J5_7MD7_017

3D structure

PDB id

7MD7 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with triphenylphosphonium analog of chloramphenicol CAM-C4-TPP and protein Y (YfiA) at 2.80A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

7MD7|1|2A|U|2076, 7MD7|1|2A|G|2428, 7MD7|1|2A|G|2429, 7MD7|1|2A|A|2430, 7MD7|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_7MD7_017 not in the Motif Atlas

Homologous match to J5_9DFE_007

Geometric discrepancy: 0.0656

The information below is about J5_9DFE_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.1

Basepair signature

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

Number of instances in this motif group

3

Unit IDs

7MD7|1|2A|U|2074
7MD7|1|2A|U|2075
7MD7|1|2A|U|2076
7MD7|1|2A|A|2077
*
7MD7|1|2A|U|2243
7MD7|1|2A|U|2244
7MD7|1|2A|U|2245
7MD7|1|2A|G|2246
*
7MD7|1|2A|C|2258
7MD7|1|2A|G|2259
*
7MD7|1|2A|C|2281
7MD7|1|2A|G|2282
*
7MD7|1|2A|C|2427
7MD7|1|2A|G|2428
7MD7|1|2A|G|2429
7MD7|1|2A|A|2430
7MD7|1|2A|U|2431
7MD7|1|2A|A|2432
7MD7|1|2A|A|2433
7MD7|1|2A|A|2434
7MD7|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