J5_12DQ_017

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

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

12DQ|1|2A|U|2076, 12DQ|1|2A|G|2428, 12DQ|1|2A|G|2429, 12DQ|1|2A|A|2430, 12DQ|1|2A|U|2431

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_12DQ_017 not in the Motif Atlas

Homologous match to J5_7A0S_007

Geometric discrepancy: 0.1027

The information below is about J5_7A0S_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.2

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

12DQ|1|2A|U|2074
12DQ|1|2A|U|2075
12DQ|1|2A|U|2076
12DQ|1|2A|A|2077
*
12DQ|1|2A|U|2243
12DQ|1|2A|U|2244
12DQ|1|2A|U|2245
12DQ|1|2A|G|2246
*
12DQ|1|2A|C|2258
12DQ|1|2A|G|2259
*
12DQ|1|2A|C|2281
12DQ|1|2A|G|2282
*
12DQ|1|2A|C|2427
12DQ|1|2A|G|2428
12DQ|1|2A|G|2429
12DQ|1|2A|A|2430
12DQ|1|2A|U|2431
12DQ|1|2A|A|2432
12DQ|1|2A|A|2433
12DQ|1|2A|A|2434
12DQ|1|2A|A|2435

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 20

50S ribosomal protein L27

Chain 21

50S ribosomal protein L28

Chain 26

50S ribosomal protein L33

Chain 2D

50S ribosomal protein L2

Chain 2P

50S ribosomal protein L15

Chain 2Z

50S ribosomal protein L25