J4_5VP2_013
3D structure
- PDB id
- 5VP2 (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of the Thermus thermophilus 70S ribosome in complex with madumycin II and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.8 Å
Loop
- Sequence
- GGG*CGAAAG*CCCUAAACGAUG*CC
- Length
- 23 nucleotides
- Bulged bases
- 5VP2|1|1a|G|576, 5VP2|1|1a|A|815
- 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_5VP2_013 not in the Motif Atlas
- Homologous match to J4_4LFB_003
- Geometric discrepancy: 0.0578
- The information below is about J4_4LFB_003
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_14595.1
- Basepair signature
- cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F
- Number of instances in this motif group
- 5
Unit IDs
5VP2|1|1a|G|575
5VP2|1|1a|G|576
5VP2|1|1a|G|577
*
5VP2|1|1a|C|764
5VP2|1|1a|G|765
5VP2|1|1a|A|766
5VP2|1|1a|A|767
5VP2|1|1a|A|768
5VP2|1|1a|G|769
*
5VP2|1|1a|C|810
5VP2|1|1a|C|811
5VP2|1|1a|C|812
5VP2|1|1a|U|813
5VP2|1|1a|A|814
5VP2|1|1a|A|815
5VP2|1|1a|A|816
5VP2|1|1a|C|817
5VP2|1|1a|G|818
5VP2|1|1a|A|819
5VP2|1|1a|U|820
5VP2|1|1a|G|821
*
5VP2|1|1a|C|879
5VP2|1|1a|C|880
Current chains
- Chain 1a
- 16S ribosomal RNA
Nearby chains
- Chain 1A
- Large subunit ribosomal RNA; LSU rRNA
- Chain 1h
- 30S ribosomal protein S8
- Chain 1l
- 30S ribosomal protein S12
- Chain 1o
- 30S ribosomal protein S15
- Chain 1q
- 30S ribosomal protein S17
Coloring options: