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- EMDB-46580: 48-nm doublet microtubule from Trichomonas vaginalis strain G3 -

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Basic information

Entry
Database: EMDB / ID: EMD-46580
Title48-nm doublet microtubule from Trichomonas vaginalis strain G3
Map data
Sample
  • Complex: doublet microtubule with microtubule inner proteins
    • Protein or peptide: x 2 types
  • Protein or peptide: x 20 types
  • Ligand: x 3 types
Keywordsdoublet microtubule / tubulin / flagella / STRUCTURAL PROTEIN
Function / homology
Function and homology information


cilium-dependent cell motility / regulation of cilium beat frequency involved in ciliary motility / axonemal microtubule / nucleoside-diphosphate kinase / UTP biosynthetic process / CTP biosynthetic process / positive regulation of cell motility / nucleoside diphosphate kinase activity / motile cilium / GTP biosynthetic process ...cilium-dependent cell motility / regulation of cilium beat frequency involved in ciliary motility / axonemal microtubule / nucleoside-diphosphate kinase / UTP biosynthetic process / CTP biosynthetic process / positive regulation of cell motility / nucleoside diphosphate kinase activity / motile cilium / GTP biosynthetic process / mitotic cytokinesis / axoneme / cilium assembly / alpha-tubulin binding / Hsp70 protein binding / mitotic spindle organization / meiotic cell cycle / Hsp90 protein binding / structural constituent of cytoskeleton / microtubule cytoskeleton organization / mitotic spindle / mitotic cell cycle / microtubule / cytoskeleton / calmodulin binding / hydrolase activity / cilium / ciliary basal body / GTPase activity / GTP binding / ATP binding / metal ion binding / nucleus / cytoplasm
Similarity search - Function
: / Echinoderm microtubule-associated protein first beta-propeller / Cilia- and flagella-associated protein 77 / Cilia- and flagella-associated protein 77 / Cilia- and flagella-associated protein 141 / Cilia- and flagella-associated protein 141 / : / : / Meiosis-specific nuclear structural protein 1 / Cilia- and flagella-associated protein 45 ...: / Echinoderm microtubule-associated protein first beta-propeller / Cilia- and flagella-associated protein 77 / Cilia- and flagella-associated protein 77 / Cilia- and flagella-associated protein 141 / Cilia- and flagella-associated protein 141 / : / : / Meiosis-specific nuclear structural protein 1 / Cilia- and flagella-associated protein 45 / NDPK7, second NDPk domain / Cilia- and flagella- associated protein 210 / CFAP53/TCHP / Trichohyalin-plectin-homology domain / Trichohyalin-plectin-homology domain / RIB43A / RIB43A / DM10 domain / EF-hand domain-containing protein EFHC1/EFHC2/EFHB / DM10 domain / DM10 domain profile. / Domains in hypothetical proteins in Drosophila, C. elegans and mammals. Occurs singly in some nucleoside diphosphate kinases. / Enkurin domain / : / Calmodulin-binding / Enkurin domain profile. / : / CFA20 domain / Cilia- and flagella-associated protein 20/CFAP20DC / CFA20 domain / Parkin co-regulated protein / Parkin co-regulated protein / Nucleoside diphosphate kinase, active site / Nucleoside diphosphate kinase (NDPK) active site signature. / Nucleoside diphosphate kinase / Nucleoside diphosphate kinase (NDPK)-like domain profile. / Nucleoside diphosphate kinase-like domain / Nucleoside diphosphate kinase / NDK / Nucleoside diphosphate kinase-like domain superfamily / Quinoprotein alcohol dehydrogenase-like superfamily / Alpha tubulin / Beta tubulin / Tubulin / Tubulin, C-terminal / Tubulin C-terminal domain / Tubulin, conserved site / Tubulin subunits alpha, beta, and gamma signature. / Tubulin/FtsZ family, C-terminal domain / Tubulin/FtsZ-like, C-terminal domain / Tubulin/FtsZ, C-terminal / Tubulin/FtsZ, 2-layer sandwich domain / Tubulin/FtsZ family, GTPase domain / Tubulin/FtsZ family, GTPase domain / Tubulin/FtsZ, GTPase domain / Tubulin/FtsZ, GTPase domain superfamily / EF-hand domain pair / WD domain, G-beta repeat / Armadillo-type fold / WD40 repeat, conserved site / Trp-Asp (WD) repeats signature. / Trp-Asp (WD) repeats profile. / Trp-Asp (WD) repeats circular profile. / WD40 repeats / WD40 repeat / WD40-repeat-containing domain superfamily / WD40/YVTN repeat-like-containing domain superfamily
