SMTL ID : 1ksz.1

ENTRAPMENT OF 6-THIOPHOSPHORYL-IMP IN THE ACTIVE SITE OF CRYSTALLINE ADENYLOSUCCINATE SYNTHETASE FROM ESCHERICHIA COLI, DATA COLLECTED AT 298K

Coordinates

PDB Format Compare

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, K.16, G.40, H.41 Ligands: GDP.2, HDA.3, PGS.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.13, A:G.40, HDA.3 MG.5: 7 residues within 4Å: Chain B: D.13, K.16, G.40, H.41 Ligands: GDP.6, HDA.7, PGS.8 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:D.13, B:G.40, HDA.7

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

GDP.2: 21 residues within 4Å: Chain A: D.13, E.14, G.15, K.16, G.17, K.18, G.40, H.41, T.42, A.299, R.305, K.331, D.333, V.334, S.414, T.415, G.416, P.417 Ligands: MG.1, HDA.3, PGS.4 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:D.13, A:G.15, A:G.17, A:G.40, A:T.42, A:K.331, A:K.331, A:D.333, A:S.414, A:G.416, A:P.417 Water bridges: A:K.18, A:K.18, A:N.295 Salt bridges: A:K.16, A:H.41, A:R.305, A:D.333 GDP.6: 21 residues within 4Å: Chain B: D.13, E.14, G.15, K.16, G.17, K.18, G.40, H.41, T.42, A.299, R.305, K.331, D.333, V.334, S.414, T.415, G.416, P.417 Ligands: MG.5, HDA.7, PGS.8 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:D.13, B:D.13, B:G.15, B:G.17, B:G.40, B:T.42, B:K.331, B:K.331, B:S.414, B:G.416, B:P.417 Water bridges: B:K.18, B:K.18, B:N.295 Salt bridges: B:K.16, B:H.41, B:R.305, B:D.333

2 x HDA: HADACIDIN(Non-covalent)

HDA.3: 15 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, GDP.2, PGS.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.13, A:G.40, A:A.299, A:T.300, A:T.301, A:R.305 Salt bridges: A:R.303 HDA.7: 15 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.5, GDP.6, PGS.8 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.13, B:G.40, B:A.299, B:T.300, B:T.301, B:R.305 Salt bridges: B:R.303

2 x PGS: 2-DEAZO-6-THIOPHOSPHATE GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

PGS.4: 26 residues within 4Å: Chain A: W.11, G.12, D.13, K.16, N.38, A.39, G.40, H.41, I.126, G.127, T.128, T.129, G.130, A.223, Q.224, L.228, V.238, T.239, V.273, G.274, A.275, R.303 Chain B: R.143 Ligands: MG.1, GDP.2, HDA.3 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.13, A:D.13, A:K.16, A:N.38, A:G.40, A:H.41, A:I.126, A:T.129, A:T.129, A:Q.224, A:Q.224, A:T.239, A:R.303 Water bridges: A:T.128, A:T.129, A:I.133, A:G.134, A:A.275 Salt bridges: B:R.143 PGS.8: 26 residues within 4Å: Chain A: R.143 Chain B: W.11, G.12, D.13, K.16, N.38, A.39, G.40, H.41, I.126, G.127, T.128, T.129, G.130, A.223, Q.224, L.228, V.238, T.239, V.273, G.274, A.275, R.303 Ligands: MG.5, GDP.6, HDA.7 20 PLIP interactions: 19 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.13, B:D.13, B:D.13, B:K.16, B:N.38, B:G.40, B:H.41, B:I.126, B:T.129, B:T.129, B:Q.224, B:Q.224, B:T.239, B:R.303 Water bridges: B:T.128, B:T.129, B:I.133, B:G.134, B:A.275 Salt bridges: A:R.143

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Poland, B.W. et al., Entrapment of 6-thiophosphoryl-IMP in the active site of crystalline adenylosuccinate synthetase from Escherichia coli. J.Biol.Chem. (1997)

Release Date

1997-10-08

Peptides

ADENYLOSUCCINATE SYNTHETASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ADENYLOSUCCINATE SYNTHETASE

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