Crystal structure of the Thermus thermophilus 70S ribosome in complex with a short substrate mimic ACCA-DPhe and bound to mRNA and P-site tRNA at 3.7A resolution

Code: 6N9F
Classification: RIBOSOME
Resolution: 3.7 Å
R-factor: 0.2361
Keywords: D-amino acids, ribosome structure, peptidyl transferase center, expanded genetic code, ribosome engineering, RIBOSOME
Deposition Date: 3 December, 2018
Experimental Technique: X-RAY DIFFRACTION
Source Organism:
Expression System:
Biological Assembly: 1

Zinc-Bearing Chains in PDB

6 zinc-bearing chains
Chain 14 (71 residues; 1 zinc binding site; Spacers: 1, 17, 2 )
mkegihpklvpariiCgCgnvietystkpeiyvevCskChpfytgqqrfvdtegrverfqrrygdsyrkgr
Chain 15 (60 residues; 1 zinc binding site; Spacers: 2, 9, 2 )
makhpvpkkktskarrdarrshhaltpptlvpCpeCkamkpphtvCpeCgyyagrkvlev
Chain 16 (54 residues; 1 zinc binding site; Spacers: 2, 23, 2 )
masevrikllleCteCkrrnyateknkrntpnklelrkyCpwCrkhtvhrevki
Chain 19 (37 residues; 1 zinc binding site; Spacers: 2, 12, 4 )
mkvrasvkriCdkCkvirrhgrvyviCenpkHkqrqg
Chain 1Y (110 residues; 1 zinc binding site; Spacers: 2, 19, 2 )
mrvkmhvkkgdtvlvasgkykgrvgkvkevlpkkyavivegvnivkkavrvspkypqggfiekeaplhaskvrpiCpaCgkptrvrkkflengkkirvCakCggaldtee
Chain 1n (61 residues; 1 zinc binding site; Spacers: 2, 12, 2 )
markaliekakrtpkfkvraytrCvrCgrarsvyrffglCriClrelahkgqlpgvrkasw

Zinc atoms identified in PDB

12 zinc atoms
(24:501, 25:102, 2n:102, 2Y:501, 26:501, 29:501, 1Y:202, 14:501, 15:102, 16:102, 19:102, 1n:501)

Zinc atoms not used

24:501: Zinc in asymmetric unit but not biological assembly.
25:102: Zinc in asymmetric unit but not biological assembly.
2n:102: Zinc in asymmetric unit but not biological assembly.
2Y:501: Zinc in asymmetric unit but not biological assembly.
26:501: Zinc in asymmetric unit but not biological assembly.
29:501: Zinc in asymmetric unit but not biological assembly.
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