2BKF

Structure of the PB1 domain of NBR1

• PDB DOI: https://doi.org/10.2210/pdb2BKF/pdb

• Classification: ZINC-FINGER PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2005-02-16 Released: 2006-01-18 
• Deposition Author(s): Mueller, S., Kursula, I., Wilmanns, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free: 0.226 
• R-Value Work: 0.199 
• R-Value Observed: 0.200 

Literature

Crystal Structure of the Pb1 Domain of Nbr1

Mueller, S., Kursula, I., Zou, P., Wilmanns, M.

(2006) FEBS Lett 580: 341

• PubMed: 16376336 
• DOI: https://doi.org/10.1016/j.febslet.2005.12.021
• Primary Citation of Related Structures:  
  2BKF


• PubMed Abstract: 
  

  The scaffold protein NBR1 is involved in signal transmission downstream of the serine/protein kinase from the giant muscle protein titin. Its N-terminal Phox and Bem1p (PB1) domain plays a critical role in mediating protein-protein interactions with both titin kinase and with another scaffold protein, p62. We have determined the crystal structure of the PB1 domain of NBR1 at 1.55A resolution. It reveals a type-A PB1 domain with two negatively charged residue clusters. We provide a structural perspective on the involvement of NBR1 in the titin kinase signalling pathway.

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Organizational Affiliation: 

EMBL-Hamburg Outstation, c/o DESY, Notkestrasse 85, D-22603 Hamburg, Germany.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 10.06 kDa 
• Atom Count: 816 
• Modelled Residue Count: 86 
• Deposited Residue Count: 87 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ZINC-FINGER PROTEIN NBR1 (NEXT TO BREAST CANCER 1)	A	87	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q14596 (Homo sapiens) Explore Q14596  Go to UniProtKB:  Q14596
PHAROS:  Q14596 GTEx:  ENSG00000188554

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free: 0.226 
• R-Value Work: 0.199 
• R-Value Observed: 0.200 
• Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.612	α = 90
b = 100.612	β = 90
c = 42.16	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-01-18 
Deposition Author(s): Mueller, S., Kursula, I., Wilmanns, M.

Revision History  

• Version 1.0: 2006-01-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2019-07-24
  Changes: Data collection
• Version 1.3: 2024-05-08
  Changes: Data collection, Database references, Other