SMTL ID : 6gwb.1 (1 other biounit)

Molybdenum storage protein without polyoxomolybdate clusters

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-6-6-mer

Ligands

36 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 4 residues within 4Å: Chain A: R.209, E.241, H.261, I.265 Ligand excluded by PLIP PO4.2: 3 residues within 4Å: Chain A: P.208, R.209, H.261 Ligand excluded by PLIP PO4.6: 7 residues within 4Å: Chain A: A.128, L.130, P.150 Chain B: Y.154, H.155, H.156, H.157 Ligand excluded by PLIP PO4.7: 5 residues within 4Å: Chain A: A.128 Chain B: H.129, P.153, H.155 Ligands: PO4.8 Ligand excluded by PLIP PO4.8: 5 residues within 4Å: Chain B: Y.126, E.128, H.129, S.149 Ligands: PO4.7 Ligand excluded by PLIP PO4.9: 3 residues within 4Å: Chain B: K.31, R.32, A.275 Ligand excluded by PLIP PO4.10: 4 residues within 4Å: Chain C: R.209, E.241, H.261, I.265 Ligand excluded by PLIP PO4.11: 3 residues within 4Å: Chain C: P.208, R.209, H.261 Ligand excluded by PLIP PO4.15: 7 residues within 4Å: Chain C: A.128, L.130, P.150 Chain D: Y.154, H.155, H.156, H.157 Ligand excluded by PLIP PO4.16: 5 residues within 4Å: Chain C: A.128 Chain D: H.129, P.153, H.155 Ligands: PO4.17 Ligand excluded by PLIP PO4.17: 5 residues within 4Å: Chain D: Y.126, E.128, H.129, S.149 Ligands: PO4.16 Ligand excluded by PLIP PO4.18: 3 residues within 4Å: Chain D: K.31, R.32, A.275 Ligand excluded by PLIP PO4.19: 4 residues within 4Å: Chain E: R.209, E.241, H.261, I.265 Ligand excluded by PLIP PO4.20: 3 residues within 4Å: Chain E: P.208, R.209, H.261 Ligand excluded by PLIP PO4.24: 7 residues within 4Å: Chain E: A.128, L.130, P.150 Chain F: Y.154, H.155, H.156, H.157 Ligand excluded by PLIP PO4.25: 5 residues within 4Å: Chain E: A.128 Chain F: H.129, P.153, H.155 Ligands: PO4.26 Ligand excluded by PLIP PO4.26: 5 residues within 4Å: Chain F: Y.126, E.128, H.129, S.149 Ligands: PO4.25 Ligand excluded by PLIP PO4.27: 3 residues within 4Å: Chain F: K.31, R.32, A.275 Ligand excluded by PLIP PO4.28: 4 residues within 4Å: Chain G: R.209, E.241, H.261, I.265 Ligand excluded by PLIP PO4.29: 3 residues within 4Å: Chain G: P.208, R.209, H.261 Ligand excluded by PLIP PO4.33: 7 residues within 4Å: Chain G: A.128, L.130, P.150 Chain H: Y.154, H.155, H.156, H.157 Ligand excluded by PLIP PO4.34: 5 residues within 4Å: Chain G: A.128 Chain H: H.129, P.153, H.155 Ligands: PO4.35 Ligand excluded by PLIP PO4.35: 5 residues within 4Å: Chain H: Y.126, E.128, H.129, S.149 Ligands: PO4.34 Ligand excluded by PLIP PO4.36: 3 residues within 4Å: Chain H: K.31, R.32, A.275 Ligand excluded by PLIP PO4.37: 4 residues within 4Å: Chain I: R.209, E.241, H.261, I.265 Ligand excluded by PLIP PO4.38: 3 residues within 4Å: Chain I: P.208, R.209, H.261 Ligand excluded by PLIP PO4.42: 7 residues within 4Å: Chain I: A.128, L.130, P.150 Chain J: Y.154, H.155, H.156, H.157 Ligand excluded by PLIP PO4.43: 5 residues within 4Å: Chain I: A.128 Chain J: H.129, P.153, H.155 Ligands: PO4.44 Ligand excluded by PLIP PO4.44: 5 residues within 4Å: Chain J: Y.126, E.128, H.129, S.149 Ligands: PO4.43 Ligand excluded by PLIP PO4.45: 3 residues within 4Å: Chain J: K.31, R.32, A.275 Ligand excluded by PLIP PO4.46: 4 residues within 4Å: Chain K: R.209, E.241, H.261, I.265 Ligand excluded by PLIP PO4.47: 3 residues within 4Å: Chain K: P.208, R.209, H.261 Ligand excluded by PLIP PO4.51: 7 residues within 4Å: Chain K: A.128, L.130, P.150 Chain L: Y.154, H.155, H.156, H.157 Ligand excluded by PLIP PO4.52: 5 residues within 4Å: Chain K: A.128 Chain L: H.129, P.153, H.155 Ligands: PO4.53 Ligand excluded by PLIP PO4.53: 5 residues within 4Å: Chain L: Y.126, E.128, H.129, S.149 Ligands: PO4.52 Ligand excluded by PLIP PO4.54: 3 residues within 4Å: Chain L: K.31, R.32, A.275 Ligand excluded by PLIP

