SMTL ID : 1gn8.1

PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE IN COMPLEX WITH Mn2+ATP FROM ESCHERICHIA COLI

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

homo-hexamer

Ligands

9 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain A: R.24, S.121, K.122 Chain B: H.104, R.107 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.24, A:S.121, A:K.122 Water bridges: A:K.122, A:K.122 Salt bridges: A:K.122, B:R.107 SO4.5: 6 residues within 4Å: Chain B: S.39, P.40, S.41 Chain D: E.134, R.137, H.138 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain D Hydrogen bonds: B:S.39, B:S.39, B:S.41, B:S.41, D:E.134 Salt bridges: D:R.137, D:H.138 SO4.6: 4 residues within 4Å: Chain A: H.104, R.107 Chain B: S.121, K.122 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:K.122 Water bridges: B:K.122, B:E.123 Salt bridges: B:K.122, A:H.104, A:R.107 SO4.8: 5 residues within 4Å: Chain C: R.24, S.121, K.122 Chain D: H.104, R.107 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:R.24, C:S.121, C:K.122 Water bridges: C:K.122, C:K.122 Salt bridges: C:K.122, D:R.107 SO4.12: 6 residues within 4Å: Chain D: S.39, P.40, S.41 Chain F: E.134, R.137, H.138 7 PLIP interactions: 3 interactions with chain F, 4 interactions with chain D Hydrogen bonds: F:E.134, D:S.39, D:S.39, D:S.41, D:S.41 Salt bridges: F:R.137, F:H.138 SO4.13: 4 residues within 4Å: Chain C: H.104, R.107 Chain D: S.121, K.122 6 PLIP interactions: 2 interactions with chain C, 4 interactions with chain D Salt bridges: C:H.104, C:R.107, D:K.122 Hydrogen bonds: D:K.122 Water bridges: D:K.122, D:E.123 SO4.15: 5 residues within 4Å: Chain E: R.24, S.121, K.122 Chain F: H.104, R.107 7 PLIP interactions: 6 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:R.24, E:S.121, E:K.122 Water bridges: E:K.122, E:K.122 Salt bridges: E:K.122, F:R.107 SO4.19: 6 residues within 4Å: Chain B: E.134, R.137, H.138 Chain F: S.39, P.40, S.41 6 PLIP interactions: 4 interactions with chain F, 2 interactions with chain B Hydrogen bonds: F:S.39, F:S.39, F:S.41, F:S.41 Salt bridges: B:R.137, B:H.138 SO4.20: 4 residues within 4Å: Chain E: H.104, R.107 Chain F: S.121, K.122 6 PLIP interactions: 2 interactions with chain E, 4 interactions with chain F Salt bridges: E:H.104, E:R.107, F:K.122 Hydrogen bonds: F:K.122 Water bridges: F:K.122, F:E.123

6 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.2: 19 residues within 4Å: Chain A: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130, L.131 Ligands: MN.3 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:Y.7, A:T.10, A:T.10, A:F.11, A:R.88, A:G.89, A:R.91, A:E.99, A:W.124, A:S.129, A:S.130, A:S.130, A:S.130, A:L.131 Water bridges: A:T.10, A:D.12, A:T.15, A:R.88, A:S.129, A:S.130, A:S.130 Salt bridges: A:H.18, A:H.18, A:R.91 pi-Cation interactions: A:R.91 ATP.4: 19 residues within 4Å: Chain B: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, E.99, P.120, W.124, I.127, S.128, S.129, S.130 Ligands: MN.7 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:Y.7, B:T.10, B:F.11, B:R.88, B:R.88, B:G.89, B:R.91, B:E.99, B:W.124, B:S.129, B:S.130 Water bridges: B:D.12, B:T.15, B:S.129 Salt bridges: B:H.18, B:H.18, B:R.91, B:R.91 pi-Cation interactions: B:R.91 ATP.9: 19 residues within 4Å: Chain C: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130, L.131 Ligands: MN.10 22 PLIP interactions: 22 interactions with chain C Hydrogen bonds: C:T.10, C:T.10, C:F.11, C:R.88, C:G.89, C:R.91, C:E.99, C:W.124, C:S.129, C:S.130, C:S.130, C:S.130, C:L.131 Water bridges: C:T.10, C:D.12, C:R.88, C:S.130, C:S.130 Salt bridges: C:H.18, C:H.18, C:R.91 pi-Cation interactions: C:R.91 ATP.11: 19 residues within 4Å: Chain D: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, E.99, P.120, W.124, I.127, S.128, S.129, S.130 Ligands: MN.14 22 PLIP interactions: 22 interactions with chain D Hydrogen bonds: D:Y.7, D:T.10, D:F.11, D:R.88, D:R.88, D:G.89, D:R.91, D:E.99, D:E.99, D:W.124, D:S.129, D:S.130 Water bridges: D:T.10, D:T.10, D:D.12, D:T.15, D:S.129 Salt bridges: D:H.18, D:H.18, D:R.91, D:R.91 pi-Cation interactions: D:R.91 ATP.16: 19 residues within 4Å: Chain E: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130, L.131 Ligands: MN.17 22 PLIP interactions: 22 interactions with chain E Hydrogen bonds: E:T.10, E:T.10, E:F.11, E:R.88, E:G.89, E:R.91, E:E.99, E:W.124, E:S.129, E:S.130, E:S.130, E:S.130, E:L.131 Water bridges: E:T.10, E:D.12, E:R.88, E:S.130, E:S.130 Salt bridges: E:H.18, E:H.18, E:R.91 pi-Cation interactions: E:R.91 ATP.18: 19 residues within 4Å: Chain F: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, E.99, P.120, W.124, I.127, S.128, S.129, S.130 Ligands: MN.21 20 PLIP interactions: 20 interactions with chain F Hydrogen bonds: F:T.10, F:F.11, F:R.88, F:R.88, F:G.89, F:R.91, F:E.99, F:E.99, F:W.124, F:S.129, F:S.130 Water bridges: F:T.10, F:T.10, F:D.12, F:S.129 Salt bridges: F:H.18, F:H.18, F:R.91, F:R.91 pi-Cation interactions: F:R.91

6 x MN: MANGANESE (II) ION(Non-functional Binders)(Non-covalent)

MN.3: 1 residues within 4Å: Ligands: ATP.2 No protein-ligand interaction detected (PLIP) MN.7: 2 residues within 4Å: Chain B: R.91 Ligands: ATP.4 No protein-ligand interaction detected (PLIP) MN.10: 1 residues within 4Å: Ligands: ATP.9 No protein-ligand interaction detected (PLIP) MN.14: 2 residues within 4Å: Chain D: R.91 Ligands: ATP.11 No protein-ligand interaction detected (PLIP) MN.17: 1 residues within 4Å: Ligands: ATP.16 No protein-ligand interaction detected (PLIP) MN.21: 2 residues within 4Å: Chain F: R.91 Ligands: ATP.18 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Izard, T., The Crystal Structures of Phosphopantetheine Adenylyltransferase with Bound Substrates Reveal the Enzyme'S Catalytic Mechanism. J.Mol.Biol. (2001)

Release Date

2002-01-17

Peptides

PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE

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