2O49	Transcription Dna	date	Dec 04, 2006
title	Crystal Structure Of The N-Terminal Cut Domain Of Satb1 Bound To Matrix Attachment Region Dna
authors	K.Yamasaki, T.Akiba, K.Harata
compound		source
Molecule: Dna-Binding Protein Satb1 Chain: A Fragment: N-Terminal Cut Domain (Residues 368-452) Synonym: Special At-Rich Sequence-Binding Protein 1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b
Molecule: Dna (5'- D(Dgpdcpdtpdapdapdtpdapdtpdapdtpdgpdc)-3'); Chain: B Engineered: Yes		Synthetic: Yes
Molecule: Dna (5'- D(Dgpdcpdapdtpdapdtpdapdtpdtpdapdgpdc)-3'); Chain: C Engineered: Yes		Synthetic: Yes
symmetry	Space Group: P 1	R_factor 0.212 R_Free 0.255
crystal cell	length a length b length c angle alpha angle beta angle gamma 29.659 36.997 41.248 71.60 83.92 71.07
method	X-Ray Diffraction	resolution	2.00 Å
Primary reference	Structural basis for recognition of the matrix attachment region of DNA by transcription factor SATB1., Yamasaki K, Akiba T, Yamasaki T, Harata K, Nucleic Acids Res. 2007 Jul 25;. PMID:17652321

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk] Biological Unit Coordinates (2o49.pdb1.gz) 26 Kb CSU: Contacts of Structural Units for 2O49 Likely Quarternary Molecular Structure file(s) for 2O49 Structure Factors (410 Kb) Retrieve 2O49 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2O49 from S2C, [Save to disk] Re-refined 2o49 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2O49 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 2O49

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 2O49, from MSDmotif at EBI Fold representative 2o49 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2o49_A] [2o49_B] [2o49_C] SWISS-PROT database: [Q01826] Domain organization of [SATB1_HUMAN] by SWISSPFAM Domain found in 2O49: [CUT ] by SMART Alignments of the sequence of 2O49 with the sequences similar proteins can be viewed for 2O49's classification [SATB1_HUMAN] 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 [SATB1_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2O49

Community annotation for 2O49 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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