Mmdb: Difference between revisions

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Other ways to get MMDB

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 == How to install mmdb? ==
-The easiest way for users of Linux distros is to install the Fedora 9 RPM package ([https://www.redhat.com/archives/fedora-package-announce/2008-November/msg00262.html announcement]). For Apple machines, this would probably be http://pdb.finkproject.org/pdb/package.php/mmdb .
+The easiest way for users of Linux RPM based distributions is to install the Fedora 9 RPM package ([https://www.redhat.com/archives/fedora-package-announce/2008-November/msg00262.html announcement]).
+Ubuntu users may install the package using apt-get:
+ apt-get install libmmdb-dev
+For Apple machines, mmdb is available via  [http://pdb.finkproject.org/pdb/package.php/mmdb The FINK project]. (Direct link to the Fink .info file  [http://fink.cvs.sourceforge.net/viewvc/fink/dists/10.4/unstable/main/finkinfo/sci/mmdb.info '''HERE''']).
+If you wish to compile the MMDB source yourself, you can obtain a standalone distribution tarball from [https://launchpad.net/mmdb The MMDB project on Launchpad] or from the [http://lmb.bioch.ox.ac.uk/coot/software/dependencies/ Coot software dependencies site] at Oxford.
 == How to use it? ==
 Link your application with ...
-== Example: a typical problem and its solution with mmdb ==
+== Examples for atom selections ==
 What is the mmdb string for all atoms in the A conformation of residue 30 in the B chain? Answer: "//B/30/*:A"
+The general syntax is:
+/mdl/chn/seq(res).ic/atm[elm]:aloc
+e.g. "/1/A/12-130/CA" selects the CAs of residues A12-A130
+or
+e.g. "//*/1-10" for residues 1-10 in all chains
+Some further information about the selection syntax can be found on the pdbcur site http://www.ccp4.ac.uk/html/pdbcur.html#atom_selection.
 == Documentation ==
-http://www.ebi.ac.uk/~keb/cldoc/
+* [http://www.ebi.ac.uk/pdbe/docs/cldoc/ The author's documentation of MMDB] at the European Bioinformatics Institute
+* [http://www.ebi.ac.uk/pdbe/docs/cldoc/ CCP4 Coordinate Library Project] at the European Bioinformatics Institute