CREB - ECOLI - GREMLIN Contacts

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CREB - Transcriptional regulatory protein CreB

UniProt:	P08368	Sequences: MQRETVWLVEDEQGIADTLVYMLQQEGFAVEVFERGLPVLDKARKQVPDVMILDVGLPDISGFELCRQLLALHPALPVLFLTARSEEVDRLLGLEIGADDYVAKPFSPREVCARVRTLLRRVKKFSTPSPVIRIGHFELNEPAAQISWFDTPLALTRYEFLLLKTLLKSPGRVWSRQQLMDSVWEDAQDTYDRTVDTHIKTLRAKLRAINPDLSPINTHRGMGYSLRGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11218
Length:	229 (205)
Sequences:	79335 (57500)
Seq/√Len:	4016.0

ECOLI - CREB ARCA BAER CUSR YEDW KDPE PHOP QSEB OMPR PHOB RSTA BASR CPXR FIMZ DPIA TORR YGEK RCSB EVGA UVRY NARP YHJB NARL YJJQ DCUR BGLJ RCSA CSGD BARA UHPA TORS RCSC CHEB ARCB RSSB YPDB EVGS NTRC YEHT GLRR ZRAR ATOC RCSD CHEY
BACSU - YVRH YKOG YCBL PHOP YCLJ YYCF RESD YXDJ YRKP YVCP BCER CSSR DEGU DCTR YXJL YFIK CITT MALR CMPA YBDJ LIAR YVFU YHCZ YDFI DESR GLNL SP0A YESN LYTT CHEB NATR CHEV SP0F
HALSA - Q9HR09 CHEB Q9HNM3 Q9HRE5 BAT O51970 Q9HP91 F2Z6H5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
16_A	32_V	3.688	1.00
16_A	34_E	3.284	1.00
20_V	32_V	3.215	1.00
9_V	39_V	2.746	1.00
40_L	68_Q	2.711	1.00
37_L	59_D	2.507	1.00
31_E	48_P	2.428	1.00
36_G	60_I	2.354	1.00
60_I	68_Q	2.318	1.00
44_R	72_L	2.314	1.00
35_R	59_D	2.253	1.00
5_T	31_E	2.120	1.00
22_M	108_P	2.078	1.00
31_E	42_K	2.069	1.00
26_E	112_C	2.059	1.00
33_F	42_K	2.018	1.00
5_T	29_A	2.017	1.00
20_V	24_Q	1.993	1.00
31_E	46_Q	1.986	1.00
56_G	84_R	1.925	1.00
34_E	38_P	1.858	1.00
53_L	65_L	1.815	1.00
193_R	196_D	1.783	1.00
66_C	78_V	1.770	1.00
90_R	110_E	1.759	1.00
35_R	38_P	1.743	1.00
80_F	93_G	1.700	1.00
7_W	33_F	1.687	1.00
68_Q	72_L	1.680	1.00
67_R	96_I	1.658	1.00
70_L	99_D	1.658	1.00
158_Y	161_L	1.652	1.00
42_K	46_Q	1.629	1.00
176_R	196_D	1.619	1.00
80_F	98_A	1.594	1.00
36_G	65_L	1.587	1.00
60_I	64_E	1.565	1.00
4_E	119_L	1.554	1.00
87_E	107_S	1.537	1.00
164_K	168_K	1.537	1.00
100_D	114_R	1.529	1.00
61_S	64_E	1.519	1.00
165_T	182_S	1.498	1.00
43_A	69_L	1.495	1.00
42_K	45_K	1.481	1.00
23_L	115_V	1.471	1.00
68_Q	71_A	1.451	1.00
51_M	76_L	1.445	1.00
84_R	89_D	1.425	1.00
174_W	182_S	1.415	1.00
37_L	60_I	1.409	1.00
198_H	201_T	1.399	1.00
175_S	178_Q	1.384	1.00
66_C	80_F	1.380	1.00
136_H	149_F	1.380	1.00
13_Q	34_E	1.342	1.00
169_S	172_R	1.338	1.00
64_E	67_R	1.337	1.00
40_L	65_L	1.328	1.00
79_L	118_L	1.325	1.00
50_V	115_V	1.303	1.00
42_K	48_P	1.298	1.00
99_D	121_R	1.266	1.00
55_V	63_F	1.265	1.00
99_D	118_L	1.264	1.00
5_T	46_Q	1.260	1.00
63_F	93_G	1.253	1.00
165_T	169_S	1.245	1.00
40_L	60_I	1.228	1.00
10_E	16_A	1.216	1.00
41_D	45_K	1.211	1.00
73_H	76_L	1.211	1.00
9_V	57_L	1.208	1.00
11_D	54_D	1.202	1.00
28_F	116_R	1.197	1.00
112_C	116_R	1.189	1.00
159_E	205_K	1.185	1.00
160_F	164_K	1.185	1.00
92_L	96_I	1.184	1.00
178_Q	182_S	1.168	1.00
