3D structure

PDB id
6M62 (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-Em structure of eukaryotic pre-60S ribosome subunit from Saccharomyces cerevisiae rpf2 delta 255-344 strain, C4 state.
Experimental method
ELECTRON MICROSCOPY
Resolution
3.2 Å

Loop

Sequence
GCAAAAUAG*UG*UG*CGGACAAGG*CAC
Length
25 nucleotides
Bulged bases
6M62|1|1|G|2116, 6M62|1|1|G|2121
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_6M62_004 not in the Motif Atlas
Homologous match to J5_8P9A_013
Geometric discrepancy: 0.1032
The information below is about J5_8P9A_013
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

6M62|1|1|G|1906
6M62|1|1|C|1907
6M62|1|1|A|1908
6M62|1|1|A|1909
6M62|1|1|A|1910
6M62|1|1|A|1911
6M62|1|1|U|1912
6M62|1|1|A|1913
6M62|1|1|G|1914
*
6M62|1|1|U|1938
6M62|1|1|G|1939
*
6M62|1|1|U|2109
6M62|1|1|G|2110
*
6M62|1|1|C|2114
6M62|1|1|G|2115
6M62|1|1|G|2116
6M62|1|1|A|2117
6M62|1|1|C|2118
6M62|1|1|A|2119
6M62|1|1|A|2120
6M62|1|1|G|2121
6M62|1|1|G|2122
*
6M62|1|1|C|2331
6M62|1|1|A|2332
6M62|1|1|C|2333

Current chains

Chain 1
RDN25-1 rRNA

Nearby chains

Chain B
60S ribosomal protein L3
Chain I
Bud site selection protein 20
Chain R
60S ribosomal protein L19-A
Chain V
60S ribosomal protein L23-A
Chain m
Nucleolar GTP-binding protein 2
Chain u
Ribosome biogenesis protein RLP24

Coloring options:


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