5Z4T
Complex structure - AxMan113A-M3
- PDB DOI: https://doi.org/10.2210/pdb5Z4T/pdb
- Classification: HYDROLASE
- Organism(s): Amphibacillus xylanus NBRC 15112
- Expression System: Escherichia coli
- Mutation(s): Yes 
- Deposited: 2018-01-13 Released: 2018-06-20 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.68 Å
- R-Value Free: 0.210 
- R-Value Work: 0.185 
- R-Value Observed: 0.185 
wwPDB Validation   3D Report Full Report
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 |
beta-1,4-mannanas | A [auth B], B [auth A] | 309 | Amphibacillus xylanus NBRC 15112 | Mutation(s): 1  Gene Names: AXY_22370 | |
UniProt | |||||
Find proteins for K0J0N5 (Amphibacillus xylanus (strain ATCC 51415 / DSM 6626 / JCM 7361 / LMG 17667 / NBRC 15112 / Ep01)) Explore K0J0N5  Go to UniProtKB:  K0J0N5 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | K0J0N5 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900115 Query on PRD_900115 | C, D | 4beta-beta-mannobiose | Oligosaccharide / Metabolism |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.68 Å
- R-Value Free: 0.210 
- R-Value Work: 0.185 
- R-Value Observed: 0.185 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 65.095 | α = 90 |
b = 69.918 | β = 90 |
c = 186.601 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
PHENIX | phasing |
Entry History 
Deposition Data
- Released Date: 2018-06-20  Deposition Author(s): Jiang, Z.Q., You, X., Yang, S.Q., Huang, P., Ma, J.W.
Revision History (Full details and data files)
- Version 1.0: 2018-06-20
Type: Initial release - Version 1.1: 2018-08-08
Changes: Data collection, Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-11-22
Changes: Data collection, Database references, Refinement description, Structure summary