SMTL ID : 3psq.1 (1 other biounit)

Crystal structure of Spy0129, a Streptococcus pyogenes class B sortase involved in pilus biogenesis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.32 Å

Oligo State

monomer

Ligands

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

EDO.1: 4 residues within 4Å: Chain A: R.110, K.111, K.112, S.113 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.112, A:S.113, A:Q.172 EDO.2: 7 residues within 4Å: Chain A: F.136, L.163, Y.173, R.174, E.175, I.176, T.178 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.174, A:I.176 EDO.3: 8 residues within 4Å: Chain A: G.99, N.100, F.103, G.104, P.107, T.189, C.190, E.191 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.100 Water bridges: A:N.100, A:N.100, A:D.192, A:D.192, A:D.192

3 x ACY: ACETIC ACID(Non-functional Binders)

ACY.4: 6 residues within 4Å: Chain A: K.22, W.39, T.41, S.122, I.123, E.124 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.41, A:T.41, A:S.122 Salt bridges: A:K.22 ACY.5: 4 residues within 4Å: Chain A: R.80, D.87, I.152, D.155 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.80 ACY.6: 6 residues within 4Å: Chain A: Y.93, H.95, H.96, C.190, R.198 Ligands: ZN.16 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.93, A:H.96 Salt bridges: A:H.95, A:R.198

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 3 residues within 4Å: Chain A: Y.93, A.143, R.198 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain A: V.154, S.157 Ligand excluded by PLIP

8 x ZN: ZINC ION(Non-covalent)(Non-functional Binders)

ZN.9: 2 residues within 4Å: Chain A: K.117, H.118 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.118, H2O.1, H2O.2, H2O.3 ZN.10: 4 residues within 4Å: Chain A: H.96, N.100, C.190, D.192 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.96, A:C.190, A:D.192, A:D.192, H2O.2 ZN.11: 1 residues within 4Å: Chain A: E.206 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.206, A:E.206, H2O.3, H2O.3 ZN.12: 1 residues within 4Å: Chain A: E.124 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.124, H2O.1, H2O.3 ZN.13: 1 residues within 4Å: Chain A: H.165 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.165 ZN.14: 4 residues within 4Å: Chain A: D.35, E.55, E.59, K.63 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.35, A:E.55, A:E.55, A:E.59, H2O.2 ZN.15: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ZN.16: 2 residues within 4Å: Chain A: H.95 Ligands: ACY.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kang, H.J. et al., Crystal structure of Spy0129, a Streptococcus pyogenes class B sortase involved in pilus assembly. Plos One (2011)

Release Date

2011-01-19

Peptides

Hypothetical exported protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Hypothetical exported protein

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