SMTL ID : 2pnk.6 (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-hexamer

Ligands

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

CL.1: 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.13: 3 residues within 4Å: Chain D: H.252, N.253, R.415 Ligand excluded by PLIP CL.14: 6 residues within 4Å: Chain D: K.279, E.305 Chain E: K.279, E.305 Chain F: K.279, E.305 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain D: Y.179, E.180, N.236 Ligand excluded by PLIP CL.21: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

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

PO4.2: 6 residues within 4Å: Chain A: H.29, H.50, Y.51, W.327, D.356, R.358 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.51, A:D.356 Salt bridges: A:H.29, A:H.50, A:R.358 PO4.10: 7 residues within 4Å: Chain C: H.29, H.50, Y.51, W.326, W.327, D.356, R.358 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:Y.51, C:W.327 Water bridges: C:D.275 Salt bridges: C:H.29, C:H.50, C:R.358

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

FMT.3: 7 residues within 4Å: Chain A: R.315, K.316 Chain B: H.50, Y.51, A.54, W.327, F.328 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:H.50, A:R.315, A:K.316 FMT.4: 7 residues within 4Å: Chain A: H.27, H.29, T.144, R.171, A.222, S.224, M.259 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.224 FMT.7: 7 residues within 4Å: Chain B: R.315, K.316 Chain C: H.50, Y.51, A.54, W.327, F.328 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:W.327, B:R.315, B:K.316 FMT.12: 6 residues within 4Å: Chain A: H.50, A.54, W.327, F.328 Chain C: R.315, K.316 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:H.50, C:R.315, C:R.315, C:K.316 FMT.16: 6 residues within 4Å: Chain D: R.315, K.316 Chain E: H.50, A.54, W.327, F.328 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:R.315, D:R.315, D:K.316, E:H.50 FMT.23: 6 residues within 4Å: Chain E: R.315, K.316 Chain F: H.50, A.54, W.327, F.328 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain F Hydrogen bonds: E:R.315, E:K.316, F:H.50, F:W.327 FMT.29: 7 residues within 4Å: Chain D: H.50, A.54, A.273, W.327, F.328 Chain F: R.315, K.316 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain D Hydrogen bonds: F:R.315, F:R.315, F:K.316, D:H.50

11 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: P.332, N.336 Chain C: R.340 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Water bridges: C:R.340, A:N.336 Hydrogen bonds: A:P.332 GOL.6: 2 residues within 4Å: Chain A: D.140, W.410 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.410 GOL.8: 6 residues within 4Å: Chain B: H.29, H.50, Y.51, W.327, D.356, R.358 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:H.29, B:Y.51, B:Y.51, B:R.358 Water bridges: B:W.327, B:N.330 GOL.9: 4 residues within 4Å: Chain B: S.6 Chain D: K.15, N.19, K.371 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:N.19, D:K.371, B:S.6, B:S.6 GOL.17: 6 residues within 4Å: Chain D: H.29, H.50, Y.51, W.327, D.356, R.358 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:R.358 Water bridges: D:Y.49, D:Y.49, D:Y.51, D:Y.51, D:N.330, D:S.355 GOL.24: 5 residues within 4Å: Chain E: H.50, Y.51, W.327, D.356, R.358 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:D.356, E:R.358 Water bridges: E:Y.51, E:Y.51, E:N.330, E:R.358 GOL.25: 2 residues within 4Å: Chain E: K.279, A.280 2 PLIP interactions: 2 interactions with chain E Water bridges: E:K.279, E:K.279 GOL.26: 4 residues within 4Å: Chain E: L.40, W.41, D.42, E.45 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:W.41 Water bridges: E:L.39 GOL.27: 8 residues within 4Å: Chain E: F.231, P.232, D.283, G.284, E.286, H.287, R.290 Chain F: K.263 8 PLIP interactions: 6 interactions with chain E, 2 interactions with chain F Hydrogen bonds: E:H.287, E:H.287, E:R.290, F:K.263, F:K.263 Water bridges: E:F.231, E:F.231, E:F.231 GOL.30: 6 residues within 4Å: Chain F: H.29, H.50, Y.51, W.327, D.356, R.358 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:H.50, F:Y.51, F:D.356, F:R.358 Water bridges: F:Y.49, F:N.330 GOL.31: 2 residues within 4Å: Chain F: K.279, A.280 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:P.227, F:A.280 Water bridges: F:K.279, F:N.306

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

ACT.11: 2 residues within 4Å: Chain C: L.157, W.212 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.157, C:W.212 ACT.28: 1 residues within 4Å: Chain F: E.158 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:E.158, F:E.158

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

MPD.18: 3 residues within 4Å: Chain D: L.157, D.211, W.212 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:D.211, D:W.212 Water bridges: D:D.211, D:R.215 MPD.19: 3 residues within 4Å: Chain D: K.279, A.280, S.281 3 PLIP interactions: 3 interactions with chain D Water bridges: D:T.228, D:K.279, D:K.279

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

NA.20: 2 residues within 4Å: Chain D: E.333 Chain F: E.333 4 PLIP interactions: 2 interactions with chain D, 1 interactions with chain F, 1 interactions with chain E Hydrogen bonds: D:E.333, D:E.333, F:E.333, E:E.333

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

UNL.22: 8 residues within 4Å: Chain E: L.176, N.177, E.178, Y.179, E.180, S.235, N.236, R.237 14 PLIP interactions: 14 interactions with chain E Hydrogen bonds: E:N.177, E:Y.179, E:E.180, E:S.235, E:N.236, E:N.236, E:R.237 Water bridges: E:L.176, E:N.177, E:Q.181, E:E.233, E:E.233, E:S.235, E:R.237

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: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

D
G

E
H

F
I

BH0493 protein

Related Entries With Identical Sequence