OCA Atlas for 2X06

2X06

Oxidoreductase

date

Dec 07, 2009

title

Sulfolactate Dehydrogenase From Methanocaldococcus Jannaschi

authors

A.Irimia, D.Madern, G.Zaccai, F.M.D.Vellieux

compound

source

Molecule: L-Sulfolactate Dehydrogenase
Chain: A, B, C, D, E, F, G, H
Synonym: (R)-Sulfolactate Dehydrogenase, (R)-2-Hydroxyacid Dehydrogenase;
Ec: 1.1.1.272
Engineered: Yes

Organism_scientific: Methanocaldococcus Jannaschii
Organism_taxid: 2190
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pt 77

symmetry

Space Group: P 1 21 1

R_factor

0.153

R_Free

0.224

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
80.930	203.710	100.050	90.00	112.05	90.00

method

X-Ray Diffraction

resolution

2.50 Å

ligand

MSE, NAD

enzyme

Oxidoreductase E.C.1.1.1.272 BRENDA

note

2X06 supersedes 1RFM

Gene
Ontology

Chain	Function	Process	Component
F, A, E, B, H, C, D, G

Primary reference

Methanoarchaeal sulfolactate dehydrogenase: prototype of a new family of NADH-dependent enzymes., Irimia A, Madern D, Zaccai G, Vellieux FM, EMBO J. 2004 Mar 24;23(6):1234-44. Epub 2004 Mar 11. PMID:15014443

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (906 Kb) [Save to disk]

Biological Unit Coordinates (2x06.pdb1.gz) 227 Kb

Biological Unit Coordinates (2x06.pdb2.gz) 227 Kb

Biological Unit Coordinates (2x06.pdb3.gz) 230 Kb

Biological Unit Coordinates (2x06.pdb4.gz) 228 Kb

LPC: Ligand-Protein Contacts for 2X06

CSU: Contacts of Structural Units for 2X06

Structure Factors (787 Kb)

Retrieve 2X06 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 2X06 from S2C, [Save to disk]

Re-refined 2x06 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2X06 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 2X06

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 2X06, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2x06_H] [2x06_A] [2x06_E] [2x06_F] [2x06_D] [2x06] [2x06_G] [2x06_B] [2x06_C]

SWISS-PROT database: [Q58820]

Domain organization of [COMC_METJA] by SWISSPFAM

Other resources with information on 2X06

Community annotation for 2X06 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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