improvements in text

Andreas Prlic · Andreas Prlic · commit 9e6023fcedcf · 2013-09-20T10:18:36.000-07:00
diff --git a/structure/mmcif.md b/structure/mmcif.md
@@ -4,15 +4,15 @@ A quick tutorial how to work with mmCIF files.
 
 ## What is mmCIF?
 
-The Protein Data Bank (PDB) has been distributing its archival files as PDB files for a long time. The PDB file format is based on "punchcard"-style rules how to store data in a flat file. With the increasing complexity of macromolecules that have are being resolved experimentally, this file format can not be used any more to represent some or the more complex structures. As such, the wwPDB recently announced the transition from PDB to mmCIF/PDBx as  the principal deposition and dissemination file format (see 
+The Protein Data Bank (PDB) has been distributing its archival files as PDB files for a long time. The PDB file format is based on "punchcard"-style rules how to store data in a flat file. With the increasing complexity of macromolecules that are being resolved experimentally, this file format can not be used any more to represent some or the more complex structures. As such, the wwPDB recently announced the transition from PDB to mmCIF/PDBx as  the principal deposition and dissemination file format (see 
 [here](http://www.wwpdb.org/news/news_2013.html#22-May-2013) and 
 [here](http://wwpdb.org/workshop/wgroup.html)). 
 
 The mmCIF file format has been around for some time (see [Westbrook 2000][] and [Westbrook 2003][] ) [BioJava](http://www.biojava.org) has been supporting mmCIF already for several years. This tutorial is meant to provide a quick introduction into how to parse mmCIF files using [BioJava](http://www.biojava.org)
 
 ## The basics
 
-BioJava provides you with both a mmCIF parser and a data model that reads PDB and mmCIF files into a biological and chemically  meaningful data model (BioJava supports the [Chemical Components Dictionary](http://www.wwpdb.org/ccd.html)). If you don't want to use that data model, you can still use BioJava's file parsers, and more on that later, let's start first with the most basic way of loading a protein structure.
+BioJava provides you with both a mmCIF parser and a data model that reads PDB and mmCIF files into a biological and chemically  meaningful data model (BioJava supports the [Chemical Components Dictionary](mmcif.md)). If you don't want to use that data model, you can still use BioJava's file parsers, and more on that later, let's start first with the most basic way of loading a protein structure.
 
 
 ## First steps
