Bernhard Lohkamp

About me
Publications
Grants
CV
Public outreach and news

About me

Teacher and structural biologist...

Research

My research focuses on the development of methods for (graphical) model building and map interpretation used in structural biology (Coot).

More information about WinCoot: http://bernhardcl.github.io/coot/

Furthermore, I am interested in protein-protein complexes involved in nerve cell development, esp. the axon, as well as its implication in disease and nerve cell repair. Various complexes constituting a variety of proteins (e.g. enzymes, motor proteins) are investigated functionally and structurally.

Teaching

Teaching chemistry and structure biology related subjects.
Course director in Biomedicine Bachelor (General and Organic Chemistry, Chemical Biology) and Master (Frontiers in Biomedicine: Research Project 1) programme.
Teaching crystallography in workshops worldwide.

Articles

Article: BIOMOLECULES. 2023;13(12):1763
The Allosteric Regulation of Β-Ureidopropionase Depends on Fine-Tuned Stability of Active-Site Loops and Subunit Interfaces
Cederfelt D; Badgujar D; Musse AA; Lohkamp B; Danielson UH; Dobritzsch D
Article: ACTA CRYSTALLOGRAPHICA SECTION D: STRUCTURAL BIOLOGY. 2023;79(Pt 6):449-461
The CCP4 suite: integrative software for macromolecular crystallography
Agirre J; Atanasova M; Bagdonas H; Ballard CB; Basle A; Beilsten-Edmands J; Borges RJ; Brown DG; Burgos-Marmol JJ; Berrisford JM; Bond PS; Caballero I; Catapano L; Chojnowski G; Cook AG; Cowtan KD; Croll TI; Debreczeni JE; Devenish NE; Dodson EJ; Drevon TR; Emsley P; Evans G; Evans PR; Fando M; Foadi J; Fuentes-Montero L; Garman EF; Gerstel M; Gildea RJ; Hatti K; Hekkelman ML; Heuser P; Hoh SW; Hough MA; Jenkins HT; Jimenez E; Joosten RP; Keegan RM; Keep N; Krissinel EB; Kolenko P; Kovalevskiy O; Lamzin VS; Lawson DM; Lebedev AA; Leslie AGW; Lohkamp B; Long F; Maly M; McCoy AJ; McNicholas SJ; Medina A; Millan C; Murray JW; Murshudov GN; Nicholls RA; Noble MEM; Oeffner R; Pannu NS; Parkhurst JM; Pearce N; Pereira J; Perrakis A; Powell HR; Read RJ; Rigden DJ; Rochira W; Sammito M; Rodriguez FS; Sheldrick GM; Shelley KL; Simkovic F; Simpkin AJ; Skubak P; Sobolev E; Steiner RA; Stevenson K; Tews I; Thomas JMH; Thorn A; Trivino Valls J; Uski V; Uson I; Vagin A; Velankar S; Vollmar M; Walden H; Waterman D; Wilson KS; Winn MD; Winter G; Wojdyr M; Yamashita K
Article: ACTA CRYSTALLOGRAPHICA SECTION D: STRUCTURAL BIOLOGY. 2022;78(Pt 9):1079-1089
CCP4 Cloud for structure determination and project management in macromolecular crystallograpny
Krissinel E; Lebedev AA; Uski V; Ballard CB; Keegan RM; Kovalevskiy O; Nicholls RA; Pannu NS; Skubak P; Berrisford J; Fando M; Lohkamp B; Wojdyr M; Simpkin AJ; Thomas JMH; Oliver C; Vonrhein C; Chojnowski G; Basle A; Purkiss A; Isupov MN; McNicholas S; Lowe E; Trivino J; Cowtan K; Agirre J; Rigden DJ; Uson I; Lamzin V; Tews I; Bricogne G; Leslie AGW; Brown DG
Article: AMERICAN JOURNAL OF HUMAN GENETICS. 2021;108(5):951-961
Missense variants in DPYSL5 cause a neurodevelopmental disorder with corpus callosum agenesis and cerebellar abnormalities
Jeanne M; Demory H; Moutal A; Vuillaume M-L; Blesson S; Thepault R-A; Marouillat S; Halewa J; Maas SM; Motazacker MM; Mancini GMS; van Slegtenhorst MA; Andreou A; Cox H; Vogt J; Laufman J; Kostandyan N; Babikyan D; Hancarova M; Bendova S; Sedlacek Z; Aldinger KA; Sherr EH; Argilli E; England EM; Audebert-Bellanger S; Bonneau D; Colin E; Denomme-Pichon A-S; Gilbert-Dussardier B; Isidor B; Kury S; Odent S; Redon R; Khanna R; Dobyns WB; Bezieau S; Honnorat J; Lohkamp B; Toutain A; Laumonnier F
Article: PROTEIN SCIENCE. 2020;29(4):1069-1078
Current developments in Coot for macromolecular model building of Electron Cryo-microscopy and Crystallographic Data
Casanal A; Lohkamp B; Emsley P
Article: BIOCHEMICAL JOURNAL. 2018;475(14):2395-2416
Crystal structure and pH-dependent allosteric regulation of human β-ureidopropionase, an enzyme involved in anticancer drug metabolism
Maurer D; Lohkamp B; Krumpel M; Widersten M; Dobritzsch D
Article: JOURNAL OF PHYSICAL CHEMISTRY LETTERS. 2018;9(14):4082-4086
Mass Spectrometry Reveals the Direct Action of a Chemical Chaperone
Gault J; Lianoudaki D; Kaldmae M; Kronqvist N; Rising A; Johansson J; Lohkamp B; Lain S; Allison TM; Lane DP; Marklund EG; Landreh M
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2017;114(14):3637-3641
Ab initio solution of macromolecular crystal structures without direct methods
McCoy AJ; Oeffner RD; Wrobel AG; Ojala JRM; Tryggvason K; Lohkamp B; Read RJ
Article: PLOS ONE. 2015;10(3):e0121494
Crystal Structures of the Kinase Domain of the Sulfate-Activating Complex in Mycobacterium tuberculosis
Poyraz O; Brunner K; Lohkamp B; Axelsson H; Hammarstrom LGJ; Schnell R; Schneider G
Article: ACTA CRYSTALLOGRAPHICA SECTION D: BIOLOGICAL CRYSTALLOGRAPHY. 2014;70(Pt 6):1680-1694
