J4_5DOY_027

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

GAGUAACG*UC*GUAG*CC

Length

16 nucleotides

Bulged bases

5DOY|1|2a|C|121

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

J4_5DOY_027 not in the Motif Atlas

Homologous match to J4_4LFB_001

Geometric discrepancy: 0.0687

The information below is about J4_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_90044.1

Basepair signature

cWW-F-cWW-F-F-F-tHW-F-cWW-cWW

Number of instances in this motif group

2

Unit IDs

5DOY|1|2a|G|115
5DOY|1|2a|A|116
5DOY|1|2a|G|117
5DOY|1|2a|U|118
5DOY|1|2a|A|119
5DOY|1|2a|A|120
5DOY|1|2a|C|121
5DOY|1|2a|G|122
*
5DOY|1|2a|U|239
5DOY|1|2a|C|240
*
5DOY|1|2a|G|286
5DOY|1|2a|U|287
5DOY|1|2a|A|288
5DOY|1|2a|G|289
*
5DOY|1|2a|C|311
5DOY|1|2a|C|312

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2p

30S Ribosomal Protein S16

Chain 2q

30S Ribosomal Protein S17