SMTL ID : 5bte.1 (1 other biounit)

Crystal structure of Ashbya gossypii Rai1 in complex with pU(S)6-Mn2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x U- U37- U37- U- U- U: RNA (5'-R(P*UP*(U37)P*(U37)P*UP*UP*U)-3')(Non-covalent)

U-U37-U37-U-U-U.1: 26 residues within 4Å: Chain A: K.110, H.114, F.117, G.118, G.119, H.120, D.123, L.144, W.154, A.158, Y.159, G.162, Y.163, E.166, D.217, E.235, L.236, K.237, V.238, T.249, N.250, Q.253, K.254, Q.261 Ligands: MN.2, MN.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.120, A:K.254 Water bridges: A:R.275

3 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 5 residues within 4Å: Chain A: D.217, E.235, L.236 Ligands: U-U37-U37-U-U-U.1, MN.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.217, A:E.235, A:L.236, H2O.2 MN.3: 5 residues within 4Å: Chain A: E.166, E.215, D.217 Ligands: U-U37-U37-U-U-U.1, MN.2 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.215, A:D.217, H2O.2, H2O.2, H2O.3 MN.4: 2 residues within 4Å: Chain A: P.195, E.215 No protein-ligand interaction detected (PLIP)

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 7 residues within 4Å: Chain A: F.105, R.106, G.107, K.198, G.213, A.214, E.215 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.107, A:E.215 Water bridges: A:R.106, A:Q.108, A:Q.108, A:Q.261 Salt bridges: A:R.106, A:K.198

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, V.Y. et al., Structural and biochemical studies of the distinct activity profiles of Rai1 enzymes. Nucleic Acids Res. (2015)

Release Date

2015-07-22

Peptides

AFR263Cp: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

AFR263Cp

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