SMTL ID : 1frw.1

STRUCTURE OF E. COLI MOBA WITH BOUND GTP AND MANGANESE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-octamer

Ligands

8 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 10 residues within 4Å: Chain A: M.44, S.48, H.49, V.50, L.66 Chain G: H.49, K.67 Ligands: ZN.2, ACT.25, ZN.26 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain G Hydrophobic interactions: A:L.66 Hydrogen bonds: A:V.50 Salt bridges: A:H.49, G:H.49 Water bridges: G:K.67, G:K.67, G:K.67, G:K.67 ACT.5: 10 residues within 4Å: Chain B: M.44, S.48, H.49, V.50, L.66 Chain H: H.49, K.67 Ligands: ZN.6, ACT.29, ZN.30 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain H Hydrophobic interactions: B:L.66 Hydrogen bonds: B:V.50 Salt bridges: B:H.49, H:H.49 Water bridges: H:K.67, H:K.67, H:K.67, H:K.67 ACT.9: 10 residues within 4Å: Chain C: M.44, S.48, H.49, V.50, L.66 Chain E: H.49, K.67 Ligands: ZN.10, ACT.17, ZN.18 8 PLIP interactions: 5 interactions with chain E, 3 interactions with chain C Water bridges: E:K.67, E:K.67, E:K.67, E:K.67 Salt bridges: E:H.49, C:H.49 Hydrophobic interactions: C:L.66 Hydrogen bonds: C:V.50 ACT.13: 10 residues within 4Å: Chain D: M.44, S.48, H.49, V.50, L.66 Chain F: H.49, K.67 Ligands: ZN.14, ACT.21, ZN.22 8 PLIP interactions: 3 interactions with chain D, 5 interactions with chain F Hydrophobic interactions: D:L.66 Hydrogen bonds: D:V.50 Salt bridges: D:H.49, F:H.49 Water bridges: F:K.67, F:K.67, F:K.67, F:K.67 ACT.17: 10 residues within 4Å: Chain C: H.49, K.67 Chain E: M.44, S.48, H.49, V.50, L.66 Ligands: ACT.9, ZN.10, ZN.18 8 PLIP interactions: 3 interactions with chain E, 5 interactions with chain C Hydrophobic interactions: E:L.66 Hydrogen bonds: E:V.50 Salt bridges: E:H.49, C:H.49 Water bridges: C:K.67, C:K.67, C:K.67, C:K.67 ACT.21: 10 residues within 4Å: Chain D: H.49, K.67 Chain F: M.44, S.48, H.49, V.50, L.66 Ligands: ACT.13, ZN.14, ZN.22 8 PLIP interactions: 3 interactions with chain F, 5 interactions with chain D Hydrophobic interactions: F:L.66 Hydrogen bonds: F:V.50 Salt bridges: F:H.49, D:H.49 Water bridges: D:K.67, D:K.67, D:K.67, D:K.67 ACT.25: 10 residues within 4Å: Chain A: H.49, K.67 Chain G: M.44, S.48, H.49, V.50, L.66 Ligands: ACT.1, ZN.2, ZN.26 8 PLIP interactions: 3 interactions with chain G, 5 interactions with chain A Hydrophobic interactions: G:L.66 Hydrogen bonds: G:V.50 Salt bridges: G:H.49, A:H.49 Water bridges: A:K.67, A:K.67, A:K.67, A:K.67 ACT.29: 10 residues within 4Å: Chain B: H.49, K.67 Chain H: M.44, S.48, H.49, V.50, L.66 Ligands: ACT.5, ZN.6, ZN.30 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain H Water bridges: B:K.67, B:K.67, B:K.67, B:K.67 Salt bridges: B:H.49, H:H.49 Hydrophobic interactions: H:L.66 Hydrogen bonds: H:V.50

