SMTL ID : 4ldv.1

Crystal structure of the DNA binding domain of A. thailana auxin response factor 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

2 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 1 residues within 4Å: Chain A: Q.158 Ligand excluded by PLIP IOD.14: 1 residues within 4Å: Chain B: Q.158 Ligand excluded by PLIP

14 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 1 residues within 4Å: Chain A: R.293 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: R.36, E.37, I.80 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: P.344, E.345, R.346 Ligand excluded by PLIP CL.5: 6 residues within 4Å: Chain A: T.33, P.35, I.274, V.275, S.276, R.279 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: M.49, H.243, W.323 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain A: E.163, R.177 Ligand excluded by PLIP CL.8: 1 residues within 4Å: Chain A: Q.157 Ligand excluded by PLIP CL.15: 1 residues within 4Å: Chain B: R.293 Ligand excluded by PLIP CL.16: 3 residues within 4Å: Chain B: R.36, E.37, I.80 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain B: P.344, E.345, R.346 Ligand excluded by PLIP CL.18: 6 residues within 4Å: Chain B: T.33, P.35, I.274, V.275, S.276, R.279 Ligand excluded by PLIP CL.19: 3 residues within 4Å: Chain B: M.49, H.243, W.323 Ligand excluded by PLIP CL.20: 2 residues within 4Å: Chain B: E.163, R.177 Ligand excluded by PLIP CL.21: 1 residues within 4Å: Chain B: Q.157 Ligand excluded by PLIP

10 x FMT: FORMIC ACID(Non-functional Binders)

FMT.9: 3 residues within 4Å: Chain A: R.177, I.179, R.181 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.177, A:R.181, A:R.181 FMT.10: 5 residues within 4Å: Chain A: R.21, W.24, H.25, L.34, R.82 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.34, A:R.82, A:R.82 FMT.11: 5 residues within 4Å: Chain A: E.61, Q.62, Q.63, M.64, H.240 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.240 Water bridges: A:H.243 FMT.12: 4 residues within 4Å: Chain A: P.151, R.212, E.216, L.218 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.212 FMT.13: 7 residues within 4Å: Chain A: D.89, D.168, L.169, K.200, V.220, G.221, V.222 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.168, A:L.169, A:V.222 FMT.22: 3 residues within 4Å: Chain B: R.177, I.179, R.181 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.177, B:R.181, B:R.181 FMT.23: 5 residues within 4Å: Chain B: R.21, W.24, H.25, L.34, R.82 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.34, B:R.82, B:R.82 Water bridges: B:H.25 FMT.24: 5 residues within 4Å: Chain B: E.61, Q.62, Q.63, M.64, H.240 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.240 FMT.25: 4 residues within 4Å: Chain B: P.151, R.212, E.216, L.218 1 PLIP interactions: 1 interactions with chain B Water bridges: B:R.212 FMT.26: 7 residues within 4Å: Chain B: D.89, D.168, L.169, K.200, V.220, G.221, V.222 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.89, B:L.169, B:V.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boer, D.R. et al., Structural Basis for DNA Binding Specificity by the Auxin-Dependent ARF Transcription Factors. Cell(Cambridge,Mass.) (2014)

Release Date

2014-02-12

Peptides

Auxin response factor 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Auxin response factor 1

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