1F88	CRYSTAL STRUCTURE OF BOVINE RHODOPSIN	date
authors	Okada, T., Palczewski, K., Stenkamp, R.E., Miyano, M.
compound		source
symmetry		R_factor R_Free 0.238
crystal cell	length a length b length c angle alpha angle beta angle gamma
method	X-Ray Diffraction	resolution	2.80
ligand	HG, MAN, NAG, RET, ZN	enzyme
note	1F88 (Molecule of the Month:pdb27, pdb58, pdb66, pdb100, pdb147)
related structures	by homologous chain: 1EDS, 1EDV, 1EDX, 1HZX
Gene Ontology	Chain Function Process Component A, B
Primary reference	Crystal structure of rhodopsin: A G protein-coupled receptor., Palczewski K, Kumasaka T, Hori T, Behnke CA, Motoshima H, Fox BA, Le Trong I, Teller DC, Okada T, Stenkamp RE, Yamamoto M, Miyano M, Science 2000 Aug 4;289(5480):739-45. PMID:10926528

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (112 Kb) [Save to disk] Biological Unit Coordinates (1f88.pdb1.gz) 105 Kb Biological Unit Coordinates (1f88.pdb2.gz) 56 Kb Biological Unit Coordinates (1f88.pdb3.gz) 52 Kb LPC: Ligand-Protein Contacts for 1F88 CSU: Contacts of Structural Units for 1F88 Likely Quarternary Molecular Structure file(s) for 1F88 Retrieve 1F88 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1F88 from S2C, [Save to disk]

View 1F88 in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 1F88

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1F88, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1f88a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1f88b_, region B [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1f88] [1f88_A] [1f88_B] SWISS-PROT database: [P02699] Domain organization of [OPSD_BOVIN] by SWISSPFAM

Other resources with information on 1F88

Community annotation for 1F88 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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