J5_4V8Y_008

3D structure

PDB id

4V8Y (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM reconstruction of the 80S-eIF5B-Met-itRNAMet Eukaryotic Translation Initiation Complex

Experimental method

ELECTRON MICROSCOPY

Resolution

4.3 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

4V8Y|1|B5|U|719, 4V8Y|1|B5|A|784, 4V8Y|1|B5|G|785

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

J5_4V8Y_008 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.0594

The information below is about J5_8P9A_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_56629.1

Basepair signature

cWW-F-F-tSS-F-cWW-cWW-F-F-cWW-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

3

Unit IDs

4V8Y|1|B5|C|675
4V8Y|1|B5|G|676
4V8Y|1|B5|A|677
4V8Y|1|B5|G|678
*
4V8Y|1|B5|C|702
4V8Y|1|B5|G|703
4V8Y|1|B5|U|704
4V8Y|1|B5|A|705
4V8Y|1|B5|A|706
*
4V8Y|1|B5|U|713
4V8Y|1|B5|G|714
4V8Y|1|B5|A|715
4V8Y|1|B5|A|716
4V8Y|1|B5|C|717
4V8Y|1|B5|G|718
4V8Y|1|B5|U|719
4V8Y|1|B5|A|720
4V8Y|1|B5|G|721
*
4V8Y|1|B5|C|749
4V8Y|1|B5|G|750
4V8Y|1|B5|A|751
*
4V8Y|1|B5|U|782
4V8Y|1|B5|A|783
4V8Y|1|B5|A|784
4V8Y|1|B5|G|785
4V8Y|1|B5|A|786
4V8Y|1|B5|G|787

Current chains

Chain B5

25S RIBOSOMAL RNA

Nearby chains

Chain BC

60S RIBOSOMAL PROTEIN L4-A

Chain BL

60S RIBOSOMAL PROTEIN L13-A

Chain BQ

60S RIBOSOMAL PROTEIN L18-A

Chain Ba

60S RIBOSOMAL PROTEIN L28

Chain Bb

60S RIBOSOMAL PROTEIN L29

Chain Bi

60S RIBOSOMAL PROTEIN L36-A