SMTL ID : 1nuq.1

CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC NMN/NaMN ADENYLYLTRANSFERASE COMPLEXED WITH NaAD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: K.95, R.98, H.152 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.155 Salt bridges: A:K.95, A:R.98, A:H.152 SO4.2: 7 residues within 4Å: Chain A: K.56, S.201, A.202, T.203, R.206 Chain B: K.140 Ligands: NXX.3 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.202, A:T.203, A:T.203 Water bridges: A:S.201, A:T.203 Salt bridges: A:K.56, A:R.206, B:K.140 SO4.4: 4 residues within 4Å: Chain B: K.95, R.98, K.149, H.152 4 PLIP interactions: 4 interactions with chain B Salt bridges: B:K.95, B:R.98, B:K.149, B:H.152 SO4.5: 5 residues within 4Å: Chain A: K.140 Chain B: S.201, A.202, T.203 Ligands: NXX.6 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Y.175, B:A.202, B:T.203, B:T.203 Salt bridges: A:K.140 SO4.7: 3 residues within 4Å: Chain C: K.95, R.98, H.152 4 PLIP interactions: 4 interactions with chain C Water bridges: C:R.98 Salt bridges: C:K.95, C:R.98, C:H.152 SO4.8: 7 residues within 4Å: Chain C: K.56, S.201, A.202, T.203, R.206 Chain D: K.140 Ligands: NXX.9 9 PLIP interactions: 2 interactions with chain D, 7 interactions with chain C Water bridges: D:S.169, C:S.201, C:T.203, C:T.203 Salt bridges: D:K.140, C:K.56, C:R.206 Hydrogen bonds: C:A.202, C:T.203 SO4.10: 4 residues within 4Å: Chain D: K.95, R.98, K.149, H.152 4 PLIP interactions: 4 interactions with chain D Salt bridges: D:K.95, D:R.98, D:K.149, D:H.152 SO4.11: 5 residues within 4Å: Chain C: K.140 Chain D: S.201, A.202, T.203 Ligands: NXX.12 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:A.202, D:T.203, C:Y.175, C:Y.175 Salt bridges: C:K.140

4 x NXX: 1-[(2R,3R,4S,5R)-5-({[(R)-{[(R)-{[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHOXY}(HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]OXY}METHYL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]-3-CARBOXYPYRIDINIUM(Non-covalent)

NXX.3: 21 residues within 4Å: Chain A: C.12, G.13, S.14, F.15, M.21, H.22, M.25, V.49, Y.53, W.90, E.92, T.93, C.134, G.135, D.137, V.138, L.147, W.148, R.167, N.198 Ligands: SO4.2 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:W.90, A:L.147, A:L.147 Hydrogen bonds: A:S.14, A:F.15, A:W.90, A:T.93, A:T.93, A:G.135, A:D.137, A:R.167, A:N.198 Water bridges: A:C.12, A:G.13, A:G.13, A:N.16, A:E.84, A:T.93, A:V.94, A:L.133 Salt bridges: A:H.22 pi-Stacking: A:W.148 pi-Cation interactions: A:R.167, A:R.167 NXX.6: 22 residues within 4Å: Chain B: C.12, G.13, S.14, F.15, M.21, H.22, M.25, V.49, Y.53, W.90, E.92, T.93, C.134, G.135, D.137, V.138, L.147, W.148, R.167, N.198, E.199 Ligands: SO4.5 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:W.90, B:L.147, B:W.148 Hydrogen bonds: B:S.14, B:F.15, B:W.90, B:T.93, B:T.93, B:G.135, B:D.137, B:R.167, B:N.198 Water bridges: B:C.12, B:G.13, B:G.13, B:N.16, B:E.84, B:T.93, B:V.94, B:L.133 Salt bridges: B:H.22 pi-Stacking: B:W.148 pi-Cation interactions: B:R.167, B:R.167 NXX.9: 21 residues within 4Å: Chain C: C.12, G.13, S.14, F.15, M.21, H.22, M.25, V.49, Y.53, W.90, E.92, T.93, C.134, G.135, D.137, V.138, L.147, W.148, R.167, N.198 Ligands: SO4.8 28 PLIP interactions: 28 interactions with chain C Hydrophobic interactions: C:W.90, C:L.147, C:L.147 Hydrogen bonds: C:S.14, C:F.15, C:W.90, C:T.93, C:T.93, C:T.93, C:G.135, C:D.137, C:R.167, C:N.198 Water bridges: C:C.12, C:G.13, C:G.13, C:N.16, C:E.84, C:T.93, C:V.94, C:L.133, C:H.152, C:H.152, C:H.152 Salt bridges: C:H.22 pi-Stacking: C:W.148 pi-Cation interactions: C:R.167, C:R.167 NXX.12: 22 residues within 4Å: Chain D: C.12, G.13, S.14, F.15, M.21, H.22, M.25, V.49, Y.53, W.90, E.92, T.93, C.134, G.135, D.137, V.138, L.147, W.148, R.167, N.198, E.199 Ligands: SO4.11 27 PLIP interactions: 27 interactions with chain D Hydrophobic interactions: D:W.90, D:L.147, D:W.148 Hydrogen bonds: D:S.14, D:F.15, D:W.90, D:T.93, D:T.93, D:T.93, D:G.135, D:D.137, D:R.167, D:N.198 Water bridges: D:C.12, D:G.13, D:G.13, D:N.16, D:E.84, D:T.93, D:L.133, D:H.152, D:H.152, D:H.152 Salt bridges: D:H.22 pi-Stacking: D:W.148 pi-Cation interactions: D:R.167, D:R.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

ZHANG, X. et al., STRUCTURAL CHARACTERIZATION OF A HUMAN CYTOSOLIC NMN/NaMN ADENYLYLTRANSFERASE AND IMPLICATION IN HUMAN NAD BIOSYNTHESIS. J.Biol.Chem. (2003)

Release Date

2003-06-03

Peptides

FKSG76: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

FKSG76

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