J3_4WF1_089

3D structure

PDB id

4WF1 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the E. coli ribosome bound to negamycin.

Experimental method

X-RAY DIFFRACTION

Resolution

3.09 Å

Loop

Sequence

GC*GCGAAAAGAAC*GAGUGAAAAAGAACC

Length

28 nucleotides

Bulged bases

4WF1|1|DA|A|504, 4WF1|1|DA|A|508

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

J3_4WF1_089 not in the Motif Atlas

Homologous match to J3_5J7L_066

Geometric discrepancy: 0.0895

The information below is about J3_5J7L_066

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_92134.2

Basepair signature

cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW

Number of instances in this motif group

6

Unit IDs

4WF1|1|DA|G|30
4WF1|1|DA|C|31
*
4WF1|1|DA|G|474
4WF1|1|DA|C|475
4WF1|1|DA|G|476
4WF1|1|DA|A|477
4WF1|1|DA|A|478
4WF1|1|DA|A|479
4WF1|1|DA|A|480
4WF1|1|DA|G|481
4WF1|1|DA|A|482
4WF1|1|DA|A|483
4WF1|1|DA|C|484
*
4WF1|1|DA|G|496
4WF1|1|DA|A|497
4WF1|1|DA|G|498
4WF1|1|DA|U|499
4WF1|1|DA|G|500
4WF1|1|DA|A|501
4WF1|1|DA|A|502
4WF1|1|DA|A|503
4WF1|1|DA|A|504
4WF1|1|DA|A|505
4WF1|1|DA|G|506
4WF1|1|DA|A|507
4WF1|1|DA|A|508
4WF1|1|DA|C|509
4WF1|1|DA|C|510

Current chains

Chain DA

23S rRNA

Nearby chains

Chain DQ

50S ribosomal protein L20

Chain DS

50S ribosomal protein L22

Chain DU

50S ribosomal protein L24