1NAR

CRYSTAL STRUCTURE OF NARBONIN REFINED AT 1.8 ANGSTROMS RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of narbonin at 1.8 A resolution.

Hennig, M.Pfeffer-Hennig, S.Dauter, Z.Wilson, K.S.Schlesier, B.Nong, V.H.

(1995) Acta Crystallogr.,Sect.D 51: 177-189

  • DOI: 10.1107/S0907444994009807

  • PubMed Abstract: 
  • The three-dimensional structure of narbonin, a seed protein from Vicia narbonensis L, has been determined at 1.8 A resolution. Phase information was obtained by multiple isomorphous replacement and optimized anomalous dispersion. The narbonin structu ...

    The three-dimensional structure of narbonin, a seed protein from Vicia narbonensis L, has been determined at 1.8 A resolution. Phase information was obtained by multiple isomorphous replacement and optimized anomalous dispersion. The narbonin structure was initially traced with only 17% amino-acid sequence information and preliminarily refined to a crystallographic R-factor of 16.5%. It is now refined to 15.9% using full sequence information derived from cDNA and after the addition of more solvent molecules. The monomeric molecule of narbonin is an eight-stranded parallel beta-barrel surrounded by alpha-helices in a beta/alpha-topology similar to that first observed in triose phosphate isomerase. Differences exist in the N-terminal part of the polypeptide chain, where the first helix is replaced by a loop and the second beta-strand is followed by an additional antiparallel alpha-sheet placed parallel on top of alpha-helices alpha3 and alpha4. Two short additional secondary structures are present. The first, an alpha-helix, is situated between the seventh beta-strand and the following helix, and the second, which is a 3(10) helix, between the eighth strand and the C-terminal helix. The most striking observation is the lack of a known enzymatic function for narbonin, because all TIM-like structures known so far are enzymes.


    Related Citations: 
    • A Tim Barrel Protein without Enzymatic Activity? Crystal Structure of Narbonin at 1.8 Angstroms Resolution
      Hennig, M.,Schlesier, B.,Dauter, Z.,Pfeffer, S.,Betzel, C.,Hoehne, W.E.,Wilson, K.S.
      (1992) FEBS Lett. 306: 80
    • Narbonin, a 2S Globulin from Vicia Narbonensis L. Crystallization and Preliminary Crystallographic Data
      Hennig, M.,Schlesier, B.,Pfeffer, S.,Hoehne, W.E.
      (1990) J.Mol.Biol. 215: 339


    Organizational Affiliation

    European Molecular Biology Laboratory, Hamburg, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NARBONIN
A
290Vicia narbonensisMutation(s): 0 
Find proteins for Q08884 (Vicia narbonensis)
Go to UniProtKB:  Q08884
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 46.900α = 90.00
b = 75.500β = 120.50
c = 50.900γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-01-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-11-29
    Type: Derived calculations, Other