1DZA Hydrolase date Feb 21, 2000
title 3-D Structure Of A Hp-Rnase
authors J.Pous, A.Canals, S.S.Terzyan, A.Guasch, A.Benito, M.Ribo, M.Vilanova, M.Coll
compound source
Molecule: Ribonuclease 1
Chain: A, B
Synonym: Rnase 1, Hp-Rnase
Ec: 3.1.27.5
Engineered: Yes
Mutation: Yes
Other_details: 100a Formilmethionine (Fme)
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Pancreas
Gene: Pm7
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pm7
Expression_system_gene: Pm7
Other_details: Synthetic Gene
symmetry Space Group: P 21 21 21
R_factor 0.185 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
27.850 67.420 114.140 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.65 Å
ligand FME enzyme Hydrolase E.C.3.1.27.5 BRENDA
related structures by homologous chain: 1N3Z, 1W4O
Primary referenceThree-dimensional structure of a human pancreatic ribonuclease variant, a step forward in the design of cytotoxic ribonucleases., Pous J, Canals A, Terzyan SS, Guasch A, Benito A, Ribo M, Vilanova M, Coll M, J Mol Biol 2000 Oct 13;303(1):49-60. PMID:11021969
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk]
  • Biological Unit Coordinates (1dza.pdb1.gz) 23 Kb
  • Biological Unit Coordinates (1dza.pdb2.gz) 23 Kb
  • LPC: Ligand-Protein Contacts for 1DZA
  • CSU: Contacts of Structural Units for 1DZA
  • Likely Quarternary Molecular Structure file(s) for 1DZA
  • Retrieve 1DZA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DZA from S2C, [Save to disk]
  • View 1DZA 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 1DZA
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1DZA, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dzaa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1dzab_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1dza from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1dza_B] [1dza_A] [1dza]
  • SWISS-PROT database: [P07998]
  • Domain organization of [RNAS1_HUMAN] by SWISSPFAM
  • Domain found in 1DZA: [RNAse_Pc ] by SMART
  • Other resources with information on 1DZA
  • Community annotation for 1DZA 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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