UPPS - HALSA - GREMLIN Contacts

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

UPPS - Tritrans,polycis-undecaprenyl-diphosphate synthase (geranylgeranyl-diphosphate specific)

UniProt:	Q9HP68	Sequences: MRTRLWDAASAVYERLLTREIDGAPAHVAVIQDGNRRYAREHGDDPTDGYQSGARTTERVLEWCSDLGVEELTLYAFSTENFERPPDQQQHLFDLLESKLREFADADRVHADRVRIRAIGDTGRLPQRVRDAITYAESRTAGYDGFTLNVALAYGGRDELLTAARGVADAVAAGDLDPADIDAQAIESRLHTSPVRDVDLIIRTGGDERTSNFLPWHANGSEAAVFFCTPYWPEFSKVDLLRAIRTYESRAASWRQTRAKRALALVRALGSEVGEARRVLDRFKGALPDPPEDVEAETQSAD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	302 (234)
Sequences:	4523 (2848)
Seq/√Len:	186.2

ECOLI - UPPS
BACSU - ISPT
HALSA - UPPS Q9HP67
SULSO - UPPS

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
26_A	70_E	3.328	1.00
170_A	189_R	3.246	1.00
170_A	175_D	2.945	1.00
57_T	74_L	2.808	1.00
113_R	145_G	2.611	1.00
230_P	239_D	2.568	1.00
138_S	141_A	2.536	1.00
110_H	139_R	2.411	1.00
113_R	144_D	2.348	1.00
101_R	132_A	2.330	1.00
44_D	48_D	2.291	1.00
97_E	128_R	2.249	1.00
36_R	46_P	2.248	1.00
63_W	241_L	2.245	1.00
47_T	91_H	2.214	1.00
201_I	218_A	2.213	1.00
239_D	242_R	2.106	1.00
66_D	237_K	2.063	1.00
210_T	218_A	2.032	1.00
161_L	186_I	2.018	1.00
86_P	90_Q	1.998	1.00
122_T	134_T	1.994	1.00
130_R	134_T	1.946	1.00
121_D	162_T	1.942	1.00
110_H	143_Y	1.936	1.00
162_T	191_H	1.904	1.00
236_S	239_D	1.897	1.00
56_T	59_R	1.892	1.00
198_V	221_S	1.889	1.00
65_S	145_G	1.879	1.00
226_F	246_T	1.868	1.00
24_A	69_V	1.824	1.00
149_N	195_V	1.817	1.00
157_R	197_D	1.798	1.00
64_C	240_L	1.766	1.00
71_E	195_V	1.764	1.00
58_E	103_F	1.760	1.00
122_T	137_E	1.740	1.00
177_D	180_D	1.686	1.00
83_E	256_Q	1.652	1.00
226_F	243_A	1.648	1.00
71_E	149_N	1.645	1.00
158_D	162_T	1.637	1.00
59_R	237_K	1.617	1.00
41_E	231_Y	1.609	1.00
166_G	189_R	1.607	1.00
28_V	240_L	1.600	1.00
127_Q	131_D	1.598	1.00
118_A	133_I	1.590	1.00
169_D	173_A	1.588	1.00
164_A	186_I	1.568	1.00
117_R	147_T	1.564	1.00
167_V	185_A	1.512	1.00
159_E	191_H	1.504	1.00
124_R	153_A	1.499	1.00
71_E	196_R	1.498	1.00
52_S	55_R	1.490	1.00
71_E	147_T	1.490	1.00
67_L	241_L	1.486	1.00
201_I	221_S	1.464	1.00
168_A	171_V	1.456	1.00
67_L	244_I	1.446	1.00
30_V	60_V	1.440	1.00
113_R	143_Y	1.430	1.00
182_D	185_A	1.428	1.00
172_A	178_P	1.401	1.00
158_D	191_H	1.375	1.00
135_Y	139_R	1.374	1.00
167_V	181_I	1.360	1.00
