HDA - ECOLI - GREMLIN Contacts

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

HDA - DnaA regulatory inactivator Hda

UniProt:	P69931	Sequences: MNTPAQLSLPLYLPDDETFASFWPGDNSSLLAALQNVLRQEHSGYIYLWAREGAGRSHLLHAACAELSQRGDAVGYVPLDKRTWFVPEVLDGMEHLSLVCIDNIECIAGDELWEMAIFDLYNRILESGKTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEDKLQALQLRARLRGFELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRKLTIPFVKEILKL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14201
Length:	233 (184)
Sequences:	23892 (12001)
Seq/√Len:	884.7

ECOLI - HDA FTSH DNAA RARA RUVB DPO3X
BACSU - FTSH DNAA YJOB YRVN SP5K RUVB DPO3X YPLP YEAC
HALSA - PAN1 Q9HPG1 PAN2 Q9HNK6 CDCH Q9HPV0 Q9HPU1 Q9HHW2 CDC69 RFCL CDC61 RFCS Q9HN59 CDC65 CDC66 CDC68 CDC6A GVPN2 CDC64 CDC62 GVPN1
SULSO - PAN Q97ZJ7 Q97V06 Q97W25 Q97ZZ9 Q980U9 CDC63 RFCS RFCL CDC61 Q97W74 CDC62

