IL_5VP2_202

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

GCACU*AAAC

Length

9 nucleotides

Bulged bases

None detected

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

IL_5VP2_202 not in the Motif Atlas

Homologous match to IL_4WF9_033

Geometric discrepancy: 0.1662

The information below is about IL_4WF9_033

Detailed Annotation

C-loop

Broad Annotation

No text annotation

Motif group

IL_16301.1

Basepair signature

cWW-cWS-tWH-R-L-R-cWW

Number of instances in this motif group

9

Unit IDs

5VP2|1|2A|G|864
5VP2|1|2A|C|865
5VP2|1|2A|A|866
5VP2|1|2A|C|867
5VP2|1|2A|U|868
*
5VP2|1|2A|A|909
5VP2|1|2A|A|910
5VP2|1|2A|A|911
5VP2|1|2A|C|912

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2B

5S ribosomal RNA; 5S rRNA

Chain 2Q

50S ribosomal protein L16

Chain 2Z

50S ribosomal protein L25