5A6Y
Structure of the LecB lectin from Pseudomonas aeruginosa strain PA14 in complex with mannose-alpha1,3mannoside
- PDB DOI: https://doi.org/10.2210/pdb5A6Y/pdb
- Classification: HYDROLASE
- Organism(s): Pseudomonas aeruginosa UCBPP-PA14
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No 
- Deposited: 2015-07-02 Released: 2016-05-25 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.40 Å
- R-Value Free: 0.163 
- R-Value Work: 0.122 
- R-Value Observed: 0.125 
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 |
FUCOSE-BINDING LECTIN PA-IIL | 114 | Pseudomonas aeruginosa UCBPP-PA14 | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for A0A0H2ZE85 (Pseudomonas aeruginosa (strain UCBPP-PA14)) Explore A0A0H2ZE85  Go to UniProtKB:  A0A0H2ZE85 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A0H2ZE85 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 4 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
MAN Query on MAN | J [auth A] | alpha-D-mannopyranose C6 H12 O6 WQZGKKKJIJFFOK-PQMKYFCFSA-N | |||
SO4 Query on SO4 | P [auth C] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L | |||
GOL Query on GOL | K [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
CA Query on CA | H [auth A] I [auth A] L [auth B] M [auth B] N [auth C] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900112 Query on PRD_900112 | E, F, G | 3alpha-alpha-mannobiose | Oligosaccharide / Metabolism |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.40 Å
- R-Value Free: 0.163 
- R-Value Work: 0.122 
- R-Value Observed: 0.125 
- Space Group: P 1 21 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 52.979 | α = 90 |
b = 49.779 | β = 93.34 |
c = 75.438 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
XDS | data reduction |
Aimless | data scaling |
PHASER | phasing |
Entry History 
Deposition Data
- Released Date: 2016-05-25  Deposition Author(s): Sommer, R., Wagner, S., Varrot, A., Khaledi, A., Haussler, S., Imberty, A., Titz, A.
Revision History (Full details and data files)
- Version 1.0: 2016-05-25
Type: Initial release - Version 1.1: 2018-09-12
Changes: Data collection, Database references - Version 1.2: 2020-01-22
Changes: Derived calculations, Other, Structure summary - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2024-01-10
Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary