SMTL ID : 5bnc.1

Structure of heme binding protein MSMEG_6519 from Mycobacterium smegmatis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

2 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 2 residues within 4Å: Chain A: H.176, H.181 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.176, A:H.181, H2O.4 NI.6: 2 residues within 4Å: Chain B: H.176, H.181 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.176, B:H.181, H2O.9

4 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.2: 9 residues within 4Å: Chain A: F.45, V.46, T.47, C.58, H.65 Chain B: L.89, R.93, V.144 Ligands: EPE.5 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Salt bridges: B:R.93, A:H.65 Hydrogen bonds: A:T.47 Water bridges: A:S.44 EPE.3: 10 residues within 4Å: Chain A: L.89, R.93, R.142, V.144, G.146, M.150 Chain B: A.63, E.64, Y.125 Ligands: EPE.4 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:E.64, A:L.89, A:R.93, A:R.93 Water bridges: B:H.65 Salt bridges: A:R.142 EPE.4: 14 residues within 4Å: Chain A: L.89, R.93, V.94, T.95, R.142, V.144 Chain B: W.42, A.43, S.44, F.45, V.46, T.47, H.65 Ligands: EPE.3 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:F.45, B:T.47, B:T.47, A:R.93, A:R.93, A:T.95, A:T.95 EPE.5: 10 residues within 4Å: Chain A: A.63, E.64, Y.125 Chain B: L.89, R.93, R.142, V.144, G.146, M.150 Ligands: EPE.2 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:E.64, B:L.89, B:R.93, B:R.93 Water bridges: A:H.65, B:G.148 Salt bridges: B:R.142

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

SO4.7: 3 residues within 4Å: Chain B: T.204, G.205, D.212 1 PLIP interactions: 1 interactions with chain B Water bridges: B:A.206

1 x MG: MAGNESIUM ION(Non-covalent)

MG.8: 4 residues within 4Å: Chain B: D.61, S.129, F.131, S.132 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ahmed, F.H. et al., Sequence-Structure-Function Classification of a Catalytically Diverse Oxidoreductase Superfamily in Mycobacteria. J.Mol.Biol. (2015)

Release Date

2015-10-21

Peptides

heme binding protein MSMEG_6519: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

heme binding protein MSMEG_6519