J5_5MLC_006

3D structure

PDB id

5MLC (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the spinach chloroplast ribosome reveals the location of plastid-specific ribosomal proteins and extensions

Experimental method

ELECTRON MICROSCOPY

Resolution

3.6 Å

Loop

Sequence

UUUA*UUUC*GG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

5MLC|1|A|U|2090, 5MLC|1|A|G|2445, 5MLC|1|A|G|2446, 5MLC|1|A|A|2447, 5MLC|1|A|U|2448, 5MLC|1|A|A|2451

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_5MLC_006 not in the Motif Atlas

Homologous match to J5_4WF9_007

Geometric discrepancy: 0.0968

The information below is about J5_4WF9_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.2

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

5MLC|1|A|U|2088
5MLC|1|A|U|2089
5MLC|1|A|U|2090
5MLC|1|A|A|2091
*
5MLC|1|A|U|2260
5MLC|1|A|U|2261
5MLC|1|A|U|2262
5MLC|1|A|C|2263
*
5MLC|1|A|G|2275
5MLC|1|A|G|2276
*
5MLC|1|A|C|2298
5MLC|1|A|G|2299
*
5MLC|1|A|C|2444
5MLC|1|A|G|2445
5MLC|1|A|G|2446
5MLC|1|A|A|2447
5MLC|1|A|U|2448
5MLC|1|A|A|2449
5MLC|1|A|A|2450
5MLC|1|A|A|2451
5MLC|1|A|A|2452

Current chains

Chain A

23S ribosomal RNA, chloroplastic

Nearby chains

Chain 5

50S ribosomal protein L35, chloroplastic

Chain D

50S ribosomal protein L2, chloroplastic

Chain N

50S ribosomal protein L15, chloroplastic

Chain X

50S ribosomal protein L27, chloroplastic

Chain Y

50S ribosomal protein L28, chloroplastic