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

CL.3: 2 residues within 4Å: Chain A: K.119, H.120 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain C: K.119, H.120 Ligand excluded by PLIP CL.21: 2 residues within 4Å: Chain E: K.119, H.120 Ligand excluded by PLIP CL.30: 2 residues within 4Å: Chain G: K.119, H.120 Ligand excluded by PLIP CL.39: 2 residues within 4Å: Chain I: K.119, H.120 Ligand excluded by PLIP CL.48: 2 residues within 4Å: Chain K: K.119, H.120 Ligand excluded by PLIP

6 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.4: 24 residues within 4Å: Chain A: S.15 Chain B: K.44, G.46, G.47, R.48, G.78, A.79, G.80, R.84, A.169, E.189, N.190, V.191, G.193, I.194, Y.195, A.197, D.198, P.199, N.200, P.224, L.225, P.226 Ligands: MG.5 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:G.46, B:G.47, B:R.48, B:A.79, B:G.80, B:R.84, B:N.190, B:N.190, B:Y.195, B:Y.195, B:N.200, B:N.200, B:P.226 Water bridges: B:K.44, B:K.44, B:R.48, B:D.170 Salt bridges: B:K.44, B:K.44 ATP.13: 24 residues within 4Å: Chain C: S.15 Chain D: K.44, G.46, G.47, R.48, G.78, A.79, G.80, R.84, A.169, E.189, N.190, V.191, G.193, I.194, Y.195, A.197, D.198, P.199, N.200, P.224, L.225, P.226 Ligands: MG.14 19 PLIP interactions: 19 interactions with chain D Hydrogen bonds: D:G.46, D:G.47, D:R.48, D:A.79, D:G.80, D:R.84, D:N.190, D:N.190, D:Y.195, D:Y.195, D:N.200, D:N.200, D:P.226 Water bridges: D:K.44, D:K.44, D:R.48, D:D.170 Salt bridges: D:K.44, D:K.44 ATP.22: 24 residues within 4Å: Chain E: S.15 Chain F: K.44, G.46, G.47, R.48, G.78, A.79, G.80, R.84, A.169, E.189, N.190, V.191, G.193, I.194, Y.195, A.197, D.198, P.199, N.200, P.224, L.225, P.226 Ligands: MG.23 19 PLIP interactions: 19 interactions with chain F Hydrogen bonds: F:G.46, F:G.47, F:R.48, F:A.79, F:G.80, F:R.84, F:N.190, F:N.190, F:Y.195, F:Y.195, F:N.200, F:N.200, F:P.226 Water bridges: F:K.44, F:K.44, F:R.48, F:D.170 Salt bridges: F:K.44, F:K.44 ATP.31: 24 residues within 4Å: Chain G: S.15 Chain H: K.44, G.46, G.47, R.48, G.78, A.79, G.80, R.84, A.169, E.189, N.190, V.191, G.193, I.194, Y.195, A.197, D.198, P.199, N.200, P.224, L.225, P.226 Ligands: MG.32 19 PLIP interactions: 19 interactions with chain H Hydrogen bonds: H:G.46, H:G.47, H:R.48, H:A.79, H:G.80, H:R.84, H:N.190, H:N.190, H:Y.195, H:Y.195, H:N.200, H:N.200, H:P.226 Water bridges: H:K.44, H:K.44, H:R.48, H:D.170 Salt bridges: H:K.44, H:K.44 ATP.40: 24 residues within 4Å: Chain I: S.15 Chain J: K.44, G.46, G.47, R.48, G.78, A.79, G.80, R.84, A.169, E.189, N.190, V.191, G.193, I.194, Y.195, A.197, D.198, P.199, N.200, P.224, L.225, P.226 Ligands: MG.41 19 PLIP interactions: 19 interactions with chain J Hydrogen bonds: J:G.46, J:G.47, J:R.48, J:A.79, J:G.80, J:R.84, J:N.190, J:N.190, J:Y.195, J:Y.195, J:N.200, J:N.200, J:P.226 Water bridges: J:K.44, J:K.44, J:R.48, J:D.170 Salt bridges: J:K.44, J:K.44 ATP.49: 24 residues within 4Å: Chain K: S.15 Chain L: K.44, G.46, G.47, R.48, G.78, A.79, G.80, R.84, A.169, E.189, N.190, V.191, G.193, I.194, Y.195, A.197, D.198, P.199, N.200, P.224, L.225, P.226 Ligands: MG.50 19 PLIP interactions: 19 interactions with chain L Hydrogen bonds: L:G.46, L:G.47, L:R.48, L:A.79, L:G.80, L:R.84, L:N.190, L:N.190, L:Y.195, L:Y.195, L:N.200, L:N.200, L:P.226 Water bridges: L:K.44, L:K.44, L:R.48, L:D.170 Salt bridges: L:K.44, L:K.44

