1PMK Hydrolase(Serine Protease) date Apr 25, 1994
title Kringle-Kringle Interactions In Multimer Kringle Structures
authors K.Padmanabhan, A.Tulinsky
compound source
Molecule: Plasminogen Kringle 4
Chain: A, B
Ec: 3.4.21.7
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
32.730 49.090 46.150 90.00 100.60 90.00
method X-Ray Diffractionresolution 2.25 Å
ligand
enzyme Hydrolase E.C.3.4.21.7 BRENDA
related structures by homologous chain: 1JFN, 2PK4
Primary referenceKringle-kringle interactions in multimer kringle structures., Padmanabhan K, Wu TP, Ravichandran KG, Tulinsky A, Protein Sci 1994 Jun;3(6):898-910. PMID:8069221
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (1pmk.pdb1.gz) 15 Kb
  • Biological Unit Coordinates (1pmk.pdb2.gz) 15 Kb
  • CSU: Contacts of Structural Units for 1PMK
  • Likely Quarternary Molecular Structure file(s) for 1PMK
  • Retrieve 1PMK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PMK from S2C, [Save to disk]
  • View 1PMK 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 1PMK
  • 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 1PMK, from MSDmotif at EBI
  • Genome occurence of 1PMK's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pmka_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1pmkb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1pmk 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: [1pmk] [1pmk_B] [1pmk_A]
  • SWISS-PROT database: [P00747]
  • Domain organization of [PLMN_HUMAN] by SWISSPFAM
  • Domain found in 1PMK: [KR ] by SMART
  • Other resources with information on 1PMK
  • Community annotation for 1PMK 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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