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
166_S	169_D	3.563	1.00
171_L	191_R	3.552	1.00
175_Q	190_G	3.545	1.00
171_L	175_Q	3.063	1.00
167_D	195_K	2.932	1.00
86_V	90_L	2.815	1.00
177_R	205_F	2.614	1.00
192_F	196_R	2.487	1.00
100_C	136_G	2.312	1.00
174_L	204_L	2.122	1.00
86_V	89_V	2.120	1.00
172_Q	175_Q	2.116	1.00
48_L	162_L	2.032	1.00
27_N	30_L	2.010	1.00
116_A	120_L	1.896	1.00
122_N	126_E	1.882	1.00
35_Q	39_R	1.855	1.00
178_A	208_L	1.839	1.00
28_S	35_Q	1.758	1.00
87_P	90_L	1.754	1.00
167_D	171_L	1.741	1.00
59_L	162_L	1.728	1.00
171_L	190_G	1.708	1.00
139_P	142_Q	1.700	1.00
173_A	201_M	1.622	1.00
104_I	135_T	1.594	1.00
78_P	81_K	1.591	1.00
49_W	161_K	1.579	1.00
177_R	180_L	1.571	1.00
91_D	95_H	1.548	1.00
167_D	191_R	1.511	1.00
36_N	40_Q	1.504	1.00
152_S	202_R	1.502	1.00
35_Q	38_L	1.495	1.00
34_L	37_V	1.488	1.00
167_D	194_L	1.486	1.00
164_P	200_E	1.465	1.00
90_L	93_M	1.457	1.00
175_Q	187_E	1.428	1.00
108_A	150_L	1.411	1.00
32_A	36_N	1.405	1.00
186_P	189_V	1.399	1.00
31_L	35_Q	1.367	1.00
93_M	96_L	1.355	1.00
200_E	203_T	1.353	1.00
112_L	115_M	1.343	1.00
92_G	96_L	1.342	1.00
51_R	164_P	1.322	1.00
33_A	37_V	1.318	1.00
172_Q	176_L	1.308	1.00
86_V	92_G	1.307	1.00
34_L	38_L	1.304	1.00
27_N	31_L	1.303	1.00
27_N	35_Q	1.302	1.00
88_E	92_G	1.301	1.00
178_A	181_R	1.290	1.00
27_N	37_V	1.288	1.00
205_F	209_D	1.288	1.00
33_A	36_N	1.282	1.00
86_V	93_M	1.267	1.00
196_R	199_R	1.266	1.00
191_R	195_K	1.244	1.00
30_L	35_Q	1.226	1.00
181_R	208_L	1.225	1.00
64_C	74_V	1.222	1.00
35_Q	40_Q	1.219	1.00
170_K	204_L	1.205	1.00
193_L	197_L	1.198	1.00
28_S	32_A	1.185	1.00
45_Y	121_Y	1.178	1.00
28_S	31_L	1.173	1.00
49_W	159_I	1.173	1.00
73_A	97_S	1.154	1.00
75_G	97_S	1.143	1.00
190_G	194_L	1.133	1.00
30_L	38_L	1.121	1.00
57_S	102_D	1.118	1.00
194_L	197_L	1.118	1.00
33_A	38_L	1.116	1.00
92_G	95_H	1.116	1.00
67_L	98_L	1.112	1.00
27_N	32_A	1.101	1.00
115_M	119_D	1.100	1.00
174_L	190_G	1.094	1.00
37_V	40_Q	1.088	1.00
193_L	199_R	1.085	1.00
27_N	33_A	1.069	1.00
165_L	173_A	1.069	1.00
87_P	91_D	1.059	1.00
67_L	72_D	1.044	1.00
89_V	93_M	1.032	1.00
135_T	138_R	1.031	1.00
118_F	122_N	1.021	1.00
131_R	135_T	1.020	1.00
187_E	190_G	1.017	1.00
193_L	196_R	1.015	1.00
207_T	211_L	1.014	1.00
191_R	194_L	1.009	1.00
123_R	126_E	1.008	1.00
31_L	38_L	1.006	1.00
171_L	187_E	1.005	1.00
185_L	189_V	0.989	1.00
33_A	39_R	0.988	1.00
192_F	195_K	0.978	1.00
47_Y	104_I	0.964	1.00
29_S	36_N	0.964	1.00
169_D	172_Q	0.963	1.00
109_G	112_L	0.959	1.00
194_L	199_R	0.950	1.00
28_S	34_L	0.947	1.00
188_D	191_R	0.942	1.00
111_E	114_E	0.941	1.00
32_A	37_V	0.933	1.00
27_N	38_L	0.931	1.00
176_L	180_L	0.930	1.00
62_A	65_A	0.930	1.00
118_F	121_Y	0.929	1.00
181_R	212_D	0.924	1.00
47_Y	154_L	0.923	1.00
168_E	171_L	0.923	1.00
49_W	140_P	0.923	1.00
170_K	194_L	0.914	1.00
167_D	198_D	0.908	1.00
109_G	113_W	0.896	1.00
192_F	199_R	0.894	1.00
34_L	40_Q	0.891	1.00
51_R	54_A	0.888	1.00
177_R	181_R	0.887	1.00
176_L	179_R	0.887	1.00
73_A	96_L	0.884	1.00
31_L	37_V	0.877	1.00
88_E	91_D	0.872	1.00
74_V	100_C	0.872	1.00
31_L	34_L	0.868	1.00
134_I	137_D	0.865	1.00
89_V	92_G	0.864	1.00
206_M	210_Q	0.864	1.00
210_Q	214_A	0.860	1.00
214_A	218_A	0.855	1.00
30_L	40_Q	0.848	1.00
29_S	32_A	0.847	1.00
61_H	76_Y	0.842	1.00
30_L	37_V	0.838	1.00
119_D	122_N	0.835	1.00
30_L	36_N	0.832	1.00
184_E	187_E	0.832	1.00
115_M	118_F	0.832	1.00
116_A	119_D	0.831	1.00
