SMTL ID : 3bma.1

Crystal structure of D-alanyl-lipoteichoic acid synthetase from Streptococcus pneumoniae R6

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.24 Å

Oligo State

homo-hexamer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: E.226, E.342, F.345, L.355, A.359, K.362 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.355 Water bridges: A:K.362 GOL.2: 6 residues within 4Å: Chain A: S.49, S.50, G.80, Q.109, W.110, H.351 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.49, A:S.49, A:S.50, A:Q.109 Water bridges: A:G.80 GOL.3: 4 residues within 4Å: Chain A: S.112, K.113, F.267, T.268 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.112, A:K.113, A:T.268 Water bridges: A:S.266 GOL.4: 3 residues within 4Å: Chain A: T.148, L.151, Q.152 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.148, A:Q.152 GOL.13: 6 residues within 4Å: Chain D: T.22, I.23, D.24, Q.78, R.200 Chain E: R.200 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:I.23, D:D.24, D:D.24, E:R.200 GOL.14: 5 residues within 4Å: Chain D: R.200 Chain E: T.22, I.23, D.24, R.200 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain E Hydrogen bonds: D:R.200, E:I.23, E:D.24 GOL.15: 5 residues within 4Å: Chain D: N.126, G.127, D.128 Chain E: Q.190, F.194 7 PLIP interactions: 4 interactions with chain E, 3 interactions with chain D Hydrogen bonds: E:Q.190, D:G.127, D:D.128 Water bridges: E:E.28, E:E.28, E:Q.190, D:N.126 GOL.16: 8 residues within 4Å: Chain D: L.182, R.185, F.186, R.189 Chain E: M.159, L.183 Chain F: T.174 Ligands: SO4.18 3 PLIP interactions: 1 interactions with chain F, 2 interactions with chain D Water bridges: F:E.178, D:R.185 Hydrogen bonds: D:R.185 GOL.17: 4 residues within 4Å: Chain D: S.50, L.53, R.54 Ligands: SO4.11 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.50, D:R.54, D:R.54 GOL.24: 7 residues within 4Å: Chain F: S.17, A.20, T.22, D.24, Q.31, R.200, G.201 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:S.17, F:T.22, F:Q.31, F:R.200, F:R.200

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

SO4.5: 6 residues within 4Å: Chain B: S.49, S.50, G.79, G.80, Q.109, W.110 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.49, B:S.50, B:S.50, B:G.80, B:W.110 Water bridges: B:Q.109 SO4.6: 6 residues within 4Å: Chain B: F.154, P.155, N.156, V.157 Chain C: F.193, Q.196 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:N.156, B:N.156, C:Q.196 SO4.7: 4 residues within 4Å: Chain B: A.158, M.159, K.160 Chain C: R.189 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:M.159, B:K.160 Salt bridges: C:R.189 SO4.8: 4 residues within 4Å: Chain B: G.201, Y.202, V.203, N.204 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.203, B:N.204 SO4.9: 7 residues within 4Å: Chain C: S.49, S.50, E.51, G.80, Q.109, W.110, H.351 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:S.49, C:G.80, C:Q.109, C:H.351 Water bridges: C:S.50, C:S.50 SO4.10: 4 residues within 4Å: Chain D: M.7, H.8, R.34, Q.196 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:H.8, D:H.8 Salt bridges: D:H.8, D:R.34 SO4.11: 9 residues within 4Å: Chain D: S.49, S.50, G.79, G.80, Q.109, W.110, I.350, H.351 Ligands: GOL.17 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:S.49, D:S.50, D:S.50, D:S.50, D:G.80, D:Q.109 Salt bridges: D:H.351 SO4.12: 2 residues within 4Å: Chain D: H.8, H.9 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:H.9, D:H.9 Salt bridges: D:H.8 SO4.18: 7 residues within 4Å: Chain D: R.189 Chain E: V.157, A.158, M.159, K.160 Chain F: T.174 Ligands: GOL.16 8 PLIP interactions: 3 interactions with chain E, 2 interactions with chain D, 3 interactions with chain F Hydrogen bonds: E:M.159, E:K.160, F:T.174 Water bridges: E:D.161, D:R.189, F:T.174, F:N.177 Salt bridges: D:R.189 SO4.19: 3 residues within 4Å: Chain E: S.37, P.95, Q.96 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:Q.96 Salt bridges: E:K.100 SO4.20: 8 residues within 4Å: Chain E: S.49, S.50, G.79, G.80, Q.109, W.110, I.350, H.351 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:S.49, E:S.49, E:S.50, E:G.80, E:Q.109 SO4.21: 4 residues within 4Å: Chain E: S.112, K.113, N.114, G.115 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:S.112, E:S.112, E:K.113, E:N.114, E:N.114 SO4.22: 4 residues within 4Å: Chain E: V.199, G.201, Y.202, V.203 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:G.201, E:Y.202, E:V.203 SO4.23: 7 residues within 4Å: Chain F: S.49, S.50, G.79, G.80, Q.109, W.110, H.351 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:S.49, F:S.50, F:G.80, F:Q.109, F:W.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patskovsky, Y. et al., Crystal Structure of probable D-Alanyl-Lipoteichoic Acid Synthetase from Streptococcus pneumoniae. To be Published

Release Date

2007-12-25

Peptides

D-alanyl-lipoteichoic acid synthetase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
F

D
A

E
B

F
E

D-alanyl-lipoteichoic acid synthetase