Download MendeleyCrystal structure and inhibition of the beta-aminopeptidase BapA, a new ampicillin-recognizing member of the N-terminal nucleophile hydrolase family
Heck, T., Merz, T., Geueke, B., Gruetter, M.G., Kohler, H.-P.E.To be published.
3NFB
Crystal structure of the N-terminal beta-aminopeptidase BapA in complex with hydrolyzed ampicillin
- PDB DOI: https://doi.org/10.2210/pdb3NFB/pdb
- Classification: Hydrolase/Inhibitor
- Organism(s): Sphingosinicella xenopeptidilytica
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2010-06-10 Released: 2011-09-28
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.85 Å
- R-Value Free: 0.178
- R-Value Work: 0.150
- R-Value Observed: 0.151
This is version 1.1 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 |
| Beta-peptidyl aminopeptidase | 373 | Sphingosinicella xenopeptidilytica | Mutation(s): 0 Gene Names: bapA |  | |
UniProt | |||||
Find proteins for Q52VH2 (Sphingosinicella xenopeptidilytica) Explore Q52VH2 Go to UniProtKB: Q52VH2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q52VH2 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| OAE Query on OAE | G [auth A] H [auth A] J [auth B] N [auth C] P [auth D] | (2S,4S)-2-[(R)-{[(2R)-2-amino-2-phenylacetyl]amino}(carboxy)methyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid C16 H21 N3 O5 S KDAWOPKDXRJNHV-BLFANLJRSA-N |  | ||
| SO4 Query on SO4 | I [auth A], K [auth B], O [auth C], R [auth D] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | E [auth A], F [auth A], L [auth C], M [auth C] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.85 Å
- R-Value Free: 0.178
- R-Value Work: 0.150
- R-Value Observed: 0.151
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 88.3 | α = 90 |
| b = 97.1 | β = 108.7 |
| c = 102.2 | γ = 90 |
| Software Name | Purpose |
|---|---|
| XDS | data scaling |
| PHASER | phasing |
| PHENIX | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
Entry History
Deposition Data
- Released Date: 2011-09-28 Deposition Author(s): Merz, T., Heck, T., Geueke, B., Kohler, H.-P.E., Gruetter, M.G.
Revision History (Full details and data files)
- Version 1.0: 2011-09-28
Type: Initial release - Version 1.1: 2023-09-06
Changes: Data collection, Database references, Derived calculations, Refinement description
