Download MendeleyNew Crystallographic Structure of HbII-III-Oxy and CN forms from Lucina pectinata.
Ruiz-Martinez, C.R., Nieves-Marrero, C.A., Estremera-Andujar, R.A., Lopez-Garriga, J., Garcia-Ruiz, J.M., Gavira, J.A.To be published.
3PT8
Structure of HbII-III-CN from Lucina pectinata at pH 5.0
- PDB DOI: https://doi.org/10.2210/pdb3PT8/pdb
- Classification: OXYGEN TRANSPORT
- Organism(s): Phacoides pectinatus
- Mutation(s): Yes
- Deposited: 2010-12-02 Released: 2011-12-07
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.76 Å
- R-Value Free: 0.226
- R-Value Work: 0.197
- R-Value Observed: 0.198
This is version 1.1 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 |
| Hemoglobin II | 152 | Phacoides pectinatus | Mutation(s): 1 |  | |
UniProt | |||||
Find proteins for P41261 (Phacoides pectinatus) Explore P41261 Go to UniProtKB: P41261 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P41261 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Hemoglobin III | 152 | Phacoides pectinatus | Mutation(s): 0 |  | |
UniProt | |||||
Find proteins for P41262 (Phacoides pectinatus) Explore P41262 Go to UniProtKB: P41262 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P41262 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| HEM Query on HEM | C [auth A], H [auth B] | PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L |  | ||
| GOL Query on GOL | E [auth A], J [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| FMT Query on FMT | F [auth A], G [auth A], K [auth B] | FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N |  | ||
| CYN Query on CYN | D [auth A], I [auth B] | CYANIDE ION C N XFXPMWWXUTWYJX-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.76 Å
- R-Value Free: 0.226
- R-Value Work: 0.197
- R-Value Observed: 0.198
- Space Group: P 42 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 74.231 | α = 90 |
| b = 74.231 | β = 90 |
| c = 152.302 | γ = 90 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| MOLREP | phasing |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| HKL-2000 | data collection |
Entry History
Deposition Data
- Released Date: 2011-12-07 Deposition Author(s): Gavira, J.A., Ruiz-Martinez, C.R., Nieves-Marrero, C.A., Estremera-Andujar, R.A., Lopez-Garriga, J., Garcia-Ruiz, J.M.
Revision History (Full details and data files)
- Version 1.0: 2011-12-07
Type: Initial release - Version 1.1: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description
