Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 24.00 kDa 
• Atom Count: 1636 
• Modelled Residue Count: 175 
• Deposited Residue Count: 206 
• Unique protein chains: 1

5JZV

The structure of D77G hCINAP-ADP

• PDB DOI: 10.2210/pdb5JZV/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2016-05-17 Released: 2016-08-10 
• Deposition Author(s): Liu, Y., Yang, Z., Yang, Y., Cai, X., Zheng, X.
• Funding Organization(s): National Science Foundation of China, Doctoral Fund of the Ministry of Education of China, Beijing Natural Science Foundation Grant

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 0.235 
• R-Value Work: 0.190 
• R-Value Observed: 0.192 

Literature

The ATPase hCINAP regulates 18S rRNA processing and is essential for embryogenesis and tumour growth.

Bai, D., Zhang, J., Li, T., Hang, R., Liu, Y., Tian, Y., Huang, D., Qu, L., Cao, X., Ji, J., Zheng, X.

(2016) Nat Commun 7: 12310-12310

• PubMed: 27477389 
• DOI: 10.1038/ncomms12310
• Primary Citation of Related Structures:  
  5JZV


• PubMed Abstract: 
  

Dysfunctions in ribosome biogenesis cause developmental defects and increased cancer susceptibility; however, the connection between ribosome assembly and tumorigenesis remains unestablished. Here we show that hCINAP (also named AK6) is required for human 18S rRNA processing and 40S subunit assembly. Homozygous CINAP(-/-) mice show embryonic lethality. The heterozygotes are viable and show defects in 18S rRNA processing, whereas no delayed cell growth is observed. However, during rapid growth, CINAP haploinsufficiency impairs protein synthesis. Consistently, hCINAP depletion in fast-growing cancer cells inhibits ribosome assembly and abolishes tumorigenesis. These data demonstrate that hCINAP reduction is a specific rate-limiting controller during rapid growth. Notably, hCINAP is highly expressed in cancers and correlated with a worse prognosis. Genome-wide polysome profiling shows that hCINAP selectively modulates cancer-associated translatome to promote malignancy. Our results connect the role of hCINAP in ribosome assembly with tumorigenesis. Modulation of hCINAP expression may be a promising target for cancer therapy.

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Organizational Affiliation: 

Department of Biochemistry and Molecular Biology, School of Life Sciences, Peking University, Yiheyuan Road No. 5, Beijing 100871, China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adenylate kinase isoenzyme 6	A	206	Homo sapiens	Mutation(s): 1  Gene Names: AK6, CINAP, AD-004, CGI-137 EC: 2.7.4.3
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y3D8 (Homo sapiens) Explore Q9Y3D8  Go to UniProtKB:  Q9Y3D8
PHAROS:  Q9Y3D8 GTEx:  ENSG00000085231

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	B [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 0.235 
• R-Value Work: 0.190 
• R-Value Observed: 0.192 
• Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.757	α = 90
b = 101.757	β = 90
c = 58.854	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing
REFMAC	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2016-05-17 
• Released Date: 2016-08-10 
Deposition Author(s): Liu, Y., Yang, Z., Yang, Y., Cai, X., Zheng, X.

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Funding Organization	Location	Grant Number
National Science Foundation of China	China	31470754
Doctoral Fund of the Ministry of Education of China	China	20130001130003
Beijing Natural Science Foundation Grant	China	5152012

Revision History  

• Version 1.0: 2016-08-10
  Type: Initial release
  
• Version 1.1: 2017-12-06
  Changes: Database references, Derived calculations