HL_5VP2_231

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

CCAUGGACGAG

Length

11 nucleotides

Bulged bases

5VP2|1|2A|A|1452, 5VP2|1|2A|U|1453, 5VP2|1|2A|A|1460

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_231 not in the Motif Atlas

Geometric match to HL_5J7L_200

Geometric discrepancy: 0.2511

The information below is about HL_5J7L_200

Detailed Annotation

UNCG variation

Broad Annotation

UNCG variation

Motif group

HL_08100.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

4

Unit IDs

5VP2|1|2A|C|1450|||A
5VP2|1|2A|C|1451
5VP2|1|2A|A|1452
5VP2|1|2A|U|1453
5VP2|1|2A|G|1455
5VP2|1|2A|G|1456
5VP2|1|2A|A|1457
5VP2|1|2A|C|1458
5VP2|1|2A|G|1459
5VP2|1|2A|A|1460
5VP2|1|2A|G|1461

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2R

50S ribosomal protein L17