J7_5VP2_002

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

CGAAAU*AG*UGAG*CGAGCGC*GAGAC*GG*CGGUAG

Length

32 nucleotides

Bulged bases

5VP2|1|2A|A|945, 5VP2|1|2A|C|975

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5VP2|1|2A|C|817
5VP2|1|2A|G|818
5VP2|1|2A|A|819
5VP2|1|2A|A|820
5VP2|1|2A|A|821
5VP2|1|2A|U|822
*
5VP2|1|2A|A|835
5VP2|1|2A|G|836
*
5VP2|1|2A|U|943
5VP2|1|2A|G|944
5VP2|1|2A|A|945
5VP2|1|2A|G|946
*
5VP2|1|2A|C|971
5VP2|1|2A|G|972
5VP2|1|2A|A|973
5VP2|1|2A|G|974
5VP2|1|2A|C|975
5VP2|1|2A|G|975|||A
5VP2|1|2A|C|976
*
5VP2|1|2A|G|987
5VP2|1|2A|A|988
5VP2|1|2A|G|989
5VP2|1|2A|A|990
5VP2|1|2A|C|991
*
5VP2|1|2A|G|1163
5VP2|1|2A|G|1164
*
5VP2|1|2A|C|1185
5VP2|1|2A|G|1186
5VP2|1|2A|G|1187
5VP2|1|2A|U|1188
5VP2|1|2A|A|1189
5VP2|1|2A|G|1190

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 23

50S ribosomal protein L30

Chain 28

50S ribosomal protein L35

Chain 2B

5S ribosomal RNA; 5S rRNA

Chain 2P

50S ribosomal protein L15

Chain 2U

50S ribosomal protein L20

Chain 2V

50S ribosomal protein L21