3BJ9	Immune System	date	Dec 03, 2007
title	Crystal Structure Of The Surrogate Light Chain Variable Doma
authors	L.M.Morstadt, A.A.Bohm, B.D.Stollar, J.D.Baleja
compound		source
Molecule: Immunoglobulin Iota Chain, Immunoglobulin Lambda- Polypeptide 1; Chain: 1 Fragment: Fusion Protein Consists Of Ig Domain Of Vpreb Pro J-Fragment Of Ig Lambda-5; Synonym: Vpre, B Protein, Vpreb Protein, Cd179a Antigen, Immunoglobulin-Related Protein 14.1, Immunoglobulin Omega Polypeptide, Ig Lambda-5, Cd179b Antigen; Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Vpreb1, Vpreb Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De)Plyse Expression_system_vector_type: Plasmid Expression_system_plasmid: Pig203
symmetry	Space Group: I 2 2 2	R_factor 0.181 R_Free 0.230
crystal cell	length a length b length c angle alpha angle beta angle gamma 43.811 67.176 99.830 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	EDO	enzyme
note	3BJ9 is a representative structure
Primary reference	Engineering and characterization of a single chain surrogate light chain variable domain., Morstadt L, Bohm A, Yuksel D, Kumar K, Stollar BD, Baleja JD, Protein Sci. 2008 Mar;17(3):458-65. PMID:18287279

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (27 Kb) [Save to disk] Biological Unit Coordinates (3bj9.pdb1.gz) 22 Kb LPC: Ligand-Protein Contacts for 3BJ9 CSU: Contacts of Structural Units for 3BJ9 Likely Quarternary Molecular Structure file(s) for 3BJ9 Structure Factors (154 Kb) Retrieve 3BJ9 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3BJ9 from S2C, [Save to disk] Re-refined 3bj9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3BJ9 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 3BJ9

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 3BJ9, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3bj9] [3bj9_1] SWISS-PROT database: [P12018] Domain organization of [VPREB_HUMAN] by SWISSPFAM Domain found in 3BJ9: [IGv ] by SMART

Other resources with information on 3BJ9

Community annotation for 3BJ9 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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