3U7V

The structure of a putative Beta-galactosidase from Caulobacter crescentus CB15.

PDB DOI: https://doi.org/10.2210/pdb3U7V/pdb

Classification: HYDROLASE
Organism(s): Caulobacter vibrioides NA1000
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2011-10-14 Released: 2011-12-21
Deposition Author(s): Cuff, M.E., Tesar, C., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.215
R-Value Work: 0.184
R-Value Observed: 0.185

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

The structure of a putative Beta-galactosidase from Caulobacter crescentus CB15.

Cuff, M.E., Tesar, C., Clancy, S., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 61.23 kDa
Atom Count: 4,465
Modelled Residue Count: 517
Deposited Residue Count: 552
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-galactosidase	A	552	Caulobacter vibrioides NA1000	Mutation(s): 0 Gene Names: CCNA_00830, LacA EC: 3.2.1.23
UniProt
Find proteins for A0A0H3C5N2 (Caulobacter vibrioides (strain NA1000 / CB15N)) Explore A0A0H3C5N2 Go to UniProtKB: A0A0H3C5N2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0H3C5N2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ACY Query on ACY Download Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A]	B [auth A], C [auth A]	ACETIC ACID C₂ H₄ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.215
R-Value Work: 0.184
R-Value Observed: 0.185
Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 148.306	α = 90
b = 148.306	β = 90
c = 53.792	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MLPHARE	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing
SHELXD	phasing
SHELXE	model building
SOLVE	phasing
RESOLVE	phasing
ARP/wARP	model building
CCP4	phasing
O	model building
Coot	model building

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2011-12-21

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2011-12-21
Type: Initial release
Version 1.1: 2017-11-08
Changes: 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.