J4_5GAG_003

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

CAAG*CGAAG*CGAG*CGUUAAG

Length

20 nucleotides

Bulged bases

None detected

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_003 not in the Motif Atlas

Homologous match to J4_5J7L_020

Geometric discrepancy: 0.5101

The information below is about J4_5J7L_020

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_60168.1

Basepair signature

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

Number of instances in this motif group

2

Unit IDs

5GAG|1|A|C|601
5GAG|1|A|A|602
5GAG|1|A|A|603
5GAG|1|A|G|604
*
5GAG|1|A|C|624
5GAG|1|A|G|625
5GAG|1|A|A|626
5GAG|1|A|A|627
5GAG|1|A|G|628
*
5GAG|1|A|C|635
5GAG|1|A|G|636
5GAG|1|A|A|637
5GAG|1|A|G|638
*
5GAG|1|A|C|650
5GAG|1|A|G|651
5GAG|1|A|U|652
5GAG|1|A|U|653
5GAG|1|A|A|654
5GAG|1|A|A|655
5GAG|1|A|G|656

Current chains

Chain A

23S rRNA

Nearby chains

Chain E

50S ribosomal protein L4

Chain M

50S ribosomal protein L15

Chain e

50S ribosomal protein L35