1RUN	Transcription Dna	date	May 26, 1996
title	Catabolite Gene Activator Protein (Cap)Dna Complex + Adenosine-3',5'-Cyclic-Monophosphate
authors	G.N.Parkinson, A.Gunasekera, J.Vojtechovsky, X.Zhang, T.A.Kunkel, H.M.Berman, R.H.Ebright
compound		source
Molecule: Dna (5'- D(Gpcpgpapapapapaptpgptpgpapt)-3'); Chain: C, E Engineered: Yes		Synthetic: Yes
Molecule: Dna (5'- D(Cptpapgpaptpcpapcpaptptptptptpcpg )-3'); Chain: D, F Engineered: Yes		Synthetic: Yes
Molecule: Protein (Catabolite Gene Activator Protein (Cap) ); Chain: A, B Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: C 2 2 21	R_factor 0.207 R_Free NULL
crystal cell	length a length b length c angle alpha angle beta angle gamma 136.930 152.800 76.000 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.70 Å
ligand	CMP BindingDB	enzyme
related structures	by homologous chain: 1J59, 1RUO
Gene Ontology	Chain Function Process Component A, B
Primary reference	Aromatic hydrogen bond in sequence-specific protein DNA recognition., Parkinson G, Gunasekera A, Vojtechovsky J, Zhang X, Kunkel TA, Berman H, Ebright RH, Nat Struct Biol 1996 Oct;3(10):837-41. PMID:8836098

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (101 Kb) [Save to disk] Biological Unit Coordinates (1run.pdb1.gz) 95 Kb LPC: Ligand-Protein Contacts for 1RUN CSU: Contacts of Structural Units for 1RUN Likely Quarternary Molecular Structure file(s) for 1RUN Structure Factors (142 Kb) Retrieve 1RUN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1RUN from S2C, [Save to disk] Re-refined 1run structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1RUN 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 1RUN

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 1RUN, from MSDmotif at EBI Genome occurence of 1RUN's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1runa1, region A:138-209 [Jmol] [rasmolscript] [script source]     - Domain d1runa2, region A:9-137 [Jmol] [rasmolscript] [script source]     - Domain d1runb1, region B:138-205 [Jmol] [rasmolscript] [script source]     - Domain d1runb2, region B:9-137 [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: [1run_A] [1run_C] [1run_E] [1run] [1run_B] [1run_D] [1run_F] SWISS-PROT database: [P0ACJ8] Domain organization of [CRP_ECOLI] by SWISSPFAM Domains found in 1RUN: [HTH_CRP] [cNMP ] by SMART

Other resources with information on 1RUN

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

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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