OCA Atlas for 5DN6

5DN6

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

ADP, ATP, MG

enzyme

Gene
Ontology

Chain	Function	Process	Component
A, B, C
E, F, D
G
H
I
U, R, K, Q, N, L, M, P, T, O, J, S
X

Primary reference

Structure of ATP synthase from Paracoccus denitrificans determined by X-ray crystallography at 4.0 A resolution., Morales-Rios E, Montgomery MG, Leslie AG, Walker JE, Proc Natl Acad Sci U S A. 2015 Oct 27;112(43):13231-6. doi:, 10.1073/pnas.1517542112. Epub 2015 Oct 12. PMID:26460036

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (645 Kb) [Save to disk]

Biological Unit Coordinates (5dn6.pdb1.gz) 631 Kb

LPC: Ligand-Protein Contacts for 5DN6

CSU: Contacts of Structural Units for 5DN6

Structure Factors (1110 Kb)

Retrieve 5DN6 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 5DN6 from S2C, [Save to disk]

Re-refined 5dn6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5DN6 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: [5dn6] [5dn6_1] [5dn6_2] [5dn6_3] [5dn6_A] [5dn6_B] [5dn6_C] [5dn6_D] [5dn6_E] [5dn6_F] [5dn6_G] [5dn6_H] [5dn6_I] [5dn6_J] [5dn6_K] [5dn6_L] [5dn6_M] [5dn6_N] [5dn6_O] [5dn6_P] [5dn6_Q] [5dn6_R] [5dn6_S] [5dn6_T] [5dn6_U] [5dn6_V] [5dn6_W] [5dn6_X] [5dn6_Y] [5dn6_Z]

SWISS-PROT database:

Domain found in 5DN6: [AAA ] by SMART

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