OCA Atlas for 2DB4

2DB4

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

ligand

DCW, LHG, NA, UMQ

enzyme

Gene
Ontology

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

Primary reference

Structure of the rotor ring modified with N,N'-dicyclohexylcarbodiimide of the Na+-transporting vacuolar ATPase., Mizutani K, Yamamoto M, Suzuki K, Yamato I, Kakinuma Y, Shirouzu M, Walker JE, Yokoyama S, Iwata S, Murata T, Proc Natl Acad Sci U S A. 2011 Aug 3. PMID:21813759

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (266 Kb) [Save to disk]

Biological Unit Coordinates (2db4.pdb1.gz) 251 Kb

LPC: Ligand-Protein Contacts for 2DB4

CSU: Contacts of Structural Units for 2DB4

Likely Quarternary Molecular Structure file(s) for 2DB4

Structure Factors (990 Kb)

Retrieve 2DB4 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 2DB4 from S2C, [Save to disk]

Re-refined 2db4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2DB4 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: [2db4] [2db4_A] [2db4_B] [2db4_C] [2db4_D] [2db4_E] [2db4_F] [2db4_G] [2db4_H] [2db4_I] [2db4_J]

SWISS-PROT database: [P43457]

Belongs to the h(+)- or na(+)-translocating f-type, v-type and a-type atpase (f-atpase) superfamily

according to TCDB.

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