#MONOCLONAL ANTIBODY FAB D44.1 RAISED AGAINST CHICKEN EGG-WHITE LYSOZYME 
#light chain:
protein A 1         DIELTQSPATLSVTPGDSVSLSCRASQSISNGLHWYQQKSHESPRLLIKYVSQSSSGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC
#heavy chain:
protein B 1 QVQLQESGAEVMKPGASVKISCKATGYTFSTYWIEWVKQRPGHGLEWIGEILPGSGSTYYNEKFKGKATFTADTSSNTAYMQLSSLTSEDSAVYYCARGDGNYGYWGQGTTLTVSSASTTPPSVFPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSPRPSETVTCNVAHPASSTKVDKKIVPRDC
#antigen
protein E 1         KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPCSALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL

removeRigidBodyMomentum FALSE
mobilizer Rigid 
mobilizer Default A 32-2 32+2
setDefaultMDParameters
includeAllResiduesWithin 1.2 A 32-2
includeAllResiduesWithin 1.2 A 32-1
includeAllResiduesWithin 1.2 A 32-0
includeAllResiduesWithin 1.2 A 32+1
includeAllResiduesWithin 1.2 A 32+2
smallGroupInertiaMultiplier 11  
constrainChainRigidSegments


firstStage 2 

lastStage 2
reportingInterval .1
numReportingIntervals 150 
#useOpenMMAcceleration true

randomizeInitialVelocities false