1ONI

Crystal structure of a human p14.5, a translational inhibitor reveals different mode of ligand binding near the invariant residues of the Yjgf/UK114 protein family

• PDB DOI: https://doi.org/10.2210/pdb1ONI/pdb

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


• Deposited: 2003-02-28 Released: 2003-04-08 
• Deposition Author(s): Manjasetty, B.A., Delbrueck, H., Mueller, U., Erdmann, M.F., Heinemann, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.216 
• R-Value Work: 0.185 

Literature

Crystal structure of Homo sapiens protein hp14.5.

Manjasetty, B.A., Delbruck, H., Pham, D.T., Mueller, U., Fieber-Erdmann, M., Scheich, C., Sievert, V., Bussow, K., Niesen, F.H., Weihofen, W., Loll, B., Saenger, W., Heinemann, U., Neisen, F.H.

(2004) Proteins 54: 797-800

• PubMed: 14997576 
• DOI: https://doi.org/10.1002/prot.10619
• Primary Citation of Related Structures:  
  1ONI

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Organizational Affiliation: 

Protein Structure Factory, c/o BESSY GmbH, Berlin, Germany.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 132.26 kDa 
• Atom Count: 9,553 
• Modelled Residue Count: 1,210 
• Deposited Residue Count: 1,242 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
14.5 kDa translational inhibitor protein	A, B, C, D, E, F, G, H, I	138	Homo sapiens	Mutation(s): 0  Gene Names: PSP
UniProt & NIH Common Fund Data Resources
Find proteins for P52758 (Homo sapiens) Explore P52758  Go to UniProtKB:  P52758
PHAROS:  P52758 GTEx:  ENSG00000132541

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BEZ	J [auth A], K [auth A], L [auth B], M [auth B], N [auth C], O [auth D], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth I]	BENZOIC ACID C7 H6 O2 WPYMKLBDIGXBTP-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.216 
• R-Value Work: 0.185 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 154.158	α = 90
b = 154.158	β = 90
c = 104.559	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MAR345	data collection
SCALEPACK	data scaling
SnB	phasing
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-04-08 
Deposition Author(s): Manjasetty, B.A., Delbrueck, H., Mueller, U., Erdmann, M.F., Heinemann, U.

Revision History  

• Version 1.0: 2003-04-08
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2017-10-11
  Changes: Advisory, Refinement description
• Version 1.4: 2024-02-14
  Changes: Advisory, Data collection, Database references, Derived calculations