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- EMDB-49130: Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by... -

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Basic information

Entry
Database: EMDB / ID: EMD-49130
TitleStabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by potent mAbs
Map dataStabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by potent mAbs
Sample
  • Complex: Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by four potent mAbs
    • Protein or peptide: RUPA-97 Fab Heavy chain
    • Protein or peptide: RUPA-97 Fab Kappa chain
    • Protein or peptide: RUPA-44 Fab Heavy chain
    • Protein or peptide: RUPA-44 Fab Kappa chain
    • Protein or peptide: TB31F Fab Heavy chain
    • Protein or peptide: TB31F Fab Lambda chain
    • Protein or peptide: LMIV230-01 Fab Heavy chain
    • Protein or peptide: LMIV230-01 Fab Kappa chain
    • Protein or peptide: Gametocyte surface protein P230,Gametocyte surface protein P45/48
KeywordsPfs230 / Pfs48/45 / structure-based immunogen design / human transmission-blocking antibodies / Malaria / IMMUNE SYSTEM
Function / homology
Function and homology information


side of membrane / cell surface / plasma membrane
Similarity search - Function
: / 6-Cysteine (6-Cys) domain / 6-Cysteine (6-Cys) domain superfamily / Sexual stage antigen s48/45 domain / 6-Cysteine (6-Cys) domain profile. / Sexual stage antigen s48/45 domain
Similarity search - Domain/homology
Gametocyte surface protein P230 / Gametocyte surface protein P45/48
Similarity search - Component
Biological speciesHomo sapiens (human) / Rattus (rats) / Plasmodium falciparum (malaria parasite P. falciparum)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.22 Å
AuthorsHailemariam S / Ivanochko D / Julien JP
Funding support United States, Canada, 3 items
OrganizationGrant numberCountry
Bill & Melinda Gates Foundation-Gates Foundation (INV-008866 and OPP1156262) -National Institutes of Health grant (1R01AI148557-01A1) -Canadian Institutes for Health Research grant (428410) United States
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)1R01AI148557-01A1 United States
Canadian Institutes of Health Research (CIHR)428410 Canada
CitationJournal: To Be Published
Title: Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by potent mAbs
Authors: Ivanochko D / Hailemariam S / Julien JP
History
DepositionFeb 8, 2025-
Header (metadata) releaseFeb 4, 2026-
Map releaseFeb 4, 2026-
UpdateFeb 4, 2026-
Current statusFeb 4, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_49130.png

Downloads & links

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Map

FileDownload / File: emd_49130.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationStabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by potent mAbs
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.93 Å/pix.
x 360 pix.
= 334.8 Å		0.93 Å/pix.
x 360 pix.
= 334.8 Å		0.93 Å/pix.
x 360 pix.
= 334.8 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.93 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.2
Minimum - Maximum-0.77941453 - 1.2272178
Average (Standard dev.)-0.00029688812 (±0.024925452)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions360360360
Spacing360360360
CellA=B=C: 334.8 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_49130_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Half Map A

Fileemd_49130_half_map_1.map
AnnotationHalf Map A
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Half Map B

Fileemd_49130_half_map_2.map
AnnotationHalf Map B
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by...

EntireName: Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by four potent mAbs
Components
  • Complex: Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by four potent mAbs
    • Protein or peptide: RUPA-97 Fab Heavy chain
    • Protein or peptide: RUPA-97 Fab Kappa chain
    • Protein or peptide: RUPA-44 Fab Heavy chain
    • Protein or peptide: RUPA-44 Fab Kappa chain
    • Protein or peptide: TB31F Fab Heavy chain
    • Protein or peptide: TB31F Fab Lambda chain
    • Protein or peptide: LMIV230-01 Fab Heavy chain
    • Protein or peptide: LMIV230-01 Fab Kappa chain
    • Protein or peptide: Gametocyte surface protein P230,Gametocyte surface protein P45/48

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Supramolecule #1: Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by...

