A novel protein complex that interacts with the vitamin D3 receptor in ...
The HGF/SF-MET receptor complex a complex interaction
Transcript of The HGF/SF-MET receptor complex a complex interaction
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20/01/2020 Basic and Translational Oncology course 1
The HGF/SF-MET receptor complex
a complex interaction
by Hugo de Jonge
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Acknowledgements
University of Pavia
Department of Molecular MedicineUnit of Immunology and General Pathology
• Prof Ermanno Gherardi• Dr Luisa Iamele• current and past students
Leiden Medical Centre (LUMC), The Netherlands• Dr Cornelis Sier
Many people from former labin Cambridge, UK
x
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The HGF/SF-MET signalling complex – a complex interaction
The importance of being able to “see” a tumour-related protein in
(developing) a treatment
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Let’s get interactive
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The discovery of a new protein
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Both the SAME protein!
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control scatter factor (SF) HGF
competition on cells receptor pull down
con
tro
l
+ h
ep
arin
+ ex
cess
SF
+ ex
cess
HG
F
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Why did it take so long?
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Demonstrating protein function: the “knock-out” mouse
delete HGF/SF inembryonic stem cells
inject into blastocyst
X
mouse with “knocked-out” HGF/SF gene
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The importance of HGF/SF during embryogenesis
placenta liver myogenesis
• Schmidt C, Bladt F, Goedecke S, Brinkmann V, Zschiesche W, Sharpe M, Gherardi E, Birchmeier C. Nature. 1995 373, 699-702• Uehara Y, Minowa O, Mori C, Shiota K, Kuno J, Noda T, Kitamura N. Nature. 1995 373, 702-705• Bladt F, Riethmacher D, Isenmann S, Aguzzi A, Birchmeier C. Nature. 1995 376, 768-771• Huh CG, Factor VM, Sánchez A, Uchida K, Conner EA, Thorgeirsson SS. PNAS 2004 101 4477-4482
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What about HGF/SF in adult life?
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Tissue and organ regeneration after injury
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CancerRegeneration
proliferation
anti-apoptotic
motility/migration
angiogenic
morphogenic
differentiation
How?
I NEED THAT !
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https://resources.vai.org/Met/Index.aspx
Category Cancer TypeCarcinomas Bladder
BreastCervicalCholangiocarcinomaColorectalEndometrialEsophogealGastricHead and NeckKidneyLiverLungNasopharyngealOvarianPancreas/Gall BladderProstateThyroid
Musculoskeletal sarcomas OsteosarcomaRhabdomyosarcomaSynovial Sarcoma
Soft tissue sarcomas Kaposi's SarcomaLeiomyosarcomaMFH/Fibrosarcoma
Hematopoietic Malignancies Acute Myelogenous LeukemiaAdult T Cell LeukemiaChronic Myeloid LeukemiaLymphomasMultiple Myeloma
Other Neoplasms Glioblastomas/AstrocytomasMelanomaMesotheliomaWilms' Tumor
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Thousands of papers on HGF/SF in cancer
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Every signal needs an antenna; a receptor
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The “antenna“ for HGF/SF
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Science 15 Feb 1991:Vol. 251, Issue 4995, pp. 802-804
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The main players
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HGF/SF
MET receptor
outside
inside
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CancerRegeneration
like you not I do
Using this knowledge wisely
fight me if you dare
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How does it work?
