SMTL ID : 1i9c.1

GLUTAMATE MUTASE FROM CLOSTRIDIUM COCHLEARIUM: COMPLEX WITH ADENOSYLCOBALAMIN AND SUBSTRATE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-2-2-mer

Ligands

2 x B12: COBALAMIN(Non-covalent)

B12.1: 48 residues within 4Å: Chain A: S.13, D.14, C.15, H.16, A.17, V.18, G.19, I.22, L.23, L.59, S.61, L.63, Y.64, G.65, Y.89, G.91, G.92, N.93, V.95, V.96, G.97, Y.117, T.121, P.123, G.126 Chain B: T.94, I.95, A.97, R.100, N.123, P.180, Y.181, L.219, T.220, M.294, G.295, G.296, F.297, H.329, E.330, A.331, G.333, I.334, P.410, F.471 Ligands: 5AD.2, GLU.3, 2AS.4 30 PLIP interactions: 21 interactions with chain A, 9 interactions with chain B, Hydrophobic interactions: A:I.22, A:L.23, A:L.59, A:Y.64, A:Y.89, A:Y.117, B:Y.181, B:F.471 Hydrogen bonds: A:S.13, A:D.14, A:C.15, A:A.17, A:V.18, A:G.19, A:L.63, A:G.97, B:N.123, B:P.180, B:F.297, B:E.330, B:I.334 Water bridges: A:G.92, A:N.93, A:N.93, A:V.95, A:V.95, A:G.120, B:Q.101, B:A.331 Metal complexes: A:H.16 B12.5: 48 residues within 4Å: Chain C: S.13, D.14, C.15, H.16, A.17, V.18, G.19, I.22, L.23, S.61, L.63, Y.64, G.65, Y.89, G.91, G.92, N.93, V.95, V.96, G.97, Y.117, T.121, P.123, G.126 Chain D: T.94, I.95, A.97, R.100, N.123, P.180, Y.181, L.219, T.220, M.294, G.295, G.296, F.297, H.329, E.330, A.331, G.333, I.334, P.410, I.470, F.471 Ligands: 5AD.6, GLU.7, 2AS.8 27 PLIP interactions: 17 interactions with chain C, 10 interactions with chain D, Hydrophobic interactions: C:I.22, C:L.23, C:Y.64, C:Y.89, C:Y.117, D:Y.181, D:I.470, D:F.471 Hydrogen bonds: C:S.13, C:C.15, C:A.17, C:V.18, C:G.19, C:L.63, C:G.97, D:I.95, D:P.180, D:F.297, D:E.330, D:I.334 Water bridges: C:G.92, C:N.93, C:V.95, C:G.120, D:Q.101, D:A.331 Metal complexes: C:H.16

2 x 5AD: 5'-DEOXYADENOSINE(Non-covalent)

5AD.2: 13 residues within 4Å: Chain B: R.66, A.67, G.68, T.94, N.123, G.124, K.326, E.330, I.334, P.335 Ligands: B12.1, GLU.3, 2AS.4 8 PLIP interactions: 7 interactions with chain B, 1 Ligand-Ligand interactions Hydrogen bonds: B:G.68, B:G.68, B:K.326, B:E.330 Water bridges: B:R.66, B:E.330, B:E.330 Hydrophobic interactions: E.3 5AD.6: 12 residues within 4Å: Chain D: R.66, A.67, G.68, T.94, N.123, K.326, E.330, I.334, P.335 Ligands: B12.5, GLU.7, 2AS.8 6 PLIP interactions: 5 interactions with chain D, 1 Ligand-Ligand interactions Hydrogen bonds: D:G.68, D:N.123, D:K.326, D:E.330 Water bridges: D:R.66 Hydrophobic interactions: E.7

2 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.3: 13 residues within 4Å: Chain B: R.66, T.94, R.100, R.149, H.150, E.171, Y.177, Y.181, F.216, H.291 Ligands: B12.1, 5AD.2, 2AS.4 12 PLIP interactions: 8 interactions with chain B, 4 Ligand-Ligand interactions Hydrophobic interactions: B:F.216 Hydrogen bonds: B:E.171, B:Y.177, B:Y.181, E.3, E.3, E.3, E.3 Salt bridges: B:R.66, B:R.100, B:R.149, B:H.291 GLU.7: 13 residues within 4Å: Chain D: R.66, T.94, R.100, R.149, H.150, E.171, Y.177, Y.181, F.216, H.291 Ligands: B12.5, 5AD.6, 2AS.8 9 PLIP interactions: 8 interactions with chain D, 1 Ligand-Ligand interactions Hydrophobic interactions: D:F.216 Hydrogen bonds: D:E.171, D:Y.181 Water bridges: D:R.66, E.7 Salt bridges: D:R.66, D:R.100, D:R.149, D:H.291

2 x 2AS: (2S,3S)-3-methyl-aspartic acid(Non-covalent)

2AS.4: 14 residues within 4Å: Chain B: R.66, T.94, R.100, R.149, H.150, E.171, Y.177, Y.181, F.216, H.291, M.294 Ligands: B12.1, 5AD.2, GLU.3 14 PLIP interactions: 8 interactions with chain B, 6 Ligand-Ligand interactions Hydrophobic interactions: B:F.216, E.3, E.3 Hydrogen bonds: B:Y.177, B:Y.177, B:Y.181, E.3, E.3, E.3 Salt bridges: B:R.66, B:R.100, B:R.149, B:H.291 Water bridges: E.3 2AS.8: 14 residues within 4Å: Chain D: R.66, T.94, R.100, R.149, H.150, E.171, Y.177, Y.181, F.216, H.291, M.294 Ligands: B12.5, 5AD.6, GLU.7 12 PLIP interactions: 8 interactions with chain D, 4 Ligand-Ligand interactions Hydrophobic interactions: D:F.216, E.7, E.7 Hydrogen bonds: D:H.150, D:Y.181, E.7 Water bridges: D:R.66, E.7 Salt bridges: D:R.66, D:R.100, D:R.149, D:H.291

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gruber, K. et al., Radical Shuttling in a Protein: Ribose Pseudorotation Controls Alkyl-Radical Transfer in the Coenzyme B(12) Dependent Enzyme Glutamate Mutase. Angew.Chem.Int.Ed.Engl. (2001)

Release Date

2002-03-19

Peptides

GLUTAMATE MUTASE: AC
GLUTAMATE MUTASE: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

GLUTAMATE MUTASE

GLUTAMATE MUTASE

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