2EAQ | pdb_00002eaq

Crystal structure of PDZ domain of KIAA0858 (LIM), MS0793 from Homo sapiens

• PDB DOI: https://doi.org/10.2210/pdb2EAQ/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2007-01-31 Released: 2007-07-31 
• Deposition Author(s): Xie, Y., Kishishita, S., Murayama, K., Takemoto, C., Shirozu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.46 Å
• R-Value Free: 
  0.194 (Depositor), 0.193 (DCC) 
• R-Value Work: 
  0.160 (Depositor), 0.159 (DCC) 
• R-Value Observed: 
  0.160 (Depositor) 

Literature

Crystal structure of PDZ domain of KIAA0858 (LIM), MS0793 from Homo sapiens

Xie, Y., Kishishita, S., Murayama, K., Takemoto, C., Shirozu, M., Yokoyama, S.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 10.27 kDa 
• Atom Count: 844 
• Modeled Residue Count: 89 
• Deposited Residue Count: 90 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LIM domain only protein 7	A	90	Homo sapiens	Mutation(s): 0  Gene Names: LMO7, FBX20, FBXO20, KIAA0858
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WWI1 (Homo sapiens) Explore Q8WWI1  Go to UniProtKB:  Q8WWI1
PHAROS:  Q8WWI1 GTEx:  ENSG00000136153

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NI	B [auth A], C [auth A]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.46 Å
• R-Value Free:  0.194 (Depositor), 0.193 (DCC) 
• R-Value Work:  0.160 (Depositor), 0.159 (DCC) 
• R-Value Observed: 0.160 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.996	α = 90
b = 61.311	β = 90
c = 27.931	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-07-31 
Deposition Author(s): Xie, Y., Kishishita, S., Murayama, K., Takemoto, C., Shirozu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2007-07-31
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-03-13
  Changes: Data collection, Database references, Derived calculations