SMTL ID : 1cls.1

CROSS-LINKED HUMAN HEMOGLOBIN DEOXY

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-2-2-mer

Ligands

4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)(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, L.136 Ligands: O.2 22 PLIP interactions: 21 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: 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:L.101, A:L.136 Salt bridges: A:H.45, A:K.61 pi-Stacking: A:H.58, A:H.58 Metal complexes: A:H.87, O.2 HEM.4: 18 residues within 4Å: Chain B: T.38, F.41, F.42, 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 20 PLIP interactions: 20 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:V.67, B:F.71, B:L.88, B:L.91, B:L.96, B:L.96, B:V.98, B:V.98, B:N.102, B:L.106, B:V.137, B:L.141 Salt bridges: B:K.66 Metal complexes: B:H.92 HEM.5: 19 residues within 4Å: Chain C: T.39, 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 Ligands: O.6 19 PLIP interactions: 18 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: C:F.43, C:A.65, C:L.83, C:L.86, C:L.91, C:V.93, C:V.93, C:F.98, C:F.98, C:L.101, C:L.101, C:L.136 Water bridges: C:H.45, C:H.58 Salt bridges: C:H.45 pi-Stacking: C:H.58, C:H.58 Metal complexes: C:H.87, O.6 HEM.8: 17 residues within 4Å: Chain D: L.31, F.41, F.42, F.45, H.63, K.66, V.67, A.70, F.71, F.85, H.92, L.96, V.98, N.102, F.103, L.106, L.141 19 PLIP interactions: 19 interactions with chain D, Hydrophobic interactions: D:L.31, D:F.41, D:F.41, D:F.42, D:F.42, D:F.42, D:K.66, D:V.67, D:F.85, D:L.96, D:L.96, D:V.98, D:V.98, D:L.106, D:L.106, D:L.141 Water bridges: D:K.66 Salt bridges: D:K.66 Metal complexes: D:H.92

2 x O: OXYGEN ATOM(Non-covalent)

O.2: 3 residues within 4Å: Chain A: H.58, V.62 Ligands: HEM.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.58 O.6: 3 residues within 4Å: Chain C: H.58, V.62 Ligands: HEM.5 No protein-ligand interaction detected (PLIP)

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 6 residues within 4Å: Chain B: V.1, L.78, D.79, N.80, L.81, K.82 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:V.1, B:V.1, B:L.81, B:K.82 SO4.7: 6 residues within 4Å: Chain D: V.1, L.78, D.79, N.80, L.81, K.82 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:V.1, D:V.1, D:L.81, D:K.82 Salt bridges: D:K.82

1 x DEC: SEBACIC ACID(Covalent)

DEC.9: 3 residues within 4Å: Chain B: K.82 Chain D: K.82, N.139 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Water bridges: B:K.82 Hydrogen bonds: D:N.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bucci, E. et al., Positive and negative cooperativities at subsequent steps of oxygenation regulate the allosteric behavior of multistate sebacylhemoglobin. Biochemistry (1996)

Release Date

1996-10-14

Peptides

HEMOGLOBIN: AC
HEMOGLOBIN: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

HEMOGLOBIN

HEMOGLOBIN

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