5A8Z
Crystal Structure of human neutrophil elastase in complex with a dihydropyrimidone inhibitor
- PDB DOI: https://doi.org/10.2210/pdb5A8Z/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Mutation(s): No 
- Deposited: 2015-07-17 Released: 2016-08-03 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.236 
- R-Value Work: 0.190 
- R-Value Observed: 0.192 
This is version 2.0 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 |
Neutrophil elastase | 218 | Homo sapiens | Mutation(s): 0  EC: 3.4.21.37 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P08246 (Homo sapiens) Explore P08246  Go to UniProtKB:  P08246 | |||||
PHAROS:  P08246 GTEx:  ENSG00000197561  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P08246 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
IUL Query on IUL | E [auth A] | 4-[(4R)-7-methyl-2,5-bis(oxidanylidene)-1-[3-(trifluoromethyl)phenyl]-3,4,6,8-tetrahydropyrimido[4,5-d]pyridazin-4-yl]benzenecarbonitrile C21 H16 F3 N5 O2 UPNMBPLODWPJQQ-GOSISDBHSA-N | |||
NAG Query on NAG | D [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.236 
- R-Value Work: 0.190 
- R-Value Observed: 0.192 
- Space Group: P 63
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 73.119 | α = 90 |
b = 73.119 | β = 90 |
c = 70.162 | γ = 120 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
MOSFLM | data reduction |
SCALA | data scaling |
Entry History 
Deposition Data
- Released Date: 2016-08-03  Deposition Author(s): von Nussbaum, F., Li, V.M., Meibom, D., Anlauf, S., Bechem, M., Delbeck, M., Gerisch, M., Harrenga, A., Karthaus, D., Lang, D., Lustig, K., Mittendorf, J., Schaefer, M., Schaefer, S., Schamberger, J.
Revision History (Full details and data files)
- Version 1.0: 2016-08-03
Type: Initial release - Version 1.1: 2017-06-28
Changes: Data collection - Version 1.2: 2018-12-12
Changes: Advisory, Data collection, Database references, Source and taxonomy, Structure summary - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Other, Structure summary