Download MendeleyCrystal structure of a putative thiaminase II (SE1693) from Staphylococcus epidermidis ATCC 12228 at 1.65 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3NO6
Crystal structure of a putative thiaminase II (SE1693) from Staphylococcus epidermidis ATCC 12228 at 1.65 A resolution
- PDB DOI: https://doi.org/10.2210/pdb3NO6/pdb
- Classification: HYDROLASE
- Organism(s): Staphylococcus epidermidis ATCC 12228
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2010-06-24 Released: 2010-07-28
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.190
- R-Value Work: 0.166
- R-Value Observed: 0.167
wwPDB Validation 3D Report Full Report
This is version 1.3 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Transcriptional activator TenA | A, B, C, D | 248 | Staphylococcus epidermidis ATCC 12228 | Mutation(s): 0 Gene Names: tenA, SE_1693 EC: 3.5.99.2 |  |
UniProt | |||||
Find proteins for Q8CNK1 (Staphylococcus epidermidis (strain ATCC 12228 / FDA PCI 1200)) Explore Q8CNK1 Go to UniProtKB: Q8CNK1 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8CNK1 | ||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 5 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MRD Query on MRD | L [auth C], M [auth C], S [auth D] | (4R)-2-METHYLPENTANE-2,4-DIOL C6 H14 O2 SVTBMSDMJJWYQN-RXMQYKEDSA-N |  | Ligand Interaction | |
| MPD Query on MPD | I [auth B], J [auth B], N [auth C], O [auth C], T [auth D], | (4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N |  | Ligand Interaction | |
| SO4 Query on SO4 | Q [auth C] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | Ligand Interaction | |
| IMD Query on IMD | E [auth A], H [auth B], K [auth C], R [auth D] | IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O |  | Ligand Interaction | |
| ACT Query on ACT | F [auth A], G [auth A], P [auth C], W [auth D], X [auth D], | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M |  | Ligand Interaction | |
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.190
- R-Value Work: 0.166
- R-Value Observed: 0.167
- Space Group: P 21 21 21
- Diffraction Data: https://doi.org/10.18430/M33NO6
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 70.155 | α = 90 |
| b = 92.713 | β = 90 |
| c = 165.037 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| MOSFLM | data reduction |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2010-07-28 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2010-07-28
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2017-10-25
Changes: Author supporting evidence, Refinement description - Version 1.3: 2019-07-17
Changes: Data collection, Derived calculations, Refinement description
