J4_5DOY_028

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

GAG*CAUGUG*CAAAG*CGC

Length

17 nucleotides

Bulged bases

None detected

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_028 not in the Motif Atlas

Homologous match to J4_4LFB_002

Geometric discrepancy: 0.1002

The information below is about J4_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_88771.1

Basepair signature

cWW-tSS-cWW-tSS-cWW-cWW-tWH-tWH-cSH-cWW

Number of instances in this motif group

1

Unit IDs

5DOY|1|2a|G|142
5DOY|1|2a|A|143
5DOY|1|2a|G|144
*
5DOY|1|2a|C|178
5DOY|1|2a|A|179
5DOY|1|2a|U|180
5DOY|1|2a|G|181
5DOY|1|2a|U|182
5DOY|1|2a|G|183
*
5DOY|1|2a|C|194
5DOY|1|2a|A|195
5DOY|1|2a|A|196
5DOY|1|2a|A|197
5DOY|1|2a|G|198
*
5DOY|1|2a|C|219
5DOY|1|2a|G|220
5DOY|1|2a|C|221

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2t

30S Ribosomal Protein S20