SMTL ID : 5k7x.1 (2 other biounits)

Fully ligated Adenylosuccinate Synthetase from Pyrococcus horikoshii OT3 with GTP, IMP and Hadacidin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 26 residues within 4Å: Chain A: G.13, D.14, E.15, G.16, K.17, G.18, S.19, A.42, G.43, H.44, S.45, K.52, Q.180, E.250, T.253, R.259, M.285, D.287, K.288, K.325, T.326, G.327, P.328 Ligands: IMP.2, HDA.3, MG.4 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:D.14, A:G.16, A:K.17, A:G.18, A:S.19, A:G.43, A:G.43, A:S.45, A:S.45, A:S.45, A:S.45, A:K.52, A:Q.180, A:Q.180, A:M.285, A:G.327 Salt bridges: A:K.17, A:K.17, A:H.44, A:H.44, A:R.259, A:D.287 GTP.5: 23 residues within 4Å: Chain B: D.14, E.15, G.16, K.17, G.18, S.19, A.42, G.43, H.44, S.45, V.47, Q.180, T.253, R.259, M.285, D.287, K.325, T.326, G.327, P.328 Ligands: IMP.6, HDA.7, MG.8 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:D.14, B:G.16, B:K.17, B:G.18, B:S.19, B:G.43, B:G.43, B:S.45, B:S.45, B:S.45, B:Q.180, B:Q.180, B:T.253, B:M.285, B:G.327 Salt bridges: B:K.17, B:K.17, B:H.44, B:H.44, B:R.259, B:D.287

2 x IMP: INOSINIC ACID(Non-covalent)

IMP.2: 18 residues within 4Å: Chain A: W.12, D.14, N.41, A.42, G.43, D.115, G.126, T.127, T.128, Q.180, L.184, V.194, T.195, V.229 Chain B: R.142 Ligands: GTP.1, HDA.3, MG.4 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.14, A:N.41, A:G.43, A:D.115, A:T.128, A:Q.180, A:T.195, A:R.257 Salt bridges: B:R.142 IMP.6: 17 residues within 4Å: Chain A: R.142 Chain B: W.12, D.14, N.41, A.42, G.126, T.127, T.128, Q.180, L.184, V.194, T.195, V.229, R.257 Ligands: GTP.5, HDA.7, MG.8 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.14, B:D.14, B:N.41, B:G.43, B:T.128, B:Q.180, B:T.195, B:R.257 Water bridges: B:G.129 Salt bridges: A:R.142

2 x HDA: HADACIDIN(Non-covalent)(Covalent)

HDA.3: 12 residues within 4Å: Chain A: D.14, G.43, V.229, G.252, T.253, V.254, T.255, G.256, R.259 Ligands: GTP.1, IMP.2, MG.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.43, A:T.253, A:T.253, A:V.254, A:T.255, A:G.256, A:R.259 HDA.7: 13 residues within 4Å: Chain B: D.14, G.43, V.229, G.252, T.253, V.254, T.255, G.256, R.257, R.259 Ligands: GTP.5, IMP.6, MG.8 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:D.14, B:G.43, B:T.253, B:T.253, B:V.254, B:T.255, B:G.256, B:R.257, B:R.259 Salt bridges: B:R.257

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 7 residues within 4Å: Chain A: D.14, G.43, T.253, R.259 Ligands: GTP.1, IMP.2, HDA.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.14, A:G.43, HDA.3 MG.8: 6 residues within 4Å: Chain B: D.14, G.43, T.253 Ligands: GTP.5, IMP.6, HDA.7 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:D.14, B:G.43, HDA.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xie, Y. et al., Crystal structure of hypothetical adenylosuccinate synthetase, PH0438 from Pyrococcus horikoshii OT3. To Be Published

Release Date

2016-12-07

Peptides

Adenylosuccinate synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Adenylosuccinate synthetase

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