LIGB - BACSU - GREMLIN Contacts

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

LIGB - SPBc2 prophage-derived DNA ligase-like protein LigB

UniProt:	O31917	Sequences: MFVSPMLLHSIKEPFNDENYITELKFDGIRLILSKFDNQIKLYTRHNNEVTSKFPELMDLDIPDGTVLDGEVIVAASGGAPDFEAVMERFMSKKSAHNIVYCVFDVIYKDGQSIAAKPLTERKTVLNSLELDHPNVFVIEGTQGNGLAYFNLAKEKNLEGIVIKKANSPYEINKRSHNWLKVINYDYTEVLITGYTKKDIKFLLSYPDGTSAGFMEFMPHAERTKFHSMKQVKSESDEYVFIEPILCNVKHRFKTKHGKLRIPSFESWRV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	270 (266)
Sequences:	4738 (3009)
Seq/√Len:	184.5

BACSU - LIGB LIGD
HALSA - DNLI
SULSO - DNLI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
193_T	205_S	4.786	1.00
117_K	121_E	4.292	1.00
22_T	163_I	4.132	1.00
33_L	42_L	3.188	1.00
41_K	49_E	3.154	1.00
112_Q	117_K	2.993	1.00
112_Q	125_V	2.855	1.00
31_L	42_L	2.761	1.00
106_V	125_V	2.740	1.00
21_I	119_L	2.724	1.00
36_F	65_G	2.644	1.00
21_I	166_A	2.556	1.00
109_K	125_V	2.501	1.00
227_H	230_K	2.494	1.00
121_E	124_T	2.419	1.00
33_L	101_Y	2.414	1.00
70_G	101_Y	2.281	1.00
68_L	103_V	2.186	1.00
65_G	111_G	2.180	1.00
120_T	166_A	2.158	1.00
31_L	72_V	2.140	1.00
64_D	110_D	2.133	1.00
51_T	58_M	2.031	1.00
147_L	151_N	2.004	1.00
187_Y	248_N	1.975	1.00
114_I	125_V	1.958	1.00
251_H	254_K	1.939	1.00
219_P	222_E	1.928	1.00
152_L	156_K	1.887	1.00
171_E	178_N	1.823	1.00
190_V	206_Y	1.817	1.00
197_K	240_V	1.812	1.00
208_D	211_S	1.805	1.00
9_H	177_H	1.792	1.00
34_S	67_V	1.790	1.00
250_K	266_E	1.769	1.00
120_T	167_N	1.766	1.00
124_T	128_S	1.755	1.00
222_E	225_K	1.751	1.00
153_A	184_N	1.727	1.00
115_A	172_I	1.697	1.00
225_K	229_M	1.694	1.00
118_P	121_E	1.663	1.00
23_E	123_K	1.625	1.00
125_V	128_S	1.623	1.00
192_I	247_C	1.621	1.00
22_T	146_G	1.608	1.00
113_S	116_A	1.607	1.00
11_I	180_L	1.599	1.00
35_K	38_N	1.578	1.00
44_T	50_V	1.562	1.00
106_V	129_L	1.561	1.00
163_I	182_V	1.556	1.00
154_K	184_N	1.541	1.00
138_V	141_G	1.522	1.00
74_V	99_I	1.512	1.00
31_L	101_Y	1.499	1.00
34_S	43_Y	1.486	1.00
123_K	127_N	1.474	1.00
145_N	148_A	1.471	1.00
76_A	80_A	1.468	1.00
74_V	97_H	1.459	1.00
217_F	264_S	1.458	1.00
165_K	178_N	1.457	1.00
114_I	117_K	1.443	1.00
151_N	155_E	1.426	1.00
100_V	137_F	1.425	1.00
123_K	141_G	1.384	1.00
171_E	174_K	1.383	1.00
117_K	125_V	1.381	1.00
190_V	204_L	1.373	1.00
148_A	152_L	1.364	1.00
56_E	89_R	1.356	1.00
228_S	231_Q	1.342	1.00
206_Y	212_A	1.332	1.00
54_F	90_F	1.316	1.00
40_I	58_M	1.311	1.00
66_T	109_K	1.303	1.00
247_C	265_F	1.283	1.00
73_I	102_C	1.256	1.00
57_L	60_L	1.252	1.00
224_T	228_S	1.249	1.00
221_A	224_T	1.237	1.00
