3QOR

Crystal structure of human nuclear migration protein NudC


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.753 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.173 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural Features and Chaperone Activity of the NudC Protein Family.

Zheng, M.Cierpicki, T.Burdette, A.J.Utepbergenov, D.Janczyk, P.L.Derewenda, U.Stukenberg, P.T.Caldwell, K.A.Derewenda, Z.S.

(2011) J.Mol.Biol. 409: 722-741

  • DOI: 10.1016/j.jmb.2011.04.018

  • PubMed Abstract: 
  • The NudC family consists of four conserved proteins with representatives in all eukaryotes. The archetypal nudC gene from Aspergillus nidulans is a member of the nud gene family that is involved in the maintenance of nuclear migration. This family al ...

    The NudC family consists of four conserved proteins with representatives in all eukaryotes. The archetypal nudC gene from Aspergillus nidulans is a member of the nud gene family that is involved in the maintenance of nuclear migration. This family also includes nudF, whose human orthologue, Lis1, codes for a protein essential for brain cortex development. Three paralogues of NudC are known in vertebrates: NudC, NudC-like (NudCL), and NudC-like 2 (NudCL2). The fourth distantly related member of the family, CML66, contains a NudC-like domain. The three principal NudC proteins have no catalytic activity but appear to play as yet poorly defined roles in proliferating and dividing cells. We present crystallographic and NMR studies of the human NudC protein and discuss the results in the context of structures recently deposited by structural genomics centers (i.e., NudCL and mouse NudCL2). All proteins share the same core CS domain characteristic of proteins acting either as cochaperones of Hsp90 or as independent small heat shock proteins. However, while NudC and NudCL dimerize via an N-terminally located coiled coil, the smaller NudCL2 lacks this motif and instead dimerizes as a result of unique domain swapping. We show that NudC and NudCL, but not NudCL2, inhibit the aggregation of several target proteins, consistent with an Hsp90-independent heat shock protein function. Importantly, and in contrast to several previous reports, none of the three proteins is able to form binary complexes with Lis1. The availability of structural information will be of help in further studies on the cellular functions of the NudC family.


    Organizational Affiliation

    Department of Molecular Physiology and Biological Physics, University of Virginia School of Medicine, Charlottesville, VA 22908, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Nuclear migration protein nudC
A
121Homo sapiensMutation(s): 2 
Gene Names: NUDC
Find proteins for Q9Y266 (Homo sapiens)
Go to Gene View: NUDC
Go to UniProtKB:  Q9Y266
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Nuclear migration protein nudC
B
121Homo sapiensMutation(s): 2 
Gene Names: NUDC
Find proteins for Q9Y266 (Homo sapiens)
Go to Gene View: NUDC
Go to UniProtKB:  Q9Y266
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Nuclear migration protein nudC
C
121Homo sapiensMutation(s): 2 
Gene Names: NUDC
Find proteins for Q9Y266 (Homo sapiens)
Go to Gene View: NUDC
Go to UniProtKB:  Q9Y266
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Nuclear migration protein nudC
D, E
121Homo sapiensMutation(s): 2 
Gene Names: NUDC
Find proteins for Q9Y266 (Homo sapiens)
Go to Gene View: NUDC
Go to UniProtKB:  Q9Y266
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download SDF File 
Download CCD File 
A
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
CSX
Query on CSX
A
L-PEPTIDE LINKINGC3 H7 N O3 SCYS
CSD
Query on CSD
B
L-PEPTIDE LINKINGC3 H7 N O4 SCYS
OCS
Query on OCS
D, E
L-PEPTIDE LINKINGC3 H7 N O5 SCYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.753 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.173 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 66.734α = 90.00
b = 51.820β = 90.58
c = 92.854γ = 90.00
Software Package:
Software NamePurpose
SHELXEmodel building
HKL-2000data reduction
HKL-2000data scaling
PHENIXrefinement
SERGUIdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-04-27
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance