improve tutorials

Author: simongravelle

docs/sphinx/source/journal-article.bib

@@ -436,9 +436,10 @@ @article{bampoulisStructureDynamicsConfined2016
   file = {/home/simon/snap/zotero-snap/common/Zotero/storage/5NQRB4QC/Bampoulis et al. - 2016 - Structure and Dynamics of Confined Alcohol–Water M.pdf}
 }
 
-@article{bankProteinDataBank,
+@article{bankProteinDataBank1971,
   title = {Protein Data Bank},
   author = {Bank, Protein Data},
+  year = {1971},
   journal = {Nature New Biol},
   pages = {10--1038}
 }
@@ -7474,9 +7475,14 @@ @article{sharpNanoconfinementMassTransport2021
   file = {/home/simon/snap/zotero-snap/common/Zotero/storage/RXGZMW44/Sharp et al. - 2021 - Nanoconfinement and mass transport in metal–organi.pdf}
 }
 
-@article{shawDeterminationSolutionStructure,
+@article{shawDeterminationSolutionStructure1992,
   title = {Determination of the Solution Structure of a Synthetic Two-Site Calcium-Binding Homodimeric Protein Domain by {{NMR}} Spectroscopy},
   author = {Shaw, Gary S and Hodges, Robert S and Sykes, Brian D},
+  year = {1992},
+  journal = {Biochemistry},
+  volume = {31},
+  number = {40},
+  pages = {9572--9580},
   abstract = {The solution structure of a 34-residue synthetic calcium-binding peptide from site III of chicken troponin-C has been determined by JH NMR spectroscopy. In solution and in the presence of calcium this peptide forms a symmetric two-site homodimeric calcium-binding domain (Shaw et al., 1990). The solution structure of this dimer was determined from the measurement of 470 NOEs from a 75-ms NOESY data set. For the dimer structure determination, the constraint list included 868 distance restraints, 44},
   langid = {english},
   file = {/home/simon/snap/zotero-snap/common/Zotero/storage/VV7I8QVM/Shaw et al. - Determination of the solution structure of a synthetic two-site calcium-binding homodimeric protein.pdf}
@@ -8197,9 +8203,10 @@ @article{vanossRoleVanWaals1986
   file = {/home/simon/snap/zotero-snap/common/Zotero/storage/Y4IRWQ9C/Van Oss et al. - 1986 - The role of van der Waals forces and hydrogen bond.pdf}
 }
 
-@book{vanrossumPythonTutorial,
+@book{vanrossumPythonTutorial1995,
   title = {Python Tutorial},
   author = {Van Rossum, Guido and Drake Jr, Fred L},
+  year = {1995},
   volume = {620},
   publisher = {Centrum voor Wiskunde en Informatica Amsterdam, The Netherlands}
 }

docs/sphinx/source/non-tutorials/before-you-start.rst

@@ -60,7 +60,7 @@ Python (optional)
 
     The version 2.6.1 of MDAnalysis is used
     together with the version 3.11.4
-    of Python :cite:`vanrossumPythonTutorial, michaud-agrawalMDAnalysisToolkitAnalysis2011`.
+    of Python :cite:`vanrossumPythonTutorial1995, michaud-agrawalMDAnalysisToolkitAnalysis2011`.
 
 ..  container:: justify
 

docs/sphinx/source/tutorials/level1/protein-in-electrolyte.rst

@@ -21,7 +21,7 @@ Protein in electrolyte
 
 The goal of this tutorial is to use GROMACS and perform a simple
 molecular dynamics simulation of a protein solvated in an electrolyte. The
-protein is downloaded from the Protein Data Bank (PDB) :cite:`bankProteinDataBank`
+protein is downloaded from the Protein Data Bank (PDB) :cite:`bankProteinDataBank1971`
 and solvated in an electrolyte made of water molecules and Na+ Cl- ions.
 
 This tutorial covers some of the basic uses of GROMACS, including system
@@ -38,7 +38,7 @@ Convert the PDB file
 Download the *.pdb* file from the |ProteinDataBank|,
 or simply click |1cta.pdb|. The protein is a calcium-binding peptide from site III
 of chicken troponin-C that has been determined using 1H-NMR spectroscopy
-:cite:`shawDeterminationSolutionStructure`.
+:cite:`shawDeterminationSolutionStructure1992`.
 
 .. |ProteinDataBank| raw:: html