38_P	41_D	1.156	1.00
53_L	66_C	1.148	1.00
38_P	42_K	1.147	1.00
7_W	48_P	1.139	1.00
33_F	39_V	1.133	1.00
86_E	89_D	1.129	1.00
55_V	80_F	1.122	1.00
63_F	92_L	1.118	1.00
37_L	41_D	1.114	1.00
7_W	39_V	1.108	1.00
26_E	116_R	1.092	1.00
138_E	147_S	1.089	1.00
6_V	28_F	1.075	1.00
87_E	91_L	1.069	1.00
177_Q	192_D	1.061	1.00
145_Q	152_P	1.059	1.00
113_A	117_T	1.059	1.00
7_W	42_K	1.049	1.00
27_G	116_R	1.048	1.00
133_R	138_E	1.045	1.00
91_L	95_E	1.034	1.00
39_V	65_L	1.030	1.00
165_T	174_W	1.027	1.00
33_F	38_P	1.025	1.00
40_L	44_R	1.025	1.00
197_T	200_K	1.020	1.00
8_L	19_L	1.017	1.00
110_E	113_A	1.015	1.00
140_N	143_A	1.015	1.00
193_R	197_T	1.014	1.00
88_V	92_L	1.009	1.00
50_V	119_L	1.009	1.00
95_E	116_R	1.007	1.00
161_L	164_K	1.003	1.00
4_E	28_F	0.999	1.00
17_D	32_V	0.995	1.00
67_R	92_L	0.986	1.00
208_A	218_T	0.979	1.00
51_M	69_L	0.978	1.00
194_T	198_H	0.974	1.00
14_G	18_T	0.963	1.00
39_V	43_A	0.956	1.00
13_Q	17_D	0.951	1.00
141_E	164_K	0.945	1.00
90_R	103_A	0.938	1.00
55_V	61_S	0.924	1.00
9_V	33_F	0.923	1.00
157_R	161_L	0.921	1.00
20_V	30_V	0.920	1.00
66_C	96_I	0.916	1.00
53_L	78_V	0.913	1.00
5_T	49_D	0.909	1.00
63_F	96_I	0.906	1.00
87_E	90_R	0.905	1.00
7_W	31_E	0.905	1.00
174_W	178_Q	0.903	1.00
19_L	81_L	0.900	1.00
51_M	78_V	0.894	1.00
7_W	43_A	0.893	1.00
41_D	44_R	0.883	1.00
64_E	68_Q	0.873	1.00
53_L	80_F	0.870	1.00
9_V	51_M	0.869	1.00
139_L	167_L	0.865	1.00
66_C	98_A	0.864	1.00
162_L	166_L	0.863	1.00
17_D	20_V	0.861	1.00
79_L	114_R	0.860	1.00
199_I	203_R	0.860	1.00
118_L	121_R	0.855	1.00
92_L	95_E	0.851	1.00
77_P	99_D	0.849	1.00
21_Y	25_Q	0.849	1.00
13_Q	16_A	0.848	1.00
85_S	103_A	0.843	1.00
52_I	111_V	0.838	1.00
207_R	210_N	0.837	1.00
147_S	152_P	0.836	1.00
55_V	89_D	0.833	1.00
65_L	69_L	0.833	1.00
172_R	178_Q	0.830	1.00
192_D	196_D	0.828	1.00
165_T	179_L	0.822	1.00
108_P	112_C	0.821	1.00
139_L	160_F	0.819	1.00
110_E	114_R	0.804	1.00
5_T	48_P	0.802	1.00
193_R	200_K	0.793	1.00
28_F	112_C	0.791	1.00
52_I	115_V	0.790	1.00
55_V	84_R	0.785	1.00
43_A	48_P	0.784	1.00
89_D	92_L	0.784	1.00
15_I	106_F	0.781	1.00
67_R	71_A	0.778	1.00
57_L	65_L	0.778	1.00
43_A	76_L	0.775	1.00
144_A	161_L	0.774	1.00
177_Q	181_D	0.772	1.00
4_E	123_K	0.771	1.00
60_I	65_L	0.771	1.00
43_A	73_H	0.770	1.00
176_R	192_D	0.767	1.00
142_P	172_R	0.766	1.00
178_Q	181_D	0.766	1.00
91_L	109_R	0.763	1.00
201_T	204_A	0.760	1.00
81_L	106_F	0.753	1.00
52_I	81_L	0.749	1.00
200_K	204_A	0.747	1.00
107_S	110_E	0.741	1.00
165_T	168_K	0.740	1.00
77_P	121_R	0.738	1.00
17_D	21_Y	0.736	1.00
19_L	111_V	0.735	1.00
161_L	165_T	0.734	1.00
119_L	122_V	0.733	1.00
131_V	138_E	0.733	1.00
36_G	40_L	0.730	1.00
117_T	120_R	0.728	1.00
8_L	30_V	0.726	1.00
156_T	205_K	0.725	1.00
9_V	65_L	0.723	1.00
88_V	109_R	0.721	1.00
106_F	111_V	0.715	1.00
197_T	201_T	0.713	1.00
36_G	59_D	0.712	1.00
56_G	83_A	0.709	1.00
40_L	43_A	0.692	1.00
69_L	78_V	0.692	1.00
114_R	118_L	0.691	1.00
22_M	112_C	0.687	1.00
100_D	117_T	0.687	1.00
36_G	57_L	0.676	1.00
117_T	122_V	0.675	1.00
43_A	51_M	0.673	1.00
6_V	50_V	0.672	1.00
47_V	73_H	0.668	1.00
10_E	57_L	0.667	1.00
18_T	22_M	0.666	1.00
40_L	72_L	0.666	1.00
77_P	125_F	0.665	1.00
69_L	74_P	0.660	1.00
75_A	125_F	0.659	1.00
44_R	68_Q	0.659	1.00
203_R	208_A	0.658	1.00
94_L	114_R	0.655	1.00
52_I	79_L	0.653	1.00
93_G	98_A	0.651	1.00
122_V	126_S	0.650	1.00
95_E	113_A	0.649	1.00
70_L	77_P	0.649	1.00
190_T	195_V	0.649	1.00
8_L	20_V	0.647	1.00
196_D	199_I	0.646	1.00
144_A	160_F	0.639	1.00
77_P	119_L	0.638	1.00
6_V	23_L	0.635	1.00
8_L	32_V	0.628	1.00
16_A	20_V	0.627	1.00
109_R	113_A	0.627	1.00
106_F	110_E	0.626	1.00
90_R	107_S	0.625	1.00
4_E	49_D	0.624	1.00
63_F	89_D	0.624	1.00
137_F	148_W	0.624	1.00
168_K	182_S	0.621	1.00
87_E	109_R	0.618	1.00
147_S	150_D	0.615	1.00
136_H	148_W	0.611	1.00
55_V	93_G	0.608	1.00
12_E	83_A	0.607	1.00
44_R	73_H	0.606	1.00
12_E	15_I	0.605	1.00
79_L	100_D	0.604	1.00
168_K	174_W	0.604	1.00
15_I	18_T	0.602	1.00
156_T	159_E	0.602	1.00
116_R	120_R	0.595	1.00
54_D	104_K	0.595	1.00
22_M	26_E	0.590	1.00
66_C	70_L	0.590	1.00
166_L	199_I	0.586	1.00
70_L	76_L	0.582	1.00
148_W	209_I	0.581	1.00
77_P	122_V	0.581	1.00
158_Y	198_H	0.580	1.00
53_L	69_L	0.571	1.00
75_A	124_K	0.570	1.00
23_L	28_F	0.570	1.00
133_R	136_H	0.570	1.00
169_S	182_S	0.570	1.00
11_D	82_T	0.567	1.00
159_E	162_L	0.565	1.00
38_P	59_D	0.562	1.00
199_I	211_P	0.561	1.00
88_V	91_L	0.560	1.00
35_R	57_L	0.560	1.00
207_R	215_P	0.559	1.00
113_A	116_R	0.557	1.00
148_W	207_R	0.556	1.00
134_I	137_F	0.555	1.00
139_L	146_I	0.550	1.00
128_P	131_V	0.548	1.00
191_Y	194_T	0.547	1.00
11_D	57_L	0.547	1.00
53_L	57_L	0.541	1.00
136_H	140_N	0.535	1.00
172_R	179_L	0.533	1.00
18_T	21_Y	0.531	1.00
82_T	90_R	0.528	1.00
69_L	76_L	0.528	1.00
21_Y	24_Q	0.526	1.00
91_L	94_L	0.524	1.00
148_W	208_A	0.523	1.00
172_R	182_S	0.522	1.00
8_L	16_A	0.521	1.00
82_T	104_K	0.518	1.00
6_V	115_V	0.516	1.00
137_F	146_I	0.514	1.00
24_Q	30_V	0.511	1.00
43_A	65_L	0.508	1.00
141_E	168_K	0.507	1.00
109_R	112_C	0.506	1.00
140_N	145_Q	0.505	1.00
43_A	74_P	0.502	1.00
24_Q	29_A	0.502	1.00
166_L	169_S	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
1ys7A	2	0.9825	100	0.17	Contact Map
3r0jA	2	0.9651	100	0.173	Contact Map
4b09A	2	0.9214	100	0.174	Contact Map
2gwrA	1	0.9738	100	0.18	Contact Map
2oqrA	2	0.9782	100	0.193	Contact Map
1kgsA	1	0.9563	100	0.195	Contact Map
4kfcA	2	0.9782	100	0.195	Contact Map
3q9sA	1	0.917	100	0.223	Contact Map
1p2fA	1	0.9476	100	0.225	Contact Map
2hqrA	2	0.9432	100	0.225	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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