SMTL ID : 3gag.1 (1 other biounit)

Crystal structure of a nitroreductase-like protein (smu.346) from streptococcus mutans at 1.70 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 24 residues within 4Å: Chain A: R.13, V.14, S.15, R.17, Q.70, Q.72, V.155, P.156, M.157, R.158, G.159, L.179, H.193, R.195 Chain B: Y.39, P.41, S.42, G.43, N.45, L.134, D.135, L.138 Ligands: GOL.5, GOL.10 27 PLIP interactions: 6 interactions with chain B, 21 interactions with chain A Hydrophobic interactions: B:L.134, B:L.138, A:P.156, A:R.158, A:R.158, A:L.179 Hydrogen bonds: B:Y.39, B:S.42, B:N.44, A:S.15, A:S.15, A:S.15, A:S.15, A:R.17, A:R.17, A:Q.70, A:Q.70, A:Q.72, A:R.158, A:G.159 Water bridges: B:N.44, A:R.17, A:R.17, A:R.17 Salt bridges: A:R.13, A:H.193, A:R.195 FMN.7: 24 residues within 4Å: Chain A: Y.39, P.41, S.42, G.43, N.45, L.134, D.135, L.138 Chain B: R.13, V.14, S.15, R.17, Q.70, Q.72, V.155, P.156, M.157, R.158, G.159, L.179, H.193, R.195 Ligands: GOL.6, GOL.9 24 PLIP interactions: 4 interactions with chain A, 20 interactions with chain B Hydrophobic interactions: A:L.134, A:L.138, B:P.156, B:R.158, B:R.158, B:L.179 Hydrogen bonds: A:S.42, A:N.44, B:S.15, B:S.15, B:S.15, B:S.15, B:R.17, B:R.17, B:Q.70, B:Q.70, B:Q.72, B:R.158, B:G.159 Water bridges: B:R.17, B:H.193 Salt bridges: B:R.13, B:H.193, B:R.195

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

SO4.2: 2 residues within 4Å: Chain A: N.27, K.31 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.27 Water bridges: A:N.27, A:K.31, A:K.31, A:K.31 Salt bridges: A:K.31

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: P.192, H.193 Chain B: Y.39 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.193, A:H.193 GOL.4: 7 residues within 4Å: Chain A: V.14, V.16, R.148, D.153, A.186, A.189, G.190 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.148, A:R.148, A:D.153, A:G.190 GOL.5: 8 residues within 4Å: Chain A: N.191, P.192, H.193, V.194, R.195 Chain B: N.45, I.103 Ligands: FMN.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.191, A:V.194, A:V.194, A:R.195 GOL.6: 4 residues within 4Å: Chain A: G.43, N.44 Chain B: R.17 Ligands: FMN.7 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.17, A:N.44 GOL.8: 7 residues within 4Å: Chain B: D.11, G.12, V.14, G.190, N.191, P.192, H.193 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.11, B:G.12 GOL.9: 7 residues within 4Å: Chain A: N.45 Chain B: N.191, P.192, H.193, V.194, R.195 Ligands: FMN.7 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:V.194, B:V.194, B:R.195 Water bridges: B:R.17, B:P.192 GOL.10: 2 residues within 4Å: Chain B: N.44 Ligands: FMN.1 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.44 GOL.11: 8 residues within 4Å: Chain B: S.15, V.16, R.17, R.18, Q.188, A.189, G.190, N.191 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.15, B:R.17, B:R.17, B:R.18 Water bridges: B:N.191, B:N.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of nitroreductase-like protein (NP_720799.1) from Streptococcus mutans at 1.70 A resolution. To be published

Release Date

2009-03-10

Peptides

Putative NADH dehydrogenase, NADPH nitroreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative NADH dehydrogenase, NADPH nitroreductase

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