J5_5GAG_001

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

CGAUGAAG*CGAAUG*CA*UAU*AGG

Length

22 nucleotides

Bulged bases

5GAG|1|A|U|50

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_001 not in the Motif Atlas

Homologous match to J5_5J7L_013

Geometric discrepancy: 0.0703

The information below is about J5_5J7L_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

5GAG|1|A|C|47
5GAG|1|A|G|48
5GAG|1|A|A|49
5GAG|1|A|U|50
5GAG|1|A|G|51
5GAG|1|A|A|52
5GAG|1|A|A|53
5GAG|1|A|G|54
*
5GAG|1|A|C|116
5GAG|1|A|G|117
5GAG|1|A|A|118
5GAG|1|A|A|119
5GAG|1|A|U|120
5GAG|1|A|G|121
*
5GAG|1|A|C|130
5GAG|1|A|A|131
*
5GAG|1|A|U|148
5GAG|1|A|A|149
5GAG|1|A|U|150
*
5GAG|1|A|A|176
5GAG|1|A|G|177
5GAG|1|A|G|178

Current chains

Chain A

23S rRNA

Nearby chains

Chain d

50S ribosomal protein L34