3D structure

PDB id
5MDY (explore in PDB, NAKB, or RNA 3D Hub)
Description
Structure of ArfA and TtRF2 bound to the 70S ribosome (pre-accommodated state)
Experimental method
ELECTRON MICROSCOPY
Resolution
3.35 Å

Loop

Sequence
GUGUAGGAUAGG*CCC
Length
15 nucleotides
Bulged bases
5MDY|1|1|U|2111, 5MDY|1|1|U|2118
QA status
Unknown status

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_5MDY_089 not in the Motif Atlas
Homologous match to IL_3U4M_001
Geometric discrepancy: 0.5199
The information below is about IL_3U4M_001
Detailed Annotation
Isolated non-canonical cWW pair
Broad Annotation
No text annotation
Motif group
IL_71625.1
Basepair signature
cWW-cWW-cWW
Number of instances in this motif group
65

Unit IDs

5MDY|1|1|G|2110
5MDY|1|1|U|2111
5MDY|1|1|G|2112
5MDY|1|1|U|2113
5MDY|1|1|A|2114
5MDY|1|1|G|2115
5MDY|1|1|G|2116
5MDY|1|1|A|2117
5MDY|1|1|U|2118
5MDY|1|1|A|2119
5MDY|1|1|G|2120
5MDY|1|1|G|2121
*
5MDY|1|1|C|2177
5MDY|1|1|C|2178
5MDY|1|1|C|2179

Current chains

Chain 1
23S ribosomal RNA

Nearby chains

No other chains within 10Å

Coloring options:


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