J3_4W2I_063

3D structure

PDB id

4W2I (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

4W2I|1|DA|U|504, 4W2I|1|DA|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_4W2I_063 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0574

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_92134.2

Basepair signature

cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW

Number of instances in this motif group

6

Unit IDs

4W2I|1|DA|G|30
4W2I|1|DA|C|31
*
4W2I|1|DA|G|474
4W2I|1|DA|U|475
4W2I|1|DA|G|476
4W2I|1|DA|A|477
4W2I|1|DA|A|478
4W2I|1|DA|A|479
4W2I|1|DA|A|480
4W2I|1|DA|G|481
4W2I|1|DA|A|482
4W2I|1|DA|A|483
4W2I|1|DA|C|484
*
4W2I|1|DA|G|496
4W2I|1|DA|A|497
4W2I|1|DA|G|498
4W2I|1|DA|U|499
4W2I|1|DA|G|500
4W2I|1|DA|A|501
4W2I|1|DA|A|502
4W2I|1|DA|A|503
4W2I|1|DA|U|504
4W2I|1|DA|A|505
4W2I|1|DA|G|506
4W2I|1|DA|A|507
4W2I|1|DA|G|508
4W2I|1|DA|C|509
4W2I|1|DA|C|510

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain DU

50S Ribosomal Protein L20

Chain DW

50S Ribosomal Protein L22

Chain DY

50S Ribosomal Protein L24