1PK6 Immune System date Jun 05, 2003
title Globular Head Of The Complement System Protein C1q
authors C.Gaboriaud, J.Juanhuix, A.Gruez, M.Lacroix, C.Darnault, D.Pignol D.Verger, J.C.Fontecilla-Camps, G.J.Arlaud
compound source
Molecule: Complement C1q Subcomponent, A Chain Precursor
Chain: A
Synonym: C1q
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Serum

Molecule: Complement C1q Subcomponent, B Chain Precursor
Chain: B
Synonym: C1q

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Serum

Molecule: Complement C1q Subcomponent, C Chain Precursor
Chain: C
Synonym: C1q

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Serum
symmetry Space Group: C 1 2 1
R_factor 0.199 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
80.182 53.222 90.880 90.00 112.32 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand CA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceThe crystal structure of the globular head of complement protein C1q provides a basis for its versatile recognition properties., Gaboriaud C, Juanhuix J, Gruez A, Lacroix M, Darnault C, Pignol D, Verger D, Fontecilla-Camps JC, Arlaud GJ, J Biol Chem 2003 Nov 21;278(47):46974-82. Epub 2003 Sep 5. PMID:12960167
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (72 Kb) [Save to disk]
  • Biological Unit Coordinates (1pk6.pdb1.gz) 67 Kb
  • LPC: Ligand-Protein Contacts for 1PK6
  • CSU: Contacts of Structural Units for 1PK6
  • Likely Quarternary Molecular Structure file(s) for 1PK6
  • Structure Factors (211 Kb)
  • Retrieve 1PK6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PK6 from S2C, [Save to disk]
  • Re-refined 1pk6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PK6 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 1PK6
  • 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 1PK6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pk6a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1pk6b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1pk6c_, region C [Jmol] [rasmolscript] [script source]
  • Fold representative 1pk6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1pk6_B] [1pk6_A] [1pk6] [1pk6_C]
  • SWISS-PROT database: [P02745] [P02746] [P02747]
  • Domain organization of [C1QA_HUMAN] [C1QB_HUMAN] [C1QC_HUMAN] by SWISSPFAM
  • Domain found in 1PK6: [C1Q ] by SMART
  • Other resources with information on 1PK6
  • Community annotation for 1PK6 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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