SMTL ID : 4p99.4 (3 other biounits)

Ca2+-stabilized adhesin helps an Antarctic bacterium reach out and bind ice

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

EDO.1: 1 residues within 4Å: Chain A: E.177 No protein-ligand interaction detected (PLIP) EDO.26: 3 residues within 4Å: Chain A: A.33, S.36, D.38 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.38, A:D.38 EDO.27: 2 residues within 4Å: Chain A: D.413, S.431 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.431 Water bridges: A:D.413 EDO.28: 3 residues within 4Å: Chain A: G.176, E.177, T.178 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.178 EDO.29: 3 residues within 4Å: Chain A: S.52, E.84, W.85 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.52, A:D.80, A:E.84 Water bridges: A:D.80 EDO.30: 2 residues within 4Å: Chain A: S.140, D.142 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.142, A:D.142 EDO.31: 2 residues within 4Å: Chain A: S.315, T.321 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.315 EDO.32: 2 residues within 4Å: Chain A: T.105, S.107 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.107 EDO.33: 2 residues within 4Å: Chain A: S.419, T.425 No protein-ligand interaction detected (PLIP) EDO.34: 1 residues within 4Å: Chain A: D.309 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.309, A:S.327

24 x CA: CALCIUM ION(Non-covalent)

CA.2: 1 residues within 4Å: Chain A: S.107 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.107, H2O.1, H2O.2, H2O.18, H2O.18 CA.3: 2 residues within 4Å: Chain A: D.38, T.121 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.38, A:T.121, H2O.5, H2O.5, H2O.13 CA.4: 4 residues within 4Å: Chain A: T.35, D.37, V.39, E.44 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.35, A:D.37, A:E.44, A:E.44, H2O.5 CA.5: 2 residues within 4Å: Chain A: D.97, A.99 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.97, A:A.99, H2O.6, H2O.12, H2O.15 CA.6: 3 residues within 4Å: Chain A: D.125, E.127, D.212 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.125, A:E.127, A:D.212, H2O.1, H2O.15 CA.7: 1 residues within 4Å: Chain A: S.211 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.211, A:S.211, H2O.6, H2O.9, H2O.15 CA.8: 2 residues within 4Å: Chain A: D.142, T.225 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.142, A:T.225, H2O.6, H2O.8, H2O.13 CA.9: 2 residues within 4Å: Chain A: D.201, A.203 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.201, A:A.203, H2O.6, H2O.6, H2O.10 CA.10: 4 residues within 4Å: Chain A: T.139, D.141, V.143, E.148 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.139, A:D.141, A:V.143, H2O.6, H2O.6 CA.11: 3 residues within 4Å: Chain A: D.229, E.231, D.316 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.231, A:D.316, H2O.1, H2O.3, H2O.9 CA.12: 2 residues within 4Å: Chain A: D.246, T.329 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.246, A:T.329, H2O.7, H2O.8, H2O.9 CA.13: 4 residues within 4Å: Chain A: T.243, D.245, V.247, E.252 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.245, A:V.247, A:E.252, H2O.7, H2O.7 CA.14: 1 residues within 4Å: Chain A: S.315 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.315, H2O.1, H2O.4, H2O.4, H2O.7 CA.15: 2 residues within 4Å: Chain A: D.305, A.307 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:A.307, H2O.7, H2O.7, H2O.8, H2O.10 CA.16: 3 residues within 4Å: Chain A: D.333, E.335, D.420 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.333, A:E.335, A:D.420, H2O.7, H2O.9 CA.17: 2 residues within 4Å: Chain A: D.350, T.433 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.350, A:T.433, H2O.8, H2O.9, H2O.13 CA.18: 4 residues within 4Å: Chain A: T.347, D.349, V.351, E.356 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.349, A:V.351, A:E.356, H2O.1, H2O.3 CA.19: 1 residues within 4Å: Chain A: S.419 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.419, H2O.1, H2O.4, H2O.8, H2O.9 CA.20: 2 residues within 4Å: Chain A: D.409, A.411 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.409, A:A.411, H2O.8, H2O.8, H2O.17 CA.21: 2 residues within 4Å: Chain A: E.23, D.108 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.23, A:D.108, H2O.1, H2O.4 CA.22: 1 residues within 4Å: Chain A: E.73 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.73, H2O.4, H2O.12 CA.23: 2 residues within 4Å: Chain A: S.92, A.96 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.92 CA.24: 1 residues within 4Å: Chain A: E.177 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.177, H2O.14, H2O.17 CA.25: 1 residues within 4Å: Chain A: D.437 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.437

1 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.35: 6 residues within 4Å: Chain A: I.382, N.383, G.384, E.385, T.386, D.405 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.383, A:G.384 Water bridges: A:N.383

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vance, T.D. et al., Ca2+-stabilized adhesin helps an Antarctic bacterium reach out and bind ice. Biosci.Rep. (2014)

Release Date

2014-06-18

Peptides

MpAFP_RII tetra-tandemer: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

MpAFP_RII tetra-tandemer

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