3D structure

PDB id
8CF5 (explore in PDB, NAKB, or RNA 3D Hub)
Description
Translocation intermediate 1 (TI-1) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin
Experimental method
ELECTRON MICROSCOPY
Resolution
2.71 Å

Loop

Sequence
UCUUAG*CGAGAC*GCAAUA
Length
18 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
J3_8CF5_020 not in the Motif Atlas
Homologous match to J3_4V88_039
Geometric discrepancy: 0.1437
The information below is about J3_4V88_039
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_47248.1
Basepair signature
cWW-F-F-F-F-F-tHH-F-cWW-cWW-F-F-F
Number of instances in this motif group
1

Unit IDs

8CF5|1|c|U|1283
8CF5|1|c|C|1284
8CF5|1|c|U|1285
8CF5|1|c|U|1286
8CF5|1|c|A|1287
8CF5|1|c|G|1288
*
8CF5|1|c|C|1327
8CF5|1|c|G|1328
8CF5|1|c|A|1329
8CF5|1|c|G|1330
8CF5|1|c|A|1331
8CF5|1|c|C|1332
*
8CF5|1|c|G|1419
8CF5|1|c|C|1420
8CF5|1|c|A|1421
8CF5|1|c|A|1422
8CF5|1|c|U|1423
8CF5|1|c|A|1424

Current chains

Chain c
18S ribosomal RNA

Nearby chains

Chain 5
HLJ1_G0030400.mRNA.1.CDS.1
Chain f
40S ribosomal protein S2
Chain g
RPS3 isoform 1
Chain s
40S ribosomal protein S16-A
Chain t
40S ribosomal protein S17-A
Chain w
40S ribosomal protein S20

Coloring options:


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