4DJM | pdb_00004djm

Crystal structure of the E. coli chaperone DraB

PDB DOI: https://doi.org/10.2210/pdb4DJM/pdb

Classification: CHAPERONE
Organism(s): Escherichia coli
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2012-02-02 Released: 2013-01-16
Deposition Author(s): Dauter, Z., Piatek, R., Dauter, M., Brzuszkiewicz, A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.52 Å
R-Value Free:
0.269 (Depositor), 0.260 (DCC)
R-Value Work:
0.206 (Depositor), 0.210 (DCC)
R-Value Observed:
0.207 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of the uropathogenic Escherichia coli chaperone DraB

Dauter, Z., Piatek, R., Dauter, M., Brzuszkiewicz, A.

To be published.

Macromolecule Content

Total Structure Weight: 209.23 kDa
Atom Count: 12,557
Modeled Residue Count: 1,609
Deposited Residue Count: 1,912
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DraB	A, B, C, D, E A, B, C, D, E, F, G, H	239	Escherichia coli	Mutation(s): 0 Gene Names: draB
UniProt
Find proteins for Q6S361 (Escherichia coli) Explore Q6S361 Go to UniProtKB: Q6S361
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q6S361
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B, C, D, E A, B, C, D, E, F, G, H	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.52 Å
R-Value Free: 0.269 (Depositor), 0.260 (DCC)
R-Value Work: 0.206 (Depositor), 0.210 (DCC)
R-Value Observed: 0.207 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.45	α = 84.2
b = 98.41	β = 89.8
c = 100.88	γ = 83.8

Software Package:

Software Name	Purpose
Blu-Ice	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2013-01-16

Deposition Author(s):

Brzuszkiewicz, A.

Revision History (Full details and data files)

Version 1.0: 2013-01-16
Type: Initial release
Version 1.1: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.2: 2023-12-06
Changes: Data collection
Version 1.3: 2024-11-20
Changes: Structure summary

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.