NATR - BACSU - GREMLIN Contacts

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

NATR - Transcriptional regulatory protein NatR

UniProt:	P70955	Sequences: MVKVGLVDDYRVDLEKLEAIVSRMQDVEIVFSTDSAKEAYRRVKNGDIDLLLADIEMPHMSGYELADLIKSHSLDVDVIFVTGHGGYAVHAFDLNVHDYIMKPYYADRLAASFDRYLKKKTETSLNGRILIKQKSEMHVLQKKDIIFAERTGRSTTIVTTAEEVQTYQTLNDIKGDLPEKDFLRSHRSFIINIHYIKHFSAYTKHSFTVSFEGTSKKAMITKQQLDYFQNYYF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	233 (195)
Sequences:	71477 (51481)
Seq/√Len:	3686.6

ECOLI - YPDB YEHT RSTA PHOP YEDW BASR KDPE YHJB CUSR DCUR QSEB UVRY OMPR RCSC PHOB CREB CPXR BARA BAER ARCA EVGA ARCB RSSB DPIA TORS UHPA TORR NARP YJJQ NARL RCSB CHEB BGLJ FIMZ YGEK CSGD RCSA EVGS GLRR NTRC RCSD ZRAR ATOC
BACSU - NATR LYTT YESN CITT CHEB YVCP MALR BCER YVFU PHOP YXDJ YYCF GLNL YFIK YCLJ LIAR SP0A CMPA CSSR YVRH YCBL DESR YKOG RESD YDFI YRKP DCTR YHCZ DEGU YXJL YBDJ CHEV
HALSA - CHEB Q9HR09 Q9HNM3 Q9HRE5 BAT O51970

