ICIA - ECOLI - GREMLIN Contacts

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ICIA - Chromosome initiation inhibitor

UniProt:	P0A8S1	Sequences: MKRPDYRTLQALDAVIRERGFERAAQKLCITQSAVSQRIKQLENMFGQPLLVRTVPPRPTEQGQKLLALLRQVELLEEEWLGDEQTGSTPLLLSLAVNADSLATWLLPALAPVLADSPIRLNLQVEDETRTQERLRRGEVVGAVSIQHQALPSCLVDKLGALDYLFVSSKPFAEKYFPNGVTRSALLKAPVVAFDHLDDMHQAFLQQNFDLPPGSVPCHIVNSSEAFVQLARQGTTCCMIPHLQIEKELASGELIDLTPGLFQRRMLYWHRFAPESRMMRKVTDALLDYGHKVLRQD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10490
Length:	297 (281)
Sequences:	79777 (57835)
Seq/√Len:	3450.1

ECOLI - ICIA LYSR OXYR CYNR YFER XAPR YBDO YNFL PGRR LEUO CYSB DSDC TTDR YBEF NAC TDCA YBHD YAFC AAER YHAJ HCAR CBL YEIE DMLR NHAR YDCI YCAN METR YNEJ GCVA YIDZ ILVY YHJC YFIE YEEY ABGR YGFI YDHB ALLS YAHB YIAU LRHA YJIE PERR HDFR
BACSU - YTLI YCGK CYSL YWBI ALSR GLTC YYBE GLTR CITR YVBU BSDA YWQM YUST YOAU CZCR YOFA YKUM YXJO YRAN

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
72_Q	76_L	3.641	1.00
18_E	27_K	3.402	1.00
157_D	287_L	2.698	1.00
96_A	140_V	2.475	1.00
69_L	83_D	2.465	1.00
14_A	27_K	2.357	1.00
231_A	238_C	2.269	1.00
161_A	264_R	2.231	1.00
158_K	161_A	2.223	1.00
92_L	122_N	2.211	1.00
172_F	189_A	2.203	1.00
163_D	242_H	2.177	1.00
158_K	264_R	2.166	1.00
48_Q	62_Q	2.128	1.00
92_L	120_R	2.113	1.00
11_A	38_R	2.074	1.00
23_R	26_Q	2.073	1.00
182_T	185_A	2.027	1.00
112_P	285_A	2.018	1.00
13_D	71_R	2.017	1.00
69_L	76_L	1.998	1.00
17_R	71_R	1.996	1.00
228_V	248_E	1.972	1.00
94_S	122_N	1.969	1.00
13_D	17_R	1.963	1.00
13_D	67_L	1.961	1.00
14_A	18_E	1.934	1.00
14_A	17_R	1.923	1.00
165_L	242_H	1.921	1.00
16_I	59_P	1.886	1.00
11_A	35_V	1.884	1.00
192_V	236_T	1.882	1.00
73_V	77_E	1.862	1.00
67_L	71_R	1.824	1.00
232_R	248_E	1.790	1.00
52_V	58_R	1.736	1.00
190_P	218_C	1.735	1.00
21_F	39_I	1.734	1.00
134_R	139_E	1.720	1.00
66_L	80_W	1.700	1.00
131_T	143_A	1.695	1.00
161_A	262_F	1.686	1.00
65_K	83_D	1.683	1.00
177_F	185_A	1.681	1.00
156_V	266_M	1.663	1.00
16_I	67_L	1.650	1.00
18_E	23_R	1.594	1.00
113_V	282_V	1.592	1.00
155_L	271_R	1.583	1.00
13_D	70_L	1.568	1.00
17_R	27_K	1.559	1.00
8_T	38_R	1.528	1.00
12_L	67_L	1.516	1.00
11_A	30_I	1.514	1.00
69_L	72_Q	1.505	1.00
133_E	137_R	1.496	1.00
8_T	45_M	1.488	1.00
31_T	34_A	1.478	1.00
20_G	23_R	1.477	1.00
157_D	269_W	1.477	1.00
201_H	205_L	1.471	1.00
88_S	118_P	1.468	1.00
113_V	119_I	1.467	1.00
22_E	32_Q	1.466	1.00
8_T	41_Q	1.449	1.00
49_P	52_V	1.443	1.00
5_D	8_T	1.438	1.00
283_T	287_L	1.429	1.00
61_E	64_Q	1.426	1.00
14_A	28_L	1.422	1.00
145_S	268_Y	1.392	1.00
69_L	79_E	1.392	1.00
155_L	269_W	1.391	1.00
275_E	279_M	1.390	1.00
13_D	74_E	1.388	1.00
103_A	225_E	1.386	1.00
73_V	80_W	1.376	1.00
54_T	58_R	1.375	1.00
147_Q	266_M	1.367	1.00
94_S	124_Q	1.350	1.00
90_P	118_P	1.343	1.00
281_K	284_D	1.337	1.00
269_W	283_T	1.335	1.00
116_D	285_A	1.327	1.00
134_R	140_V	1.322	1.00
162_L	243_L	1.318	1.00
66_L	81_L	1.305	1.00
232_R	253_E	1.305	1.00
6_Y	77_E	1.304	1.00
165_L	256_D	1.303	1.00
76_L	79_E	1.303	1.00
267_L	283_T	1.298	1.00
112_P	116_D	1.293	1.00
142_G	279_M	1.287	1.00
136_R	153_S	1.281	1.00
168_S	237_C	1.281	1.00
227_F	238_C	1.271	1.00
142_G	267_L	1.264	1.00
68_A	72_Q	1.263	1.00
189_A	237_C	1.258	1.00
114_L	218_C	1.256	1.00
45_M	81_L	1.241	1.00
69_L	80_W	1.241	1.00
229_Q	232_R	1.236	1.00
114_L	190_P	1.212	1.00
111_A	115_A	1.203	1.00
65_K	68_A	1.203	1.00
249_L	252_G	1.198	1.00
158_K	266_M	1.197	1.00
30_I	34_A	1.189	1.00
12_L	51_L	1.185	1.00
179_N	255_I	1.176	1.00
37_Q	41_Q	1.162	1.00
242_H	246_E	1.161	1.00
40_K	44_N	1.156	1.00
242_H	256_D	1.155	1.00
64_Q	68_A	1.151	1.00
111_A	233_Q	1.147	1.00
12_L	16_I	1.143	1.00
173_A	189_A	1.132	1.00
170_K	253_E	1.129	1.00
156_V	268_Y	1.127	1.00
37_Q	40_K	1.126	1.00
122_N	220_I	1.123	1.00
65_K	69_L	1.105	1.00
190_P	216_V	1.097	1.00
284_D	287_L	1.093	1.00
9_L	70_L	1.093	1.00
12_L	50_L	1.090	1.00
208_N	213_P	1.089	1.00
102_L	125_V	1.088	1.00
72_Q	79_E	1.085	1.00
112_P	115_A	1.080	1.00
21_F	57_P	1.077	1.00
228_V	232_R	1.077	1.00
192_V	227_F	1.074	1.00
108_P	233_Q	1.071	1.00
177_F	180_G	1.071	1.00
36_S	40_K	1.069	1.00
113_V	285_A	1.066	1.00
38_R	41_Q	1.065	1.00
14_A	24_A	1.058	1.00
157_D	283_T	1.056	1.00
221_V	227_F	1.053	1.00
73_V	76_L	1.051	1.00
7_R	10_Q	1.050	1.00
93_L	282_V	1.047	1.00
280_R	284_D	1.046	1.00
15_V	24_A	1.035	1.00
229_Q	233_Q	1.034	1.00
126_E	134_R	1.034	1.00
109_A	286_L	1.025	1.00
246_E	250_A	1.022	1.00
