J4_5J4B_020

3D structure

PDB id

5J4B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

GGUUC*GGUUAG*CU*ACCCGUAC

Length

21 nucleotides

Bulged bases

5J4B|1|2A|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_5J4B_020 not in the Motif Atlas

Homologous match to J4_9DFE_004

Geometric discrepancy: 0.0732

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

5J4B|1|2A|G|1310
5J4B|1|2A|G|1311
5J4B|1|2A|U|1312
5J4B|1|2A|U|1313
5J4B|1|2A|C|1314
*
5J4B|1|2A|G|1338
5J4B|1|2A|G|1339
5J4B|1|2A|U|1340
5J4B|1|2A|U|1341
5J4B|1|2A|A|1342
5J4B|1|2A|G|1343
*
5J4B|1|2A|C|1404
5J4B|1|2A|U|1405
*
5J4B|1|2A|A|1597
5J4B|1|2A|C|1598
5J4B|1|2A|C|1599
5J4B|1|2A|C|1600
5J4B|1|2A|G|1601
5J4B|1|2A|U|1602
5J4B|1|2A|A|1603
5J4B|1|2A|C|1604

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2X

50S ribosomal protein L23