57_L	72_V	1.209	1.00
21_I	123_K	1.199	1.00
63_P	66_T	1.196	1.00
119_L	123_K	1.194	1.00
153_A	158_L	1.192	1.00
234_S	237_D	1.185	1.00
229_M	245_I	1.184	1.00
258_G	262_I	1.181	1.00
252_R	262_I	1.181	1.00
24_L	158_L	1.176	1.00
152_L	155_E	1.174	1.00
168_S	178_N	1.171	1.00
258_G	261_R	1.167	1.00
67_V	108_Y	1.166	1.00
247_C	268_W	1.160	1.00
260_L	263_P	1.160	1.00
89_R	98_N	1.150	1.00
103_V	106_V	1.148	1.00
195_Y	240_V	1.147	1.00
24_L	153_A	1.147	1.00
35_K	40_I	1.141	1.00
68_L	101_Y	1.139	1.00
168_S	179_W	1.134	1.00
31_L	50_V	1.115	1.00
119_L	168_S	1.112	1.00
33_L	103_V	1.111	1.00
106_V	109_K	1.111	1.00
204_L	215_M	1.107	1.00
116_A	169_P	1.104	1.00
252_R	263_P	1.098	1.00
35_K	66_T	1.092	1.00
127_N	138_V	1.080	1.00
29_I	54_F	1.079	1.00
29_I	44_T	1.079	1.00
65_G	110_D	1.075	1.00
124_T	127_N	1.069	1.00
183_I	252_R	1.069	1.00
191_L	246_L	1.057	1.00
185_Y	250_K	1.057	1.00
82_D	85_A	1.055	1.00
26_F	139_I	1.055	1.00
232_V	235_E	1.055	1.00
146_G	163_I	1.053	1.00
36_F	39_Q	1.052	1.00
55_P	89_R	1.037	1.00
236_S	239_Y	1.036	1.00
84_E	256_K	1.027	1.00
221_A	225_K	1.021	1.00
163_I	180_L	1.017	1.00
164_K	179_W	1.017	1.00
188_T	206_Y	1.011	0.99
106_V	114_I	1.005	0.99
83_F	87_M	1.003	0.99
76_A	82_D	1.000	0.99
63_P	110_D	1.000	0.99
143_Q	166_A	0.998	0.99
123_K	138_V	0.998	0.99
245_I	268_W	0.996	0.99
248_N	267_S	0.991	0.99
265_F	268_W	0.990	0.99
81_P	158_L	0.986	0.99
29_I	50_V	0.985	0.99
87_M	90_F	0.981	0.99
192_I	268_W	0.968	0.99
49_E	52_S	0.966	0.99
259_K	262_I	0.966	0.99
190_V	212_A	0.961	0.99
7_L	45_R	0.959	0.99
56_E	98_N	0.958	0.99
7_L	175_R	0.957	0.99
196_T	203_L	0.957	0.99
234_S	241_F	0.950	0.99
44_T	53_K	0.949	0.99
81_P	85_A	0.941	0.99
189_E	246_L	0.940	0.99
89_R	99_I	0.939	0.99
23_E	164_K	0.939	0.99
235_E	238_E	0.938	0.99
19_N	165_K	0.928	0.99
139_I	142_T	0.927	0.99
222_E	265_F	0.927	0.99
21_I	120_T	0.926	0.99
187_Y	266_E	0.923	0.99
8_L	162_V	0.916	0.99
31_L	44_T	0.915	0.99
72_V	86_V	0.905	0.99
203_L	214_F	0.902	0.99
6_M	168_S	0.902	0.99
54_F	99_I	0.897	0.99
203_L	239_Y	0.896	0.99
201_K	216_E	0.896	0.99
252_R	264_S	0.888	0.99
102_C	137_F	0.880	0.99
137_F	140_E	0.878	0.99
75_A	102_C	0.873	0.98
32_I	67_V	0.871	0.98
19_N	167_N	0.868	0.98
55_P	98_N	0.867	0.98
218_M	223_R	0.865	0.98
127_N	141_G	0.861	0.98
15_F	20_Y	0.854	0.98
42_L	101_Y	0.851	0.98
74_V	85_A	0.850	0.98
201_K	214_F	0.848	0.98
75_A	81_P	0.847	0.98
85_A	88_E	0.847	0.98
22_T	161_I	0.844	0.98
118_P	169_P	0.841	0.98
70_G	103_V	0.840	0.98
206_Y	254_K	0.836	0.98
185_Y	264_S	0.835	0.98
35_K	63_P	0.834	0.98
130_E	138_V	0.833	0.98
