PDBsum entry: 2bxy

Hydrolase

PDB-id: 2bxy

Contents

Description

Header details

Header records

References

PROCHECK

Protein chain

580 a.a. *

Ligands

TRS

TRE ×2

GLC ×2

BME

Metal ions

_MG

Waters ×856

* Residue conservation analysis

Tools

Clefts Calculation

PDB id:

2bxy

Name:

Hydrolase

Title:

Is radiation damage dependent on the dose-rate used during macromolecular crystallography data collection

Structure:

Maltooligosyltrehalose trehalohydrolase. Chain: a. Engineered: yes

Source:

Deinococcus radiodurans. Organism_taxid: 243230. Strain: r1. Expressed in: escherichia coli. Expression_system_taxid: 469008.

UniProt:

Q9RX51 (Q9RX51_DEIRA)

Seq:

Struc:

Seq:

Struc:

Seq:

600 a.a.

Struc:

580 a.a.*

Key:

PfamA domain

Secondary structure

* PDB and UniProt seqs differ at 2 residue positions (black crosses)

Resolution:

1.75Å

R-factor:

0.149

R-free:

0.188

Authors:

H.-K.S.Leiros,J.Timmins,R.B.G.Ravelli,S.M.Mcsweeney

Key ref:

H.K.Leiros et al. (2006). Is radiation damage dependent on the dose rate used during macromolecular crystallography data collection?. Acta Crystallogr D Biol Crystallogr, 62, 125-132. [PubMed id: 16421442] [DOI: 10.1107/S0907444905033627]

Date:

28-Jul-05

Release date:

06-Feb-06

Related entries:

2bxz is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by0 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by1 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by2 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by3 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by5 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by6 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by7 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by8 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
2by9 is radiation damage dependent on the dose- rate used during macromolecular crystallography data collection
... plus others (see Header records)

Quick_links

Procheck

Clefts

Surface

Key reference

DOI no: 10.1107/S0907444905033627

Acta Crystallogr D Biol Crystallogr 62:125-132 (2006)

PubMed id: 16421442

Is radiation damage dependent on the dose rate used during macromolecular crystallography data collection?

H.K.Leiros, J.Timmins, R.B.Ravelli, S.M.McSweeney.

ABSTRACT

This paper focuses on the radiation-damage effects when applying the same total X-ray dose to protein crystals at different dose rates. These experiments have been performed on both a selenomethionated protein and on bovine trypsin using dose rates that span nearly two orders of magnitude. The results show no clear dose-rate effect on the global indicators of radiation damage, but a small measurable dose-rate effect could be found when studying specific radiation damage. It is hypothesized that this observed dose-rate effect relates to differences in the steady-state free-radical concentration.

Selected figure(s)

Figure 2.
Figure 2 (a) Illustrations of the disulfide bond from Cys395 to the Bme residue and (b) the seven SeMet residues (Mse), with the corresponding vector difference map from the drMTH-Rate75 burn displayed at +4 [sigma] (red) and -4 [sigma] (green).

Figure 5.
Figure 5 Active site of BT: an illustration of the binding pocket in BT with the vector difference map from BT-Rate24 contoured at +4 [sigma] (red) and -4 [sigma] (green). The inhibitor benzamidine (Bza), Asp189, Ser190, Tyr228 and some surrounding water molecules are shown.

The above figures are reprinted by permission from the IUCr: Acta Crystallogr D Biol Crystallogr (2006, 62, 125-132) copyright 2006.

Figures were selected by an automated process.