J3_7MD7_069

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

GCCUAAG*UAGGAAUCU*AGC

Length

19 nucleotides

Bulged bases

7MD7|1|2a|C|48, 7MD7|1|2a|A|50, 7MD7|1|2a|A|51

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_7MD7_069 not in the Motif Atlas

Homologous match to J3_4LFB_014

Geometric discrepancy: 0.0678

The information below is about J3_4LFB_014

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_63856.1

Basepair signature

cWW-cWW-cSW-F-cWW-F-tHH-F-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

7MD7|1|2a|G|46
7MD7|1|2a|C|47
7MD7|1|2a|C|48
7MD7|1|2a|U|49
7MD7|1|2a|A|50
7MD7|1|2a|A|51
7MD7|1|2a|G|52
*
7MD7|1|2a|U|359
7MD7|1|2a|A|360
7MD7|1|2a|G|361
7MD7|1|2a|G|362
7MD7|1|2a|A|363
7MD7|1|2a|A|364
7MD7|1|2a|U|365
7MD7|1|2a|C|366
7MD7|1|2a|U|367
*
7MD7|1|2a|A|393
7MD7|1|2a|G|394
7MD7|1|2a|C|395

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2l

30S ribosomal protein S12

Chain 2p

30S ribosomal protein S16