J4_5DOX_004

3D structure

PDB id

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

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with Hygromycin-A at 3.1A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

GGUUC*GGUUAG*CU*ACCCGUAC

Length

21 nucleotides

Bulged bases

5DOX|1|1A|U|1341

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_5DOX_004 not in the Motif Atlas

Homologous match to J4_9DFE_004

Geometric discrepancy: 0.0584

The information below is about J4_9DFE_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_69051.6

Basepair signature

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

Number of instances in this motif group

7

Unit IDs

5DOX|1|1A|G|1310
5DOX|1|1A|G|1311
5DOX|1|1A|U|1312
5DOX|1|1A|U|1313
5DOX|1|1A|C|1314
*
5DOX|1|1A|G|1338
5DOX|1|1A|G|1339
5DOX|1|1A|U|1340
5DOX|1|1A|U|1341
5DOX|1|1A|A|1342
5DOX|1|1A|G|1343
*
5DOX|1|1A|C|1404
5DOX|1|1A|U|1405
*
5DOX|1|1A|A|1597
5DOX|1|1A|C|1598
5DOX|1|1A|C|1599
5DOX|1|1A|C|1600
5DOX|1|1A|G|1601
5DOX|1|1A|U|1602
5DOX|1|1A|A|1603
5DOX|1|1A|C|1604

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 17

50S ribosomal protein L34

Chain 1X

50S ribosomal protein L23