Serialized Form (mmtf-codec 1.0.9 API)

Package org.rcsb.mmtf.decoder
- Class org.rcsb.mmtf.decoder.GenericDecoder extends java.lang.Object implements Serializable
  
  serialVersionUID:
  
  1109812420718081496L
  - Serialized Fields
    - cartnX
```
float[] cartnX
```
      The X coordinates
    - cartnY
```
float[] cartnY
```
      The Y coordinates
    - cartnZ
```
float[] cartnZ
```
      The Z coordinates
    - bFactor
```
float[] bFactor
```
      The X coordinates
    - occupancy
```
float[] occupancy
```
      The Y coordinates
    - atomId
```
int[] atomId
```
      The atom id.
    - altId
```
char[] altId
```
      The alt id.
    - insertionCodeList
```
char[] insertionCodeList
```
      The ins code.
    - groupNum
```
int[] groupNum
```
      The group num.
    - groupMap
```
Group[] groupMap
```
      The group map.
    - groupList
```
int[] groupList
```
      The group list.
    - seqResGroupList
```
int[] seqResGroupList
```
      The sequence ids of the groups
    - publicChainIds
```
java.lang.String[] publicChainIds
```
      The public facing chain ids
    - chainsPerModel
```
int[] chainsPerModel
```
      The number of chains per model
    - groupsPerChain
```
int[] groupsPerChain
```
      The number of groups per (internal) chain
    - spaceGroup
```
java.lang.String spaceGroup
```
      The space group of the structure
    - unitCell
```
float[] unitCell
```
      The unit cell of the structure
    - bioAssembly
```
java.util.List<E> bioAssembly
```
      The bioassembly information for the structure
    - interGroupBondIndices
```
int[] interGroupBondIndices
```
      The bond indices for bonds between groups
    - interGroupBondOrders
```
int[] interGroupBondOrders
```
      The bond orders for bonds between groups
    - chainList
```
java.lang.String[] chainList
```
      The chosen list of chain ids
    - mmtfVersion
```
java.lang.String mmtfVersion
```
      The mmtf version
    - mmtfProducer
```
java.lang.String mmtfProducer
```
      The mmtf prodcuer
    - nucAcidList
```
java.util.List<E> nucAcidList
```
      A list containing pdb group names for nucleic acids
    - entityList
```
Entity[] entityList
```
      The list of entities in this structure.
    - pdbId
```
java.lang.String pdbId
```
      The PDB id
    - resolution
```
java.lang.Float resolution
```
      The reported resolution of the dataset.
    - rFree
```
java.lang.Float rFree
```
      The reported R Free of the model.
    - rWork
```
java.lang.Float rWork
```
      The reported R Work of the model.
    - title
```
java.lang.String title
```
      The title of the model.
    - experimentalMethods
```
java.lang.String[] experimentalMethods
```
      The list of experimental methods.
    - depositionDate
```
java.lang.String depositionDate
```
      The deposition date of the structure
    - releaseDate
```
java.lang.String releaseDate
```
      The release date of the structure
    - secStructInfo
```
int[] secStructInfo
```
    - numModels
```
int numModels
```
    - numChains
```
int numChains
```
    - numGroups
```
int numGroups
```
    - numIntergroupBonds
```
int numIntergroupBonds
```
    - ncsOperMatrixList
```
double[][] ncsOperMatrixList
```
- Class org.rcsb.mmtf.decoder.StructureDataToAdapter extends java.lang.Object implements Serializable
  
  serialVersionUID:
  
  1304850018382353781L
  - Serialized Fields
    - structInflator
```
StructureAdapterInterface structInflator
```
      The struct inflator.
    - dataApi
```
StructureDataInterface dataApi
```
      The api to the data
    - modelCounter
```
int modelCounter
```
    - chainCounter
```
int chainCounter
```
    - groupCounter
```
int groupCounter
```
    - atomInGroupCounter
```
int atomInGroupCounter
```
    - atomInStructureCounter
```
int atomInStructureCounter
```
Package org.rcsb.mmtf.encoder
- Class org.rcsb.mmtf.encoder.AdapterToStructureData extends java.lang.Object implements Serializable
  
  serialVersionUID:
  
