J4_5J4B_007

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

GACUG*CACAG*CGAC*GUAAC

Length

19 nucleotides

Bulged bases

None detected

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_007 not in the Motif Atlas

Homologous match to J4_5J7L_025

Geometric discrepancy: 0.0433

The information below is about J4_5J7L_025

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61477.5

Basepair signature

cWW-tSW-F-tHS-tHS-F-cWW-cWW-F-tHS-cWW

Number of instances in this motif group

4

Unit IDs

5J4B|1|1A|G|1803
5J4B|1|1A|A|1804
5J4B|1|1A|C|1805
5J4B|1|1A|U|1806
5J4B|1|1A|G|1807
*
5J4B|1|1A|C|1819
5J4B|1|1A|A|1820
5J4B|1|1A|C|1821
5J4B|1|1A|A|1822
5J4B|1|1A|G|1823
*
5J4B|1|1A|C|1858
5J4B|1|1A|G|1859
5J4B|1|1A|A|1860
5J4B|1|1A|C|1861
*
5J4B|1|1A|G|1997
5J4B|1|1A|U|1998
5J4B|1|1A|A|1999
5J4B|1|1A|A|2000
5J4B|1|1A|C|2001

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1D

50S ribosomal protein L2

Chain 1a

Small subunit ribosomal RNA; SSU rRNA