6 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 5 residues within 4Å: Chain B: K.44, D.170, E.189, P.226 Ligands: ATP.4 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.189, B:P.226, H2O.7, H2O.8 MG.14: 5 residues within 4Å: Chain D: K.44, D.170, E.189, P.226 Ligands: ATP.13 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.189, D:P.226, H2O.20, H2O.21 MG.23: 5 residues within 4Å: Chain F: K.44, D.170, E.189, P.226 Ligands: ATP.22 4 PLIP interactions: 2 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:E.189, F:P.226, H2O.33, H2O.34 MG.32: 5 residues within 4Å: Chain H: K.44, D.170, E.189, P.226 Ligands: ATP.31 4 PLIP interactions: 2 interactions with chain H, 2 Ligand-Water interactions Metal complexes: H:E.189, H:P.226, H2O.46, H2O.47 MG.41: 5 residues within 4Å: Chain J: K.44, D.170, E.189, P.226 Ligands: ATP.40 4 PLIP interactions: 2 interactions with chain J, 2 Ligand-Water interactions Metal complexes: J:E.189, J:P.226, H2O.59, H2O.60 MG.50: 5 residues within 4Å: Chain L: K.44, D.170, E.189, P.226 Ligands: ATP.49 4 PLIP interactions: 2 interactions with chain L, 2 Ligand-Water interactions Metal complexes: L:E.189, L:P.226, H2O.72, H2O.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brunle, S. et al., The molybdenum storage protein - A bionanolab for creating experimentally alterable polyoxomolybdate clusters. J. Inorg. Biochem. (2018)

Release Date

2018-10-24

Peptides

Molybdenum storage protein subunit beta: ACEGIK
Molybdenum storage protein subunit alpha: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
B

E
B

G
B

I
B

K
B

B
A

D
A

F
A

H
A

J
A

L
A

Molybdenum storage protein subunit beta

Molybdenum storage protein subunit alpha

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