1L9H	Signaling Protein	date	Mar 23, 2002
title	Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms Resol
authors	T.Okada, Y.Fujiyoshi, M.Silow, J.Navarro, E.M.Landau, Y.Shichida
compound		source
Molecule: Rhodopsin Chain: A, B		Organism_scientific: Bos Taurus Organism_common: Cattle Organism_taxid: 9913
symmetry	Space Group: P 41	R_factor 0.188 R_Free 0.225
crystal cell	length a length b length c angle alpha angle beta angle gamma 96.745 96.745 149.300 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	ACE, BNG, HG, HTO, MAN, NAG, PLM, RET, ZN	enzyme
note	1L9H is a representative structure
related structures	by homologous chain: 1GZM, 1U19
Gene Ontology	Chain Function Process Component A, B
Primary reference	Functional role of internal water molecules in rhodopsin revealed by X-ray crystallography., Okada T, Fujiyoshi Y, Silow M, Navarro J, Landau EM, Shichida Y, Proc Natl Acad Sci U S A 2002 Apr 30;99(9):5982-7. PMID:11972040

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk] Biological Unit Coordinates (1l9h.pdb1.gz) 61 Kb Biological Unit Coordinates (1l9h.pdb2.gz) 53 Kb Biological Unit Coordinates (1l9h.pdb3.gz) 112 Kb Biological Unit Coordinates (1l9h.pdb4.gz) 111 Kb LPC: Ligand-Protein Contacts for 1L9H CSU: Contacts of Structural Units for 1L9H Likely Quarternary Molecular Structure file(s) for 1L9H Retrieve 1L9H in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1L9H from S2C, [Save to disk]

View 1L9H 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 1L9H

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1L9H, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1l9ha_, region A [Jmol] [rasmolscript] [script source]     - Domain d1l9hb_, 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: [1l9h] [1l9h_A] [1l9h_B] SWISS-PROT database: [P02699] Domain organization of [OPSD_BOVIN] by SWISSPFAM

Other resources with information on 1L9H

Community annotation for 1L9H at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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