SMTL ID : 5v7y.3 (2 other biounits)

Prolyl 4-Hydroxylase Interacts with and Modifies Elongation Factor Tu

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-tetramer

Ligands

4 x CO: COBALT (II) ION(Non-covalent)

CO.1: 4 residues within 4Å: Chain A: H.128, D.130, H.194 Ligands: IMD.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.128, A:D.130, A:H.194 CO.4: 4 residues within 4Å: Chain B: H.128, D.130, H.194 Ligands: AKG.5 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.128, B:D.130, B:D.130, B:H.194 CO.6: 4 residues within 4Å: Chain C: H.128, D.130, H.194 Ligands: IMD.7 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.128, C:D.130, C:D.130, C:H.194 CO.12: 4 residues within 4Å: Chain D: H.128, D.130, H.194 Ligands: IMD.13 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.128, D:D.130, D:D.130, D:H.194

5 x IMD: IMIDAZOLE(Non-covalent)

IMD.2: 10 residues within 4Å: Chain A: Y.125, H.128, D.130, V.148, H.194, I.206, T.208, W.210 Ligands: CO.1, TFA.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.208, A:T.208 pi-Stacking: A:W.210 IMD.7: 9 residues within 4Å: Chain C: Y.125, H.128, D.130, V.148, H.194, T.208, W.210 Ligands: CO.6, TFA.10 No protein-ligand interaction detected (PLIP) IMD.8: 1 residues within 4Å: Chain C: N.105 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.105 IMD.9: 4 residues within 4Å: Chain A: D.185 Chain C: Y.129, Y.131, F.132 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:D.185 Water bridges: C:T.81 IMD.13: 9 residues within 4Å: Chain D: Y.125, H.128, D.130, V.148, H.194, T.208, W.210 Ligands: CO.12, TFA.14 No protein-ligand interaction detected (PLIP)

3 x TFA: trifluoroacetic acid(Non-covalent)

TFA.3: 10 residues within 4Å: Chain A: Y.119, Y.125, V.148, T.160, H.194, G.195, G.196, K.204, I.206 Ligands: IMD.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.160 Salt bridges: A:K.204 TFA.10: 10 residues within 4Å: Chain C: Y.119, Y.125, V.148, T.160, H.194, G.195, G.196, K.204, I.206 Ligands: IMD.7 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Y.119, C:Y.119 Water bridges: C:K.204 Salt bridges: C:K.204 TFA.14: 10 residues within 4Å: Chain D: Y.119, Y.125, V.148, T.160, H.194, G.195, G.196, K.204, I.206 Ligands: IMD.13 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.160 Salt bridges: D:K.204

1 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.5: 12 residues within 4Å: Chain B: Y.119, Y.125, H.128, D.130, T.160, H.194, G.196, K.204, I.206, T.208, W.210 Ligands: CO.4 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:I.206 Hydrogen bonds: B:Y.119, B:T.208 Water bridges: B:K.204 Salt bridges: B:H.128, B:K.204

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.11: 3 residues within 4Å: Chain C: H.110, I.144, R.213 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:I.144 Hydrogen bonds: C:H.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schnicker, N.J. et al., Bacillus anthracis Prolyl 4-Hydroxylase Interacts with and Modifies Elongation Factor Tu. Biochemistry (2017)

Release Date

2017-10-18

Peptides

2OG-Fe(II) oxygenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
C

2OG-Fe(II) oxygenase

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