3NDF Hydrolase Inhibitor date Jun 07, 2010
title Cleaved Antitrypsin With P8-P6 Asp
authors J.A.Huntington, T.J.Sendall, M.Yamasaki
compound source
Molecule: Alpha-1-Antitrypsin
Chain: A
Fragment: P1 Cleaved Antitrypsin, Nterm, Unp Residues 46-38
Synonym: Alpha-1 Protease Inhibitor, Alpha-1-Antiproteinase A1, Short Peptide From Aat, Spaat;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Serpina1, Aat, Pi, Pro0684, Pro2209
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcep4

Molecule: Alpha-1-Antitrypsin
Chain: B
Fragment: P1 Cleaved Antitrypsin, Cterm, Unp Residues 383-4
Synonym: Alpha-1 Protease Inhibitor, Alpha-1-Antiproteinase A1, Short Peptide From Aat, Spaat;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Serpina1, Aat, Pi, Pro0684, Pro2209
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcep4
symmetry Space Group: P 1 21 1
R_factor 0.211 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
37.450 83.270 61.090 90.00 99.66 90.00
method X-Ray Diffractionresolution 2.70 Å
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (61 Kb) [Save to disk]
  • Biological Unit Coordinates (3ndf.pdb1.gz) 56 Kb
  • CSU: Contacts of Structural Units for 3NDF
  • Structure Factors (152 Kb)
  • Retrieve 3NDF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NDF from S2C, [Save to disk]
  • Re-refined 3ndf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3NDF 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 3NDF
  • 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 3NDF, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ndf] [3ndf_B] [3ndf_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3NDF: [SERPIN ] by SMART
  • Other resources with information on 3NDF
  • Community annotation for 3NDF 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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