SMTL ID : 1moq.1

ISOMERASE DOMAIN OF GLUCOSAMINE 6-PHOSPHATE SYNTHASE COMPLEXED WITH GLUCOSAMINE 6-PHOSPHATE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-dimer

Ligands

2 x GLP: 2-amino-2-deoxy-6-O-phosphono-alpha-D-glucopyranose(Non-covalent)

GLP.1: 13 residues within 4Å: Chain A: C.60, G.61, T.62, S.63, S.107, Q.108, S.109, T.112, V.159, S.161, A.362, K.363 Chain B: H.264 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.62, A:T.62, A:T.62, A:S.63, A:S.63, A:S.63, A:Q.108, A:S.109, A:T.112, A:T.112, A:V.159, A:S.161, A:A.362, A:A.362 Water bridges: A:Q.108, A:Q.108, A:S.161, A:A.362 Salt bridges: B:H.264 GLP.10: 13 residues within 4Å: Chain A: H.264 Chain B: C.60, G.61, T.62, S.63, S.107, Q.108, S.109, T.112, V.159, S.161, A.362, K.363 23 PLIP interactions: 22 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:T.62, B:T.62, B:S.63, B:S.63, B:S.63, B:Q.108, B:S.109, B:T.112, B:T.112, B:V.159, B:S.161, B:A.362, B:A.362 Water bridges: B:T.62, B:Q.108, B:Q.108, B:T.115, B:S.161, B:E.248, B:E.248, B:E.248, B:A.362 Salt bridges: A:H.264

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

SO4.2: 5 residues within 4Å: Chain A: N.283, L.286, E.287, F.313, M.319 1 PLIP interactions: 1 interactions with chain A Water bridges: A:V.314 SO4.3: 6 residues within 4Å: Chain A: E.18, N.21, A.22, N.25, N.152, A.153 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.18, A:N.25 Water bridges: A:N.21 Salt bridges: A:K.163 SO4.4: 5 residues within 4Å: Chain A: H.225, H.226 Chain B: H.225, H.226 Ligands: SO4.13 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Salt bridges: A:H.225, A:H.226, B:H.225, B:H.226 Water bridges: B:H.226 SO4.5: 3 residues within 4Å: Chain A: A.362, K.363, S.364 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.363, A:S.364 SO4.6: 3 residues within 4Å: Chain A: Y.8, Y.17, E.18 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.8 Water bridges: A:Y.17, A:E.18, A:N.21, A:N.21, A:N.21, A:N.21 SO4.11: 5 residues within 4Å: Chain B: N.283, L.286, E.287, F.313, M.319 1 PLIP interactions: 1 interactions with chain B Water bridges: B:V.314 SO4.12: 6 residues within 4Å: Chain B: E.18, N.21, A.22, N.25, N.152, A.153 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.18, B:N.25 Water bridges: B:N.21 Salt bridges: B:K.163 SO4.13: 5 residues within 4Å: Chain A: H.225, H.226 Chain B: H.225, H.226 Ligands: SO4.4 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Water bridges: A:H.226 Salt bridges: A:H.225, A:H.226, B:H.225, B:H.226 SO4.14: 3 residues within 4Å: Chain B: A.362, K.363, S.364 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.363, B:S.364 SO4.15: 3 residues within 4Å: Chain B: Y.8, Y.17, E.18 6 PLIP interactions: 6 interactions with chain B Water bridges: B:Y.8, B:Y.17, B:N.21, B:N.21, B:N.21, B:N.21

2 x NA: SODIUM ION(Non-functional Binders)

NA.7: 2 residues within 4Å: Chain A: D.234 Ligands: MES.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.234 Water bridges: A:D.234, A:D.234 NA.16: 2 residues within 4Å: Chain B: D.234 Ligands: MES.17 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.234 Water bridges: B:D.234, B:D.234

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.8: 5 residues within 4Å: Chain A: A.280, N.282, E.329, A.332 Ligands: NA.7 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.282, A:E.329 Water bridges: A:N.282, A:D.308, A:V.327, A:E.329 MES.17: 5 residues within 4Å: Chain B: A.280, N.282, E.329, A.332 Ligands: NA.16 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.282, B:E.329 Water bridges: B:N.282, B:D.308, B:V.327, B:E.329

2 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.9: 8 residues within 4Å: Chain A: I.86, L.240 Chain B: Y.236, A.256, Y.257, A.258, E.261 Ligands: MRD.18 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.257, B:Y.257, B:E.261, A:I.86, A:L.240 Hydrogen bonds: B:Y.236, B:Y.236, B:A.258 Water bridges: B:A.256 MRD.18: 8 residues within 4Å: Chain A: Y.236, A.256, Y.257, A.258, E.261 Chain B: I.86, L.240 Ligands: MRD.9 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.257, A:Y.257, A:E.261, B:I.86, B:L.240 Hydrogen bonds: A:Y.236, A:A.258 Water bridges: A:A.256

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Teplyakov, A. et al., Involvement of the C terminus in intramolecular nitrogen channeling in glucosamine 6-phosphate synthase: evidence from a 1.6 A crystal structure of the isomerase domain. Structure (1998)

Release Date

1998-10-07

Peptides

GLUCOSAMINE 6-PHOSPHATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

GLUCOSAMINE 6-PHOSPHATE SYNTHASE

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