J3_9D0I_002

3D structure

PDB id

9D0I (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Se-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.45 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

9D0I|1|1A|U|504, 9D0I|1|1A|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_9D0I_002 not in the Motif Atlas

Geometric match to J3_9DFE_002

Geometric discrepancy: 0.0459

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17917.1

Basepair signature

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

Number of instances in this motif group

9

Unit IDs

9D0I|1|1A|G|30
9D0I|1|1A|C|31
*
9D0I|1|1A|G|474
9D0I|1|1A|U|475
9D0I|1|1A|G|476
9D0I|1|1A|A|477
9D0I|1|1A|A|478
9D0I|1|1A|A|479
9D0I|1|1A|A|480
9D0I|1|1A|G|481
9D0I|1|1A|A|482
9D0I|1|1A|A|483
9D0I|1|1A|C|484
*
9D0I|1|1A|G|496
9D0I|1|1A|A|497
9D0I|1|1A|G|498
9D0I|1|1A|U|499
9D0I|1|1A|G|500
9D0I|1|1A|A|501
9D0I|1|1A|A|502
9D0I|1|1A|A|503
9D0I|1|1A|U|504
9D0I|1|1A|A|505
9D0I|1|1A|G|506
9D0I|1|1A|A|507
9D0I|1|1A|G|508
9D0I|1|1A|C|509
9D0I|1|1A|C|510

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1U

50S ribosomal protein L20

Chain 1W

50S ribosomal protein L22

Chain 1Y

50S ribosomal protein L24