4JIV

VCA0105 PAAR-repeat protein from Vibrio cholerae in complex with a VgrG-like beta-helix that is based on a fragment of T4 gp5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.164

Literature

Macromolecules
Sequence Display for 4JIV

Classification: HYDROLASE / PROTEIN BINDING

Total Structure Weight: 39551.36

Macromolecule Entities
Molecule Chains Length Organism Details
Tail-associated lysozyme A, B, C 96 Enterobacteria phage t4 sensu lato EC#: 3.2.1.17 IUBMB
Fragment: gp5G484, UNP RESIDUES 484-575
Mutation: T566H, D568V, R571A, D573N, I574L, G575N
Gene Name(s): 5
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Putative uncharacterized protein D 93 Vibrio cholerae Gene Name(s): VC_A0105
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
STE
Query on STE

B STEARIC ACID
C18 H36 O2
QIQXTHQIDYTFRH-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ELA
Query on ELA

C 9-OCTADECENOIC ACID
C18 H34 O2
ZQPPMHVWECSIRJ-MDZDMXLPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PLM
Query on PLM

A PALMITIC ACID
C16 H32 O2
IPCSVZSSVZVIGE-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

D ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.164
  • Space Group: P 42 2 2

Unit Cell:

Length (Å) Angle (°)
a = 113.70 α = 90.00
b = 113.70 β = 90.00
c = 76.90 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-03-07
  • Released Date: 2013-08-14
  • Deposition author(s): Buth, S.A., Leiman, P.G., Shneider, M.M.

Revision History

  • Version 1_0: 2013-08-14

    Type: Initial release

  • Version 1_1: 2014-06-11

    Type: Database references