42_L	54_F	0.830	0.98
40_I	51_T	0.823	0.98
159_E	181_K	0.821	0.98
237_D	241_F	0.818	0.98
120_T	123_K	0.815	0.98
75_A	100_V	0.810	0.98
251_H	260_L	0.809	0.98
204_L	212_A	0.808	0.97
127_N	140_E	0.808	0.97
65_G	108_Y	0.804	0.97
26_F	44_T	0.801	0.97
214_F	264_S	0.800	0.97
241_F	244_P	0.795	0.97
146_G	150_F	0.792	0.97
233_K	241_F	0.791	0.97
30_R	69_D	0.786	0.97
142_T	152_L	0.777	0.97
125_V	129_L	0.776	0.97
4_S	173_N	0.773	0.97
189_E	269_R	0.769	0.97
198_K	223_R	0.768	0.97
76_A	81_P	0.766	0.97
33_L	40_I	0.766	0.97
60_L	135_N	0.766	0.97
195_Y	198_K	0.765	0.97
196_T	214_F	0.765	0.97
193_T	203_L	0.757	0.96
135_N	138_V	0.757	0.96
212_A	254_K	0.755	0.96
195_Y	227_H	0.754	0.96
25_K	28_G	0.753	0.96
23_E	179_W	0.750	0.96
130_E	136_V	0.749	0.96
14_P	17_D	0.742	0.96
109_K	114_I	0.737	0.96
196_T	201_K	0.736	0.96
120_T	141_G	0.734	0.96
109_K	128_S	0.732	0.96
250_K	264_S	0.730	0.95
226_F	229_M	0.727	0.95
35_K	64_D	0.727	0.95
136_V	139_I	0.724	0.95
29_I	90_F	0.719	0.95
120_T	143_Q	0.718	0.95
222_E	229_M	0.715	0.95
100_V	135_N	0.712	0.95
198_K	201_K	0.712	0.95
186_D	251_H	0.712	0.95
234_S	239_Y	0.711	0.95
146_G	149_Y	0.710	0.95
218_M	265_F	0.705	0.95
6_M	176_S	0.701	0.94
223_R	226_F	0.698	0.94
67_V	107_I	0.695	0.94
220_H	224_T	0.695	0.94
61_D	135_N	0.695	0.94
88_E	97_H	0.690	0.94
149_Y	161_I	0.687	0.94
21_I	141_G	0.684	0.94
109_K	129_L	0.683	0.94
190_V	247_C	0.682	0.93
194_G	203_L	0.681	0.93
71_E	159_E	0.680	0.93
200_I	223_R	0.676	0.93
103_V	130_E	0.675	0.93
20_Y	163_I	0.672	0.93
108_Y	113_S	0.671	0.93
188_T	251_H	0.667	0.93
85_A	97_H	0.664	0.93
33_L	68_L	0.662	0.92
10_S	161_I	0.660	0.92
246_L	269_R	0.657	0.92
25_K	159_E	0.657	0.92
195_Y	230_K	0.656	0.92
86_V	90_F	0.653	0.92
192_I	242_I	0.650	0.92
193_T	207_P	0.647	0.92
34_S	108_Y	0.646	0.92
192_I	202_F	0.645	0.91
74_V	81_P	0.645	0.91
107_I	115_A	0.645	0.91
203_L	216_E	0.643	0.91
190_V	260_L	0.641	0.91
225_K	228_S	0.641	0.91
21_I	143_Q	0.641	0.91
207_P	211_S	0.636	0.91
35_K	65_G	0.634	0.91
89_R	92_S	0.632	0.91
119_L	166_A	0.630	0.91
24_L	81_P	0.627	0.90
187_Y	250_K	0.626	0.90
166_A	169_P	0.621	0.90
66_T	129_L	0.619	0.90
193_T	234_S	0.619	0.90
108_Y	111_G	0.618	0.90
204_L	213_G	0.616	0.90
20_Y	165_K	0.610	0.89
223_R	227_H	0.608	0.89
71_E	181_K	0.605	0.89
119_L	139_I	0.604	0.89
24_L	102_C	0.604	0.89
189_E	248_N	0.603	0.89
86_V	89_R	0.601	0.88
204_L	249_V	0.601	0.88
226_F	268_W	0.600	0.88
186_D	252_R	0.596	0.88
185_Y	252_R	0.596	0.88
32_I	107_I	0.595	0.88
233_K	236_S	0.595	0.88
82_D	253_F	0.594	0.88
219_P	225_K	0.592	0.88
