INSD1 - ECOLI - GREMLIN Contacts

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INSD1 - Transposase InsD for insertion element IS2A

UniProt:	P0CF53	Sequences: MDSARALIARGWGVSLVSRCLRVSRAQLHVILRRTDDWMDGRRSRHTDDTDVLLRIHHVIGELPTYGYRRVWALLRRQAELDGMPAINAKRVYRIMRQNALLLERKPAVPPSKRAHTGRVAVKESNQRWCSDGFEFCCDNGERLRVTFALDCCDREALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGSCYRANETRQFARMLGLEPKNTAVRSPESNGIAESFVKTIKRDYISIMPKPDGLTAAKNLAEAFEHYNEWHPHSALGYRSPREYLRQRACNGLSDNRCLEI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG40004
Length:	301 (254)
Sequences:	11404 (8534)
Seq/√Len:	535.5

ECOLI - INSD1 INSD2 INSD3 INSD4 INSD5 INSD6 INSK INSF1 INSF2 INSF3 INSF4 INSF5 YAGA INSD8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
148_F	237_V	2.874	1.00
223_A	229_S	2.794	1.00
279_R	287_Q	2.730	1.00
269_E	282_R	2.501	1.00
131_S	197_T	2.491	1.00
156_E	282_R	2.435	1.00
265_E	269_E	2.373	1.00
124_E	127_Q	2.360	1.00
177_L	211_F	2.357	1.00
72_W	76_R	2.225	1.00
126_N	129_W	2.216	1.00
53_L	99_N	2.133	1.00
238_K	242_R	2.111	1.00
161_A	178_G	2.092	1.00
148_F	233_A	2.085	1.00
130_C	233_A	2.034	1.00
130_C	152_C	1.991	1.00
212_A	217_L	1.970	1.00
280_S	283_E	1.965	1.00
235_S	238_K	1.958	1.00
156_E	285_L	1.933	1.00
123_K	127_Q	1.898	1.00
57_H	61_G	1.898	1.00
152_C	232_I	1.882	1.00
55_R	58_H	1.876	1.00
128_R	194_E	1.810	1.00
18_S	28_L	1.808	1.00
199_N	221_N	1.798	1.00
88_N	91_R	1.795	1.00
134_F	241_K	1.770	1.00
279_R	284_Y	1.769	1.00
251_P	255_T	1.766	1.00
155_R	275_A	1.754	1.00
127_Q	190_S	1.746	1.00
77_R	283_E	1.724	1.00
165_G	168_N	1.705	1.00
53_L	98_Q	1.674	1.00
197_T	219_P	1.665	1.00
154_D	284_Y	1.650	1.00
212_A	219_P	1.639	1.00
49_D	91_R	1.633	1.00
157_A	236_F	1.621	1.00
55_R	78_Q	1.620	1.00
222_T	230_N	1.620	1.00
159_H	264_F	1.609	1.00
252_D	255_T	1.592	1.00
74_L	78_Q	1.592	1.00
73_A	278_Y	1.585	1.00
250_K	259_N	1.576	1.00
199_N	224_V	1.554	1.00
168_N	171_T	1.552	1.00
24_S	27_Q	1.550	1.00
133_G	202_C	1.542	1.00
235_S	239_T	1.522	1.00
68_Y	93_Y	1.480	1.00
240_I	260_L	1.479	1.00
146_V	240_I	1.475	1.00
157_A	268_N	1.461	1.00
282_R	286_R	1.459	1.00
155_R	273_H	1.454	1.00
135_E	145_R	1.446	1.00
244_Y	259_N	1.438	1.00
161_A	174_D	1.435	1.00
169_S	173_Q	1.433	1.00
72_W	92_V	1.422	1.00
131_S	203_Y	1.415	1.00
56_I	71_V	1.410	1.00
135_E	143_R	1.406	1.00
209_R	219_P	1.399	1.00
211_F	215_L	1.391	1.00
55_R	59_V	1.353	1.00
173_Q	211_F	1.348	1.00
131_S	195_W	1.345	1.00
129_W	179_A	1.343	1.00
129_W	149_A	1.337	1.00
53_L	95_I	1.333	1.00
62_E	270_W	1.331	1.00
91_R	94_R	1.307	1.00
74_L	272_P	1.306	1.00
25_R	29_H	1.300	1.00
167_F	202_C	1.299	1.00
243_D	271_H	1.285	1.00
157_A	264_F	1.277	1.00
131_S	149_A	1.265	1.00
53_L	57_H	1.264	1.00
230_N	233_A	1.264	1.00
204_R	221_N	1.261	1.00
147_T	203_Y	1.261	1.00
244_Y	263_A	1.256	1.00
58_H	62_E	1.255	1.00
226_S	229_S	1.255	1.00
16_L	20_C	1.252	1.00
149_A	179_A	1.238	1.00
66_Y	70_R	1.238	1.00
228_E	231_G	1.232	1.00
93_Y	97_R	1.223	1.00
223_A	226_S	1.217	1.00
72_W	89_A	1.212	1.00
137_C	143_R	1.207	1.00
74_L	77_R	1.206	1.00
253_G	257_A	1.196	1.00
194_E	220_K	1.188	1.00
89_A	93_Y	1.180	1.00
49_D	52_V	1.174	1.00
147_T	175_V	1.172	1.00
173_Q	207_E	1.169	1.00
70_R	243_D	1.164	1.00
257_A	261_A	1.161	1.00
77_R	272_P	1.159	1.00
149_A	175_V	1.153	1.00
233_A	237_V	1.145	1.00
150_L	232_I	1.126	1.00
26_A	29_H	1.121	1.00
154_D	285_L	1.119	1.00
128_R	152_C	1.116	1.00
90_K	94_R	1.111	1.00
155_R	232_I	1.110	1.00
54_L	58_H	1.101	1.00
276_L	284_Y	1.097	1.00
23_V	28_L	1.096	1.00
159_H	175_V	1.092	1.00
122_V	127_Q	1.088	1.00
26_A	30_V	1.081	1.00
124_E	153_C	1.080	1.00
130_C	232_I	1.070	1.00
69_R	274_S	1.069	1.00
165_G	171_T	1.066	1.00
134_F	237_V	1.062	1.00
256_A	260_L	1.055	1.00
169_S	207_E	1.053	1.00
259_N	262_E	1.053	1.00
124_E	190_S	1.049	1.00
196_L	220_K	1.047	1.00
144_L	253_G	1.038	1.00
173_Q	177_L	1.037	1.00
210_Q	214_M	1.032	1.00
208_T	212_A	1.032	1.00
90_K	93_Y	1.030	1.00
122_V	128_R	1.028	1.00
128_R	196_L	1.027	1.00
150_L	233_A	1.025	1.00
160_W	178_G	1.020	1.00
68_Y	89_A	1.006	1.00
164_T	253_G	1.005	1.00
117_T	120_V	1.005	1.00
50_T	54_L	1.001	1.00
222_T	229_S	0.999	1.00
16_L	19_R	0.995	1.00
144_L	256_A	0.995	1.00
244_Y	250_K	0.991	1.00
57_H	99_N	0.989	1.00
27_Q	31_I	0.988	1.00
130_C	230_N	0.987	1.00
283_E	286_R	0.987	1.00
148_F	236_F	0.979	1.00
248_M	259_N	0.973	1.00
196_L	229_S	0.972	1.00
261_A	265_E	0.963	1.00
126_N	285_L	0.961	1.00
29_H	33_R	0.956	1.00
59_V	74_L	0.955	1.00
265_E	270_W	0.947	1.00
183_R	285_L	0.944	1.00
56_I	95_I	0.943	1.00
264_F	268_N	0.940	1.00
150_L	157_A	0.934	1.00
126_N	183_R	0.934	1.00
180_V	215_L	0.926	1.00
163_T	171_T	0.922	1.00
236_F	240_I	0.913	1.00
170_E	207_E	0.903	1.00
158_L	179_A	0.903	1.00
52_V	87_I	0.900	1.00
133_G	145_R	0.896	1.00
169_S	205_A	0.891	1.00
87_I	91_R	0.887	1.00
280_S	284_Y	0.886	1.00
23_V	27_Q	0.884	1.00
273_H	276_L	0.877	1.00
48_D	52_V	0.876	1.00
279_R	283_E	0.876	1.00
262_E	266_H	0.875	1.00
180_V	217_L	0.874	1.00
210_Q	213_R	0.867	1.00
176_M	195_W	0.864	1.00