SupramoleculeName: Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by four potent mAbs
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: RUPA-97 Fab Heavy chain

MacromoleculeName: RUPA-97 Fab Heavy chain / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 24.074934 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: EVQLVENGGG LVKPGGSLRL SCAASGFTIS SYGMNWVRQA PGKGLEWVSS ISSGSTYKYY SDSVKGRFTI SRDNAKNSLY LQMNTLRAE DTAVYYCARA PEPGLTWFGE WGDYWGQGTL VTVSSASTKG PSVFPLAPSS KSTSGGTAAL GCLVKDYFPE P VTVSWNSG ...String:
EVQLVENGGG LVKPGGSLRL SCAASGFTIS SYGMNWVRQA PGKGLEWVSS ISSGSTYKYY SDSVKGRFTI SRDNAKNSLY LQMNTLRAE DTAVYYCARA PEPGLTWFGE WGDYWGQGTL VTVSSASTKG PSVFPLAPSS KSTSGGTAAL GCLVKDYFPE P VTVSWNSG ALTSGVHTFP AVLQSSGLYS LSSVVTVPSS SLGTQTYICN VNHKPSNTKV DKKVEPKSC

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Macromolecule #2: RUPA-97 Fab Kappa chain

MacromoleculeName: RUPA-97 Fab Kappa chain / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.511209 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: EIVLTQSPVT LSLSPGERAT LSCRASLSIS SSLAWYQQKP GQAPRLLIYD ASNRATGIPA RFSGSGSGTD FTLTISSLEP EDFAVYYCQ QRSIWPPITF GQGTRLEIKR TVAAPSVFIF PPSDEQLKSG TASVVCLLNN FYPREAKVQW KVDNALQSGN S QESVTEQD ...String:
EIVLTQSPVT LSLSPGERAT LSCRASLSIS SSLAWYQQKP GQAPRLLIYD ASNRATGIPA RFSGSGSGTD FTLTISSLEP EDFAVYYCQ QRSIWPPITF GQGTRLEIKR TVAAPSVFIF PPSDEQLKSG TASVVCLLNN FYPREAKVQW KVDNALQSGN S QESVTEQD SKDSTYSLSS TLTLSKADYE KHKVYACEVT HQGLSSPVTK SFNRGEC

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Macromolecule #3: RUPA-44 Fab Heavy chain

MacromoleculeName: RUPA-44 Fab Heavy chain / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 24.277332 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: QLQLQESGPG LVKPSETLSL TCTVSGGSIS RSPYYWGWIR QPPGKGLEWF GSIYNNGSTY YNPPLKSRLT ISVDTSKNQF SLKLSSVTA ADTAVYYCAR HGGSTGMKVV VIAPPDYWGQ GTLVTVSSAS TKGPSVFPLA PSSKSTSGGT AALGCLVKDY F PEPVTVSW ...String:
QLQLQESGPG LVKPSETLSL TCTVSGGSIS RSPYYWGWIR QPPGKGLEWF GSIYNNGSTY YNPPLKSRLT ISVDTSKNQF SLKLSSVTA ADTAVYYCAR HGGSTGMKVV VIAPPDYWGQ GTLVTVSSAS TKGPSVFPLA PSSKSTSGGT AALGCLVKDY F PEPVTVSW NSGALTSGVH TFPAVLQSSG LYSLSSVVTV PSSSLGTQTY ICNVNHKPSN TKVDKKVEPK SC

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Macromolecule #4: RUPA-44 Fab Kappa chain

MacromoleculeName: RUPA-44 Fab Kappa chain / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.483105 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: DIQMTQSPAT LSASVGDRVT ITCRASQSIS SWLAWYQQKP GEAPKLLIYK ASSLQSGVPS RFSGSGSGTK FSLTISSLQP DDFATFYCQ QYHSYPYTFG QGTKLEIKRT VAAPSVFIFP PSDEQLKSGT ASVVCLLNNF YPREAKVQWK VDNALQSGNS Q ESVTEQDS ...String:
DIQMTQSPAT LSASVGDRVT ITCRASQSIS SWLAWYQQKP GEAPKLLIYK ASSLQSGVPS RFSGSGSGTK FSLTISSLQP DDFATFYCQ QYHSYPYTFG QGTKLEIKRT VAAPSVFIFP PSDEQLKSGT ASVVCLLNNF YPREAKVQWK VDNALQSGNS Q ESVTEQDS KDSTYSLSST LTLSKADYEK HKVYACEVTH QGLSSPVTKS FNRGEC

