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SMTL ID : 9cqw.1

Human DeoxyHb (C2 symmetry) obtained using the SPT Labtech chameleon In the presence of 60 mM sodium dithionite under Al's oil

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

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

HEM.1:	17 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, L.136 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:Y.42, A:F.43, A:F.43, A:K.61, A:V.62, A:V.62, A:L.83, A:L.83, A:L.91, A:L.91, A:V.93, A:N.97, A:F.98, A:F.98, A:L.101, A:L.136 Salt bridges: A:H.45 pi-Stacking: A:H.58 Metal complexes: A:H.87
HEM.2:	17 residues within 4Å: Chain B: T.38, F.41, F.42, F.45, H.63, K.66, V.67, A.70, F.71, L.88, H.92, L.96, V.98, N.102, F.103, L.106, L.141 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:T.38, B:F.41, B:F.41, B:F.42, B:F.42, B:F.42, B:V.67, B:V.67, B:F.71, B:F.71, B:L.88, B:L.88, B:L.96, B:L.96, B:V.98, B:N.102, B:F.103, B:L.141 pi-Stacking: B:H.63 Metal complexes: B:H.92
HEM.3:	19 residues within 4Å: Chain C: Y.42, F.43, H.45, F.46, H.58, K.61, V.62, A.65, L.66, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, V.132, L.136 19 PLIP interactions: 19 interactions with chain C, Hydrophobic interactions: C:Y.42, C:F.43, C:F.43, C:K.61, C:V.62, C:V.62, C:L.66, C:L.83, C:L.91, C:V.93, C:N.97, C:F.98, C:L.101, C:V.132, C:L.136 Salt bridges: C:H.45 pi-Stacking: C:H.58 pi-Cation interactions: C:H.87 Metal complexes: C:H.87
HEM.4:	19 residues within 4Å: Chain D: T.38, F.41, F.42, F.45, H.63, K.66, V.67, A.70, F.71, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, V.137, L.141 22 PLIP interactions: 22 interactions with chain D, Hydrophobic interactions: D:T.38, D:F.41, D:F.41, D:F.42, D:F.42, D:F.42, D:V.67, D:V.67, D:A.70, D:F.71, D:L.88, D:L.91, D:L.96, D:L.96, D:V.98, D:N.102, D:F.103, D:L.106, D:V.137, D:L.141 pi-Stacking: D:H.63 Metal complexes: D:H.92

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Cook, B.D. et al., Preparation of oxygen-sensitive proteins for high-resolution cryoEM structure determination using blot-free vitrification. Nat Commun (2025)

Release Date

2025-04-30

Peptides

Hemoglobin subunit alpha: AC
Hemoglobin subunit beta: 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

Hemoglobin subunit alpha

Toggle Identical (AC)

Hemoglobin subunit beta

Toggle Identical (BD)

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