J3_12DP_038

3D structure

PDB id

12DP (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with sparsomycin, mRNA, and aminoacylated initiator P-site fMet-tRNAmet at 2.95A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.95 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

12DP|1|2A|U|504, 12DP|1|2A|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_12DP_038 not in the Motif Atlas

Homologous match to J3_8B0X_032

Geometric discrepancy: 0.0895

The information below is about J3_8B0X_032

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17917.4

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

11

Unit IDs

12DP|1|2A|G|30
12DP|1|2A|C|31
*
12DP|1|2A|G|474
12DP|1|2A|U|475
12DP|1|2A|G|476
12DP|1|2A|A|477
12DP|1|2A|A|478
12DP|1|2A|A|479
12DP|1|2A|A|480
12DP|1|2A|G|481
12DP|1|2A|A|482
12DP|1|2A|A|483
12DP|1|2A|C|484
*
12DP|1|2A|G|496
12DP|1|2A|A|497
12DP|1|2A|G|498
12DP|1|2A|U|499
12DP|1|2A|G|500
12DP|1|2A|A|501
12DP|1|2A|A|502
12DP|1|2A|A|503
12DP|1|2A|U|504
12DP|1|2A|A|505
12DP|1|2A|G|506
12DP|1|2A|A|507
12DP|1|2A|G|508
12DP|1|2A|C|509
12DP|1|2A|C|510

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22

Chain 2Y

50S ribosomal protein L24