7JPR

ORC-OPEN: Human Origin Recognition Complex (ORC) in an open conformation

  • Classification: REPLICATION
  • Organism(s): Homo sapiens
  • Expression System: Spodoptera frugiperda
  • Mutation(s): No 

  • Deposited: 2020-08-09 Released: 2020-09-09 
  • Deposition Author(s): Jaremko, M.J., Joshua-Tor, L.
  • Funding Organization(s): Howard Hughes Medical Institute (HHMI), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

The dynamic nature of the human Origin Recognition Complex revealed through five cryoEM structures.

Jaremko, M.J.On, K.F.Thomas, D.R.Stillman, B.Joshua-Tor, L.

(2020) Elife 9

  • DOI: https://doi.org/10.7554/eLife.58622
  • Primary Citation of Related Structures:  
    7JPO, 7JPP, 7JPQ, 7JPR, 7JPS

  • PubMed Abstract: 

    Genome replication is initiated from specific origin sites established by dynamic events. The Origin Recognition Complex (ORC) is necessary for orchestrating the initiation process by binding to origin DNA, recruiting CDC6, and assembling the MCM replicative helicase on DNA. Here we report five cryoEM structures of the human ORC (HsORC) that illustrate the native flexibility of the complex. The absence of ORC1 revealed a compact, stable complex of ORC2-5. Introduction of ORC1 opens the complex into several dynamic conformations. Two structures revealed dynamic movements of the ORC1 AAA+ and ORC2 winged-helix domains that likely impact DNA incorporation into the ORC core. Additional twist and pinch motions were observed in an open ORC conformation revealing a hinge at the ORC5·ORC3 interface that may facilitate ORC binding to DNA. Finally, a structure of ORC was determined with endogenous DNA bound in the core revealing important differences between human and yeast origin recognition.


  • Organizational Affiliation

    W. M. Keck Structural Biology Laboratory, New York, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Origin recognition complex subunit 1392Homo sapiensMutation(s): 0 
Gene Names: ORC1ORC1LPARC1
UniProt & NIH Common Fund Data Resources
Find proteins for Q13415 (Homo sapiens)
Explore Q13415 
Go to UniProtKB:  Q13415
PHAROS:  Q13415
GTEx:  ENSG00000085840 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13415
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Origin recognition complex subunit 2577Homo sapiensMutation(s): 0 
Gene Names: ORC2ORC2L
UniProt & NIH Common Fund Data Resources
Find proteins for Q13416 (Homo sapiens)
Explore Q13416 
Go to UniProtKB:  Q13416
PHAROS:  Q13416
GTEx:  ENSG00000115942 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13416
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Origin recognition complex subunit 3712Homo sapiensMutation(s): 0 
Gene Names: ORC3LATHEOORC3L
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UBD5 (Homo sapiens)
Explore Q9UBD5 
Go to UniProtKB:  Q9UBD5
PHAROS:  Q9UBD5
GTEx:  ENSG00000135336 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UBD5
Sequence Annotations
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Origin recognition complex subunit 4436Homo sapiensMutation(s): 0 
Gene Names: ORC4ORC4L
UniProt & NIH Common Fund Data Resources
Find proteins for O43929 (Homo sapiens)
Explore O43929 
Go to UniProtKB:  O43929
PHAROS:  O43929
GTEx:  ENSG00000115947 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO43929
Sequence Annotations
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Origin recognition complex subunit 5435Homo sapiensMutation(s): 0 
Gene Names: ORC5ORC5L
UniProt & NIH Common Fund Data Resources
Find proteins for O43913 (Homo sapiens)
Explore O43913 
Go to UniProtKB:  O43913
PHAROS:  O43913
GTEx:  ENSG00000164815 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO43913
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.0
MODEL REFINEMENTPHENIX1.18
MODEL REFINEMENTCoot0.9

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States--
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesF32GM129923
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM45436

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-09
    Type: Initial release
  • Version 1.1: 2024-03-06
    Changes: Data collection, Database references, Refinement description