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SMTL ID : 1ygd.1

T-To-T(High) quaternary transitions in human hemoglobin: betaW37E alpha zinc beta oxy (10 TEST SETS)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.73 Å

Oligo State

hetero-2-2-mer

Ligands

2 x ZNH: PROTOPORPHYRIN IX CONTAINING ZN(Non-covalent)

ZNH.1:

18 residues within 4Å:

Chain A: T.39, Y.42, F.43, H.45, F.46, H.58, K.61, A.65, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, V.132, L.136

20 PLIP interactions:

19 interactions with chain A, 1 Ligand-Water interactions,

Hydrophobic interactions: A:Y.42, A:Y.42, A:F.43, A:A.65, A:L.83, A:L.83, A:L.86, A:L.91, A:V.93, A:N.97, A:F.98, A:L.101, A:V.132, A:L.136
Salt bridges: A:H.45, A:K.61
pi-Stacking: A:H.58, A:H.58
Metal complexes: A:H.87, H₂O.1

ZNH.4:

18 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, L.136

16 PLIP interactions:

15 interactions with chain C, 1 Ligand-Water interactions,

Hydrophobic interactions: C:F.43, C:F.43, C:F.43, C:V.62, C:L.83, C:L.86, C:L.91, C:V.93, C:F.98, C:L.101, C:L.136
Salt bridges: C:H.45, C:K.61
pi-Stacking: C:H.58
Metal complexes: C:H.87, H₂O.4

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

HEM.2:	14 residues within 4Å: Chain B: F.41, H.63, K.66, V.67, F.71, L.88, L.91, H.92, L.96, V.98, N.102, L.106, L.141 Ligands: OXY.3 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:F.41, B:F.41, B:K.66, B:V.67, B:F.71, B:L.88, B:L.91, B:L.96, B:L.96, B:V.98, B:V.98, B:L.106, B:L.141 Salt bridges: B:H.63, B:K.66, B:K.66 Metal complexes: B:H.92
HEM.5:	16 residues within 4Å: Chain D: L.31, T.38, F.41, H.63, K.66, A.70, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141 Ligands: OXY.6 15 PLIP interactions: 15 interactions with chain D, Hydrophobic interactions: D:L.31, D:T.38, D:F.41, D:F.41, D:A.70, D:L.88, D:L.91, D:L.96, D:L.96, D:V.98, D:N.102, D:F.103, D:L.141 Salt bridges: D:K.66 Metal complexes: D:H.92

2 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.3:	4 residues within 4Å: Chain B: H.63, V.67, H.92 Ligands: HEM.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.63
OXY.6:	4 residues within 4Å: Chain D: H.63, V.67, H.92 Ligands: HEM.5 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:H.63

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Kavanaugh, J.S. et al., Crystallographic evidence for a new ensemble of ligand-induced allosteric transitions in hemoglobin: the T-to-T(high) quaternary transitions. Biochemistry (2005)

Release Date

2005-01-11

Peptides

Hemoglobin alpha chain: AC
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

Hemoglobin alpha chain

Toggle Identical (AC)

Hemoglobin beta chain

Toggle Identical (BD)

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