3MZW Transferase date May 13, 2010
title Her2 Extracelluar Region With Affinity Matured 3-Helix Affib Zher2:342
authors C.Eigenbrot, M.H.Ultsch
compound source
Molecule: Tyrosine Kinase-Type Cell Surface Receptor Her2
Chain: A
Fragment: Extracellular Domain Residues 23-646
Synonym: Receptor Tyrosine-Protein Kinase Erbb-2, P185erbb2 Oncogene C-Erbb-2, Proto-Oncogene Neu, Metastatic Lymph Nod Protein, Mln 19;
Ec: 2.7.10.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Erbb2, Her2, Mln19, Neu, Ngl
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029

Molecule: Immunoglobulin G-Binding Protein A
Chain: B
Fragment: B 4 Repeat Domain Residues 212-269
Synonym: Igg-Binding Protein A, Staphylococcal Protein A
Engineered: Yes
Mutation: Yes

Synthetic: Yes
Organism_scientific: Staphylococcus Aureus
Organism_taxid: 1280
Other_details: Chemical Synthesis
symmetry Space Group: P 21 21 21
R_factor 0.204 R_Free 0.278
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.726 97.841 148.283 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand NAG enzyme Transferase E.C.2.7.10.1 BRENDA
Primary referenceStructural basis for high-affinity HER2 receptor binding by an engineered protein., Eigenbrot C, Ultsch M, Dubnovitsky A, Abrahmsen L, Hard T, Proc Natl Acad Sci U S A. 2010 Aug 24;107(34):15039-44. Epub 2010 Aug 9. PMID:20696930
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (214 Kb) [Save to disk]
  • Biological Unit Coordinates (3mzw.pdb1.gz) 207 Kb
  • Biological Unit Coordinates (3mzw.pdb2.gz) 189 Kb
  • Biological Unit Coordinates (3mzw.pdb3.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 3MZW
  • CSU: Contacts of Structural Units for 3MZW
  • Structure Factors (306 Kb)
  • Retrieve 3MZW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MZW from S2C, [Save to disk]
  • Re-refined 3mzw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MZW 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 3MZW
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3MZW, from MSDmotif at EBI
  • Fold representative 3mzw from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mzw_B] [3mzw] [3mzw_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3MZW: [FU ] by SMART
  • Alignments of the sequence of 3MZW with the sequences similar proteins can be viewed for 3MZW's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3MZW
  • Community annotation for 3MZW 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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