J5_8UD8_018

3D structure

PDB id

8UD8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 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

J5_8UD8_018 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.0716

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

8UD8|1|2a|C|36
8UD8|1|2a|U|37
8UD8|1|2a|G|38
8UD8|1|2a|G|39
*
8UD8|1|2a|C|403
8UD8|1|2a|U|404
8UD8|1|2a|U|405
8UD8|1|2a|G|406
*
8UD8|1|2a|C|436
8UD8|1|2a|U|437
8UD8|1|2a|G|438
8UD8|1|2a|A|439
8UD8|1|2a|A|441
8UD8|1|2a|C|442
*
8UD8|1|2a|G|492
8UD8|1|2a|G|493
8UD8|1|2a|U|494
8UD8|1|2a|A|495
8UD8|1|2a|A|496
8UD8|1|2a|U|498
8UD8|1|2a|A|499
8UD8|1|2a|G|500
*
8UD8|1|2a|C|545
8UD8|1|2a|G|546
8UD8|1|2a|A|547
8UD8|1|2a|G|548

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4

Chain 2l

30S ribosomal protein S12