HL_5VP2_124

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

GUUCGUGGAGC

Length

11 nucleotides

Bulged bases

5VP2|1|2A|G|386

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_124 not in the Motif Atlas

Geometric match to HL_8VTW_012

Geometric discrepancy: 0.0826

The information below is about HL_8VTW_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_91503.6

Basepair signature

cWW-cWW-F-F-F-F-F-F

Number of instances in this motif group

3

Unit IDs

5VP2|1|2A|G|382
5VP2|1|2A|U|383
5VP2|1|2A|U|384
5VP2|1|2A|C|385
5VP2|1|2A|G|386
5VP2|1|2A|U|387
5VP2|1|2A|G|388
5VP2|1|2A|G|389
5VP2|1|2A|A|390
5VP2|1|2A|G|391
5VP2|1|2A|C|392

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L28

Chain 2P

50S ribosomal protein L15