SMTL ID : 6h6w.1

Molybdenum storage protein- H156A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-3-3-mer

Ligands

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

ATP.1: 22 residues within 4Å: Chain A: K.41, G.43, G.44, Q.45, S.46, G.76, A.77, G.78, T.168, D.169, K.188, D.189, G.192, L.193, Y.194, A.196, N.197, P.198, K.199, L.220, S.223, I.224 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:G.44, A:Q.45, A:S.46, A:A.77, A:T.168, A:D.189, A:Y.194, A:Y.194, A:N.197, A:K.199, A:K.199 Water bridges: A:G.78, A:G.78 Salt bridges: A:K.41, A:K.41, A:K.188, A:K.188 ATP.5: 25 residues within 4Å: Chain A: S.15 Chain B: K.44, G.46, G.47, R.48, V.49, 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.6 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:G.46, B:G.47, B:R.48, B:V.49, 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 Water bridges: B:K.44, B:K.44, B:K.44, B:R.84, B:D.170 Salt bridges: B:K.44, B:K.44 ATP.11: 22 residues within 4Å: Chain C: K.41, G.43, G.44, Q.45, S.46, G.76, A.77, G.78, T.168, D.169, K.188, D.189, G.192, L.193, Y.194, A.196, N.197, P.198, K.199, L.220, S.223, I.224 17 PLIP interactions: 17 interactions with chain C Hydrogen bonds: C:G.44, C:Q.45, C:S.46, C:A.77, C:T.168, C:D.189, C:Y.194, C:Y.194, C:N.197, C:K.199, C:K.199 Water bridges: C:G.78, C:G.78 Salt bridges: C:K.41, C:K.41, C:K.188, C:K.188 ATP.15: 25 residues within 4Å: Chain C: S.15 Chain D: K.44, G.46, G.47, R.48, V.49, 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.16 20 PLIP interactions: 20 interactions with chain D Hydrogen bonds: D:G.46, D:G.47, D:R.48, D:V.49, 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 Water bridges: D:K.44, D:K.44, D:K.44, D:R.84, D:D.170 Salt bridges: D:K.44, D:K.44 ATP.21: 22 residues within 4Å: Chain E: K.41, G.43, G.44, Q.45, S.46, G.76, A.77, G.78, T.168, D.169, K.188, D.189, G.192, L.193, Y.194, A.196, N.197, P.198, K.199, L.220, S.223, I.224 17 PLIP interactions: 17 interactions with chain E Hydrogen bonds: E:G.44, E:Q.45, E:S.46, E:A.77, E:T.168, E:D.189, E:Y.194, E:Y.194, E:N.197, E:K.199, E:K.199 Water bridges: E:G.78, E:G.78 Salt bridges: E:K.41, E:K.41, E:K.188, E:K.188 ATP.25: 25 residues within 4Å: Chain E: S.15 Chain F: K.44, G.46, G.47, R.48, V.49, 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.26 20 PLIP interactions: 20 interactions with chain F Hydrogen bonds: F:G.46, F:G.47, F:R.48, F:V.49, 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 Water bridges: F:K.44, F:K.44, F:K.44, F:R.84, F:D.170 Salt bridges: F:K.44, F:K.44

6 x FUQ: Mo5 Cluster(Non-covalent)

FUQ.2: 14 residues within 4Å: Chain A: G.126, G.127, A.128, G.129, L.130, S.131 Chain B: P.102, A.155, H.156 Chain E: D.107, A.111, Q.115, V.124 Ligands: 8M0.7 9 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B, 1 interactions with chain E Hydrogen bonds: A:G.126, A:A.128, A:G.129, A:L.130, A:S.131, A:S.131, B:H.156, E:Q.115 Water bridges: B:P.102 FUQ.3: 12 residues within 4Å: Chain A: Q.100, S.103, S.104, D.107, G.126, G.127, A.128, M.148, P.149, P.150, K.152 Ligands: 8M0.17 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:Q.100, A:S.103, A:S.103, A:S.103, A:S.103, A:D.107, A:G.127, A:K.152 Water bridges: A:A.99, A:M.148, A:M.148, A:K.152 FUQ.12: 14 residues within 4Å: Chain A: D.107, A.111, Q.115, V.124 Chain C: G.126, G.127, A.128, G.129, L.130, S.131 Chain D: P.102, A.155, H.156 Ligands: 8M0.17 9 PLIP interactions: 2 interactions with chain D, 6 interactions with chain C, 1 interactions with chain A Hydrogen bonds: D:H.156, C:G.126, C:A.128, C:G.129, C:L.130, C:S.131, C:S.131, A:Q.115 Water bridges: D:P.102 FUQ.13: 12 residues within 4Å: Chain C: Q.100, S.103, S.104, D.107, G.126, G.127, A.128, M.148, P.149, P.150, K.152 Ligands: 8M0.27 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:Q.100, C:S.103, C:S.103, C:S.103, C:S.103, C:D.107, C:G.127, C:K.152 Water bridges: C:A.99, C:M.148, C:M.148, C:K.152 FUQ.22: 14 residues within 4Å: Chain C: D.107, A.111, Q.115, V.124 Chain E: G.126, G.127, A.128, G.129, L.130, S.131 Chain F: P.102, A.155, H.156 Ligands: 8M0.27 9 PLIP interactions: 6 interactions with chain E, 1 interactions with chain C, 2 interactions with chain F Hydrogen bonds: E:G.126, E:A.128, E:G.129, E:L.130, E:S.131, E:S.131, C:Q.115, F:H.156 Water bridges: F:P.102 FUQ.23: 12 residues within 4Å: Chain E: Q.100, S.103, S.104, D.107, G.126, G.127, A.128, M.148, P.149, P.150, K.152 Ligands: 8M0.7 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:Q.100, E:S.103, E:S.103, E:S.103, E:S.103, E:D.107, E:G.127, E:K.152 Water bridges: E:A.99, E:M.148, E:M.148, E:K.152

