J4_5GAG_005

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

GGUUC*GGUGAG*CU*AAUCGUAC

Length

21 nucleotides

Bulged bases

5GAG|1|A|G|1341

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

J4_5GAG_005 not in the Motif Atlas

Homologous match to J4_5J7L_022

Geometric discrepancy: 0.0699

The information below is about J4_5J7L_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_69051.6

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

5GAG|1|A|G|1310
5GAG|1|A|G|1311
5GAG|1|A|U|1312
5GAG|1|A|U|1313
5GAG|1|A|C|1314
*
5GAG|1|A|G|1338
5GAG|1|A|G|1339
5GAG|1|A|U|1340
5GAG|1|A|G|1341
5GAG|1|A|A|1342
5GAG|1|A|G|1343
*
5GAG|1|A|C|1404
5GAG|1|A|U|1405
*
5GAG|1|A|A|1597
5GAG|1|A|A|1598
5GAG|1|A|U|1599
5GAG|1|A|C|1600
5GAG|1|A|G|1601
5GAG|1|A|U|1602
5GAG|1|A|A|1603
5GAG|1|A|C|1604

Current chains

Chain A

23S rRNA

Nearby chains

Chain U

50S ribosomal protein L23

Chain d

50S ribosomal protein L34