DNA Polymerase III Alpha Subunit

(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 Polymerase III Alpha Subunit
  Conformer 1
(PDB)
2hnh (A)
  Conformer 2
(PDB)
2hqa (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 710 1.06   5 - 291   293 - 295   325 - 329   334 - 371   375 - 377   398 - 587   589 - 589   593 - 624   626 - 626   633 - 650   653 - 664   765 - 908
2 164 0.94   292 - 292   296 - 324   330 - 333   372 - 374   378 - 397   588 - 588   590 - 592   625 - 625   627 - 632   651 - 652   665 - 764

Sequence


           ________________________________________________________________________________________________________________________ 
 2hnh(A) : MSEPRFVHLRVHSDYSMIDGLAKTAPLVKKAAALGMPALAITDFTNLCGLVKFYGAGHGAGIKPIVGADFNVQCDLLGDELTHLTVLAANNTGYQNLTLLISKAYQRGYGAAGPIIDRDW 
         :                                                                                                                          
 2hqa(A) : *SEPRFVHLRVHSDYS-iDGLAKTAPLVKKAAALG-pALAITDFTNLCGLVKFYGAGHGAGIKPIVGADFNVQCDLLGDELTHLTVLAANNTGYQNLTLLISKAYQRGYGAAGPIIDRDW 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2hnh(A) : LIELNEGLILLSGGRMGDVGRSLLRGNSALVDECVAFYEEHFPDRYFLELIRTGRPDEESYLHAAVELAEARGLPVVATNDVRFIDSSDFDAHEIRVAIHDGFTLDDPKRPRNYSPQQYM 
         :                                                                                                                          
 2hqa(A) : LIELNEGLILLSGGR-gDVGRSLLRGNSALVDECVAFYEEHFPDRYFLELIRTGRPDEESYLHAAVELAEARGLPVVATNDVRFIDSSDFDAHEIRVAIHDGFTLDDPKRPRNYSPQQY- 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________291_295__________________________324__329_333___________________________ 
 2hnh(A) : RSEEEMCELFADIPEALANTVEIAKRCNVTVRLGEYFLPQFPTGDMSTEDYLVKRAKEGLEERLAFLFPDEEERLKRRPEYDERLETELQVINQMGFPGYFLIVMEFIQWSKDNGVPVGP 
         :                                                                                                                          
 2hqa(A) : rSEEE-cELFADIPEALANTVEIAKRCNVTVRLGEYFLPQFPTGD-sTEDYLVKRAKEGLEERLAFLFPDEEERLKRRPEYDERLETELQVINQ-gFPGYFLIV-eFIQWSKDNGVPVGP 
           ________________________________________________291_295__________________________324__329_333___________________________ 

           ________371___377_________________397___________________________________________________________________________________ 
 2hnh(A) : GRGSGAGSLVAYALKITDLDPLEFDLLFERFLNPERVSMPDFDVDFCMEKRDQVIEHVADMYGRDAVSQIITFGTMAAKAVIRDVGRVLGHPYGFVDRISKLIPPDPGMTLAKAFEAEPQ 
         :                                                                                                                          
 2hqa(A) : GRGSGAGSLVAYALKITDLDPLEFDLLFERFLNPERVS-pDFDVDFC-eKRDQVIEHVAD-yGRDAVSQIITFGT-aAKAVIRDVGRVLGHPYGFVDRISKLIPPDPG-tLAKAFEAEPQ 
           ________371___377_________________397___________________________________________________________________________________ 

           ________________________________________________________________________________________________________587__592________ 
 2hnh(A) : LPEIYEADEEVKALIDMARKLEGVTRNAGKHAGGVVIAPTKITDFAPLYCDEEGKHPVTQFDKSDVEYAGLVKFDFLGLRTLTIINWALEMINKRRAKNGEPPLDIAAIPLDDKKSFDML 
         :                                                                                                                          
 2hqa(A) : LPEIYEADEEVKALID-aRKLEGVTRNAGKHAGGVVIAPTKITDFAPLYCDEEGKHPVTQFDKSDVEYAGLVKFDFLGLRTLTIINWALE-iNKRRAKNGEPPLDIAAIPLDDKKSFD-l 
           ________________________________________________________________________________________________________587__592________ 

           _____________________624____632________________650___________664________________________________________________________ 
 2hnh(A) : QRSETTAVFQLESRGMKDLIKRLQPDCFEDMIALVALFRPGPLQSGMVDNFIDRKHGREEISYPDVQWQHESLKPVLEPTYGIILYQEQVMQIAQVLSGYTLGGADMLRRAMGKKKPEEM 
         :                                                                                                                          
 2hqa(A) : QRSETTAVFQLESRG-kDLIKRLQPDCFED-iALVALFRPGPLQSG-vDNFIDRKHGREEISYPDVQWQHESLKPVLEPTYGIILYQEQV-qIAQVLSGYTLGGAD-lRRA-gKKKPEE- 
           _____________________624____632________________650___________664________________________________________________________ 

           _________________________________________764____________________________________________________________________________ 
 2hnh(A) : AKQRSVFAEGAEKNGINAELAMKIFDLVEKFAGYGFNKSHSAAYALVSYQTLWLKAHYPAEFMAAVMTADMDNTEKVVGLVDECWRMGLKILPPDINSGLYHFHVNDDGEIVYGIGAIKG 
         :                                                                                                                          
 2hqa(A) : aKQRSVFAEGAEKNGINAELA-kIFDLVEKFAGYGFNKSHSAAYALVSYQTLWLKAHYPAEF--aAVtAD-dNTEKVVGLVDECWR-gLKILPPDINSGLYHFHVNDDGEIVYGIGAIKG 
           _________________________________________764____________________________________________________________________________ 

           _______________________________________________________________________                                                  
 2hnh(A) : VGEGPIEAIIEARNKGGYFRELFDLCARTDTKKLNRRVLEKLIMSGAFDRLGPHRAALMNSLGDALKAAD*                                                  
         :                                                                                                                          
 2hqa(A) : VGEGPIEAIIEARNKGGYFRELFDLCARTDTKKLNRRVLEKLI-sGAFDRLGPHRAAL-nSLGDALKAADQ                                                  
           _______________________________________________________________________                                                  

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
6.8
Translation
(A)
-0.1
Closure
(%)
98.2
Bending Residues
( green )
  291 - 293
  295 - 296
  324 - 325
  329 - 330
  333 - 334
  371 - 372
  374 - 375
  377 - 378
  397 - 398
  587 - 590
  592 - 593
  624 - 627
  632 - 633
  650 - 653
  664 - 668
  764 - 765
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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