J5_5DGE_017

3D structure

PDB id

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

Description

Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.45 Å

Loop

Sequence

UUGA*UUUG*CA*UG*CAGAAAA

Length

19 nucleotides

Bulged bases

5DGE|1|5|G|2418, 5DGE|1|5|A|2799, 5DGE|1|5|G|2800, 5DGE|1|5|A|2801, 5DGE|1|5|A|2802

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_5DGE_017 not in the Motif Atlas

Homologous match to J5_8P9A_015

Geometric discrepancy: 0.0632

The information below is about J5_8P9A_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_96125.1

Basepair signature

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

Number of instances in this motif group

6

Unit IDs

5DGE|1|5|U|2416
5DGE|1|5|U|2417
5DGE|1|5|G|2418
5DGE|1|5|A|2419
*
5DGE|1|5|U|2611
5DGE|1|5|U|2612
5DGE|1|5|U|2613
5DGE|1|5|G|2614
*
5DGE|1|5|C|2627
5DGE|1|5|A|2628
*
5DGE|1|5|U|2650
5DGE|1|5|G|2651
*
5DGE|1|5|C|2798
5DGE|1|5|A|2799
5DGE|1|5|G|2800
5DGE|1|5|A|2801
5DGE|1|5|A|2802
5DGE|1|5|A|2803
5DGE|1|5|A|2804

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain f

Eukaryotic translation initiation factor 5A-1

Chain l2

60S ribosomal protein L2-A

Chain m5

60S ribosomal protein L15-A

Chain m8

60S ribosomal protein L18-A

Chain n1

60S ribosomal protein L21-A

Chain n8

60S ribosomal protein L28

Chain n9

60S ribosomal protein L29

Chain q2

60S ribosomal protein L42-A