Similarity search - Domain/homology
Parkin co-regulated protein / Tubulin beta chain / Uncharacterized protein / IQ calmodulin-binding motif family protein / RIIa domain-containing protein / LOC402794 protein, putative / Nucleoside diphosphate kinase / Tubulin alpha chain / Transcription factor 2B, putative / Trichohyalin-plectin-homology domain-containing protein ...Parkin co-regulated protein / Tubulin beta chain / Uncharacterized protein / IQ calmodulin-binding motif family protein / RIIa domain-containing protein / LOC402794 protein, putative / Nucleoside diphosphate kinase / Tubulin alpha chain / Transcription factor 2B, putative / Trichohyalin-plectin-homology domain-containing protein / Parkin co-regulated protein / Cilia- and flagella-associated protein 45 / Uncharacterized protein / Uncharacterized protein / Meiosis-specific nuclear structural protein 1 / Uncharacterized protein / Uncharacterized protein / Cilia- and flagella-associated protein 52 / Flagellar protofilament ribbon protein, putative / Cilia- and flagella-associated protein 53 / EF hand family protein / MGC84469 protein, putative
Similarity search - Component
Biological speciesTrichomonas vaginalis G3 (eukaryote)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.2 Å
AuthorsStevens A / Zhou HZ / Kashyap S / Crofut EJ
Funding support United States, 6 items
OrganizationGrant numberCountry
National Institutes of Health/Office of the Director1S10 OD018111 United States
National Institutes of Health/National Center for Research Resources (NIH/NCRR)1S10 RR23057 United States
National Science Foundation (NSF, United States)DBI-1338135 United States
National Science Foundation (NSF, United States)DMR-1548924 United States
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R01 AI103182 United States
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R33 AI119721 United States
CitationJournal: Nat Commun / Year: 2025
Title: Structures of Native Doublet Microtubules from Trichomonas vaginalis Reveal Parasite-Specific Proteins.
Authors: Alexander Stevens / Saarang Kashyap / Ethan H Crofut / Shuqi E Wang / Katherine A Muratore / Patricia J Johnson / Z Hong Zhou /
Abstract: Doublet microtubules (DMTs) are flagellar components required for the protist Trichomonas vaginalis (Tv) to swim through the human genitourinary tract to cause trichomoniasis, the most common non- ...Doublet microtubules (DMTs) are flagellar components required for the protist Trichomonas vaginalis (Tv) to swim through the human genitourinary tract to cause trichomoniasis, the most common non-viral sexually transmitted disease. Lack of structures of Tv's DMT (Tv-DMT) has prevented structure-guided drug design to manage Tv infection. Here, we determine the 16 nm, 32 nm, 48 nm and 96 nm-repeat structures of native Tv-DMT at resolution ranging from 3.4 to 4.4 Å by cryogenic electron microscopy (cryoEM) and built an atomic model for the entire Tv-DMT. These structures show that Tv-DMT is composed of 30 different proteins, including the α- and β-tubulin, 19 microtubule inner proteins (MIPs) and 9 microtubule outer proteins. While the A-tubule of Tv-DMT is simplistic compared to DMTs of other organisms, the B-tubule of Tv-DMT features parasite-specific proteins, such as TvFAP40 and TvFAP35. Notably, TvFAP40 and TvFAP35 form filaments near the inner and outer junctions, respectively, and interface with stabilizing MIPs. This atomic model of the Tv-DMT highlights diversity of eukaryotic motility machineries and provides a structural framework to inform rational design of therapeutics against trichomoniasis.
History
DepositionAug 13, 2024-
Header (metadata) releaseMay 14, 2025-
Map releaseMay 14, 2025-
UpdateMay 14, 2025-
Current statusMay 14, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_46580.png

