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
CUCAG*CGGAGAG*UAGAAG
Length
18 nucleotides
Bulged bases
6ND5|1|2A|G|2334, 6ND5|1|2A|A|2336
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
J3_6ND5_038 not in the Motif Atlas
Homologous match to J3_5J7L_071
Geometric discrepancy: 0.5327
The information below is about J3_5J7L_071
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_44961.1
Basepair signature
cWW-tSH-F-cWW-F-tHW-cWW-tWW-cWW-F
Number of instances in this motif group
1

Unit IDs

6ND5|1|2A|C|2295
6ND5|1|2A|U|2296
6ND5|1|2A|C|2297
6ND5|1|2A|A|2298
6ND5|1|2A|G|2299
*
6ND5|1|2A|C|2317
6ND5|1|2A|G|2318
6ND5|1|2A|G|2319
6ND5|1|2A|A|2320
6ND5|1|2A|G|2321
6ND5|1|2A|A|2322
6ND5|1|2A|G|2323
*
6ND5|1|2A|U|2332
6ND5|1|2A|A|2333
6ND5|1|2A|G|2334
6ND5|1|2A|A|2335
6ND5|1|2A|A|2336
6ND5|1|2A|G|2337

Current chains

Chain 2A
23S Ribosomal RNA

Nearby chains

Chain 20
50S ribosomal protein L27
Chain 2B
5S ribosomal RNA; 5S rRNA
Chain 2G
50S ribosomal protein L5
Chain 2S
50S ribosomal protein L18
Chain 2x
Transfer RNA; tRNA

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