Dear all, I am newbie using mmCIF files, apologies for the low level questions. I am also very happy if you can point me to a tutorial or example page! ;) The db scheme was created correctly using CreateMmsMySQL.sql and InitMMs.sql I managed to start pdbase: java \ -classpath .:/usr/java/jre1.5.0_07/lib/ext/biojava-1.4.jar:/home/tj/OpenMMS-1.5.1_Std/openmms/classes/OpenMMS.jar:/usr/java/mysql-connector-java-5.0.5/mysql-connector-java-5.0.5-bin.jar \ -Xmx1500M \ org.rcsb.openmms.apps.rdb.PDBase \ LenientParse \ data=ftp://beta.rcsb.org/pub/pdb/uniformity/data/mmCIF.gz/all \ manifest=ftp://ftp.rcsb.org/pub/pdb/ls-lR \ log=PDBASE.LOG \ debug=5 The connection to my local database was fine First a got a connection timeout which probably comes from the wrong data and manifest link. I corrected this to: data=ftp://ftp.rcsb.org/pub/pdb/data/structures/all/mmCIF manifest=ftp://ftp.rcsb.org/pub/pdb/data/structures/ls-lR I tried "Load all entries in Manifest" but just received file not found errors. Then I tried to load files in /home/tj/OpenMMS-1.5.1_Std/openmms/data/lists/StructureIDs.list I used names like: 1fnt and 1fnt.cif.Z but same error. Same with putting names manually "Load this list of entries" Can anyone point me to my error? Thanks a lot, Thomas