2QYF Cell Cycle date Aug 14, 2007
title Crystal Structure Of The Mad2p31(Comet)Mad2-Binding Peptid Complex
authors D.R.Tomchick, X.Luo
compound source
Molecule: Mitotic Spindle Assembly Checkpoint Protein Mad2a
Chain: A, C
Synonym: Mad2-Like 1, Hsmad2
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mad2l1, Mad2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petduet-1

Molecule: Mad2l1-Binding Protein
Chain: B, D
Fragment: Unp Residues 36-274
Synonym: Caught By Mad2 Protein
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mad2l1bp, Cmt2, Kiaa0110
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petduet-1

Molecule: Peptide
Chain: E, F
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic 12-Mer
symmetry Space Group: P 21 21 21
R_factor 0.187 R_Free 0.257
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.667 104.519 138.825 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand MSE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referencep31comet blocks Mad2 activation through structural mimicry., Yang M, Li B, Tomchick DR, Machius M, Rizo J, Yu H, Luo X, Cell. 2007 Nov 16;131(4):744-55. PMID:18022368
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (148 Kb) [Save to disk]
  • Biological Unit Coordinates (2qyf.pdb1.gz) 73 Kb
  • Biological Unit Coordinates (2qyf.pdb2.gz) 71 Kb
  • LPC: Ligand-Protein Contacts for 2QYF
  • CSU: Contacts of Structural Units for 2QYF
  • Likely Quarternary Molecular Structure file(s) for 2QYF
  • Structure Factors (786 Kb)
  • Retrieve 2QYF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2QYF from S2C, [Save to disk]
  • Re-refined 2qyf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2QYF 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 2QYF
  • 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 2QYF, from MSDmotif at EBI
  • Fold representative 2qyf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2qyf_C] [2qyf_B] [2qyf] [2qyf_A] [2qyf_F] [2qyf_D] [2qyf_E]
  • SWISS-PROT database: [Q15013] [Q13257]
  • Domain organization of [MD2BP_HUMAN] [MD2L1_HUMAN] by SWISSPFAM
  • Other resources with information on 2QYF
  • Community annotation for 2QYF 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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