Download MendeleyCrystal structure of Pyridoxamine 5'-phosphate oxidase-related (ZP_00875725.1) from STREPTOCOCCUS SUIS 89-1591 at 2.00 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2HHZ
Crystal structure of a pyridoxamine 5'-phosphate oxidase-related protein (ssuidraft_2804) from streptococcus suis 89/1591 at 2.00 A resolution
- PDB DOI: https://doi.org/10.2210/pdb2HHZ/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Streptococcus suis 89/1591
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2006-06-28 Released: 2006-08-15
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.231
- R-Value Work: 0.191
- R-Value Observed: 0.193
wwPDB Validation 3D Report Full Report
This is version 1.4 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 |
| Pyridoxamine 5'-phosphate oxidase-related | 150 | Streptococcus suis 89/1591 | Mutation(s): 7 Gene Names: ZP_00875725.1 EC: 1.4.3.5 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PO4 Query on PO4 | B [auth A] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
| ACT Query on ACT | D [auth A] | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M |  | ||
| CL Query on CL | C [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.231
- R-Value Work: 0.191
- R-Value Observed: 0.193
- Space Group: P 43 21 2
- Diffraction Data: https://doi.org/10.18430/M32HHZ
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 71 | α = 90 |
| b = 71 | β = 90 |
| c = 58.4 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| REFMAC | refinement |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| SHELXE | model building |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2006-08-15 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2006-08-15
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Derived calculations, Source and taxonomy, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2023-01-25
Changes: Database references, Derived calculations
