SMTL ID : 3gee.1

Crystal structure of MnmE from Chlorobium tepidum in complex with GDP and FOLINIC ACID

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

homo-dimer

Ligands

2 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.1: 15 residues within 4Å: Chain A: K.241, P.242, N.243, A.244, G.245, K.246, S.247, T.248, N.351, K.352, D.354, R.355, S.378, A.379, L.380 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:N.243, A:A.244, A:G.245, A:K.246, A:S.247, A:T.248, A:T.248, A:N.351, A:K.352, A:K.352, A:R.355, A:A.379, A:L.380 Salt bridges: A:K.246, A:D.354 pi-Cation interactions: A:K.352 GDP.3: 15 residues within 4Å: Chain B: K.241, P.242, N.243, A.244, G.245, K.246, S.247, T.248, N.351, K.352, D.354, R.355, S.378, A.379, L.380 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:N.243, B:A.244, B:G.245, B:K.246, B:S.247, B:T.248, B:T.248, B:N.351, B:K.352, B:K.352, B:R.355, B:A.379, B:L.380 Salt bridges: B:K.246, B:D.354 pi-Cation interactions: B:K.352

2 x FON: N-{[4-({[(6R)-2-amino-5-formyl-4-oxo-1,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)phenyl]carbonyl}-L-glutamic acid(Non-covalent)

FON.2: 19 residues within 4Å: Chain A: L.30, V.51, H.52, F.67, E.79, V.80, I.81, T.100, C.101, H.102 Chain B: R.34, Y.63, P.88, R.89, S.90, F.91, E.98, R.137, K.476 13 PLIP interactions: 6 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:R.89, B:F.91, A:F.67 Hydrogen bonds: B:R.34, B:R.137, B:K.476, A:I.81, A:T.100, A:T.100, A:T.100 Salt bridges: B:E.98, A:H.52 pi-Stacking: A:F.67 FON.4: 19 residues within 4Å: Chain A: R.34, Y.63, P.88, R.89, S.90, F.91, E.98, R.137, K.476 Chain B: L.30, V.51, H.52, F.67, E.79, V.80, I.81, T.100, C.101, H.102 13 PLIP interactions: 6 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:R.89, A:F.91, B:F.67 Hydrogen bonds: A:R.34, A:R.137, A:K.476, B:I.81, B:T.100, B:T.100, B:T.100 Salt bridges: A:E.98, B:H.52 pi-Stacking: B:F.67

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Meyer, S. et al., Kissing G domains of MnmE monitored by X-ray crystallography and pulse electron paramagnetic resonance spectroscopy. Plos Biol. (2009)

Release Date

2009-10-27

Peptides

tRNA modification GTPase mnmE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

tRNA modification GTPase mnmE

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