Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - ABC 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

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Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 6-mer - A2B2C2 

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 46768.89 
• Atom Count: 2910 
• Residue Count: 410 
• Unique protein chains: 4

1LQB

Crystal structure of a hydroxylated HIF-1 alpha peptide bound to the pVHL/elongin-C/elongin-B complex

• DOI: 10.2210/pdb1LQB/pdb

• Classification: GENE REGULATION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2002-05-09 Released: 2002-07-03 
• Deposition Author(s): Hon, W.C., Wilson, M.I., Harlos, K., Claridge, T.D., Schofield, C.J., Pugh, C.W., Maxwell, P.H., Ratcliffe, P.J., Stuart, D.I., Jones, E.Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.277 
• R-Value Work: 0.225 

Literature

Structural basis for the recognition of hydroxyproline in HIF-1 alpha by pVHL.

Hon, W.C., Wilson, M.I., Harlos, K., Claridge, T.D., Schofield, C.J., Pugh, C.W., Maxwell, P.H., Ratcliffe, P.J., Stuart, D.I., Jones, E.Y.

(2002) Nature 417: 975-978

• PubMed: 12050673 
• DOI: 10.1038/nature00767
• Also Cited By: 6I7R, 6I7Q


• PubMed Abstract: 
  

Hypoxia-inducible factor-1 (HIF-1) is a transcriptional complex that controls cellular and systemic homeostatic responses to oxygen availability. HIF-1 alpha is the oxygen-regulated subunit of HIF-1, an alpha beta heterodimeric complex. HIF-1 alpha is stable in hypoxia, but in the presence of oxygen it is targeted for proteasomal degradation by the ubiquitination complex pVHL, the protein of the von Hippel Lindau (VHL) tumour suppressor gene and a component of an E3 ubiquitin ligase complex. Capture of HIF-1 alpha by pVHL is regulated by hydroxylation of specific prolyl residues in two functionally independent regions of HIF-1 alpha. The crystal structure of a hydroxylated HIF-1 alpha peptide bound to VCB (pVHL, elongins C and B) and solution binding assays reveal a single, conserved hydroxyproline-binding pocket in pVHL. Optimized hydrogen bonding to the buried hydroxyprolyl group confers precise discrimination between hydroxylated and unmodified prolyl residues. This mechanism provides a new focus for development of therapeutic agents to modulate cellular responses to hypoxia.

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Organizational Affiliation: 

Division of Structural Biology, Henry Wellcome Building of Genomic Medicine, Roosevelt Drive, Oxford OX3 7BN, UK.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Elongin B	A	118	Homo sapiens	Mutation(s): 0  Gene Names: ELOB (TCEB2)
Find proteins for Q15370 (Homo sapiens) Go to Gene View: ELOB Go to UniProtKB:  Q15370

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Elongin C	B	96	Homo sapiens	Mutation(s): 0  Gene Names: ELOC (TCEB1)
Find proteins for Q15369 (Homo sapiens) Go to Gene View: ELOC Go to UniProtKB:  Q15369

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
von hippel-lindau disease tumor supressor	C	162	Homo sapiens	Mutation(s): 0  Gene Names: VHL
Find proteins for P40337 (Homo sapiens) Go to Gene View: VHL Go to UniProtKB:  P40337

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
Hypoxia-inducible factor 1 ALPHA	D	34	Homo sapiens	Mutation(s): 0  Gene Names: HIF1A (BHLHE78, MOP1, PASD8)
Find proteins for Q16665 (Homo sapiens) Go to Gene View: HIF1A Go to UniProtKB:  Q16665

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HYP	D	L-PEPTIDE LINKING	C5 H9 N O3		PRO

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.277 
• R-Value Work: 0.225 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 58.940	α = 90.00
b = 58.940	β = 90.00
c = 243.380	γ = 90.00

Software Package:

Software Name	Purpose
EPMR	phasing
HKL-2000	data reduction
CNS	refinement
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-05-09 
• Released Date: 2002-07-03 
• Deposition Author(s): Hon, W.C., Wilson, M.I., Harlos, K., Claridge, T.D., Schofield, C.J., Pugh, C.W., Maxwell, P.H., Ratcliffe, P.J., Stuart, D.I., Jones, E.Y.

Revision History 

• Version 1.0: 2002-07-03
  Type: Initial release
• Version 1.1: 2008-04-28
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance