4LOX

Crystal structure of the I-SmaMI LAGLIDADG homing endonuclease bound to cleaved DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.191 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Crystal structure of a LAGLIDADG endonuclease from the Sordaria Macrospore.

Chik, J.Shen, B.Stoddard, B.

To be published.

Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
LAGLIDADG homing endonuclease I-SmaMIA302Sordaria macrospora k-hellMutation(s): 0 
Gene Names: Cytochrome c oxidase subunit 1mitochondrial Introne encodedSMAC_12671
UniProt
Find proteins for F7WD42 (Sordaria macrospora (strain ATCC MYA-333 / DSM 997 / K(L3346) / K-hell))
Explore F7WD42 
Go to UniProtKB:  F7WD42
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF7WD42
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsLengthOrganismImage
DNA (5'-D(*CP*GP*TP*AP*CP*AP*CP*CP*TP*GP*AP*TP*AP*A)-3')B 14N/A
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Entity ID: 3
MoleculeChainsLengthOrganismImage
DNA (5'-D(P*TP*GP*GP*AP*GP*GP*AP*TP*AP*CP*C)-3')C 11N/A
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  • Reference Sequence

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Entity ID: 4
MoleculeChainsLengthOrganismImage
DNA (5'-D(*GP*GP*TP*AP*TP*CP*CP*TP*CP*CP*AP*TP*TP*AP*T)-3')D 15N/A
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  • Reference Sequence

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Entity ID: 5
MoleculeChainsLengthOrganismImage
DNA (5'-D(P*CP*AP*GP*GP*TP*GP*TP*AP*CP*G)-3')E 10N/A
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download Ideal Coordinates CCD File 
F [auth A],
G [auth A]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.191 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 61.284α = 90
b = 67.429β = 90
c = 98.09γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-09-24
    Type: Initial release