1LK3 Immune System date Apr 23, 2002
title Engineered Human Interleukin-10 Monomer Complexed To 9d7 Fab Fragment
authors K.Josephson, B.C.Jones, L.J.Walter, R.Digiacomo, S.R.Indelicato, M.R.Walter
compound source
Molecule: Interleukin-10
Chain: A, B
Fragment: Residues 26-175
Synonym: Il-10m1 (Engineered Monomer Of Human Interleukin- 10), Il-10, Cytokine Synthesis Inhibitory Factor, Csif;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Il10
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Novagen Pet System
Expression_system_plasmid: Pet32lic

Molecule: 9d7 Light Chain
Chain: L, M
Fragment: Fab Fragment, Residues 1-210

Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Other_details: Hybridoma

Molecule: 9d7 Heavy Chain
Chain: H, I
Fragment: Fab Fragment, Residues 1-219

Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Other_details: Hybridoma
symmetry Space Group: P 1 21 1
R_factor 0.187 R_Free 0.240
crystal
cell
length a length b length c angle alpha angle beta angle gamma
82.554 75.616 111.975 90.00 96.85 90.00
method X-Ray Diffractionresolution 1.91 Å
related structures by homologous chain: 1A3L, 1E4X, 1INR, 1VLK
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceNoncompetitive antibody neutralization of IL-10 revealed by protein engineering and x-ray crystallography., Josephson K, Jones BC, Walter LJ, DiGiacomo R, Indelicato SR, Walter MR, Structure (Camb) 2002 Jul;10(7):981-7. PMID:12121653
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (207 Kb) [Save to disk]
  • Biological Unit Coordinates (1lk3.pdb1.gz) 105 Kb
  • Biological Unit Coordinates (1lk3.pdb2.gz) 102 Kb
  • CSU: Contacts of Structural Units for 1LK3
  • Likely Quarternary Molecular Structure file(s) for 1LK3
  • Structure Factors (969 Kb)
  • Retrieve 1LK3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1LK3 from S2C, [Save to disk]
  • Re-refined 1lk3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1LK3 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 1LK3
  • 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 1LK3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1lk3a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1lk3b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1lk3h1, region H:1-119 [Jmol] [rasmolscript] [script source]
        - Domain d1lk3h2, region H:120-219 [Jmol] [rasmolscript] [script source]
        - Domain d1lk3i1, region I:1-119 [Jmol] [rasmolscript] [script source]
        - Domain d1lk3i2, region I:120-219 [Jmol] [rasmolscript] [script source]
        - Domain d1lk3l1, region L:1-106 [Jmol] [rasmolscript] [script source]
        - Domain d1lk3l2, region L:107-210 [Jmol] [rasmolscript] [script source]
        - Domain d1lk3m1, region M:1-106 [Jmol] [rasmolscript] [script source]
        - Domain d1lk3m2, region M:107-210 [Jmol] [rasmolscript] [script source]
  • Fold representative 1lk3 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: [1lk3_L] [1lk3_H] [1lk3] [1lk3_I] [1lk3_A] [1lk3_M] [1lk3_B]
  • SWISS-PROT database: [P20759] [P22301] [P01835]
  • Domain organization of [IGHG1_RAT] [IL10_HUMAN] [KACB_RAT] by SWISSPFAM
  • Domains found in 1LK3: [IG_like] [IGv] [IL10 ] by SMART
  • Other resources with information on 1LK3
  • Community annotation for 1LK3 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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