AbstractCollection
AbstractList
AbstractMap
Alignments
App
Assembly
Atom
Bash
BatchCommiter
Blaster
BlastStats
Cath
CathReaderNew
Chain
CheckAllOrientationFilesArePresent
ClassifyByOrientation
ClearLogs
CollectionFactory
CollectionSizeComparator
CollectionUtility
ComparatorUtility
ConnectionToJDODatabase
ConnectionTOMSDDatabase
CreateDB
CreatePDBFiles
CSReaderNew
DistanceFactory
DistanceInteraction
Distribution
Domain
DomainInteraction
DomainInteractionFactory
DomainInteractionOrdered
DomainInteractions
DomainReader
Domains
Element
Elements
Entries
Entry
EntryReader
ExperimentType
ExperimentTypes
Family
FamilyComparator
FamilyType
FixDatabases
FormatDBFileCreator
General
GenerateOrientationFiles
HelpfulFunctions
HFType
HierarchicalFamily
HighestResolutionDomainComp
HighestResolutionInteractionComp
Histogram
HistogramUtility
IdListCreator
IntegerComparator
InteractionSourceType
InteractionSurface
IOUtility
IRMSDCalc
IteratingThroughDataBasedOnDomainInteractions
IteratingThroughDataBasedOnDomains
IteratingThroughDataBasedOnEntryHeirarchy
JDBCUtility
JoinResults
MapKeyComparator
MapValueComparator
MathUtility
MatrixFactory
Measure
MSDID
MultiMap
NumberInteractingAtomsMeasure
NumberInteractingResiduesMeasure
NumberOfUniqueDomainInteractionsComparator
OrientatedDomInt
OrientationSimilarInteractions
Pair
PairsIterator
ParseBlastOutput
PBFactory
PDBFile
PDBFileChainBased
PDBFileDomainBased
PersistDatabase
PersistDomainInteractions
PersistEntries
PersistOritentationInteractions
PersistPeripheral
Pfam
PfamReader
Piecewise
PymolScript
Range
Residue
ResidueName
ResidueNames
RMSDComponents
RunStamp
SArrayList
SArrayListFactory
Scop
ScopReaderNew
SequenceClassifiedDIs
SHashMap
Spatial
StampComparison
Stamper
Subfamily
SubfamilyComparator
SymmetricPair
Transform
Transformations
UniformSampler
UniformSamplerIterator
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