  4984676010601174880L
  - Serialized Fields
    - cartnX
```
float[] cartnX
```
      The X coordinates
    - cartnY
```
float[] cartnY
```
      The Y coordinates
    - cartnZ
```
float[] cartnZ
```
      The Z coordinates
    - bFactor
```
float[] bFactor
```
      The B factors
    - occupancy
```
float[] occupancy
```
      The occupancy
    - atomId
```
int[] atomId
```
      The atom id.
    - altId
```
char[] altId
```
      The alt id.
    - insertionCodeList
```
char[] insertionCodeList
```
      The ins code.
    - groupNum
```
int[] groupNum
```
      The group num.
    - groupMap
```
java.util.List<E> groupMap
```
      The group map.
    - groupList
```
int[] groupList
```
      The group list.
    - seqResGroupList
```
int[] seqResGroupList
```
      The sequence ids of the groups
    - publicChainIds
```
java.lang.String[] publicChainIds
```
      The public facing chain ids
    - chainsPerModel
```
int[] chainsPerModel
```
      The number of chains per model
    - groupsPerChain
```
int[] groupsPerChain
```
      The number of groups per (internal) chain
    - spaceGroup
```
java.lang.String spaceGroup
```
      The space group of the structure
    - unitCell
```
float[] unitCell
```
      The unit cell of the structure
    - bioAssembly
```
java.util.List<E> bioAssembly
```
      The bioassembly information for the structure
    - interGroupBondIndices
```
java.util.List<E> interGroupBondIndices
```
      The bond indices for bonds between groups
    - interGroupBondOrders
```
java.util.List<E> interGroupBondOrders
```
      The bond orders for bonds between groups
    - chainList
```
java.lang.String[] chainList
```
      The chosen list of chain ids
    - mmtfVersion
```
java.lang.String mmtfVersion
```
      The mmtf version
    - mmtfProducer
```
java.lang.String mmtfProducer
```
      The mmtf producer
    - entityList
```
Entity[] entityList
```
      The list of entities in this structure.
    - pdbId
```
java.lang.String pdbId
```
      The PDB id
    - resolution
```
java.lang.Float resolution
```
      The reported resolution of the dataset.
    - rFree
```
java.lang.Float rFree
```
      The reported R Free of the model.
    - rWork
```
java.lang.Float rWork
```
      The reported R Work of the model.
    - title
```
java.lang.String title
```
      The title of the model.
    - experimentalMethods
```
java.lang.String[] experimentalMethods
```
      The list of experimental methods.
    - depositionDate
```
java.lang.String depositionDate
```
      The deposition date of hte structure
    - releaseDate
```
java.lang.String releaseDate
```
      The release date of the structure
    - numModels
```
int numModels
```
      The total number of models
    - secStructInfo
```
int[] secStructInfo
```
      The secondary structure information
    - atomIndex
```
int atomIndex
```
      The atom counter
    - groupAtomIndex
```
int groupAtomIndex
```
      The atom counter within a group
    - groupBondIndex
```
int groupBondIndex
```
      The current group bond
    - groupIndex
```
int groupIndex
```
      The group counter
    - chainIndex
```
int chainIndex
```
      The chain counter
    - modelIndex
```
int modelIndex
```
      The model counter
    - pdbGroup
```
Group pdbGroup
```
      Add the atom information for the current group
    - totalNumBonds
```
int totalNumBonds
```
      The total number of bonds in the structure
    - pdbGroupList
```
java.util.List<E> pdbGroupList
```
      The list of groups
    - ncsOperMatrixList
```
double[][] ncsOperMatrixList
```
      The NCS operation matrix list
- Class org.rcsb.mmtf.encoder.GenericEncoder extends java.lang.Object implements Serializable
  
  serialVersionUID:
  
  4128892132322015448L
  - Serialized Fields
    - mmtfBean
```
MmtfStructure mmtfBean
```
    - coordDivider
```
int coordDivider
```
    - bfactorOccDivider
```
int bfactorOccDivider
```
- Class org.rcsb.mmtf.encoder.ReducedEncoder extends java.lang.Object implements Serializable
  
  serialVersionUID:
  
  -528732924956087110L
- Class org.rcsb.mmtf.encoder.SummaryData extends java.lang.Object implements Serializable
  
  serialVersionUID:
  
  -7724752942891007770L
  - Serialized Fields
    - numBonds
```
java.lang.Integer numBonds
```
      The number of bonds in the structure.
    - numAtoms
```
java.lang.Integer numAtoms
```
      The number of atoms in the structure.
    - numGroups
```
java.lang.Integer numGroups
```
      The number of groups in the structure.
    - numChains
```
java.lang.Integer numChains
```
      The number of chains in the structure.
    - numModels
```
java.lang.Integer numModels
```
      The number of models in the structure.

Serialized Form

Package org.rcsb.mmtf.decoder

Class org.rcsb.mmtf.decoder.GenericDecoder extends java.lang.Object implements Serializable

Serialized Fields

cartnX

cartnY

cartnZ

bFactor

occupancy

atomId

altId

insertionCodeList

groupNum

groupMap

groupList

seqResGroupList

publicChainIds

chainsPerModel

groupsPerChain

spaceGroup

unitCell

bioAssembly

interGroupBondIndices

interGroupBondOrders

chainList

mmtfVersion

mmtfProducer

nucAcidList

entityList

pdbId

resolution

rFree

rWork

title

experimentalMethods

depositionDate

releaseDate

secStructInfo

numModels

numChains

numGroups

numIntergroupBonds

ncsOperMatrixList

Class org.rcsb.mmtf.decoder.StructureDataToAdapter extends java.lang.Object implements Serializable

Serialized Fields

structInflator

dataApi

modelCounter

chainCounter

groupCounter

atomInGroupCounter

atomInStructureCounter

Package org.rcsb.mmtf.encoder

Class org.rcsb.mmtf.encoder.AdapterToStructureData extends java.lang.Object implements Serializable

Serialized Fields

cartnX

cartnY

cartnZ

bFactor

occupancy

atomId

altId

insertionCodeList

groupNum

groupMap

groupList

seqResGroupList

publicChainIds

chainsPerModel

groupsPerChain

spaceGroup

unitCell

bioAssembly

interGroupBondIndices

interGroupBondOrders

chainList

mmtfVersion

mmtfProducer

entityList

pdbId