169_S	234_G	1.020	1.00
10_Q	78_E	1.018	1.00
181_V	185_A	1.013	1.00
81_L	85_Q	1.013	1.00
252_G	256_D	1.002	1.00
59_P	63_G	0.992	1.00
285_A	288_D	0.987	1.00
136_R	151_L	0.984	1.00
66_L	70_L	0.978	1.00
30_I	35_V	0.971	1.00
247_K	251_S	0.970	1.00
124_Q	134_R	0.967	1.00
75_L	79_E	0.967	1.00
172_F	175_K	0.962	1.00
202_Q	205_L	0.961	1.00
11_A	28_L	0.960	1.00
78_E	82_G	0.958	1.00
135_L	143_A	0.957	1.00
16_I	51_L	0.956	1.00
166_F	237_C	0.956	1.00
78_E	81_L	0.953	1.00
167_V	245_I	0.949	1.00
168_S	172_F	0.948	1.00
163_D	262_F	0.946	1.00
12_L	59_P	0.945	1.00
15_V	21_F	0.944	1.00
193_A	217_P	0.944	1.00
170_K	251_S	0.938	1.00
253_E	256_D	0.934	1.00
24_A	35_V	0.929	1.00
221_V	230_L	0.927	1.00
41_Q	44_N	0.926	1.00
248_E	253_E	0.922	1.00
12_L	42_L	0.915	1.00
48_Q	84_E	0.915	1.00
276_S	279_M	0.914	1.00
116_D	288_D	0.907	1.00
180_G	258_T	0.906	1.00
23_R	27_K	0.905	1.00
96_A	145_S	0.903	1.00
168_S	255_I	0.902	1.00
109_A	285_A	0.900	1.00
191_V	215_S	0.891	1.00
51_L	57_P	0.884	1.00
172_F	176_Y	0.877	1.00
19_R	58_R	0.875	1.00
68_A	71_R	0.871	1.00
99_A	223_S	0.868	1.00
204_F	208_N	0.866	1.00
72_Q	75_L	0.866	1.00
120_R	216_V	0.864	1.00
16_I	63_G	0.856	1.00
7_R	38_R	0.854	1.00
134_R	137_R	0.853	1.00
22_E	26_Q	0.852	1.00
140_V	143_A	0.852	1.00
119_I	278_M	0.851	1.00
248_E	251_S	0.851	1.00
147_Q	264_R	0.848	1.00
270_H	273_A	0.846	1.00
174_E	189_A	0.843	1.00
91_L	278_M	0.842	1.00
62_Q	84_E	0.837	1.00
173_A	179_N	0.837	1.00
168_S	173_A	0.835	1.00
28_L	35_V	0.834	1.00
111_A	235_T	0.830	1.00
185_A	188_K	0.830	1.00
190_P	217_P	0.830	1.00
91_L	119_I	0.825	1.00
167_V	238_C	0.823	1.00
155_L	158_K	0.823	1.00
6_Y	74_E	0.820	1.00
163_D	256_D	0.818	1.00
95_L	142_G	0.817	1.00
77_E	81_L	0.816	1.00
172_F	190_P	0.815	1.00
96_A	143_A	0.814	1.00
132_Q	136_R	0.806	1.00
124_Q	140_V	0.806	1.00
176_Y	190_P	0.803	1.00
12_L	66_L	0.803	1.00
284_D	288_D	0.803	1.00
19_R	64_Q	0.802	1.00
77_E	80_W	0.796	1.00
275_E	280_R	0.796	1.00
19_R	56_P	0.795	1.00
154_C	268_Y	0.794	1.00
202_Q	206_Q	0.791	1.00
232_R	251_S	0.789	1.00
153_S	271_R	0.789	1.00
114_L	235_T	0.789	1.00
169_S	235_T	0.787	1.00
16_I	19_R	0.786	1.00
79_E	83_D	0.782	1.00
76_L	80_W	0.780	1.00
62_Q	65_K	0.780	1.00
