4HC1 Immune System date Sep 28, 2012
title Crystal Structure Of A Loop Deleted Mutant Of Human Madcam-1 Complexed With Fab 10g3
authors T.Springer, Y.Yu, J.Zhu
compound source
Molecule: Mucosal Addressin Cell Adhesion Molecule 1
Chain: A, B
Synonym: Madcam-1, Hmadcam-1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Madcam1
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: 293s
Expression_system_organ: Kidney

Molecule: 10g3 Heavy Chain
Chain: H, M
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_taxid: 10090

Molecule: 10g3 Light Chain
Chain: L, N
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_taxid: 10090
symmetry Space Group: C 1 2 1
R_factor 0.200 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
317.854 71.727 70.557 90.00 93.29 90.00
method X-Ray Diffractionresolution 2.87 Å
ligand NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (579 Kb) [Save to disk]
  • Biological Unit Coordinates (4hc1.pdb1.gz) 285 Kb
  • Biological Unit Coordinates (4hc1.pdb2.gz) 288 Kb
  • LPC: Ligand-Protein Contacts for 4HC1
  • CSU: Contacts of Structural Units for 4HC1
  • Structure Factors (483 Kb)
  • Retrieve 4HC1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4HC1 from S2C, [Save to disk]
  • Re-refined 4hc1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4HC1 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 4HC1
  • 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 4HC1, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1f4hc1, region C:220-333 [Jmol] [rasmolscript] [script source]
  • Fold representative 4hc1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4hc1_M] [4hc1_H] [4hc1_A] [4hc1_B] [4hc1_L] [4hc1] [4hc1_N]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4HC1: [IG] [IG_like] [IGv ] by SMART
  • Other resources with information on 4HC1
  • Community annotation for 4HC1 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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