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

Domains

Domain Size Backbone RMSD
(A)
Residues
1 420 1.65   4 - 29   35 - 250   260 - 280   306 - 309   379 - 543
2 205 1.11   30 - 34   251 - 259   281 - 305   310 - 378   544 - 644

Sequence


           ___________________________29___34______________________________________________________________________________________ 
 2is2(B) : *DVSYLLDSLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQGGMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQL 
         :                                                                                                                          
 2is4(A) : MDVSYLLDSLNDKQREAVAAPRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQGGMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQL 
           ___________________________29___34______________________________________________________________________________________ 

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

           _______250______259__________________280_____________________304__309___________________________________________________ 
 2is2(B) : GKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAFNELDEARFVVNRIKTWQDNGGALAECAILYRSNAQS 
         :                                                                                                                          
 2is4(A) : GKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKKLWTDGADGEPISLYCAFNELDEARFVVNRIKTWQDNGGALAECAILYRSNAQS 
           _______250______259__________________280_____________________304__309___________________________________________________ 

           _______________378______________________________________________________________________________________________________ 
 2is2(B) : RVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIVNRNDDAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQ 
         :                                                                                                                          
 2is4(A) : RVLEEALLQASMPYRIYGGMRFFERQEIKDALSYLRLIVNRNDDAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELLQEKALAGRAASALQRFMELIDALAQETADMPLHVQ 
           _______________378______________________________________________________________________________________________________ 

           ____________________________________519_________________________________________________________________________________ 
 2is2(B) : TDRVIKDSGLRTMYEQEKGEKGQTRIENLEELVTATRQFSYdEDLMPLQAFLSHAALEAGEGQADTWQDAVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGV 
         :                                                                                                                          
 2is4(A) : TDRVIKDSGLRTMYEQEKGEKGQTRIENLEELVTATRQF------mPLQAFLSHAALEAGE----tWQDAVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGV 
           ____________________________________519_________________________________________________________________________________ 

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

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
20.3
Translation
(A)
-0.9
Closure
(%)
72.1
Bending Residues
( green )
  29 - 32
  34 - 35
  250 - 251
  259 - 260
  280 - 281
  304 - 307
  309 - 310
  378 - 382
  519 - 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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