SMTL ID : 2dc3.1

Crystal structure of human cytoglobin at 1.68 angstroms resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.68 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 16 residues within 4Å: Chain A: F.52, A.59, Y.62, F.63, Q.80, H.84, R.87, V.88, A.91, A.115, H.116, H.120, V.122, Y.126, F.127, L.130 24 PLIP interactions: 24 interactions with chain A, Hydrophobic interactions: A:F.52, A:A.59, A:Y.62, A:Y.62, A:F.63, A:R.87, A:V.88, A:A.91, A:V.122, A:V.122, A:F.127 Hydrogen bonds: A:Q.80 Water bridges: A:K.83, A:K.83, A:K.83, A:H.120 Salt bridges: A:K.83, A:K.119, A:H.120 pi-Stacking: A:H.84, A:H.116, A:H.120 Metal complexes: A:H.84, A:H.116 HEM.3: 17 residues within 4Å: Chain B: F.52, A.59, Y.62, F.63, Q.80, H.84, R.87, V.88, A.91, L.92, A.115, H.116, H.120, V.122, Y.126, F.127, L.130 25 PLIP interactions: 25 interactions with chain B, Hydrophobic interactions: B:F.52, B:A.59, B:Y.62, B:Y.62, B:F.63, B:F.63, B:F.63, B:R.87, B:V.88, B:A.91, B:L.92, B:V.122, B:V.122, B:Y.126, B:F.127 Hydrogen bonds: B:Q.80 Water bridges: B:H.116 Salt bridges: B:K.119, B:H.120 pi-Stacking: B:H.84, B:H.116, B:H.116, B:H.120 Metal complexes: B:H.84, B:H.116

1 x ACY: ACETIC ACID(Non-functional Binders)

ACY.2: 7 residues within 4Å: Chain A: Y.38, C.86, G.90 Chain B: Y.38, C.41, C.86, G.90 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.38, B:Y.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Makino, M. et al., High-resolution structure of human cytoglobin: identification of extra N- and C-termini and a new dimerization mode. Acta Crystallogr.,Sect.D (2006)

Release Date

2006-05-23

Peptides

Cytoglobin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cytoglobin

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