J4_9F9S_003

3D structure

PDB id

9F9S (explore in PDB, NAKB, or RNA 3D Hub)

Description

Yeast SDD1 Disome with Mbf1

Experimental method

ELECTRON MICROSCOPY

Resolution

2.9 Å

Loop

Sequence

GUGG*CGU*AAGGUCG*CC

Length

16 nucleotides

Bulged bases

9F9S|1|DQ|U|8, 9F9S|1|DQ|U|48, 9F9S|1|DQ|C|49

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_9F9S_003 not in the Motif Atlas

Homologous match to J4_7MRL_001

Geometric discrepancy: 0.2294

The information below is about J4_7MRL_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_70449.29

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

54

Unit IDs

9F9S|1|DQ|G|7
9F9S|1|DQ|U|8
9F9S|1|DQ|G|9
9F9S|1|DQ|G|10
*
9F9S|1|DQ|C|26
9F9S|1|DQ|G|27
9F9S|1|DQ|U|28
*
9F9S|1|DQ|A|44
9F9S|1|DQ|A|45
9F9S|1|DQ|G|46
9F9S|1|DQ|G|47
9F9S|1|DQ|U|48
9F9S|1|DQ|C|49
9F9S|1|DQ|G|50
*
9F9S|1|DQ|C|66
9F9S|1|DQ|C|67

Current chains

Chain DQ

tRNA

Nearby chains

Chain M1

Large subunit ribosomal RNA; LSU rRNA

Chain Mc

60S ribosomal protein L42-A

Chain R1

Small subunit ribosomal RNA; SSU rRNA