3D1N Transcription Regulator Dna date May 06, 2008
title Structure Of Human Brn-5 Transcription Factor In Complex Wit Corticotrophin-Releasing Hormone Gene Promoter
authors J.H.Pereira, S.C.Ha, S.H.Kim
compound source
Molecule: 5'-D(Dapdgpdcpdapdtpdapdapdapdtpdapdap A)-3';
Chain: A, C, E, G
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Dtpdtpdapdtpdtpdapdtpdtpdtpdapdtp T)-3';
Chain: B, D, F, H
Engineered: Yes

Synthetic: Yes

Molecule: Pou Domain, Class 6, Transcription Factor 1
Chain: I, J, K, L, M, N, O, P
Fragment: Pou Domain (Unp Residues 142-292)
Synonym: Brain-Specific Homeoboxpou Domain Protein 5,Brain Mpou Homeobox Protein;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pou6f1, Brn5, Mpou, Tcfb1
Expression_system: Escherichia Coli
Expression_system_strain: Bl21(De3)Psjs1240
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pskb3
symmetry Space Group: P 21 21 21
R_factor 0.212 R_Free 0.270
length a length b length c angle alpha angle beta angle gamma
100.298 112.060 181.504 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.51 Å
ligand MSE enzyme
O, J, N, P, K, M, I, L

Primary referenceStructure of human Brn-5 transcription factor in complex with CRH gene promoter., Pereira JH, Kim SH, J Struct Biol. 2009 May 15. PMID:19450691
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (214 Kb) [Save to disk]
  • Biological Unit Coordinates (3d1n.pdb1.gz) 58 Kb
  • Biological Unit Coordinates (3d1n.pdb2.gz) 50 Kb
  • Biological Unit Coordinates (3d1n.pdb3.gz) 51 Kb
  • Biological Unit Coordinates (3d1n.pdb4.gz) 51 Kb
  • LPC: Ligand-Protein Contacts for 3D1N
  • CSU: Contacts of Structural Units for 3D1N
  • Likely Quarternary Molecular Structure file(s) for 3D1N
  • Structure Factors (313 Kb)
  • Retrieve 3D1N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3D1N from S2C, [Save to disk]
  • Re-refined 3d1n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3D1N 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 3D1N
  • 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 3D1N, from MSDmotif at EBI
  • Fold representative 3d1n from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3d1n] [3d1n_H] [3d1n_K] [3d1n_J] [3d1n_A] [3d1n_L] [3d1n_G] [3d1n_E] [3d1n_M] [3d1n_P] [3d1n_D] [3d1n_C] [3d1n_I] [3d1n_N] [3d1n_F] [3d1n_O] [3d1n_B]
  • SWISS-PROT database: [Q14863]
  • Domain organization of [PO6F1_HUMAN] by SWISSPFAM
  • Domains found in 3D1N: [HOX] [POU ] by SMART
  • Other resources with information on 3D1N
  • Community annotation for 3D1N 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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