HL_5VP2_020

3D structure

PDB id

5VP2 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with madumycin II and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CGAACAG

Length

7 nucleotides

Bulged bases

5VP2|1|1A|C|670

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

HL_5VP2_020 not in the Motif Atlas

Homologous match to HL_9DFE_019

Geometric discrepancy: 0.0981

The information below is about HL_9DFE_019

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_34789.4

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

399

Unit IDs

5VP2|1|1A|C|666
5VP2|1|1A|G|667
5VP2|1|1A|A|668
5VP2|1|1A|A|669
5VP2|1|1A|C|670
5VP2|1|1A|A|671
5VP2|1|1A|G|672

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 16

50S ribosomal protein L33

Chain 18

50S ribosomal protein L35

Chain 1P

50S ribosomal protein L15