SMTL ID : 5b4e.1

Sulfur Transferase TtuA in complex with iron sulfur cluster and ATP derivative

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.3, C.6, C.22, H.25 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.3, A:C.6, A:C.22, A:H.25 ZN.2: 4 residues within 4Å: Chain A: C.274, C.277, C.286, C.289 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.274, A:C.277, A:C.286, A:C.289 ZN.12: 4 residues within 4Å: Chain B: C.3, C.6, C.22, H.25 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.3, B:C.6, B:C.22, B:H.25 ZN.13: 4 residues within 4Å: Chain B: C.274, C.277, C.286, C.289 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.274, B:C.277, B:C.286, B:C.289

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.3: 16 residues within 4Å: Chain A: A.53, V.54, S.55, G.57, K.58, D.59, S.60, L.77, H.78, I.79, L.81, K.137, T.155, G.156, H.157, D.161 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:S.55, A:G.57, A:G.57, A:D.59, A:D.59, A:S.60, A:I.79, A:I.79, A:G.156, A:G.156 Water bridges: A:K.58, A:K.58 Salt bridges: A:K.137 ANP.14: 16 residues within 4Å: Chain B: A.53, V.54, S.55, G.57, K.58, D.59, S.60, L.77, H.78, I.79, L.81, K.137, T.155, G.156, H.157, D.161 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:S.55, B:G.57, B:G.57, B:D.59, B:S.60, B:H.78, B:I.79, B:I.79, B:G.156, B:G.156 Water bridges: B:K.58, B:K.58 Salt bridges: B:K.137

2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.4: 7 residues within 4Å: Chain A: L.81, I.83, C.130, C.133, K.137, C.222, N.224 3 PLIP interactions: 3 interactions with chain A, Metal complexes: A:C.130, A:C.133, A:C.222 SF4.15: 7 residues within 4Å: Chain B: L.81, I.83, C.130, C.133, K.137, C.222, N.224 3 PLIP interactions: 3 interactions with chain B, Metal complexes: B:C.130, B:C.133, B:C.222

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

SO4.5: 4 residues within 4Å: Chain A: V.2, K.9, A.10 Ligands: SO4.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.2, A:V.2, A:A.10 SO4.6: 2 residues within 4Å: Chain A: V.2 Ligands: SO4.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.2, A:V.2 SO4.7: 3 residues within 4Å: Chain A: Q.8, K.9 Ligands: IPA.11 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.8, A:K.9 SO4.8: 4 residues within 4Å: Chain A: S.202, R.204, E.241, K.248 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.202, A:R.204, A:E.241 Water bridges: A:S.16 Salt bridges: A:K.248 SO4.9: 5 residues within 4Å: Chain A: R.138, H.157, Q.181, R.194, K.196 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.181 Water bridges: A:R.138 Salt bridges: A:R.138, A:H.157, A:R.194, A:K.196 SO4.10: 5 residues within 4Å: Chain A: T.281, T.282, C.286, A.287, R.290 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.281, A:T.281, A:T.282, A:A.287, A:R.290 SO4.16: 4 residues within 4Å: Chain B: V.2, K.9, A.10 Ligands: SO4.17 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.2, B:V.2, B:A.10 SO4.17: 2 residues within 4Å: Chain B: V.2 Ligands: SO4.16 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.2, B:V.2 SO4.18: 3 residues within 4Å: Chain B: Q.8, K.9 Ligands: IPA.22 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.8, B:K.9 SO4.19: 4 residues within 4Å: Chain B: S.202, R.204, E.241, K.248 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.202, B:R.204, B:E.241, B:E.241 Water bridges: B:S.16 Salt bridges: B:K.248 SO4.20: 5 residues within 4Å: Chain B: R.138, H.157, Q.181, R.194, K.196 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.181 Water bridges: B:R.138 Salt bridges: B:R.138, B:H.157, B:R.194, B:K.196 SO4.21: 5 residues within 4Å: Chain B: T.281, T.282, C.286, A.287, R.290 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.281, B:T.282, B:A.287, B:R.290

2 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.11: 2 residues within 4Å: Chain A: Q.8 Ligands: SO4.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Q.8 IPA.22: 2 residues within 4Å: Chain B: Q.8 Ligands: SO4.18 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Q.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, M. et al., Biochemical and structural characterization of oxygen-sensitive 2-thiouridine synthesis catalyzed by an iron-sulfur protein TtuA. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-05-03

Peptides

Sulfur Transferase TtuA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Sulfur Transferase TtuA

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