SMTL ID : 4a1j.1

Ykud L,D-transpeptidase from B.subtilis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 7 residues within 4Å: Chain A: H.124, S.137, K.138, G.139, C.140, R.142 Chain B: K.138 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.138, A:G.139, A:C.140 Salt bridges: A:H.124, A:R.142, B:K.138 SO4.2: 3 residues within 4Å: Chain A: N.128, V.136, R.142 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.128 Salt bridges: A:R.142 SO4.3: 5 residues within 4Å: Chain A: T.12, N.14, S.15 Chain B: Q.102, R.103 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.12, A:N.14, A:S.15, B:R.103 Salt bridges: B:R.103 SO4.4: 7 residues within 4Å: Chain A: K.138 Chain B: H.124, S.137, K.138, G.139, C.140, R.142 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.138, B:C.140 Salt bridges: B:H.124, B:R.142 SO4.5: 5 residues within 4Å: Chain A: K.86, K.138 Chain B: N.128, V.136, R.142 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Salt bridges: A:K.86, A:K.138, B:R.142 Hydrogen bonds: B:N.128 SO4.6: 2 residues within 4Å: Chain B: T.12, N.14 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.12, B:N.14 Water bridges: B:N.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blaise, M. et al., Structure of Ykud. To be Published

Release Date

2012-09-26

Peptides

PUTATIVE L, D-TRANSPEPTIDASE YKUD: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PUTATIVE L, D-TRANSPEPTIDASE YKUD

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