3D1M	Signaling Protein Cell Adhesion	date	May 06, 2008
title	Crystal Structure Of Sonic Hedgehog Bound To The Third Fniii Cdo
authors	J.S.Mclellan, D.J.Leahy
compound		source
Molecule: Sonic Hedgehog Protein Chain: A, B Fragment: N-Terminal Domain, Sonic Hedgehog Protein N-Produ Residues 26-189; Synonym: Shh, Hhg-1, Sonic Hedgehog Protein N-Product, Soni Protein C-Product; Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Gene: Shh, Hhg1 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Cell Adhesion Molecule Chain: C, D Fragment: Fibronectin Type-III Domain 3 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Cdon, Cdo Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: C 2 2 21	R_factor 0.186 R_Free 0.229
crystal cell	length a length b length c angle alpha angle beta angle gamma 71.179 98.582 144.047 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.70 Å
ligand	CA, ZN	enzyme
Gene Ontology	Chain Function Process Component A, B D, C
Primary reference	The mode of Hedgehog binding to Ihog homologues is not conserved across different phyla., McLellan JS, Zheng X, Hauk G, Ghirlando R, Beachy PA, Leahy DJ, Nature. 2008 Sep 14. PMID:18794898

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk] Biological Unit Coordinates (3d1m.pdb1.gz) 45 Kb Biological Unit Coordinates (3d1m.pdb2.gz) 43 Kb LPC: Ligand-Protein Contacts for 3D1M CSU: Contacts of Structural Units for 3D1M Likely Quarternary Molecular Structure file(s) for 3D1M Structure Factors (833 Kb) Retrieve 3D1M in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3D1M from S2C, [Save to disk] Re-refined 3d1m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3D1M 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 3D1M

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 3D motif for 3D1M, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3d1m_A] [3d1m_D] [3d1m] [3d1m_B] [3d1m_C] SWISS-PROT database: [Q4KMG0] [Q62226] Domain organization of [CDON_HUMAN] [SHH_MOUSE] by SWISSPFAM Domain found in 3D1M: [FN3 ] by SMART

Other resources with information on 3D1M

Community annotation for 3D1M at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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