SMTL ID : 4jhh.1

Crystal Structure of Medicago truncatula Nodulin 13 (MtN13) in complex with kinetin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x H35: N-(FURAN-2-YLMETHYL)-7H-PURIN-6-AMINE(Non-covalent)

H35.1: 13 residues within 4Å: Chain A: T.71, Q.73, Y.87, V.89, I.103, F.105, Y.138, G.142, R.145, F.149 Chain B: G.66, D.67, F.68 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.103, A:F.105 Hydrogen bonds: A:Q.73, B:D.67, B:D.67 pi-Stacking: A:F.105 H35.4: 13 residues within 4Å: Chain A: G.66, D.67, F.68 Chain B: T.71, Q.73, Y.87, V.89, I.103, F.105, Y.138, G.142, R.145, F.149 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:D.67, A:D.67, B:Q.73, B:Y.87 Hydrophobic interactions: B:I.103, B:F.105 pi-Stacking: B:F.105

2 x MLI: MALONATE ION(Non-functional Binders)

MLI.2: 4 residues within 4Å: Chain A: E.91, G.92, I.93, A.94 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.92, A:I.93, A:A.94 MLI.5: 4 residues within 4Å: Chain B: E.91, G.92, I.93, A.94 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.92, B:I.93, B:A.94

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 3 residues within 4Å: Chain A: F.64, V.65, G.66 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.64 Water bridges: A:G.66, A:G.69 NA.6: 3 residues within 4Å: Chain B: F.64, V.65, G.66 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Water bridges: B:G.66, B:G.69 Hydrogen bonds: A:A.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ruszkowski, M. et al., The landscape of cytokinin binding by a plant nodulin. Acta Crystallogr.,Sect.D (2013)

Release Date

2013-12-04

Peptides

MtN13 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

MtN13 protein

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