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
CU*GAGUAC*GGAAUCUG*UAAG
Length
20 nucleotides
Bulged bases
4V5D|1|DA|U|405
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
J4_4V5D_023 not in the Motif Atlas
Homologous match to J4_9DFE_001
Geometric discrepancy: 0.1627
The information below is about J4_9DFE_001
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J4_45801.6
Basepair signature
cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-F-cWW
Number of instances in this motif group
7

Unit IDs

4V5D|1|DA|C|268
4V5D|1|DA|U|269
*
4V5D|1|DA|G|370
4V5D|1|DA|A|371
4V5D|1|DA|G|372
4V5D|1|DA|U|373
4V5D|1|DA|A|374
4V5D|1|DA|C|375
*
4V5D|1|DA|G|399
4V5D|1|DA|G|400
4V5D|1|DA|A|401
4V5D|1|DA|A|402
4V5D|1|DA|U|403
4V5D|1|DA|C|404
4V5D|1|DA|U|405
4V5D|1|DA|G|406
*
4V5D|1|DA|U|421
4V5D|1|DA|A|422
4V5D|1|DA|A|423
4V5D|1|DA|G|424

Current chains

Chain DA
23S RIBOSOMAL RNA

Nearby chains

Chain D1
50S RIBOSOMAL PROTEIN L28
Chain DI
50S RIBOSOMAL PROTEIN L9

Coloring options:


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