SUCD - BACSU - GREMLIN Contacts

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SUCD - Succinyl-CoA ligase [ADP-forming] subunit alpha

UniProt:	P80865	Sequences: MSVFINKDTRVIVQGITGSTALFHTKQMLEYGTNIVGGVTPGKGGTEAEGVPVFNTVAEAVQTTGANASVIYVPAPFAADAIMEAVDAELDLVICITEHIPVLDMVKVKRFMEGKKTRLIGPNCPGVITPEECKIGIMPGYIHKKGHVGVVSRSGTLTYEAVHQLSEAGVGQSTAVGIGGDPVNGTNFIDVLKAFNEDPDTHAVIMIGEIGGTAEEEAAEWVKANMTKPVVGFIGGKTAPPGKRMGHAGAIISGGKGTADEKIKTLNACGIEVAETPSVMGETLIKVLKEKNLFETCKTH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	300 (275)
Sequences:	4829 (2843)
Seq/√Len:	171.4

ECOLI - PKA SUCD FDRA YAHF
BACSU - SUCD
HALSA - Q9HPP0
SULSO - Q97XD9 Q97VX2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
147_H	202_H	5.148	1.00
259_A	273_V	3.434	1.00
56_T	59_E	3.272	1.00
55_N	59_E	3.025	1.00
118_R	185_G	2.902	1.00
86_V	115_K	2.836	1.00
63_T	66_A	2.794	1.00
83_M	111_F	2.631	1.00
58_A	84_E	2.564	1.00
263_I	273_V	2.560	1.00
149_G	173_S	2.408	1.00
60_A	66_A	2.374	1.00
93_V	117_T	2.347	1.00
266_L	271_I	2.293	1.00
83_M	107_K	2.271	1.00
101_P	105_M	2.253	1.00
47_E	50_G	2.246	1.00
173_S	201_T	2.245	1.00
262_K	266_L	2.235	1.00
274_A	283_T	2.148	1.00
82_I	93_V	2.147	1.00
73_V	81_A	2.141	1.00
58_A	87_D	2.064	1.00
232_G	266_L	2.025	1.00
186_T	191_V	1.973	1.00
79_A	107_K	1.934	1.00
19_S	22_L	1.921	1.00
158_T	175_A	1.916	1.00
204_V	226_M	1.903	1.00
85_A	90_L	1.896	1.00
205_I	284_L	1.849	1.00
73_V	77_F	1.833	1.00
163_H	167_E	1.823	1.00
38_G	62_Q	1.821	1.00
69_S	85_A	1.813	1.00
198_D	201_T	1.804	1.00
106_V	110_R	1.803	1.00
149_G	201_T	1.777	1.00
196_N	227_T	1.773	1.00
42_G	60_A	1.755	1.00
45_G	53_V	1.751	1.00
176_V	191_V	1.745	1.00
95_C	108_V	1.738	1.00
205_I	280_M	1.728	1.00
83_M	87_D	1.715	1.00
80_D	84_E	1.706	1.00
129_T	132_E	1.698	1.00
86_V	117_T	1.695	1.00
18_G	45_G	1.680	1.00
112_M	119_L	1.676	1.00
83_M	114_G	1.651	1.00
148_V	203_A	1.646	1.00
221_W	271_I	1.599	1.00
232_G	271_I	1.557	1.00
206_M	232_G	1.546	1.00
110_R	114_G	1.534	1.00
14_Q	69_S	1.532	1.00
204_V	224_A	1.524	1.00
57_V	85_A	1.489	1.00
7_K	132_E	1.481	1.00
192_L	204_V	1.475	1.00
78_A	100_I	1.449	1.00
203_A	284_L	1.441	1.00
220_E	224_A	1.438	1.00
168_A	285_I	1.424	1.00
86_V	111_F	1.419	1.00
69_S	90_L	1.418	1.00
221_W	230_V	1.411	1.00
67_N	91_D	1.402	1.00
71_I	81_A	1.397	1.00
63_T	88_A	1.383	1.00
124_C	177_G	1.379	1.00
41_P	51_V	1.350	1.00
78_A	95_C	1.343	1.00
149_G	195_F	1.339	1.00
237_K	275_E	1.338	1.00
146_G	171_G	1.335	1.00
26_K	30_E	1.335	1.00
109_K	113_E	1.314	1.00
258_T	261_E	1.310	1.00
40_T	54_F	1.302	1.00
80_D	83_M	1.285	1.00
16_I	25_T	1.273	1.00
213_T	216_E	1.269	1.00
188_F	208_G	1.262	1.00