206_N	210_Q	0.864	1.00
32_L	36_D	0.863	1.00
201_S	204_R	0.862	1.00
30_V	34_R	0.860	1.00
150_L	236_F	0.858	1.00
202_C	205_A	0.855	1.00
197_T	221_N	0.852	1.00
50_T	53_L	0.851	1.00
274_S	278_Y	0.850	1.00
267_Y	273_H	0.850	1.00
239_T	267_Y	0.844	1.00
177_L	181_E	0.843	1.00
255_T	259_N	0.835	1.00
205_A	208_T	0.833	1.00
125_S	154_D	0.833	1.00
112_S	115_A	0.833	1.00
243_D	263_A	0.831	1.00
63_L	266_H	0.827	1.00
159_H	178_G	0.825	1.00
70_R	74_L	0.820	1.00
48_D	91_R	0.817	1.00
27_Q	30_V	0.817	1.00
276_L	280_S	0.815	1.00
18_S	25_R	0.814	1.00
172_V	208_T	0.810	1.00
26_A	33_R	0.807	1.00
194_E	218_E	0.805	1.00
79_A	85_P	0.804	1.00
266_H	270_W	0.795	1.00
284_Y	287_Q	0.794	1.00
170_E	174_D	0.793	1.00
57_H	60_I	0.793	1.00
272_P	276_L	0.792	1.00
133_G	147_T	0.790	1.00
146_V	160_W	0.789	1.00
207_E	210_Q	0.788	1.00
52_V	55_R	0.787	1.00
201_S	205_A	0.786	1.00
17_V	21_L	0.783	1.00
125_S	153_C	0.783	1.00
59_V	71_V	0.779	1.00
133_G	172_V	0.779	1.00
158_L	182_R	0.777	1.00
162_V	257_A	0.777	1.00
136_F	245_I	0.775	1.00
147_T	172_V	0.774	1.00
113_K	116_H	0.763	1.00
21_L	28_L	0.763	1.00
95_I	98_Q	0.757	1.00
158_L	264_F	0.757	1.00
49_D	53_L	0.752	1.00
167_F	201_S	0.751	1.00
146_V	260_L	0.747	1.00
160_W	261_A	0.746	1.00
130_C	231_G	0.744	1.00
68_Y	71_V	0.742	1.00
196_L	222_T	0.737	1.00
75_L	92_V	0.736	1.00
88_N	94_R	0.734	1.00
164_T	171_T	0.731	1.00
76_R	86_A	0.730	1.00
195_W	217_L	0.728	1.00
133_G	167_F	0.724	1.00
155_R	276_L	0.723	1.00
60_I	64_P	0.721	1.00
209_R	213_R	0.721	1.00
56_I	92_V	0.719	1.00
147_T	171_T	0.717	1.00
122_V	153_C	0.711	1.00
134_F	146_V	0.707	1.00
70_R	274_S	0.707	1.00
145_R	167_F	0.705	1.00
130_C	196_L	0.705	1.00
44_S	47_T	0.705	1.00
95_I	99_N	0.703	1.00
278_Y	284_Y	0.703	1.00
51_D	55_R	0.702	1.00
60_I	101_L	0.699	1.00
111_P	114_R	0.698	1.00
131_S	147_T	0.697	1.00
136_F	256_A	0.696	1.00
195_W	208_T	0.692	1.00
174_D	177_L	0.690	1.00
129_W	158_L	0.688	1.00
68_Y	96_M	0.687	1.00
195_W	219_P	0.684	1.00
119_R	128_R	0.681	1.00
66_Y	74_L	0.678	1.00
71_V	96_M	0.678	1.00
30_V	33_R	0.674	1.00
69_R	89_A	0.672	1.00
260_L	264_F	0.670	1.00
177_L	215_L	0.667	1.00
91_R	95_I	0.662	1.00
57_H	101_L	0.660	1.00
87_I	92_V	0.652	1.00
126_N	179_A	0.644	1.00
239_T	273_H	0.643	1.00
55_R	85_P	0.638	1.00
67_G	70_R	0.637	1.00
122_V	152_C	0.637	1.00
17_V	20_C	0.636	1.00
235_S	242_R	0.636	1.00
156_E	183_R	0.632	1.00
138_C	141_G	0.629	1.00
34_R	37_D	0.627	1.00
171_T	174_D	0.626	1.00
48_D	51_D	0.626	1.00
47_T	53_L	0.623	1.00
150_L	155_R	0.622	1.00
