3UFD	Dna Binding Protein Dna	date	Nov 01, 2011
title	C.Esp1396i Bound To Its Highest Affinity Operator Site Om
authors	N.J.Ball, J.E.Mcgeehan, S.D.Streeter, S.J.Thresh, G.G.Kneale
compound		source
Molecule: Regulatory Protein Chain: A, B, E, F Engineered: Yes		Organism_scientific: Enterobacter Sp. Rfl1396 Organism_taxid: 211595 Gene: Esp1396ic Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3)Gold Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28b
Molecule: Dna (5'- D(Aptpgptpapgpapcptpaptpapgptpcpgpapcpa) Chain: C, G Engineered: Yes Other_details: Om 19-Mer		Synthetic: Yes
Molecule: Dna (5'- D(Tptpgptpcpgpapcptpaptpapgptpcptpapcpa) Chain: D, H Engineered: Yes Other_details: Om 19-Mer		Synthetic: Yes
symmetry	Space Group: P 1 21 1	R_factor 0.206 R_Free 0.237
crystal cell	length a length b length c angle alpha angle beta angle gamma 47.490 147.100 47.780 90.00 93.68 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	CL	enzyme
Gene Ontology	Chain Function Process Component F, A, E, B
Primary reference	The structural basis of differential DNA sequence recognition by restriction-modification controller proteins., Ball NJ, McGeehan JE, Streeter SD, Thresh SJ, Kneale GG, Nucleic Acids Res. 2012 Aug 31. PMID:22941636

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (171 Kb) [Save to disk] Biological Unit Coordinates (3ufd.pdb1.gz) 82 Kb Biological Unit Coordinates (3ufd.pdb2.gz) 83 Kb LPC: Ligand-Protein Contacts for 3UFD CSU: Contacts of Structural Units for 3UFD Structure Factors (235 Kb) Retrieve 3UFD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3UFD from S2C, [Save to disk] Re-refined 3ufd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3UFD 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 3UFD

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 3D motif for 3UFD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3ufd_C] [3ufd_D] [3ufd_H] [3ufd_A] [3ufd_B] [3ufd_G] [3ufd_F] [3ufd_E] [3ufd] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3UFD: [HTH_XRE ] by SMART

Other resources with information on 3UFD

Community annotation for 3UFD at PDBWiki (http://pdbwiki.org)

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