J4_6TNU_013

3D structure

PDB id

6TNU (explore in PDB, NAKB, or RNA 3D Hub)

Description

Yeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs.

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

GU(1MG)(2MG)*C(M2G)C*GAU(G7M)U(5MC)C*GC

Length

16 nucleotides

Bulged bases

6TNU|1|n|U|8, 6TNU|1|n|U|47, 6TNU|1|n|5MC|48

QA status

Modified nucleotides: 1MG, 2MG, M2G, G7M, 5MC

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_6TNU_013 not in the Motif Atlas

Homologous match to J4_7K98_001

Geometric discrepancy: 0.2293

The information below is about J4_7K98_001

Detailed Annotation

No text annotation

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

6TNU|1|n|G|7
6TNU|1|n|U|8
6TNU|1|n|1MG|9
6TNU|1|n|2MG|10
*
6TNU|1|n|C|25
6TNU|1|n|M2G|26
6TNU|1|n|C|27
*
6TNU|1|n|G|43
6TNU|1|n|A|44
6TNU|1|n|U|45
6TNU|1|n|G7M|46
6TNU|1|n|U|47
6TNU|1|n|5MC|48
6TNU|1|n|C|49
*
6TNU|1|n|G|65
6TNU|1|n|C|66

Current chains

Chain n

P-site tRNA

Nearby chains

Chain BD

60S ribosomal protein L10

Chain BQ

Large subunit ribosomal RNA; LSU rRNA

Chain K

40S ribosomal protein S25-A