SMTL ID : 6e0v.1 (2 other biounits)

Apo crystal structure of the colanidase tailspike protein gp150 of Phage Phi92

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-trimer

Ligands

21 x SR: STRONTIUM ION(Non-functional Binders)

SR.1: 2 residues within 4Å: Ligands: SR.16, SR.31 Ligand excluded by PLIP SR.2: 2 residues within 4Å: Chain A: N.289, D.321 Ligand excluded by PLIP SR.3: 1 residues within 4Å: Chain A: A.599 Ligand excluded by PLIP SR.4: 1 residues within 4Å: Ligands: SR.6 Ligand excluded by PLIP SR.5: 1 residues within 4Å: Ligands: SR.6 Ligand excluded by PLIP SR.6: 3 residues within 4Å: Chain B: T.194 Ligands: SR.4, SR.5 Ligand excluded by PLIP SR.7: 1 residues within 4Å: Chain A: K.288 Ligand excluded by PLIP SR.16: 2 residues within 4Å: Ligands: SR.1, SR.31 Ligand excluded by PLIP SR.17: 2 residues within 4Å: Chain B: N.289, D.321 Ligand excluded by PLIP SR.18: 1 residues within 4Å: Chain B: A.599 Ligand excluded by PLIP SR.19: 1 residues within 4Å: Ligands: SR.21 Ligand excluded by PLIP SR.20: 1 residues within 4Å: Ligands: SR.21 Ligand excluded by PLIP SR.21: 3 residues within 4Å: Chain C: T.194 Ligands: SR.19, SR.20 Ligand excluded by PLIP SR.22: 1 residues within 4Å: Chain B: K.288 Ligand excluded by PLIP SR.31: 2 residues within 4Å: Ligands: SR.1, SR.16 Ligand excluded by PLIP SR.32: 2 residues within 4Å: Chain C: N.289, D.321 Ligand excluded by PLIP SR.33: 1 residues within 4Å: Chain C: A.599 Ligand excluded by PLIP SR.34: 1 residues within 4Å: Ligands: SR.36 Ligand excluded by PLIP SR.35: 1 residues within 4Å: Ligands: SR.36 Ligand excluded by PLIP SR.36: 3 residues within 4Å: Chain A: T.194 Ligands: SR.34, SR.35 Ligand excluded by PLIP SR.37: 1 residues within 4Å: Chain C: K.288 Ligand excluded by PLIP

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

CL.8: 7 residues within 4Å: Chain A: G.256, V.257, W.346, A.354, G.355, P.356, Y.432 Ligand excluded by PLIP CL.9: 8 residues within 4Å: Chain A: H.515, K.521 Chain B: H.515, K.521 Chain C: H.515, K.521 Ligands: CL.24, CL.39 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain A: R.279, T.310, T.311, R.340 Ligand excluded by PLIP CL.23: 7 residues within 4Å: Chain B: G.256, V.257, W.346, A.354, G.355, P.356, Y.432 Ligand excluded by PLIP CL.24: 8 residues within 4Å: Chain A: H.515, K.521 Chain B: H.515, K.521 Chain C: H.515, K.521 Ligands: CL.9, CL.39 Ligand excluded by PLIP CL.25: 4 residues within 4Å: Chain B: R.279, T.310, T.311, R.340 Ligand excluded by PLIP CL.38: 7 residues within 4Å: Chain C: G.256, V.257, W.346, A.354, G.355, P.356, Y.432 Ligand excluded by PLIP CL.39: 8 residues within 4Å: Chain A: H.515, K.521 Chain B: H.515, K.521 Chain C: H.515, K.521 Ligands: CL.9, CL.24 Ligand excluded by PLIP CL.40: 4 residues within 4Å: Chain C: R.279, T.310, T.311, R.340 Ligand excluded by PLIP

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 7 residues within 4Å: Chain A: N.242, Y.255, H.283, E.285, Y.317, G.347, V.348 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.255, A:Y.255, A:V.348 Water bridges: A:N.242, A:N.242 GOL.12: 4 residues within 4Å: Chain A: Y.353, G.424, E.425, G.426 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.424, A:G.426, A:G.426 GOL.13: 7 residues within 4Å: Chain A: D.90, K.91, N.92, G.109, T.110 Chain B: N.84, R.105 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:K.91, A:T.110, B:N.84 Water bridges: A:G.109, A:N.128, A:R.130, B:R.105, B:R.105 GOL.26: 7 residues within 4Å: Chain B: N.242, Y.255, H.283, E.285, Y.317, G.347, V.348 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.255, B:Y.255, B:V.348 Water bridges: B:N.242, B:N.242 GOL.27: 4 residues within 4Å: Chain B: Y.353, G.424, E.425, G.426 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.424, B:G.426, B:G.426 GOL.28: 7 residues within 4Å: Chain B: D.90, K.91, N.92, G.109, T.110 Chain C: N.84, R.105 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:K.91, B:T.110, C:N.84 Water bridges: B:G.109, B:N.128, B:R.130, C:R.105, C:R.105 GOL.41: 7 residues within 4Å: Chain C: N.242, Y.255, H.283, E.285, Y.317, G.347, V.348 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Y.255, C:Y.255, C:V.348 Water bridges: C:N.242, C:N.242 GOL.42: 4 residues within 4Å: Chain C: Y.353, G.424, E.425, G.426 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:G.424, C:G.426, C:G.426 GOL.43: 7 residues within 4Å: Chain A: N.84, R.105 Chain C: D.90, K.91, N.92, G.109, T.110 8 PLIP interactions: 5 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:K.91, C:T.110, A:N.84 Water bridges: C:G.109, C:N.128, C:R.130, A:R.105, A:R.105

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

EDO.14: 6 residues within 4Å: Chain A: D.261, R.266, N.267, K.288, N.289 Chain C: Y.330 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:D.261, A:R.266, A:N.289, C:Y.330, C:Y.330 Water bridges: A:D.261 EDO.15: 4 residues within 4Å: Chain A: V.589, S.592, L.593, Y.594 No protein-ligand interaction detected (PLIP) EDO.29: 6 residues within 4Å: Chain A: Y.330 Chain B: D.261, R.266, N.267, K.288, N.289 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:Y.330, A:Y.330, B:D.261, B:R.266, B:N.289 Water bridges: B:D.261 EDO.30: 4 residues within 4Å: Chain B: V.589, S.592, L.593, Y.594 No protein-ligand interaction detected (PLIP) EDO.44: 6 residues within 4Å: Chain B: Y.330 Chain C: D.261, R.266, N.267, K.288, N.289 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:D.261, C:R.266, C:N.289, B:Y.330, B:Y.330 Water bridges: C:D.261 EDO.45: 4 residues within 4Å: Chain C: V.589, S.592, L.593, Y.594 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Browning, C. et al., Crystal structure of the colanidase tailspike protein gp150 of Phage Phi92 complexed with one repeating unit of colanic acid. To Be Published

Release Date

2019-07-17

Peptides

Bacteriophage Phi92 gp150: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Bacteriophage Phi92 gp150

Related Entries With Identical Sequence