3KBU Structural Protein date Oct 20, 2009
title Crystal Structure Of The Ankyrin Binding Domain Of Human Ery Beta Spectrin (Repeats 13-15) In Complex With The Spectrin Domain Of Human Erythroid Ankyrin (Zu5-Ank), Emts Derivativ
authors J.J.Ipsaro, A.Mondragon
compound source
Molecule: Spectrin Beta Chain, Erythrocyte
Chain: A, B
Fragment: Unp Residues 1583-1906
Synonym: Beta-I Spectrin
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sptb, Sptb1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg7

Molecule: Ankyrin-1
Chain: C, D
Fragment: Unp Residues 911-1068
Synonym: Erythrocyte Ankyrin, Ankyrin-R
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ank, Ank1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Er2566
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Picante
symmetry Space Group: P 21 21 21
R_factor 0.225 R_Free 0.277
length a length b length c angle alpha angle beta angle gamma
90.130 98.540 137.930 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand HG enzyme
Primary referenceStructural basis for spectrin recognition by ankyrin., Ipsaro JJ, Mondragon A, Blood. 2010 May 20;115(20):4093-101. Epub 2010 Jan 25. PMID:20101027
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (152 Kb) [Save to disk]
  • Biological Unit Coordinates (3kbu.pdb1.gz) 73 Kb
  • Biological Unit Coordinates (3kbu.pdb2.gz) 74 Kb
  • LPC: Ligand-Protein Contacts for 3KBU
  • CSU: Contacts of Structural Units for 3KBU
  • Structure Factors (580 Kb)
  • Retrieve 3KBU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KBU from S2C, [Save to disk]
  • Re-refined 3kbu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KBU 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 3KBU
  • 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 3KBU, from MSDmotif at EBI
  • Fold representative 3kbu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kbu_A] [3kbu] [3kbu_D] [3kbu_B] [3kbu_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3KBU: [SPEC] [ZU5 ] by SMART
  • Other resources with information on 3KBU
  • Community annotation for 3KBU 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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