BMRB Entry 10011
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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/BMR10011
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Title: SOLUTION STRUCTURE OF THE SWIRM DOMAIN OF HUMAN LSD1 PubMed: 16531230
Deposition date: 2005-11-07 Original release date: 2006-11-14
Authors: Tochio, N.; Umehara, T.; Koshiba, S.; Inoue, M.; TANAKA, A.; Kigawa, T.; Yokoyama, S.
Citation: Tochio, N.; Umehara, T.; Koshiba, S.; Inoue, M.; Yabuki, T.; Aoki, M.; Seki, E.; Watanabe, S.; Tomo, Y.; Hanada, M.; Ikari, M.; Sato, M.; Terada, T.; Nagase, T.; Ohara, O.; Shirouzu, M.; Tanaka, A.; Kigawa, T.; Yokoyama, S.. "Solution structure of the SWIRM domain of human histone demethylase LSD1" Structure 14, 457-468 (2006).
Assembly members:
SWIRM domain, polymer, 124 residues, 13710.63 Da.
Natural source: Common Name: human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens
Experimental source: Production method: cell free synthesis
Entity Sequences (FASTA):
SWIRM domain: GSSGSSGEEPSGVEGAAFQS
RLPHDRMTSQEAACFPDIIS
GPQQTQKVFLFIRNRTLQLW
LDNPKIQLTFEATLQQLEAP
YNSDTVLVHRVHSYLERHGL
INFGIYKRIKPLPTKKTGSG
PSSG
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 525 |
| 15N chemical shifts | 119 |
| 1H chemical shifts | 828 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | SWIRM domain | 1 |
Entities:
Entity 1, SWIRM domain 124 residues - 13710.63 Da.
| 1 | GLY | SER | SER | GLY | SER | SER | GLY | GLU | GLU | PRO | ||||
| 2 | SER | GLY | VAL | GLU | GLY | ALA | ALA | PHE | GLN | SER | ||||
| 3 | ARG | LEU | PRO | HIS | ASP | ARG | MET | THR | SER | GLN | ||||
| 4 | GLU | ALA | ALA | CYS | PHE | PRO | ASP | ILE | ILE | SER | ||||
| 5 | GLY | PRO | GLN | GLN | THR | GLN | LYS | VAL | PHE | LEU | ||||
| 6 | PHE | ILE | ARG | ASN | ARG | THR | LEU | GLN | LEU | TRP | ||||
| 7 | LEU | ASP | ASN | PRO | LYS | ILE | GLN | LEU | THR | PHE | ||||
| 8 | GLU | ALA | THR | LEU | GLN | GLN | LEU | GLU | ALA | PRO | ||||
| 9 | TYR | ASN | SER | ASP | THR | VAL | LEU | VAL | HIS | ARG | ||||
| 10 | VAL | HIS | SER | TYR | LEU | GLU | ARG | HIS | GLY | LEU | ||||
| 11 | ILE | ASN | PHE | GLY | ILE | TYR | LYS | ARG | ILE | LYS | ||||
| 12 | PRO | LEU | PRO | THR | LYS | LYS | THR | GLY | SER | GLY | ||||
| 13 | PRO | SER | SER | GLY |
Samples:
sample_1: SWIRM domain, [U-13C, U-15N], 1.2 mM; D-Tris 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; D2O 10%; H2O 90%
condition_1: ionic strength: 0.12 M; pH: 7.0; pressure: 1 atm; temperature: 296 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 3D_13C-separated_NOESY | sample_1 | not available | condition_1 |
| 3D_15N-separated_NOESY | sample_1 | not available | condition_1 |
Software:
xwinnmr v2.6, Bruker - collection
NMRPipe v20031121 - processing
NMRView v5.0.4 - data analysis
Kujira v0.8994 - data analysis
CYANA v2.0.17 - refinement, structure solution
NMR spectrometers:
- Bruker AVANCE 800 MHz
Related Database Links:
| BMRB | 17171 |
| PDB | |
| DBJ | BAA25527 BAC97980 BAF83017 BAG09773 |
| EMBL | CAH90077 |
| GB | AAH16639 AAH48134 AAI51757 ABX10191 AIC62107 |
| REF | NP_055828 NP_598633 XP_002685763 XP_003271633 XP_003415419 |
| SP | O60341 Q6ZQ88 |
| TPG | DAA32188 |
Download simulated HSQC data in one of the following formats:
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or all simulated shifts