4DFR	Oxido-Reductase	date	Jun 25, 1982
title	Crystal Structures Of Escherichia Coli And Lactobacillus Cas Dihydrofolate Reductase Refined At 1.7 Angstroms Resolution General Features And Binding Of Methotrexate
authors	D.J.Filman, D.A.Matthews, J.T.Bolin, J.Kraut
compound		source
Molecule: Dihydrofolate Reductase Chain: A, B Ec: 1.5.1.3 Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 37762 Strain: B
symmetry	Space Group: P 61	R_factor 0.155 R_Free NULL
crystal cell	length a length b length c angle alpha angle beta angle gamma 93.220 93.220 73.560 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.70 Å
ligand	CA, CL, MTX BindingDB	enzyme	Oxidoreductase E.C.1.5.1.3 BRENDA
note	4DFR supersedes 2DFR
related structures	by homologous chain: 1RA2, 1RA8
Gene Ontology	Chain Function Process Component A, B dihydrofolate reductase acti... oxidoreductase activity NADP binding glycine biosynthetic process... one-carbon metabolic process... nucleotide biosynthetic proc... 10-formyltetrahydrofolate bi... response to methotrexate response to drug tetrahydrofolate biosyntheti... folic acid biosynthetic proc... response to antibiotic oxidation-reduction process
Primary reference	Crystal structures of Escherichia coli and Lactobacillus casei dihydrofolate reductase refined at 1.7 A resolution. I. General features and binding of methotrexate., Bolin JT, Filman DJ, Matthews DA, Hamlin RC, Kraut J, J Biol Chem 1982 Nov 25;257(22):13650-62. PMID:6815178

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk] Biological Unit Coordinates (4dfr.pdb1.gz) 62 Kb LPC: Ligand-Protein Contacts for 4DFR CSU: Contacts of Structural Units for 4DFR Likely Quarternary Molecular Structure file(s) for 4DFR Retrieve 4DFR in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4DFR from S2C, [Save to disk]

View 4DFR 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 4DFR

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 4DFR, from MSDmotif at EBI Genome occurence of 4DFR's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d4dfra_, region A [Jmol] [rasmolscript] [script source]     - Domain d4dfrb_, region B [Jmol] [rasmolscript] [script source] Fold representative 4dfr from FSSP and Dali (Families of Structurally Similar Proteins) 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: [4dfr_A] [4dfr_B] SWISS-PROT database: [P0ABQ4] Domain organization of [DYR_ECOLI] by SWISSPFAM Alignments of the sequence of 4DFR with the sequences similar proteins can be viewed for 4DFR's classification [DYR_ECOLI] 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 [DYR_ECOLI] at ProtoMap. Click on the Cluster number.

Other resources with information on 4DFR

Community annotation for 4DFR at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Domain movements in 4DFR from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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