YCIT - ECOLI - GREMLIN Contacts

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

YCIT - Uncharacterized HTH-type transcriptional regulator YciT

UniProt:	P76034	Sequences: MNSRQQTILQMVIDQGQVSVTDLAKATGVSEVTIRQDLNTLEKLSYLRRAHGFAVSLDSDDVETRMMSNYTLKRELAEFAASLVQPGETIFIENGSSNALLARTLGEQKKNVTIITVSSYIAHLLKDAPCEVILLGGVYQKKSESMVGPLTRQCIQQVHFSKAFIGIDGWQPETGFTGRDMMRTDVVNAVLEKECEAIVLTDSSKFGAVHSYSIGPVERFNRVITDSKIRASDLMHLEHSKLTIHVVDI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13905
Length:	249 (241)
Sequences:	7675 (5591)
Seq/√Len:	360.1

ECOLI - YCIT AGAR YIHW SGCR GLPR YGBI YDJF GATR SRLR ULAR DEOR FUCR
BACSU - YULB IOLR GLCR FRUR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
88_E	162_K	3.313	1.00
79_F	82_S	3.134	1.00
101_L	200_L	2.953	1.00
131_E	138_V	2.752	1.00
163_A	194_E	2.611	1.00
11_M	26_A	2.373	1.00
93_E	187_V	2.342	1.00
203_S	226_D	2.259	1.00
191_L	215_G	2.251	1.00
103_R	124_L	2.223	1.00
198_I	222_R	2.122	1.00
156_Q	189_A	2.111	1.00
85_Q	88_E	2.099	1.00
7_T	10_Q	2.052	1.00
11_M	15_Q	2.033	1.00
162_K	198_I	2.014	1.00
74_R	100_L	2.011	1.00
78_E	104_T	1.995	1.00
91_F	160_F	1.975	1.00
191_L	197_A	1.969	1.00
213_S	216_P	1.940	1.00
153_Q	156_Q	1.929	1.00
92_I	98_N	1.929	1.00
162_K	196_E	1.861	1.00
91_F	190_V	1.841	1.00
229_I	234_L	1.834	1.00
196_E	222_R	1.799	1.00
100_L	103_R	1.793	1.00
86_P	110_K	1.745	1.00
234_L	238_E	1.739	1.00
115_I	160_F	1.735	1.00
153_Q	157_Q	1.695	1.00
216_P	219_R	1.672	1.00
80_A	164_F	1.657	1.00
160_F	190_V	1.615	1.00
152_R	185_D	1.611	1.00
80_A	200_L	1.608	1.00
134_L	146_M	1.594	1.00
189_A	192_E	1.577	1.00
122_A	134_L	1.567	1.00
135_L	154_C	1.561	1.00
101_L	164_F	1.544	1.00
69_N	204_S	1.523	1.00
29_V	34_I	1.522	1.00
176_F	220_F	1.521	1.00
161_S	195_C	1.521	1.00
17_Q	55_V	1.502	1.00
176_F	199_V	1.499	1.00
81_A	104_T	1.494	1.00
235_M	239_H	1.486	1.00
156_Q	192_E	1.461	1.00
86_P	109_K	1.458	1.00
23_L	34_I	1.439	1.00
74_R	104_T	1.437	1.00
135_L	146_M	1.437	1.00
151_T	186_V	1.436	1.00
48_R	57_L	1.433	1.00
230_R	233_D	1.429	1.00
5_Q	44_L	1.423	1.00
8_I	23_L	1.410	1.00
7_T	11_M	1.400	1.00
11_M	18_V	1.400	1.00
114_I	125_L	1.400	1.00
77_A	104_T	1.398	1.00
13_I	56_S	1.396	1.00
69_N	72_L	1.394	1.00
189_A	193_K	1.387	1.00
94_N	145_S	1.374	1.00
83_L	224_I	1.370	1.00
15_Q	22_D	1.370	1.00
6_Q	10_Q	1.367	1.00
199_V	220_F	1.363	1.00
83_L	198_I	1.359	1.00
