SMTL ID : 1jw8.2 (2 other biounits)

1.3 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF P6 FORM OF MYOGLOBIN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: T.52, E.53, A.54 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.53, A:A.54 SO4.2: 8 residues within 4Å: Chain A: A.16, K.17 Chain B: A.16, K.17 Chain C: A.16, K.17 Ligands: SO4.7, SO4.12 5 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A, 1 interactions with chain B Salt bridges: C:K.17, A:K.17, B:K.17 Water bridges: A:H.13, A:K.17 SO4.3: 3 residues within 4Å: Chain A: G.125, A.126, D.127 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.126, A:D.127 Water bridges: A:G.125, A:G.125, A:A.128 SO4.6: 3 residues within 4Å: Chain B: T.52, E.53, A.54 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.53, B:A.54 SO4.7: 8 residues within 4Å: Chain A: A.16, K.17 Chain B: A.16, K.17 Chain C: A.16, K.17 Ligands: SO4.2, SO4.12 5 PLIP interactions: 1 interactions with chain C, 3 interactions with chain B, 1 interactions with chain A Salt bridges: C:K.17, B:K.17, A:K.17 Water bridges: B:H.13, B:K.17 SO4.8: 3 residues within 4Å: Chain B: G.125, A.126, D.127 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.126, B:D.127 Water bridges: B:G.125, B:G.125, B:A.128 SO4.11: 3 residues within 4Å: Chain C: T.52, E.53, A.54 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.53, C:A.54 SO4.12: 8 residues within 4Å: Chain A: A.16, K.17 Chain B: A.16, K.17 Chain C: A.16, K.17 Ligands: SO4.2, SO4.7 5 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B, 1 interactions with chain A Water bridges: C:H.13, C:K.17 Salt bridges: C:K.17, B:K.17, A:K.17 SO4.13: 3 residues within 4Å: Chain C: G.125, A.126, D.127 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:A.126, C:D.127 Water bridges: C:G.125, C:G.125, C:A.128

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

HEM.4: 18 residues within 4Å: Chain A: T.40, K.43, F.44, R.46, H.65, T.68, V.69, A.72, L.90, S.93, H.94, H.98, I.100, Y.104, L.105, I.108, F.139 Ligands: CMO.5 27 PLIP interactions: 26 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:F.44, A:F.44, A:F.44, A:T.68, A:V.69, A:V.69, A:A.72, A:L.90, A:L.90, A:I.100, A:Y.104, A:I.108, A:F.139, A:F.139 Hydrogen bonds: A:S.93 Water bridges: A:R.46, A:H.65, A:P.89, A:S.93 Salt bridges: A:R.46, A:H.65, A:H.94, A:H.98 pi-Stacking: A:H.94, A:H.98 Metal complexes: A:H.94, CMO.5 HEM.9: 18 residues within 4Å: Chain B: T.40, K.43, F.44, R.46, H.65, T.68, V.69, A.72, L.90, S.93, H.94, H.98, I.100, Y.104, L.105, I.108, F.139 Ligands: CMO.10 27 PLIP interactions: 26 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:F.44, B:F.44, B:F.44, B:T.68, B:V.69, B:V.69, B:A.72, B:L.90, B:L.90, B:I.100, B:Y.104, B:I.108, B:F.139, B:F.139 Hydrogen bonds: B:S.93 Water bridges: B:R.46, B:H.65, B:P.89, B:S.93 Salt bridges: B:R.46, B:H.65, B:H.94, B:H.98 pi-Stacking: B:H.94, B:H.98 Metal complexes: B:H.94, CMO.10 HEM.14: 18 residues within 4Å: Chain C: T.40, K.43, F.44, R.46, H.65, T.68, V.69, A.72, L.90, S.93, H.94, H.98, I.100, Y.104, L.105, I.108, F.139 Ligands: CMO.15 27 PLIP interactions: 26 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: C:F.44, C:F.44, C:F.44, C:T.68, C:V.69, C:V.69, C:A.72, C:L.90, C:L.90, C:I.100, C:Y.104, C:I.108, C:F.139, C:F.139 Hydrogen bonds: C:S.93 Water bridges: C:R.46, C:H.65, C:P.89, C:S.93 Salt bridges: C:R.46, C:H.65, C:H.94, C:H.98 pi-Stacking: C:H.94, C:H.98 Metal complexes: C:H.94, CMO.15

3 x CMO: CARBON MONOXIDE(Non-functional Binders)

CMO.5: 5 residues within 4Å: Chain A: F.44, H.65, V.69, H.94 Ligands: HEM.4 No protein-ligand interaction detected (PLIP) CMO.10: 5 residues within 4Å: Chain B: F.44, H.65, V.69, H.94 Ligands: HEM.9 No protein-ligand interaction detected (PLIP) CMO.15: 5 residues within 4Å: Chain C: F.44, H.65, V.69, H.94 Ligands: HEM.14 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kondrashov, D.A. et al., Sampling of the native conformational ensemble of myoglobin via structures in different crystalline environments. Proteins (2008)

Release Date

2001-10-10

Peptides

MYOGLOBIN: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

MYOGLOBIN

Related Entries With Identical Sequence