1YT5	Transferase	date	Feb 09, 2005
title	Crystal Structure Of Nad Kinase From Thermotoga Maritima
authors	Berkeley Structural Genomics Center (Bsgc)
compound		source
Molecule: Inorganic Polyphosphateatp-Nad Kinase Chain: A, B, C, D Fragment: Nad Kinase Synonym: Poly(P)Atp Nad Kinase Ec: 2.7.1.23 Engineered: Yes		Organism_scientific: Thermotoga Maritima Organism_taxid: 2336 Gene: Ppnk Expression_system: Escherichia Coli K12 Expression_system_taxid: 83333 Expression_system_strain: K12 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pb4.1316b
symmetry	Space Group: P 21 21 2	R_factor 0.213 R_Free 0.280
crystal cell	length a length b length c angle alpha angle beta angle gamma 131.448 137.153 58.253 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	SO4	enzyme	Transferase E.C.2.7.1.23 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structure of a NAD kinase from Thermotoga maritima at 2.3 A resolution., Oganesyan V, Huang C, Adams PD, Jancarik J, Yokota HA, Kim R, Kim SH, Acta Crystallograph Sect F Struct Biol Cryst Commun. 2005 Jul 1;61(Pt, 7):640-6. Epub 2005 Jun 30. PMID:16511117

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (173 Kb) [Save to disk] Biological Unit Coordinates (1yt5.pdb1.gz) 86 Kb Biological Unit Coordinates (1yt5.pdb2.gz) 85 Kb Biological Unit Coordinates (1yt5.pdb3.gz) 168 Kb Biological Unit Coordinates (1yt5.pdb4.gz) 167 Kb Biological Unit Coordinates (1yt5.pdb5.gz) 86 Kb Biological Unit Coordinates (1yt5.pdb6.gz) 85 Kb Biological Unit Coordinates (1yt5.pdb7.gz) 86 Kb Biological Unit Coordinates (1yt5.pdb8.gz) 85 Kb LPC: Ligand-Protein Contacts for 1YT5 CSU: Contacts of Structural Units for 1YT5 Likely Quarternary Molecular Structure file(s) for 1YT5 Structure Factors (404 Kb) Retrieve 1YT5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YT5 from S2C, [Save to disk] Re-refined 1yt5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YT5 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 1YT5

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1YT5, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1yt5_B] [1yt5_D] [1yt5_C] [1yt5] [1yt5_A] SWISS-PROT database: [Q9X255] Domain organization of [PPNK_THEMA] by SWISSPFAM

Other resources with information on 1YT5

Community annotation for 1YT5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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