3DMW Structural Protein date Jul 01, 2008
title Crystal Structure Of Human Type III Collagen G982-G1023 Containing C-Terminal Cystine Knot
authors S.P.Boudko, J.Engel, K.Okuyama, K.Mizuno, H.P.Bachinger, M.A.Schumacher
compound source
Molecule: Collagen Alpha-1(III) Chain
Chain: A, B, C
Fragment: Unp Residues 1158-1199
Engineered: Yes
Mutation: Yes
Synthetic: Yes
Other_details: Chemically Synthesized Peptide G982-G1023 Based On The Fragment 1158-1199 Of The Human Collagen Alpha-1(III) Chain, Co3a1_human, Uniprot Entry P02461.
symmetry Space Group: P 1 21 1
R_factor 0.248 R_Free 0.274
crystal
cell
length a length b length c angle alpha angle beta angle gamma
31.980 21.520 68.970 90.00 92.58 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand HYP, MSE enzyme
Primary referenceCrystal structure of human type III collagen Gly991-Gly1032 cystine knot-containing peptide shows both 7/2 and 10/3 triple helical symmetries., Boudko SP, Engel J, Okuyama K, Mizuno K, Bachinger HP, Schumacher MA, J Biol Chem. 2008 Nov 21;283(47):32580-9. Epub 2008 Sep 19. PMID:18805790
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (23 Kb) [Save to disk]
  • Biological Unit Coordinates (3dmw.pdb1.gz) 17 Kb
  • LPC: Ligand-Protein Contacts for 3DMW
  • CSU: Contacts of Structural Units for 3DMW
  • Likely Quarternary Molecular Structure file(s) for 3DMW
  • Structure Factors (38 Kb)
  • Retrieve 3DMW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DMW from S2C, [Save to disk]
  • Re-refined 3dmw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DMW 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 3DMW
  • 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 3DMW, from MSDmotif at EBI
  • Fold representative 3dmw from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3dmw] [3dmw_B] [3dmw_A] [3dmw_C]
  • SWISS-PROT database: [P02461]
  • Domain organization of [CO3A1_HUMAN] by SWISSPFAM
  • Other resources with information on 3DMW
  • Community annotation for 3DMW 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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