5HPG Serine Protease date Sep 19, 1997
title Structure And Ligand Determinants Of The Recombinant Kringle 5 Domain Of Human Plasminogen
authors A.Tulinsky, I.Mochalkin, F.J.Castellino
compound source
Molecule: Plasminogen
Chain: A, B
Fragment: Kringle 5
Ec: 3.4.21.7
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 2
R_factor 0.166 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
77.430 79.200 30.780 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.66 Å
ligand
enzyme Hydrolase E.C.3.4.21.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructure and ligand binding determinants of the recombinant kringle 5 domain of human plasminogen., Chang Y, Mochalkin I, McCance SG, Cheng B, Tulinsky A, Castellino FJ, Biochemistry 1998 Mar 10;37(10):3258-71. PMID:9521645
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (34 Kb) [Save to disk]
  • Biological Unit Coordinates (5hpg.pdb1.gz) 30 Kb
  • CSU: Contacts of Structural Units for 5HPG
  • Likely Quarternary Molecular Structure file(s) for 5HPG
  • Retrieve 5HPG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5HPG from S2C, [Save to disk]
  • View 5HPG 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 5HPG
  • 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 5HPG, from MSDmotif at EBI
  • Genome occurence of 5HPG's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d5hpga_, region A [Jmol] [rasmolscript] [script source]
        - Domain d5hpgb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 5hpg 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: [5hpg_A] [5hpg_B] [5hpg]
  • SWISS-PROT database: [P00747]
  • Domain organization of [PLMN_HUMAN] by SWISSPFAM
  • Domain found in 5HPG: [KR ] by SMART
  • Alignments of the sequence of 5HPG with the sequences similar proteins can be viewed for 5HPG's classification [PLMN_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [PLMN_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 5HPG
  • Community annotation for 5HPG 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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