BMRB Entry 5297
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR5297
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: Campos-Olivas, Ramon; Louis, John; Clerot, J.; Gronenborn, Bruno; Gronenborn, Angela. "The Structure of a Replication Initiator unites Diverse aspects of Nucleic Acid
Metabolism" Proc. Natl. Acad. Sci. U.S.A. 99, 10310-10315 (2002).
PubMed: 12130667
Assembly members:
N-terminal DNA-binding domain of Rep protein from a geminivirus, polymer, 118 residues, 13563.3 Da.
Natural source: Common Name: Tomato yellow leaf curl virus - Sardinia Taxonomy ID: 123735 Superkingdom: Viruses Kingdom: not available Genus/species: Begomovirus Tomato yellow leaf curl virus - Sardinia
Experimental source: Production method: recombinant technology
Entity Sequences (FASTA):
N-terminal DNA-binding domain of Rep protein from a geminivirus: SGRFSIKAKNYFLTYPKCDL
TKENALSQITNLQTPTNKLF
IKICRELHENGEPHLHILIQ
FEGKYNCTNQRFFDLVSPTR
SAHFHPNIQGAKSSSDVKSY
IDKDGDVLEWGTFQIDGR
- assigned_chemical_shifts
- coupling_constants
| Data type | Count |
| 1H chemical shifts | 769 |
| 13C chemical shifts | 518 |
| 15N chemical shifts | 132 |
| coupling constants | 84 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | NTD-Rep, rep4-121 | 1 |
Entities:
Entity 1, NTD-Rep, rep4-121 118 residues - 13563.3 Da.
| 1 | SER | GLY | ARG | PHE | SER | ILE | LYS | ALA | LYS | ASN | ||||
| 2 | TYR | PHE | LEU | THR | TYR | PRO | LYS | CYS | ASP | LEU | ||||
| 3 | THR | LYS | GLU | ASN | ALA | LEU | SER | GLN | ILE | THR | ||||
| 4 | ASN | LEU | GLN | THR | PRO | THR | ASN | LYS | LEU | PHE | ||||
| 5 | ILE | LYS | ILE | CYS | ARG | GLU | LEU | HIS | GLU | ASN | ||||
| 6 | GLY | GLU | PRO | HIS | LEU | HIS | ILE | LEU | ILE | GLN | ||||
| 7 | PHE | GLU | GLY | LYS | TYR | ASN | CYS | THR | ASN | GLN | ||||
| 8 | ARG | PHE | PHE | ASP | LEU | VAL | SER | PRO | THR | ARG | ||||
| 9 | SER | ALA | HIS | PHE | HIS | PRO | ASN | ILE | GLN | GLY | ||||
| 10 | ALA | LYS | SER | SER | SER | ASP | VAL | LYS | SER | TYR | ||||
| 11 | ILE | ASP | LYS | ASP | GLY | ASP | VAL | LEU | GLU | TRP | ||||
| 12 | GLY | THR | PHE | GLN | ILE | ASP | GLY | ARG |
Samples:
sample1: N-terminal DNA-binding domain of Rep protein from a geminivirus, [10%-13C; U-99% 15N], 0.8 – 1.0 mM; sodium phosphate 20 mM; NaCl 100 mM; DTT 1 mM; D2O 8%; H2O 92%
sample2: N-terminal DNA-binding domain of Rep protein from a geminivirus, [U-13C; U-99% 15N], 0.8 – 1.0 mM; sodium phosphate 20 mM; NaCl 100 mM; DTT 1 mM; D2O 8%; H2O 92%
sample3: N-terminal DNA-binding domain of Rep protein from a geminivirus, [U-10% 13C; U-99% 15N], 0.8 – 1.0 mM; sodium phosphate 20 mM; NaCl 100 mM; DTT 1 mM; D2O 100%
sample4: N-terminal DNA-binding domain of Rep protein from a geminivirus, [U-13C; U-99% 15N], 0.8 – 1.0 mM; sodium phosphate 20 mM; NaCl 100 mM; DTT 1 mM; D2O 100%
cond_H2O: pH: 6.6; temperature: 298 K; ionic strength: 0.3 M
cond_D2O: pH*: 6.6; temperature: 298 K; ionic strength: 0.3 M
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-1H NOESY | not available | not available | not available |
| 2D 1H-1H TOCSY | not available | not available | not available |
| 2D 1H-15N HSQC | not available | not available | not available |
| 2D 1H-15N HSQC long range | not available | not available | not available |
| 2D 1H-13C HSQC/HMQC | not available | not available | not available |
| 3D HNCO | not available | not available | not available |
| 3D HNCACB | not available | not available | not available |
| 3D CBCA(CO)NH | not available | not available | not available |
| 3D HNHA | not available | not available | not available |
| 3D HNHB | not available | not available | not available |
| 2D HNCOCG arom | not available | not available | not available |
| 2D HNCO arom | not available | not available | not available |
| 3D 15N-edited NOESY | not available | not available | not available |
| 4D 15N,13C NOESY | not available | not available | not available |
| 4D 13C,13C NOESY | not available | not available | not available |
Software:
nmrpipe - processing
nmrview v4.1.1 - assignment
NMR spectrometers:
- Bruker DMX 500 MHz
- Bruker DMX 600 MHz
- Bruker DRX 600 MHz
- Bruker DMX 750 MHz
- Bruker DRX 800 MHz
Related Database Links:
| BMRB | 5341 |
| PDB | |
| EMBL | CAA43466 |
| GB | ABC71734 ABC71737 ABC71739 ABC71740 ABC71742 |
| REF | NP_620741 |
| SP | P27260 |
| AlphaFold | P27260 P27260 |
Download HSQC peak lists in one of the following formats:
CSV: Backbone
or all simulated peaks
SPARKY: Backbone
or all simulated peaks