3JTO | pdb_00003jto

Crystal structure of the c-terminal domain of YpbH

PDB DOI: https://doi.org/10.2210/pdb3JTO/pdb

Classification: PROTEIN BINDING
Organism(s): Bacillus subtilis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2009-09-14 Released: 2009-09-29
Deposition Author(s): Wang, F., Mei, Z., Qi, Y., Yan, C., Wang, J., Shi, Y.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.269 (Depositor), 0.260 (DCC)
R-Value Work:
0.230 (Depositor), 0.230 (DCC)
R-Value Observed:
0.232 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystal Structure of the MecA Degradation Tag

Wang, F., Mei, Z., Qi, Y., Yan, C., Xiang, S., Zhou, Z., Hu, Q., Wang, J., Shi, Y.

To be published.

Macromolecule Content

Total Structure Weight: 63.08 kDa
Atom Count: 4,497
Modelled Residue Count: 550
Deposited Residue Count: 564
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adapter protein mecA 2	A, B, C, D, E A, B, C, D, E, F	94	Bacillus subtilis	Mutation(s): 0 Gene Names: ypbH
UniProt
Find proteins for P50734 (Bacillus subtilis (strain 168)) Explore P50734 Go to UniProtKB: P50734
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P50734
Sequence Annotations Expand
Reference Sequence LOADING

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.269 (Depositor), 0.260 (DCC)
R-Value Work: 0.230 (Depositor), 0.230 (DCC)
R-Value Observed: 0.232 (Depositor)

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 162.056	α = 90
b = 162.056	β = 90
c = 142.848	γ = 90

Software Package:

Software Name	Purpose
BSS	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2009-09-29

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2009-09-29
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-11-01
Changes: Data collection, Database references, Refinement description

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.