DNA Damage-Binding Protein 1

(All numbering and residues are taken from first PDB file)

Run Details Domains Sequence Morph Domain Pairs Contact Graph

DynDom run details

  Property   Value
  Name DNA Damage-Binding Protein 1
  Conformer 1
(PDB)
5hxb (B)
  Conformer 2
(PDB)
3i8c (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 756 1.6   4 - 392   709 - 1138
2 308 1.34   393 - 708

Sequence


           ________________________________________________________________________________________________________________________ 
 5hxb(B) : *SYNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTA--lRPVKEVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQs---IDIITRAHGNVQDRIGRPSETGI 
         :                                                                                                                          
 3i8c(A) : MSYNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEGLRPVKEVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGI 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 5hxb(B) : IGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQAPTICFVYQDPQGRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYH 
         :                                                                                                                          
 3i8c(A) : IGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQAPTICFVYQDPQGRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYH 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 5hxb(B) : NGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEK--------tLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLN-----qGSYVVAMETFTNLGPIV 
         :                                                                                                                          
 3i8c(A) : NGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMDGTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMETFTNLGPIV 
           ________________________________________________________________________________________________________________________ 

           _____________________________392________________________________________________________________________________________ 
 5hxb(B) : DMCVVD---qGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWPLRSDP--eTDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLVS 
         :                                                                                                                          
 3i8c(A) : DMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWPLRSDPNRETYDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLVS 
           _____________________________392________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 5hxb(B) : QEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRALYYLQIHPQELRQISHTEMEHEVACLDITPL--sNGLSPLCAIGLWTDISARILKLPSFEL-hKEMLGG-iIPRSILMTTFESSH 
         :                                                                                                                          
 3i8c(A) : QEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRALYYLQIHPQELRQISHTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRSILMTTFESSH 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________707_____________ 
 5hxb(B) : YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRS-sTTNVFACSDRPTVIYS-nHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKLHIRTVPLYES 
         :                                                                                                                          
 3i8c(A) : YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKLHIRTVPLYES 
           ________________________________________________________________________________________________________707_____________ 

           ________________________________________________________________________________________________________________________ 
 5hxb(B) : PRKICYQEVSQCFGVLSSRIEVQDt----TALRPSASTQALSSSVSSSKL----eEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFIVGTAMVYPEEAEPKQGRIV 
         :                                                                                                                          
 3i8c(A) : PRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKLFSSgEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFIVGTAMVYPEEAEPKQGRIV 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 5hxb(B) : VFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAE 
         :                                                                                                                          
 3i8c(A) : VFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKDVRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAE 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 5hxb(B) : NAFNLFVCQKD------eERQHLQEVGLFHLGEFVNVFCHGSLVMQNtQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT--kTEPATGFIDGDLIES 
         :                                                                                                                          
 3i8c(A) : NAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVFCHGSLVMQpTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIES 
           ________________________________________________________________________________________________________________________ 

           _________________________________________                                                                                
 5hxb(B) : FLDISRPKMQEVVANLQYDDGkREATADDLIKVVEELTRIH                                                                                
         :                                                                                                                          
 3i8c(A) : FLDISRPKMQEVVAN-------rEATADDLIKVVEELTRIH                                                                                
           _________________________________________                                                                                

Morph

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Status: Initialising

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
79.2
Translation
(A)
-0.8
Closure
(%)
20.7
Bending Residues
( green )
  392 - 393
  707 - 710
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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