J5_5GAG_004

3D structure

PDB id

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

Description

RNC in complex with SRP-SR in the closed state

Experimental method

ELECTRON MICROSCOPY

Resolution

3.8 Å

Loop

Sequence

GCAAAAUGG*CG*UC*GAUACCAGC*GGC

Length

25 nucleotides

Bulged bases

5GAG|1|A|U|1758, 5GAG|1|A|G|1763

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_5GAG_004 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.0777

The information below is about J5_5J7L_016

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_62523.6

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

5GAG|1|A|G|1674
5GAG|1|A|C|1675
5GAG|1|A|A|1676
5GAG|1|A|A|1677
5GAG|1|A|A|1678
5GAG|1|A|A|1679
5GAG|1|A|U|1680
5GAG|1|A|G|1681
5GAG|1|A|G|1682
*
5GAG|1|A|C|1706
5GAG|1|A|G|1707
*
5GAG|1|A|U|1751
5GAG|1|A|C|1752
*
5GAG|1|A|G|1756
5GAG|1|A|A|1757
5GAG|1|A|U|1758
5GAG|1|A|A|1759
5GAG|1|A|C|1760
5GAG|1|A|C|1761
5GAG|1|A|A|1762
5GAG|1|A|G|1763
5GAG|1|A|C|1764
*
5GAG|1|A|G|1988
5GAG|1|A|G|1989
5GAG|1|A|C|1990

Current chains

Chain A

23S rRNA

Nearby chains

Chain D

50S ribosomal protein L3

Chain L

50S ribosomal protein L14

Chain Q

50S ribosomal protein L19