IL_5J4C_316

3D structure

PDB id

5J4C (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (soaked) and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

G(PSU)GCCAG*CGGUAAUAC

Length

16 nucleotides

Bulged bases

5J4C|1|2a|A|532, 5J4C|1|2a|U|534

QA status

Modified nucleotides: PSU

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

IL_5J4C_316 not in the Motif Atlas

Homologous match to IL_4LFB_021

Geometric discrepancy: 0.1035

The information below is about IL_4LFB_021

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_52042.1

Basepair signature

cWW-cSW-tWH-L-R-L-R-tHS-cWW

Number of instances in this motif group

5

Unit IDs

5J4C|1|2a|G|515
5J4C|1|2a|PSU|516
5J4C|1|2a|G|517
5J4C|1|2a|C|518
5J4C|1|2a|C|519
5J4C|1|2a|A|520
5J4C|1|2a|G|521
*
5J4C|1|2a|C|528
5J4C|1|2a|G|529
5J4C|1|2a|G|530
5J4C|1|2a|U|531
5J4C|1|2a|A|532
5J4C|1|2a|A|533
5J4C|1|2a|U|534
5J4C|1|2a|A|535
5J4C|1|2a|C|536

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2c

30S ribosomal protein S3

Chain 2d

30S ribosomal protein S4

Chain 2l

30S ribosomal protein S12

Chain 2v

mRNA

Chain 2w

Transfer RNA; tRNA