5KMY | pdb_00005kmy

Crystal structure of tryptophan synthase subunit alpha from Legionella pneumophila str. Paris

PDB DOI: https://doi.org/10.2210/pdb5KMY/pdb

Classification: LYASE
Organism(s): Legionella pneumophila str. Paris
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2016-06-27 Released: 2016-08-03
Deposition Author(s): Nocek, B., Hatzos-Skintges, C., Endres, M., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free:
0.207 (Depositor), 0.207 (DCC)
R-Value Work:
0.176 (Depositor), 0.176 (DCC)
R-Value Observed:
0.177 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5KMY

This is version 1.4 of the entry. See complete history.

Literature

Crystal structure of tryptophan synthase subunit alpha from Legionella pneumophila str. Paris

Nocek, B., Hatzos-Skintges, C., Endres, M., Anderson, W.F., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 30.76 kDa
Atom Count: 2,245
Modeled Residue Count: 262
Deposited Residue Count: 275
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tryptophan synthase alpha chain	A	275	Legionella pneumophila str. Paris	Mutation(s): 0 Gene Names: trpA, lpp1269 EC: 4.2.1.20
UniProt
Find proteins for Q5X5Q1 (Legionella pneumophila (strain Paris)) Explore Q5X5Q1 Go to UniProtKB: Q5X5Q1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5X5Q1
Sequence Annotations Expand
Reference Sequence

Small Molecules

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: 1.91 Å
R-Value Free: 0.207 (Depositor), 0.207 (DCC)
R-Value Work: 0.176 (Depositor), 0.176 (DCC)
R-Value Observed: 0.177 (Depositor)

Diffraction Data:

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.707	α = 90
b = 69.654	β = 90
c = 75.075	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-08-03

Deposition Author(s):

Hatzos-Skintges, C.

Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History (Full details and data files)

Version 1.0: 2016-08-03
Type: Initial release
Version 1.1: 2016-10-26
Changes: Database references
Version 1.2: 2016-11-23
Changes: Database references
Version 1.3: 2017-02-08
Changes: Database references, Structure summary
Version 1.4: 2024-11-20
Changes: Advisory, Data collection, Database references, Structure summary

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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.