8 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: H.49 Chain G: H.49 Ligands: ACT.1, ACT.25, ZN.26 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain G Metal complexes: A:H.49, G:H.49 ZN.6: 5 residues within 4Å: Chain B: H.49 Chain H: H.49 Ligands: ACT.5, ACT.29, ZN.30 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain H Metal complexes: B:H.49, H:H.49 ZN.10: 5 residues within 4Å: Chain C: H.49 Chain E: H.49 Ligands: ACT.9, ACT.17, ZN.18 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain C Metal complexes: E:H.49, C:H.49 ZN.14: 5 residues within 4Å: Chain D: H.49 Chain F: H.49 Ligands: ACT.13, ACT.21, ZN.22 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain F Metal complexes: D:H.49, F:H.49 ZN.18: 5 residues within 4Å: Chain C: H.49 Chain E: H.49 Ligands: ACT.9, ZN.10, ACT.17 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain C Metal complexes: E:H.49, C:H.49 ZN.22: 5 residues within 4Å: Chain D: H.49 Chain F: H.49 Ligands: ACT.13, ZN.14, ACT.21 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain D Metal complexes: F:H.49, D:H.49 ZN.26: 5 residues within 4Å: Chain A: H.49 Chain G: H.49 Ligands: ACT.1, ZN.2, ACT.25 2 PLIP interactions: 1 interactions with chain G, 1 interactions with chain A Metal complexes: G:H.49, A:H.49 ZN.30: 5 residues within 4Å: Chain B: H.49 Chain H: H.49 Ligands: ACT.5, ZN.6, ACT.29 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain H Metal complexes: B:H.49, H:H.49

8 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 3 residues within 4Å: Chain A: K.25, D.101 Ligands: GTP.4 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.101, H2O.3, H2O.7 MN.7: 3 residues within 4Å: Chain B: K.25, D.101 Ligands: GTP.8 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.101, H2O.10, H2O.13 MN.11: 3 residues within 4Å: Chain C: K.25, D.101 Ligands: GTP.12 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.101, H2O.16, H2O.20 MN.15: 3 residues within 4Å: Chain D: K.25, D.101 Ligands: GTP.16 3 PLIP interactions: 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.101, H2O.23, H2O.26 MN.19: 3 residues within 4Å: Chain E: K.25, D.101 Ligands: GTP.20 3 PLIP interactions: 1 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:D.101, H2O.29, H2O.33 MN.23: 3 residues within 4Å: Chain F: K.25, D.101 Ligands: GTP.24 3 PLIP interactions: 1 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:D.101, H2O.35, H2O.39 MN.27: 3 residues within 4Å: Chain G: K.25, D.101 Ligands: GTP.28 3 PLIP interactions: 1 interactions with chain G, 2 Ligand-Water interactions Metal complexes: G:D.101, H2O.42, H2O.46 MN.31: 3 residues within 4Å: Chain H: K.25, D.101 Ligands: GTP.32 3 PLIP interactions: 1 interactions with chain H, 2 Ligand-Water interactions Metal complexes: H:D.101, H2O.48, H2O.52

