J4_4V5D_028

3D structure

PDB id

4V5D (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A- and P-site tRNAs, and E-site tRNA.

Experimental method

X-RAY DIFFRACTION

Resolution

3.5 Å

Loop

Sequence

UC*GGUUAG*CU*ACCCGUA

Length

17 nucleotides

Bulged bases

4V5D|1|DA|U|1341

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

J4_4V5D_028 not in the Motif Atlas

Homologous match to J4_9DFE_005

Geometric discrepancy: 0.0799

The information below is about J4_9DFE_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_10313.5

Basepair signature

cWW-cWW-tHW-F-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

5

Unit IDs

4V5D|1|DA|U|1313
4V5D|1|DA|C|1314
*
4V5D|1|DA|G|1338
4V5D|1|DA|G|1339
4V5D|1|DA|U|1340
4V5D|1|DA|U|1341
4V5D|1|DA|A|1342
4V5D|1|DA|G|1343
*
4V5D|1|DA|C|1404
4V5D|1|DA|U|1405
*
4V5D|1|DA|A|1597
4V5D|1|DA|C|1598
4V5D|1|DA|C|1599
4V5D|1|DA|C|1600
4V5D|1|DA|G|1601
4V5D|1|DA|U|1602
4V5D|1|DA|A|1603

Current chains

Chain DA

23S RIBOSOMAL RNA

Nearby chains

Chain D7

50S RIBOSOMAL PROTEIN L34

Chain DX

50S RIBOSOMAL PROTEIN L23