6M7E
Structure of bovine lactoperoxidase with multiple iodide ions in the distaline heme cavity.
- PDB DOI: https://doi.org/10.2210/pdb6M7E/pdb
- Entry: 6M7E supersedes: 4GN6
- Classification: OXIDOREDUCTASE
- Organism(s): Bos taurus
- Mutation(s): No 
- Deposited: 2020-03-18 Released: 2020-04-15 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.42 Å
- R-Value Free: 0.269 
- R-Value Work: 0.184 
This is version 2.2 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 |
Lactoperoxidase | 595 | Bos taurus | Mutation(s): 0  EC: 1.11.1.7 | ||
UniProt | |||||
Find proteins for P80025 (Bos taurus) Explore P80025  Go to UniProtKB:  P80025 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P80025 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 8 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
HEM (Subject of Investigation/LOI) Query on HEM | D [auth A] | PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L | |||
NAG (Subject of Investigation/LOI) Query on NAG | E [auth A], F [auth A], G [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
IOD (Subject of Investigation/LOI) Query on IOD | AA [auth A] BA [auth A] CA [auth A] DA [auth A] H [auth A] | IODIDE ION I XMBWDFGMSWQBCA-UHFFFAOYSA-M | |||
GOL (Subject of Investigation/LOI) Query on GOL | R [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
OSM (Subject of Investigation/LOI) Query on OSM | U [auth A] | 1-(OXIDOSULFANYL)METHANAMINE C H5 N O S KONFWJXIYYGXOO-UHFFFAOYSA-N | |||
SCN (Subject of Investigation/LOI) Query on SCN | Q [auth A], S [auth A], T [auth A], V [auth A] | THIOCYANATE ION C N S ZMZDMBWJUHKJPS-UHFFFAOYSA-M | |||
CA (Subject of Investigation/LOI) Query on CA | C [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N | |||
CL (Subject of Investigation/LOI) Query on CL | W [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.42 Å
- R-Value Free: 0.269 
- R-Value Work: 0.184 
- Space Group: P 1 21 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 53.81 | α = 90 |
b = 80.673 | β = 103.07 |
c = 74.442 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
XDS | data reduction |
XSCALE | data scaling |
MOLREP | phasing |
Entry History 
Deposition Data
- Released Date: 2020-04-15  Deposition Author(s): Maurya, A., Viswanathan, V., Pandey, N., Singh, A.K., Sinha, M., Kaur, P., Sharma, S., Singh, T.P.
- This entry supersedes: 4GN6
Revision History (Full details and data files)
- Version 1.0: 2020-04-15
Type: Initial release - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2022-05-04
Changes: Database references, Structure summary - Version 2.2: 2023-11-29
Changes: Data collection, Derived calculations, Refinement description