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
CUGCAACUCG
Length
10 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
HL_5MDY_097 not in the Motif Atlas
Homologous match to HL_4LFB_029
Geometric discrepancy: 0.0843
The information below is about HL_4LFB_029
Detailed Annotation
T-loop with 3 stacked bulged bases
Broad Annotation
T-loop
Motif group
HL_93658.1
Basepair signature
cWW-tWH-F-F-F-F-F-F
Number of instances in this motif group
2

Unit IDs

5MDY|1|2|C|1314
5MDY|1|2|U|1315
5MDY|1|2|G|1316
5MDY|1|2|C|1317
5MDY|1|2|A|1318
5MDY|1|2|A|1319
5MDY|1|2|C|1320
5MDY|1|2|U|1321
5MDY|1|2|C|1322
5MDY|1|2|G|1323

Current chains

Chain 2
16S ribosomal RNA

Nearby chains

Chain r
30S ribosomal protein S13
Chain s
30S ribosomal protein S14
Chain x
30S ribosomal protein S19

Coloring options:


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