SMTL ID : 2pnk.4 (5 other biounits)

CRYSTAL STRUCTURE OF AN URONATE ISOMERASE (BH0493) FROM BACILLUS HALODURANS C-125 AT 2.00 A RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

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

NA.1: 2 residues within 4Å: Chain B: E.333 Chain C: E.333 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:E.333, C:E.333, A:E.333

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

CL.2: 6 residues within 4Å: Chain A: K.279, E.305 Chain B: K.279, E.305 Chain C: K.279, E.305 Ligand excluded by PLIP CL.16: 3 residues within 4Å: Chain C: Y.179, E.180, N.236 Ligand excluded by PLIP

1 x UNL: UNKNOWN LIGAND(Non-functional Binders)

UNL.3: 8 residues within 4Å: Chain A: N.177, E.178, Y.179, E.180, Q.181, S.235, N.236, R.237 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:L.176, A:E.178, A:Y.179, A:E.180, A:Q.181, A:N.236, A:N.236, A:R.237 Water bridges: A:S.235, A:S.235, A:R.237

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.4: 6 residues within 4Å: Chain A: R.315, K.316 Chain B: H.50, A.54, W.327, F.328 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:H.50, A:R.315, A:R.315, A:K.316 FMT.5: 7 residues within 4Å: Chain A: H.27, T.144, R.171, D.173, V.223, S.224, M.259 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.224 Water bridges: A:S.224, A:S.224 FMT.9: 8 residues within 4Å: Chain B: R.315, K.316 Chain C: H.50, Y.51, A.54, A.273, W.327, F.328 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:R.315, B:K.316, C:H.50, C:W.327 FMT.18: 6 residues within 4Å: Chain A: H.50, A.54, W.327, F.328 Chain C: R.315, K.316 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:R.315, C:R.315, C:K.316, A:H.50

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: H.50, Y.51, W.326, W.327, D.356, R.358 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.356, A:R.358, A:R.358 Water bridges: A:Y.51, A:N.330 GOL.7: 3 residues within 4Å: Chain A: P.227, K.279, A.280 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.279 GOL.10: 6 residues within 4Å: Chain B: H.50, Y.51, W.326, W.327, D.356, R.358 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.358 Water bridges: B:Y.49, B:Y.51, B:Y.51, B:R.358 GOL.11: 1 residues within 4Å: Chain B: R.399 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:R.399 Water bridges: B:E.395, B:E.396, C:I.85, C:K.86 GOL.12: 1 residues within 4Å: Chain B: E.158 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.158 GOL.13: 3 residues within 4Å: Chain A: R.340 Chain B: P.332, E.333 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:P.332 Water bridges: B:N.336, A:R.340, A:R.340, A:R.340 GOL.19: 6 residues within 4Å: Chain C: H.50, Y.51, W.326, W.327, D.356, R.358 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:D.356, C:R.358 Water bridges: C:Y.49, C:Y.51, C:N.330, C:R.358 GOL.20: 3 residues within 4Å: Chain C: K.279, A.280, S.281 4 PLIP interactions: 4 interactions with chain C Water bridges: C:K.279, C:K.279, C:A.280, C:N.306

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

PO4.8: 3 residues within 4Å: Chain B: E.158, G.159, K.160 No protein-ligand interaction detected (PLIP)

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.14: 4 residues within 4Å: Chain B: L.157, Y.191, D.211, W.212 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.157, B:Y.191, B:W.212 Water bridges: B:D.211 MPD.15: 5 residues within 4Å: Chain B: P.227, T.228, K.279, A.280, S.281 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:K.279 Hydrogen bonds: B:P.227 MPD.21: 5 residues within 4Å: Chain C: L.157, Y.191, D.211, W.212, R.215 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:D.211, C:W.212, C:W.212, C:R.215 Hydrogen bonds: C:Y.191, C:Y.191

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

ACT.17: 8 residues within 4Å: Chain C: H.27, H.29, T.144, R.171, D.173, A.222, S.224, M.259 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:T.144, C:R.171, C:A.222 Hydrogen bonds: C:H.27, C:S.224 Salt bridges: C:R.171

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of uncharacterized protein (NP_241359.1) from Bacillus halodurans at 2.00 A resolution. To be published

Release Date

2007-05-08

Peptides

BH0493 protein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
J

B
K

C
L

BH0493 protein

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