5CVB Structural Protein date Jul 25, 2015
title Crystal Structure Of The Type Ix Collagen Nc2 Hetero-Trimeri Domain With A Guest Fragment A1a1a1 Of Type I Collagen
authors S.P.Boudko, H.P.Bachinger
compound source
Molecule: Collagen Alpha-1(I) Chain,Collagen Alpha-1(Ix) Ch
Chain: A, D
Fragment: Unp Residues 572-583,Unp Residues 754-789
Synonym: Alpha-1 Type I Collagen
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Col1a1, Col9a1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b(+)

Molecule: Collagen Alpha-1(I) Chain,Collagen Alpha-2(Ix) Ch
Chain: B, E
Fragment: Unp Residues 572-583,Unp Residues 517-552
Synonym: Alpha-1 Type I Collagen
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Col1a1, Col9a2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b(+)

Molecule: Collagen Alpha-1(I) Chain,Collagen Alpha-3(Ix) Ch
Chain: C, F
Fragment: Unp Residues 572-583,Unp Residues 517-553
Synonym: Alpha-1 Type I Collagen
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Col1a1, Col9a3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b(+)
symmetry Space Group: P 1 21 1
R_factor 0.227 R_Free 0.278
crystal
cell
length a length b length c angle alpha angle beta angle gamma
51.770 64.460 65.390 90.00 112.72 90.00
method X-Ray Diffractionresolution 2.25 Å
ligand GOL, MSE enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (5cvb.pdb1.gz) 29 Kb
  • Biological Unit Coordinates (5cvb.pdb2.gz) 30 Kb
  • LPC: Ligand-Protein Contacts for 5CVB
  • CSU: Contacts of Structural Units for 5CVB
  • Structure Factors (247 Kb)
  • Retrieve 5CVB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5CVB from S2C, [Save to disk]
  • Re-refined 5cvb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5CVB 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 5CVB
  • 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
  • Fold representative 5cvb from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5cvb_D] [5cvb] [5cvb_A] [5cvb_E] [5cvb_B] [5cvb_F] [5cvb_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5CVB
  • Community annotation for 5CVB at PDBWiki (http://pdbwiki.org)

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