SMTL ID : 3sjl.1

Crystal Structure of the P107S-MauG/pre-Methylamine Dehydrogenase Complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.63 Å

Oligo State

hetero-2-2-2-mer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: N.66, T.275, P.277 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.275, A:P.277, H2O.1, H2O.1, H2O.1 CA.7: 3 residues within 4Å: Chain B: N.66, T.275, P.277 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:P.277, H2O.16, H2O.17, H2O.17, H2O.18

4 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain A: N.231, T.233 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.231, A:T.233, A:T.233 NA.3: 4 residues within 4Å: Chain A: L.250, A.251, R.252, I.255 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.252, A:I.255 NA.8: 2 residues within 4Å: Chain B: N.231, T.233 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.231, B:T.233, B:T.233 NA.9: 4 residues within 4Å: Chain B: L.250, A.251, R.252, I.255 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.250, B:G.254, B:I.255

4 x HEC: HEME C(Covalent)

HEC.4: 23 residues within 4Å: Chain A: Q.29, S.30, C.31, C.34, H.35, R.65, N.66, T.67, P.68, L.70, Q.91, F.92, W.93, R.96, L.100, Q.103, S.107, V.112, E.113, M.114, L.159, Q.163, K.265 17 PLIP interactions: 17 interactions with chain A, Hydrophobic interactions: A:T.67, A:P.68, A:L.70, A:L.100, A:Q.103, A:E.113, A:L.159 Hydrogen bonds: A:F.92, A:W.93 Water bridges: A:R.96, A:K.265, A:K.265 Salt bridges: A:R.65, A:R.96, A:K.265 Metal complexes: A:H.35, A:E.113 HEC.5: 21 residues within 4Å: Chain A: W.93, N.200, C.201, C.204, H.205, H.224, I.226, L.228, F.264, V.266, P.267, L.269, V.272, Y.278, M.279, H.280, L.287, Y.294, S.324, E.327, L.334 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:W.93, A:H.224, A:I.226, A:I.226, A:L.228, A:V.266, A:P.267, A:L.269, A:L.287, A:Y.294, A:Y.294, A:E.327, A:L.334 Hydrogen bonds: A:M.279, A:H.280 Water bridges: A:I.226 Salt bridges: A:H.280 Metal complexes: A:H.205, A:Y.294 HEC.10: 23 residues within 4Å: Chain B: Q.29, S.30, C.31, C.34, H.35, R.65, N.66, T.67, P.68, L.70, Q.91, F.92, W.93, R.96, L.100, Q.103, S.107, V.112, E.113, M.114, L.159, Q.163, K.265 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:T.67, B:P.68, B:L.70, B:L.100, B:Q.103, B:E.113, B:L.159 Hydrogen bonds: B:Q.91, B:F.92, B:W.93 Water bridges: B:R.96, B:K.265, B:K.265 Salt bridges: B:R.65, B:R.96, B:K.265 Metal complexes: B:H.35, B:E.113 HEC.11: 21 residues within 4Å: Chain B: W.93, N.200, C.201, C.204, H.205, H.224, I.226, L.228, F.264, P.267, L.269, V.272, Y.278, M.279, H.280, L.287, A.290, Y.294, S.324, E.327, L.334 21 PLIP interactions: 21 interactions with chain B, Hydrophobic interactions: B:H.224, B:I.226, B:I.226, B:L.228, B:P.267, B:L.269, B:L.269, B:L.287, B:A.290, B:Y.294, B:Y.294, B:E.327, B:L.334 Hydrogen bonds: B:M.279, B:H.280 Water bridges: B:I.226, B:S.268, B:T.275 Salt bridges: B:H.280 Metal complexes: B:H.205, B:Y.294

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 8 residues within 4Å: Chain A: K.101, Q.102, G.105, Q.106, R.119, F.152, D.153, A.156 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.119 Water bridges: A:Q.102, A:R.119, A:D.153 PEG.12: 8 residues within 4Å: Chain B: K.101, Q.102, G.105, Q.106, R.119, F.152, D.153, A.156 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.102, B:R.119, B:D.153 Water bridges: B:R.119, B:D.153 PEG.13: 4 residues within 4Å: Chain B: E.347, L.358, E.359, E.360 No protein-ligand interaction detected (PLIP)

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.14: 4 residues within 4Å: Chain B: A.74, L.75, A.164, R.215 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.215 Water bridges: B:T.165, B:S.169 EDO.15: 5 residues within 4Å: Chain D: P.52, G.136, T.137, W.282, Q.378 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.137, D:Q.378 EDO.17: 3 residues within 4Å: Chain D: H.375 Chain F: K.354, H.375 6 PLIP interactions: 3 interactions with chain F, 3 interactions with chain D Hydrogen bonds: F:K.354, F:H.375 Water bridges: F:H.54, D:H.375, D:H.375, D:H.375

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.16: 3 residues within 4Å: Chain F: R.35, L.37, E.38 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:E.38, F:E.38 Salt bridges: F:R.35, F:E.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Feng, M. et al., Proline 107 is a major determinant in maintaining the structure of the distal pocket and reactivity of the high-spin heme of MauG. Biochemistry (2012)

Release Date

2012-05-02

Peptides

Methylamine utilization protein mauG: AB
Methylamine dehydrogenase light chain: CE
Methylamine dehydrogenase heavy chain: DF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

E
E

D
D

F
F

Methylamine utilization protein mauG

Methylamine dehydrogenase light chain

Methylamine dehydrogenase heavy chain

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