J3_5DOY_026

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

CUAG*CGAAG*CGUUAAG

Length

16 nucleotides

Bulged bases

5DOY|1|2a|U|871

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_026 not in the Motif Atlas

Homologous match to J3_4LFB_001

Geometric discrepancy: 0.0752

The information below is about J3_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_02285.1

Basepair signature

cWW-tWW-tHS-F-cWW-tHS-cWW-F

Number of instances in this motif group

2

Unit IDs

5DOY|1|2a|C|826
5DOY|1|2a|U|827
5DOY|1|2a|A|828
5DOY|1|2a|G|829
*
5DOY|1|2a|C|857
5DOY|1|2a|G|858
5DOY|1|2a|A|859
5DOY|1|2a|A|860
5DOY|1|2a|G|861
*
5DOY|1|2a|C|868
5DOY|1|2a|G|869
5DOY|1|2a|U|870
5DOY|1|2a|U|871
5DOY|1|2a|A|872
5DOY|1|2a|A|873
5DOY|1|2a|G|874

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2b

30S Ribosomal Protein S2

Chain 2h

30S Ribosomal Protein S8