244_I	248_E	1.359	1.00
134_T	138_S	1.359	1.00
157_R	183_A	1.355	1.00
122_T	130_R	1.354	1.00
167_V	189_R	1.340	1.00
156_G	215_P	1.338	1.00
62_E	112_D	1.336	1.00
73_T	151_A	1.308	1.00
63_W	66_D	1.301	1.00
131_D	135_Y	1.286	1.00
62_E	108_R	1.282	1.00
48_D	51_Q	1.282	1.00
115_R	147_T	1.261	1.00
121_D	158_D	1.226	1.00
31_I	201_I	1.211	1.00
104_A	136_A	1.210	1.00
186_I	189_R	1.197	1.00
125_L	152_L	1.196	1.00
28_V	244_I	1.193	1.00
30_V	72_L	1.190	1.00
56_T	236_S	1.166	1.00
246_T	249_S	1.160	1.00
187_E	197_D	1.159	1.00
162_T	166_G	1.159	1.00
184_Q	188_S	1.159	1.00
121_D	124_R	1.154	1.00
172_A	177_D	1.152	1.00
171_V	176_L	1.145	1.00
160_L	186_I	1.133	1.00
107_D	111_A	1.132	1.00
176_L	185_A	1.128	1.00
97_E	129_V	1.127	1.00
127_Q	130_R	1.119	1.00
74_L	148_L	1.110	1.00
97_E	132_A	1.106	1.00
56_T	60_V	1.094	1.00
168_A	181_I	1.090	1.00
119_I	151_A	1.078	1.00
77_F	89_Q	1.077	1.00
119_I	192_T	1.066	1.00
104_A	139_R	1.064	1.00
45_D	48_D	1.056	1.00
117_R	137_E	1.053	1.00
166_G	169_D	1.049	1.00
119_I	149_N	1.041	1.00
171_V	174_G	1.037	1.00
165_R	179_A	1.037	1.00
132_A	135_Y	1.037	1.00
96_L	152_L	1.036	1.00
159_E	217_H	1.035	1.00
185_A	189_R	1.035	1.00
114_V	146_F	1.034	1.00
167_V	176_L	1.031	1.00
58_E	108_R	1.027	1.00
28_V	69_V	1.022	1.00
54_A	99_K	1.004	0.99
218_A	221_S	0.995	0.99
73_T	214_L	0.994	0.99
159_E	162_T	0.993	0.99
77_F	82_F	0.991	0.99
101_R	135_Y	0.990	0.99
63_W	240_L	0.990	0.99
169_D	172_A	0.988	0.99
118_A	122_T	0.988	0.99
200_L	243_A	0.975	0.99
169_D	179_A	0.970	0.99
20_E	23_G	0.958	0.99
240_L	244_I	0.958	0.99
129_V	132_A	0.944	0.99
134_T	137_E	0.943	0.99
171_V	178_P	0.939	0.99
69_V	244_I	0.935	0.99
241_L	245_R	0.924	0.99
107_D	139_R	0.923	0.99
208_E	227_F	0.915	0.99
51_Q	98_S	0.912	0.99
168_A	172_A	0.911	0.99
61_L	148_L	0.909	0.99
161_L	164_A	0.906	0.99
60_V	63_W	0.903	0.99
51_Q	55_R	0.898	0.99
160_L	164_A	0.897	0.99
210_T	215_P	0.889	0.99
126_P	129_V	0.887	0.99
245_R	248_E	0.882	0.99
162_T	165_R	0.880	0.99
237_K	241_L	0.880	0.99
29_A	198_V	0.877	0.99
29_A	201_I	0.875	0.99
218_A	225_V	0.875	0.99
252_A	255_R	0.867	0.98
59_R	236_S	0.866	0.98
24_A	248_E	0.859	0.98
28_V	64_C	0.855	0.98
164_A	168_A	0.850	0.98
117_R	149_N	0.849	0.98
161_L	181_I	0.848	0.98
93_F	125_L	0.848	0.98
74_L	150_V	0.848	0.98
116_I	136_A	0.847	0.98
61_L	114_V	0.843	0.98
226_F	239_D	0.842	0.98
48_D	52_S	0.837	0.98
186_I	190_L	0.831	0.98
117_R	194_P	0.828	0.98
61_L	146_F	0.821	0.98
65_S	114_V	0.818	0.98
65_S	146_F	0.814	0.98
165_R	178_P	0.808	0.98
67_L	240_L	0.806	0.98
153_A	256_Q	0.795	0.97
167_V	186_I	0.794	0.97
79_T	155_G	0.793	0.97
242_R	246_T	0.790	0.97
198_V	218_A	0.789	0.97
123_G	130_R	0.788	0.97
98_S	102_E	0.785	0.97
117_R	195_V	0.784	0.97
187_E	190_L	0.783	0.97
118_A	137_E	0.783	0.97
251_A	257_T	0.775	0.97
185_A	188_S	0.774	0.97
72_L	146_F	0.769	0.97
96_L	129_V	0.768	0.97
215_P	219_N	0.767	0.97
32_Q	76_A	0.765	0.97
164_A	167_V	0.764	0.97
169_D	178_P	0.762	0.97
180_D	185_A	0.758	0.96
228_C	243_A	0.751	0.96
82_F	153_A	0.751	0.96
87_D	90_Q	0.749	0.96
122_T	133_I	0.744	0.96
238_V	241_L	0.742	0.96
63_W	237_K	0.738	0.96
61_L	72_L	0.736	0.96
60_V	237_K	0.735	0.96
36_R	85_P	0.733	0.96
204_T	228_C	0.732	0.96
231_Y	234_E	0.725	0.95
156_G	213_F	0.724	0.95
96_L	99_K	0.722	0.95
80_E	155_G	0.720	0.95
168_A	178_P	0.718	0.95
205_G	208_E	0.718	0.95
132_A	136_A	0.716	0.95
220_G	252_A	0.714	0.95
70_E	147_T	0.714	0.95
168_A	176_L	0.713	0.95
52_S	56_T	0.711	0.95
85_P	257_T	0.708	0.95
165_R	168_A	0.707	0.95
42_H	234_E	0.706	0.95
71_E	198_V	0.705	0.95
208_E	246_T	0.705	0.95
156_G	159_E	0.699	0.94
94_D	128_R	0.698	0.94
181_I	185_A	0.695	0.94
23_G	248_E	0.695	0.94
41_E	234_E	0.693	0.94
80_E	212_N	0.692	0.94
36_R	257_T	0.690	0.94
188_S	194_P	0.686	0.94
170_A	188_S	0.685	0.94
65_S	112_D	0.684	0.94
200_L	226_F	0.683	0.94
198_V	201_I	0.681	0.94
24_A	244_I	0.680	0.94
161_L	165_R	0.679	0.94
170_A	173_A	0.677	0.93
64_C	72_L	0.669	0.93
63_W	67_L	0.664	0.93
175_D	189_R	0.658	0.92
38_Y	234_E	0.657	0.92
89_Q	93_F	0.652	0.92
205_G	231_Y	0.647	0.92
133_I	152_L	0.642	0.91
59_R	63_W	0.641	0.91
62_E	66_D	0.637	0.91
176_L	181_I	0.634	0.91
192_T	198_V	0.633	0.91
133_I	150_V	0.627	0.91
20_E	248_E	0.626	0.90
55_R	102_E	0.626	0.90
176_L	180_D	0.625	0.90
192_T	217_H	0.624	0.90
90_Q	94_D	0.621	0.90
52_S	59_R	0.621	0.90
96_L	125_L	0.620	0.90
59_R	62_E	0.616	0.90
228_C	239_D	0.616	0.90
220_G	255_R	0.616	0.90
131_D	134_T	0.616	0.90
63_W	236_S	0.615	0.90
204_T	227_F	0.615	0.90
60_V	240_L	0.612	0.89
118_A	150_V	0.612	0.89
29_A	213_F	0.612	0.89
80_E	220_G	0.612	0.89
230_P	234_E	0.610	0.89
78_S	155_G	0.608	0.89
170_A	176_L	0.608	0.89
