J5_7MD7_018

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

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 nucleotides

Bulged bases

None detected

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_018 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.0858

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

7MD7|1|2a|C|36
7MD7|1|2a|U|37
7MD7|1|2a|G|38
7MD7|1|2a|G|39
*
7MD7|1|2a|C|403
7MD7|1|2a|U|404
7MD7|1|2a|U|405
7MD7|1|2a|G|406
*
7MD7|1|2a|C|436
7MD7|1|2a|U|437
7MD7|1|2a|G|438
7MD7|1|2a|A|439
7MD7|1|2a|A|441
7MD7|1|2a|C|442
*
7MD7|1|2a|G|492
7MD7|1|2a|G|493
7MD7|1|2a|U|494
7MD7|1|2a|A|495
7MD7|1|2a|A|496
7MD7|1|2a|U|498
7MD7|1|2a|A|499
7MD7|1|2a|G|500
*
7MD7|1|2a|C|545
7MD7|1|2a|G|546
7MD7|1|2a|A|547
7MD7|1|2a|G|548

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4

Chain 2l

30S ribosomal protein S12