SMTL ID : 1gin.1

CRYSTAL STRUCTURE OF ADENYLOSUCCINATE SYNTHETASE FROM ESCHERICHIA COLI COMPLEXED WITH GDP, IMP, HADACIDIN, NO3-, AND MG2+. DATA COLLECTED AT 298K (PH 6.5).

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 7 residues within 4Å: Chain A: D.13, G.40, R.305 Ligands: NO3.2, HDA.3, IMP.4, GDP.5 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.13, A:G.40, HDA.3 MG.6: 7 residues within 4Å: Chain B: D.13, G.40, R.305 Ligands: NO3.7, HDA.8, IMP.9, GDP.10 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:D.13, B:G.40, HDA.8

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

NO3.2: 12 residues within 4Å: Chain A: G.12, D.13, K.16, A.39, G.40, H.41, A.223, Q.224 Ligands: MG.1, HDA.3, IMP.4, GDP.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.13, A:K.16, A:G.40, A:H.41, A:Q.224 NO3.7: 12 residues within 4Å: Chain B: G.12, D.13, K.16, A.39, G.40, H.41, A.223, Q.224 Ligands: MG.6, HDA.8, IMP.9, GDP.10 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.13, B:D.13, B:K.16, B:G.40, B:H.41, B:Q.224

2 x HDA: HADACIDIN(Non-covalent)

HDA.3: 16 residues within 4Å: Chain A: D.13, N.38, G.40, T.129, V.273, G.298, A.299, T.300, T.301, G.302, R.303, R.305 Ligands: MG.1, NO3.2, IMP.4, GDP.5 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:D.13, A:G.40, A:A.299, A:T.300, A:T.301, A:T.301, A:R.305, A:R.305 Salt bridges: A:R.303 HDA.8: 16 residues within 4Å: Chain B: D.13, N.38, G.40, T.129, V.273, G.298, A.299, T.300, T.301, G.302, R.303, R.305 Ligands: MG.6, NO3.7, IMP.9, GDP.10 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:D.13, B:G.40, B:A.299, B:T.300, B:T.301, B:T.301, B:R.305, B:R.305 Salt bridges: B:R.303

2 x IMP: INOSINIC ACID(Non-covalent)

IMP.4: 23 residues within 4Å: Chain A: W.11, D.13, N.38, A.39, G.40, I.126, G.127, T.128, T.129, G.130, R.131, I.133, Q.224, L.228, V.238, T.239, V.273, G.274, R.303 Chain B: R.143 Ligands: MG.1, NO3.2, HDA.3 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.13, A:N.38, A:G.40, A:T.129, A:T.129, A:Q.224, A:V.273, A:V.273, A:R.303, A:R.303 Salt bridges: B:R.143 IMP.9: 23 residues within 4Å: Chain A: R.143 Chain B: W.11, D.13, N.38, A.39, G.40, I.126, G.127, T.128, T.129, G.130, R.131, I.133, Q.224, L.228, V.238, T.239, V.273, G.274, R.303 Ligands: MG.6, NO3.7, HDA.8 11 PLIP interactions: 10 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.13, B:N.38, B:G.40, B:T.129, B:T.129, B:Q.224, B:V.273, B:V.273, B:R.303, B:R.303 Salt bridges: A:R.143

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

GDP.5: 20 residues within 4Å: Chain A: D.13, E.14, G.15, K.16, G.17, K.18, G.40, H.41, T.42, R.305, K.331, D.333, V.334, S.414, T.415, G.416, P.417 Ligands: MG.1, NO3.2, HDA.3 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:D.13, A:E.14, A:G.15, A:K.16, A:G.17, A:G.40, A:K.331, A:K.331, A:S.414, A:G.416 Water bridges: A:T.42, A:T.42, A:T.42, A:T.42, A:P.417 Salt bridges: A:K.16, A:H.41, A:R.305, A:D.333 GDP.10: 20 residues within 4Å: Chain B: D.13, E.14, G.15, K.16, G.17, K.18, G.40, H.41, T.42, R.305, K.331, D.333, V.334, S.414, T.415, G.416, P.417 Ligands: MG.6, NO3.7, HDA.8 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:D.13, B:D.13, B:E.14, B:E.14, B:G.15, B:K.16, B:G.17, B:G.40, B:K.331, B:K.331, B:S.414, B:G.416 Water bridges: B:T.42, B:T.42, B:T.42, B:T.42, B:P.417 Salt bridges: B:K.16, B:H.41, B:R.305, B:D.333

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Poland, B.W. et al., Crystal structures of adenylosuccinate synthetase from Escherichia coli complexed with GDP, IMP hadacidin, NO3-, and Mg2+. J.Mol.Biol. (1996)

Release Date

1997-02-12

Peptides

ADENYLOSUCCINATE SYNTHETASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ADENYLOSUCCINATE SYNTHETASE

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