4CBP | pdb_00004cbp

Crystal structure of neural ectodermal development factor IMP-L2.

• PDB DOI: https://doi.org/10.2210/pdb4CBP/pdb

• Classification: CELL ADHESION
• Organism(s): Drosophila melanogaster
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2013-10-15 Released: 2014-10-29 
• Deposition Author(s): Kulahin, N., Kristensen, O., Brzozowski, M., Schluckebier, G., Meyts, P.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.188 (Depositor), 0.198 (DCC) 
• R-Value Work: 
  0.156 (Depositor), 0.171 (DCC) 
• R-Value Observed: 
  0.157 (Depositor) 

Literature

Structural Analysis of Imp-L2 Function

Kulahin, N., Watson, C.J., Turkenburg, J.P., Kristensen, O., Norrman, M., Sajid, W., Schluckebier, G., Meyts, P.D., Brzozowski, M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 60.84 kDa 
• Atom Count: 3,869 
• Modeled Residue Count: 413 
• Deposited Residue Count: 536 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NEURAL/ECTODERMAL DEVELOPMENT FACTOR IMP-L2	A, B	268	Drosophila melanogaster	Mutation(s): 0
UniProt
Find proteins for Q09024 (Drosophila melanogaster) Explore Q09024  Go to UniProtKB:  Q09024

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.188 (Depositor), 0.198 (DCC) 
• R-Value Work:  0.156 (Depositor), 0.171 (DCC) 
• R-Value Observed: 0.157 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.856	α = 90
b = 99.732	β = 91.99
c = 56.28	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
MOSFLM	data reduction
xia2	data scaling
Aimless	data scaling
HKL2Map	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-10-29 
Deposition Author(s): Kulahin, N., Kristensen, O., Brzozowski, M., Schluckebier, G., Meyts, P.D.

Revision History  

• Version 1.0: 2014-10-29
  Type: Initial release
  
• Version 1.1: 2018-01-17
  Changes: Data collection, Refinement description
• Version 1.2: 2019-05-29
  Changes: Data collection, Derived calculations, Experimental preparation
• Version 1.3: 2024-11-13
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary