3WH9
The ligand-free structure of ManBK from Aspergillus niger BK01
- PDB DOI: https://doi.org/10.2210/pdb3WH9/pdb
- Classification: HYDROLASE
- Organism(s): Aspergillus niger
- Expression System: Komagataella pastoris
- Mutation(s): No 
- Deposited: 2013-08-22 Released: 2014-10-08 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.57 Å
- R-Value Free: 0.190 
- R-Value Work: 0.159 
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 |
Endo-beta-1,4-mannanase | 345 | Aspergillus niger | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for A2QKT4 (Aspergillus niger (strain ATCC MYA-4892 / CBS 513.88 / FGSC A1513)) Explore A2QKT4  Go to UniProtKB:  A2QKT4 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A2QKT4 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | E [auth A], H [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
TRS Query on TRS | F [auth A], I [auth B] | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O | |||
CL Query on CL | G [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.57 Å
- R-Value Free: 0.190 
- R-Value Work: 0.159 
- Space Group: C 2 2 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 93.584 | α = 90 |
b = 97.051 | β = 90 |
c = 147.838 | γ = 90 |
Software Name | Purpose |
---|---|
HKL-2000 | data collection |
PHASER | phasing |
CNS | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
Entry History 
Deposition Data
- Released Date: 2014-10-08  Deposition Author(s): Huang, J.W., Chen, C.C., Huang, C.H., Huang, T.Y., Wu, T.H., Cheng, Y.S., Ko, T.P., Lin, C.Y., Liu, J.R., Guo, R.T.
Revision History (Full details and data files)
- Version 1.0: 2014-10-08
Type: Initial release - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-11-08
Changes: Data collection, Database references, Refinement description, Structure summary