J3_5IT9_006

3D structure

PDB id

5IT9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the yeast Kluyveromyces lactis small ribosomal subunit in complex with the cricket paralysis virus IRES.

Experimental method

ELECTRON MICROSCOPY

Resolution

3.8 Å

Loop

Sequence

CCAG*CUAGUAA*UGAUUACG

Length

19 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

J3_5IT9_006 not in the Motif Atlas

Homologous match to J3_4V88_035

Geometric discrepancy: 0.1929

The information below is about J3_4V88_035

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.1

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

5IT9|1|2|C|1160
5IT9|1|2|C|1161
5IT9|1|2|A|1162
5IT9|1|2|G|1163
*
5IT9|1|2|C|1579
5IT9|1|2|U|1580
5IT9|1|2|A|1581
5IT9|1|2|G|1582
5IT9|1|2|U|1583
5IT9|1|2|A|1584
5IT9|1|2|A|1585
*
5IT9|1|2|U|1607
5IT9|1|2|G|1608
5IT9|1|2|A|1609
5IT9|1|2|U|1610
5IT9|1|2|U|1611
5IT9|1|2|A|1612
5IT9|1|2|C|1613
5IT9|1|2|G|1614

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain F

Ribosomal protein uS7

Chain Q

Ribosomal protein uS9

Chain c

Ribosomal protein eS28