J5_5DGF_022

3D structure

PDB id

5DGF (explore in PDB, NAKB, or RNA 3D Hub)

Description

Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

ACUUUG*UUUCCU*ACUUU*AUAGAAUAGGA*UAAUGAU

Length

35 nucleotides

Bulged bases

5DGF|1|6|U|638, 5DGF|1|6|U|639, 5DGF|1|6|U|694, 5DGF|1|6|C|696, 5DGF|1|6|U|742, 5DGF|1|6|U|813, 5DGF|1|6|G|815, 5DGF|1|6|A|856

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5DGF|1|6|A|636
5DGF|1|6|C|637
5DGF|1|6|U|638
5DGF|1|6|U|639
5DGF|1|6|U|640
5DGF|1|6|G|641
*
5DGF|1|6|U|693
5DGF|1|6|U|694
5DGF|1|6|U|695
5DGF|1|6|C|696
5DGF|1|6|C|697
5DGF|1|6|U|698
*
5DGF|1|6|A|740
5DGF|1|6|C|741
5DGF|1|6|U|742
5DGF|1|6|U|743
5DGF|1|6|U|744
*
5DGF|1|6|A|807
5DGF|1|6|U|808
5DGF|1|6|A|809
5DGF|1|6|G|810
5DGF|1|6|A|811
5DGF|1|6|A|812
5DGF|1|6|U|813
5DGF|1|6|A|814
5DGF|1|6|G|815
5DGF|1|6|G|816
5DGF|1|6|A|817
*
5DGF|1|6|U|854
5DGF|1|6|A|855
5DGF|1|6|A|856
5DGF|1|6|U|857
5DGF|1|6|G|858
5DGF|1|6|A|859
5DGF|1|6|U|860

Current chains

Chain 6

18S ribosomal RNA

Nearby chains

Chain c1

40S ribosomal protein S11-A

Chain c3

40S ribosomal protein S13

Chain d2

40S ribosomal protein S22-A

Chain m9

60S ribosomal protein L19-A

Chain s4

40S ribosomal protein S4-A

Chain s7

40S ribosomal protein S7-A