1YLX | pdb_00001ylx

Crystal Structure of a Protein of Unknown Function from Bacillus stearothermophilus

PDB DOI: https://doi.org/10.2210/pdb1YLX/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Geobacillus stearothermophilus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2005-01-19 Released: 2005-05-31
Deposition Author(s): Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free:
0.247 (Depositor), 0.253 (DCC)
R-Value Work:
0.229 (Depositor), 0.236 (DCC)
R-Value Observed:
0.229 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 1YLX

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of APC35702, a hypothetical protein from Bacillus stearothermophilus

Duke, N.E.C., Moy, S., Li, H., Collart, F., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 24.59 kDa
Atom Count: 1,735
Modeled Residue Count: 200
Deposited Residue Count: 206
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein APC35702	A, B	103	Geobacillus stearothermophilus	Mutation(s): 0
UniProt
Find proteins for Q5KZY7 (Geobacillus kaustophilus (strain HTA426)) Explore Q5KZY7 Go to UniProtKB: Q5KZY7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5KZY7
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.247 (Depositor), 0.253 (DCC)
R-Value Work: 0.229 (Depositor), 0.236 (DCC)
R-Value Observed: 0.229 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.189	α = 90
b = 70.156	β = 90
c = 81.361	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-3000	phasing
SHELXD	phasing
SHELXE	model building
MLPHARE	phasing
DM	phasing
SOLVE	phasing
RESOLVE	phasing
O	model building
Coot	model building
CCP4	phasing
CNS	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2005-05-31

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2005-05-31
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2024-10-30
Changes: Data collection, Database references, Derived calculations, 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.