1FL5 Immune System date Aug 11, 2000
title The Unliganded Germline Precursor To The Sulfide Oxidase Catalytic Antibody 28b4.
authors J.Yin, E.C.Mundorff, P.L.Yang, K.U.Wendt, D.Hanway, R.C.Stevens, P.G.Schultz
compound source
Molecule: Antibody Germline Precursor To Antibody 28b4
Chain: L, A
Fragment: Light Chain (Chains L And A)
Synonym: If Kappa Light Chain
Engineered: Yes
Mutation: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Antibody Germline Precursor To Antibody 28b4
Chain: H, B
Fragment: Heavy Chain (Chains H And B)
Synonym: Igg1 Heavy Chain
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.226 R_Free 0.268
length a length b length c angle alpha angle beta angle gamma
36.420 69.650 85.310 74.56 80.18 77.55
method X-Ray Diffractionresolution 2.10 Å
ligand SO4 enzyme
related structures by homologous chain: 1A4J, 1AJ7, 1U8H, 1UB6
Primary referenceA comparative analysis of the immunological evolution of antibody 28B4., Yin J, Mundorff EC, Yang PL, Wendt KU, Hanway D, Stevens RC, Schultz PG, Biochemistry 2001 Sep 11;40(36):10764-73. PMID:11535051
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (145 Kb) [Save to disk]
  • Biological Unit Coordinates (1fl5.pdb1.gz) 72 Kb
  • Biological Unit Coordinates (1fl5.pdb2.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 1FL5
  • CSU: Contacts of Structural Units for 1FL5
  • Likely Quarternary Molecular Structure file(s) for 1FL5
  • Structure Factors (401 Kb)
  • Retrieve 1FL5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1FL5 from S2C, [Save to disk]
  • Re-refined 1fl5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1FL5 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 1FL5
  • 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 1FL5, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1fl5a1, region A:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1fl5a2, region A:108-212 [Jmol] [rasmolscript] [script source]
        - Domain d1fl5b1, region B:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1fl5b2, region B:114-213 [Jmol] [rasmolscript] [script source]
        - Domain d1fl5h1, region H:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1fl5h2, region H:114-213 [Jmol] [rasmolscript] [script source]
        - Domain d1fl5l1, region L:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1fl5l2, region L:108-212 [Jmol] [rasmolscript] [script source]
  • Fold representative 1fl5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1fl5_A] [1fl5_B] [1fl5_L] [1fl5] [1fl5_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 1FL5: [IG_like] [IGv ] by SMART
  • Other resources with information on 1FL5
  • Community annotation for 1FL5 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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