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PDBsum entry 1dc2
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protein links
Gene regulation PDB id
1dc2

 

 

 

 

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Contents
Protein chain
156 a.a. *
* Residue conservation analysis
PDB id:
1dc2
Name: Gene regulation
Title: Solution nmr structure of tumor suppressor p16ink4a, 20 structures
Structure: Cyclin-dependent kinase 4 inhibitor a (p16ink4a). Chain: a. Engineered: yes
Source: Homo sapiens. Human. Organism_taxid: 9606. Expressed in: escherichia coli. Expression_system_taxid: 562.
NMR struc: 20 models
Authors: I.-J.L.Byeon,J.Li,C.Yuan,M.-D.Tsai
Key ref: C.Yuan et al. (2000). Tumor suppressor INK4: refinement of p16INK4A structure and determination of p15INK4B structure by comparative modeling and NMR data. Protein Sci, 9, 1120-1128. PubMed id: 10892805 DOI: 10.1110/ps.9.6.1120
Date:
04-Nov-99     Release date:   23-Dec-99    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P42771  (CDN2A_HUMAN) -  Cyclin-dependent kinase inhibitor 2A from Homo sapiens
Seq:
Struc: 		156 a.a.
156 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 

 
DOI no: 10.1110/ps.9.6.1120 Protein Sci 9:1120-1128 (2000)
PubMed id: 10892805  
 
 
Tumor suppressor INK4: refinement of p16INK4A structure and determination of p15INK4B structure by comparative modeling and NMR data.
C.Yuan, T.L.Selby, J.Li, I.J.Byeon, M.D.Tsai.
 
  ABSTRACT  
 
Within the tumor suppressor protein INK4 (inhibitor of cyclin-dependent kinase 4) family, p15INK4B is the smallest and the only one whose structure has not been determined previously, probably due to the protein's conformational flexibility and instability. In this work, multidimensional NMR studies were performed on this protein. The first tertiary structure was built by comparative modeling with p16INK4A as the template, followed by restrained energy minimization with NMR constraints (NOE and H-bonds). For this purpose, the solution structure of pl6INK4A, whose quality was also limited by similar problems, was refined with additional NMR experiments conducted on an 800 MHz spectrometer and by structure-based iterative NOE assignments. The nonhelical regions showed major improvement with root-mean-square deviation (RMSD) improved from 1.23 to 0.68 A for backbone heavy atoms. The completion of p15INK4B coupled with refinement of p16INK4A made it possible to compare the structures of the four INK4 members in depth, and to compare the structures of p16INK4A in the free form and in the p16INK4A-CDK6 complex. This is an important step toward a comprehensive understanding of the precise functional roles of each INK4 member.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
21333652 B.Busby, T.Oashi, C.D.Willis, M.A.Ackermann, A.Kontrogianni-Konstantopoulos, A.D.Mackerell, and R.J.Bloch (2011).
Electrostatic interactions mediate binding of obscurin to small ankyrin 1: biochemical and molecular modeling studies.
  J Mol Biol, 408, 321-334.  
19260062 C.Kannengiesser, S.Brookes, A.G.del Arroyo, D.Pham, J.Bombled, M.Barrois, O.Mauffret, M.F.Avril, A.Chompret, G.M.Lenoir, A.Sarasin, G.Peters, B.Bressac-de Paillerets, F.Boitier, V.Bonadonna, J.M.Bonnetblanc, J.Chiesa, I.Coupier, S.Dalle, F.Grange, B.Guillot, P.Joly, C.Lasset, D.Leroux, J.M.Limacher, M.Longy, T.Martin-Denavit, L.Thomas, and P.Vabres (2009).
Functional, structural, and genetic evaluation of 20 CDKN2A germ line mutations identified in melanoma-prone families or patients.
  Hum Mutat, 30, 564-574.  
  19352455 N.Fahham, M.H.Ghahremani, S.Sardari, B.Vaziri, and S.N.Ostad (2009).
Simulation of Different Truncated p16 Forms and In Silico Study of Interaction with Cdk4.
  Cancer Inform, 7, 1.  
16596641 G.Interlandi, G.Settanni, and A.Caflisch (2006).
Unfolding transition state and intermediates of the tumor suppressor p16INK4a investigated by molecular dynamics simulations.
  Proteins, 64, 178-192.  
16584130 J.Sridhar, N.Akula, and N.Pattabiraman (2006).
Selectivity and potency of cyclin-dependent kinase inhibitors.
  AAPS J, 8, E204-E221.  
11900540 J.Li, and M.D.Tsai (2002).
Novel insights into the INK4-CDK4/6-Rb pathway: counter action of gankyrin against INK4 proteins regulates the CDK4-mediated phosphorylation of Rb.
  Biochemistry, 41, 3977-3983.  
12001124 M.A.Blackwood, R.Holmes, M.Synnestvedt, M.Young, C.George, H.Yang, D.E.Elder, L.M.Schuchter, D.Guerry, and A.Ganguly (2002).
Multiple primary melanoma revisited.
  Cancer, 94, 2248-2255.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time.

 

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