88_E	161_S	1.352	1.00
203_S	228_K	1.349	1.00
38_L	54_A	1.349	1.00
21_T	31_E	1.337	1.00
50_A	53_F	1.331	1.00
72_L	226_D	1.319	1.00
106_G	128_A	1.312	1.00
5_Q	40_T	1.309	1.00
139_Y	146_M	1.307	1.00
86_P	111_N	1.307	1.00
70_Y	100_L	1.305	1.00
114_I	130_C	1.292	1.00
138_V	182_M	1.290	1.00
9_L	46_Y	1.283	1.00
19_S	22_D	1.265	1.00
215_G	219_R	1.264	1.00
170_W	206_F	1.260	1.00
73_K	96_S	1.255	1.00
231_A	235_M	1.237	1.00
79_F	83_L	1.231	1.00
135_L	151_T	1.222	1.00
87_G	111_N	1.219	1.00
196_E	221_N	1.219	1.00
74_R	103_R	1.213	1.00
7_T	26_A	1.203	1.00
32_V	36_Q	1.199	1.00
113_T	133_I	1.198	1.00
84_V	105_L	1.195	1.00
7_T	27_T	1.192	1.00
192_E	219_R	1.180	1.00
91_F	193_K	1.174	1.00
235_M	238_E	1.172	1.00
167_I	201_T	1.149	1.00
70_Y	74_R	1.142	1.00
12_V	47_L	1.133	1.00
222_R	243_T	1.129	1.00
171_Q	174_T	1.128	1.00
39_N	43_K	1.127	1.00
152_R	186_V	1.125	1.00
72_L	203_S	1.121	1.00
164_F	198_I	1.119	1.00
102_A	125_L	1.119	1.00
71_T	74_R	1.112	1.00
10_Q	14_D	1.111	1.00
150_L	154_C	1.108	1.00
9_L	12_V	1.103	1.00
85_Q	162_K	1.094	1.00
113_T	131_E	1.094	1.00
48_R	55_V	1.094	1.00
15_Q	26_A	1.093	1.00
206_F	229_I	1.076	1.00
167_I	214_I	1.066	1.00
197_A	220_F	1.063	1.00
40_T	44_L	1.046	1.00
47_L	54_A	1.040	1.00
133_I	138_V	1.032	1.00
12_V	56_S	1.023	1.00
198_I	224_I	1.013	1.00
233_D	236_H	1.010	1.00
20_V	38_L	1.010	1.00
115_I	158_V	1.005	1.00
24_A	31_E	1.004	1.00
83_L	222_R	1.004	1.00
80_A	101_L	0.996	1.00
169_G	177_T	0.993	1.00
62_V	96_S	0.992	1.00
150_L	158_V	0.985	1.00
3_S	7_T	0.981	1.00
81_A	84_V	0.975	1.00
84_V	164_F	0.972	1.00
81_A	101_L	0.971	1.00
72_L	76_L	0.969	1.00
135_L	155_I	0.962	1.00
92_I	101_L	0.960	1.00
170_W	201_T	0.949	1.00
206_F	223_V	0.943	1.00
77_A	81_A	0.941	1.00
102_A	124_L	0.939	1.00
74_R	78_E	0.937	1.00
168_D	178_G	0.934	1.00
98_N	121_I	0.932	1.00
185_D	188_N	0.930	1.00
40_T	43_K	0.927	1.00
218_E	240_S	0.926	1.00
11_M	14_D	0.924	1.00
39_N	42_E	0.924	1.00
152_R	189_A	0.914	1.00
95_G	98_N	0.912	1.00
184_T	212_Y	0.911	1.00
167_I	199_V	0.910	1.00
73_K	205_K	0.908	1.00
76_L	97_S	0.907	1.00
157_Q	188_N	0.902	1.00
97_S	202_D	0.893	1.00
120_Y	144_E	0.893	1.00
171_Q	209_V	0.888	1.00
98_N	101_L	0.887	1.00
163_A	190_V	0.887	1.00
159_H	174_T	0.883	1.00
22_D	26_A	0.882	1.00
234_L	244_I	0.880	1.00
73_K	97_S	0.879	1.00
24_A	34_I	0.877	1.00
101_L	104_T	0.876	1.00
159_H	195_C	0.875	1.00
97_S	205_K	0.875	1.00
69_N	202_D	0.874	1.00
77_A	101_L	0.863	1.00
3_S	6_Q	0.862	1.00
132_V	139_Y	0.856	1.00
118_S	121_I	0.854	1.00
18_V	54_A	0.852	1.00
126_K	144_E	0.846	1.00
150_L	157_Q	0.846	1.00
18_V	23_L	0.842	1.00
236_H	239_H	0.842	1.00
9_L	13_I	0.841	1.00
106_G	109_K	0.841	1.00
102_A	121_I	0.840	1.00
77_A	100_L	0.839	1.00
41_L	46_Y	0.834	1.00
158_V	181_M	0.828	1.00
106_G	124_L	0.822	1.00
143_S	168_D	0.819	1.00
195_C	209_V	0.818	1.00
59_S	65_R	0.803	1.00
197_A	221_N	0.801	1.00
181_M	212_Y	0.799	1.00
178_G	184_T	0.799	1.00
159_H	209_V	0.799	1.00
159_H	213_S	0.798	1.00
75_E	78_E	0.797	1.00
10_Q	13_I	0.795	1.00
155_I	190_V	0.793	1.00
174_T	209_V	0.786	1.00
65_R	168_D	0.774	1.00
3_S	17_Q	0.772	1.00
164_F	200_L	0.770	1.00
39_N	49_R	0.769	1.00
155_I	189_A	0.766	1.00
80_A	224_I	0.765	1.00
98_N	200_L	0.759	1.00
91_F	155_I	0.758	1.00
96_S	205_K	0.758	1.00
170_W	176_F	0.756	1.00
69_N	203_S	0.752	1.00
106_G	110_K	0.748	1.00
123_H	144_E	0.747	1.00
16_G	56_S	0.744	1.00
22_D	25_K	0.742	1.00
229_I	244_I	0.735	1.00
167_I	176_F	0.731	1.00
61_D	64_T	0.730	1.00
92_I	102_A	0.729	1.00
172_P	175_G	0.728	1.00
99_A	124_L	0.726	1.00
159_H	193_K	0.724	1.00
177_T	209_V	0.722	0.99
140_Q	183_R	0.720	0.99
157_Q	213_S	0.720	0.99
122_A	139_Y	0.719	0.99
191_L	214_I	0.717	0.99
100_L	104_T	0.716	0.99
71_T	75_E	0.716	0.99
124_L	127_D	0.714	0.99
172_P	236_H	0.707	0.99
92_I	114_I	0.705	0.99
5_Q	9_L	0.704	0.99
140_Q	147_V	0.699	0.99
176_F	214_I	0.692	0.99
229_I	233_D	0.688	0.99
136_G	154_C	0.684	0.99
163_A	197_A	0.683	0.99
90_I	114_I	0.683	0.99
178_G	214_I	0.681	0.99
66_M	99_A	0.677	0.99
38_L	49_R	0.673	0.99
94_N	143_S	0.672	0.99
9_L	41_L	0.672	0.99
170_W	217_V	0.671	0.99
122_A	146_M	0.667	0.99
89_T	115_I	0.667	0.99
50_A	55_V	0.665	0.99
21_T	25_K	0.661	0.99
78_E	82_S	0.661	0.99
188_N	192_E	0.661	0.99
201_T	223_V	0.660	0.99
127_D	144_E	0.657	0.99
42_E	47_L	0.657	0.99
232_S	236_H	0.656	0.99
107_E	128_A	0.655	0.99
178_G	183_R	0.651	0.99
156_Q	193_K	0.651	0.99
149_P	153_Q	0.651	0.99
153_Q	185_D	0.649	0.99
202_D	205_K	0.649	0.99
160_F	194_E	0.647	0.99
198_I	221_N	0.646	0.99
148_G	151_T	0.646	0.99
29_V	32_V	0.642	0.99
75_E	79_F	0.642	0.99
136_G	151_T	0.642	0.99
231_A	234_L	0.641	0.99
23_L	38_L	0.637	0.99
90_I	162_K	0.630	0.99
168_D	210_H	0.627	0.99
116_T	122_A	0.627	0.99
20_V	34_I	0.626	0.99
