1I5K Blood Clotting date Feb 27, 2001
title Structure And Binding Determinants Of The Recombinant Kringl Of Human Plasminogen To An Internal Peptide From A Group A Streptococcal Surface Protein
authors J.L.Rios-Steiner, M.Schenone, I.Mochalkin, A.Tulinsky, F.J.Caste
compound source
Molecule: Plasminogen
Chain: A, B
Fragment: Modified Recombinant Kringle-2 Domain
Ec: 3.4.21.7
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922

Molecule: M Protein
Chain: C, D
Fragment: Vek-30 (30 Residue Internal Peptide)
Engineered: Yes

Synthetic: Yes
Other_details: Vek-30 Was Synthesized By Automated Solid Ph Peptide Synthesis
symmetry Space Group: P 61 2 2
R_factor 0.195 R_Free 0.262
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.980 91.980 151.779 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.70 Å
ligand
enzyme Hydrolase E.C.3.4.21.7 BRENDA
note 1I5K is a representative structure
related structures by homologous chain: 1B2I, 1KI0
Primary referenceStructure and binding determinants of the recombinant kringle-2 domain of human plasminogen to an internal peptide from a group A Streptococcal surface protein., Rios-Steiner JL, Schenone M, Mochalkin I, Tulinsky A, Castellino FJ, J Mol Biol 2001 May 11;308(4):705-19. PMID:11350170
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (44 Kb) [Save to disk]
  • Biological Unit Coordinates (1i5k.pdb1.gz) 39 Kb
  • CSU: Contacts of Structural Units for 1I5K
  • Likely Quarternary Molecular Structure file(s) for 1I5K
  • Retrieve 1I5K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1I5K from S2C, [Save to disk]
  • View 1I5K 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 1I5K
  • 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 1I5K, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1i5ka_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1i5kb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1i5k 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: [1i5k_D] [1i5k_C] [1i5k_B] [1i5k] [1i5k_A]
  • SWISS-PROT database: [P49054] [P00747]
  • Domain organization of [PAM_STRPY] [PLMN_HUMAN] by SWISSPFAM
  • Domain found in 1I5K: [KR ] by SMART
  • Other resources with information on 1I5K
  • Community annotation for 1I5K 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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