SMTL ID : 4wwz.1 (1 other biounit)

UndA complexed with 2,3-dodecenoic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x FE: FE (III) ION(Non-covalent)

FE.1: 4 residues within 4Å: Chain A: E.103, H.106, H.196 Ligands: 3X1.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.103, A:H.106, A:H.196, H2O.3 FE.8: 4 residues within 4Å: Chain B: E.103, H.106, H.196 Ligands: 3X1.9 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.103, B:H.106, B:H.196, H2O.16

2 x 3X1: (2E)-dodec-2-enoic acid(Non-covalent)

3X1.2: 17 residues within 4Å: Chain A: Y.43, Y.59, G.63, V.66, F.70, E.103, H.106, L.136, E.161, T.164, W.167, W.192, H.196, M.238, F.241, L.242 Ligands: FE.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.66, A:F.70, A:F.70, A:L.136, A:T.164, A:W.167, A:M.238, A:F.241, A:F.241, A:L.242 Salt bridges: A:H.106, A:H.196 3X1.9: 17 residues within 4Å: Chain B: Y.43, Y.59, G.63, V.66, F.70, E.103, H.106, L.136, E.161, T.164, W.167, W.192, H.196, M.238, F.241, L.242 Ligands: FE.8 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:V.66, B:F.70, B:F.70, B:L.136, B:T.164, B:W.167, B:M.238, B:F.241, B:F.241, B:L.242 Salt bridges: B:H.106, B:H.196

2 x PSL: PYROSULFATE(Non-covalent)

PSL.3: 6 residues within 4Å: Chain A: R.101, V.102, N.105, H.106, Y.109, K.191 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.105 Water bridges: A:N.105, B:R.98 Salt bridges: A:R.101, A:K.191 PSL.10: 6 residues within 4Å: Chain B: R.101, V.102, N.105, H.106, Y.109, K.191 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B Water bridges: A:R.98, B:N.105 Hydrogen bonds: B:N.105, B:Y.109 Salt bridges: B:R.101, B:K.191

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

SO4.4: 2 residues within 4Å: Chain A: R.94, R.98 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.94 Salt bridges: A:R.94, A:R.98 SO4.5: 3 residues within 4Å: Chain A: R.115, T.120, L.121 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.121 Water bridges: A:T.120, A:E.122 Salt bridges: A:R.115 SO4.6: 3 residues within 4Å: Chain A: T.220, K.221, A.222 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.221, A:A.222 SO4.7: 2 residues within 4Å: Chain A: R.98 Chain B: R.101 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.98, B:R.101 SO4.11: 2 residues within 4Å: Chain B: R.94, R.98 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.94 Salt bridges: B:R.94, B:R.98 SO4.12: 3 residues within 4Å: Chain B: R.115, T.120, L.121 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.121 Water bridges: B:E.122 Salt bridges: B:R.115 SO4.13: 3 residues within 4Å: Chain B: T.220, K.221, A.222 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.221, B:A.222 SO4.14: 2 residues within 4Å: Chain A: R.101 Chain B: R.98 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.101, B:R.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rui, Z. et al., Microbial biosynthesis of medium-chain 1-alkenes by a nonheme iron oxidase. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-12-24

Peptides

TENA/THI-4 family protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

TENA/THI-4 family protein

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