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Macromolecule #5: TB31F Fab Heavy chain

MacromoleculeName: TB31F Fab Heavy chain / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus (rats)
Molecular weightTheoretical: 23.841736 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: EVQLVQSGGG LVQPGGSLRL SCAASGFTFN NYWMSWVRQA PGKGLEWVSS ISNIGGTIYY PDSVKGRFTI SRDNSKNTLY LQMNSLRAE DTAVYYCTRD LRMSDYFDYW GQGTMVTVSS ASTKGPSVFP LAPSSKSTSG GTAALGCLVK DYFPEPVTVS W NSGALTSG ...String:
EVQLVQSGGG LVQPGGSLRL SCAASGFTFN NYWMSWVRQA PGKGLEWVSS ISNIGGTIYY PDSVKGRFTI SRDNSKNTLY LQMNSLRAE DTAVYYCTRD LRMSDYFDYW GQGTMVTVSS ASTKGPSVFP LAPSSKSTSG GTAALGCLVK DYFPEPVTVS W NSGALTSG VHTFPAVLQS SGLYSLSSVV TVPSSSLGTQ TYICNVNHKP SNTKVDKKVE PKSC

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Macromolecule #6: TB31F Fab Lambda chain

MacromoleculeName: TB31F Fab Lambda chain / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus (rats)
Molecular weightTheoretical: 23.256627 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: NFMLTQPHSV SESPGKTVTI SCTRSTGNIG SNYVSWYQQR PGSSPTTVIY RDDQRPSGVP DRFSGSIDRS SNSASLTISG LKTEDEADY YCHSYSTGMY IFGGGTKLTV LGQPKAAPSV TLFPPSSEEL QANKATLVCL ISDFYPGAVT VAWKADSSPV K AGVETTTP ...String:
NFMLTQPHSV SESPGKTVTI SCTRSTGNIG SNYVSWYQQR PGSSPTTVIY RDDQRPSGVP DRFSGSIDRS SNSASLTISG LKTEDEADY YCHSYSTGMY IFGGGTKLTV LGQPKAAPSV TLFPPSSEEL QANKATLVCL ISDFYPGAVT VAWKADSSPV K AGVETTTP SKQSNNKYAA SSYLSLTPEQ WKSHRSYSCQ VTHEGSTVEK TVAPTECS

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Macromolecule #7: LMIV230-01 Fab Heavy chain

MacromoleculeName: LMIV230-01 Fab Heavy chain / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.340297 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: QVQLVQSGAE VKKPGSSVKV SCKVSGGTFN TYAIIWVRQA PGQGLEWMGA IIPFQDRGQY AQKFQGRVTI TADKSTSTAY MELSSLRSE DTAVYYCAKE SGRAVADRWG QGTLVTVSSA STKGPSVFPL APSSKSTSGG TAALGCLVKD YFPEPVTVSW N SGALTSGV ...String:
QVQLVQSGAE VKKPGSSVKV SCKVSGGTFN TYAIIWVRQA PGQGLEWMGA IIPFQDRGQY AQKFQGRVTI TADKSTSTAY MELSSLRSE DTAVYYCAKE SGRAVADRWG QGTLVTVSSA STKGPSVFPL APSSKSTSGG TAALGCLVKD YFPEPVTVSW N SGALTSGV HTFPAVLQSS GLYSLSSVVT VPSSSLGTQT YICNVNHKPS NTKVDKKVEP KSC

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Macromolecule #8: LMIV230-01 Fab Kappa chain