Downloads & links

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Map

FileDownload / File: emd_46580.map.gz / Format: CCP4 / Size: 1.5 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.1 Å/pix.
x 959 pix.
= 1054.9 Å		1.1 Å/pix.
x 665 pix.
= 731.5 Å		1.1 Å/pix.
x 652 pix.
= 717.2 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

generated in cubic-lattice coordinate

Voxel sizeX=Y=Z: 1.1 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.128
Minimum - Maximum-0.024034124 - 0.898921
Average (Standard dev.)0.0183751 (±0.031105807)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-12-3-317
Dimensions665652959
Spacing652665959
CellA: 717.2 Å / B: 731.5 Å / C: 1054.9 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : doublet microtubule with microtubule inner proteins

EntireName: doublet microtubule with microtubule inner proteins
Components
  • Complex: doublet microtubule with microtubule inner proteins
    • Protein or peptide: Tubulin beta chain
    • Protein or peptide: Tubulin alpha chain
  • Protein or peptide: FAP21
  • Protein or peptide: IQ calmodulin-binding motif family protein
  • Protein or peptide: Flagellar protofilament ribbon protein, putative
  • Protein or peptide: TvFAP40
  • Protein or peptide: Parkin co-regulated protein
  • Protein or peptide: Cilia- and flagella-associated protein 45
  • Protein or peptide: Cilia- and flagella-associated protein 20
  • Protein or peptide: Cilia- and flagella-associated protein 53
  • Protein or peptide: Trichohyalin-plectin-homology domain-containing protein
  • Protein or peptide: Parkin co-regulated protein
  • Protein or peptide: Enkurin
  • Protein or peptide: FAP77
  • Protein or peptide: EF hand family protein
  • Protein or peptide: Cilia- and flagella-associated protein 52
  • Protein or peptide: Nucleoside diphosphate kinase
  • Protein or peptide: FAP161
  • Protein or peptide: RIIa domain-containing protein
  • Protein or peptide: FAP12
  • Protein or peptide: Meiosis-specific nuclear structural protein 1
  • Protein or peptide: MGC84469 protein, putative
  • Ligand: GUANOSINE-5'-DIPHOSPHATE
  • Ligand: GUANOSINE-5'-TRIPHOSPHATE
  • Ligand: MAGNESIUM ION

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Supramolecule #1: doublet microtubule with microtubule inner proteins

SupramoleculeName: doublet microtubule with microtubule inner proteins / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1, #3 / Details: from T. vaginalis
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote) / Organelle: flagella
Molecular weightTheoretical: 20.1 MDa

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Macromolecule #1: Tubulin beta chain

MacromoleculeName: Tubulin beta chain / type: protein_or_peptide / ID: 1 / Number of copies: 191 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 50.001035 KDa
SequenceString: MVREIVHIQA GQCGNQIGAK FWEVISDEHG IDPTGSYHGD SDLQLERINV YYNEATGGKY VPRAILVDLE PGTMDSVRAG QFGQLFRPD NFVFGQSGAG NNWAKGYYTE GQELCESILD VIRKEAESCD CLQGFQLVHS LGGGTGAGLG TLLLNKLREE Y PDRILSTY ...String:
MVREIVHIQA GQCGNQIGAK FWEVISDEHG IDPTGSYHGD SDLQLERINV YYNEATGGKY VPRAILVDLE PGTMDSVRAG QFGQLFRPD NFVFGQSGAG NNWAKGYYTE GQELCESILD VIRKEAESCD CLQGFQLVHS LGGGTGAGLG TLLLNKLREE Y PDRILSTY SIVPSPKVSD TVVEPYNCTL SVHQLVESAD EVFCIDNEAL YDICFRTLKL TTPTYGDLNH LVSMVMSGTT CA LRFPGQL NSDLRKLAVN LVPFPRLHFF IVGFAPLTSR GSQQYRALTV PELTSQLFDN KNMMAACDPR RGVYLTASAH FRG RMSSKE VDEQMLNIQA RNTSYFVEWI PSNVKSAICD IPPRGLKMAA TFIGNTTAFR ELFTRVDSQF QKMYARRAFI HWYV NEGLE TVEFDEARSN MTDLIQEYEM YETAGVEEQG EGEEDEEGEA AA

UniProtKB: Tubulin beta chain

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Macromolecule #2: FAP21

MacromoleculeName: FAP21 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 43.119344 KDa
SequenceString: MYPRFYTRDV PPAGIKSKQF DGVNGCFQDD VEFKGPNAQL PYRNQRLGEP GVPLHTHGVI DPPLPSNLVF GVSSGSKNFS AADCLKMEP DHETAAHMRF VEAQEKNYER SKAKLGQTRD GVAVIPEELK TRGFGVNTRF GETAGQVIQG TLCDIPNDVT L TPGYQTRR ...String:
MYPRFYTRDV PPAGIKSKQF DGVNGCFQDD VEFKGPNAQL PYRNQRLGEP GVPLHTHGVI DPPLPSNLVF GVSSGSKNFS AADCLKMEP DHETAAHMRF VEAQEKNYER SKAKLGQTRD GVAVIPEELK TRGFGVNTRF GETAGQVIQG TLCDIPNDVT L TPGYQTRR NYDWEKSKIN LRTHTFGIKG EGNIDHLNEV MDMTNTTGGT NLVPLPVDRA DNNQIVPDPD PVEPWTRTTM RT MTADQLH GTRDPAQRPP AGLSTQAIEF TVGDTIRGMG LMDARGPTEA YRDREVPQDM TFGIRTKPNP FPNPLRGPGR YVA LGLSDE DFLLLRDRAH IVPVMVKALA LKEEEANQIF DTVSNRFGRD KISISEFHQE FKMQQSQNSI

UniProtKB: Uncharacterized protein

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Macromolecule #3: Tubulin alpha chain

MacromoleculeName: Tubulin alpha chain / type: protein_or_peptide / ID: 3 / Number of copies: 188 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 50.166504 KDa
SequenceString: MREVISIHVG QAGVQIGNGC WELYCLEHGI QPDGQLPSDK TIGVEDDAFN TFFSETGAGK HVPRAVFVDL EPTVVDEVRT GTYRQLFHP EQLISGKEDA ANNYARGHYT VGKEIIDLTL DRIRKLADQC TGLQGFLIFH SFGGGTGAGF GSLLLERLSV D YGKKSKLE ...String:
MREVISIHVG QAGVQIGNGC WELYCLEHGI QPDGQLPSDK TIGVEDDAFN TFFSETGAGK HVPRAVFVDL EPTVVDEVRT GTYRQLFHP EQLISGKEDA ANNYARGHYT VGKEIIDLTL DRIRKLADQC TGLQGFLIFH SFGGGTGAGF GSLLLERLSV D YGKKSKLE FTVYPSPQVS TAIVEPYNSI LATHSMIDHS DCAFMVDNEA LYDLCRRALD IERPTYTNLN RLIGQVVSSL TA SLRFDGA LNVDFTEFQT NLVPYARIHF PICSYAPVIS AEKAYHEQLS VAEITNSLFE PANMMVKCDP RHGKYMACTL LYR GDVVPK DVSAAVATIK TKRTIQFVDW CPTGFKMGIN YQPPTVVPGG DLAKVQRAVC MLANTTAIAE AWSRLDHKFD LMYA KRAFV HWYVGEGMEE AEFPEAREDL ALLEKDYDEV AAESVEGGDE EEDGGEM

UniProtKB: Tubulin alpha chain

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Macromolecule #4: IQ calmodulin-binding motif family protein

MacromoleculeName: IQ calmodulin-binding motif family protein / type: protein_or_peptide / ID: 4 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 35.48057 KDa
SequenceString: MTQLPNLLRP RVEVPMSTST IHSRALYNPN TVRGTFPKPN RPAAQNPTAE YKTLTRGEHI SAESRVDDIL KGAPLTSIPL ENVNQVIIT LKERKRQATL AGNYHLSQQI VDLIQKINSI VIQRKHAQMK SQEIKALEIQ LQQAENSLKK TIEQWNQKVT D FNRTQSSS ...String:
MTQLPNLLRP RVEVPMSTST IHSRALYNPN TVRGTFPKPN RPAAQNPTAE YKTLTRGEHI SAESRVDDIL KGAPLTSIPL ENVNQVIIT LKERKRQATL AGNYHLSQQI VDLIQKINSI VIQRKHAQMK SQEIKALEIQ LQQAENSLKK TIEQWNQKVT D FNRTQSSS ARRLERTQLT RLQDNDSRPI DELPSSYLKP SPALLDLRER ERHLVLTKRY DEATALHKEG NKMEKIEELE KK RIFLQTQ KRQRQQLLAA QDRDVAGFKE RWMRSADKLN QTMDAEVAQQ QKIVDNIRKK LEDAKKEAL

UniProtKB: IQ calmodulin-binding motif family protein

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Macromolecule #5: Flagellar protofilament ribbon protein, putative

MacromoleculeName: Flagellar protofilament ribbon protein, putative / type: protein_or_peptide / ID: 5 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 46.130445 KDa
SequenceString: MELRQHSQIE QIENAKIERR RREHAERLKR IMDEKNLQMG MDYDALQKQI DEKKARLQAE KEEEEAYNQK FLAEQKLLAK LAAHEQAEL KQIQKDINEF RATRQRPEME REYDLNRKDY IKVQPQMRIT DNDPWLSVSS GLKFDGEDLT AEERLKAQKE Q RERWGKQQ ...String:
MELRQHSQIE QIENAKIERR RREHAERLKR IMDEKNLQMG MDYDALQKQI DEKKARLQAE KEEEEAYNQK FLAEQKLLAK LAAHEQAEL KQIQKDINEF RATRQRPEME REYDLNRKDY IKVQPQMRIT DNDPWLSVSS GLKFDGEDLT AEERLKAQKE Q RERWGKQQ IAEKKNRLAK EREEDKEWER RYLEYNAISR QVGEMEDQAR KEWREECNQE NLRLAAEKRA REEEDRRLDL EL NQYEINS TIDRLNQSQA NDEAAAANGG SFVEGKRGQM DTQAYKGMTP EQIERLKQIQ LQQIEENRKR REAEAEQERI DEE NRKKAA RDALKASRAE ERERKRRLLE NLEENRKMAE SKTMTRSVDD LLEGDKNNWW PFGKSHR

UniProtKB: Flagellar protofilament ribbon protein, putative

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Macromolecule #6: TvFAP40

MacromoleculeName: TvFAP40 / type: protein_or_peptide / ID: 6 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 43.785008 KDa
SequenceString: MRRALRARSL TGSFQTDRDC DDIVESLMRG AKCDTIPPNM TQNVITILTA RRKDALLHGK EATAAKMETL ISELRYGPDK FEIDGTEDP ITTRTRSLVK TRDFSEHDLN PTRKEMAKGK KTAEVPPNVR PKVMPLLKNS RSVKVSRINY ESSDRYDKAM D QLDEYQID ...String:
MRRALRARSL TGSFQTDRDC DDIVESLMRG AKCDTIPPNM TQNVITILTA RRKDALLHGK EATAAKMETL ISELRYGPDK FEIDGTEDP ITTRTRSLVK TRDFSEHDLN PTRKEMAKGK KTAEVPPNVR PKVMPLLKNS RSVKVSRINY ESSDRYDKAM D QLDEYQID SRRLGPRFQR VEAIQRKLDE ARMHYNDVRL QVHTQRQQYE ALEAAAAEEL EEKIAAESLE YGSHVPKSLP LE YSKFSAN ALNLRERQRK AARLRMYDDA DNFSKQALAL EKKQLQAQNE KFVRAFNLNR KYLDKKMVEQ RECFREIWRR KKD KVSRDT TAELRQSKKA IENLEKELAE AQASVAKEMR RIKLNERIGT APVNARPGAL Y

UniProtKB: Uncharacterized protein

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Macromolecule #7: Parkin co-regulated protein

