Apo PTP1B by Native S-SAD at Room Temperature

Experimental Data Snapshot

  • Resolution: 1.85 Å
  • R-Value Free: 0.154 
  • R-Value Work: 0.132 
  • R-Value Observed: 0.133 

wwPDB Validation   3D Report Full Report

This is version 1.4 of the entry. See complete history


Native SAD phasing at room temperature.

Greisman, J.B.Dalton, K.M.Sheehan, C.J.Klureza, M.A.Kurinov, I.Hekstra, D.R.

(2022) Acta Crystallogr D Struct Biol 78: 986-996

  • DOI: https://doi.org/10.1107/S2059798322006799
  • Primary Citation of Related Structures:  
    7L84, 7LVC, 7MM1, 7RIN

  • PubMed Abstract: 

    Single-wavelength anomalous diffraction (SAD) is a routine method for overcoming the phase problem when solving macromolecular structures. This technique requires the accurate measurement of intensities to determine differences between Bijvoet pairs. Although SAD experiments are commonly conducted at cryogenic temperatures to mitigate the effects of radiation damage, such temperatures can alter the conformational ensemble of the protein and may impede the merging of data from multiple crystals due to non-uniform freezing. Here, a strategy is presented to obtain high-quality data from room-temperature, single-crystal experiments. To illustrate the strengths of this approach, native SAD phasing at 6.55 keV was used to solve four structures of three model systems at 295 K. The resulting data sets allow automatic phasing and model building, and reveal alternate conformations that reflect the structure of proteins at room temperature.

  • Organizational Affiliation

    Department of Molecular and Cellular Biology, Harvard University, 52 Oxford Street, Cambridge, Massachusetts, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tyrosine-protein phosphatase non-receptor type 1321Homo sapiensMutation(s): 2 
Gene Names: PTPN1PTP1B
UniProt & NIH Common Fund Data Resources
Find proteins for P18031 (Homo sapiens)
Explore P18031 
Go to UniProtKB:  P18031
PHAROS:  P18031
GTEx:  ENSG00000196396 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP18031
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on TRS

Download Ideal Coordinates CCD File 
B [auth A],
C [auth A]
C4 H12 N O3
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 89.538α = 90
b = 89.538β = 90
c = 106.144γ = 120
Software Package:
Software NamePurpose
DIALSdata reduction
Aimlessdata scaling
PHENIXmodel building

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Other privateUnited StatesSearle Scholars Program (SSP-2018-3240)
Other privateUnited StatesGeorge W. Merck Fund in the New York Community Trust (338034)
National Science Foundation (NSF, United States)United StatesDGE1745303

Revision History  (Full details and data files)

  • Version 1.0: 2021-07-28
    Type: Initial release
  • Version 1.1: 2021-08-11
    Changes: Database references
  • Version 1.2: 2022-08-03
    Changes: Database references
  • Version 1.3: 2022-08-17
    Changes: Database references
  • Version 1.4: 2024-05-22
    Changes: Data collection