32_Q	36_S	0.778	1.00
17_R	67_L	0.778	1.00
245_I	248_E	0.777	1.00
207_Q	211_L	0.776	1.00
18_E	24_A	0.773	1.00
277_R	281_K	0.773	1.00
15_V	51_L	0.767	1.00
142_G	282_V	0.767	1.00
40_K	49_P	0.766	1.00
184_S	187_L	0.763	1.00
8_T	11_A	0.763	1.00
168_S	257_L	0.761	1.00
15_V	39_I	0.755	1.00
96_A	131_T	0.754	1.00
116_D	281_K	0.742	1.00
230_L	235_T	0.742	1.00
10_Q	14_A	0.739	1.00
71_R	75_L	0.732	1.00
70_L	73_V	0.731	1.00
80_W	84_E	0.731	1.00
113_V	281_K	0.727	1.00
52_V	60_T	0.726	1.00
21_F	35_V	0.726	1.00
15_V	35_V	0.726	1.00
171_P	175_K	0.722	1.00
97_V	102_L	0.720	1.00
223_S	226_A	0.717	1.00
168_S	174_E	0.714	1.00
187_L	213_P	0.713	1.00
136_R	154_C	0.711	1.00
138_G	270_H	0.711	1.00
169_S	172_F	0.708	1.00
167_V	240_I	0.705	1.00
249_L	256_D	0.705	1.00
64_Q	67_L	0.703	1.00
126_E	131_T	0.695	1.00
43_E	53_R	0.694	1.00
58_R	64_Q	0.694	1.00
94_S	140_V	0.692	1.00
281_K	285_A	0.688	1.00
34_A	38_R	0.688	1.00
43_E	48_Q	0.688	1.00
195_D	220_I	0.686	1.00
184_S	211_L	0.685	1.00
59_P	64_Q	0.684	1.00
62_Q	66_L	0.683	1.00
171_P	234_G	0.682	1.00
203_A	207_Q	0.681	1.00
141_V	279_M	0.674	1.00
103_A	229_Q	0.674	1.00
10_Q	13_D	0.673	1.00
61_E	65_K	0.672	1.00
94_S	141_V	0.672	1.00
207_Q	210_D	0.667	1.00
52_V	56_P	0.664	1.00
112_P	288_D	0.662	1.00
241_P	244_Q	0.658	1.00
194_F	227_F	0.657	1.00
163_D	260_G	0.653	1.00
201_H	220_I	0.653	1.00
202_Q	207_Q	0.651	1.00
66_L	84_E	0.650	1.00
79_E	82_G	0.647	1.00
75_L	78_E	0.647	1.00
205_L	209_F	0.647	1.00
206_Q	209_F	0.645	1.00
167_V	249_L	0.645	1.00
39_I	43_E	0.644	1.00
191_V	237_C	0.643	1.00
7_R	41_Q	0.642	1.00
219_H	230_L	0.642	1.00
171_P	174_E	0.640	1.00
69_L	73_V	0.639	1.00
273_A	276_S	0.637	1.00
188_K	216_V	0.637	1.00
133_E	136_R	0.634	1.00
120_R	220_I	0.632	1.00
173_A	176_Y	0.630	1.00
206_Q	210_D	0.628	1.00
26_Q	29_C	0.626	1.00
97_V	106_L	0.626	1.00
166_F	239_M	0.622	1.00
93_L	278_M	0.618	1.00
166_F	186_L	0.615	1.00
167_V	254_L	0.615	1.00
277_R	280_R	0.613	1.00
70_L	74_E	0.607	1.00
24_A	28_L	0.607	1.00
195_D	222_N	0.605	1.00
174_E	177_F	0.605	1.00
21_F	56_P	0.604	1.00
125_V	222_N	0.604	1.00
15_V	20_G	0.602	1.00
108_P	111_A	0.602	1.00
144_V	286_L	0.601	1.00
203_A	206_Q	0.600	1.00
245_I	249_L	0.596	1.00
