3DRF	Peptide Binding Protein	date	Jul 11, 2008
title	Lactococcal Oppa Complexed With An Endogenous Peptide In The Conformation
authors	R.P.A.Berntsson, M.K.Doeven, R.H.Duurkens, D.Sengupta, S.J.Mar M.Thunnissen, B.Poolman, D.J.Slotboom
compound		source
Molecule: Oligopeptide-Binding Protein Oppa Chain: A Engineered: Yes		Organism_scientific: Lactococcus Lactis Organism_taxid: 416870 Strain: Subsp. Cremoris Mg1363 Gene: Oppa, Llmg_0701 Expression_system: Lactococcus Lactis Expression_system_taxid: 1358 Expression_system_strain: Mg1363 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pamp21
Molecule: Endogenous Peptide Chain: B Engineered: Yes		Synthetic: Yes Other_details: Chemically Synthesis
symmetry	Space Group: P 21 21 21	R_factor 0.131 R_Free 0.161
crystal cell	length a length b length c angle alpha angle beta angle gamma 59.114 74.650 115.445 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.30 Å
note	3DRF is a representative structure
Gene	LLMG
Primary reference	The structural basis for peptide selection by the transport receptor OppA., Berntsson RP, Doeven MK, Fusetti F, Duurkens RH, Sengupta D, Marrink SJ, Thunnissen AM, Poolman B, Slotboom DJ, EMBO J. 2009 Mar 19. PMID:19300437

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (213 Kb) [Save to disk] Biological Unit Coordinates (3drf.pdb1.gz) 208 Kb CSU: Contacts of Structural Units for 3DRF Likely Quarternary Molecular Structure file(s) for 3DRF Structure Factors (1803 Kb) Retrieve 3DRF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3DRF from S2C, [Save to disk] Re-refined 3drf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3DRF 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 3DRF

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 3DRF, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3drf_B] [3drf] [3drf_A] SWISS-PROT database: [A2RJ53] Domain organization of [A2RJ53_LACLM] by SWISSPFAM

Other resources with information on 3DRF

Community annotation for 3DRF at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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