83_F	104_F	0.591	0.88
8_L	157_N	0.591	0.88
45_R	216_E	0.591	0.88
202_F	247_C	0.590	0.87
189_E	267_S	0.590	0.87
201_K	215_M	0.587	0.87
40_I	57_L	0.587	0.87
183_I	253_F	0.586	0.87
232_V	237_D	0.586	0.87
59_D	121_E	0.586	0.87
259_K	263_P	0.584	0.87
151_N	154_K	0.584	0.87
224_T	244_P	0.582	0.87
120_T	165_K	0.582	0.87
201_K	217_F	0.581	0.87
25_K	45_R	0.580	0.87
24_L	140_E	0.578	0.86
9_H	180_L	0.577	0.86
76_A	79_G	0.576	0.86
131_L	135_N	0.574	0.86
194_G	216_E	0.572	0.86
254_K	258_G	0.570	0.86
16_N	147_L	0.570	0.86
235_E	239_Y	0.567	0.85
43_Y	47_N	0.563	0.85
89_R	97_H	0.563	0.85
53_K	90_F	0.561	0.85
56_E	99_I	0.559	0.85
62_I	129_L	0.559	0.85
25_K	181_K	0.558	0.84
34_S	189_E	0.557	0.84
142_T	145_N	0.557	0.84
42_L	72_V	0.555	0.84
17_D	20_Y	0.555	0.84
27_D	159_E	0.554	0.84
55_P	99_I	0.552	0.84
137_F	142_T	0.551	0.84
200_I	220_H	0.551	0.84
188_T	212_A	0.549	0.83
150_F	182_V	0.548	0.83
220_H	223_R	0.548	0.83
62_I	66_T	0.548	0.83
233_K	242_I	0.548	0.83
47_N	50_V	0.547	0.83
202_F	218_M	0.545	0.83
121_E	125_V	0.545	0.83
192_I	245_I	0.544	0.83
50_V	89_R	0.543	0.83
83_F	89_R	0.541	0.83
215_M	247_C	0.541	0.83
217_F	255_T	0.540	0.82
14_P	182_V	0.535	0.82
26_F	268_W	0.532	0.82
169_P	178_N	0.531	0.81
68_L	106_V	0.530	0.81
252_R	255_T	0.529	0.81
40_I	204_L	0.528	0.81
136_V	140_E	0.528	0.81
202_F	255_T	0.527	0.81
56_E	92_S	0.527	0.81
103_V	126_L	0.526	0.81
24_L	156_K	0.525	0.81
23_E	141_G	0.524	0.81
134_P	138_V	0.524	0.81
15_F	149_Y	0.524	0.81
187_Y	267_S	0.524	0.81
214_F	236_S	0.524	0.81
37_D	64_D	0.524	0.81
137_F	209_G	0.523	0.80
190_V	265_F	0.523	0.80
75_A	79_G	0.519	0.80
146_G	182_V	0.518	0.80
207_P	246_L	0.517	0.80
117_K	124_T	0.517	0.80
153_A	161_I	0.516	0.80
69_D	101_Y	0.516	0.80
50_V	163_I	0.516	0.80
153_A	156_K	0.515	0.79
214_F	254_K	0.515	0.79
254_K	260_L	0.514	0.79
26_F	190_V	0.513	0.79
90_F	183_I	0.512	0.79
223_R	265_F	0.511	0.79
36_F	41_K	0.507	0.78
75_A	80_A	0.506	0.78
4_S	10_S	0.505	0.78
45_R	175_R	0.505	0.78
8_L	216_E	0.505	0.78
45_R	181_K	0.503	0.78
155_E	162_V	0.503	0.78
31_L	45_R	0.502	0.78
257_H	262_I	0.500	0.77

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
2cfmA	1	1	100	0.208	Contact Map
3gdeA	1	0.9852	100	0.213	Contact Map
1vs0A	1	0.9778	100	0.213	Contact Map
3w1bA	1	0.9963	100	0.221	Contact Map
2hivA	1	0.9963	100	0.222	Contact Map
1x9nA	1	1	100	0.227	Contact Map
3l2pA	1	0.9519	100	0.266	Contact Map
1a0iA	1	0.9519	100	0.305	Contact Map
4d05A	1	0.8741	100	0.33	Contact Map
1fviA	1	0.8741	100	0.339	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 0.0098 seconds.