2ZCH
Crystal structure of human prostate specific antigen complexed with an activating antibody
- PDB DOI: https://doi.org/10.2210/pdb2ZCH/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Homo sapiens, Mus musculus
- Mutation(s): No
- Deposited: 2007-11-08 Released: 2008-01-29
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.83 Å
- R-Value Free: 0.270
- R-Value Work: 0.203
- R-Value Observed: 0.207
This is version 2.1 of the entry. See complete history.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Prostate-specific antigen | A [auth P] | 237 | Homo sapiens | Mutation(s): 0 EC: 3.4.21.77 |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P07288 (Homo sapiens) Explore P07288 Go to UniProtKB: P07288 | |||||
PHAROS: P07288 GTEx: ENSG00000142515 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P07288 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| monoclonal antibody 8G8F5 Fab | B [auth L] | 215 | Mus musculus | Mutation(s): 0 |  |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| monoclonal antibody 8G8F5 Fab | C [auth H] | 229 | Mus musculus | Mutation(s): 0 |  |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NDG Query on NDG | D [auth P], E [auth P] | 2-acetamido-2-deoxy-alpha-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-PVFLNQBWSA-N |  | ||
| PO4 Query on PO4 | G [auth H] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
| CL Query on CL | F [auth P] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.83 Å
- R-Value Free: 0.270
- R-Value Work: 0.203
- R-Value Observed: 0.207
- Space Group: P 41 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 87.36 | α = 90 |
| b = 87.36 | β = 90 |
| c = 236.332 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| HKL-2000 | data collection |
| MOSFLM | data reduction |
| PROCESS | data scaling |
| XFIT | data reduction |
Entry History
Deposition Data
- Released Date: 2008-01-29 Deposition Author(s): Menez, R., Stura, E., Jolivet-Reynaud, C.
Revision History (Full details and data files)
- Version 1.0: 2008-01-29
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary - Version 2.1: 2023-11-01
Changes: Data collection, Database references, Refinement description, Structure summary
