OPENSEQ.org - GREA - ECOLI GREMLIN

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GREA - Transcription elongation factor GreA

UniProt:	P0A6W5	Sequence MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKMPNNGRVIFGATVTVLNLDSDEEQTYRIVGDDEADFKQNLISVNSPIARGLIGKEEDDVVVIKTPGGEVEFEVIKVEYL	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG10415
Length:	158 (158)
Sequences:	2000
Seq/Len:	12.66

GREA
Paralog alert: 0.45 [within 20: 0.01] - ratio of genomes with paralogs
Cluster includes: GREA GREB RNK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Scaled Score	Prob
12_E	16_E	3.672	1.00
8_L	12_E	2.933	1.00
17_E	61_R	2.682	1.00
20_F	24_V	2.666	1.00
93_T	154_K	2.623	1.00
114_D	117_Q	2.52	1.00
129_G	141_I	2.513	1.00
25_R	54_Q	2.437	1.00
93_T	102_E	2.379	1.00
140_V	147_E	2.358	1.00
95_L	100_D	2.206	1.00
57_F	60_G	2.204	1.00
22_K	66_E	2.2	1.00
19_D	23_S	2.188	1.00
93_T	156_E	2.145	1.00
20_F	25_R	2.138	1.00
135_E	154_K	2.043	1.00
18_L	62_I	2.026	1.00
110_D	123_N	1.981	1.00
95_L	151_E	1.917	1.00
133_K	139_V	1.883	1.00
11_A	15_R	1.883	1.00
29_I	58_C	1.876	1.00
26_R	59_E	1.871	1.00
138_V	149_E	1.859	1.00
11_A	74_V	1.858	1.00
25_R	28_E	1.824	1.00
140_V	149_E	1.79	1.00
94_V	103_Q	1.777	1.00
21_L	58_C	1.753	1.00
68_K	111_D	1.752	1.00
138_V	151_E	1.745	1.00
95_L	102_E	1.742	1.00
67_A	71_N	1.735	1.00
93_T	104_T	1.731	1.00
12_E	15_R	1.661	1.00
3_A	73_Q	1.655	1.00
85_R	134_E	1.652	1.00
142_K	147_E	1.589	1.00
16_E	20_F	1.575	1.00
64_D	68_K	1.568	1.00
86_V	152_V	1.55	1.00
15_R	19_D	1.527	1.00
94_V	150_F	1.505	1.00
133_K	137_D	1.491	1.00
104_T	156_E	1.471	1.00
43_K	49_H	1.468	1.00
94_V	105_Y	1.462	1.00
50_A	53_E	1.46	1.00
91_T	106_R	1.421	1.00
11_A	69_L	1.417	1.00
39_H	47_E	1.346	0.99
106_R	119_L	1.328	0.99
10_G	112_E	1.323	0.99
135_E	155_V	1.321	0.99
28_E	31_A	1.309	0.99
33_I	55_Q	1.3	0.99
96_N	148_V	1.293	0.99
35_E	38_E	1.285	0.99
97_L	149_E	1.266	0.99
37_R	42_L	1.242	0.98
95_L	153_I	1.217	0.98
31_A	34_A	1.212	0.98
107_I	127_A	1.198	0.98
9_R	119_L	1.17	0.97
91_T	156_E	1.162	0.97
9_R	13_K	1.117	0.96
56_G	60_G	1.11	0.96
90_A	157_Y	1.102	0.96
93_T	153_I	1.097	0.96
108_V	112_E	1.078	0.95
91_T	104_T	1.051	0.94
108_V	119_L	1.04	0.94
14_L	65_I	1.033	0.94
7_T	10_G	1.033	0.94
89_G	109_G	1.027	0.94
4_I	71_N	1.024	0.93
61_R	64_D	1.02	0.93
35_E	39_H	1.011	0.93
121_S	124_S	1.009	0.93

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Scaled Score = (raw_score/average(raw_scores)) > 1 are listed. For all 3L/2 predictions, click on one of the links below.

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling

HHsearch Results: GREMLIN results overlayed on top 10 PDB hits:

Legend: Blue filled circles are GREMLIN results (Scaled_score >1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 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	P(%)	HHΔ		Acc
2p4vA	6	0.9873	100	0.051	Contact Map	0.664
1grjA	1	1	100	0.052	Contact Map	0.827
2f23A	2	0.9684	100	0.109	Contact Map	0.835
2pn0A	4	0.7848	100	0.343	Contact Map	0.673
3bmbA	2	0.7848	100	0.346	Contact Map	0.715
3gtyX	1	0.8418	69.1	0.912	Contact Map	0.624
1wleA	2	0.9494	53.5	0.92	Contact Map	0.59
2dq3A	2	0.943	53.3	0.92	Contact Map	0.433
1t11A	2	0.8671	40.7	0.926	Contact Map	0.61
3lssA	2	0.943	39.3	0.926	Contact Map	0.48

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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