265_T	269_C	1.261	1.00
12_I	37_G	1.257	1.00
68_A	135_I	1.234	1.00
213_T	217_E	1.234	1.00
13_V	35_I	1.232	1.00
25_T	49_E	1.225	1.00
196_N	224_A	1.216	1.00
44_G	55_N	1.208	1.00
216_E	257_G	1.207	1.00
150_V	172_Q	1.205	1.00
27_Q	96_I	1.204	1.00
120_I	127_V	1.202	1.00
13_V	28_M	1.202	1.00
148_V	284_L	1.195	1.00
118_R	186_T	1.193	1.00
95_C	119_L	1.191	1.00
82_I	111_F	1.191	1.00
120_I	191_V	1.180	1.00
151_V	191_V	1.180	1.00
11_V	134_K	1.179	1.00
48_A	53_V	1.164	1.00
174_T	195_F	1.161	1.00
231_V	274_A	1.160	1.00
193_K	197_E	1.158	1.00
54_F	61_V	1.147	1.00
22_L	25_T	1.145	1.00
29_L	32_G	1.142	1.00
157_L	277_P	1.136	1.00
210_I	250_A	1.129	1.00
231_V	287_V	1.128	1.00
109_K	112_M	1.119	1.00
176_V	195_F	1.118	1.00
46_T	55_N	1.118	1.00
196_N	226_M	1.115	1.00
109_K	182_P	1.100	1.00
82_I	108_V	1.100	1.00
264_K	268_A	1.098	1.00
57_V	88_A	1.081	1.00
259_A	263_I	1.076	1.00
25_T	29_L	1.075	1.00
111_F	115_K	1.069	1.00
16_I	48_A	1.055	1.00
240_P	243_K	1.047	0.99
28_M	51_V	1.040	0.99
193_K	223_K	1.040	0.99
94_I	127_V	1.032	0.99
107_K	110_R	1.026	0.99
129_T	174_T	1.024	0.99
75_A	97_T	1.019	0.99
217_E	221_W	1.014	0.99
174_T	201_T	1.010	0.99
56_T	84_E	1.007	0.99
189_I	220_E	1.007	0.99
60_A	63_T	1.001	0.99
74_P	77_F	1.000	0.99
196_N	223_K	0.999	0.99
260_D	264_K	0.997	0.99
82_I	117_T	0.995	0.99
181_D	212_G	0.993	0.99
209_E	247_H	0.990	0.99
40_T	62_Q	0.989	0.99
275_E	279_V	0.987	0.99
263_I	267_N	0.982	0.99
218_A	265_T	0.981	0.99
193_K	216_E	0.974	0.99
145_K	200_D	0.974	0.99
61_V	66_A	0.960	0.99
130_P	173_S	0.953	0.99
131_E	200_D	0.951	0.99
276_T	279_V	0.950	0.99
151_V	178_I	0.949	0.99
42_G	55_N	0.948	0.99
14_Q	57_V	0.944	0.99
211_G	262_K	0.941	0.99
131_E	145_K	0.939	0.99
272_E	283_T	0.934	0.99
40_T	60_A	0.926	0.99
79_A	108_V	0.925	0.99
10_R	38_G	0.925	0.99
68_A	94_I	0.924	0.99
81_A	84_E	0.915	0.99
230_V	271_I	0.913	0.99
162_V	175_A	0.909	0.99
11_V	33_T	0.907	0.98
197_E	223_K	0.906	0.98
208_G	232_G	0.903	0.98
95_C	112_M	0.902	0.98
181_D	188_F	0.900	0.98
101_P	104_D	0.900	0.98
12_I	66_A	0.899	0.98
110_R	113_E	0.893	0.98
18_G	49_E	0.889	0.98
279_V	282_E	0.887	0.98
152_S	158_T	0.886	0.98
100_I	104_D	0.884	0.98
46_T	53_V	0.883	0.98
125_P	159_Y	0.881	0.98
58_A	88_A	0.879	0.98
22_L	48_A	0.877	0.98
83_M	86_V	0.875	0.98
40_T	44_G	0.874	0.98
92_L	118_R	0.873	0.98
99_H	102_V	0.873	0.98
151_V	195_F	0.868	0.98
240_P	247_H	0.868	0.98
18_G	47_E	0.867	0.98
234_I	259_A	0.865	0.98
27_Q	30_E	0.864	0.98
165_L	172_Q	0.863	0.98
61_V	88_A	0.860	0.98
31_Y	39_V	0.859	0.98
192_L	196_N	0.856	0.98
150_V	165_L	0.847	0.98
105_M	180_G	0.847	0.98
231_V	283_T	0.838	0.97
41_P	54_F	0.837	0.97
16_I	22_L	0.837	0.97
93_V	112_M	0.829	0.97
205_I	231_V	0.829	0.97
190_D	216_E	0.826	0.97
23_F	138_M	0.823	0.97
83_M	115_K	0.821	0.97
10_R	67_N	0.821	0.97
29_L	49_E	0.814	0.97
5_I	92_L	0.814	0.97
172_Q	175_A	0.812	0.97
77_F	81_A	0.807	0.97
120_I	186_T	0.806	0.97
192_L	206_M	0.804	0.97
222_V	271_I	0.804	0.97
112_M	116_K	0.802	0.97
237_K	259_A	0.802	0.97
264_K	267_N	0.802	0.97
151_V	206_M	0.801	0.97
71_I	78_A	0.791	0.96
187_N	190_D	0.790	0.96
125_P	156_T	0.789	0.96
92_L	120_I	0.787	0.96
47_E	51_V	0.783	0.96
60_A	88_A	0.783	0.96
6_N	176_V	0.782	0.96
246_G	251_I	0.781	0.96
188_F	206_M	0.779	0.96
86_V	112_M	0.777	0.96
14_Q	81_A	0.774	0.96
86_V	108_V	0.771	0.96
37_G	51_V	0.766	0.96
267_N	275_E	0.764	0.96
79_A	86_V	0.763	0.96
6_N	132_E	0.761	0.96
11_V	31_Y	0.760	0.96
246_G	250_A	0.754	0.95
62_Q	88_A	0.754	0.95
89_E	115_K	0.753	0.95
28_M	70_V	0.752	0.95
149_G	174_T	0.751	0.95
237_K	263_I	0.751	0.95
241_P	244_R	0.750	0.95
86_V	93_V	0.748	0.95
107_K	111_F	0.747	0.95
27_Q	70_V	0.743	0.95
196_N	220_E	0.738	0.95
19_S	25_T	0.736	0.95
144_K	166_S	0.736	0.95
28_M	41_P	0.735	0.95
89_E	117_T	0.735	0.95
87_D	115_K	0.730	0.94
79_A	111_F	0.729	0.94
39_V	51_V	0.722	0.94
14_Q	85_A	0.720	0.94
18_G	48_A	0.719	0.94
41_P	53_V	0.717	0.94
244_R	248_A	0.712	0.94
143_H	162_V	0.711	0.94
174_T	194_A	0.709	0.94
247_H	250_A	0.709	0.94
152_S	207_I	0.708	0.93
274_A	280_M	0.705	0.93
100_I	180_G	0.704	0.93
41_P	52_P	0.704	0.93
191_V	195_F	0.703	0.93
84_E	87_D	0.702	0.93
164_Q	281_G	0.699	0.93
215_E	219_A	0.698	0.93
244_R	247_H	0.698	0.93
186_T	194_A	0.694	0.93
12_I	41_P	0.692	0.93
47_E	52_P	0.692	0.93
68_A	136_G	0.692	0.93
68_A	92_L	0.692	0.93
86_V	89_E	0.691	0.93
35_I	38_G	0.686	0.92
98_E	248_A	0.685	0.92
165_L	281_G	0.685	0.92
75_A	79_A	0.682	0.92
16_I	24_H	0.676	0.92
261_E	265_T	0.676	0.92
168_A	282_E	0.676	0.92
79_A	83_M	0.676	0.92
272_E	287_V	0.676	0.92
105_M	109_K	0.672	0.92
192_L	220_E	0.665	0.91
108_V	112_M	0.665	0.91
244_R	250_A	0.663	0.91
203_A	231_V	0.662	0.91
48_A	51_V	0.660	0.91
203_A	287_V	0.660	0.91
62_Q	66_A	0.659	0.91
91_D	117_T	0.659	0.91
123_N	180_G	0.658	0.91
72_Y	96_I	0.657	0.91
189_I	216_E	0.654	0.90
130_P	133_C	0.652	0.90
243_K	247_H	0.648	0.90
11_V	35_I	0.648	0.90
178_I	181_D	0.646	0.90
13_V	41_P	0.645	0.90
9_T	68_A	0.641	0.90
16_I	51_V	0.639	0.89
105_M	182_P	0.638	0.89
13_V	25_T	0.638	0.89
58_A	62_Q	0.637	0.89
102_V	180_G	0.634	0.89
150_V	162_V	0.632	0.89
187_N	213_T	0.628	0.89
86_V	114_G	0.628	0.89
219_A	222_V	0.625	0.88
66_A	90_L	0.625	0.88
28_M	39_V	0.621	0.88
234_I	273_V	0.620	0.88
178_I	191_V	0.615	0.88
40_T	55_N	0.607	0.87
75_A	100_I	0.606	0.87
193_K	220_E	0.604	0.87
239_A	242_G	0.603	0.87
220_E	223_K	0.602	0.87
16_I	41_P	0.602	0.87
121_G	179_G	0.601	0.86
7_K	131_E	0.596	0.86
283_T	286_K	0.594	0.86
97_T	124_C	0.593	0.86
75_A	99_H	0.593	0.86
112_M	115_K	0.592	0.86
77_F	80_D	0.591	0.85
193_K	196_N	0.590	0.85
84_E	88_A	0.587	0.85
46_T	52_P	0.585	0.85
40_T	61_V	0.583	0.85
57_V	69_S	0.582	0.85
111_F	114_G	0.581	0.85
28_M	35_I	0.580	0.84
210_I	249_G	0.579	0.84
7_K	129_T	0.577	0.84
206_M	230_V	0.575	0.84
69_S	93_V	0.573	0.84
150_V	161_A	0.572	0.84
124_C	152_S	0.570	0.83
98_E	156_T	0.569	0.83
17_T	24_H	0.568	0.83
214_A	217_E	0.568	0.83
21_A	26_K	0.567	0.83
100_I	105_M	0.565	0.83
89_E	116_K	0.565	0.83
155_G	209_E	0.564	0.83
257_G	265_T	0.562	0.83
216_E	219_A	0.558	0.82
263_I	275_E	0.558	0.82
195_F	201_T	0.558	0.82
132_E	145_K	0.557	0.82
280_M	284_L	0.556	0.82
118_R	194_A	0.556	0.82
244_R	252_I	0.555	0.82
247_H	251_I	0.554	0.82
74_P	97_T	0.554	0.82
123_N	247_H	0.553	0.82
44_G	59_E	0.553	0.82
23_F	72_Y	0.552	0.81
139_P	159_Y	0.552	0.81
29_L	51_V	0.551	0.81
166_S	172_Q	0.551	0.81
11_V	67_N	0.550	0.81
71_I	93_V	0.547	0.81
231_V	284_L	0.547	0.81
66_A	89_E	0.544	0.80
195_F	204_V	0.544	0.80
221_W	226_M	0.543	0.80
223_K	268_A	0.543	0.80
105_M	108_V	0.542	0.80
247_H	257_G	0.540	0.80
74_P	155_G	0.538	0.80
211_G	217_E	0.536	0.80
45_G	49_E	0.536	0.80
12_I	69_S	0.535	0.79
36_V	133_C	0.533	0.79
149_G	229_P	0.529	0.79
91_D	118_R	0.527	0.78
133_C	136_G	0.527	0.78
151_V	188_F	0.527	0.78
79_A	82_I	0.525	0.78
113_E	116_K	0.525	0.78
243_K	248_A	0.524	0.78
90_L	117_T	0.524	0.78
240_P	244_R	0.523	0.78
5_I	120_I	0.522	0.78
177_G	207_I	0.521	0.78
113_E	185_G	0.521	0.78
223_K	226_M	0.521	0.78
193_K	226_M	0.518	0.77
102_V	105_M	0.517	0.77
78_A	97_T	0.516	0.77
60_A	90_L	0.513	0.77
40_T	66_A	0.513	0.77
155_G	249_G	0.512	0.76
12_I	42_G	0.511	0.76
181_D	249_G	0.511	0.76
37_G	54_F	0.509	0.76
10_R	40_T	0.508	0.76
16_I	49_E	0.507	0.76
143_H	175_A	0.506	0.76
178_I	188_F	0.506	0.76
220_E	268_A	0.504	0.75
207_I	235_G	0.504	0.75
136_G	139_P	0.503	0.75
196_N	221_W	0.502	0.75
28_M	134_K	0.501	0.75
244_R	249_G	0.501	0.75
201_T	228_K	0.500	0.75

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
2csuA	2	0.9133	100	0.227	Contact Map
3pffA	2	0.92	100	0.23	Contact Map
3mwdB	1	0.9333	100	0.272	Contact Map
2fp4A	1	0.9667	100	0.335	Contact Map
2yv1A	1	0.8767	100	0.348	Contact Map
2nu8A	1	0.9433	100	0.351	Contact Map
1oi7A	1	0.89	100	0.364	Contact Map
2yv2A	1	0.8767	100	0.372	Contact Map
3dmyA	2	0.7333	100	0.396	Contact Map
3ff4A	1	0.4	99.9	0.727	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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