J4_6C5L_026

3D structure

PDB id

6C5L (explore in PDB, NAKB, or RNA 3D Hub)

Description

Conformation of methylated GGQ in the Peptidyl Transferase Center during translation termination (T. thermophilus)

Experimental method

X-RAY DIFFRACTION

Resolution

3.2 Å

Loop

Sequence

CGAUAAA*UC*GCGC*GG

Length

15 nucleotides

Bulged bases

6C5L|1|DA|G|1271, 6C5L|1|DA|A|1272, 6C5L|1|DA|U|1273, 6C5L|1|DA|G|1647

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_6C5L_026 not in the Motif Atlas

Homologous match to J4_9DFE_003

Geometric discrepancy: 0.0967

The information below is about J4_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.6

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

6C5L|1|DA|C|1270
6C5L|1|DA|G|1271
6C5L|1|DA|A|1272
6C5L|1|DA|U|1273
6C5L|1|DA|A|1274
6C5L|1|DA|A|1275
6C5L|1|DA|A|1276
*
6C5L|1|DA|U|1294
6C5L|1|DA|C|1295
*
6C5L|1|DA|G|1645
6C5L|1|DA|C|1646
6C5L|1|DA|G|1647
6C5L|1|DA|C|1648
*
6C5L|1|DA|G|2009
6C5L|1|DA|G|2010

Current chains

Chain DA

23S rRNA

Nearby chains

Chain D5

50S ribosomal protein L32

Chain DR

50S ribosomal protein L17

Chain DW

50S ribosomal protein L22