2H3N Immune System date May 22, 2006
title Crystal Structure Of A Surrogate Light Chain (Lambda5 And Vpreb) Homodimer
authors A.J.Bankovich, K.C.Garcia
compound source
Molecule: Vpreb Protein
Chain: A, C
Synonym: Immunoglobulin Iota Chain; V(Pre)B Protein Cd179a Antigen;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vpreb1, Vpreb
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
Expression_system_organ: Eggs
Expression_system_vector_type: Baculovirus

Molecule: Ig Lambda-5
Chain: B, D
Synonym: Immunoglobulin Lambda-Like Polypeptide 1 Immunoglobulin-Related Protein 14.1; Immunoglobulin Omega Polypeptide; Cd179b Antigen;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Igll1, Igl1
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
Expression_system_organ: Eggs
Expression_system_vector_type: Baculovirus
symmetry Space Group: P 21 21 21
R_factor 0.228 R_Free 0.281
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.169 72.814 115.201 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
Primary referenceStructural insight into pre-B cell receptor function., Bankovich AJ, Raunser S, Juo ZS, Walz T, Davis MM, Garcia KC, Science. 2007 Apr 13;316(5822):291-4. PMID:17431183
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (2h3n.pdb1.gz) 70 Kb
  • CSU: Contacts of Structural Units for 2H3N
  • Likely Quarternary Molecular Structure file(s) for 2H3N
  • Structure Factors (290 Kb)
  • Retrieve 2H3N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2H3N from S2C, [Save to disk]
  • Re-refined 2h3n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2H3N 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 2H3N
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2H3N, from MSDmotif at EBI
  • Fold representative 2h3n from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2h3n] [2h3n_D] [2h3n_A] [2h3n_C] [2h3n_B]
  • SWISS-PROT database: [P15814] [P12018]
  • Domain organization of [IGLL1_HUMAN] [VPREB_HUMAN] by SWISSPFAM
  • Domains found in 2H3N: [IGc1] [IGv ] by SMART
  • Other resources with information on 2H3N
  • Community annotation for 2H3N 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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