J4_5DOY_018

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

CGAAG*CGCC*GAG*CGUAG

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_018 not in the Motif Atlas

Homologous match to J4_9DFE_002

Geometric discrepancy: 0.0803

The information below is about J4_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_16174.1

Basepair signature

cWW-tSH-cHH-F-F-tHS-cWW-cWW-F-F-cWW

Number of instances in this motif group

5

Unit IDs

5DOY|1|2A|C|297
5DOY|1|2A|G|298
5DOY|1|2A|A|299
5DOY|1|2A|A|300
5DOY|1|2A|G|301
*
5DOY|1|2A|C|316
5DOY|1|2A|G|317
5DOY|1|2A|C|318
5DOY|1|2A|C|319
*
5DOY|1|2A|G|323
5DOY|1|2A|A|324
5DOY|1|2A|G|325
*
5DOY|1|2A|C|337
5DOY|1|2A|G|338
5DOY|1|2A|U|339
5DOY|1|2A|A|340
5DOY|1|2A|G|341

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2F

50S Ribosomal Protein L4

Chain 2Y

50S Ribosomal Protein L24