1XDT	Complex (Toxin Growth Factor)	date	Nov 18, 1997
title	Complex Of Diphtheria Toxin And Heparin-Binding Epidermal Gr Factor
authors	G.V.Louie, W.Yang, M.E.Bowman, S.Choe
compound		source
Molecule: Diphtheria Toxin Chain: T Synonym: Dt Ec: 2.4.2.36 Engineered: Yes		Organism_scientific: Corynebacterium Diphtheriae Organism_taxid: 1717 Variant: Lysogenized By The Corynephage Beta Cellular_location: Extracellular Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid
Molecule: Heparin-Binding Epidermal Growth Factor Chain: R Fragment: Extracellular Domain Synonym: Hbegf Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cellular_location: Membrane-Anchored Or Extracellularly-Rel Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_cellular_location: Cytoplasm Expression_system_vector_type: Plasmid Expression_system_vector: Pet28a
symmetry	Space Group: C 2 2 21	R_factor 0.172 R_Free 0.290
crystal cell	length a length b length c angle alpha angle beta angle gamma 89.400 103.700 127.700 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.65 Å
ligand		enzyme	Transferase E.C.2.4.2.36 BRENDA
note	1XDT is a representative structure
related structures	by homologous chain: 1DTP
Gene Ontology	Chain Function Process Component T protein transmembrane transp... toxin activity
Primary reference	Crystal structure of the complex of diphtheria toxin with an extracellular fragment of its receptor., Louie GV, Yang W, Bowman ME, Choe S, Mol Cell 1997 Dec;1(1):67-78. PMID:9659904

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (93 Kb) [Save to disk] Biological Unit Coordinates (1xdt.pdb1.gz) 172 Kb CSU: Contacts of Structural Units for 1XDT Likely Quarternary Molecular Structure file(s) for 1XDT Structure Factors (290 Kb) Retrieve 1XDT in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1XDT from S2C, [Save to disk] Re-refined 1xdt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1XDT 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 1XDT

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 1XDT, from MSDmotif at EBI Genome occurence of 1XDT's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1xdtr_, region R [Jmol] [rasmolscript] [script source]     - Domain d1xdtt2, region T:1-188 [Jmol] [rasmolscript] [script source]     - Domain d1xdtt3, region T:200-380 [Jmol] [rasmolscript] [script source]     - Domain d1xdtt1, region T:381-535 [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: [1xdt_T] [1xdt] [1xdt_R] SWISS-PROT database: [P00588] [Q99075] Domain organization of [DTX_CORBE] [HBEGF_HUMAN] by SWISSPFAM Domain found in 1XDT: [EGF ] by SMART

Other resources with information on 1XDT

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

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---