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
GUGCCAG*CGGUAAUAC
Length
16 nucleotides
Bulged bases
4V5D|1|AA|A|532, 4V5D|1|AA|U|534, 4V5D|1|AA|A|535
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
IL_4V5D_351 not in the Motif Atlas
Homologous match to IL_4LFB_021
Geometric discrepancy: 0.2295
The information below is about IL_4LFB_021
Detailed Annotation
Kink-turn related
Broad Annotation
No text annotation
Motif group
IL_54177.4
Basepair signature
cWW-cSW-tWH-L-R-L-R-tHS-cWW
Number of instances in this motif group
4

Unit IDs

4V5D|1|AA|G|515
4V5D|1|AA|U|516
4V5D|1|AA|G|517
4V5D|1|AA|C|518
4V5D|1|AA|C|519
4V5D|1|AA|A|520
4V5D|1|AA|G|521
*
4V5D|1|AA|C|528
4V5D|1|AA|G|529
4V5D|1|AA|G|530
4V5D|1|AA|U|531
4V5D|1|AA|A|532
4V5D|1|AA|A|533
4V5D|1|AA|U|534
4V5D|1|AA|A|535
4V5D|1|AA|C|536

Current chains

Chain AA
16S ribosomal RNA

Nearby chains

Chain AC
30S RIBOSOMAL PROTEIN S3
Chain AD
30S RIBOSOMAL PROTEIN S4
Chain AL
30S RIBOSOMAL PROTEIN S12
Chain AX
MRNA
Chain AY
Transfer RNA; tRNA

Coloring options:


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