3G3A	Hydrolase Immune System	date	Feb 02, 2009
title	Structure Of A Lamprey Variable Lymphocyte Receptor In Compl Protein Antigen
authors	L.Deng, C.A.Velikovsky, R.A.Mariuzza
compound		source
Molecule: Variable Lymphocyte Receptor Vlrb.2d Chain: A, C, E, G Fragment: Ectodomain Engineered: Yes		Organism_scientific: Petromyzon Marinus Organism_common: Sea Lamprey Organism_taxid: 7757 Gene: Vlr Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21-Codonplus(De3)-Ril Expression_system_vector_type: Plasmid Expression_system_plasmid: Pt7.7
Molecule: Lysozyme C Chain: B, D, F, H Synonym: 1,4-Beta-N-Acetylmuramidase C, Allergen Gal D Iv Ec: 3.2.1.17 Engineered: Yes		Organism_scientific: Gallus Gallus Organism_common: Bantam,Chickens Organism_taxid: 9031 Strain: Chicken Gene: Lysozyme, Lyz Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 1 21 1	R_factor 0.220 R_Free 0.271
crystal cell	length a length b length c angle alpha angle beta angle gamma 82.299 133.651 90.439 90.00 114.69 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand		enzyme	Hydrolase E.C.3.2.1.17 BRENDA
Gene Ontology	Chain Function Process Component H, F, D, B
Primary reference	Structure of a lamprey variable lymphocyte receptor in complex with a protein antigen., Velikovsky CA, Deng L, Tasumi S, Iyer LM, Kerzic MC, Aravind L, Pancer Z, Mariuzza RA, Nat Struct Mol Biol. 2009 Jul;16(7):725-30. Epub 2009 Jun 21. PMID:19543291

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (191 Kb) [Save to disk] Biological Unit Coordinates (3g3a.pdb1.gz) 49 Kb Biological Unit Coordinates (3g3a.pdb2.gz) 49 Kb Biological Unit Coordinates (3g3a.pdb3.gz) 48 Kb Biological Unit Coordinates (3g3a.pdb4.gz) 48 Kb CSU: Contacts of Structural Units for 3G3A Likely Quarternary Molecular Structure file(s) for 3G3A Structure Factors (1835 Kb) Retrieve 3G3A in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3G3A from S2C, [Save to disk] Re-refined 3g3a structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3G3A 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 3G3A

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 3G3A, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3g3a_G] [3g3a_D] [3g3a_F] [3g3a_H] [3g3a_C] [3g3a] [3g3a_A] [3g3a_B] [3g3a_E] SWISS-PROT database: [D0VX18] [P00698] Domain organization of [D0VX18_PETMA] [LYSC_CHICK] by SWISSPFAM Domains found in 3G3A: [LRR] [LRRCT] [LRRNT] [LRR_TYP] [LYZ1 ] by SMART

Other resources with information on 3G3A

Community annotation for 3G3A at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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