4AWJ

pVHL:EloB:EloC complex, in complex with capped Hydroxyproline

Structural Biology Knowledgebase: 4AWJ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.220

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4AWJ

Classification: TRANSCRIPTION

Total Structure Weight: 168754.46

Macromolecule Entities
Molecule Chains Length Organism Details
TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2 A, D, G, J 104 Homo sapiens Fragment: RESIDUES 1-104
Gene Name(s): TCEB2 Gene View
TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1 B, E, H, K 97 Homo sapiens Fragment: RESIDUES 17-112
Details: EXTRA M AT N-TERMINUS AS RESULT OF CLONING
Gene Name(s): TCEB1 Gene View
VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR C, F, I, L 163 Homo sapiens Fragment: RESIDUES 54-213
Gene Name(s): VHL Gene View

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
V6F
Query on V6F

C, F, I, L (4R)-1-acetyl-4-hydroxy-N-methyl-L-prolinamide
C8 H14 N2 O3
XAZYBLFYZNUKHD-RQJHMYQMSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

J GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACY
Query on ACY

F ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A, B, C, F, I, L ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
V6F N/A in BindingDB
Kd: 10000000 nM  BindingMOAD
Kd: 10000000 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CAS
Query on CAS
A, C, D, F, G, I, J, L L-PEPTIDE LINKING C5 H12 As N O2 S CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.220
  • Space Group: P 41 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 93.40 α = 90.00
b = 93.40 β = 90.00
c = 362.04 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-06-04
  • Released Date: 2012-11-14
  • Deposition author(s): Van Molle, I., Thomann, A., Buckley, D.L., So, E.C., Lang, S., Crews, C.M., Ciulli, A.

Revision History

No revisions since initial release