3N00 Transcription Regulator date May 13, 2010
title Crystal Structure Of A Deletion Mutant Of Human Reverba Liga Domain Bound With An Ncor Id1 Peptide Determined To 2.60a
authors R.Gampe, R.Nolte
compound source
Molecule: Rev-Erba-Alpha
Chain: A
Synonym: Nuclear Receptor Subfamily 1 Group D Member 1, V-E Related Protein 1, Ear-1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nr1d1, Ear1, Hrev, Thral
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21de3
Expression_system_vector_type: Pet24

Molecule: Nuclear Receptor Corepressor 1
Chain: B
Fragment: Cornr Box 2 Residues 2045-2065
Synonym: N-Cor1, N-Cor
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: H 3 2
R_factor 0.199 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
112.550 112.550 103.833 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
Primary referenceStructure of Rev-erbalpha bound to N-CoR reveals a unique mechanism of nuclear receptor-co-repressor interaction., Phelan CA, Gampe RT Jr, Lambert MH, Parks DJ, Montana V, Bynum J, Broderick TM, Hu X, Williams SP, Nolte RT, Lazar MA, Nat Struct Mol Biol. 2010 Jul;17(7):808-14. Epub 2010 Jun 27. PMID:20581824
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (3n00.pdb1.gz) 65 Kb
  • Biological Unit Coordinates (3n00.pdb2.gz) 33 Kb
  • CSU: Contacts of Structural Units for 3N00
  • Structure Factors (122 Kb)
  • Retrieve 3N00 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3N00 from S2C, [Save to disk]
  • Re-refined 3n00 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3N00 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 3N00
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3N00, from MSDmotif at EBI
  • Fold representative 3n00 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3n00_A] [3n00] [3n00_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3N00: [HOLI ] by SMART
  • Alignments of the sequence of 3N00 with the sequences similar proteins can be viewed for 3N00's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3N00
  • Community annotation for 3N00 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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