J3_5J4B_056

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

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

5J4B|1|2A|U|448, 5J4B|1|2A|C|456

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_056 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.0786

The information below is about J3_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_30040.2

Basepair signature

cWW-tWH-F-cWW-tSS-tHH-cSS-tWH-tSW-tHS-cWW-tWH-F-cSH-tSS-F-F

Number of instances in this motif group

7

Unit IDs

5J4B|1|2A|C|32
5J4B|1|2A|U|33
5J4B|1|2A|C|34
5J4B|1|2A|G|35
*
5J4B|1|2A|C|445
5J4B|1|2A|G|446
5J4B|1|2A|A|447
5J4B|1|2A|U|448
5J4B|1|2A|A|449
5J4B|1|2A|G|450
5J4B|1|2A|C|451
5J4B|1|2A|G|452
5J4B|1|2A|C|453
5J4B|1|2A|A|454
5J4B|1|2A|C|455
5J4B|1|2A|C|456
5J4B|1|2A|A|457
5J4B|1|2A|G|458
5J4B|1|2A|U|459
5J4B|1|2A|A|460
5J4B|1|2A|C|461
*
5J4B|1|2A|G|468
5J4B|1|2A|G|469
5J4B|1|2A|A|470
5J4B|1|2A|A|471
5J4B|1|2A|A|472
5J4B|1|2A|G|473

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2F

50S ribosomal protein L4

Chain 2U

50S ribosomal protein L20

Chain 2X

50S ribosomal protein L23