2E0M Hydrolase date Oct 10, 2006
title Mutant Human Ribonuclease 1 (T24l, Q28l, R31l, R32l)
authors H.Yamada, T.Tamada, M.Kosaka, R.Kuroki
compound source
Molecule: Ribonuclease
Chain: A, B
Synonym: Ribonuclease 1, Rnase 1, Rnase A, Rnase Upi-1, Rib Rnase;
Ec: 3.1.27.5
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbo26
symmetry Space Group: I 41
R_factor 0.194 R_Free 0.214
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.510 93.510 94.386 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand CD, CL enzyme Hydrolase E.C.3.1.27.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • ribonuclease A activity


  • Primary reference'Crystal lattice engineering,' an approach to engineer protein crystal contacts by creating intermolecular symmetry: crystallization and structure determination of a mutant human RNase 1 with a hydrophobic interface of leucines., Yamada H, Tamada T, Kosaka M, Miyata K, Fujiki S, Tano M, Moriya M, Yamanishi M, Honjo E, Tada H, Ino T, Yamaguchi H, Futami J, Seno M, Nomoto T, Hirata T, Yoshimura M, Kuroki R, Protein Sci. 2007 Jul;16(7):1389-97. PMID:17586772
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (56 Kb) [Save to disk]
  • Biological Unit Coordinates (2e0m.pdb1.gz) 25 Kb
  • Biological Unit Coordinates (2e0m.pdb2.gz) 26 Kb
  • Biological Unit Coordinates (2e0m.pdb3.gz) 95 Kb
  • LPC: Ligand-Protein Contacts for 2E0M
  • CSU: Contacts of Structural Units for 2E0M
  • Likely Quarternary Molecular Structure file(s) for 2E0M
  • Structure Factors (327 Kb)
  • Retrieve 2E0M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2E0M from S2C, [Save to disk]
  • Re-refined 2e0m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2E0M 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 2E0M
  • 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 2E0M, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2e0m_B] [2e0m_A] [2e0m]
  • SWISS-PROT database: [P07998]
  • Domain organization of [RNAS1_HUMAN] by SWISSPFAM
  • Domain found in 2E0M: [RNAse_Pc ] by SMART
  • Other resources with information on 2E0M
  • Community annotation for 2E0M 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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