J3_6ND6_063

3D structure

PDB id

6ND6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.85 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

6ND6|1|2A|U|504, 6ND6|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_6ND6_063 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0656

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17917.1

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

9

Unit IDs

6ND6|1|2A|G|30
6ND6|1|2A|C|31
*
6ND6|1|2A|G|474
6ND6|1|2A|U|475
6ND6|1|2A|G|476
6ND6|1|2A|A|477
6ND6|1|2A|A|478
6ND6|1|2A|A|479
6ND6|1|2A|A|480
6ND6|1|2A|G|481
6ND6|1|2A|A|482
6ND6|1|2A|A|483
6ND6|1|2A|C|484
*
6ND6|1|2A|G|496
6ND6|1|2A|A|497
6ND6|1|2A|G|498
6ND6|1|2A|U|499
6ND6|1|2A|G|500
6ND6|1|2A|A|501
6ND6|1|2A|A|502
6ND6|1|2A|A|503
6ND6|1|2A|U|504
6ND6|1|2A|A|505
6ND6|1|2A|G|506
6ND6|1|2A|A|507
6ND6|1|2A|G|508
6ND6|1|2A|C|509
6ND6|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