SMTL ID : 4rcm.1 (1 other biounit)

Crystal structure of the Pho92 YTH domain in complex with m6A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x 6MZ: RNA (5'-R(*UP*G)-D(*(6MZ)P*CP*U)-3')(Non-covalent)

6MZ.1: 11 residues within 4Å: Chain A: K.22, S.23, S.24, H.28, W.38, S.39, S.40, T.41, W.92, Y.98, D.135 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.22, A:S.24, A:H.28, A:S.39 pi-Stacking: A:Y.98

9 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.2: 2 residues within 4Å: Chain A: I.67, S.70 No protein-ligand interaction detected (PLIP) UNX.3: 1 residues within 4Å: Chain A: R.105 No protein-ligand interaction detected (PLIP) UNX.4: 1 residues within 4Å: Chain A: S.142 No protein-ligand interaction detected (PLIP) UNX.5: 2 residues within 4Å: Chain A: F.33 Ligands: UNX.6 No protein-ligand interaction detected (PLIP) UNX.6: 4 residues within 4Å: Chain A: F.33, R.105, W.106 Ligands: UNX.5 No protein-ligand interaction detected (PLIP) UNX.7: 2 residues within 4Å: Chain A: S.90, W.92 No protein-ligand interaction detected (PLIP) UNX.8: 3 residues within 4Å: Chain A: W.9, L.10, K.152 No protein-ligand interaction detected (PLIP) UNX.9: 4 residues within 4Å: Chain A: I.122, P.123, S.124, P.140 No protein-ligand interaction detected (PLIP) UNX.10: 2 residues within 4Å: Chain A: S.25, H.28 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, C. et al., Structural Basis for the Discriminative Recognition of N6-Methyladenosine RNA by the Human YT521-B Homology Domain Family of Proteins. J.Biol.Chem. (2015)

Release Date

2014-11-19

Peptides

Methylated RNA-binding protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Methylated RNA-binding protein 1

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