J3_5DOY_041

3D structure

PDB id

5DOY (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

GCGGGAC*GGCAG*CC

Length

14 nucleotides

Bulged bases

5DOY|1|1A|A|1384

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_5DOY_041 not in the Motif Atlas

Homologous match to J3_9DFE_012

Geometric discrepancy: 0.0502

The information below is about J3_9DFE_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_94309.1

Basepair signature

cWW-F-cWW-F-F-F-F-F-cWW-F

Number of instances in this motif group

9

Unit IDs

5DOY|1|1A|G|1344
5DOY|1|1A|C|1345
5DOY|1|1A|G|1346
5DOY|1|1A|G|1347
5DOY|1|1A|G|1348
5DOY|1|1A|A|1349
5DOY|1|1A|C|1350
*
5DOY|1|1A|G|1381
5DOY|1|1A|G|1382
5DOY|1|1A|C|1383
5DOY|1|1A|A|1384
5DOY|1|1A|G|1385
*
5DOY|1|1A|C|1402
5DOY|1|1A|C|1403

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1X

50S Ribosomal Protein L23