1LQB Gene Regulation date May 09, 2002
title Crystal Structure Of A Hydroxylated Hif-1 Alpha Peptide Bound To The Pvhlelongin-Celongin-B Complex
authors W.C.Hon, M.I.Wilson, K.Harlos, T.D.Claridge, C.J.Schofield, C.W.Pugh, P.H.Maxwell, P.J.Ratcliffe, D.I.Stuart, E.Y.Jones
compound source
Molecule: Elongin B
Chain: A
Synonym: Transcription Elongation Factor B, Polypeptide 2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pgex-4t3

Molecule: Elongin C
Chain: B
Fragment: Residues 17-112
Synonym: Transcription Elongation Factor B (Siii), Polypeptide 1;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pbb75

Molecule: Von Hippel-Lindau Disease Tumor Supressor
Chain: C
Fragment: Residues 52-213
Synonym: Pvhl, G7 Protein
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pgex-4t3

Molecule: Hypoxia-Inducible Factor 1 Alpha
Chain: D
Fragment: Residues 549-582
Synonym: Hif-1 Alpha
Engineered: Yes

Synthetic: Yes
Other_details: The Peptide Was Synthesized With A Biotin Tag At The N-Terminus And With P564 As A 4(R) Hydroxyproline. The Sequence Of The Peptide Is Naturally Found In Homo Sapiens (Human).
symmetry Space Group: P 43 21 2
R_factor 0.225 R_Free 0.277
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.940 58.940 243.380 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand HYP, SO4 enzyme
related structures by homologous chain: 1LM8, 1VCB
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructural basis for the recognition of hydroxyproline in HIF-1 alpha by pVHL., Hon WC, Wilson MI, Harlos K, Claridge TD, Schofield CJ, Pugh CW, Maxwell PH, Ratcliffe PJ, Stuart DI, Jones EY, Nature 2002 Jun 27;417(6892):975-8. PMID:12050673
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (66 Kb) [Save to disk]
  • Biological Unit Coordinates (1lqb.pdb1.gz) 62 Kb
  • Biological Unit Coordinates (1lqb.pdb2.gz) 121 Kb
  • LPC: Ligand-Protein Contacts for 1LQB
  • CSU: Contacts of Structural Units for 1LQB
  • Likely Quarternary Molecular Structure file(s) for 1LQB
  • Structure Factors (193 Kb)
  • Retrieve 1LQB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1LQB from S2C, [Save to disk]
  • Re-refined 1lqb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1LQB 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 1LQB
  • 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 1LQB, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1lqba_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1lqbb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1lqbc_, region C [Jmol] [rasmolscript] [script source]
  • Fold representative 1lqb 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: [1lqb_B] [1lqb_C] [1lqb_D] [1lqb] [1lqb_A]
  • SWISS-PROT database: [Q15370] [Q15369] [Q16665] [P40337]
  • Domain organization of [ELOB_HUMAN] [ELOC_HUMAN] [HIF1A_HUMAN] [VHL_HUMAN] by SWISSPFAM
  • Domains found in 1LQB: [Skp1] [UBQ ] by SMART
  • Other resources with information on 1LQB
  • Community annotation for 1LQB 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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