J3_12DQ_038

3D structure

PDB id

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

Description

Crystal structure of Thermus thermophilus 70S ribosome in complex with sparsomycin, protein Y, and P-site MTI-tripeptidyl-tRNA analog ACCA-ITM at 2.75A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.75 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

12DQ|1|2A|U|504, 12DQ|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_12DQ_038 not in the Motif Atlas

Homologous match to J3_8B0X_032

Geometric discrepancy: 0.1093

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

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