3AL8	Signaling Protein	date	Jul 28, 2010
title	Plexin A2 Semaphorin 6a Complex
authors	T.Nogi, N.Yasui, E.Mihara, J.Takagi
compound		source
Molecule: Semaphorin-6a Chain: A Fragment: Sema And Psi Domain (Unp Residues 19-570) Synonym: Semaphorin Via, Sema Via, Semaphorin-6a-1, Sema6a- Semaphorin Q, Sema Q; Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Gene: Sema6a, Semaq Expression_system: Cricetulus Griseus Expression_system_taxid: 10029 Expression_system_cell: Cho Lec 3.2.8.1 Expression_system_vector_type: Plasmid Expression_system_plasmid: Psgvh0
Molecule: Plexin-A2 Chain: B Fragment: Sema And Psi Domain (Unp Residues 31-561) Synonym: Plexin-2, Plex 2 Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Gene: Plxna2, Kiaa0463 Expression_system: Homo Sapiens Expression_system_taxid: 9606 Expression_system_cell: Hek293s Gnti- Expression_system_vector_type: Plasmid Expression_system_plasmid: Pcdna3.1his-Myc
symmetry	Space Group: P 61 2 2	R_factor 0.230 R_Free 0.287
crystal cell	length a length b length c angle alpha angle beta angle gamma 240.870 240.870 146.745 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	3.60 Å
ligand	BMA, MAN, NAG	enzyme
Gene Ontology	Chain Function Process Component A B
Primary reference	Structural basis for semaphorin signalling through the plexin receptor., Nogi T, Yasui N, Mihara E, Matsunaga Y, Noda M, Yamashita N, Toyofuku T, Uchiyama S, Goshima Y, Kumanogoh A, Takagi J, Nature. 2010 Sep 29. PMID:20881961

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (172 Kb) [Save to disk] Biological Unit Coordinates (3al8.pdb1.gz) 324 Kb Biological Unit Coordinates (3al8.pdb2.gz) 164 Kb LPC: Ligand-Protein Contacts for 3AL8 CSU: Contacts of Structural Units for 3AL8 Structure Factors (1719 Kb) Retrieve 3AL8 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3AL8 from S2C, [Save to disk] Re-refined 3al8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3AL8 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 3AL8

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 3AL8, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3al8] [3al8_A] [3al8_B] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 3AL8: [PSI] [Sema ] by SMART

Other resources with information on 3AL8

Community annotation for 3AL8 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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