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Hydrolase (o-glycosyl) PDB id
1gbs
Jmol
Contents
Protein chain
185 a.a. *
Waters ×152
* Residue conservation analysis
PDB id:
1gbs
Name: Hydrolase (o-glycosyl)
Title: Crystal structure of black swan goose-type lysozyme at 1.8 angstroms resolution
Structure: Australian black swan egg white lysozyme. Chain: a. Engineered: yes
Source: Cygnus atratus. Black swan. Organism_taxid: 8868
Resolution:
1.50Å     R-factor:   0.184    
Authors: Z.Rao,K.Machin,N.Isaacs
Key ref:
Z.Rao et al. (1995). A strategy for rapid and effective refinement applied to black swan lysozyme. Acta Crystallogr D Biol Crystallogr, 51, 331-336. PubMed id: 15299299 DOI: 10.1107/S0907444994009893
Date:
15-Mar-95     Release date:   10-Jul-95    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P00717  (LYG_CYGAT) -  Lysozyme g
Seq:
Struc: 		185 a.a.
185 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Enzyme reactions 
   Enzyme class: E.C.3.2.1.17  - Lysozyme.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Hydrolysis of the 1,4-beta-linkages between N-acetyl-D-glucosamine and N-acetylmuramic acid in peptidoglycan heteropolymers of the prokaryotes cell walls.
 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     extracellular region   1 term 
  Biological process     metabolic process   5 terms 
  Biochemical function     catalytic activity     4 terms  

 

 
DOI no: 10.1107/S0907444994009893 Acta Crystallogr D Biol Crystallogr 51:331-336 (1995)
PubMed id: 15299299  
 
 
A strategy for rapid and effective refinement applied to black swan lysozyme.
Z.Rao, R.Esnouf, N.Isaacs, D.Stuart.
 
  ABSTRACT  
 
The crystal structure of a goose-type lysozyme from the egg white of black swan has been determined at 1.9 A resolution using a semi-automatic procedure based on the Calpha coordinates of the homologous goose protein.
 
  Selected figure(s)  
 
Figure 3.
Fig. 3. (a) The database-refined model for he region around residue Trp84 with a FRODO plot of the corresponding (Fob s -- Fcalc ) electron-density map contoured at 2tr and (b) te corrected final model for the same region with a FRODO plot of the corresponding (2Fob s -- F~l¢) electron- density map contoured at ltr. (c) he database-refined model for the region around residue Trpl07 with a FRODO plot of the corresponding (Fb s --F~lc) electron-density map contoured at 2tr and (d) the corrected final model for the same region with a FRODO plot of the corresponding (2Fob s -- Fcalc ) electron-density map contoured at la.
 
  The above figure is reprinted by permission from the IUCr: Acta Crystallogr D Biol Crystallogr (1995, 51, 331-336) copyright 1995.  
  Figure was selected by an automated process.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
19543850 R.Helland, R.L.Larsen, S.Finstad, P.Kyomuhendo, and A.N.Larsen (2009).
Crystal structures of g-type lysozyme from Atlantic cod shed new light on substrate binding and the catalytic mechanism.
  Cell Mol Life Sci, 66, 2585-2598.
PDB codes: 3gxk 3gxr
  9385633 A.C.Wallace, N.Borkakoti, and J.M.Thornton (1997).
TESS: a geometric hashing algorithm for deriving 3D coordinate templates for searching structural databases. Application to enzyme active sites.
  Protein Sci, 6, 2308-2323.  
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. Where a reference describes a PDB structure, the PDB codes are shown on the right.