SMTL ID : 2hxv.1

Crystal structure of a diaminohydroxyphosphoribosylaminopyrimidine deaminase/ 5-amino-6-(5-phosphoribosylamino)uracil reductase (tm1828) from thermotoga maritima at 1.80 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.61, E.63, C.89, C.98 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.61, A:C.89, A:C.98, H2O.8 ZN.12: 4 residues within 4Å: Chain B: H.61, E.63, C.89, C.98 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.61, B:C.89, B:C.98, H2O.16

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

CL.2: 4 residues within 4Å: Chain A: R.196, Q.215, L.216 Ligands: GOL.7 Ligand excluded by PLIP CL.13: 4 residues within 4Å: Chain B: R.196, Q.215, L.216 Ligands: GOL.18 Ligand excluded by PLIP

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.3: 29 residues within 4Å: Chain A: Y.166, A.167, I.174, A.175, G.179, S.181, I.184, G.205, A.206, G.207, T.208, K.211, D.212, L.231, D.232, R.233, K.234, C.273, I.278, E.293, G.294, G.295, S.296, K.297, V.298, E.301, L.322 Ligands: GOL.5, GOL.7 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:T.208 Hydrogen bonds: A:A.167, A:A.167, A:S.181, A:G.205, A:A.206, A:G.207, A:T.208, A:T.208, A:D.212, A:R.233, A:R.233, A:R.233, A:G.295, A:S.296, A:K.297, A:V.298, A:E.301 Water bridges: A:S.181, A:K.234 Salt bridges: A:R.233 pi-Cation interactions: A:R.233, A:R.233 NDP.14: 29 residues within 4Å: Chain B: Y.166, A.167, I.174, A.175, G.179, S.181, I.184, G.205, A.206, G.207, T.208, K.211, D.212, L.231, D.232, R.233, K.234, C.273, I.278, E.293, G.294, G.295, S.296, K.297, V.298, E.301, L.322 Ligands: GOL.16, GOL.18 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:T.208 Hydrogen bonds: B:A.167, B:A.167, B:S.181, B:G.205, B:A.206, B:G.207, B:T.208, B:D.212, B:R.233, B:R.233, B:R.233, B:G.295, B:S.296, B:K.297, B:V.298, B:E.301 Water bridges: B:S.181, B:K.234 Salt bridges: B:R.233 pi-Cation interactions: B:R.233, B:R.233

16 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 3 residues within 4Å: Chain A: G.79, G.106, K.108 Ligand excluded by PLIP GOL.5: 6 residues within 4Å: Chain A: A.167, S.181, I.184, T.185 Ligands: NDP.3, GOL.7 Ligand excluded by PLIP GOL.6: 6 residues within 4Å: Chain A: R.159, D.304, H.305, A.306, D.307, P.356 Ligand excluded by PLIP GOL.7: 10 residues within 4Å: Chain A: K.165, R.196, T.208, D.212, P.214, L.216, E.293 Ligands: CL.2, NDP.3, GOL.5 Ligand excluded by PLIP GOL.8: 7 residues within 4Å: Chain A: V.43, K.44, D.45, G.46, G.79, A.80, T.81 Ligand excluded by PLIP GOL.9: 9 residues within 4Å: Chain A: T.315, K.316, I.317 Chain B: Y.328, S.330, V.334, P.335, P.336, K.337 Ligand excluded by PLIP GOL.10: 6 residues within 4Å: Chain A: K.191, F.310, N.342, E.344, L.351, E.353 Ligand excluded by PLIP GOL.11: 5 residues within 4Å: Chain A: D.100, I.103, E.104, K.127, H.131 Ligand excluded by PLIP GOL.15: 3 residues within 4Å: Chain B: G.79, G.106, K.108 Ligand excluded by PLIP GOL.16: 6 residues within 4Å: Chain B: A.167, S.181, I.184, T.185 Ligands: NDP.14, GOL.18 Ligand excluded by PLIP GOL.17: 6 residues within 4Å: Chain B: R.159, D.304, H.305, A.306, D.307, P.356 Ligand excluded by PLIP GOL.18: 10 residues within 4Å: Chain B: K.165, R.196, T.208, D.212, P.214, L.216, E.293 Ligands: CL.13, NDP.14, GOL.16 Ligand excluded by PLIP GOL.19: 7 residues within 4Å: Chain B: V.43, K.44, D.45, G.46, G.79, A.80, T.81 Ligand excluded by PLIP GOL.20: 9 residues within 4Å: Chain A: Y.328, S.330, V.334, P.335, P.336, K.337 Chain B: T.315, K.316, I.317 Ligand excluded by PLIP GOL.21: 6 residues within 4Å: Chain B: K.191, F.310, N.342, E.344, L.351, E.353 Ligand excluded by PLIP GOL.22: 5 residues within 4Å: Chain B: D.100, I.103, E.104, K.127, H.131 Ligand excluded by PLIP

Links

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Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of Diaminohydroxyphosphoribosylaminopyrimidine deaminase/ 5-amino-6-(5-phosphoribosylamino)uracil reductase (TM1828) from Thermotoga maritima at 1.80 A resolution. To be published

Release Date

2006-08-15

Peptides

Diaminohydroxyphosphoribosylaminopyrimidine deaminase/ 5-amino-6-(5-phosphoribosylamino)uracil reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Diaminohydroxyphosphoribosylaminopyrimidine deaminase/ 5-amino-6-(5-phosphoribosylamino)uracil reductase