D	1.018	0.22
172_Y	209_I	1.010	0.22
90_Y	175_A	1.009	0.22
19_K	71_Q	1.009	0.22
34_S	86_E	1.002	0.22
25_G	143_L	1.002	0.22
172_Y	203_D	0.999	0.22
192_A	212_P	0.997	0.22
38_L	47_Q	0.997	0.22
119_L	124_R	0.993	0.22
75_V	79_G	0.989	0.21
124_R	144_P	0.983	0.21
141_V	209_I	0.979	0.21
135_Y	182_V	0.975	0.21
46_S	50_S	0.973	0.21
49_A	64_R	0.963	0.21
19_K	93_I	0.961	0.21
45_S	197_P	0.960	0.21
31_V	75_V	0.960	0.21
33_V	44_A	0.956	0.21
64_R	143_L	0.956	0.21
77_D	209_I	0.955	0.20
164_A	198_D	0.952	0.20
51_R	197_P	0.949	0.20
102_L	147_G	0.948	0.20
68_S	225_D	0.946	0.20
119_L	151_R	0.940	0.20
52_R	56_L	0.935	0.20
141_V	200_T	0.934	0.20
53_L	143_L	0.932	0.20
19_K	90_Y	0.929	0.20
45_S	49_A	0.928	0.20
39_A	47_Q	0.924	0.20
178_Y	190_D	0.917	0.19
35_C	50_S	0.912	0.19
71_Q	93_I	0.909	0.19
54_Q	202_H	0.891	0.19
64_R	126_F	0.890	0.19
86_E	197_P	0.889	0.19
215_L	223_D	0.886	0.19
107_T	142_D	0.882	0.19
29_G	70_G	0.876	0.18
48_T	177_C	0.876	0.18
106_V	169_D	0.871	0.18
73_I	106_V	0.866	0.18
55_A	102_L	0.861	0.18
208_E	216_R	0.850	0.18
132_Y	203_D	0.849	0.18
177_C	195_I	0.846	0.18
86_E	93_I	0.839	0.17
135_Y	214_K	0.839	0.17
49_A	87_Y	0.834	0.17
178_Y	211_A	0.833	0.17
117_I	141_V	0.830	0.17
120_P	190_D	0.830	0.17
125_Q	171_T	0.828	0.17
19_K	23_L	0.827	0.17
67_V	102_L	0.822	0.17
100_L	207_L	0.820	0.17
17_V	21_L	0.817	0.17
135_Y	222_L	0.816	0.17
75_V	181_T	0.813	0.17
178_Y	207_L	0.812	0.17
43_D	65_D	0.812	0.17
50_S	192_A	0.812	0.17
99_E	194_V	0.811	0.17
44_A	59_A	0.810	0.17
57_D	62_V	0.808	0.17
69_D	80_R	0.808	0.17
143_L	175_A	0.802	0.17
71_Q	87_Y	0.801	0.17
86_E	114_R	0.789	0.16
139_L	221_L	0.783	0.16
56_L	70_G	0.782	0.16
110_M	203_D	0.780	0.16
86_E	125_Q	0.780	0.16
66_L	100_L	0.779	0.16
36_G	155_Q	0.777	0.16
53_L	160_V	0.771	0.16
135_Y	168_E	0.766	0.16
132_Y	177_C	0.764	0.16
27_H	159_G	0.764	0.16
132_Y	195_I	0.752	0.15
34_S	38_L	0.751	0.15
22_A	51_R	0.747	0.15
191_G	226_E	0.737	0.15
154_I	229_I	0.737	0.15
53_L	70_G	0.737	0.15
81_H	92_R	0.735	0.15
75_V	85_H	0.730	0.15
41_R	82_A	0.728	0.15
176_T	196_I	0.728	0.15
37_D	152_A	0.724	0.15
174_S	197_P	0.717	0.15
20_L	46_S	0.717	0.15
119_L	211_A	0.715	0.15
164_A	172_Y	0.715	0.15
83_L	223_D	0.714	0.15
45_S	172_Y	0.711	0.15
44_A	172_Y	0.706	0.14
36_G	42_L	0.697	0.14
21_L	28_R	0.696	0.14
192_A	209_I	0.696	0.14
36_G	159_G	0.694	0.14
145_P	205_D	0.690	0.14
73_I	108_S	0.687	0.14
73_I	200_T	0.684	0.14
27_H	205_D	0.681	0.14
60_D	106_V	0.681	0.14
110_M	132_Y	0.674	0.14
114_R	213_V	0.666	0.14
61_H	87_Y	0.658	0.13
30_E	124_R	0.657	0.13
80_R	190_D	0.657	0.13
133_E	211_A	0.656	0.13
