Download MendeleyCrystal structure of the complex of goat lactoperoxidase with phosphate at 2.94 A resolution
Singh, A.K., Hariprasad, G., Prem Kumar, R., Singh, N., Bhushan, A., Sharma, S., Kaur, P., Singh, T.P.To be published.
2EFB | pdb_00002efb
Crystal structure of the complex of goat lactoperoxidase with phosphate at 2.94 A resolution
- PDB DOI: https://doi.org/10.2210/pdb2EFB/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Capra hircus
- Mutation(s): No
- Deposited: 2007-02-22 Released: 2007-03-06
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.94 Å
- R-Value Free: 0.219 (Depositor)
- R-Value Work: 0.180 (Depositor)
- R-Value Observed: 0.183 (Depositor)
Starting Model: experimental
View more details
wwPDB Validation 3D Report Full Report
This is version 2.2 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Lactoperoxidase | 595 | Capra hircus | Mutation(s): 0 EC: 1.11.1.7 |  | |
UniProt | |||||
Find proteins for A0A452E9Y6 (Capra hircus) Explore A0A452E9Y6 Go to UniProtKB: A0A452E9Y6 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A452E9Y6 | ||||
Glycosylation | |||||
| Glycosylation Sites: 4 | |||||
Sequence AnnotationsExpand | |||||
| |||||
Oligosaccharides
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | C, D, G | 3 |  | N-Glycosylation | |
Glycosylation Resources | |||||
GlyTouCan: G62182OO GlyCosmos: G62182OO GlyGen: G62182OO | |||||
Small Molecules
| Ligands 7 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| HEM Query on HEM | P [auth A], W [auth B] | PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L |  | ||
| PO4 Query on PO4 | K [auth A], L [auth A], M [auth A], S [auth B], T [auth B] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
| OSM Query on OSM | X [auth B] | 1-(OXIDOSULFANYL)METHANAMINE C H5 N O S KONFWJXIYYGXOO-UHFFFAOYSA-N |  | ||
| CO3 Query on CO3 | N [auth A], U [auth B] | CARBONATE ION C O3 BVKZGUZCCUSVTD-UHFFFAOYSA-L |  | ||
| SCN Query on SCN | R [auth A] | THIOCYANATE ION C N S ZMZDMBWJUHKJPS-UHFFFAOYSA-M |  | ||
| CA Query on CA | O [auth A], V [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
| CYN Query on CYN | Q [auth A] | CYANIDE ION C N XFXPMWWXUTWYJX-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.94 Å
- R-Value Free: 0.219 (Depositor)
- R-Value Work: 0.180 (Depositor)
- R-Value Observed: 0.183 (Depositor)
Space Group: P 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 59.199 | α = 79.93 |
| b = 75.587 | β = 77.86 |
| c = 83.808 | γ = 72.5 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| DENZO | data reduction |
| AUTOMAR | data reduction |
| SCALEPACK | data scaling |
| AMoRE | phasing |
Entry History
Deposition Data
- Released Date: 2007-03-06 Deposition Author(s): Singh, A.K., Hariprasad, G., Prem Kumar, R., Singh, N., Bhushan, A., Sharma, S., Kaur, P., Singh, T.P.
Revision History (Full details and data files)
- Version 1.0: 2007-03-06
Type: Initial release - Version 1.1: 2008-09-09
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-10-25
Changes: Data collection, Database references, Refinement description, Structure summary - Version 2.2: 2024-11-20
Changes: Structure summary
