SMTL ID : 4ga6.1

Crystal structure of AMP phosphorylase C-terminal deletion mutant in complex with substrates

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

homo-dimer

Ligands

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.1: 19 residues within 4Å: Chain A: H.164, S.165, I.166, G.167, G.168, S.193, S.194, R.195, A.196, I.197, T.198, S.199, G.202, T.203, D.256, M.261, S.264, K.288 Ligands: SO4.2 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:G.168, A:S.193, A:S.194, A:I.197, A:T.198, A:T.198, A:S.199, A:S.199, A:S.199, A:T.203, A:T.203, A:D.256, A:S.264, A:K.288 Water bridges: A:S.165, A:A.201, A:T.203 Salt bridges: A:K.288 AMP.4: 20 residues within 4Å: Chain B: H.164, S.165, I.166, G.167, G.168, S.193, S.194, R.195, A.196, I.197, T.198, S.199, G.202, T.203, I.247, D.256, M.261, S.264, K.288 Ligands: SO4.5 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:G.168, B:S.194, B:S.194, B:I.197, B:T.198, B:T.198, B:S.199, B:S.199, B:T.203, B:D.256, B:S.264 Water bridges: B:S.165, B:S.199, B:S.199, B:A.201, B:T.203 Salt bridges: B:K.288

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

SO4.2: 7 residues within 4Å: Chain A: H.164, S.165, N.175, K.191, S.193, T.203 Ligands: AMP.1 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.165, A:N.175, A:S.193, A:T.203, A:T.203 Water bridges: A:S.165, A:N.172 Salt bridges: A:H.164, A:K.191 SO4.3: 6 residues within 4Å: Chain A: G.325, H.326, P.347, G.348, S.349, K.455 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.325, A:G.348, A:S.349 Salt bridges: A:H.326 SO4.5: 7 residues within 4Å: Chain B: H.164, S.165, N.175, K.191, S.193, T.203 Ligands: AMP.4 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.165, B:N.175, B:S.193, B:T.203, B:T.203 Water bridges: B:S.165, B:N.175 Salt bridges: B:H.164, B:K.191 SO4.6: 6 residues within 4Å: Chain B: G.325, H.326, P.347, G.348, S.349, K.455 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.348, B:S.349 Salt bridges: B:H.326, B:K.455

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nishitani, Y. et al., Structure analysis of archaeal AMP phosphorylase reveals two unique modes of dimerization. J.Mol.Biol. (2013)

Release Date

2013-05-15

Peptides

Putative thymidine phosphorylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative thymidine phosphorylase

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