2DOI Hydrolase date Apr 29, 2006
title The X-Ray Crystallographic Structure Of The Angiogenesis Inh Angiostatin, Bound To A Peptide From The Group A Streptococ Protein Pam
authors S.E.Cnudde, M.Prorok, F.J.Castellino, J.H.Geiger
compound source
Molecule: Angiostatin
Chain: X, A
Fragment: Kringle 1,Kringle 2 And Kringle 3
Ec: 3.4.21.7
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Plg
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922

Molecule: Plasminogen-Binding Group A Streptococcal M-Like Pam;
Chain: C, B
Fragment: Vek-30
Engineered: Yes

Synthetic: Yes
Other_details: Vek-30 Is An Internal Peptide Within The Streptococcus Protein Pam
symmetry Space Group: P 61
R_factor 0.202 R_Free 0.296
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.467 58.467 389.146 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.10 Å
ligand
enzyme Hydrolase E.C.3.4.21.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, X


Primary referenceX-ray crystallographic structure of the angiogenesis inhibitor, angiostatin, bound to a peptide from the group A streptococcal surface protein PAM., Cnudde SE, Prorok M, Castellino FJ, Geiger JH, Biochemistry. 2006 Sep 19;45(37):11052-60. PMID:16964966
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk]
  • Biological Unit Coordinates (2doi.pdb1.gz) 33 Kb
  • Biological Unit Coordinates (2doi.pdb2.gz) 32 Kb
  • CSU: Contacts of Structural Units for 2DOI
  • Likely Quarternary Molecular Structure file(s) for 2DOI
  • Structure Factors (131 Kb)
  • Retrieve 2DOI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DOI from S2C, [Save to disk]
  • Re-refined 2doi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2DOI 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 2DOI
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2DOI, from MSDmotif at EBI
  • Fold representative 2doi from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2doi] [2doi_A] [2doi_B] [2doi_X] [2doi_C]
  • SWISS-PROT database: [P49054] [P00747]
  • Domain organization of [PAM_STRPY] [PLMN_HUMAN] by SWISSPFAM
  • Domain found in 2DOI: [KR ] by SMART
  • Alignments of the sequence of 2DOI with the sequences similar proteins can be viewed for 2DOI's classification [PAM_STRPY] [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 [PAM_STRPY] [PLMN_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2DOI
  • Community annotation for 2DOI 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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