1TVX

NEUTROPHIL ACTIVATING PEPTIDE-2 VARIANT FORM M6L WITH FIVE ADDITIONAL AMINO TERMINAL RESIDUES (DSDLY)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.196 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The amino-terminal residues in the crystal structure of connective tissue activating peptide-III (des10) block the ELR chemotactic sequence.

Malkowski, M.G.Lazar, J.B.Johnson, P.H.Edwards, B.F.

(1997) J Mol Biol 266: 367-380

  • DOI: 10.1006/jmbi.1996.0796
  • Primary Citation of Related Structures:  
    1TVX

  • PubMed Abstract: 
  • alpha-Chemokines comprise a family of cytokines that are chemotactic for neutrophils and have a structure similar to platelet factor 4 (PF4), in which the first two cysteine residues are separated by one residue (Cys-X-Cys). The two alpha-chemokines, connective tissue activating peptide-III (CTAP-III) and neutrophil activating peptide-2 (NAP-2), are carboxyl-terminal fragments of platelet basic protein (PBP) that are generated by monocyte-derived proteases ...

    alpha-Chemokines comprise a family of cytokines that are chemotactic for neutrophils and have a structure similar to platelet factor 4 (PF4), in which the first two cysteine residues are separated by one residue (Cys-X-Cys). The two alpha-chemokines, connective tissue activating peptide-III (CTAP-III) and neutrophil activating peptide-2 (NAP-2), are carboxyl-terminal fragments of platelet basic protein (PBP) that are generated by monocyte-derived proteases. NAP-2 strongly stimulates neutrophils that are present during inflammation whereas its precursors, PBP and CTAP-III, are inactive, although they also possess the highly conserved, amino-terminal sequence, Glu-Leu-Arg (ELR), that is critical for receptor binding. To resolve this conundrum, we have determined the crystal structure of recombinant Asp-CTAP, which has ten fewer amino-terminal residues than CTAP-III but five more than NAP-2. The space group is P2(1)with unit cell dimensions a = 43.8 A, b = 76.8 A, c = 43.8 A, and beta =97.0 degrees, and a tetramer in the asymmetric unit. The molecular replacement method, with the NAP-2 tetramer as a starting model, was used to determine the initial phase information. The final R-factor is 0.196 (Rfree = 0.251) for 2sigma data from 7.0 to 1.75 A resolution. This high-resolution model of Asp-CTAP is the longest defined structure of an alpha-chemokine to date. The electron density map shows an over-all structure for Asp-CTAP that is very similar to that of NAP-2, but with the additional five amino-terminal residues folding back through a type-II turn, thereby stabilizing the oligomeric "inactive" state, and masking the critical ELR receptor binding region that is exposed in the structure of NAP-2.


    Related Citations: 
    • The Crystal Structure of Recombinant Human Neutrophil-Activating Peptide-2 (M6L) at 1.9-A Resolution
      Malkowski, M.G., Wu, J.Y., Lazar, J.B., Johnson, P.H., Edwards, B.F.
      (1995) J Biol Chem 270: 7077
    • Crystal Structure of Interleukin 8: Symbiosis of NMR and Crystallography
      Baldwin, E.T., Weber, I.T., Charles, R.St., Xuan, J.C., Appella, E., Yamada, M., Matsushima, K., Edwards, B.F., Clore, G.M., Gronenborn, A.M., al., et
      (1991) Proc Natl Acad Sci U S A 88: 502
    • The Three-Dimensional Structure of Bovine Platelet Factor 4 at 3.0-A Resolution
      Charles, R.St., Walz, D.A., Edwards, B.F.
      (1989) J Biol Chem 264: 2092

    Organizational Affiliation

    Department of Biochemistry, Wayne State University, Canfield, Detroit, MI 48201, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
NEUTROPHIL ACTIVATING PEPTIDE 2 VARIANTA, B, C, D75Homo sapiensMutation(s): 0 
Gene Names: PPBPCTAP3CXCL7SCYB7TGB1THBGB1
UniProt & NIH Common Fund Data Resources
Find proteins for P02775 (Homo sapiens)
Explore P02775 
Go to UniProtKB:  P02775
PHAROS:  P02775
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.196 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 43.81α = 90
b = 76.76β = 96.95
c = 43.78γ = 90
Software Package:
Software NamePurpose
XENGENdata collection
XENGENdata reduction
X-PLORmodel building
X-PLORrefinement
XENGENdata scaling
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1997-01-11
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance