5J0N

Lambda excision HJ intermediate


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 11.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure of a Holliday junction complex reveals mechanisms governing a highly regulated DNA transaction.

Laxmikanthan, G.Xu, C.Brilot, A.F.Warren, D.Steele, L.Seah, N.Tong, W.Grigorieff, N.Landy, A.Van Duyne, G.D.

(2016) Elife 5

  • DOI: 10.7554/eLife.14313
  • Primary Citation of Related Structures:  
    5J0N

  • PubMed Abstract: 
  • The molecular machinery responsible for DNA expression, recombination, and compaction has been difficult to visualize as functionally complete entities due to their combinatorial and structural complexity. We report here the structure of the intact functional assembly responsible for regulating and executing a site-specific DNA recombination reaction ...

    The molecular machinery responsible for DNA expression, recombination, and compaction has been difficult to visualize as functionally complete entities due to their combinatorial and structural complexity. We report here the structure of the intact functional assembly responsible for regulating and executing a site-specific DNA recombination reaction. The assembly is a 240-bp Holliday junction (HJ) bound specifically by 11 protein subunits. This higher-order complex is a key intermediate in the tightly regulated pathway for the excision of bacteriophage λ viral DNA out of the E. coli host chromosome, an extensively studied paradigmatic model system for the regulated rearrangement of DNA. Our results provide a structural basis for pre-existing data describing the excisive and integrative recombination pathways, and they help explain their regulation.


    Organizational Affiliation

    Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, United States.



Macromolecules

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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
IntegraseE, F, G, H356Escherichia virus LambdaMutation(s): 0 
Gene Names: int
EC: 2.7.7 (PDB Primary Data), 3.1 (PDB Primary Data)
UniProt
Find proteins for P03700 (Escherichia phage lambda)
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Go to UniProtKB:  P03700
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UniProt GroupP03700
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Integration host factor subunit alphaI, K96Escherichia coliMutation(s): 0 
Gene Names: ihfAhimAECS88_1763
UniProt
Find proteins for P0A6X7 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0A6X7
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UniProt GroupP0A6X7
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Integration host factor subunit betaJ, L94Escherichia coliMutation(s): 0 
Gene Names: ihfBhimDECS88_0940
UniProt
Find proteins for P0A6Y1 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0A6Y1
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UniProt GroupP0A6Y1
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
ExcisionaseM, N, O55Escherichia virus LambdaMutation(s): 0 
Gene Names: xis
UniProt
Find proteins for P03699 (Escherichia phage lambda)
Explore P03699 
Go to UniProtKB:  P03699
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UniProt GroupP03699
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Entity ID: 1
MoleculeChainsLengthOrganismImage
attP(-117 to +79)A 197Escherichia virus Lambda
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Entity ID: 2
MoleculeChainsLengthOrganismImage
attB(-21) to attP(+117)B 139Escherichia virus Lambda
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Entity ID: 3
MoleculeChainsLengthOrganismImage
attB(-19 to +21)C 41Escherichia coli
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Entity ID: 4
MoleculeChainsLengthOrganismImage
attP(-79) to attB(+19)D 99Escherichia virus Lambda
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 11.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-02-08
    Type: Initial release
  • Version 1.1: 2018-07-18
    Changes: Data collection, Experimental preparation