SMTL ID : 7bbm.1

Mutant nitrobindin M75L/H76L/Q96C/M148L (NB4H) from Arabidopsis thaliana with cofactor MnPPIX

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.14 Å

Oligo State

homo-dimer

Ligands

12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 7 residues within 4Å: Chain A: T.29, E.49, I.50, R.51, T.63, Q.64, K.65 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.49 Water bridges: A:Q.64 EDO.2: 9 residues within 4Å: Chain A: H.54, S.55, K.57, V.59, I.60, A.61, Y.81 Chain B: A.77, S.97 3 PLIP interactions: 3 interactions with chain A Water bridges: A:S.55, A:S.55, A:V.59 EDO.3: 7 residues within 4Å: Chain A: R.31, G.32, Q.33, G.47, E.48, W.67, L.69 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.67 EDO.4: 7 residues within 4Å: Chain A: R.31, G.32, Q.33, K.141, I.162, L.163, D.164 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.33, A:I.162 EDO.5: 4 residues within 4Å: Chain A: V.16, H.17, P.18, A.21 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.16 EDO.6: 3 residues within 4Å: Chain A: T.98, L.100 Chain B: R.83 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.98, B:R.83 Water bridges: B:R.83 EDO.8: 7 residues within 4Å: Chain B: T.29, E.49, I.50, R.51, T.63, Q.64, K.65 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.49 Water bridges: B:Q.64 EDO.9: 9 residues within 4Å: Chain A: A.77, S.97 Chain B: H.54, S.55, K.57, V.59, I.60, A.61, Y.81 3 PLIP interactions: 3 interactions with chain B Water bridges: B:S.55, B:S.55, B:V.59 EDO.10: 7 residues within 4Å: Chain B: R.31, G.32, Q.33, G.47, E.48, W.67, L.69 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.67 EDO.11: 7 residues within 4Å: Chain B: R.31, G.32, Q.33, K.141, I.162, L.163, D.164 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.33, B:I.162 EDO.12: 4 residues within 4Å: Chain B: V.16, H.17, P.18, A.21 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.16 EDO.13: 3 residues within 4Å: Chain A: R.83 Chain B: T.98, L.100 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.83, B:T.98 Water bridges: A:R.83

2 x MNH: MANGANESE PROTOPORPHYRIN IX(Non-covalent)

MNH.7: 24 residues within 4Å: Chain A: Y.38, T.40, I.41, P.42, F.44, Y.46, Q.64, T.66, L.75, L.76, E.78, C.96, L.100, E.102, K.127, V.128, I.131, R.133, V.146, L.148, T.150, N.153, H.158, L.159 13 PLIP interactions: 13 interactions with chain A, Hydrophobic interactions: A:T.40, A:I.41, A:F.44, A:F.44, A:F.44, A:T.66, A:L.75, A:L.76, A:L.100, A:I.131, A:L.148, A:L.159 Metal complexes: A:H.158 MNH.14: 24 residues within 4Å: Chain B: Y.38, T.40, I.41, P.42, F.44, Y.46, Q.64, T.66, L.75, L.76, E.78, C.96, L.100, E.102, K.127, V.128, I.131, R.133, V.146, L.148, T.150, N.153, H.158, L.159 13 PLIP interactions: 13 interactions with chain B, Hydrophobic interactions: B:T.40, B:I.41, B:F.44, B:F.44, B:F.44, B:T.66, B:L.75, B:L.76, B:L.100, B:I.131, B:L.148, B:L.159 Metal complexes: B:H.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sauer, D.F. et al., Chemogenetic engineering of nitrobindin toward an artificial epoxygenase. Catalysis Science And Technology (2021)

Release Date

2021-05-26

Peptides

UPF0678 fatty acid-binding protein-like protein At1g79260: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

UPF0678 fatty acid-binding protein-like protein At1g79260