Crystal structure of human CRMP-4: correction of intensities for lattice-translocation disorder
Ponnusamy R; Lebedev AA; Pahlow S; Lohkamp B
Article: JOURNAL OF NEUROCHEMISTRY. 2013;125(6):855-868
Insights into the oligomerization of CRMPs: crystal structure of human collapsin response mediator protein 5
Ponnusamy R; Lohkamp B
Journal article: TIJDSCHRIFT VOOR KINDERGENEESKUNDE. 2013;81(Suppl 1):73-74
β-Ureidopropionase deficiency: phenotype, genotype and protein structural consequences in 16 patients
van Kuilenburg ABP; Dobritzsch D; Meijer J; Krumpel M; Selim LA; Rashed MS; Assmann B; Meinsma R; Lohkamp B; Ito T; Abeling NGGM; Saito K; Eto K; Smitka M; Engvall M; Zhang C; Xu W; Zoetekouw L; Hennekam RCM
Article: PEDIATRIC NEPHROLOGY. 2013;28(2):339-343
Novel INF2 mutation p. L77P in a family with glomerulopathy and Charcot-Marie-Tooth neuropathy
Rodriguez PQ; Lohkamp B; Celsi G; Mache CJ; Auer-Grumbach M; Wernerson A; Hamajima N; Tryggvason K; Patrakka J
Article: PLOS ONE. 2013;8(6):e66936
Substrate Channel Flexibility in Pseudomonas aeruginosa MurB Accommodates Two Distinct Substrates
Chen MW; Lohkamp B; Schnell R; Lescar J; Schneider G
Article: BIOCHIMICA ET BIOPHYSICA ACTA: INTERNATIONAL JOURNAL OF BIOCHEMISTRY AND BIOPHYSICS. 2012;1822(7):1096-1108
β-Ureidopropionase deficiency: Phenotype, genotype and protein structural consequences in 16 patients
van Kuilenburg ABP; Dobritzsch D; Meijer J; Krumpel M; Selim LA; Rashed MS; Assmann B; Meinsma R; Lohkamp B; Ito T; Abeling NGGM; Saito K; Eto K; Smitka M; Engvall M; Zhang C; Xu W; Zoetekouw L; Hennekam RCM
Article: BIOCHIMICA ET BIOPHYSICA ACTA: INTERNATIONAL JOURNAL OF BIOCHEMISTRY AND BIOPHYSICS. 2010;1804(12):2198-2206
Insights into the mechanism of dihydropyrimidine dehydrogenase from site-directed mutagenesis targeting the active site loop and redox cofactor coordination
Lohkamp B; Voevodskaya N; Lindqvist Y; Dobritzsch D
Article: ACTA CRYSTALLOGRAPHICA SECTION D: BIOLOGICAL CRYSTALLOGRAPHY. 2010;66(Pt 4):486-501
Features and development of Coot
Emsley P; Lohkamp B; Scott WG; Cowtan K
Article: JOURNAL OF MOLECULAR BIOLOGY. 2008;377(5):1544-1559
The crystal structure of β-alanine synthase from Drosophila melanogaster reveals a homooctameric helical turn-like assembly
Lundgren S; Lohkamp B; Andersen B; Piskur J; Dobritzsch D
Article: ACTA CRYSTALLOGRAPHICA SECTION D: BIOLOGICAL CRYSTALLOGRAPHY. 2008;64(Pt 4):407-415
A mixture of fortunes:: the curious determination of the structure of Escherichia coli BL21 Gab protein
Lohkamp B; Dobritzsch D
Article: MOLECULAR GENETICS AND METABOLISM. 2007;91(2):157-164
Clinical, biochemical and genetic findings in two siblings with a dihydropyrimidinase deficiency
van Kuilenburg ABP; Meijer J; Dobritzsch D; Meinsma R; Duran M; Lohkamp B; Zoetekouw L; Abeling NGGM; van Tinteren HLG; Bosch AM
Article: JOURNAL OF MOLECULAR BIOLOGY. 2006;362(3):555-566
Three-dimensional structure of iminodisuccinate epimerase defines the fold of the MmgE/PrpD protein family
Lohkamp B; Baeuerle B; Rieger P-G; Schneider G
Article: JOURNAL OF STRUCTURAL BIOLOGY. 2006;155(1):111-113
Application of a new vector system for efficient protein purification in the crystallization of PA5104/ORF from Pseudomonas aeruginosa
Lohkamp B; Paterson NG; Lapthorn AJ
Article: JOURNAL OF MOLECULAR BIOLOGY. 2006;359(3):728-740
Crystal structures of SnoaL2 and AcIR:: Two putative hydroxylases in the biosynthesis of aromatic polyketide antibiotics
Beinker P; Lohkamp B; Peltonen T; Niemi J; Mantsala P; Schneider G
Article: JOURNAL OF BIOLOGICAL CHEMISTRY. 2006;281(19):13762-13776
The crystal structures of dihydropyrimidinases reaffirm the close relationship between cyclic amidohydrolases and explain their substrate specificity
Lohkamp B; Andersen B; Piskur J; Dobritzsch D
Article: ACTA CRYSTALLOGRAPHICA SECTION F: STRUCTURAL BIOLOGY AND CRYSTALLIZATION COMMUNICATIONS. 2006;62(Pt 1):36-38
Purification, crystallization and X-ray diffraction analysis of dihydropyrimidinase from Dictyostelium discoideum
Lohkamp B; Andersen B; Piskur J; Dobritzsch D
Article: JOURNAL OF MOLECULAR BIOLOGY. 2004;336(1):131-144
The structure of Escherichia coli ATP-phosphoribosyltransferase:: Identification of substrate binding sites and mode of AMP inhibition
Lohkamp B; McDermott G; Campbell SA; Coggins JR; Lapthorn AJ
Article: JOURNAL OF BIOLOGICAL CHEMISTRY. 2001;276(23):19954-19958
The allosteric effector L-lactate induces a conformational change of 2x6-meric lobster hemocyanin in the oxy state as revealed by small angle x-ray scattering
Hartmann H; Lohkamp B; Hellmann N; Decker H
Article: ACTA CRYSTALLOGRAPHICA SECTION D: BIOLOGICAL CRYSTALLOGRAPHY. 2000;56(Pt 11):1488-1491
Purification, crystallization and preliminary X-ray crystallographic analysis of ATP-phosphoribosyltransferase from Escherichia coli
Lohkamp B; Coggins JR; Lapthorn AJ
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All other publications