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

PO4.4: 4 residues within 4Å: Chain A: R.209, E.241, H.261, I.265 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.209, A:H.261 PO4.14: 4 residues within 4Å: Chain C: R.209, E.241, H.261, I.265 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:R.209, C:H.261 PO4.24: 4 residues within 4Å: Chain E: R.209, E.241, H.261, I.265 2 PLIP interactions: 2 interactions with chain E Salt bridges: E:R.209, E:H.261

3 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 4 residues within 4Å: Chain B: D.170, E.189, P.226 Ligands: ATP.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.189, B:P.226, H2O.8, H2O.8 MG.16: 4 residues within 4Å: Chain D: D.170, E.189, P.226 Ligands: ATP.15 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.189, D:P.226, H2O.21, H2O.21 MG.26: 4 residues within 4Å: Chain F: D.170, E.189, P.226 Ligands: ATP.25 4 PLIP interactions: 2 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:E.189, F:P.226, H2O.35, H2O.35

3 x 8M0: bis(mu4-oxo)-tetrakis(mu3-oxo)-hexakis(mu2-oxo)-hexadecaoxo-octamolybdenum (VI)(Non-covalent)

8M0.7: 16 residues within 4Å: Chain B: P.102, A.105, S.106, G.109, Q.110, H.113, Y.126, E.128, H.129, P.130, S.149, P.152, P.153, A.155 Ligands: FUQ.2, FUQ.23 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:A.105, B:Q.110, B:Y.126, B:H.129, B:S.149 Water bridges: B:Y.126, B:V.127, B:Y.154, B:A.155 8M0.17: 16 residues within 4Å: Chain D: P.102, A.105, S.106, G.109, Q.110, H.113, Y.126, E.128, H.129, P.130, S.149, P.152, P.153, A.155 Ligands: FUQ.3, FUQ.12 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:A.105, D:Q.110, D:Y.126, D:H.129, D:S.149 Water bridges: D:Y.126, D:V.127, D:Y.154, D:A.155 8M0.27: 16 residues within 4Å: Chain F: P.102, A.105, S.106, G.109, Q.110, H.113, Y.126, E.128, H.129, P.130, S.149, P.152, P.153, A.155 Ligands: FUQ.13, FUQ.22 9 PLIP interactions: 9 interactions with chain F Hydrogen bonds: F:A.105, F:Q.110, F:Y.126, F:H.129, F:S.149 Water bridges: F:Y.126, F:V.127, F:Y.154, F:A.155

3 x MOO: MOLYBDATE ION(Non-covalent)

MOO.8: 7 residues within 4Å: Chain B: T.131, H.139 Chain D: H.139 Chain F: I.138, H.139 Ligands: MOO.18, MOO.28 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:H.139 MOO.18: 7 residues within 4Å: Chain B: I.138, H.139 Chain D: T.131, H.139 Chain F: H.139 Ligands: MOO.8, MOO.28 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:H.139 MOO.28: 7 residues within 4Å: Chain B: H.139 Chain D: I.138, H.139 Chain F: T.131, H.139 Ligands: MOO.8, MOO.18 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.139

6 x MO: MOLYBDENUM ATOM(Non-functional Binders)(Non-covalent)

MO.9: 4 residues within 4Å: Ligands: MO.10, MO.19, MO.29, MO.30 Ligand excluded by PLIP MO.10: 3 residues within 4Å: Chain B: T.131 Ligands: MO.9, MO.19 Ligand excluded by PLIP MO.19: 4 residues within 4Å: Ligands: MO.9, MO.10, MO.20, MO.29 Ligand excluded by PLIP MO.20: 3 residues within 4Å: Chain D: T.131 Ligands: MO.19, MO.29 Ligand excluded by PLIP MO.29: 4 residues within 4Å: Ligands: MO.9, MO.19, MO.20, MO.30 Ligand excluded by PLIP MO.30: 3 residues within 4Å: Chain F: T.131 Ligands: MO.9, MO.29 Ligand excluded by PLIP

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

2018-12-05

Peptides

Molybdenum storage protein subunit beta: ACE
Molybdenum storage protein subunit alpha: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
B

E
B

B
A

D
A

F
A

Molybdenum storage protein subunit beta

Molybdenum storage protein subunit alpha

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