3D structure

PDB id
6ND5 (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of the Thermus thermophilus 70S ribosome in complex with chloramphenicol and bound to mRNA and A-, P-, and E-site tRNAs at 2.60A resolution
Experimental method
X-RAY DIFFRACTION
Resolution
2.6 Å

Loop

Sequence
GCAAGUUGG*UG*CC*GUGAACAGG*CGC
Length
25 nucleotides
Bulged bases
6ND5|1|1A|G|1758, 6ND5|1|1A|G|1763
QA status
Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.
R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.
R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.
R3DMCS Rfam
J5_6ND5_005 not in the Motif Atlas
Homologous match to J5_9DFE_005
Geometric discrepancy: 0.0509
The information below is about J5_9DFE_005
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J5_62523.6
Basepair signature
cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
Number of instances in this motif group
7

Unit IDs

6ND5|1|1A|G|1674
6ND5|1|1A|C|1675
6ND5|1|1A|A|1676
6ND5|1|1A|A|1677
6ND5|1|1A|G|1678
6ND5|1|1A|U|1679
6ND5|1|1A|U|1680
6ND5|1|1A|G|1681
6ND5|1|1A|G|1682
*
6ND5|1|1A|U|1706
6ND5|1|1A|G|1707
*
6ND5|1|1A|C|1751
6ND5|1|1A|C|1752
*
6ND5|1|1A|G|1756
6ND5|1|1A|U|1757
6ND5|1|1A|G|1758
6ND5|1|1A|A|1759
6ND5|1|1A|A|1760
6ND5|1|1A|C|1761
6ND5|1|1A|A|1762
6ND5|1|1A|G|1763
6ND5|1|1A|G|1764
*
6ND5|1|1A|C|1988
6ND5|1|1A|G|1989
6ND5|1|1A|C|1990

Current chains

Chain 1A
23S Ribosomal RNA

Nearby chains

Chain 1E
50S ribosomal protein L3
Chain 1O
50S ribosomal protein L14
Chain 1T
50S ribosomal protein L19
Chain 1a
Small subunit ribosomal RNA; SSU rRNA

Coloring options:


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