1RUT	Protein Binding	date	Dec 11, 2003
title	Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid Domain
authors	J.E.Deane, D.P.Ryan, M.J.Maher, A.H.Y.Kwan, M.Bacca, J.P.Mackay, J J.E.Visvader, J.M.Matthews
compound		source
Molecule: Fusion Protein Of Lmo4 Protein And Lim Domain-Bin Protein 1; Chain: X Synonym: Flinc4 Engineered: Yes Mutation: Yes Other_details: Fusion Of Lmo4 Residues 16-152 To Ldb1 Lid R 300-339 Via A Flexible Linker With Sequence Ggsggsggsgg		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Gene: Lmo4, Ldb1 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex-2t
symmetry	Space Group: P 3 1 2	R_factor 0.155 R_Free 0.193
crystal cell	length a length b length c angle alpha angle beta angle gamma 61.344 61.344 93.159 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.30 Å
ligand	ZN	enzyme
note	1RUT is a representative structure
Primary reference	Tandem LIM domains provide synergistic binding in the LMO4:Ldb1 complex., Deane JE, Ryan DP, Sunde M, Maher MJ, Guss JM, Visvader JE, Matthews JM, EMBO J 2004 Sep 15;23(18):3589-98. Epub 2004 Sep 02. PMID:15343268

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (64 Kb) [Save to disk] Biological Unit Coordinates (1rut.pdb1.gz) 58 Kb LPC: Ligand-Protein Contacts for 1RUT CSU: Contacts of Structural Units for 1RUT Likely Quarternary Molecular Structure file(s) for 1RUT Structure Factors (304 Kb) Retrieve 1RUT in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1RUT from S2C, [Save to disk] Re-refined 1rut structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1RUT 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 1RUT

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1RUT from the CEP Server. Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1RUT, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1rutx4, region X:114-146 [Jmol] [rasmolscript] [script source]     - Domain d1rutx1, region X:19-48 [Jmol] [rasmolscript] [script source]     - Domain d1rutx2, region X:49-82 [Jmol] [rasmolscript] [script source]     - Domain d1rutx3, region X:83-113 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1rut] [1rut_X] SWISS-PROT database: [P70662] [P61969] Domain organization of [LDB1_MOUSE] [LMO4_MOUSE] by SWISSPFAM Domain found in 1RUT: [LIM ] by SMART

Other resources with information on 1RUT

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

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