4B9K

pVHL-ELOB-ELOC complex_(2S,4R)-1-(3-amino-2-methylbenzoyl)-4-hydroxy-N-(4-(4-methylthiazol-5-yl)benzyl)pyrrolidine-2-carboxamide bound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.189 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Small-Molecule Inhibitors of the Interaction between the E3 Ligase Vhl and Hif1 Alpha

Buckley, D.L.Gustafson, J.L.Van Molle, I.Roth, A.G.Tae, H.S.Gareiss, P.C.Jorgensen, W.L.Ciulli, A.Crews, C.M.

(2012) Angew.Chem.Int.Ed.Engl. 51: 11463


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2
A, D, G, J
104Homo sapiensMutation(s): 0 
Gene Names: ELOB (TCEB2)
Find proteins for Q15370 (Homo sapiens)
Go to Gene View: ELOB
Go to UniProtKB:  Q15370
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1
B, H, K
97Homo sapiensMutation(s): 0 
Gene Names: ELOC (TCEB1)
Find proteins for Q15369 (Homo sapiens)
Go to Gene View: ELOC
Go to UniProtKB:  Q15369
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR
C, F, I, L
171Homo sapiensMutation(s): 0 
Gene Names: VHL
Find proteins for P40337 (Homo sapiens)
Go to Gene View: VHL
Go to UniProtKB:  P40337
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1
E
97Homo sapiensMutation(s): 0 
Gene Names: ELOC (TCEB1)
Find proteins for Q15369 (Homo sapiens)
Go to Gene View: ELOC
Go to UniProtKB:  Q15369
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download SDF File 
Download CCD File 
F, H, I, K, L
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
TG0
Query on TG0

Download SDF File 
Download CCD File 
C, F, I, L
(2S,4R)-1-(3-amino-2-methylbenzoyl)-4-hydroxy-N-(4-(4-methylthiazol-5-yl)benzyl)pyrrolidine-2-carboxamide
C24 H26 N4 O3 S
AFUSGLDYQSDIEU-NQIIRXRSSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
CAS
Query on CAS
A, C, D, E, F, G, I, J, L
L-PEPTIDE LINKINGC5 H12 As N O2 SCYS
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
TG0IC50: 900 nM (100) BINDINGDB
TG0IC50: 900 nM BINDINGMOAD
TG0Ki: 670 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.189 
  • Space Group: P 41 2 2
Unit Cell:
Length (Å)Angle (°)
a = 92.860α = 90.00
b = 92.860β = 90.00
c = 364.390γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
BUSTERrefinement
XDSdata scaling
BUSTERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-10-24
    Type: Initial release
  • Version 1.1: 2012-11-21
    Type: Database references
  • Version 1.2: 2013-11-06
    Type: Other