1H8O Three-dimensional structure of anti-ampicillin single chain Fv fragment. date
authors Burmester, J., Spinelli, S., Pugliese, L., Krebber, A., Honegger, A., Jung, S., Schimmele, B., Cambillau, C., Pluckthun, A.
compound source
symmetry
R_factor
R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.75
ligand SO4 enzyme
related structures by homologous chain: 1FOR, 1TXV, 1YYL
Primary referenceSelection, characterization and x-ray structure of anti-ampicillin single-chain Fv fragments from phage-displayed murine antibody libraries., Burmester J, Spinelli S, Pugliese L, Krebber A, Honegger A, Jung S, Schimmele B, Cambillau C, Pluckthun A, J Mol Biol 2001 Jun 8;309(3):671-85. PMID:11397088
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk]
  • Biological Unit Coordinates (1h8o.pdb1.gz) 38 Kb
  • Biological Unit Coordinates (1h8o.pdb2.gz) 37 Kb
  • LPC: Ligand-Protein Contacts for 1H8O
  • CSU: Contacts of Structural Units for 1H8O
  • Likely Quarternary Molecular Structure file(s) for 1H8O
  • Structure Factors (105 Kb)
  • Retrieve 1H8O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1H8O from S2C, [Save to disk]
  • Re-refined 1h8o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1H8O 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 1H8O
  • 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 1H8O, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1h8oa2, region A:132-243 [Jmol] [rasmolscript] [script source]
        - Domain d1h8oa1, region A:4-111 [Jmol] [rasmolscript] [script source]
        - Domain d1h8ob2, region B:133-243 [Jmol] [rasmolscript] [script source]
        - Domain d1h8ob1, region B:4-112 [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: [1h8o_A] [1h8o_B] [1h8o]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 1H8O: [IGv ] by SMART
    • Other resources with information on 1H8O
  • Community annotation for 1H8O 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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