J3_5J4B_055

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

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

5J4B|1|2A|U|504, 5J4B|1|2A|G|508

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_5J4B_055 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0566

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_92134.2

Basepair signature

cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW

Number of instances in this motif group

6

Unit IDs

5J4B|1|2A|G|30
5J4B|1|2A|C|31
*
5J4B|1|2A|G|474
5J4B|1|2A|U|475
5J4B|1|2A|G|476
5J4B|1|2A|A|477
5J4B|1|2A|A|478
5J4B|1|2A|A|479
5J4B|1|2A|A|480
5J4B|1|2A|G|481
5J4B|1|2A|A|482
5J4B|1|2A|A|483
5J4B|1|2A|C|484
*
5J4B|1|2A|G|496
5J4B|1|2A|A|497
5J4B|1|2A|G|498
5J4B|1|2A|U|499
5J4B|1|2A|G|500
5J4B|1|2A|A|501
5J4B|1|2A|A|502
5J4B|1|2A|A|503
5J4B|1|2A|U|504
5J4B|1|2A|A|505
5J4B|1|2A|G|506
5J4B|1|2A|A|507
5J4B|1|2A|G|508
5J4B|1|2A|C|509
5J4B|1|2A|C|510

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22

Chain 2Y

50S ribosomal protein L24