4ZEF | pdb_00004zef

Crystal structure of substrate binding domain 2 (SBD2) OF ABC transporter GLNPQ from Enterococcus faecalis

PDB DOI: https://doi.org/10.2210/pdb4ZEF/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Enterococcus faecalis V583
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-04-20 Released: 2016-06-29
Deposition Author(s): Fulyani, F., Guskov, A., Poolman, B.
Funding Organization(s): NWO

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.40 Å
R-Value Free:
0.158 (Depositor), 0.172 (DCC)
R-Value Work:
0.129 (Depositor), 0.147 (DCC)
R-Value Observed:
0.130 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of substrate binding domain 2 (SBD2) OF ABC transporter GLNPQ from Enterococcus faecalis

Fulyani, F., Guskov, A., Poolman, B.

To be published.

Macromolecule Content

Total Structure Weight: 28.26 kDa
Atom Count: 2,326
Modeled Residue Count: 239
Deposited Residue Count: 251
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Amino acid ABC transporter amino acid-binding/permease	A	251	Enterococcus faecalis V583	Mutation(s): 0 Gene Names: EF_0761, I574_01170, OO5_02671
UniProt
Find proteins for Q837S0 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore Q837S0 Go to UniProtKB: Q837S0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q837S0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GLN Query on GLN Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	GLUTAMINE C₅ H₁₀ N₂ O₃ ZDXPYRJPNDTMRX-VKHMYHEASA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.40 Å
R-Value Free: 0.158 (Depositor), 0.172 (DCC)
R-Value Work: 0.129 (Depositor), 0.147 (DCC)
R-Value Observed: 0.130 (Depositor)

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.14	α = 90
b = 81.14	β = 90
c = 102.38	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHENIX	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2016-06-29

Deposition Author(s):

Funding Organization	Location	Grant Number
NWO	Netherlands	--

Revision History (Full details and data files)

Version 1.0: 2016-06-29
Type: Initial release
Version 1.1: 2024-01-10
Changes: Data collection, Database references, Refinement description

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.