2YWK

Crystal structure of RRM-domain derived from human putative RNA-binding protein 11

• PDB DOI: https://doi.org/10.2210/pdb2YWK/pdb

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


• Deposited: 2007-04-20 Released: 2008-04-22 
• Deposition Author(s): Kawazoe, M., Takemoto, C., Kaminishi, T., Uchikubo-Kamo, T., Nishino, A., Morita, S., Terada, T., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free: 0.214 
• R-Value Work: 0.190 
• R-Value Observed: 0.190 

Starting Model: experimental

Literature

Crystal structure of RRM-domain derived from human putative RNA-binding protein 11

Kawazoe, M., Takemoto, C., Kaminishi, T., Uchikubo-Kamo, T., Nishino, A., Morita, S., Terada, T., Shirouzu, M., Yokoyama, S.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 10.34 kDa 
• Atom Count: 737 
• Modelled Residue Count: 84 
• Deposited Residue Count: 95 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative RNA-binding protein 11	A	95	Homo sapiens	Mutation(s): 0  Gene Names: RBM11
UniProt & NIH Common Fund Data Resources
Find proteins for P57052 (Homo sapiens) Explore P57052  Go to UniProtKB:  P57052
PHAROS:  P57052 GTEx:  ENSG00000185272

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: 1.54 Å
• R-Value Free: 0.214 
• R-Value Work: 0.190 
• R-Value Observed: 0.190 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.366	α = 90
b = 46.366	β = 90
c = 59.596	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data collection
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-22 
Deposition Author(s): Kawazoe, M., Takemoto, C., Kaminishi, T., Uchikubo-Kamo, T., Nishino, A., Morita, S., Terada, T., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2008-04-22
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-11
  Changes: Refinement description
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2023-11-15
  Changes: Data collection