3D structure

PDB id
4V5D (explore in PDB, NAKB, or RNA 3D Hub)
Description
Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A- and P-site tRNAs, and E-site tRNA.
Experimental method
X-RAY DIFFRACTION
Resolution
3.5 Å

Loop

Sequence
AUUGAAAAU
Length
9 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_4V5D_033 not in the Motif Atlas
Homologous match to HL_6UFG_007
Geometric discrepancy: 0.1257
The information below is about HL_6UFG_007
Detailed Annotation
tRNA anticodon loop
Broad Annotation
Anticodon loop
Motif group
HL_06059.6
Basepair signature
cWW-F-F-F-F-F-F-F
Number of instances in this motif group
51

Unit IDs

4V5D|1|AV|A|31
4V5D|1|AV|U|32
4V5D|1|AV|U|33
4V5D|1|AV|G|34
4V5D|1|AV|A|35
4V5D|1|AV|A|36
4V5D|1|AV|A|37
4V5D|1|AV|A|38
4V5D|1|AV|U|39

Current chains

Chain AV
P AND A-SITE PHE-TRNA PHE

Nearby chains

Chain AA
Small subunit ribosomal RNA; SSU rRNA
Chain AI
30S RIBOSOMAL PROTEIN S9
Chain AM
30S RIBOSOMAL PROTEIN S13
Chain AW
Transfer RNA; tRNA
Chain AX
MRNA

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