1U5M Structural Protein date Jul 28, 2004
title Structure Of A Chordin-Like Cysteine-Rich Repeat (Vwc Module Collagen Iia
authors J.M.O'Leary, J.M.Hamilton, C.M.Deane, N.V.Valeyev, L.J.Sandell, A.K.Downing
compound source
Molecule: Alpha 1 Type II Collagen Isoform 1
Chain: A
Fragment: Exon2
Synonym: Collagen II, Alpha-1 Polypeptide; Cartilage Collag Chondrocalcin, Included; Col11a3, Formerly;
Engineered: Yes
Mutation: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Col2a1
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_strain: Gs115
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppick9k-Crcoliia
methodSolution NMR
Primary referenceSolution structure and dynamics of a prototypical chordin-like cysteine-rich repeat (von Willebrand Factor type C module) from collagen IIA., O'Leary JM, Hamilton JM, Deane CM, Valeyev NV, Sandell LJ, Downing AK, J Biol Chem 2004 Dec 17;279(51):53857-66. Epub 2004 Oct 1. PMID:15466413
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (360 Kb) [Save to disk]
  • Biological Unit Coordinates (1u5m.pdb1.gz) 18 Kb
  • CSU: Contacts of Structural Units for 1U5M
  • Original NMR restraints for 1U5M from PDB
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1U5M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1U5M from S2C, [Save to disk]
    • View 1U5M 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 1U5M
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1U5M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1u5ma_, region A [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1u5m] [1u5m_A]
  • SWISS-PROT database: [P02458]
  • Domain organization of [CO2A1_HUMAN] by SWISSPFAM
  • Domain found in 1U5M: [VWC ] by SMART
    • Other resources with information on 1U5M
  • Community annotation for 1U5M at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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