1LWS Hydrolase Dna date Jun 03, 2002
title Crystal Structure Of The Intein Homing Endonuclease Pi-Scei Bound To Its Recognition Sequence
authors C.M.Moure, F.S.Gimble, F.A.Quiocho
compound source
Molecule: Pi-Scei Dna Recognition Region Top Strand
Chain: B
Engineered: Yes
Synthetic: Yes

Molecule: Pi-Scei Dna Recognition Region Bottom Strand
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Endonuclease Pi-Scei
Chain: A
Synonym: Pi-Scei, Vma-Derived Endonuclease, Vde, Sce Vma Intein;
Ec: 3.1.-.-
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Vma1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Dl41 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7pi-Scei
symmetry Space Group: P 65 2 2
R_factor 0.287 R_Free 0.310
crystal
cell
length a length b length c angle alpha angle beta angle gamma
123.000 123.000 211.700 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.50 Å
ligand CA, MSE enzyme Hydrolase E.C.3.1 BRENDA
note 1LWS (Molecule of the Month:pdb131)
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of the intein homing endonuclease PI-SceI bound to its recognition sequence., Moure CM, Gimble FS, Quiocho FA, Nat Struct Biol 2002 Oct;9(10):764-70. PMID:12219083
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk]
  • Biological Unit Coordinates (1lws.pdb1.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 1LWS
  • CSU: Contacts of Structural Units for 1LWS
  • Likely Quarternary Molecular Structure file(s) for 1LWS
  • Structure Factors (141 Kb)
  • Retrieve 1LWS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1LWS from S2C, [Save to disk]
  • Re-refined 1lws structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1LWS 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 1LWS
  • 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 1LWS, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1lwsa1, region A:1-180,A:416-454 [Jmol] [rasmolscript] [script source]
        - Domain d1lwsa2, region A:181-298 [Jmol] [rasmolscript] [script source]
        - Domain d1lwsa3, region A:299-415 [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: [1lws_A] [1lws_C] [1lws] [1lws_B]
  • SWISS-PROT database: [P17255]
  • Belongs to the h(+)- or na(+)-translocating f-type, v-type and a-type atpase (f-atpase) superfamily according to TCDB.
  • Domain organization of [VATA_YEAST] by SWISSPFAM
  • Domain found in 1LWS: [HintN ] by SMART
  • Other resources with information on 1LWS
  • Community annotation for 1LWS 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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