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outside
inside
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Requirements to investigate how it works
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KINIg4Ig3Ig2Ig1CRSEMA TM
Ig4Ig3Ig2Ig1CRSEMA
Ig3Ig2Ig1CRSEMA
CRSEMA
N K1 K2 K3 K4 SPH
N K1
N K1 K2 N K1 K2 K3 K4
HGF/SF
NK1
NK2
domains
MET
MET928
MET741
MET567
N K1 K2 K3 K4 SPH
NK4
Important: a SOURCE of protein
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Important: a SOURCE of RECOMBINANT protein
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N K1 K2 K3 K4 SPH
Ig4Ig3Ig2Ig1CRSEMA
N K1
K1 K1 X
Bacteria: E. coli BL21, SHuffleT7
Yeast: Pichia pastoris
SOURCE: RECOMBINANT PROTEIN PRODUCTION
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Mammalian cells:CHO, HEK293, NS0
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N K1NK1:
EGQ…CSEVE (protein) = gagggacaa…cagaagttgaa (DNA)
coding sequence
plasmid(DNA)
N K1
N K1
N K1
N K1
N K1
large scale growth
purification
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Example: recombinant protein production of NK1 in yeast
N K1 K2 K3 K4 SPHHGF/SF
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Protein structure (alone and in complex)• x-ray crystallography• small-angle scattering (SAXS)• cryo-electron microscopy
Protein function• mutational screening• biological assays (in vitro)• in vivo studies
• biochemical analysis (e.g. SPR)
Protein engineering• design of ligand-based activators and inhibitors• development of antibodies
Having the proteins allows you work on answers
outside
inside
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Understanding the structure – x-ray diffraction
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100 mm
Requirements:• A lot of very pure protein (many milligrams!)• As many crystallisation conditions as possible (liquid handling robots)• Patience…lots of patience• Luck…lots of luck• Some of the most complex and expensive facilities in the world
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European Synchrotron Radiation Facility (ESRF)
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Supported by 22 countries:13 member countries: France, Germany, Italy, UK, Spain, Switzerland, Belgium, The Netherlands, Denmark, Finland, Norway, Sweden, and Russia
and
9 associate countries: Austria, Portugal, Israel, Poland, Czech Republic, Hungary, Slovakia, India and South Africa
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Using X-rays on protein crystals
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<2.5 Å
N K1Revealing the structure of NK1
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We got “more than we expected”
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NK1 dimer
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The NK1 dimer; biologically relevant?
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NK1 dimer
Inducing a MET receptor dimer?
outside
inside
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NK1 interface mutants
Y124A
N127A
Y124A, N127A
N127A, V140A
Y124A, N127A, V140A
N-K linker region
90°
Asparagine (N) Alanine (A)
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Can interface mutation induce antagonism?
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functional assays and “tools”
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MDCK scatter assay DNA synthesis assay
5-bromo-2’-deoxyuridine (BrdU) incorporation
0
2
4
6
8
10
10^-7 10^-8 10^-9 10^-10
HGF/SF NK1 +N127A
migration assay
cells
0
5
10
10^-7 10^-8 10^-9 10^-10
HGF/SF NK1 +N127A
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HEPES (4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID)
1BHT.pdb
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N K1Also small buffer molecules found bound in structure
rece
pto
r b
ind
ing
site
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chemical compounds library
SPR
1338 compounds
SPR
24 potential compounds
Surface Plasmon Resonance selection of compounds
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Biacore T200 SPRmeasures affinity
between two molecules
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affinity of each compound for NK1
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The effect of each compound on NK1-receptor binding
= MET
= NK1
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buffer flow sample binding dissociation20/01/2020 Basic and Translational Oncology course 36
inhibition of NK1-receptor binding
= MET
= NK1
= MB605
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pMET
tMET
pMET
tMET
HEPES
MB605
MB605 1. no stimulus2. 1 nM NK13. 0.1% DMSO4. 100 mM HEPES + 1 nM NK15. 10 mM HEPES + 1 nM NK16. 1 mM HEPES + 1 nM NK17. 100 mM HEPES + 1 nM NK1
NK1
c-Met
Sigurdardottir et al., Chem. Sci., 2015, 6, 6147
Biological effects of MB605
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1. no stimulus2. 1 nM NK13. 0.1% DMSO4. 100 mM MB605 + 1 nM NK15. 10 mM MB605 + 1 nM NK16. 1 mM MB605 + 1 nM NK17. 100 mM MB605 + 1 nM NK1
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The value of being able to “see” a protein structure
How protein structures at atomic resolution allow the development of biologically active molecules with
potential clinical application.