Corrigendum: PLOS ONE. 2015;10(4):e0127016
Crystal Structures of the Kinase Domain of the Sulfate-Activating Complex in Mycobacterium tuberculosis (vol 10, e0121494, 2015)
Poyraz O; Brunner K; Lohkamp B; Axelsson H; Hammarstroem LGJ; Schnell R
Book chapter: 2012;p. 443-447
Macromolecular model building and validation using Coot
Emsley P; Lohkamp B; Cowtan K
Published conference paper: NUCLEOSIDES, NUCLEOTIDES AND NUCLEIC ACIDS. 2008;27(6-7):809-815
Identification of two novel mutations C79X and R235Q in the dihydropyrimidine dehydrogenase gene in a patient presenting with hematuria
van Kuilenburg ABP; Meijer J; Dobritzsch D; Lohkamp B; Ruitenbeek W; Roelofsen J; Abeling NGGM; Duran M; Buzing C

Grants

Pushing the limits: Getting more information out of macromolecular structures
Swedish Research Council
1 January 2013 - 31 December 2014
Structural studies on the enzymes of histidine biosynthesis from pathogenic organisms.
Wellcome Trust
1 October 1999 - 30 September 2002

Employments

Senior Lecturer, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, 2019-

Degrees and Education

Docent, Karolinska Institutet, 2014

About me

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