215_G	220_F	0.623	0.99
42_E	49_R	0.622	0.99
99_A	120_Y	0.621	0.98
149_P	185_D	0.621	0.98
76_L	200_L	0.616	0.98
165_I	194_E	0.616	0.98
158_V	212_Y	0.615	0.98
119_S	146_M	0.614	0.98
119_S	134_L	0.611	0.98
236_H	240_S	0.605	0.98
117_V	190_V	0.599	0.98
72_L	228_K	0.596	0.98
12_V	18_V	0.595	0.98
32_V	118_S	0.591	0.98
27_T	34_I	0.589	0.98
184_T	214_I	0.588	0.98
228_K	234_L	0.588	0.98
194_E	197_A	0.587	0.98
203_S	229_I	0.587	0.98
109_K	112_V	0.585	0.98
93_E	98_N	0.578	0.98
140_Q	180_D	0.576	0.98
145_S	183_R	0.575	0.98
233_D	237_L	0.574	0.98
151_T	154_C	0.569	0.97
119_S	123_H	0.569	0.97
115_I	211_S	0.569	0.97
115_I	133_I	0.567	0.97
182_M	185_D	0.565	0.97
149_P	152_R	0.565	0.97
75_E	227_S	0.564	0.97
129_P	141_K	0.563	0.97
84_V	101_L	0.562	0.97
196_E	243_T	0.560	0.97
89_T	211_S	0.559	0.97
206_F	233_D	0.558	0.97
120_Y	123_H	0.558	0.97
179_R	210_H	0.557	0.97
152_R	156_Q	0.554	0.97
95_G	166_G	0.554	0.97
168_D	183_R	0.551	0.97
165_I	214_I	0.551	0.97
4_R	37_D	0.550	0.97
66_M	100_L	0.550	0.97
187_V	214_I	0.547	0.97
165_I	191_L	0.545	0.97
8_I	27_T	0.543	0.97
90_I	101_L	0.540	0.96
206_F	225_T	0.538	0.96
168_D	179_R	0.536	0.96
90_I	164_F	0.536	0.96
118_S	183_R	0.533	0.96
176_F	215_G	0.533	0.96
186_V	189_A	0.530	0.96
165_I	197_A	0.530	0.96
111_N	131_E	0.529	0.96
171_Q	177_T	0.528	0.96
91_F	163_A	0.526	0.96
94_N	183_R	0.524	0.96
197_A	219_R	0.523	0.96
59_S	140_Q	0.521	0.96
32_V	168_D	0.521	0.96
125_L	130_C	0.520	0.96
150_L	153_Q	0.519	0.96
73_K	202_D	0.518	0.95
36_Q	170_W	0.516	0.95
65_R	93_E	0.516	0.95
169_G	210_H	0.513	0.95
166_G	178_G	0.513	0.95
153_Q	188_N	0.511	0.95
172_P	233_D	0.510	0.95
146_M	154_C	0.510	0.95
25_K	28_G	0.508	0.95
231_A	238_E	0.508	0.95
131_E	141_K	0.508	0.95
65_R	96_S	0.506	0.95
169_G	208_A	0.505	0.95
72_L	75_E	0.504	0.95
92_I	121_I	0.502	0.95
168_D	187_V	0.502	0.95
20_V	24_A	0.500	0.95

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
1stzA	3	0.9398	100	0.518	Contact Map
3rrlB	1	0.6827	100	0.531	Contact Map
2w48A	3	0.9398	100	0.587	Contact Map
3l7oA	2	0.6185	100	0.602	Contact Map
1o8bA	2	0.6064	100	0.605	Contact Map
1m0sA	2	0.6305	100	0.613	Contact Map
1lk5A	4	0.6225	100	0.616	Contact Map
3uw1A	2	0.6386	100	0.619	Contact Map
1uj6A	2	0.6265	100	0.619	Contact Map
3ixqA	4	0.6345	100	0.62	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 0.0092 seconds.