3D54	Ligase	date	May 15, 2008
title	Structure Of Purlqs From Thermotoga Maritima
authors	S.E.Ealick, M.Morar
compound		source
Molecule: Phosphoribosylformylglycinamidine Synthase II Chain: A, E, I Synonym: Fgam Synthase II Ec: 6.3.5.3 Engineered: Yes		Organism_scientific: Thermotoga Maritima Organism_taxid: 2336 Gene: Purl Expression_system: Escherichia Coli Expression_system_vector_type: Plasmid
Molecule: Formylglycinamide Ribonucleotide Amidotransferase Chain: B, C, F, G, J, K Ec: 6.3.5.3 Engineered: Yes		Organism_scientific: Thermotoga Maritima Organism_taxid: 2336 Expression_system: Escherichia Coli
Molecule: Phosphoribosylformylglycinamidine Synthase 1 Chain: D, H, L Synonym: Phosphoribosylformylglycinamidine Synthase I, Fgam I; Ec: 6.3.5.3 Engineered: Yes		Organism_scientific: Thermotoga Maritima Organism_taxid: 2336 Gene: Purq Expression_system: Escherichia Coli
symmetry	Space Group: C 1 2 1	R_factor 0.252 R_Free 0.282
crystal cell	length a length b length c angle alpha angle beta angle gamma 256.851 187.337 159.177 90.00 99.12 90.00
method	X-Ray Diffraction	resolution	3.50 Å
ligand	ADP, CYG, NA	enzyme	Ligase E.C.6.3.5.3 BRENDA
Gene Ontology	Chain Function Process Component A, E, I F, J, K, B, C, G H, D, L
Primary reference	Formylglycinamide ribonucleotide amidotransferase from Thermotoga maritima: structural insights into complex formation., Morar M, Hoskins AA, Stubbe J, Ealick SE, Biochemistry. 2008 Jul 29;47(30):7816-30. Epub 2008 Jul 3. PMID:18597481

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (455 Kb) [Save to disk] Biological Unit Coordinates (3d54.pdb1.gz) 152 Kb Biological Unit Coordinates (3d54.pdb2.gz) 155 Kb Biological Unit Coordinates (3d54.pdb3.gz) 155 Kb LPC: Ligand-Protein Contacts for 3D54 CSU: Contacts of Structural Units for 3D54 Likely Quarternary Molecular Structure file(s) for 3D54 Structure Factors (1251 Kb) Retrieve 3D54 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3D54 from S2C, [Save to disk] Re-refined 3d54 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3D54 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 3D54

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 3D54, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3d54_D] [3d54] [3d54_F] [3d54_K] [3d54_I] [3d54_C] [3d54_L] [3d54_B] [3d54_H] [3d54_J] [3d54_A] [3d54_E] [3d54_G] SWISS-PROT database: [Q9X0X3] [Q9X0X2] [Q9X0X1] Domain organization of [PURL_THEMA] [PURQ_THEMA] [Q9X0X1_THEMA] by SWISSPFAM Domain found in 3D54: [GATase_5 ] by SMART

Other resources with information on 3D54

Community annotation for 3D54 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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