SMTL ID : 3dcj.2 (1 other biounit)

Crystal structure of glycinamide formyltransferase (PurN) from Mycobacterium tuberculosis in complex with 5-methyl-5,6,7,8-tetrahydrofolic acid derivative

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x THH: N-[4-({[(6S)-2-AMINO-4-HYDROXY-5-METHYL-5,6,7,8-TETRAHYDROPTERIDIN-6-YL]METHYL}AMINO)BENZOYL]-L-GLUTAMIC ACID(Non-covalent)

THH.1: 18 residues within 4Å: Chain A: S.95, F.98, M.99, R.100, I.101, L.102, L.107, N.116, P.119, G.127, T.128, V.149, D.150, A.151, G.152, T.153, D.154 Ligands: MG.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.128 Hydrogen bonds: A:R.100, A:L.102, A:D.150, A:D.154 Water bridges: A:D.150, A:T.155 Salt bridges: A:H.118 THH.4: 11 residues within 4Å: Chain B: S.95, F.98, R.100, I.101, L.102, L.107, N.116, T.128, V.149, D.150, G.152 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:T.128 Hydrogen bonds: B:F.98, B:R.100, B:L.102, B:D.150 Water bridges: B:D.150, B:G.152, B:T.153

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: N.116, T.117 Ligands: THH.1 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 4 residues within 4Å: Chain A: P.163, V.164, P.165 Chain B: P.163 Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain A: P.163 Chain B: P.165 Ligand excluded by PLIP

1 x NO3: NITRATE ION(Non-functional Binders)

NO3.5: 5 residues within 4Å: Chain B: A.86, P.90, R.109, F.110, R.113 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.109, B:R.113, B:R.113

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Z. et al., Structures of glycinamide ribonucleotide transformylase (PurN) from Mycobacterium tuberculosis reveal a novel dimer with relevance to drug discovery. J.Mol.Biol. (2009)

Release Date

2009-05-12

Peptides

Probable 5'-phosphoribosylglycinamide formyltransferase purN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Probable 5'-phosphoribosylglycinamide formyltransferase purN

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