4IKB

Crystal structure of SNX11 PX domain

Structural Biology Knowledgebase: 4IKB SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.78 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.169

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4IKB

Classification: PROTEIN TRANSPORT

Total Structure Weight: 37181.97

Macromolecule Entities
Molecule Chains Length Organism Details
Sorting nexin-11 A 144 Homo sapiens Fragment: PX domain, UNP residues 7-142
Gene Name(s): SNX11 Gene View
Sorting nexin-11 B 144 Homo sapiens Fragment: PX domain, UNP residues 7-142
Gene Name(s): SNX11 Gene View

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PE5
Query on PE5

A, B 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL
POLYETHYLENE GLYCOL PEG400, (Synonym)
C18 H38 O9
CUDPPTPIUWYGFI-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A, B SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
CAS
Query on CAS
A, B L-PEPTIDE LINKING C5 H12 As N O2 S CYS
SCS
Query on SCS
B L-peptide linking C5 H11 N O2 S2 CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.78 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.169
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 53.48 α = 90.00
b = 38.74 β = 101.13
c = 73.46 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-26
  • Released Date: 2013-04-24
  • Deposition author(s): Xu, J., Xu, T., Liu, J.

Revision History

No revisions since initial release