2NQC

Crystal structure of ig-like domain 23 from human filamin C

• PDB DOI: https://doi.org/10.2210/pdb2NQC/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-10-31 Released: 2007-09-11 
• Deposition Author(s): Sjekloca, L., Pudas, R., Sjoeblom, B., Konarev, P., Carugo, O., Rybin, V., Kiema, T.R., Svergun, D., Ylanne, J., Djinovic-Carugo, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 0.237 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 

Literature

Crystal structure of human filamin C domain 23 and small angle scattering model for filamin C 23-24 dimer

Sjekloca, L., Pudas, R., Sjoeblom, B., Konarev, P., Carugo, O., Rybin, V., Kiema, T.R., Svergun, D., Ylanne, J., Djinovic-Carugo, K.

(2007) J Mol Biol 368: 1011-1023

• PubMed: 17379241 
• DOI: https://doi.org/10.1016/j.jmb.2007.02.018
• Primary Citation of Related Structures:  
  2NQC


• PubMed Abstract: 
  

  Filamin C is a dimeric, actin-binding protein involved in organization of cortical cytoskeleton and of the sarcomere. We performed crystallographic, small-angle X-ray scattering and analytical ultracentrifugation experiments on the constructs containing carboxy-terminal domains of the protein (domains 23-24 and 19-21). The crystal structure of domain 23 of filamin C showed that the protein adopts the expected immunoglobulin (Ig)-like fold. Small-angle X-ray scattering experiments performed on filamin C tandem Ig-like domains 23 and 24 reveal a dimer that is formed by domain 24 and that domain 23 has little interactions with itself or with domain 24, while the analytical ultracentrifugation experiments showed that the filamin C domains 19-21 form elongated monomers in diluted solutions.

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Organizational Affiliation: 

International School for Advanced Studies, 34000 Trieste, Italy.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 14.3 kDa 
• Atom Count: 768 
• Modelled Residue Count: 97 
• Deposited Residue Count: 138 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Filamin-C	A	138	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q14315 (Homo sapiens) Explore Q14315  Go to UniProtKB:  Q14315
PHAROS:  Q14315 GTEx:  ENSG00000128591

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	E [auth A], F [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
IMD	C [auth A], D [auth A]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O
NI	B [auth A]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 0.237 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.141	α = 90
b = 52.141	β = 90
c = 69.216	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
DENZO	data reduction
SCALA	data scaling
SHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-09-11 
Deposition Author(s): Sjekloca, L., Pudas, R., Sjoeblom, B., Konarev, P., Carugo, O., Rybin, V., Kiema, T.R., Svergun, D., Ylanne, J., Djinovic-Carugo, K.

Revision History  

• Version 1.0: 2007-09-11
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2017-10-18
  Changes: Advisory, Refinement description
• Version 1.3: 2023-12-27
  Changes: Advisory, Data collection, Database references, Derived calculations