156_E	269_E	0.621	1.00
167_F	171_T	0.619	1.00
51_D	54_L	0.615	1.00
237_V	240_I	0.614	1.00
28_L	32_L	0.614	1.00
68_Y	72_W	0.614	1.00
196_L	230_N	0.609	1.00
180_V	188_L	0.608	1.00
239_T	242_R	0.608	1.00
43_R	47_T	0.606	1.00
56_I	60_I	0.605	1.00
111_P	115_A	0.602	1.00
211_F	214_M	0.602	1.00
178_G	182_R	0.601	1.00
33_R	37_D	0.601	1.00
104_E	108_A	0.598	1.00
159_H	179_A	0.595	1.00
73_A	272_P	0.595	1.00
146_V	159_H	0.594	1.00
175_V	179_A	0.594	1.00
207_E	211_F	0.594	1.00
134_F	240_I	0.593	1.00
164_T	168_N	0.593	1.00
139_D	249_P	0.592	1.00
18_S	29_H	0.590	1.00
174_D	178_G	0.589	0.99
59_V	78_Q	0.589	0.99
220_K	229_S	0.588	0.99
167_F	172_V	0.587	0.99
32_L	35_T	0.586	0.99
117_T	121_A	0.582	0.99
254_L	257_A	0.582	0.99
88_N	92_V	0.579	0.99
72_W	88_N	0.574	0.99
23_V	31_I	0.573	0.99
197_T	203_Y	0.572	0.99
99_N	102_L	0.570	0.99
75_L	79_A	0.568	0.99
176_M	197_T	0.566	0.99
181_E	184_F	0.565	0.99
85_P	91_R	0.564	0.99
110_P	113_K	0.563	0.99
49_D	94_R	0.563	0.99
138_C	144_L	0.562	0.99
136_F	260_L	0.561	0.99
261_A	264_F	0.560	0.99
179_A	184_F	0.553	0.99
255_T	258_K	0.550	0.99
69_R	72_W	0.549	0.99
146_V	162_V	0.546	0.99
66_Y	71_V	0.544	0.99
149_A	176_M	0.544	0.99
222_T	225_R	0.542	0.99
29_H	32_L	0.541	0.99
145_R	202_C	0.537	0.99
31_I	35_T	0.537	0.99
163_T	167_F	0.535	0.99
106_K	110_P	0.533	0.99
242_R	246_S	0.533	0.99
254_L	258_K	0.530	0.99
276_L	279_R	0.529	0.99
160_W	175_V	0.528	0.99
110_P	114_R	0.527	0.99
190_S	218_E	0.527	0.99
71_V	75_L	0.524	0.99
244_Y	260_L	0.523	0.99
162_V	260_L	0.521	0.99
270_W	282_R	0.521	0.99
236_F	267_Y	0.520	0.99
120_V	123_K	0.518	0.99
208_T	219_P	0.517	0.99
63_L	74_L	0.517	0.99
133_G	200_G	0.516	0.99
188_L	215_L	0.516	0.99
173_Q	208_T	0.515	0.99
266_H	269_E	0.512	0.99
52_V	60_I	0.509	0.99
117_T	123_K	0.508	0.99
200_G	203_Y	0.505	0.98
76_R	89_A	0.505	0.98
31_I	34_R	0.503	0.98
147_T	160_W	0.503	0.98
60_I	63_L	0.503	0.98
236_F	264_F	0.502	0.98
53_L	56_I	0.502	0.98
163_T	168_N	0.500	0.98

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
4fcyA	4	0.9369	100	0.36	Contact Map
3oymA	3	0.9037	100	0.423	Contact Map
3f9kA	5	0.6877	100	0.492	Contact Map
4fw2A	2	0.5382	100	0.496	Contact Map
1k6yA	4	0.6445	100	0.496	Contact Map
4u7bA	2	0.9136	100	0.502	Contact Map
4cf8A	2	0.495	100	0.515	Contact Map
1bcoA	1	0.5781	100	0.515	Contact Map
3hphA	3	0.6811	100	0.518	Contact Map
2x78A	2	0.5415	100	0.519	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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