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KINIg4Ig3Ig2Ig1CRSEMA TM
Ig4Ig3Ig2Ig1CRSEMA
Ig3Ig2Ig1CRSEMA
CRSEMA
N K1 K2 K3 K4 SPH
N K1
N K1 K2
HGF/SF
NK1
NK2
MET
MET928
MET741
MET567
natural occurring splice variants
Larger crystal structures and complexes
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Larger crystal structures and complexes
• difficult to produce (milligrams needed!)
• difficult to keep (unstable)
• difficult to crystalise
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NK1 + Met567HGF/SF + Met567
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But the future has arrived!
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Trends Biochem Sci. 2015 Jan;40(1):49-57
HGF/SF+MET928
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cryo-electron microscopy allows you to SEE a protein
individual particles
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HGF/SF in complex with Met928
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A second type of SEEING a protein:
in the patient
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Ig4Ig3Ig2Ig1CRSEMA
Ig3Ig2Ig1CRSEMA
CRSEMA
N K1 K2 K3 K4 SPHHGF/SF
MET928
MET741
MET567
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Recombinant protein as antigens for antibody production
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(recombinant protein)
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Cornelis Sier
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Seeing MET in tumour biopsies using antibodies
A. Negative to weak staining in normal colorectal tissue
B. Medium positive staining in colorectal cancer tissue
C. Strongly positive staining in colorectal cancer tissue
D. TMA core showing transition of tumour (lower part) to normal (upper part) tissue.
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Natasja de Vries, Bachelor Research Project, Department of Surgery, LUMC
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MET as prognostic and diagnostic factor
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Results Of the 293 patients from nine institutions, 43 (15 %) were HER2 positive, 79 (27 %) were EGFR positive, and 120 (41 %) were c-MET positive. Ten patients (3 %) showed positive co-expression of HER2, EGFR, and c-MET. After a median follow-up time of 58.4 months with 280 deaths, there was no significant difference in overall survival (OS) in terms of HER2 and EGFR status. However, there was a significant difference in OS between c-MET-positive and c-MET-negative patients [median, 11.9 months vs 14.2 months; hazard ratio, 1.31 (95 % Electronic supplementary material The online version of this confidence interval, 1.03–1.67); log-rank P = 0.024].
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Seeing the tumour with fluorescently labelled antibodiesduring operation
Near-infrared fluorophores (NIRF)
• deeper tissue penetration
• reduced auto fluorescence
• excitation wavelength does not affect surgeon’s operation field
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Purdue University, 2011
Surgeon’s normal view Fluorescence-enhanced view
View of localised region in peritoneal cavity of an ovarian cancer patient
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“white stars in a black sky effect”
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“Ovarian cancer is notoriously difficult to see,and this technique allowed surgeons to spot atumour 30 times smaller than the smallest theycould detect using standard techniques.“
"By dramatically improving the detection of thecancer - by literally lighting it up - cancerremoval is dramatically improved."
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The importance of being able to “see” a protein
• Current drug design is rational and based on available highresolution structures and a molecular understanding
• New techniques now allow us to study larger protein complexes ingreater detail
• Detecting the presence or absence of a specific protein in a tumouris essential for diagnosis and prognosis
• The presence or absence of a specific protein in a tumour shouldguide treatment (i.e. personalised medicine)
• Making specific proteins in or on the tumour visible allows moreaccurate surgical removal
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Protein structures in the fight against Cancer
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Single atom (positions)Ångstroms (<nm)
Cells in assaysmicrometres (mm)
Protein complexessub-micrometre (<mm)
Single proteinsNanometres (nm)
Tumour tissuemillimetres to centimetres
(mm - cm)
ESRF Grenoble(0.01 nm – 1 km)