MacromoleculeName: LMIV230-01 Fab Kappa chain / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.754551 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: DIVMTQSPAS LALSLGERAT LYCRASHSIS SWLAWYQQKP GKAPKLLIYK ASTLESGVPS RFSGSGSGTE FTLTISSLQP DDFATYYCQ QYKSYPWTFG QGTKLEIKRR TVAAPSVFIF PPSDEQLKSG TASVVCLLNN FYPREAKVQW KVDNALQSGN S QESVTEQD ...String:
DIVMTQSPAS LALSLGERAT LYCRASHSIS SWLAWYQQKP GKAPKLLIYK ASTLESGVPS RFSGSGSGTE FTLTISSLQP DDFATYYCQ QYKSYPWTFG QGTKLEIKRR TVAAPSVFIF PPSDEQLKSG TASVVCLLNN FYPREAKVQW KVDNALQSGN S QESVTEQD SKDSTYSLSS TLTLSKADYE KHKVYACEVT HQGLSSPVTK SFNRGEC

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Macromolecule #9: Gametocyte surface protein P230,Gametocyte surface protein P45/48

MacromoleculeName: Gametocyte surface protein P230,Gametocyte surface protein P45/48
type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Plasmodium falciparum (malaria parasite P. falciparum)
Molecular weightTheoretical: 36.844469 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: ETGVGVDELD KIDLSYETTE SGDTAVSEDS YDKYASQNTN KEYVCDFTDQ LKPTESGPKV KKCEVKVNEP NIKVKIICPL KGSVEKLYD NIEYVPKKSP YVVLTKEETK LKEKLLSKLI KGLKISPTVN EKENNFKEGV IEFTLPPVVT KATVFYFICD N SKTEDDNK ...String:
ETGVGVDELD KIDLSYETTE SGDTAVSEDS YDKYASQNTN KEYVCDFTDQ LKPTESGPKV KKCEVKVNEP NIKVKIICPL KGSVEKLYD NIEYVPKKSP YVVLTKEETK LKEKLLSKLI KGLKISPTVN EKENNFKEGV IEFTLPPVVT KATVFYFICD N SKTEDDNK KGNRGIVEVY VEPYGKIKGC QFSSNVSSPY KFSDSLDISL VDDSAHISCN VHLSEPTYDV WVGLNCPGDI IP DCFFQVY QPESEELEPS NIVYLDSQIN IGNIEYYEDA IGDDKIKLFY IKGSVPKTTS FTCICKKDKK SAYMTVTIDS AGT KHHHHH H

UniProtKB: Gametocyte surface protein P230, Gametocyte surface protein P45/48

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

Concentration5 mg/mL
BufferpH: 8
Component:
ConcentrationFormulaName
150.0 mMNaClsodium chloride
20.0 mMTris-HClTris
0.13 CMCC24H46O11DDM
GridModel: Homemade / Material: GOLD / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 15 sec.
VitrificationCryogen name: ETHANE / Chamber humidity: 90 % / Chamber temperature: 277 K / Instrument: LEICA EM GP
Details: A Leica Automatic Plunge Freezer EM GP2 was used for sample freezing..
DetailsStabilized tandem antigen chimera of Pfs230 and Pfs48/45, complexed with Fabs RUPA-44, TB31F, LMIV1, and RUPA-97.

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Electron microscopy

MicroscopeTFS KRIOS
Specialist opticsEnergy filter - Name: TFS Selectris X / Energy filter - Slit width: 10 eV
Image recordingFilm or detector model: TFS FALCON 4i (4k x 4k) / Average electron dose: 52.0 e/Å2
Details: Images were collected at average electron doses per image of 50 and 53.7 electrons per square Angstrom during two data collections.
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.3000000000000003 µm / Nominal defocus min: 0.7000000000000001 µm / Nominal magnification: 130000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: cryoSPARC (ver. v4.5.2) / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 3.22 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. v4.5.2) / Number images used: 147546
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC (ver. v4.5.2)
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC (ver. v4.5.2)
FSC plot (resolution estimation)

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Atomic model buiding 1

Initial model
PDB IDChain

6e63

source_name: PDB, initial_model_type: experimental model

7uxl

source_name: PDB, initial_model_type: experimental model

7uvq

source_name: PDB, initial_model_type: experimental model

7ufw

source_name: PDB, initial_model_type: experimental model
Output model

PDB-9n8j:
Stabilized tandem antigen chimera of Pfs230 and Pfs48/45 bound by potent mAbs

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