SMTL ID : 3tld.1

Crystal Structure of Y29F mutant of Vitreoscilla hemoglobin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 21 residues within 4Å: Chain A: V.39, L.42, F.43, P.54, A.56, L.57, T.60, V.61, I.81, K.84, H.85, Q.87, A.88, V.90, H.94, Y.95, V.98, Y.126, I.129, A.130, F.133 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:L.42, A:F.43, A:F.43, A:P.54, A:L.57, A:T.60, A:V.61, A:I.81, A:V.90, A:V.90, A:Y.95, A:V.98, A:I.129, A:F.133, A:F.133 Water bridges: A:K.84, A:Q.87 Salt bridges: A:K.84 Metal complexes: A:H.85 HEM.3: 22 residues within 4Å: Chain B: V.39, L.42, F.43, M.45, P.54, A.56, L.57, T.60, V.61, I.81, K.84, H.85, Q.87, A.88, V.90, H.94, Y.95, V.98, Y.126, I.129, A.130, F.133 19 PLIP interactions: 19 interactions with chain B, Hydrophobic interactions: B:L.42, B:L.42, B:F.43, B:F.43, B:F.43, B:P.54, B:P.54, B:L.57, B:T.60, B:I.81, B:V.90, B:V.90, B:Y.95, B:Y.95, B:V.98, B:Y.126, B:F.133 Salt bridges: B:K.84 Metal complexes: B:H.85

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: L.110, G.111, D.112, A.113 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.112, A:D.112 GOL.4: 4 residues within 4Å: Chain B: N.67, A.73, I.74, A.77 No protein-ligand interaction detected (PLIP) GOL.5: 7 residues within 4Å: Chain A: P.76 Chain B: K.79, D.139, L.140, A.142, Q.143, E.146 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.79 Water bridges: B:L.140

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ratakonda, S. et al., Crystallographic structure determination of B10 mutants of Vitreoscilla hemoglobin: role of Tyr29 (B10) in the structure of the ligand-binding site. Acta Crystallogr.,Sect.F (2013)

Release Date

2014-04-16

Peptides

Bacterial hemoglobin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bacterial hemoglobin