4HD9 Immune System date Oct 02, 2012
title Crystal Structure Of Native Human Madcam-1 D1d2 Domain
authors T.Springer, Y.Yu, J.Zhu
compound source
Molecule: Mucosal Addressin Cell Adhesion Molecule 1
Chain: A
Synonym: Madcam-1, Hmadcam-1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Madcam1
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: Lec3.2.8.1
Expression_system_organ: Ovary
symmetry Space Group: C 2 2 21
R_factor 0.171 R_Free 0.214
length a length b length c angle alpha angle beta angle gamma
64.476 99.988 69.668 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand NAG enzyme

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (111 Kb) [Save to disk]
  • Biological Unit Coordinates (4hd9.pdb1.gz) 105 Kb
  • LPC: Ligand-Protein Contacts for 4HD9
  • CSU: Contacts of Structural Units for 4HD9
  • Structure Factors (347 Kb)
  • Retrieve 4HD9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4HD9 from S2C, [Save to disk]
  • Re-refined 4hd9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4HD9 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 4HD9
  • 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 4HD9, from MSDmotif at EBI
  • Fold representative 4hd9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4hd9] [4hd9_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4HD9: [IG ] by SMART
  • Other resources with information on 4HD9
  • Community annotation for 4HD9 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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