J4_4V5C_021

3D structure

PDB id

4V5C (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A-site tRNA, deacylated P-site tRNA, and E-site tRNA.

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

AUAG*CAG*CGUGUCC*GU

Length

16 nucleotides

Bulged bases

4V5C|1|CW|U|8, 4V5C|1|CW|U|47, 4V5C|1|CW|C|48

QA status

Unknown status

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_4V5C_021 not in the Motif Atlas

Homologous match to J4_3TUP_001

Geometric discrepancy: 0.348

The information below is about J4_3TUP_001

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

4V5C|1|CW|A|7
4V5C|1|CW|U|8
4V5C|1|CW|A|9
4V5C|1|CW|G|10
*
4V5C|1|CW|C|25
4V5C|1|CW|A|26
4V5C|1|CW|G|27
*
4V5C|1|CW|C|43
4V5C|1|CW|G|44
4V5C|1|CW|U|45
4V5C|1|CW|G|46
4V5C|1|CW|U|47
4V5C|1|CW|C|48
4V5C|1|CW|C|49
*
4V5C|1|CW|G|65
4V5C|1|CW|U|66

Current chains

Chain CW

E-SITE TRNA PHE

Nearby chains

Chain CG

30S RIBOSOMAL PROTEIN S7

Chain CK

30S RIBOSOMAL PROTEIN S11

Chain D6

50S RIBOSOMAL PROTEIN L33

Chain DC

50S RIBOSOMAL PROTEIN L1