SMTL ID : 4c0n.1

Crystal structure of non symbiotic plant hemoglobin AHb3 (GLB3) from Arabidopsis thaliana

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

homo-dimer

Ligands

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

CL.1: 9 residues within 4Å: Chain A: A.93, L.94, I.95, G.96 Chain B: A.93, L.94, I.95, G.96 Ligands: CL.4 Ligand excluded by PLIP CL.4: 9 residues within 4Å: Chain A: A.93, L.94, I.95, G.96 Chain B: A.93, L.94, I.95, G.96 Ligands: CL.1 Ligand excluded by PLIP

2 x OH: HYDROXIDE ION(Non-covalent)

OH.2: 4 residues within 4Å: Chain A: Y.44, H.98, W.111 Ligands: HEM.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.44, A:W.111 OH.5: 4 residues within 4Å: Chain B: Y.44, H.98, W.111 Ligands: HEM.6 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.44, B:W.111

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.3: 21 residues within 4Å: Chain A: I.58, F.59, S.62, A.67, N.70, F.74, F.75, Y.85, K.89, L.94, R.97, H.98, F.101, V.103, A.108, W.111, F.137, T.140, A.141, L.144 Ligands: OH.2 28 PLIP interactions: 27 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:I.58, A:F.59, A:F.59, A:F.59, A:A.67, A:N.70, A:F.74, A:F.75, A:L.94, A:F.101, A:F.101, A:V.103, A:A.108, A:W.111, A:W.111, A:W.111, A:W.111, A:W.111, A:F.137, A:T.140 Hydrogen bonds: A:N.70 Water bridges: A:K.89, A:K.89, A:R.97 Salt bridges: A:K.89, A:R.97 Metal complexes: A:H.98, OH.2 HEM.6: 21 residues within 4Å: Chain B: I.58, F.59, S.62, A.67, N.70, F.74, F.75, Y.85, K.89, L.94, R.97, H.98, F.101, V.103, A.108, W.111, F.137, T.140, A.141, L.144 Ligands: OH.5 29 PLIP interactions: 28 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:I.58, B:F.59, B:F.59, B:F.59, B:A.67, B:N.70, B:F.74, B:F.75, B:L.94, B:F.101, B:F.101, B:V.103, B:A.108, B:W.111, B:W.111, B:W.111, B:W.111, B:W.111, B:F.137, B:T.140 Hydrogen bonds: B:N.70, B:Y.85 Water bridges: B:K.89, B:K.89, B:R.97 Salt bridges: B:K.89, B:R.97 Metal complexes: B:H.98, OH.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reeder, B.J. et al., The Structure of a Class 3 Nonsymbiotic Plant Haemoglobin from Arabidopsis Thaliana Reveals a Novel N-Terminal Helical Extension. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-05-14

Peptides

2-ON-2 HEMOGLOBIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

2-ON-2 HEMOGLOBIN

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