1MIJ | pdb_00001mij

Crystal Structure of the Homeo-prospero Domain of D. melanogaster Prospero

• PDB DOI: https://doi.org/10.2210/pdb1MIJ/pdb

• Classification: TRANSCRIPTION
• Organism(s): Drosophila melanogaster
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2002-08-23 Released: 2002-12-04 
• Deposition Author(s): Ryter, J.M., Doe, C.Q., Matthews, B.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 
  0.256 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.213 (DCC) 

Literature

Structure of the DNA Binding Region of Prospero Reveals a Novel Homeo-Prospero Domain

Ryter, J.M., Doe, C.Q., Matthews, B.W.

(2002) Structure 10: 1541-1549

• PubMed: 12429095 
• DOI: https://doi.org/10.1016/s0969-2126(02)00883-3
• Primary Citation Related Structures: 
  1MIJ


• PubMed Abstract: 
  

  The Prospero transcription factor promotes neural differentiation in Drosophila, and its activity is tightly regulated by modulating its subcellular localization. Prospero is exported from the nucleus of neural precursors but imported into the nucleus of daughter cells, which is necessary for their proper differentiation. Prospero has a highly divergent putative homeodomain adjacent to a conserved Prospero domain; both are required for sequence-specific DNA binding. Here we show that the structure of these two regions consists of a single structural unit (a homeo-prospero domain), in which the Prospero domain region is in position to contribute to DNA binding and also to mask a defined nuclear export signal that is within the putative homeodomain region. We propose that the homeo-prospero domain coordinately regulates Prospero nuclear localization and DNA binding specificity.

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Organizational Affiliation: 
• Institute of Molecular Biology, Howard Hughes Medical Institute and Department of Physics, 1229 University of Oregon, Eugene, OR 97403, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 18.45 kDa 
• Atom Count: 1,434 
• Modeled Residue Count: 139 
• Deposited Residue Count: 152 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein prospero	A	152	Drosophila melanogaster	Mutation(s): 5  Gene Names: PROS
UniProt
Find proteins for P29617 (Drosophila melanogaster) Explore P29617  Go to UniProtKB:  P29617

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free:  0.256 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.213 (DCC) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.3	α = 90
b = 49.9	β = 97.4
c = 51.5	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-12-04 
Deposition Author(s): Ryter, J.M., Doe, C.Q., Matthews, B.W.

Revision History  

• Version 1.0: 2002-12-04
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary