SMTL ID : 3bbe.1

M. jannaschii Nep1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: T.142, K.143, S.184, I.185, Y.186, K.188, G.189, L.190, V.195 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.142, A:K.143, A:I.185, A:Y.186, A:Y.186, A:L.190 GOL.2: 2 residues within 4Å: Chain A: D.128, E.132 3 PLIP interactions: 3 interactions with chain A Water bridges: A:D.128, A:D.128, A:E.132 GOL.3: 7 residues within 4Å: Chain A: Y.201, S.202, F.205 Chain B: P.150, I.198, Y.201, S.202 No protein-ligand interaction detected (PLIP) GOL.4: 7 residues within 4Å: Chain A: T.2, N.4, N.77, I.133, N.134, K.136, D.157 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.2, A:N.4, A:N.77, A:N.134 Water bridges: A:N.134 GOL.5: 7 residues within 4Å: Chain A: Y.79, V.87, E.122, K.124, L.129, E.132, I.133 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.79, A:E.132, A:E.132 Water bridges: A:E.122, A:E.132 GOL.6: 8 residues within 4Å: Chain B: T.142, K.143, S.184, Y.186, K.188, G.189, L.190, V.195 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.186, B:L.190 GOL.7: 5 residues within 4Å: Chain B: Y.79, K.89, E.122, E.132, I.133 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.79, B:K.89, B:K.89, B:E.132 Water bridges: B:E.122 GOL.8: 5 residues within 4Å: Chain B: T.2, N.4, I.133, N.134, D.157 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.4, B:I.133, B:N.134 Water bridges: B:N.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taylor, A.B. et al., The crystal structure of Nep1 reveals an extended SPOUT-class methyltransferase fold and a pre-organized SAM-binding site. Nucleic Acids Res. (2008)

Release Date

2008-02-05

Peptides

Ribosome biogenesis protein NEP1-like: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribosome biogenesis protein NEP1-like

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