34_L	39_R	0.830	1.00
181_R	209_D	0.830	1.00
75_G	96_L	0.826	1.00
151_A	159_I	0.821	1.00
31_L	39_R	0.820	1.00
94_E	120_L	0.819	1.00
28_S	37_V	0.819	1.00
30_L	34_L	0.813	1.00
27_N	34_L	0.799	1.00
79_L	107_I	0.798	1.00
60_L	134_I	0.797	1.00
62_A	66_E	0.793	1.00
171_L	194_L	0.793	1.00
174_L	193_L	0.793	1.00
28_S	38_L	0.791	1.00
30_L	33_A	0.785	1.00
168_E	172_Q	0.782	1.00
90_L	94_E	0.776	1.00
63_A	98_L	0.773	1.00
134_I	154_L	0.769	1.00
105_E	137_D	0.768	1.00
214_A	217_T	0.767	1.00
83_T	109_G	0.754	1.00
183_F	186_P	0.750	1.00
189_V	192_F	0.745	1.00
122_N	125_L	0.744	1.00
28_S	39_R	0.743	1.00
187_E	191_R	0.737	1.00
178_A	183_F	0.727	1.00
33_A	40_Q	0.722	1.00
178_A	190_G	0.719	1.00
174_L	208_L	0.710	1.00
200_E	204_L	0.709	1.00
36_N	39_R	0.706	1.00
189_V	193_L	0.706	1.00
102_D	153_R	0.705	1.00
140_P	161_K	0.705	1.00
195_K	198_D	0.703	1.00
140_P	143_L	0.702	1.00
32_A	35_Q	0.701	1.00
32_A	40_Q	0.701	1.00
60_L	100_C	0.700	1.00
210_Q	213_R	0.700	1.00
117_I	122_N	0.692	1.00
148_P	151_A	0.684	1.00
209_D	213_R	0.679	1.00
109_G	114_E	0.675	1.00
29_S	33_A	0.673	1.00
177_R	208_L	0.668	1.00
30_L	39_R	0.666	1.00
197_L	204_L	0.665	1.00
213_R	217_T	0.663	1.00
201_M	204_L	0.662	1.00
131_R	136_G	0.660	1.00
188_D	192_F	0.658	1.00
41_E	209_D	0.658	1.00
32_A	39_R	0.657	1.00
31_L	36_N	0.654	1.00
170_K	174_L	0.648	1.00
110_D	113_W	0.647	1.00
28_S	40_Q	0.639	1.00
114_E	118_F	0.637	1.00
178_A	185_L	0.632	1.00
119_D	123_R	0.628	1.00
134_I	138_R	0.628	1.00
103_N	153_R	0.628	1.00
27_N	40_Q	0.624	1.00
77_V	82_R	0.624	1.00
63_A	134_I	0.620	1.00
185_L	190_G	0.619	1.00
215_S	219_Q	0.615	1.00
105_E	149_D	0.614	1.00
123_R	127_S	0.610	1.00
101_I	117_I	0.606	1.00
127_S	131_R	0.605	1.00
27_N	39_R	0.601	1.00
45_Y	154_L	0.597	1.00
211_L	215_S	0.592	1.00
111_E	115_M	0.591	1.00
120_L	124_I	0.583	1.00
170_K	198_D	0.581	1.00
208_L	212_D	0.580	1.00
75_G	92_G	0.579	1.00
77_V	89_V	0.579	1.00
109_G	115_M	0.576	1.00
83_T	112_L	0.575	1.00
156_W	159_I	0.575	1.00
202_R	206_M	0.570	1.00
185_L	188_D	0.570	1.00
212_D	215_S	0.569	1.00
110_D	114_E	0.567	1.00
206_M	209_D	0.562	1.00
90_L	96_L	0.560	1.00
110_D	115_M	0.560	1.00
47_Y	136_G	0.560	1.00
131_R	134_I	0.559	1.00
50_A	54_A	0.558	1.00
68_S	72_D	0.554	1.00
58_H	201_M	0.554	1.00
120_L	123_R	0.551	1.00
190_G	197_L	0.550	1.00
79_L	82_R	0.549	1.00
167_D	170_K	0.548	1.00
52_E	103_N	0.547	1.00
189_V	197_L	0.546	1.00
138_R	142_Q	0.543	1.00
58_H	62_A	0.542	1.00
29_S	38_L	0.535	1.00
47_Y	140_P	0.532	1.00
61_H	74_V	0.530	1.00
87_P	93_M	0.529	1.00
90_L	133_L	0.528	1.00
35_Q	66_E	0.524	1.00
72_D	97_S	0.524	1.00
140_P	151_A	0.523	1.00
29_S	39_R	0.522	1.00
165_L	169_D	0.522	1.00
174_L	207_T	0.522	1.00
163_Q	169_D	0.520	1.00
80_D	106_C	0.518	1.00
131_R	137_D	0.516	1.00
103_N	138_R	0.515	1.00
104_I	108_A	0.511	1.00
155_D	206_M	0.509	1.00
170_K	197_L	0.509	1.00
86_V	91_D	0.506	1.00
86_V	96_L	0.501	1.00
29_S	37_V	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
3bosA	2	0.9828	100	0.306	Contact Map
2z4sA	1	0.9528	100	0.334	Contact Map
1l8qA	1	0.9442	99.9	0.377	Contact Map
4ww0A	4	0.9313	99.9	0.391	Contact Map
4ko8A	3	0.9571	99.9	0.399	Contact Map
2qp9X	1	0.8712	99.9	0.41	Contact Map
4cr2I	1	0.9614	99.9	0.412	Contact Map
4cr2M	1	0.9571	99.9	0.413	Contact Map
2qz4A	1	0.8326	99.9	0.415	Contact Map
4cr2H	1	0.9571	99.9	0.415	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 0.009 seconds.