SMTL ID : 1o68.2 (1 other biounit)

Crystal structure of 3-methyl-2-oxobutanoate hydroxymethyltransferase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-10-mer

Ligands

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

NA.1: 4 residues within 4Å: Chain A: D.45, D.84, K.113 Ligands: KIV.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.45, A:S.46, A:D.84, A:K.113 NA.3: 4 residues within 4Å: Chain B: D.45, D.84, K.113 Ligands: KIV.4 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.45, B:D.84, B:K.113 NA.5: 4 residues within 4Å: Chain D: D.45, D.84, K.113 Ligands: KIV.6 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:D.45, D:D.45, D:K.113, D:E.115 NA.7: 4 residues within 4Å: Chain E: D.45, D.84, K.113 Ligands: KIV.8 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:D.45, E:K.113, E:E.115 NA.9: 4 residues within 4Å: Chain F: D.45, D.84, K.113 Ligands: KIV.10 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:D.45, F:D.45, F:S.46, F:K.113 NA.11: 4 residues within 4Å: Chain G: D.45, D.84, K.113 Ligands: KIV.12 3 PLIP interactions: 3 interactions with chain G Hydrogen bonds: G:D.45, G:D.45, G:K.113 NA.13: 4 residues within 4Å: Chain I: D.45, D.84, K.113 Ligands: KIV.14 3 PLIP interactions: 3 interactions with chain I Hydrogen bonds: I:D.45, I:K.113, I:E.115 NA.15: 4 residues within 4Å: Chain J: D.45, D.84, K.113 Ligands: KIV.16 4 PLIP interactions: 4 interactions with chain J Hydrogen bonds: J:D.45, J:D.45, J:K.113, J:E.115

8 x KIV: 3-METHYL-2-OXOBUTANOIC ACID(Non-covalent)

KIV.2: 13 residues within 4Å: Chain A: T.23, L.42, G.44, D.45, S.46, D.84, K.113, H.137, L.179, E.181, I.202, V.212 Ligands: NA.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.42, A:L.179, A:I.202, A:V.212 Hydrogen bonds: A:D.45, A:D.45, A:S.46, A:S.46, A:K.113 Salt bridges: A:K.113 KIV.4: 11 residues within 4Å: Chain B: T.23, L.42, G.44, D.45, S.46, D.84, K.113, H.137, V.212, V.214 Ligands: NA.3 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.42, B:V.212, B:V.214 Hydrogen bonds: B:D.45, B:D.45, B:D.45, B:S.46, B:S.46, B:K.113 Salt bridges: B:K.113 KIV.6: 12 residues within 4Å: Chain D: T.23, L.42, G.44, D.45, S.46, D.84, K.113, H.137, L.179, I.202, V.214 Ligands: NA.5 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:L.42, D:L.179, D:I.202, D:V.214 Hydrogen bonds: D:D.45, D:D.45, D:D.45, D:S.46, D:S.46, D:K.113 Salt bridges: D:K.113 KIV.8: 12 residues within 4Å: Chain E: T.23, L.42, G.44, D.45, S.46, D.84, K.113, H.137, L.179, I.202, V.214 Ligands: NA.7 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:L.42, E:L.179, E:I.202 Hydrogen bonds: E:D.45, E:D.45, E:S.46, E:S.46 Salt bridges: E:K.113 KIV.10: 13 residues within 4Å: Chain F: T.23, L.42, G.44, D.45, S.46, D.84, K.113, H.137, L.179, E.181, I.202, V.212 Ligands: NA.9 12 PLIP interactions: 12 interactions with chain F Hydrophobic interactions: F:L.42, F:L.179, F:I.202, F:V.212 Hydrogen bonds: F:D.45, F:D.45, F:D.45, F:S.46, F:S.46, F:K.113, F:H.137 Salt bridges: F:K.113 KIV.12: 11 residues within 4Å: Chain G: T.23, L.42, G.44, D.45, S.46, D.84, K.113, H.137, V.212, V.214 Ligands: NA.11 10 PLIP interactions: 10 interactions with chain G Hydrophobic interactions: G:L.42, G:V.212, G:V.214 Hydrogen bonds: G:D.45, G:D.45, G:S.46, G:S.46, G:K.113, G:H.137 Salt bridges: G:K.113 KIV.14: 12 residues within 4Å: Chain I: T.23, L.42, G.44, D.45, S.46, D.84, K.113, H.137, L.179, I.202, V.214 Ligands: NA.13 11 PLIP interactions: 11 interactions with chain I Hydrophobic interactions: I:L.42, I:L.179, I:I.202, I:V.214 Hydrogen bonds: I:D.45, I:D.45, I:S.46, I:S.46, I:K.113, I:H.137 Salt bridges: I:K.113 KIV.16: 12 residues within 4Å: Chain J: T.23, L.42, G.44, D.45, S.46, D.84, K.113, H.137, L.179, I.202, V.214 Ligands: NA.15 9 PLIP interactions: 9 interactions with chain J Hydrophobic interactions: J:L.42, J:L.179, J:I.202 Hydrogen bonds: J:D.45, J:D.45, J:D.45, J:S.46, J:S.46 Salt bridges: J:K.113

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Badger, J. et al., Structural analysis of a set of proteins resulting from a bacterial genomics project. Proteins (2005)

Release Date

2003-11-11

Peptides

3-methyl-2-oxobutanoate hydroxymethyltransferase: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
A

G
B

H
C

I
D

J
E

3-methyl-2-oxobutanoate hydroxymethyltransferase

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