2IGL | pdb_00002igl

Crystal Structure of E. coli YEDX, a transthyretin related protein

PDB DOI: https://doi.org/10.2210/pdb2IGL/pdb

Classification: UNKNOWN FUNCTION
Organism(s): Escherichia coli K-12
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2006-09-22 Released: 2007-10-02
Deposition Author(s): Zuo, Y., Malhotra, A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.242 (Depositor), 0.246 (DCC)
R-Value Work:
0.207 (Depositor), 0.212 (DCC)
R-Value Observed:
0.207 (Depositor)

Starting Model: experimental
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This is version 1.2 of the entry. See complete history.

Literature

Expression, Purification and Structure Determination of Yedx, a Transthyretin-Related Protein from Escherichia coli

Zuo, Y., Bllanco, J., Shah, J., Wang, Y., Rivera, S., Ragan, T.J., Hernandez, G., Nelersa, C.M., Mitchell, R., Rudd, K.E., Malhotra, A.

To be published.

Macromolecule Content

Total Structure Weight: 53.77 kDa
Atom Count: 4,075
Modeled Residue Count: 464
Deposited Residue Count: 472
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transthyretin-like protein	A, B, C, D	118	Escherichia coli K-12	Mutation(s): 0 Gene Names: yedX, b1970 EC: 3.5.2.17
UniProt
Find proteins for P76341 (Escherichia coli (strain K12)) Explore P76341 Go to UniProtKB: P76341
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P76341
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.242 (Depositor), 0.246 (DCC)
R-Value Work: 0.207 (Depositor), 0.212 (DCC)
R-Value Observed: 0.207 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.12	α = 90
b = 77.37	β = 90
c = 100.89	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
CBASS	data collection
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-10-02

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2007-10-02
Type: Initial release
Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.2: 2023-08-30
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.