1S78 Transferase date Jan 29, 2004
title Insights Into Erbb Signaling From The Structure Of The Erbb2 Pertuzumab Complex
authors M.C.Franklin, K.D.Carey, F.F.Vajdos, D.J.Leahy, A.M.De Vos, M.X.S
compound source
Molecule: Receptor Protein-Tyrosine Kinase Erbb-2
Chain: A, B
Fragment: Extracellular Domain (Residues 23-646)
Synonym: P185erbb2, Neu Proto-Oncogene, C-Erbb-2, Tyrosine Type Cell Surface Receptor Her2, Mln 19;
Ec: 2.7.1.112
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Erbb2, Her2, Ngl, Neu
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_organ: Ovary
Expression_system_vector_type: Stable Transfection

Molecule: Pertuzumab Fab Light Chain
Chain: C, E
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: 16c9
Expression_system_vector_type: Plasmid
Expression_system_plasmid: 2c4574

Molecule: Pertuzumab Fab Heavy Chain
Chain: D, F
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: 16c9
Expression_system_vector_type: Plasmid
Expression_system_plasmid: 2c4574
symmetry Space Group: P 43 21 2
R_factor 0.224 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
139.412 139.412 356.873 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.25 Å
ligand BMA, NAG enzyme Transferase E.C.2.7.1.112 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceInsights into ErbB signaling from the structure of the ErbB2-pertuzumab complex., Franklin MC, Carey KD, Vajdos FF, Leahy DJ, de Vos AM, Sliwkowski MX, Cancer Cell 2004 Apr;5(4):317-28. PMID:15093539
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (323 Kb) [Save to disk]
  • Biological Unit Coordinates (1s78.pdb1.gz) 158 Kb
  • Biological Unit Coordinates (1s78.pdb2.gz) 161 Kb
  • LPC: Ligand-Protein Contacts for 1S78
  • CSU: Contacts of Structural Units for 1S78
  • Likely Quarternary Molecular Structure file(s) for 1S78
  • Structure Factors (432 Kb)
  • Retrieve 1S78 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1S78 from S2C, [Save to disk]
  • Re-refined 1s78 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1S78 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 1S78
  • 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 1S78, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1s78a1, region A:1-165 [Jmol] [rasmolscript] [script source]
        - Domain d1s78a3, region A:166-322 [Jmol] [rasmolscript] [script source]
        - Domain d1s78a2, region A:323-488 [Jmol] [rasmolscript] [script source]
        - Domain d1s78a4, region A:489-564 [Jmol] [rasmolscript] [script source]
        - Domain d1s78b1, region B:1-165 [Jmol] [rasmolscript] [script source]
        - Domain d1s78b3, region B:166-322 [Jmol] [rasmolscript] [script source]
        - Domain d1s78b2, region B:323-488 [Jmol] [rasmolscript] [script source]
        - Domain d1s78b4, region B:489-577 [Jmol] [rasmolscript] [script source]
        - Domain d1s78c1, region C:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1s78c2, region C:108-214 [Jmol] [rasmolscript] [script source]
        - Domain d1s78d1, region D:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1s78d2, region D:114-216 [Jmol] [rasmolscript] [script source]
        - Domain d1s78e1, region E:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1s78e2, region E:108-214 [Jmol] [rasmolscript] [script source]
        - Domain d1s78f1, region F:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1s78f2, region F:114-216 [Jmol] [rasmolscript] [script source]
  • Fold representative 1s78 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: [1s78_A] [1s78] [1s78_D] [1s78_B] [1s78_C] [1s78_E] [1s78_F]
  • SWISS-PROT database: [P04626]
  • Domain organization of [ERBB2_HUMAN] by SWISSPFAM
  • Domains found in 1S78: [FU] [IGc1] [IGv ] by SMART
  • Other resources with information on 1S78
  • Community annotation for 1S78 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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