1DDN	Gene Regulation Dna	date	Jun 23, 1998
title	Diphtheria Tox Repressor (C102d Mutant)Tox Dna Operator Com
authors	A.White, X.Ding, J.C.Vanderspek, J.R.Murphy, D.Ringe
compound		source
Molecule: 33 Base Dna Containing Toxin Operator Chain: E Engineered: Yes		Synthetic: Yes
Molecule: 33 Base Dna Containing Toxin Operator Chain: F Engineered: Yes		Synthetic: Yes
Molecule: Diphtheria Tox Repressor Chain: A, B, C, D Synonym: Toxpo Engineered: Yes Mutation: Yes		Organism_scientific: Corynebacterium Diphtheriae Organism_taxid: 1717 Gene: Dtxr Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_plasmid: Pet11c
symmetry	Space Group: P 41	R_factor 0.240 R_Free 0.280
crystal cell	length a length b length c angle alpha angle beta angle gamma 117.050 117.050 145.340 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	NI	enzyme
related structures	by homologous chain: 1DPR, 1G3Y
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structure of the metal-ion-activated diphtheria toxin repressor/tox operator complex., White A, Ding X, vanderSpek JC, Murphy JR, Ringe D, Nature 1998 Jul 30;394(6692):502-6. PMID:9697776

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (102 Kb) [Save to disk] Biological Unit Coordinates (1ddn.pdb1.gz) 94 Kb LPC: Ligand-Protein Contacts for 1DDN CSU: Contacts of Structural Units for 1DDN Likely Quarternary Molecular Structure file(s) for 1DDN Retrieve 1DDN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1DDN from S2C, [Save to disk]

View 1DDN 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 1DDN

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1DDN, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ddna1, region A:3-64 [Jmol] [rasmolscript] [script source]     - Domain d1ddna2, region A:65-120 [Jmol] [rasmolscript] [script source]     - Domain d1ddnb1, region B:3-64 [Jmol] [rasmolscript] [script source]     - Domain d1ddnb2, region B:65-120 [Jmol] [rasmolscript] [script source]     - Domain d1ddnc1, region C:3-64 [Jmol] [rasmolscript] [script source]     - Domain d1ddnc2, region C:65-120 [Jmol] [rasmolscript] [script source]     - Domain d1ddnd1, region D:3-64 [Jmol] [rasmolscript] [script source]     - Domain d1ddnd2, region D:65-120 [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: [1ddn_A] [1ddn_D] [1ddn_B] [1ddn] [1ddn_E] [1ddn_C] [1ddn_F] SWISS-PROT database: [P33120] Domain organization of [DTXR_CORDI] by SWISSPFAM Domains found in 1DDN: [FeoA] [HTH_DTXR ] by SMART

Other resources with information on 1DDN

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

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