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

CRYSTAL STRUCTURE OF A PSYCHROPHILIC ALKALINE PROTEASE FROM PSEUDOMONAS TAC II 18

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

homo-trimer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.169, H.173, H.179 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.169, A:H.173, A:H.179, H2O.14 ZN.11: 3 residues within 4Å: Chain B: H.169, H.173, H.179 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.169, B:H.173, B:H.179, H2O.28 ZN.21: 3 residues within 4Å: Chain C: H.169, H.173, H.179 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.169, C:H.173, C:H.179, H2O.42

24 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: D.49, N.51, D.53, V.55, N.57, D.114 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.49, A:D.53, A:V.55, A:D.114, A:D.114 CA.3: 6 residues within 4Å: Chain A: R.250, D.252, T.254, D.282, G.284, D.287 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:R.250, A:D.252, A:T.254, A:G.284, A:D.287 CA.4: 5 residues within 4Å: Chain A: G.284, G.285, D.287, T.324, E.326 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.287, A:T.324, A:E.326, H2O.2, H2O.14 CA.5: 7 residues within 4Å: Chain A: G.331, G.333, D.335, G.348, G.349, A.350, D.353 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:G.331, A:G.333, A:D.335, A:G.348, A:D.353 CA.6: 8 residues within 4Å: Chain A: G.349, A.350, G.351, D.353, G.366, G.367, T.368, D.371 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:G.349, A:G.351, A:G.366, A:T.368, A:D.371 CA.7: 7 residues within 4Å: Chain A: N.340, A.342, N.344, G.357, G.358, G.359, D.362 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.340, A:A.342, A:G.357, A:G.359, A:D.362 CA.8: 6 residues within 4Å: Chain A: G.358, G.359, G.360, D.362, D.380, D.387 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.358, A:G.360, A:D.362, A:D.380, A:D.387, H2O.10 CA.9: 5 residues within 4Å: Chain A: G.367, G.369, D.371, Q.393, D.397 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.367, A:G.369, A:D.371, A:D.397, H2O.3 CA.12: 6 residues within 4Å: Chain B: D.49, N.51, D.53, V.55, N.57, D.114 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.49, B:D.53, B:V.55, B:D.114, B:D.114 CA.13: 6 residues within 4Å: Chain B: R.250, D.252, T.254, D.282, G.284, D.287 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:R.250, B:D.252, B:T.254, B:G.284, B:D.287 CA.14: 5 residues within 4Å: Chain B: G.284, G.285, D.287, T.324, E.326 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.287, B:T.324, B:E.326, H2O.16, H2O.28 CA.15: 7 residues within 4Å: Chain B: G.331, G.333, D.335, G.348, G.349, A.350, D.353 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:G.331, B:G.333, B:D.335, B:G.348, B:D.353 CA.16: 8 residues within 4Å: Chain B: G.349, A.350, G.351, D.353, G.366, G.367, T.368, D.371 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:G.349, B:G.351, B:G.366, B:T.368, B:D.371 CA.17: 7 residues within 4Å: Chain B: N.340, A.342, N.344, G.357, G.358, G.359, D.362 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:N.340, B:A.342, B:G.357, B:G.359, B:D.362 CA.18: 6 residues within 4Å: Chain B: G.358, G.359, G.360, D.362, D.380, D.387 6 PLIP interactions: 5 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:G.358, B:G.360, B:D.362, B:D.380, B:D.387, H2O.24 CA.19: 5 residues within 4Å: Chain B: G.367, G.369, D.371, Q.393, D.397 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:G.367, B:G.369, B:D.371, B:D.397, H2O.17 CA.22: 6 residues within 4Å: Chain C: D.49, N.51, D.53, V.55, N.57, D.114 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.49, C:D.53, C:V.55, C:D.114, C:D.114 CA.23: 6 residues within 4Å: Chain C: R.250, D.252, T.254, D.282, G.284, D.287 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:R.250, C:D.252, C:T.254, C:G.284, C:D.287 CA.24: 5 residues within 4Å: Chain C: G.284, G.285, D.287, T.324, E.326 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.287, C:T.324, C:E.326, H2O.30, H2O.42 CA.25: 7 residues within 4Å: Chain C: G.331, G.333, D.335, G.348, G.349, A.350, D.353 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:G.331, C:G.333, C:D.335, C:G.348, C:D.353 CA.26: 8 residues within 4Å: Chain C: G.349, A.350, G.351, D.353, G.366, G.367, T.368, D.371 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:G.349, C:G.351, C:G.366, C:T.368, C:D.371 CA.27: 7 residues within 4Å: Chain C: N.340, A.342, N.344, G.357, G.358, G.359, D.362 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:N.340, C:A.342, C:G.357, C:G.359, C:D.362 CA.28: 6 residues within 4Å: Chain C: G.358, G.359, G.360, D.362, D.380, D.387 6 PLIP interactions: 5 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:G.358, C:G.360, C:D.362, C:D.380, C:D.387, H2O.38 CA.29: 5 residues within 4Å: Chain C: G.367, G.369, D.371, Q.393, D.397 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:G.367, C:G.369, C:D.371, C:D.397, H2O.31

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

SO4.10: 5 residues within 4Å: Chain A: R.73, R.139 Chain B: W.210, S.211, N.214 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B Water bridges: A:R.73, A:R.73, A:R.73, A:R.139, A:R.139 Salt bridges: A:R.73, A:R.139 Hydrogen bonds: B:S.211, B:N.214, B:N.214 SO4.20: 5 residues within 4Å: Chain B: R.73, R.139 Chain C: W.210, S.211, N.214 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain C Water bridges: B:R.73, B:R.73, B:R.73, B:R.139, B:R.139 Salt bridges: B:R.73, B:R.139 Hydrogen bonds: C:S.211, C:N.214, C:N.214 SO4.30: 5 residues within 4Å: Chain A: W.210, S.211, N.214 Chain C: R.73, R.139 10 PLIP interactions: 3 interactions with chain A, 7 interactions with chain C Hydrogen bonds: A:S.211, A:N.214, A:N.214 Water bridges: C:R.73, C:R.73, C:R.73, C:R.139, C:R.139 Salt bridges: C:R.73, C:R.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ravaud, S. et al., Probing the role of divalent metal ions in a bacterial psychrophilic metalloprotease: binding studies of an enzyme in the crystalline state by x-ray crystallography. J.Bacteriol. (2003)

Release Date

2003-07-15

Peptides

SERRALYSIN: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

SERRALYSIN

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