4EXK | pdb_00004exk

A chimera protein containing MBP fused to the C-terminal domain of the uncharacterized protein STM14_2015 from Salmonella enterica

PDB DOI: https://doi.org/10.2210/pdb4EXK/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Escherichia coli K-12, Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2012-04-30 Released: 2012-08-08
Deposition Author(s): Nocek, B., Hatzos-Skintges, C., Jedrzejczak, R., Babnigg, G., Brown, R.N., Cort, J.R., Heffron, F., Nakayasu, E.S., Adkins, J.N., Joachimiak, A., Program for the Characterization of Secreted Effector Proteins (PCSEP), Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.28 Å
R-Value Free:
0.178 (Depositor), 0.180 (DCC)
R-Value Work:
0.141 (Depositor), 0.150 (DCC)
R-Value Observed:
0.143 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 2.1 of the entry. See complete history.

Literature

A chimera protein containing MBP fused to the C-terminal domain of the uncharacterized protein STM14_2015 form Salmonella enterica

Nocek, B., Hatzos-Skintges, C., Jedrzejczak, R., Babnigg, G., Brown, R.N., Cort, J.R., Heffron, F., Nakayasu, E.S., Adkins, J.N., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 53.82 kDa
Atom Count: 4,251
Modeled Residue Count: 475
Deposited Residue Count: 487
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Maltose-binding periplasmic protein, uncharacterized protein chimera	A	487	Escherichia coli K-12, Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S This entity is chimeric	Mutation(s): 9 Gene Names: malE, b4034, JW3994, STM14_2015, STM1668
UniProt
Find proteins for A0A0F6B1U8 (Salmonella typhimurium (strain 14028s / SGSC 2262)) Explore A0A0F6B1U8 Go to UniProtKB: A0A0F6B1U8
Find proteins for P0AEX9 (Escherichia coli (strain K12)) Explore P0AEX9 Go to UniProtKB: P0AEX9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Groups	P0AEX9A0A0F6B1U8
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose	B	4		N/A	Interactions Focus chain B Interactions & Density Focus chain B
Glycosylation Resources
GlyTouCan: G87171PZ GlyCosmos: G87171PZ GlyGen: G87171PZ

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PGE Query on PGE Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	TRIETHYLENE GLYCOL C₆ H₁₄ O₄ ZIBGPFATKBEMQZ-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900010 Query on PRD_900010	B	alpha-maltotetraose	Oligosaccharide / Substrate analog		Interactions Focus chain B Interactions & Density Focus chain B

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.28 Å
R-Value Free: 0.178 (Depositor), 0.180 (DCC)
R-Value Work: 0.141 (Depositor), 0.150 (DCC)
R-Value Observed: 0.143 (Depositor)

Diffraction Data: https://doi.org/10.18430/M34EXK

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.079	α = 90
b = 64.079	β = 90
c = 180.912	γ = 120

Software Package:

Software Name	Purpose
SBC-Collect	data collection
MOLREP	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2012-08-08

Deposition Author(s):

Program for the Characterization of Secreted Effector Proteins (PCSEP)

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2012-08-08
Type: Initial release
Version 1.1: 2012-08-22
Changes: Database references, Structure summary
Version 1.2: 2017-08-16
Changes: Refinement description, Source and taxonomy
Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary
Version 2.1: 2023-09-13
Changes: Data collection, Database references, Refinement description, Structure summary