OCA Atlas for 3VGU

3VGU

date

authors

compound

source

symmetry

R_factor

R_Free

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma

method

X-Ray Diffraction

resolution

Gene
Ontology

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

Primary reference

A structural mechanism for dimeric to tetrameric oligomer conversion in Halomonas sp. nucleoside diphosphate kinase., Arai S, Yonezawa Y, Okazaki N, Matsumoto F, Tamada T, Tokunaga H, Ishibashi M, Blaber M, Tokunaga M, Kuroki R, Protein Sci. 2012 Apr;21(4):498-510. doi: 10.1002/pro.2032. Epub 2012 Mar 9. PMID:22275000

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (180 Kb) [Save to disk]

Biological Unit Coordinates (3vgu.pdb1.gz) 46 Kb

Biological Unit Coordinates (3vgu.pdb2.gz) 46 Kb

Biological Unit Coordinates (3vgu.pdb3.gz) 45 Kb

Biological Unit Coordinates (3vgu.pdb4.gz) 46 Kb

CSU: Contacts of Structural Units for 3VGU

Structure Factors (774 Kb)

Retrieve 3VGU in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 3VGU from S2C, [Save to disk]

Re-refined 3vgu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3VGU 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.

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3vgu_A] [3vgu] [3vgu_B] [3vgu_C] [3vgu_D] [3vgu_E] [3vgu_F] [3vgu_G] [3vgu_H]

SWISS-PROT database:

Domain found in 3VGU: [NDK ] by SMART

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