1F88
CRYSTAL STRUCTURE OF BOVINE RHODOPSIN
- PDB DOI: https://doi.org/10.2210/pdb1F88/pdb
- Classification: SIGNALING PROTEIN
- Organism(s): Bos taurus
- Mutation(s): No 
- Membrane Protein: Yes  PDBTMMemProtMD
- Deposited: 2000-06-29 Released: 2000-08-04 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.238 
- R-Value Work: 0.186 
wwPDB Validation   3D Report Full Report
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 |
RHODOPSIN | 348 | Bos taurus | Mutation(s): 0  Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for P02699 (Bos taurus) Explore P02699  Go to UniProtKB:  P02699 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P02699 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
RET Query on RET | L [auth A], R [auth B] | RETINAL C20 H28 O NCYCYZXNIZJOKI-OVSJKPMPSA-N | |||
HG Query on HG | G [auth A] H [auth A] I [auth A] M [auth B] N [auth B] | MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N | |||
ZN Query on ZN | J [auth A], K [auth A], P [auth B], Q [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.238 
- R-Value Work: 0.186 
- Space Group: P 41
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 97.246 | α = 90 |
b = 97.246 | β = 90 |
c = 149.544 | γ = 90 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
SHARP | phasing |
CNS | refinement |
Entry History 
Deposition Data
- Released Date: 2000-08-04  Deposition Author(s): Okada, T., Palczewski, K., Stenkamp, R.E., Miyano, M.
Revision History (Full details and data files)
- Version 1.0: 2000-08-04
Type: Initial release - Version 1.1: 2008-04-27
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: Advisory, Atomic model, Data collection, Derived calculations, Structure summary