4N8S
Crystal Structure of the ternary complex of lipase from Thermomyces lanuginosa with Ethylacetoacetate and P-nitrobenzaldehyde at 2.3 A resolution
- PDB DOI: https://doi.org/10.2210/pdb4N8S/pdb
- Classification: HYDROLASE
- Organism(s): Thermomyces lanuginosus
- Mutation(s): No 
- Deposited: 2013-10-18 Released: 2013-11-06 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.266 
- R-Value Work: 0.221 
- R-Value Observed: 0.223 
This is version 1.2 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 |
Lipase | 269 | Thermomyces lanuginosus | Mutation(s): 0  EC: 3.1.1.3 | ||
UniProt | |||||
Find proteins for O59952 (Thermomyces lanuginosus) Explore O59952  Go to UniProtKB:  O59952 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | O59952 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 4 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | C [auth A], F [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
XXH Query on XXH | D [auth A], G [auth B] | 4-nitrobenzaldehyde C7 H5 N O3 BXRFQSNOROATLV-UHFFFAOYSA-N | |||
EAC Query on EAC | E [auth A], H [auth B] | ethyl 3-oxobutanoate C6 H10 O3 XYIBRDXRRQCHLP-UHFFFAOYSA-N | |||
GOL Query on GOL | I [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.266 
- R-Value Work: 0.221 
- R-Value Observed: 0.223 
- Space Group: P 61
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 140.461 | α = 90 |
b = 140.461 | β = 90 |
c = 80.289 | γ = 120 |
Software Name | Purpose |
---|---|
HKL-2000 | data collection |
AMoRE | phasing |
REFMAC | refinement |
HKL-2000 | data reduction |
SCALEPACK | data scaling |
Entry History 
Deposition Data
- Released Date: 2013-11-06  Deposition Author(s): Kumar, M., Mukherjee, J., Gupta, M.N., Sinha, M., Kaur, P., Sharma, S., Singh, T.P.
Revision History (Full details and data files)
- Version 1.0: 2013-11-06
Type: Initial release - Version 1.1: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.2: 2023-11-08
Changes: Data collection, Database references, Refinement description, Structure summary