CCDA - BACSU - GREMLIN Contacts

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

CCDA - Cytochrome c-type biogenesis protein CcdA

UniProt:	P45706	Sequences: MGDVNYFLTFGAGFLSFISPCCLPLYPAFLSYITGVSMDDVKTEKLLLQKRSLFHTLCFLLGFSVIFIALGYGTSFIGSLFRDYHDAIRQIGALLIILFGFITLGVFRPEAMMKERRIHFKHKPSGFLGSVLIGMAFAAGWTPCTGPILAAVITLAGTNPGSAVPYMMLYVLGFAVPFLLLSFFITKLKWIRKNQLFIMKAGGVLMIVIGVLLFFNWMSLIIILLSDLFGGFTGF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	235 (206)
Sequences:	4952 (3151)
Seq/√Len:	219.5

ECOLI - DSBD
BACSU - CCDA
HALSA - Q9HSN4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
65_V	131_V	5.238	1.00
196_L	200_K	3.789	1.00
100_G	207_I	3.353	1.00
6_Y	169_L	3.236	1.00
58_C	127_F	3.149	1.00
10_F	176_V	3.029	1.00
60_L	175_A	2.883	1.00
104_L	207_I	2.854	1.00
197_F	200_K	2.789	1.00
197_F	201_A	2.718	1.00
68_I	168_M	2.594	1.00
100_G	104_L	2.378	1.00
189_K	192_R	2.361	1.00
101_F	106_V	2.331	1.00
126_G	129_G	2.293	1.00
97_I	210_G	2.283	1.00
53_L	183_F	2.242	1.00
11_G	15_L	2.239	1.00
56_T	182_S	2.193	1.00
7_F	11_G	2.180	1.00
87_A	91_I	2.175	1.00
87_A	90_Q	2.169	1.00
97_I	207_I	2.093	1.00
16_S	170_Y	2.091	1.00
64_S	171_V	2.086	1.00
93_A	210_G	2.074	1.00
60_L	179_L	1.897	1.00
99_F	206_M	1.866	1.00
68_I	171_V	1.850	1.00
57_L	61_L	1.802	1.00
50_K	54_F	1.788	1.00
72_Y	164_V	1.768	1.00
203_G	207_I	1.729	1.00
204_V	208_V	1.715	1.00
71_G	163_A	1.692	1.00
66_I	135_M	1.679	1.00
75_S	161_G	1.655	1.00
54_F	127_F	1.643	1.00
86_D	90_Q	1.589	1.00
84_Y	87_A	1.550	1.00
200_K	204_V	1.547	1.00
54_F	57_L	1.526	1.00
9_T	152_V	1.514	1.00
73_G	76_F	1.466	1.00
194_N	197_F	1.464	1.00
93_A	214_F	1.445	1.00
105_G	108_R	1.437	1.00
55_H	130_S	1.432	1.00
75_S	78_G	1.405	1.00
62_G	131_V	1.392	1.00
57_L	179_L	1.386	1.00
192_R	195_Q	1.369	1.00
159_N	162_S	1.367	1.00
94_L	98_L	1.360	1.00
190_W	194_N	1.356	1.00
107_F	110_E	1.355	1.00
49_Q	52_S	1.337	1.00
10_F	172_L	1.330	1.00
64_S	68_I	1.328	1.00
97_I	214_F	1.315	1.00
64_S	168_M	1.282	1.00
6_Y	165_P	1.279	1.00
9_T	166_Y	1.270	1.00
65_V	135_M	1.266	1.00
61_L	131_V	1.255	1.00
100_G	203_G	1.255	1.00
58_C	130_S	1.240	1.00
212_L	217_W	1.232	1.00
153_I	157_G	1.232	1.00
104_L	203_G	1.227	1.00
12_A	148_I	1.211	1.00
212_L	215_F	1.207	1.00
16_S	19_S	1.204	1.00
51_R	55_H	1.200	1.00
198_I	202_G	1.189	1.00
189_K	194_N	1.188	1.00
51_R	54_F	1.187	1.00
191_I	194_N	1.183	1.00
19_S	22_C	1.167	1.00
63_F	66_I	1.150	1.00
58_C	62_G	1.133	1.00
10_F	169_L	1.126	1.00
56_T	60_L	1.125	1.00
72_Y	76_F	1.103	1.00
196_L	199_M	1.096	1.00
90_Q	94_L	1.092	1.00
117_R	120_F	1.079	1.00
96_I	213_L	1.076	1.00
49_Q	187_K	1.075	1.00
71_G	153_I	1.073	1.00
59_F	137_F	1.063	1.00
190_W	193_K	1.055	1.00
102_I	107_F	1.053	1.00
135_M	139_A	1.048	1.00
146_G	149_L	1.044	1.00
99_F	150_A	1.030	1.00
25_L	28_A	1.025	1.00
164_V	167_M	1.001	1.00
211_V	215_F	0.994	1.00
217_W	220_L	0.991	1.00
21_C	144_C	0.990	1.00
20_P	23_L	0.989	1.00
191_I	195_Q	0.987	1.00
152_V	166_Y	0.984	1.00
71_G	167_M	0.979	1.00
194_N	198_I	0.973	1.00
154_T	157_G	0.971	1.00
165_P	169_L	0.955	1.00
97_I	101_F	0.940	1.00
161_G	164_V	0.940	1.00
12_A	147_P	0.934	1.00
97_I	211_V	0.934	1.00
90_Q	214_F	0.919	0.99
58_C	131_V	0.916	0.99
193_K	197_F	0.908	0.99
53_L	57_L	0.890	0.99
98_L	107_F	0.888	0.99
176_V	180_L	0.885	0.99
48_L	51_R	0.884	0.99
195_Q	198_I	0.879	0.99
112_M	115_E	0.874	0.99
116_R	120_F	0.872	0.99
204_V	207_I	0.872	0.99
56_T	179_L	0.859	0.99
148_I	152_V	0.856	0.99
70_L	153_I	0.856	0.99
79_S	82_R	0.854	0.99
181_L	184_F	0.854	0.99
111_A	115_E	0.851	0.99
71_G	75_S	0.846	0.99
188_L	192_R	0.845	0.99
53_L	56_T	0.845	0.99
74_T	157_G	0.842	0.99
153_I	167_M	0.842	0.99
201_A	204_V	0.838	0.99
131_V	135_M	0.829	0.99
71_G	78_G	0.827	0.99
104_L	107_F	0.820	0.99
191_I	198_I	0.816	0.99
208_V	212_L	0.814	0.99
88_I	92_G	0.813	0.99
68_I	164_V	0.802	0.99
27_P	31_S	0.800	0.98
62_G	134_G	0.794	0.98
162_S	166_Y	0.793	0.98
59_F	130_S	0.788	0.98
195_Q	199_M	0.783	0.98
82_R	85_H	0.773	0.98
36_V	55_H	0.772	0.98
89_R	216_N	0.772	0.98
29_F	33_I	0.772	0.98
116_R	119_H	0.769	0.98
151_A	154_T	0.768	0.98
53_L	179_L	0.765	0.98
17_F	29_F	0.763	0.98
108_R	199_M	0.763	0.98
104_L	204_V	0.762	0.98
120_F	124_P	0.759	0.98
72_Y	161_G	0.759	0.98
69_A	72_Y	0.757	0.98
86_D	89_R	0.757	0.98
71_G	74_T	0.756	0.98
156_A	167_M	0.752	0.98
94_L	214_F	0.745	0.98
210_G	214_F	0.740	0.98
74_T	77_I	0.739	0.97
91_I	111_A	0.732	0.97
141_W	145_T	0.727	0.97
183_F	186_T	0.726	0.97
19_S	24_P	0.723	0.97
184_F	188_L	0.722	0.97
61_L	168_M	0.721	0.97
78_G	81_F	0.719	0.97
70_L	85_H	0.718	0.97
73_G	77_I	0.717	0.97
19_S	25_L	0.716	0.97
22_C	145_T	0.715	0.97
188_L	195_Q	0.713	0.97
174_F	178_F	0.707	0.97
34_T	181_L	0.706	0.97
36_V	124_P	0.702	0.97
156_A	163_A	0.702	0.97
171_V	175_A	0.699	0.96
206_M	210_G	0.698	0.96
55_H	59_F	0.698	0.96
96_I	206_M	0.696	0.96
59_F	67_F	0.695	0.96
166_Y	184_F	0.695	0.96
142_T	146_G	0.694	0.96
101_F	181_L	0.689	0.96
16_S	148_I	0.689	0.96
101_F	207_I	0.688	0.96
181_L	190_W	0.687	0.96
106_V	203_G	0.685	0.96
17_F	142_T	0.683	0.96
77_I	177_P	0.680	0.96
150_A	154_T	0.677	0.96
150_A	167_M	0.676	0.96
151_A	156_A	0.675	0.96
92_G	136_A	0.672	0.96
66_I	138_A	0.672	0.96
164_V	168_M	0.669	0.96
108_R	111_A	0.669	0.96
56_T	59_F	0.662	0.95
29_F	145_T	0.661	0.95
75_S	164_V	0.660	0.95
124_P	129_G	0.659	0.95
26_Y	181_L	0.658	0.95
132_L	135_M	0.657	0.95
115_E	118_I	0.655	0.95
179_L	183_F	0.655	0.95
138_A	174_F	0.652	0.95
110_E	114_K	0.652	0.95
75_S	157_G	0.648	0.95
77_I	80_L	0.645	0.95
12_A	15_L	0.640	0.94
184_F	202_G	0.639	0.94
103_T	202_G	0.636	0.94
23_L	213_L	0.632	0.94
162_S	165_P	0.629	0.94
72_Y	75_S	0.626	0.94
63_F	174_F	0.621	0.93
63_F	67_F	0.619	0.93
61_L	87_A	0.616	0.93
101_F	105_G	0.610	0.93
17_F	174_F	0.609	0.93
8_L	12_A	0.608	0.93
110_E	113_M	0.608	0.93
149_L	163_A	0.608	0.93
60_L	63_F	0.608	0.93
157_G	167_M	0.606	0.93
128_L	132_L	0.606	0.93
31_S	202_G	0.606	0.93
123_K	126_G	0.605	0.92
151_A	155_L	0.605	0.92
190_W	195_Q	0.602	0.92
14_F	177_P	0.600	0.92
14_F	176_V	0.592	0.92
212_L	216_N	0.591	0.92
135_M	138_A	0.587	0.91
52_S	182_S	0.587	0.91
168_M	172_L	0.587	0.91
75_S	209_I	0.586	0.91
137_F	143_P	0.585	0.91
33_I	135_M	0.585	0.91
111_A	114_K	0.582	0.91
58_C	61_L	0.582	0.91
119_H	122_H	0.581	0.91
214_F	220_L	0.581	0.91
61_L	65_V	0.578	0.91
108_R	196_L	0.577	0.91
28_A	93_A	0.577	0.91
55_H	151_A	0.576	0.91
12_A	146_G	0.575	0.90
145_T	174_F	0.573	0.90
67_F	149_L	0.572	0.90
55_H	127_F	0.571	0.90
49_Q	53_L	0.568	0.90
17_F	206_M	0.564	0.90
129_G	151_A	0.561	0.89
29_F	178_F	0.558	0.89
91_I	180_L	0.558	0.89
60_L	172_L	0.556	0.89
17_F	24_P	0.551	0.89
193_K	196_L	0.550	0.88
8_L	15_L	0.550	0.88
17_F	177_P	0.550	0.88
28_A	31_S	0.549	0.88
9_T	156_A	0.547	0.88
17_F	146_G	0.546	0.88
34_T	206_M	0.546	0.88
122_H	126_G	0.543	0.88
23_L	29_F	0.541	0.88
81_F	139_A	0.541	0.88
122_H	128_L	0.540	0.88
114_K	117_R	0.539	0.87
75_S	160_P	0.539	0.87
64_S	103_T	0.537	0.87
19_S	133_I	0.537	0.87
23_L	184_F	0.536	0.87
122_H	132_L	0.535	0.87
134_G	173_G	0.534	0.87
33_I	55_H	0.533	0.87
60_L	64_S	0.533	0.87
14_F	17_F	0.533	0.87
127_F	180_L	0.532	0.87
146_G	150_A	0.523	0.86
96_I	210_G	0.521	0.86
155_L	163_A	0.521	0.86
102_I	113_M	0.519	0.85
12_A	67_F	0.518	0.85
34_T	37_S	0.517	0.85
70_L	74_T	0.517	0.85
70_L	118_I	0.515	0.85
102_I	112_M	0.514	0.85
124_P	128_L	0.513	0.85
30_L	185_I	0.512	0.85
182_S	186_T	0.512	0.85
102_I	106_V	0.512	0.85
74_T	164_V	0.512	0.85
160_P	206_M	0.510	0.84
78_G	160_P	0.506	0.84
88_I	138_A	0.504	0.84
9_T	170_Y	0.504	0.84
52_S	138_A	0.504	0.84
82_R	170_Y	0.502	0.83
116_R	165_P	0.502	0.83
141_W	146_G	0.501	0.83
99_F	151_A	0.500	0.83

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
2jlnA	1	0.8128	9.5	0.951	Contact Map
3dh4A	3	0.4426	7.3	0.953	Contact Map
3l1lA	2	0.7149	7	0.954	Contact Map
3tx3A	2	0.2213	6.5	0.955	Contact Map
2wdqD	2	0.1745	5.7	0.956	Contact Map
2gfpA	2	0.8851	5.5	0.956	Contact Map
4xnjA	1	0.8851	4.5	0.958	Contact Map
4q65A	1	0.6213	4.5	0.958	Contact Map
4xp4A	1	0.9064	4.2	0.958	Contact Map
3v5uA	1	0.7915	3.6	0.96	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 0.0078 seconds.