OCA Atlas for 2WVG

2WVG

Lyase

date

Oct 16, 2009

title

Structural Insights Into The Pre-Reaction State Of Pyruvate Decarboxylase From Zymomonas Mobilis

authors

X.Y.Pei, K.Erixon, B.F.Luisi, F.J.Leeper

compound

source

Molecule: Pyruvate Decarboxylase
Chain: A, B, E, F
Synonym: Pdc
Ec: 4.1.1.1
Engineered: Yes

Organism_scientific: Zymomonas Mobilis
Organism_taxid: 542
Expression_system: Escherichia Coli
Expression_system_taxid: 668369
Expression_system_strain: Dh5[Alpha]
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppl450

symmetry

Space Group: P 1

R_factor

0.157

R_Free

0.187

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
70.277	92.092	98.630	73.44	85.76	67.82

method

X-Ray Diffraction

resolution

1.75 Å

ligand

F, MG, TPU

enzyme

Lyase E.C.4.1.1.1 BRENDA

Gene
Ontology

Chain	Function	Process	Component
F, A, E, B

Primary reference

Structural Insights into the Prereaction State of Pyruvate Decarboxylase from Zymomonas mobilis ., Pei XY, Erixon KM, Luisi BF, Leeper FJ, Biochemistry. 2010 Feb 5. PMID:20099870

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (732 Kb) [Save to disk]

Biological Unit Coordinates (2wvg.pdb1.gz) 725 Kb

Biological Unit Coordinates (2wvg.pdb2.gz) 367 Kb

Biological Unit Coordinates (2wvg.pdb3.gz) 364 Kb

Biological Unit Coordinates (2wvg.pdb4.gz) 365 Kb

Biological Unit Coordinates (2wvg.pdb5.gz) 366 Kb

LPC: Ligand-Protein Contacts for 2WVG

CSU: Contacts of Structural Units for 2WVG

Structure Factors (11343 Kb)

Retrieve 2WVG in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 2WVG from S2C, [Save to disk]

Re-refined 2wvg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2WVG 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 2WVG

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 2WVG, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2wvg_F] [2wvg_B] [2wvg_E] [2wvg] [2wvg_A]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Other resources with information on 2WVG

Community annotation for 2WVG at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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