BMRB Entry 25092
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR25092
MolProbity Validation Chart
NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry
Citation: Zorzini, Valentina; Buts, Lieven; Schrank, Evelyne; Sterckx, Yann; Respondek, Michal; Engelberg-Kulka, Hanna; Loris, Remy; Zangger, Klaus; van Nuland, Nico. "Escherichia coli antitoxin MazE as transcription factor: insights into MazE-DNA binding" Nucleic Acids Res. 43, 1241-1256 (2015).
PubMed: 25564525
Assembly members:
entity_1, polymer, 67 residues, 5558.510 Da.
DNA_(5'-D(*CP*GP*TP*GP*AP*TP*AP*TP*AP*TP*AP*GP*TP*GP*C)-3'), polymer, 15 residues, 4624.059 Da.
DNA_(5'-D(P*GP*CP*AP*CP*TP*AP*TP*AP*TP*AP*TP*CP*AP*CP*G)-3'), polymer, 15 residues, 4553.023 Da.
Natural source: Common Name: E. coli Taxonomy ID: 562 Superkingdom: Bacteria Kingdom: not available Genus/species: Escherichia coli
Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pQE30-mazE
Entity Sequences (FASTA):
entity_1: NHKVHHHHHHMSDDDDKGIH
SSVKRWGNSPAVRIPATLMQ
ALNLNIDDEVKIDLVDGKLI
IEPVRKE
DNA_(5'-D(*CP*GP*TP*GP*AP*TP*AP*TP*AP*TP*AP*GP*TP*GP*C)-3'): CGTGATATATAGTGC
DNA_(5'-D(P*GP*CP*AP*CP*TP*AP*TP*AP*TP*AP*TP*CP*AP*CP*G)-3'): GCACTATATATCACG
- assigned_chemical_shifts
| Data type | Count |
| 1H chemical shifts | 65 |
| 15N chemical shifts | 61 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | entity_1_1 | 1 |
| 2 | entity_1_2 | 1 |
| 3 | DNA (5'-D(*CP*GP*TP*GP*AP*TP*AP*TP*AP*TP*AP*GP*TP*GP*C)-3') | 2 |
| 4 | DNA (5'-D(P*GP*CP*AP*CP*TP*AP*TP*AP*TP*AP*TP*CP*AP*CP*G)-3') | 3 |
Entities:
Entity 1, entity_1_1 67 residues - 5558.510 Da.
| 1 | ASN | HIS | LYS | VAL | HIS | HIS | HIS | HIS | HIS | HIS | ||||
| 2 | MET | SER | ASP | ASP | ASP | ASP | LYS | GLY | ILE | HIS | ||||
| 3 | SER | SER | VAL | LYS | ARG | TRP | GLY | ASN | SER | PRO | ||||
| 4 | ALA | VAL | ARG | ILE | PRO | ALA | THR | LEU | MET | GLN | ||||
| 5 | ALA | LEU | ASN | LEU | ASN | ILE | ASP | ASP | GLU | VAL | ||||
| 6 | LYS | ILE | ASP | LEU | VAL | ASP | GLY | LYS | LEU | ILE | ||||
| 7 | ILE | GLU | PRO | VAL | ARG | LYS | GLU |
Entity 2, DNA (5'-D(*CP*GP*TP*GP*AP*TP*AP*TP*AP*TP*AP*GP*TP*GP*C)-3') 15 residues - 4624.059 Da.
| 1 | DC | DG | DT | DG | DA | DT | DA | DT | DA | DT | ||||
| 2 | DA | DG | DT | DG | DC |
Entity 3, DNA (5'-D(P*GP*CP*AP*CP*TP*AP*TP*AP*TP*AP*TP*CP*AP*CP*G)-3') 15 residues - 4553.023 Da.
| 1 | DG | DC | DA | DC | DT | DA | DT | DA | DT | DA | ||||
| 2 | DT | DC | DA | DC | DG |
Samples:
sample_1: entity_1, [U-99% 13C; U-99% 15N], 0.33 – 0.4 mM; DNA (5'-D(*CP*GP*TP*GP*AP*TP*AP*TP*AP*TP*AP*GP*TP*GP*C)-3')0 – 0.4 mM; DNA (5'-D(P*GP*CP*AP*CP*TP*AP*TP*AP*TP*AP*TP*CP*AP*CP*G)-3')0 – 0.4 mM; potassium phosphate 50 mM; sodium chloride 50 mM; H2O 90%; D2O 10%
sample_conditions_1: temperature: 298 K; pH: 6.5; pressure: 1 atm; ionic strength: 50 mM
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
Software:
CcpNMR, CCPN - data analysis
Haddock, Alexandre Bonvin - structure solution, refinement
NMR spectrometers:
- Varian VNMRS 600 MHz
Related Database Links:
| BMRB | 25086 25093 25094 |
| PDB | |
| DBJ | BAA41177 BAB37066 BAE76857 BAG78565 BAI27044 |
| EMBL | CAP77216 CAQ33107 CAQ87849 CAQ99711 CAR04293 |
| GB | AAA03238 AAA69293 AAC75825 AAG57896 AAZ89539 |
| REF | NP_311670 NP_417263 WP_000581935 WP_000581936 WP_000581937 |
| SP | P0AE72 P0AE73 |
| AlphaFold | P0AE72 P0AE73 |
Download HSQC peak lists in one of the following formats:
CSV: Backbone
or all simulated peaks
SPARKY: Backbone
or all simulated peaks