8 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.4: 16 residues within 4Å: Chain A: L.12, A.13, G.14, G.15, K.16, K.25, N.53, N.55, D.71, G.78, P.79, G.82, P.99, D.101, N.182 Ligands: MN.3 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:A.13, A:G.15, A:K.16, A:N.53, A:N.53, A:N.55, A:G.78 Water bridges: A:G.14, A:K.25, A:K.25, A:N.180 Salt bridges: A:K.25, A:K.25, A:D.71 pi-Stacking: A:P.79 GTP.8: 16 residues within 4Å: Chain B: L.12, A.13, G.14, G.15, K.16, K.25, N.53, N.55, D.71, G.78, P.79, G.82, P.99, D.101, N.182 Ligands: MN.7 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:A.13, B:G.15, B:K.16, B:N.53, B:N.53, B:N.55, B:G.78 Water bridges: B:G.14, B:K.25, B:K.25, B:N.180 Salt bridges: B:K.25, B:K.25, B:D.71 pi-Stacking: B:P.79 GTP.12: 16 residues within 4Å: Chain C: L.12, A.13, G.14, G.15, K.16, K.25, N.53, N.55, D.71, G.78, P.79, G.82, P.99, D.101, N.182 Ligands: MN.11 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:A.13, C:G.15, C:K.16, C:N.53, C:N.53, C:N.55, C:G.78 Water bridges: C:G.14, C:K.25, C:K.25, C:N.180 Salt bridges: C:K.25, C:K.25, C:D.71 pi-Stacking: C:P.79 GTP.16: 16 residues within 4Å: Chain D: L.12, A.13, G.14, G.15, K.16, K.25, N.53, N.55, D.71, G.78, P.79, G.82, P.99, D.101, N.182 Ligands: MN.15 17 PLIP interactions: 17 interactions with chain D Hydrogen bonds: D:A.13, D:G.15, D:K.16, D:N.53, D:N.53, D:N.55, D:G.78, D:D.101, D:N.182 Water bridges: D:G.14, D:K.25, D:D.101, D:N.180 Salt bridges: D:K.25, D:K.25, D:D.71 pi-Stacking: D:P.79 GTP.20: 16 residues within 4Å: Chain E: L.12, A.13, G.14, G.15, K.16, K.25, N.53, N.55, D.71, G.78, P.79, G.82, P.99, D.101, N.182 Ligands: MN.19 15 PLIP interactions: 15 interactions with chain E Hydrogen bonds: E:A.13, E:G.15, E:K.16, E:N.53, E:N.53, E:N.55, E:G.78 Water bridges: E:G.14, E:K.25, E:K.25, E:N.180 Salt bridges: E:K.25, E:K.25, E:D.71 pi-Stacking: E:P.79 GTP.24: 16 residues within 4Å: Chain F: L.12, A.13, G.14, G.15, K.16, K.25, N.53, N.55, D.71, G.78, P.79, G.82, P.99, D.101, N.182 Ligands: MN.23 15 PLIP interactions: 15 interactions with chain F Hydrogen bonds: F:A.13, F:G.15, F:K.16, F:N.53, F:N.53, F:N.55, F:G.78 Water bridges: F:G.14, F:K.25, F:K.25, F:N.180 Salt bridges: F:K.25, F:K.25, F:D.71 pi-Stacking: F:P.79 GTP.28: 16 residues within 4Å: Chain G: L.12, A.13, G.14, G.15, K.16, K.25, N.53, N.55, D.71, G.78, P.79, G.82, P.99, D.101, N.182 Ligands: MN.27 15 PLIP interactions: 15 interactions with chain G Hydrogen bonds: G:A.13, G:G.15, G:K.16, G:N.53, G:N.53, G:N.55, G:G.78 Water bridges: G:G.14, G:K.25, G:K.25, G:N.180 Salt bridges: G:K.25, G:K.25, G:D.71 pi-Stacking: G:P.79 GTP.32: 16 residues within 4Å: Chain H: L.12, A.13, G.14, G.15, K.16, K.25, N.53, N.55, D.71, G.78, P.79, G.82, P.99, D.101, N.182 Ligands: MN.31 15 PLIP interactions: 15 interactions with chain H Hydrogen bonds: H:A.13, H:G.15, H:K.16, H:N.53, H:N.53, H:N.55, H:G.78 Water bridges: H:G.14, H:K.25, H:K.25, H:N.180 Salt bridges: H:K.25, H:K.25, H:D.71 pi-Stacking: H:P.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lake, M.W. et al., The crystal structure of the Escherichia coli MobA protein provides insight into molybdopterin guanine dinucleotide biosynthesis. J.Biol.Chem. (2000)

Release Date

2001-01-10

Peptides

MOLYBDOPTERIN-GUANINE DINUCLEOTIDE BIOSYNTHESIS PROTEIN: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

MOLYBDOPTERIN-GUANINE DINUCLEOTIDE BIOSYNTHESIS PROTEIN

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