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SMTL ID : 1qsh.1

MAGNESIUM(II)-AND ZINC(II)-PROTOPORPHYRIN IX'S STABILIZE THE LOWEST OXYGEN AFFINITY STATE OF HUMAN HEMOGLOBIN EVEN MORE STRONGLY THAN DEOXYHEME

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

hetero-oligomer

Ligands

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

HEM.1:

18 residues within 4Å:

Chain A: Y.42, F.43, H.45, F.46, H.58, K.61, V.62, A.65, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, V.132, L.136

23 PLIP interactions:

23 interactions with chain A,

Hydrophobic interactions: A:Y.42, A:F.43, A:F.43, A:F.46, A:K.61, A:V.62, A:A.65, A:L.83, A:L.83, A:L.86, A:L.91, A:L.91, A:V.93, A:V.93, A:F.98, A:F.98, A:V.132, A:L.136
Salt bridges: A:H.45, A:K.61, A:K.61
pi-Stacking: A:H.58
Metal complexes: A:H.87

HEM.3:

17 residues within 4Å:

Chain C: M.32, T.39, Y.42, F.43, H.45, H.58, K.61, A.65, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, L.136

16 PLIP interactions:

16 interactions with chain C,

Hydrophobic interactions: C:F.43, C:A.65, C:L.83, C:L.86, C:L.91, C:L.91, C:V.93, C:V.93, C:F.98, C:L.101, C:L.136
Salt bridges: C:H.45, C:K.61, C:K.61
pi-Stacking: C:H.58
Metal complexes: C:H.87

2 x HEG: PROTOPORPHYRIN IX CONTAINING MG(Non-covalent)

HEG.2:

15 residues within 4Å:

Chain B: F.41, F.42, H.63, K.66, V.67, A.70, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141

23 PLIP interactions:

23 interactions with chain B,

Hydrophobic interactions: B:F.41, B:F.41, B:F.42, B:F.42, B:F.42, B:K.66, B:K.66, B:V.67, B:L.88, B:L.91, B:L.96, B:L.96, B:V.98, B:N.102, B:F.103, B:F.103, B:L.106, B:L.141
Water bridges: B:K.66, B:K.66
Salt bridges: B:K.66
pi-Stacking: B:H.63
Metal complexes: B:H.92

HEG.4:

17 residues within 4Å:

Chain D: L.31, F.41, F.42, H.63, K.66, V.67, A.70, F.71, F.85, L.88, L.91, H.92, L.96, N.102, F.103, L.106, L.141

21 PLIP interactions:

21 interactions with chain D,

Hydrophobic interactions: D:L.31, D:F.41, D:F.41, D:F.42, D:F.42, D:K.66, D:V.67, D:F.71, D:F.85, D:L.88, D:L.91, D:L.96, D:L.96, D:N.102, D:F.103, D:L.106, D:L.106, D:L.141
Salt bridges: D:K.66
pi-Stacking: D:H.63
Metal complexes: D:H.92

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Miyazaki, G. et al., Magnesium(II) and zinc(II)-protoporphyrin IX's stabilize the lowest oxygen affinity state of human hemoglobin even more strongly than deoxyheme. J.Mol.Biol. (1999)

Release Date

1999-07-02

Peptides

PROTEIN (HEMOGLOBIN ALPHA CHAIN): AC
PROTEIN (HEMOGLOBIN BETA CHAIN): BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

PROTEIN (HEMOGLOBIN ALPHA CHAIN)

Toggle Identical (AC)

PROTEIN (HEMOGLOBIN BETA CHAIN)

Toggle Identical (BD)

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