4A5T Hydrolase date Oct 28, 2011
title Structural Basis For The Conformational Modulation
authors Y.Xue, C.Bodin, K.Olsson
compound source
Molecule: Plasminogen
Chain: S
Synonym: Plasmin Heavy Chain A, Activation Peptide, Angiost Plasmin Heavy Chain A\,Short Form, Plasmin Light Chain B;
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 43 21 2
R_factor 0.2085 R_Free 0.2501
length a length b length c angle alpha angle beta angle gamma
118.460 118.460 179.250 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.49 Å
ligand CL, GAL, NGA, SIA enzyme Hydrolase E.C. BRENDA

Primary referenceCrystal structure of the native plasminogen reveals an activation-resistant compact conformation., Xue Y, Bodin C, Olsson K, J Thromb Haemost. 2012 Apr 28. doi: 10.1111/j.1538-7836.2012.04765.x. PMID:22540246
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (269 Kb) [Save to disk]
  • Biological Unit Coordinates (4a5t.pdb1.gz) 261 Kb
  • LPC: Ligand-Protein Contacts for 4A5T
  • CSU: Contacts of Structural Units for 4A5T
  • Structure Factors (321 Kb)
  • Retrieve 4A5T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4A5T from S2C, [Save to disk]
  • Re-refined 4a5t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4A5T 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 4A5T
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4A5T, from MSDmotif at EBI
  • Fold representative 4a5t from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4a5t_S] [4a5t]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4A5T: [KR] [PAN_AP] [Tryp_SPc ] by SMART
  • Other resources with information on 4A5T
  • Community annotation for 4A5T at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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