3D structure

PDB id
9BUP (explore in PDB, NAKB, or RNA 3D Hub)
Description
Single particle CryoEM structure of the Pf80S ribosome in non-rotated PRE state (nrt A-P-E)
Experimental method
ELECTRON MICROSCOPY
Resolution
2.7 Å

Loop

Sequence
CAGGUAG*CCAAUAG
Length
14 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_9BUP_041 not in the Motif Atlas
Homologous match to IL_8P9A_266
Geometric discrepancy: 0.0995
The information below is about IL_8P9A_266
Detailed Annotation
7x7 Sarcin-Ricin with intercalated A; G-bulge
Broad Annotation
Sarcin-Ricin; G-bulge
Motif group
IL_94128.1
Basepair signature
cWW-cWW-L-R-cSH-R-tWH-tHS-cWW
Number of instances in this motif group
5

Unit IDs

9BUP|1|AA|C|1113
9BUP|1|AA|A|1114
9BUP|1|AA|G|1115
9BUP|1|AA|G|1116
9BUP|1|AA|U|1117
9BUP|1|AA|A|1118
9BUP|1|AA|G|1119
*
9BUP|1|AA|C|1175
9BUP|1|AA|C|1176
9BUP|1|AA|A|1177
9BUP|1|AA|A|1178
9BUP|1|AA|U|1179
9BUP|1|AA|A|1180
9BUP|1|AA|G|1181

Current chains

Chain AA
28S ribosomal RNA

Nearby chains

Chain A4
60S ribosomal protein L29
Chain A5
60S ribosomal protein L7
Chain AB
5S ribosomal RNA; 5S rRNA
Chain AQ
60S ribosomal protein L10
Chain AR
60S ribosomal protein L5
Chain AU
60S ribosomal protein L18a
Chain AV
60S ribosomal protein L21

Coloring options:


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