1F5T	Transcription Dna	date	Jun 15, 2000
title	Diphtheria Tox Repressor (C102d Mutant) Complexed With Nicke Consensus Binding Sequence
authors	S.Chen, A.White, J.Love, J.R.Murphy, D.Ringe
compound		source
Molecule: 43mer Dna Containing Dxtr Consensus Binding Seque Chain: E Engineered: Yes		Synthetic: Yes
Molecule: 43mer Dna Containing Dxtr Consensus Binding Seque Chain: F Engineered: Yes		Synthetic: Yes
Molecule: Diphtheria Toxin Repressor Chain: A, B, C, D Synonym: Iron-Dependent Diphtheria Toxregulatory Element, T Regulatory Factor, Tox Regulon Transcription Regulator Dtxr Engineered: Yes Mutation: Yes		Organism_scientific: Corynebacterium Diphtheriae Organism_taxid: 1717 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 41	R_factor 0.245 R_Free 0.273
crystal cell	length a length b length c angle alpha angle beta angle gamma 116.178 116.178 142.919 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	NI	enzyme
related structures	by homologous chain: 1DPR
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Methyl groups of thymine bases are important for nucleic acid recognition by DtxR., Chen CS, White A, Love J, Murphy JR, Ringe D, Biochemistry 2000 Aug 29;39(34):10397-407. PMID:10956029

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (108 Kb) [Save to disk] Biological Unit Coordinates (1f5t.pdb1.gz) 102 Kb LPC: Ligand-Protein Contacts for 1F5T CSU: Contacts of Structural Units for 1F5T Likely Quarternary Molecular Structure file(s) for 1F5T Structure Factors (554 Kb) Retrieve 1F5T in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1F5T from S2C, [Save to disk] Re-refined 1f5t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1F5T 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 1F5T

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 1F5T, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1f5ta1, region A:1002-1064 [Jmol] [rasmolscript] [script source]     - Domain d1f5ta2, region A:1065-1121 [Jmol] [rasmolscript] [script source]     - Domain d1f5tb1, region B:2002-2064 [Jmol] [rasmolscript] [script source]     - Domain d1f5tb2, region B:2065-2121 [Jmol] [rasmolscript] [script source]     - Domain d1f5tc1, region C:3002-3064 [Jmol] [rasmolscript] [script source]     - Domain d1f5tc2, region C:3065-3121 [Jmol] [rasmolscript] [script source]     - Domain d1f5td1, region D:4002-4064 [Jmol] [rasmolscript] [script source]     - Domain d1f5td2, region D:4065-4121 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1f5t_E] [1f5t_A] [1f5t_C] [1f5t_D] [1f5t_B] [1f5t_F] [1f5t] SWISS-PROT database: [P33120] Domain organization of [DTXR_CORDI] by SWISSPFAM Domain found in 1F5T: [HTH_DTXR ] by SMART

Other resources with information on 1F5T

Community annotation for 1F5T at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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