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
GCAAAAUAG*UG*UG*CGGACAAGG*CAC
Length
25 nucleotides
Bulged bases
9BUP|1|AA|G|2409, 9BUP|1|AA|G|2414
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
J5_9BUP_003 not in the Motif Atlas
Homologous match to J5_8CRE_004
Geometric discrepancy: 0.1444
The information below is about J5_8CRE_004
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J5_62523.6
Basepair signature
cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
Number of instances in this motif group
7

Unit IDs

9BUP|1|AA|G|2174
9BUP|1|AA|C|2175
9BUP|1|AA|A|2176
9BUP|1|AA|A|2177
9BUP|1|AA|A|2178
9BUP|1|AA|A|2179
9BUP|1|AA|U|2180
9BUP|1|AA|A|2181
9BUP|1|AA|G|2182
*
9BUP|1|AA|U|2206
9BUP|1|AA|G|2207
*
9BUP|1|AA|U|2402
9BUP|1|AA|G|2403
*
9BUP|1|AA|C|2407
9BUP|1|AA|G|2408
9BUP|1|AA|G|2409
9BUP|1|AA|A|2410
9BUP|1|AA|C|2411
9BUP|1|AA|A|2412
9BUP|1|AA|A|2413
9BUP|1|AA|G|2414
9BUP|1|AA|G|2415
*
9BUP|1|AA|C|2624
9BUP|1|AA|A|2625
9BUP|1|AA|C|2626

Current chains

Chain AA
28S ribosomal RNA

Nearby chains

Chain A0
60S ribosomal protein L24
Chain AE
60S ribosomal protein L3
Chain AM
60S ribosomal protein L23
Chain AT
60S ribosomal protein L19
Chain SA
Small subunit ribosomal RNA; SSU rRNA

Coloring options:


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