DNA Helicase II

(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 Helicase II
  Conformer 1
(PDB)
2is4 (A)
  Conformer 2
(PDB)
2is2 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 419 1.6   4 - 29   34 - 249   260 - 280   306 - 309   380 - 543
2 205 1.02   30 - 33   250 - 259   281 - 305   310 - 379   544 - 643

Sequence


           ___________________________29__33_______________________________________________________________________________________ 
 2is4(A) : MDVSYLLDSLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQGGMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQL 
         :                                                                                                                          
 2is2(A) : *DVSYLLDSLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQGGMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQL 
           ___________________________29__33_______________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2is4(A) : RLLKRLIKAMNLDEKQWPPRQAMWYINSQKDEGLRPHHIQ---nPVEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDT 
         :                                                                                                                          
 2is2(A) : RLLKRLIKAMNLDEKQWPPRQAMWYINSQKDEGLRPHHIQSYGNPVEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDT 
           ________________________________________________________________________________________________________________________ 

           ______249_______259__________________280_____________________304__309___________________________________________________ 
 2is4(A) : GKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAFNELDEARFVVNRIKTWQDNGGALAECAILYRSNAQS 
         :                                                                                                                          
 2is2(A) : GKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAFNELDEARFVVNRIKTWQDNGGALAECAILYRSNAQS 
           ______249_______259__________________280_____________________304__309___________________________________________________ 

           ________________379_____________________________________________________________________________________________________ 
 2is4(A) : RVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIVNRNDDAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQ 
         :                                                                                                                          
 2is2(A) : RVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIVNRNDDAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQ 
           ________________379_____________________________________________________________________________________________________ 

           ____________________________________________530_________________________________________________________________________ 
 2is4(A) : TDRVIKDSGLRTMYEQEKGEKGQTRIENLEELVTATRQF------mPLQAFLSHAALEAGE----tWQDAVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGV 
         :                                                                                                                          
 2is2(A) : TDRVIKDSGLRTMYEQEKGEKGQTRIENLEELVTATRQFSYdEDLMPLQAFLSHAALEAGEGQADTWQDAVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGV 
           ____________________________________________530_________________________________________________________________________ 

           ___________________________________________________________                                                              
 2is4(A) : TRAMQKLTLTYAETRRLYGKEVYHRPSRFIGELPEECVEEVRLRATVSRPVSHQRMGTP                                                              
         :                                                                                                                          
 2is2(A) : TRAMQKLTLTYAETRRLYGKEVYHRPSRFIGELPEECVEEVRL****************                                                              
           ___________________________________________________________                                                              

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
21.3
Translation
(A)
-1.0
Closure
(%)
68.7
Bending Residues
( green )
  29 - 30
  33 - 34
  249 - 250
  259 - 260
  280 - 281
  304 - 307
  309 - 310
  379 - 382
  530 - 552
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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