142_G	283_T	0.596	1.00
205_L	208_N	0.594	1.00
173_A	177_F	0.593	1.00
182_T	258_T	0.591	1.00
201_H	204_F	0.589	1.00
82_G	86_T	0.589	1.00
10_Q	74_E	0.589	1.00
125_V	223_S	0.587	1.00
48_Q	52_V	0.586	1.00
90_P	120_R	0.586	1.00
204_F	207_Q	0.585	1.00
99_A	127_D	0.585	1.00
282_V	286_L	0.582	1.00
201_H	207_Q	0.582	1.00
106_L	109_A	0.581	1.00
259_P	262_F	0.579	1.00
65_K	84_E	0.578	1.00
166_F	191_V	0.577	1.00
269_W	280_R	0.577	1.00
176_Y	179_N	0.575	1.00
7_R	11_A	0.573	1.00
200_M	203_A	0.572	1.00
93_L	142_G	0.572	1.00
51_L	59_P	0.571	1.00
247_K	250_A	0.570	1.00
46_F	66_L	0.570	1.00
108_P	112_P	0.568	1.00
227_F	231_A	0.567	1.00
12_L	63_G	0.565	1.00
74_E	78_E	0.563	1.00
59_P	67_L	0.561	1.00
31_T	37_Q	0.559	1.00
164_Y	239_M	0.559	1.00
46_F	84_E	0.558	1.00
221_V	226_A	0.557	1.00
101_S	105_W	0.555	1.00
208_N	215_S	0.552	1.00
147_Q	156_V	0.551	1.00
34_A	37_Q	0.549	1.00
196_H	220_I	0.548	1.00
33_S	37_Q	0.547	1.00
230_L	236_T	0.546	1.00
21_F	53_R	0.546	1.00
172_F	237_C	0.545	1.00
155_L	272_F	0.545	1.00
96_A	124_Q	0.545	1.00
5_D	45_M	0.541	1.00
174_E	181_V	0.541	1.00
21_F	32_Q	0.540	1.00
86_T	89_T	0.536	1.00
11_A	39_I	0.534	1.00
159_L	267_L	0.534	1.00
240_I	245_I	0.533	1.00
68_A	83_D	0.531	1.00
108_P	229_Q	0.531	1.00
160_G	265_R	0.531	1.00
110_L	121_L	0.529	1.00
16_I	64_Q	0.529	1.00
105_W	109_A	0.528	1.00
46_F	49_P	0.526	1.00
49_P	62_Q	0.524	1.00
91_L	118_P	0.523	1.00
168_S	175_K	0.518	1.00
224_S	241_P	0.518	1.00
74_E	77_E	0.515	1.00
30_I	38_R	0.514	1.00
11_A	24_A	0.512	1.00
107_L	111_A	0.511	1.00
69_L	84_E	0.508	1.00
73_V	81_L	0.508	1.00
83_D	86_T	0.507	1.00
19_R	57_P	0.506	1.00
96_A	126_E	0.506	1.00
170_K	255_I	0.501	1.00
103_A	223_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
1uthA	2	0.7441	100	0.131	Contact Map
2esnA	3	0.9731	100	0.134	Contact Map
3fzvA	4	0.9529	100	0.134	Contact Map
1ixcA	4	0.9663	100	0.135	Contact Map
2h9bA	2	0.6936	100	0.148	Contact Map
2h98A	2	0.6936	100	0.149	Contact Map
3ispA	3	0.9731	100	0.15	Contact Map
1al3A	1	0.7003	100	0.155	Contact Map
4x6gA	4	0.9899	100	0.156	Contact Map
3fxqA	3	0.963	100	0.163	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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