1LK6 Hydrolase Hydrolase Inhibitor date Apr 24, 2002
title Structure Of Dimeric Antithrombin Complexed With A P14-P9 Re Loop Peptide And An Exogenous Tripeptide
authors A.Zhou, J.A.Huntington, D.A.Lomas, R.W.Carrell, P.E.Stein
compound source
Molecule: Antithrombin-III
Chain: L, I
Synonym: Serine (Or Cysteine) Proteinase Inhibitor, Clade C Antithrombin, Member 1; Antithrombin III;
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Blood

Molecule: Antithrombin P14-P9 Peptide
Chain: C
Engineered: Yes
Synthetic: Yes
Other_details: This Sequence Ocurs Naturally In Human Antit

Molecule: Exogenous Tripeptide Formyl-Mlf
Chain: D
Engineered: Yes
Synthetic: Yes
symmetry Space Group: P 1 21 1
R_factor 0.202 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.811 99.908 87.292 90.00 104.44 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand ACE, FME, GOL, NAG, NDG enzyme
related structures by homologous chain: 1DZG, 1R1L
Gene
Ontology
ChainFunctionProcessComponent
I, L


Primary referenceSerpin polymerization is prevented by a hydrogen bond network that is centered on his-334 and stabilized by glycerol., Zhou A, Stein PE, Huntington JA, Carrell RW, J Biol Chem 2003 Apr 25;278(17):15116-22. Epub 2003 Feb 10. PMID:12578831
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (131 Kb) [Save to disk]
  • Biological Unit Coordinates (1lk6.pdb1.gz) 125 Kb
  • LPC: Ligand-Protein Contacts for 1LK6
  • CSU: Contacts of Structural Units for 1LK6
  • Likely Quarternary Molecular Structure file(s) for 1LK6
  • Structure Factors (310 Kb)
  • Retrieve 1LK6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1LK6 from S2C, [Save to disk]
  • Re-refined 1lk6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1LK6 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 1LK6
  • 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 1LK6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1lk6i_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1lk6l_, region L [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: [1lk6] [1lk6_C] [1lk6_L] [1lk6_I] [1lk6_D]
  • SWISS-PROT database: [P01008]
  • Domain organization of [ANT3_HUMAN] by SWISSPFAM
  • Domain found in 1LK6: [SERPIN ] by SMART
    • Other resources with information on 1LK6
  • Community annotation for 1LK6 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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