2OQT | pdb_00002oqt

Structural Genomics, the crystal structure of a putative PTS IIA domain from Streptococcus pyogenes M1 GAS

PDB DOI: https://doi.org/10.2210/pdb2OQT/pdb

Classification: TRANSFERASE
Organism(s): Streptococcus pyogenes serotype M1
Expression System: Escherichia coli BL21
Mutation(s): Yes

Deposited: 2007-02-01 Released: 2007-03-06
Deposition Author(s): Tan, K., Wu, R., Osipiuk, J., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.41 Å
R-Value Free:
0.254 (Depositor), 0.255 (DCC)
R-Value Work:
0.208 (Depositor), 0.205 (DCC)
R-Value Observed:
0.210 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

The crystal structure of a putative PTS IIA domain from Streptococcus pyogenes M1 GAS

Tan, K., Wu, R., Osipiuk, J., Clancy, S., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 71.23 kDa
Atom Count: 4,693
Modeled Residue Count: 612
Deposited Residue Count: 648
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein SPy0176	A, B, C, D	162	Streptococcus pyogenes serotype M1	Mutation(s): 6 Gene Names: SPy0176
UniProt
Find proteins for Q9A1N7 (Streptococcus pyogenes serotype M1) Explore Q9A1N7 Go to UniProtKB: Q9A1N7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9A1N7
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.41 Å
R-Value Free: 0.254 (Depositor), 0.255 (DCC)
R-Value Work: 0.208 (Depositor), 0.205 (DCC)
R-Value Observed: 0.210 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.224	α = 90
b = 112.781	β = 99.19
c = 60.401	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-03-06

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2007-03-06
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2023-12-27
Changes: Data collection, Database references, Derived calculations
Version 1.4: 2024-10-09
Changes: 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.