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HKL-3000 specifications


Unique identifier OMICS_29329
Name HKL-3000
Alternative name HKL3000
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Computer skills Medium
Stability Stable
Maintained Yes


No version available


  • person_outline Wladek Minor
  • person_outline HKL-2000 Team
  • person_outline Zbyszek Otwinowski

Publications for HKL-3000

HKL-3000 citations


TP 064, a potent and selective small molecule inhibitor of PRMT4 for multiple myeloma

PMCID: 5915086
PMID: 29719619
DOI: 10.18632/oncotarget.24883
call_split See protocol

[…] 3350, 0.2 M ammonium sulfate, and 0.1 M Tris-HCl (pH 8.5).X-ray diffraction data for PRMT4 + TP-064 were collected at 100 K on a Rigaku FR-E superbright X-ray generator. Data were processed using the HKL-3000 suite []. The structure of PRMT4 + TP-064 was isomorphous to PDB entry 4IKP, which was used as a starting model. REFMAC [] was used for structure refinement. Geometric restraints for compound […]


Structure based function annotation of hypothetical protein MGG_01005 from Magnaporthe oryzae reveals it is the dynein light chain orthologue of dynlt1/3

Sci Rep
PMCID: 5834530
PMID: 29500373
DOI: 10.1038/s41598-018-21667-5
call_split See protocol

[…] e obtained from a solution of 2.0 M ammonium sulphate, 0.1 M Bis-Tris (pH 5.2) at 8 °C.Native and Selenium data were collected at the Shanghai Synchrotron Radiation Facility (SSRF) and processed with HKL-3000. The data collection statistics are summarised in Table . The MGG_01005 structure was solved by single-wavelength anomalous dispersion (SAD) using the Autosol routine of PHENIX. The MGG_01005 […]


A supramolecular lanthanide separation approach based on multivalent cooperative enhancement of metal ion selectivity

Nat Commun
PMCID: 5803205
PMID: 29416023
DOI: 10.1038/s41467-018-02940-7
call_split See protocol

[…] 4L14(ClO4)8 and La4L14(ClO4)12 were carried out at the BL17B macromolecular crystallography beamline in Shanghai Synchrotron Radiation Facility. The collected diffraction data were processed with the HKL 3000 software program. The structures were solved by direct methods and refined by full-matrix least-squares on F2 with anisotropic displacement using the SHELX software package. The crystals diff […]


CCP4i2: the new graphical user interface to the CCP4 program suite

Acta Crystallogr D Struct Biol
PMCID: 5947771
PMID: 29533233
DOI: 10.1107/S2059798317016035

[…] ted use of the suite and provided tools to view files and to track the structure-solution process in a database. Similar graphical interfaces for MX programs include HKL2MAP (Pape & Schneider, 2004), HKL-3000 (Minor et al., 2006) and PHENIX (Echols et al., 2012). A different approach, which provides a graphical view of electron-density maps and models with interactive tools geared mostly to model […]


Structural analysis of group II chitinase (ChtII) catalysis completes the puzzle of chitin hydrolysis in insects

PMCID: 5827449
PMID: 29317504
DOI: 10.1074/jbc.RA117.000119
call_split See protocol

[…] saccharides for 5–30 min before cryoprotection. The diffraction data were collected on BL18U at the Shanghai Synchrotron Radiation Facility in China, and the diffraction data were processed using the HKL-3000 package ().The structures of native OfChtII-C1 and OfChtII-C2 were solved by molecular replacement with Phaser () using the structure of human chitotriosidase (Protein Data Bank entry 1GUV) a […]


The evolution of substrate discrimination in macrolide antibiotic resistance enzymes

Nat Commun
PMCID: 5760710
PMID: 29317655
DOI: 10.1038/s41467-017-02680-0

[…] were collected at the Advanced Photon Source, Argonne National Laboratory, Life Sciences Collaborative Access Team beamlines 21-ID-F or 21-ID-G at the selenium absorption edge. Data was processed by HKL-3000 or XDS and Aimless. SAD structure determination was completed using Phenix.autosol and Molecular Replacement for native structures was compiled using Phenix.phaser. Refinement was completed w […]


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