3D structure

PDB id
6GQ1 (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP/sordarin)
Experimental method
ELECTRON MICROSCOPY
Resolution
4.4 Å

Loop

Sequence
AGCU*ACGUUCUAGCAUUCAAG*UGAU
Length
25 nucleotides
Bulged bases
6GQ1|1|1|G|2549, 6GQ1|1|1|U|2550, 6GQ1|1|1|U|2551, 6GQ1|1|1|A|2554, 6GQ1|1|1|U|2558, 6GQ1|1|1|U|2559, 6GQ1|1|1|C|2560
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
J3_6GQ1_014 not in the Motif Atlas
Homologous match to J3_8P9A_060
Geometric discrepancy: 0.221
The information below is about J3_8P9A_060
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_28639.1
Basepair signature
cWW-tSS-F-cWW-F-cWW-F
Number of instances in this motif group
2

Unit IDs

6GQ1|1|1|A|2529
6GQ1|1|1|G|2530
6GQ1|1|1|C|2531
6GQ1|1|1|U|2532
*
6GQ1|1|1|A|2547
6GQ1|1|1|C|2548
6GQ1|1|1|G|2549
6GQ1|1|1|U|2550
6GQ1|1|1|U|2551
6GQ1|1|1|C|2552
6GQ1|1|1|U|2553
6GQ1|1|1|A|2554
6GQ1|1|1|G|2555
6GQ1|1|1|C|2556
6GQ1|1|1|A|2557
6GQ1|1|1|U|2558
6GQ1|1|1|U|2559
6GQ1|1|1|C|2560
6GQ1|1|1|A|2561
6GQ1|1|1|A|2562
6GQ1|1|1|G|2563
*
6GQ1|1|1|U|2578
6GQ1|1|1|G|2579
6GQ1|1|1|A|2580
6GQ1|1|1|U|2581

Current chains

Chain 1
Saccharomyces cerevisiae S288C 35S pre-ribosomal RNA (RDN37-1), miscRNA

Nearby chains

Chain A
60S ribosomal protein L2-A
Chain G
60S ribosomal protein L8-A
Chain X
60S ribosomal protein L25
Chain Z
60S ribosomal protein L27-A
Chain c
60S ribosomal protein L30
Chain g
60S ribosomal protein L34-A
Chain p
60S ribosomal protein L43-A

Coloring options:


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