3D structure

PDB id
4V8F (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin).
Experimental method
X-RAY DIFFRACTION
Resolution
3.3 Å

Loop

Sequence
GUGG*CGU*AAGGUCG*CC
Length
16 nucleotides
Bulged bases
4V8F|1|BC|U|8, 4V8F|1|BC|U|48, 4V8F|1|BC|C|49
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_4V8F_015 not in the Motif Atlas
Homologous match to J4_5E81_027
Geometric discrepancy: 0.0972
The information below is about J4_5E81_027
Detailed Annotation
tRNA junction
Broad Annotation
No text annotation
Motif group
J4_70449.28
Basepair signature
cWW-F-cWW-cWW-cHS-F-cWW-cWW
Number of instances in this motif group
55

Unit IDs

4V8F|1|BC|G|7
4V8F|1|BC|U|8
4V8F|1|BC|G|9
4V8F|1|BC|G|10
*
4V8F|1|BC|C|26
4V8F|1|BC|G|27
4V8F|1|BC|U|28
*
4V8F|1|BC|A|44
4V8F|1|BC|A|45
4V8F|1|BC|G|46
4V8F|1|BC|G|47
4V8F|1|BC|U|48
4V8F|1|BC|C|49
4V8F|1|BC|G|50
*
4V8F|1|BC|C|66
4V8F|1|BC|C|67

Current chains

Chain BC
TRNA-FMET

Nearby chains

Chain A3
50S ribosomal protein L27
Chain AA
Large subunit ribosomal RNA; LSU rRNA
Chain AP
50S ribosomal protein L16
Chain BA
Small subunit ribosomal RNA; SSU rRNA
Chain BP
30S RIBOSOMAL PROTEIN S13

Coloring options:


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