SMTL ID : 3koq.2 (1 other biounit)

Crystal structure of a nitroreductase family protein (cd3355) from clostridium difficile 630 at 1.58 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 22 residues within 4Å: Chain A: R.29, Y.30, S.31, R.33, Y.85, V.134, W.135, V.136, C.137, Y.138, R.174, R.179 Chain B: P.56, T.57, G.58, G.59, N.60, L.110, I.113, D.114, I.117 Ligands: GOL.8 22 PLIP interactions: 18 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:W.135, B:L.110, B:I.113, B:I.117 Hydrogen bonds: A:S.31, A:S.31, A:S.31, A:S.31, A:R.33, A:R.33, A:Y.85, A:Y.85, A:C.137, A:Y.138, B:G.59 Water bridges: A:R.29, A:R.33, A:R.174, A:R.179 Salt bridges: A:R.29, A:R.174, A:R.179 FMN.5: 19 residues within 4Å: Chain A: P.56, T.57, G.58, N.60, I.113, D.114, I.117 Chain B: R.29, Y.30, S.31, R.33, Y.85, V.134, W.135, V.136, C.137, Y.138, R.174, R.179 23 PLIP interactions: 4 interactions with chain A, 19 interactions with chain B Hydrophobic interactions: A:I.113, A:I.117, B:W.135, B:W.135 Hydrogen bonds: A:G.59, B:S.31, B:S.31, B:S.31, B:S.31, B:R.33, B:R.33, B:Y.85, B:C.137, B:Y.138 Water bridges: A:G.59, B:R.33, B:R.33, B:R.33, B:R.174, B:R.179 Salt bridges: B:R.29, B:R.174, B:R.179

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: A.81, A.82, N.83, Y.138 Chain B: F.105 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.83 Water bridges: A:A.81 GOL.3: 7 residues within 4Å: Chain A: K.28, T.127, G.130, L.131, A.132, E.165, P.169 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.28, A:T.127, A:E.165 GOL.4: 6 residues within 4Å: Chain A: K.177, T.178, R.179, V.180 Chain B: N.60, Q.62 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.60, B:Q.62 GOL.6: 3 residues within 4Å: Chain B: K.28, G.130, P.169 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.28 Water bridges: B:K.28, B:T.127, B:G.130 GOL.7: 9 residues within 4Å: Chain A: M.20, F.22, L.25, E.128 Chain B: M.20, N.21, F.22, L.25, E.128 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.128, B:E.128 GOL.8: 6 residues within 4Å: Chain A: Y.138 Chain B: G.58, G.59, W.101, L.110 Ligands: FMN.1 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.59, B:W.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of Nitroreductase family protein (YP_001089872.1) from Clostridium difficile 630 at 1.58 A resolution. To be published

Release Date

2009-12-01

Peptides

NITROREDUCTASE FAMILY PROTEIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

NITROREDUCTASE FAMILY PROTEIN

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