2H5Z
Crystallographic structure of digestive lysozyme 1 from Musca domestica bound to chitotetraose at 1.92 A resolution
- PDB DOI: https://doi.org/10.2210/pdb2H5Z/pdb
- Classification: HYDROLASE
- Organism(s): Musca domestica
- Expression System: Komagataella pastoris
- Mutation(s): No 
- Deposited: 2006-05-29 Released: 2007-06-05 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.92 Å
- R-Value Free: 0.242 
- R-Value Work: 0.175 
- R-Value Observed: 0.178 
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 |
Lysozyme 1 | 122 | Musca domestica | Mutation(s): 0  EC: 3.2.1.17 | ||
UniProt | |||||
Find proteins for Q7YT16 (Musca domestica) Explore Q7YT16  Go to UniProtKB:  Q7YT16 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q7YT16 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | C | 3 | N/A | ||
Glycosylation Resources | |||||
GlyTouCan:  G47362BJ GlyCosmos:  G47362BJ GlyGen:  G47362BJ |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900017 Query on PRD_900017 | C | triacetyl-beta-chitotriose | Oligosaccharide / Inhibitor |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.92 Å
- R-Value Free: 0.242 
- R-Value Work: 0.175 
- R-Value Observed: 0.178 
- Space Group: P 1 21 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 35.953 | α = 90 |
b = 78.809 | β = 102.16 |
c = 44.792 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
MAR345 | data collection |
HKL-2000 | data scaling |
MOLREP | phasing |
Entry History 
Deposition Data
- Released Date: 2007-06-05  Deposition Author(s): Valerio, A.A., Cancado, F.C., Marana, S.R., Barbosa, J.A.R.G.
Revision History (Full details and data files)
- Version 1.0: 2007-06-05
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary - Version 2.1: 2023-10-25
Changes: Data collection, Database references, Refinement description, Structure summary