4OIK Signaling Protein date Jan 19, 2014
title Quasi-)Racemic X-Ray Crystal Structure Of Glycosylated Chem Ccl1.
authors R.Okamoto, K.Mandal, M.R.Sawaya, Y.Kajihara, T.O.Yeates, S.B.H.Ke
compound source
Molecule: C-C Motif Chemokine 1
Chain: A, B
Fragment: Unp Residues 23-96
Synonym: Small-Inducible Cytokine A1, T Lymphocyte-Secreted I-309;
Engineered: Yes
Synthetic: Yes

Molecule: D-Ser-Ccl1
Chain: C, D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: Chemical Synthesis
symmetry Space Group: P 1
R_factor 0.229 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.410 51.680 51.330 111.23 106.33 108.68
method X-Ray Diffractionresolution 2.10 Å
ligand CIT, DAL, DAR, DAS, DCY, DGL, DGN, DHI, DIL, DLE, DLY, DPN, DPR, DSG, DSN, DTH, DTR, DTY, DVA, MED, NAG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary reference(Quasi-)Racemic X-ray Structures of Glycosylated and Non-Glycosylated Forms of the Chemokine Ser-CCL1 Prepared by Total Chemical Synthesis., Okamoto R, Mandal K, Sawaya MR, Kajihara Y, Yeates TO, Kent SB, Angew Chem Int Ed Engl. 2014 Apr 1. doi: 10.1002/anie.201400679. PMID:24692304
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (119 Kb) [Save to disk]
  • Biological Unit Coordinates (4oik.pdb1.gz) 56 Kb
  • Biological Unit Coordinates (4oik.pdb2.gz) 53 Kb
  • LPC: Ligand-Protein Contacts for 4OIK
  • CSU: Contacts of Structural Units for 4OIK
  • Structure Factors (424 Kb)
  • Retrieve 4OIK in mmCIF format [Save to disk]
  • Re-refined 4oik structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4OIK 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 4OIK
  • 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 4OIK, from MSDmotif at EBI
  • Fold representative 4oik from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4oik_B] [4oik] [4oik_A] [4oik_C] [4oik_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4OIK: [SCY ] by SMART
  • Other resources with information on 4OIK
  • Community annotation for 4OIK at PDBWiki (http://pdbwiki.org)

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