MMDB Protein Structure Summary, 1VQL, 57628

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The Structure of the Transition State Analogue "dcsn" Bound to the Large Ribosomal Subunit of Haloarcula Marismortui

MMDB ID: 57628PDB ID: 1VQL

PDB Deposition Date:

2004/12/16

Updated in MMDB:

01/2013 ▼

Experimental Method:

X-Ray Diffraction

Resolution:

2.3 Å

Source Organism:

synthetic construct ▼

Taxonomy	Molecule
synthetic construct	4
Haloarcula marismortui	0, 9, A, B, C, D, E, F, G, H, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, 1, 2, 3, I

Similar Structures:

Citation:

Structural insights into the roles of water and the 2' hydroxyl of the p site tRNA in the peptidyl transferase reaction.

Schmeing TM, Huang KS, Kitchen DE, Strobel SA, Steitz TA

Mol.Cell (2005) 20 p.437

Biological Unit: 32-meric; determined by author

Interactions?

schmatic for structure MMDB ID=57628 biounit 1

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ProteinNucleotideChemical

Molecules and interactions
Label	Count	Molecule
Proteins and interactions (29 molecules)
	1	50S Ribosomal Protein L2p
	1	50S Ribosomal Protein L3p
	1	50S Ribosomal Protein L4e
	1	50S Ribosomal Protein L5p
	1	50S Ribosomal Protein L6p
	1	50S Ribosomal Protein L7ae
	1	Acidic Ribosomal Protein P0 Homolog
	1	50S Ribosomal Protein L10e
	1	50S Ribosomal Protein L13p
	1	50S Ribosomal Protein L14p
	1	50S Ribosomal Protein L15p
	1	50S Ribosomal Protein L15e
	1	50S Ribosomal Protein L18p
	1	50S Ribosomal Protein L18e
	1	50S Ribosomal Protein L19e
	1	50S Ribosomal Protein L21e
	1	50S Ribosomal Protein L22p
	1	50S Ribosomal Protein L23p
	1	50S Ribosomal Protein L24p
	1	50S Ribosomal Protein L24e
	1	50S Ribosomal Protein L29p
	1	50S Ribosomal Protein L30p
	1	50S Ribosomal Protein L31e
	1	50S Ribosomal Protein L32e
	1	50S Ribosomal Protein L37ae
	1	50S Ribosomal Protein L37e
	1	50S Ribosomal Protein L39e
	1	50S Ribosomal Protein L44e
	1	50S Ribosomal Protein L11p
Nucleotides and interactions (3 molecules)
	1	23S Ribosomal RNA
	1	5S Ribosomal RNA
	1	5'-r(cpcp(ppu)(tse)(da)cp*c)-3'
Chemicals and interactions (303 molecules)
	1	Thiophosphonoacetic Acid
	1	DA
	2	Cytidine-5'-Monophosphate
	92	Mg⁺⁺ (Magnesium Ion)
	2	K⁺ (Potassium Ion)
	75	Na⁺ (Sodium Ion)
	22	Cl^- (Chloride Ion)
	103	Sr⁺⁺ (Strontium Ion)
	5	Cd⁺⁺ (Cadmium Ion)

* Click molecule labels to explore molecular sequence information.
* The interaction graph may not show all instances of molecules listed in the table.

Citing MMDB

Madej T, Addess KJ, Fong JH, Geer LY, Geer RC, Lanczycki CJ, Liu C, Lu S, Marchler-Bauer A, Panchenko AR, Chen J, Thiessen PA, Wang Y, Zhang D, Bryant SH. "MMDB: 3D structures and macromolecular interactions." Nucleic Acids Res. 2012 Jan; 40(Database issue):D461-4