SMTL ID : 6d65.2 (1 other biounit)

Crystal structure of the human dual specificity phosphatase 1 catalytic domain (C258S) as a maltose binding protein fusion in complex with the designed AR protein off7

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

hetero-1-1-mer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: Y.91, Q.326 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.91, A:Q.326 SO4.2: 2 residues within 4Å: Chain A: F.195, D.198 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:K.122, A:F.195 SO4.3: 1 residues within 4Å: Chain A: N.438 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.438 Water bridges: A:N.438 SO4.4: 4 residues within 4Å: Chain A: F.414, E.415, G.416, H.417 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.415, A:G.416 Salt bridges: A:K.392, A:H.417 SO4.5: 4 residues within 4Å: Chain A: R.391, K.392, D.393, M.394 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.393, A:M.394 Salt bridges: A:R.391 SO4.6: 7 residues within 4Å: Chain A: R.355, S.407, A.408, N.409, C.410, Q.459, R.464 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.350, A:A.408, A:N.409, A:C.410, A:Q.459 Water bridges: A:R.464, A:R.464 Salt bridges: A:R.355, A:R.464 SO4.7: 8 residues within 4Å: Chain A: D.427, S.458, Q.459, A.460, G.461, I.462, S.463, R.464 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:D.427, A:S.458, A:Q.459, A:A.460, A:G.461, A:I.462, A:S.463, A:R.464 Salt bridges: A:R.464 SO4.8: 3 residues within 4Å: Chain A: Y.420, K.421, S.422 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.420, A:S.422 Salt bridges: A:K.421 SO4.9: 3 residues within 4Å: Chain A: R.492, S.493, I.494 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.493, A:I.494 Salt bridges: A:R.492 SO4.22: 4 residues within 4Å: Chain B: G.58, H.59, L.60, E.61 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.58, B:L.60, B:E.61 Water bridges: B:I.62 SO4.23: 4 residues within 4Å: Chain B: G.91, H.92, L.93, E.94 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.93, B:E.94 Water bridges: B:H.92 SO4.24: 4 residues within 4Å: Chain B: G.124, Y.125, L.126, E.127 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.126, B:E.127, B:E.127 Water bridges: B:I.128

12 x EOH: ETHANOL(Non-functional Binders)

EOH.10: 1 residues within 4Å: Chain A: K.143 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.143, A:K.143 EOH.11: 5 residues within 4Å: Chain A: S.271, P.272, N.273, K.274, E.275 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.272, A:K.274 EOH.12: 4 residues within 4Å: Chain A: N.151, E.154, D.210, Y.211 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.154 Hydrogen bonds: A:N.151, A:Y.211 Water bridges: A:S.212 EOH.14: 2 residues within 4Å: Chain A: T.357, D.359 No protein-ligand interaction detected (PLIP) EOH.15: 1 residues within 4Å: Chain A: G.373 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.373 EOH.16: 1 residues within 4Å: Chain A: R.391 No protein-ligand interaction detected (PLIP) EOH.17: 2 residues within 4Å: Chain A: N.428, H.429 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.428 Hydrogen bonds: A:H.429 EOH.18: 3 residues within 4Å: Chain A: R.478, V.512, L.513 No protein-ligand interaction detected (PLIP) EOH.19: 3 residues within 4Å: Chain A: H.429, N.498, F.499 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.499 EOH.20: 2 residues within 4Å: Chain A: G.14, H.40 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.40 EOH.25: 3 residues within 4Å: Chain A: K.141 Chain B: R.23, Y.56 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.23 Hydrophobic interactions: A:K.141 Water bridges: A:K.141 EOH.26: 3 residues within 4Å: Chain B: G.25, D.27, D.28 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:D.27 Hydrogen bonds: B:D.27, B:D.28, B:D.28

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.13: 2 residues within 4Å: Chain A: N.186, A.187 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.187 Water bridges: A:N.186 GOL.21: 3 residues within 4Å: Chain A: P.41, D.42, K.47 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.40, A:D.42, A:D.42, A:K.47, A:K.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gumpena, R. et al., MBP-binding DARPins facilitate the crystallization of an MBP fusion protein. Acta Crystallogr F Struct Biol Commun (2018)

Release Date

2018-09-19

Peptides

Maltose-binding periplasmic protein,Dual specificity protein phosphatase 1: A
Designed AR protein off7: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Maltose-binding periplasmic protein,Dual specificity protein phosphatase 1

Designed AR protein off7

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