1D5Y	Transcription Dna	date	Oct 12, 1999
title	Crystal Structure Of The E. Coli Rob Transcription Factor In With Dna
authors	H.J.Kwon, M.H.J.Bennik, B.Demple, T.Ellenberger
compound		source
Molecule: Dna (5'- D(Tpgpapcpapgpcpapcptpgpapaptpgptpcpapap 3'); Chain: M, O Engineered: Yes		Synthetic: Yes
Molecule: Dna (5'- D(Apcptptptpgpapcpaptptpcpapgptpgpcptpgp 3'); Chain: N, P Engineered: Yes		Synthetic: Yes
Molecule: Rob Transcription Factor Chain: A, D, C, B Fragment: Residues 3-289, Klaaa Extension After Residue 289 Synonym: Right Origin-Binding Protein Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28
symmetry	Space Group: P 1 21 1	R_factor 0.254 R_Free 0.302
crystal cell	length a length b length c angle alpha angle beta angle gamma 75.384 208.012 67.731 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.70 Å
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Crystal structure of the Escherichia coli Rob transcription factor in complex with DNA., Kwon HJ, Bennik MH, Demple B, Ellenberger T, Nat Struct Biol 2000 May;7(5):424-30. PMID:10802742

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (221 Kb) [Save to disk] Biological Unit Coordinates (1d5y.pdb1.gz) 109 Kb Biological Unit Coordinates (1d5y.pdb2.gz) 110 Kb CSU: Contacts of Structural Units for 1D5Y Likely Quarternary Molecular Structure file(s) for 1D5Y Retrieve 1D5Y in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1D5Y from S2C, [Save to disk]

View 1D5Y 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 1D5Y

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1D5Y, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1d5ya3, region A:122-294 [Jmol] [rasmolscript] [script source]     - Domain d1d5ya1, region A:3-56 [Jmol] [rasmolscript] [script source]     - Domain d1d5ya2, region A:57-121 [Jmol] [rasmolscript] [script source]     - Domain d1d5yb3, region B:122-294 [Jmol] [rasmolscript] [script source]     - Domain d1d5yb1, region B:3-56 [Jmol] [rasmolscript] [script source]     - Domain d1d5yb2, region B:57-121 [Jmol] [rasmolscript] [script source]     - Domain d1d5yc3, region C:122-294 [Jmol] [rasmolscript] [script source]     - Domain d1d5yc1, region C:3-56 [Jmol] [rasmolscript] [script source]     - Domain d1d5yc2, region C:57-121 [Jmol] [rasmolscript] [script source]     - Domain d1d5yd3, region D:122-294 [Jmol] [rasmolscript] [script source]     - Domain d1d5yd1, region D:3-56 [Jmol] [rasmolscript] [script source]     - Domain d1d5yd2, region D:57-121 [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: [1d5y] [1d5y_B] [1d5y_D] [1d5y_M] [1d5y_A] [1d5y_N] [1d5y_P] [1d5y_O] [1d5y_C] SWISS-PROT database: [P0ACI0] Domain organization of [ROB_ECOLI] by SWISSPFAM Domains found in 1D5Y: [AraC_E_bind] [HTH_ARAC ] by SMART

Other resources with information on 1D5Y

Community annotation for 1D5Y at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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