1YLS	Rna	date	Jan 19, 2005
title	Crystal Structure Of Selenium-Modified Diels-Alder Ribozyme With The Product Of The Reaction Between N-Pentylmaleimide Covalently Attached 9-Hydroxymethylanthracene
authors	A.Serganov, S.Keiper, L.Malinina, V.Tereshko, E.Skripkin, C.Hobar A.Polonskaia, A.T.Phan, R.Wombacher, R.Micura, Z.Dauter, A.Jasch D.J.Patel
compound		source
Molecule: Rna Diels-Alder Ribozyme Chain: A, C Engineered: Yes Other_details: 11-Mer		Synthetic: Yes Other_details: This Rna Was Chemically Synthesized. The Seq Derived From The In Vitro Selected Ribozyme Catalising Diel Reaction Between Tethered Anthracene And Biotinylated Malei
Molecule: Rna Diels-Alder Ribozyme Chain: B, D Engineered: Yes Mutation: Yes Other_details: 38-Mer		Synthetic: Yes Other_details: This Rna Was Chemically Synthesized. The Seq Derived From The In Vitro Selected Ribozyme Catalising Diel Reaction Between Tethered Anthracene And Biotinylated Malei
symmetry	Space Group: P 1 21 1	R_factor 0.209 R_Free 0.234
crystal cell	length a length b length c angle alpha angle beta angle gamma 77.873 43.269 79.928 90.00 106.19 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	CSL, DAI, MG, UMS	enzyme
Primary reference	Structural basis for Diels-Alder ribozyme-catalyzed carbon-carbon bond formation., Serganov A, Keiper S, Malinina L, Tereshko V, Skripkin E, Hobartner C, Polonskaia A, Phan AT, Wombacher R, Micura R, Dauter Z, Jaschke A, Patel DJ, Nat Struct Mol Biol 2005 Mar;12(3):218-24. Epub 2005 Feb 20. PMID:15723077

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk] Biological Unit Coordinates (1yls.pdb1.gz) 24 Kb Biological Unit Coordinates (1yls.pdb2.gz) 24 Kb LPC: Ligand-Protein Contacts for 1YLS CSU: Contacts of Structural Units for 1YLS Likely Quarternary Molecular Structure file(s) for 1YLS Structure Factors (78 Kb) Retrieve 1YLS in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YLS from S2C, [Save to disk] Re-refined 1yls structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YLS 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 1YLS

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 1YLS, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1yls_A] [1yls_C] [1yls] [1yls_B] [1yls_D] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 1YLS

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

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