24_A	68_G	0.607	0.89
92_L	96_L	0.606	0.89
24_A	67_L	0.605	0.89
155_G	212_N	0.604	0.89
93_F	126_P	0.604	0.89
75_Y	159_E	0.604	0.89
236_S	242_R	0.603	0.89
76_A	150_V	0.602	0.89
220_G	254_W	0.602	0.89
165_R	169_D	0.598	0.88
156_G	160_L	0.598	0.88
100_L	104_A	0.596	0.88
163_A	186_I	0.595	0.88
210_T	225_V	0.594	0.88
228_C	235_F	0.592	0.88
168_A	174_G	0.591	0.88
183_A	187_E	0.590	0.88
94_D	97_E	0.589	0.88
147_T	195_V	0.589	0.88
222_E	250_R	0.583	0.87
187_E	194_P	0.583	0.87
75_Y	212_N	0.582	0.87
110_H	142_G	0.582	0.87
97_E	126_P	0.580	0.87
166_G	170_A	0.579	0.87
226_F	242_R	0.576	0.86
192_T	195_V	0.571	0.86
222_E	252_A	0.569	0.86
100_L	136_A	0.568	0.86
242_R	245_R	0.566	0.85
208_E	229_T	0.562	0.85
110_H	140_T	0.562	0.85
129_V	133_I	0.559	0.85
241_L	248_E	0.559	0.85
121_D	153_A	0.557	0.85
50_Y	88_Q	0.557	0.85
30_V	232_W	0.556	0.84
96_L	100_L	0.556	0.84
228_C	246_T	0.553	0.84
97_E	101_R	0.550	0.84
104_A	110_H	0.549	0.84
30_V	202_I	0.548	0.84
75_Y	210_T	0.545	0.83
118_A	152_L	0.542	0.83
222_E	255_R	0.541	0.83
245_R	249_S	0.540	0.83
56_T	63_W	0.540	0.83
181_I	189_R	0.538	0.82
202_I	243_A	0.538	0.82
62_E	111_A	0.531	0.82
109_V	114_V	0.528	0.81
235_F	243_A	0.528	0.81
161_L	183_A	0.526	0.81
171_V	180_D	0.526	0.81
250_R	253_S	0.526	0.81
40_R	46_P	0.524	0.81
109_V	140_T	0.521	0.80
125_L	130_R	0.520	0.80
96_L	150_V	0.520	0.80
116_I	150_V	0.520	0.80
76_A	89_Q	0.519	0.80
20_E	245_R	0.519	0.80
178_P	182_D	0.518	0.80
156_G	210_T	0.516	0.80
52_S	234_E	0.514	0.80
109_V	148_L	0.513	0.79
42_H	46_P	0.513	0.79
238_V	242_R	0.512	0.79
101_R	107_D	0.510	0.79
79_T	212_N	0.509	0.79
139_R	143_Y	0.509	0.79
61_L	65_S	0.507	0.79
65_S	113_R	0.504	0.78
50_Y	95_L	0.504	0.78
32_Q	77_F	0.503	0.78
178_P	185_A	0.502	0.78
110_H	136_A	0.501	0.78
108_R	111_A	0.501	0.78
116_I	148_L	0.500	0.78
30_V	74_L	0.500	0.78

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
3sgvB	2	0.755	100	0.195	Contact Map
1f75A	2	0.7185	100	0.195	Contact Map
2vg3A	2	0.8377	100	0.199	Contact Map
4q9mA	2	0.7483	100	0.2	Contact Map
4h8eA	2	0.7781	100	0.204	Contact Map
2d2rA	2	0.7185	100	0.214	Contact Map
3ugsB	2	0.6887	100	0.229	Contact Map
2vg0A	2	0.7351	100	0.231	Contact Map
3wqlA	2	0.851	97.1	0.933	Contact Map
4umkA	2	0.5331	51.8	0.967	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 0.0088 seconds.