2NVH Cytokine date Nov 12, 2006
title Determination Of Solvent Content In Cavities In Interleukin- Experimentally-Phased Electron Density
authors M.L.Quillin, B.W.Matthews
compound source
Molecule: Interleukin-1 Beta
Chain: A
Synonym: Il-1 Beta; Catabolin
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Il1b, Il1f2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
symmetry Space Group: P 43
length a length b length c angle alpha angle beta angle gamma
54.506 54.506 75.359 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.53 Å
ligand SO4 enzyme

Primary referenceDetermination of solvent content in cavities in IL-1beta using experimentally phased electron density., Quillin ML, Wingfield PT, Matthews BW, Proc Natl Acad Sci U S A. 2006 Dec 26;103(52):19749-53. Epub 2006 Dec 18. PMID:17179045
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (2nvh.pdb1.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 2NVH
  • CSU: Contacts of Structural Units for 2NVH
  • Likely Quarternary Molecular Structure file(s) for 2NVH
  • Structure Factors (396 Kb)
  • Retrieve 2NVH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2NVH from S2C, [Save to disk]
  • Re-refined 2nvh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2NVH 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 2NVH
  • 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 2NVH, from MSDmotif at EBI
  • Fold representative 2nvh from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2nvh_A] [2nvh]
  • SWISS-PROT database: [P01584]
  • Belongs to the interleukin 1 (il1) family according to TCDB.
  • Domain organization of [IL1B_HUMAN] by SWISSPFAM
  • Domain found in 2NVH: [IL1 ] by SMART
  • Other resources with information on 2NVH
  • Community annotation for 2NVH 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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