J5_8VPK_005

3D structure

PDB id

8VPK (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and erythromycin:50S-HflX-B-Ery

Experimental method

ELECTRON MICROSCOPY

Resolution

2.63 Å

Loop

Sequence

GCAAAAUGC*GA*UG*CAAACCAGU*AAC

Length

25 nucleotides

Bulged bases

8VPK|1|A|A|1975, 8VPK|1|A|G|1980

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_8VPK_005 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.116

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

8VPK|1|A|G|1892
8VPK|1|A|C|1893
8VPK|1|A|A|1894
8VPK|1|A|A|1895
8VPK|1|A|A|1896
8VPK|1|A|A|1897
8VPK|1|A|U|1898
8VPK|1|A|G|1899
8VPK|1|A|C|1900
*
8VPK|1|A|G|1924
8VPK|1|A|A|1925
*
8VPK|1|A|U|1968
8VPK|1|A|G|1969
*
8VPK|1|A|C|1973
8VPK|1|A|A|1974
8VPK|1|A|A|1975
8VPK|1|A|A|1976
8VPK|1|A|C|1977
8VPK|1|A|C|1978
8VPK|1|A|A|1979
8VPK|1|A|G|1980
8VPK|1|A|U|1981
*
8VPK|1|A|A|2212
8VPK|1|A|A|2213
8VPK|1|A|C|2214

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain D

50S ribosomal protein L3

Chain L

50S ribosomal protein L14

Chain Q

50S ribosomal protein L19