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
14_L	32_S	3.950	1.00
14_L	34_D	3.555	1.00
18_E	32_S	3.483	1.00
7_V	39_A	2.825	1.00
40_Y	68_L	2.794	1.00
37_K	59_H	2.520	1.00
60_M	68_L	2.517	1.00
33_T	42_R	2.440	1.00
31_F	48_I	2.428	1.00
36_A	60_M	2.414	1.00
44_K	72_H	2.337	1.00
35_S	59_H	2.266	1.00
31_F	42_R	2.139	1.00
18_E	22_S	2.065	1.00
20_I	106_A	2.054	1.00
3_K	31_F	2.053	1.00
56_E	84_H	2.053	1.00
80_F	96_V	2.018	1.00
31_F	46_G	2.002	1.00
66_A	78_V	1.983	1.00
3_K	29_I	1.956	1.00
24_M	110_A	1.956	1.00
53_A	65_L	1.897	1.00
42_R	46_G	1.896	1.00
88_A	108_R	1.895	1.00
80_F	91_A	1.828	1.00
34_D	38_E	1.797	1.00
5_G	33_T	1.789	1.00
51_L	76_V	1.688	1.00
61_S	64_E	1.683	1.00
35_S	38_E	1.670	1.00
98_D	112_S	1.661	1.00
68_L	72_H	1.654	1.00
36_A	65_L	1.646	1.00
66_A	80_F	1.616	1.00
60_M	64_E	1.615	1.00
70_K	97_H	1.614	1.00
37_K	60_M	1.591	1.00
26_D	114_D	1.555	1.00
84_H	87_Y	1.516	1.00
97_H	119_K	1.501	1.00
42_R	45_N	1.494	1.00
64_E	67_D	1.493	1.00
40_Y	65_L	1.492	1.00
68_L	71_S	1.445	1.00
43_V	69_I	1.417	1.00
55_I	63_Y	1.399	1.00
156_T	160_T	1.396	1.00
128_R	141_Q	1.377	1.00
67_D	94_L	1.353	1.00
79_I	116_Y	1.342	1.00
55_I	80_F	1.338	1.00
8_D	14_L	1.337	1.00
187_R	190_I	1.330	1.00
21_V	113_F	1.328	1.00
40_Y	60_M	1.301	1.00
192_N	195_Y	1.301	1.00
42_R	48_I	1.300	1.00
5_G	48_I	1.300	1.00
53_A	66_A	1.296	1.00
168_Q	190_I	1.296	1.00
110_A	114_D	1.283	1.00
33_T	39_A	1.279	1.00
7_V	57_M	1.275	1.00
11_R	34_D	1.272	1.00
41_R	45_N	1.267	1.00
5_G	39_A	1.251	1.00
9_D	54_D	1.250	1.00
172_D	176_D	1.243	1.00
5_G	42_R	1.226	1.00
63_Y	90_H	1.225	1.00
3_K	46_G	1.225	1.00
137_M	144_D	1.208	1.00
73_S	76_V	1.198	1.00
37_K	41_R	1.194	1.00
50_L	113_F	1.178	1.00
38_E	41_R	1.176	1.00
38_E	42_R	1.162	1.00
24_M	114_D	1.148	1.00
39_A	65_L	1.146	1.00
133_Q	156_T	1.143	1.00
67_D	90_H	1.143	1.00
130_L	139_V	1.141	1.00
40_Y	44_K	1.138	1.00
97_H	116_Y	1.103	1.00
63_Y	91_A	1.098	1.00
157_I	176_D	1.092	1.00
139_V	144_D	1.065	1.00
77_D	119_K	1.063	1.00
77_D	97_H	1.048	1.00
5_G	31_F	1.048	1.00
11_R	15_E	1.048	1.00
6_L	17_L	1.030	1.00
90_H	94_L	1.029	1.00
93_D	114_D	1.022	1.00
161_A	164_V	1.017	1.00
108_R	111_A	1.015	1.00
66_A	94_L	1.007	1.00
90_H	93_D	0.996	1.00
89_V	93_D	0.993	1.00
191_I	194_H	0.989	1.00
88_A	101_M	0.987	1.00
85_G	101_M	0.977	1.00
55_I	61_S	0.974	1.00
162_E	166_T	0.972	1.00
17_L	81_V	0.972	1.00
39_A	43_V	0.971	1.00
111_A	115_R	0.965	1.00
98_D	115_R	0.962	1.00
132_K	135_S	0.961	1.00
51_L	78_V	0.955	1.00
15_E	32_S	0.952	1.00
12_V	16_K	0.942	1.00
7_V	33_T	0.935	1.00
7_V	51_L	0.934	1.00
79_I	112_S	0.934	1.00
169_T	172_D	0.928	1.00
10_Y	13_D	0.916	1.00
33_T	38_E	0.910	1.00
52_L	109_L	0.904	1.00
5_G	43_V	0.901	1.00
157_I	166_T	0.894	1.00
56_E	83_G	0.890	1.00
51_L	69_I	0.889	1.00
15_E	18_E	0.888	1.00
57_M	65_L	0.875	1.00
106_A	110_A	0.874	1.00
50_L	117_L	0.872	1.00
161_A	166_T	0.871	1.00
63_Y	94_L	0.869	1.00
64_E	68_L	0.868	1.00
81_V	104_Y	0.864	1.00
19_A	23_R	0.861	1.00
26_D	117_L	0.856	1.00
120_K	123_T	0.855	1.00
194_H	198_H	0.846	1.00
41_R	44_K	0.841	1.00
157_I	161_A	0.840	1.00
172_D	175_G	0.838	1.00
53_A	78_V	0.838	1.00
52_L	81_V	0.834	1.00
17_L	109_L	0.832	1.00
93_D	111_A	0.831	1.00
43_V	73_S	0.830	1.00
147_F	151_T	0.829	1.00
87_Y	90_H	0.824	1.00
16_K	20_I	0.819	1.00
55_I	87_Y	0.812	1.00
53_A	80_F	0.810	1.00
116_Y	119_K	0.808	1.00
131_I	159_T	0.806	1.00
92_F	112_S	0.806	1.00
108_R	112_S	0.804	1.00
120_K	124_S	0.803	1.00
104_Y	109_L	0.803	1.00
66_A	96_V	0.799	1.00
153_R	156_T	0.798	1.00
150_R	153_R	0.796	1.00
60_M	65_L	0.788	1.00
3_K	48_I	0.787	1.00
89_V	107_D	0.783	1.00
11_R	14_L	0.776	1.00
65_L	69_I	0.775	1.00
91_A	96_V	0.773	1.00
6_L	18_E	0.769	1.00
148_A	151_T	0.768	1.00
15_E	19_A	0.767	1.00
3_K	49_D	0.754	1.00
43_V	48_I	0.749	1.00
105_Y	108_R	0.749	1.00
55_I	84_H	0.747	1.00
43_V	76_V	0.745	1.00
6_L	14_L	0.744	1.00
128_R	140_L	0.736	1.00
140_L	201_A	0.733	1.00
8_D	57_M	0.733	1.00
67_D	71_S	0.732	1.00
107_D	111_A	0.731	1.00
7_V	65_L	0.730	1.00
18_E	30_V	0.728	1.00
4_V	50_L	0.725	1.00
36_A	40_Y	0.724	1.00
164_V	167_Y	0.723	1.00
153_R	157_I	0.722	1.00
69_I	78_V	0.722	1.00
43_V	51_L	0.720	1.00
174_K	179_E	0.709	1.00
167_Y	172_D	0.704	1.00
143_K	146_I	0.703	1.00
111_A	114_D	0.697	1.00
69_I	74_L	0.675	1.00
44_K	73_S	0.674	1.00
52_L	79_I	0.674	1.00
14_L	18_E	0.674	1.00
82_T	88_A	0.673	1.00
115_R	118_K	0.671	1.00
88_A	105_Y	0.670	1.00
188_S	192_N	0.670	1.00
40_Y	43_V	0.670	1.00
131_I	152_G	0.668	1.00
191_I	195_Y	0.667	1.00
168_Q	172_D	0.666	1.00
112_S	116_Y	0.655	1.00
44_K	68_L	0.653	1.00
157_I	160_T	0.650	1.00
121_T	124_S	0.647	1.00
114_D	117_L	0.644	1.00
136_E	153_R	0.644	1.00
66_A	70_K	0.642	1.00
55_I	91_A	0.639	1.00
75_D	123_T	0.636	1.00
137_M	140_L	0.632	1.00
157_I	173_I	0.629	1.00
6_L	32_S	0.629	1.00
79_I	98_D	0.628	1.00
93_D	98_D	0.624	1.00
131_I	138_H	0.621	1.00
151_T	199_F	0.620	1.00
83_G	103_P	0.619	1.00
129_I	132_K	0.615	1.00
26_D	110_A	0.615	1.00
104_Y	108_R	0.614	1.00
5_G	51_L	0.614	1.00
150_R	158_V	0.613	1.00
52_L	113_F	0.613	1.00
77_D	116_Y	0.612	1.00
149_E	153_R	0.612	1.00
33_T	36_A	0.611	1.00
77_D	123_T	0.608	1.00
70_K	76_V	0.608	1.00
36_A	59_H	0.607	1.00
140_L	143_K	0.605	1.00
136_E	152_G	0.600	1.00
13_D	104_Y	0.598	1.00
180_K	184_R	0.598	1.00
16_K	19_A	0.597	1.00
4_V	21_V	0.595	1.00
40_Y	72_H	0.594	1.00
20_I	110_A	0.594	1.00
4_V	26_D	0.584	1.00
77_D	120_K	0.583	1.00
80_F	94_L	0.582	1.00
69_I	76_V	0.580	1.00
85_G	103_P	0.579	1.00
133_Q	160_T	0.577	1.00
150_R	178_P	0.577	1.00
139_V	142_K	0.572	1.00
13_D	16_K	0.571	1.00
164_V	168_Q	0.569	1.00
152_G	156_T	0.568	1.00
89_V	92_F	0.568	1.00
113_F	116_Y	0.567	1.00
143_K	151_T	0.566	1.00
154_S	158_V	0.562	1.00
145_I	151_T	0.561	1.00
7_V	53_A	0.560	1.00
43_V	65_L	0.558	1.00
122_E	125_L	0.556	1.00
138_H	141_Q	0.555	1.00
114_D	118_K	0.550	1.00
169_T	186_H	0.546	1.00
10_Y	83_G	0.544	1.00
174_K	184_R	0.543	1.00
141_Q	151_T	0.540	1.00
47_D	73_S	0.540	1.00
22_S	25_Q	0.536	1.00
70_K	77_D	0.533	1.00
50_L	116_Y	0.529	1.00
11_R	32_S	0.526	1.00
141_Q	144_D	0.525	1.00
26_D	29_I	0.523	1.00
88_A	92_F	0.522	1.00
7_V	36_A	0.519	1.00
20_I	24_M	0.519	1.00
38_E	59_H	0.518	1.00
4_V	52_L	0.517	1.00
144_D	151_T	0.515	1.00
129_I	140_L	0.513	1.00
17_L	104_Y	0.512	1.00
112_S	115_R	0.511	1.00
145_I	149_E	0.510	1.00
35_S	57_M	0.510	1.00
180_K	183_L	0.509	1.00
138_H	145_I	0.509	1.00
56_E	87_Y	0.508	1.00
19_A	22_S	0.507	1.00
185_S	188_S	0.507	1.00
29_I	46_G	0.506	1.00
75_D	122_E	0.505	1.00
154_S	157_I	0.504	1.00
47_D	74_L	0.503	1.00
190_I	194_H	0.500	1.00

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
4cbvA	2	0.9785	100	0.266	Contact Map
1kgsA	1	0.9142	100	0.39	Contact Map
3r0jA	2	0.9056	100	0.392	Contact Map
1ys7A	2	0.9313	100	0.399	Contact Map
4g97A	1	0.5494	100	0.402	Contact Map
3n0rA	1	0.515	100	0.403	Contact Map
1yioA	1	0.8155	100	0.404	Contact Map
4kfcA	2	0.9185	99.9	0.41	Contact Map
2oqrA	2	0.9227	99.9	0.412	Contact Map
3q9sA	1	0.8884	99.9	0.413	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 0.009 seconds.