39_A	42_L	0.656	0.13
119_L	171_T	0.654	0.13
54_Q	70_G	0.653	0.13
220_G	225_D	0.652	0.13
48_T	197_P	0.651	0.13
142_D	202_H	0.649	0.13
102_L	177_C	0.641	0.13
174_S	191_G	0.637	0.13
154_I	172_Y	0.637	0.13
48_T	143_L	0.636	0.13
181_T	191_G	0.634	0.13
21_L	66_L	0.634	0.13
31_V	157_L	0.633	0.13
101_A	135_Y	0.626	0.13
22_A	90_Y	0.626	0.13
133_E	141_V	0.626	0.13
143_L	172_Y	0.622	0.13
82_A	231_V	0.619	0.13
132_Y	163_D	0.617	0.13
208_E	215_L	0.617	0.13
85_H	89_D	0.613	0.13
127_A	182_V	0.611	0.13
49_A	86_E	0.605	0.12
135_Y	166_E	0.602	0.12
91_R	95_E	0.600	0.12
129_K	193_H	0.600	0.12
144_P	201_H	0.597	0.12
15_L	196_I	0.597	0.12
95_E	181_T	0.595	0.12
75_V	123_N	0.593	0.12
57_D	136_P	0.591	0.12
33_V	77_D	0.591	0.12
141_V	230_R	0.585	0.12
19_K	197_P	0.583	0.12
60_D	162_I	0.581	0.12
31_V	163_D	0.578	0.12
128_E	164_A	0.577	0.12
129_K	160_V	0.574	0.12
83_L	111_G	0.572	0.12
50_S	114_R	0.571	0.12
59_A	110_M	0.571	0.12
195_I	221_L	0.569	0.12
118_S	131_G	0.565	0.12
29_G	181_T	0.562	0.12
117_I	129_K	0.562	0.12
116_Y	172_Y	0.558	0.12
61_H	166_E	0.558	0.12
88_E	218_R	0.557	0.12
200_T	211_A	0.556	0.12
107_T	206_Q	0.554	0.12
116_Y	164_A	0.554	0.12
50_S	54_Q	0.553	0.12
22_A	94_F	0.551	0.12
116_Y	171_T	0.549	0.11
136_P	203_D	0.548	0.11
160_V	229_I	0.548	0.11
78_A	146_D	0.547	0.11
74_T	128_E	0.539	0.11
75_V	81_H	0.537	0.11
15_L	22_A	0.536	0.11
36_G	224_D	0.535	0.11
108_S	192_A	0.533	0.11
57_D	64_R	0.532	0.11
194_V	198_D	0.532	0.11
69_D	94_F	0.530	0.11
69_D	151_R	0.529	0.11
61_H	98_G	0.527	0.11
124_R	229_I	0.526	0.11
94_F	147_G	0.526	0.11
62_V	131_G	0.525	0.11
71_Q	90_Y	0.524	0.11
58_D	196_I	0.523	0.11
105_T	222_L	0.521	0.11
59_A	120_P	0.520	0.11
123_N	127_A	0.519	0.11
88_E	153_G	0.513	0.11
75_V	127_A	0.512	0.11
150_A	203_D	0.511	0.11
222_L	230_R	0.510	0.11
116_Y	165_W	0.509	0.11
212_P	231_V	0.504	0.11
83_L	219_L	0.503	0.11
61_H	205_D	0.503	0.11
78_A	229_I	0.502	0.11
95_E	125_Q	0.502	0.11
132_Y	194_V	0.501	0.11
48_T	71_Q	0.501	0.11
95_E	202_H	0.501	0.11
82_A	183_V	0.500	0.11
61_H	85_H	0.500	0.11
58_D	157_L	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
2oynA	2	0.5708	100	0.484	Contact Map
3ctaA	2	0.8026	100	0.717	Contact Map
2p8tA	1	0.6652	99.8	0.792	Contact Map
2obpA	1	0.3348	99.1	0.871	Contact Map
1hsjA	2	0.3948	99	0.875	Contact Map
4l9nA	2	0.5064	98.9	0.882	Contact Map
1p4xA	1	0.4249	98.8	0.883	Contact Map
2qvoA	2	0.3734	98.8	0.883	Contact Map
3e6mA	2	0.4893	98.8	0.885	Contact Map
4asnA	2	0.3777	98.8	0.886	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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