6FB1 Dna Binding Protein date Dec 18, 2017
title Crystal Structure Of A Tailored I-Crei Homing Endonuclease P (3115 Variant) In Complex With Its Target Dna (Haemoglobin Subunit Gene) In The Presence Of Magnesium
authors R.Molina, J.Prieto
compound source
Molecule: Dna Endonuclease I-Crei
Chain: A
Synonym: 23s Rrna Intron Protein
Ec: 3.1.-.-
Engineered: Yes
Organism_scientific: Chlamydomonas Reinhardtii
Organism_common: Chlamydomonas Smithii
Organism_taxid: 3055
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna Endonuclease I-Crei
Chain: B
Synonym: 23s Rrna Intron Protein
Ec: 3.1.-.-
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_common: Chlamydomonas Smithii
Organism_taxid: 3055
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'-D(Tpcpapgpapcptptpcptpcpcpap
Chain: D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Tpcptpgpapcptpcpcptpgptpgp
Chain: F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Papgpgpapgptpcpapgpa)-3')
Chain: E
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Papgpapapgptpcptpgpa)-3')
Chain: G
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 1 21 1
R_factor 0.208 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.090 66.600 91.780 90.00 96.69 90.00
method X-Ray Diffractionresolution 3.02 Å
ligand MG enzyme Hydrolase E.C.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • nuclease activity
  • endonuclease activity


  • Primary referenceUnderstanding the indirect DNA read-out specificity of I-CreI Meganuclease., Prieto J, Redondo P, Lopez-Mendez B, D'Abramo M, Merino N, Blanco FJ, Duchateau P, Montoya G, Molina R, Sci Rep. 2018 Jul 6;8(1):10286. doi: 10.1038/s41598-018-28599-0. PMID:29980759
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (6fb1.pdb1.gz) 149 Kb
  • LPC: Ligand-Protein Contacts for 6FB1
  • CSU: Contacts of Structural Units for 6FB1
  • Structure Factors (127 Kb)
  • Retrieve 6FB1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6FB1 from S2C, [Save to disk]
  • View 6FB1 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 6FB1
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1l6fb1, region B:2-11,B:245-383 [Jmol] [rasmolscript] [script source]
        - Domain d1f6fb1, region B:5-100 [Jmol] [rasmolscript] [script source]
        - Domain d1n6fb1, region B:763-853 [Jmol] [rasmolscript] [script source]
  • Fold representative 6fb1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6fb1_B] [6fb1_G] [6fb1_E] [6fb1_A] [6fb1_D] [6fb1_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6FB1
  • Community annotation for 6FB1 at PDBWiki (http://pdbwiki.org)

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