MacromoleculeName: Parkin co-regulated protein / type: protein_or_peptide / ID: 7 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 27.68598 KDa
SequenceString: MSGGKLPRFP VTKPPRAVLH PETEVATREV APVKRQKRSL HKKVSPNQHT EFRRFYDRGD IPVRLVHTTF KNAIAWSVDP SVLDYQHYL PLFFDGLREK EEPYRFFARK GTWELLKNGG TRVLQCIPQV VIPLKKALDT RDMDIVPVAL RTMQKLVKSS E LAGEALIP ...String:
MSGGKLPRFP VTKPPRAVLH PETEVATREV APVKRQKRSL HKKVSPNQHT EFRRFYDRGD IPVRLVHTTF KNAIAWSVDP SVLDYQHYL PLFFDGLREK EEPYRFFARK GTWELLKNGG TRVLQCIPQV VIPLKKALDT RDMDIVPVAL RTMQKLVKSS E LAGEALIP FYRQLLPVLN EFSLCNKNLG DRIEYGQRKK ENIGDLIQET LECLELNGGP EAFINIQYMI PTYQSAKAPG DD E

UniProtKB: Parkin co-regulated protein

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Macromolecule #8: Cilia- and flagella-associated protein 45

MacromoleculeName: Cilia- and flagella-associated protein 45 / type: protein_or_peptide / ID: 8 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 55.181746 KDa
SequenceString: MKTTAHNPKY NTRITSVATN AVIVGRGDWR RVKKEAKHLT PEQRKQIALN DEKTKQEQLL QITKKRENLI DTQTKPEVIT RNLQTLNTF EERDYALQIA DTKADEDLDE VKKINSEMVA AKARTFRDQQ LEIHRQMKED EKAEERSIAD MLEENRQRAK S HYDEREAS ...String:
MKTTAHNPKY NTRITSVATN AVIVGRGDWR RVKKEAKHLT PEQRKQIALN DEKTKQEQLL QITKKRENLI DTQTKPEVIT RNLQTLNTF EERDYALQIA DTKADEDLDE VKKINSEMVA AKARTFRDQQ LEIHRQMKED EKAEERSIAD MLEENRQRAK S HYDEREAS LKEQRRRGRA IIELQIEEHK INSILEAERR DREAKALAIQ NEQIRQEDER IRAEQKARQQ AFLHDCIAME EA LVKRKAE EKRQEQELAQ MTIDYANEKA LKEEARERQI LAQKRLKERE IQEIRSKQQR AIDTKAIRDE MMAQRVQEEQ ARA AAEKEE AEQMAKITAV MKLKKDRADM INSKKLDQLE QQARERREYE MMLEQAETKK QKALADYTAK IEADQKYREE LKQT VELRE LSRKIDPDAK NREKAKMQAE QDAYMQRVER IRQKKLAELE AAGVPEKYRA DIKNLKFKSQ

UniProtKB: Cilia- and flagella-associated protein 45

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Macromolecule #9: Cilia- and flagella-associated protein 20

MacromoleculeName: Cilia- and flagella-associated protein 20 / type: protein_or_peptide / ID: 9 / Number of copies: 8 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 22.837334 KDa
SequenceString: MFRDKYQAGF LNLFYSVGSK PLSIWEQHVE NGYIKRLTDP DIRSCVLEIV STTVNNTYIT CPIDPKEELA IKLPFLVLVL KYLKKYFTF EIQVLDDMNM RRRFRASNFQ SKTRVKPFVC TLPMRLDPGW NQIQFNLSDF TRRAYGTNYI ETLRVSVFAN C RVRRIYFS ...String:
MFRDKYQAGF LNLFYSVGSK PLSIWEQHVE NGYIKRLTDP DIRSCVLEIV STTVNNTYIT CPIDPKEELA IKLPFLVLVL KYLKKYFTF EIQVLDDMNM RRRFRASNFQ SKTRVKPFVC TLPMRLDPGW NQIQFNLSDF TRRAYGTNYI ETLRVSVFAN C RVRRIYFS DRLYTEDEVP PEYRLIPTKP EGEE

UniProtKB: Transcription factor 2B, putative

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Macromolecule #10: Cilia- and flagella-associated protein 53

MacromoleculeName: Cilia- and flagella-associated protein 53 / type: protein_or_peptide / ID: 10 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 57.844656 KDa
SequenceString: MSRPGRSLGL QFLMERRARE EANRFYNEAA AEDNLTRQRA QFEQRTLNRY QGGELRRRAQ ERVKKYQDEL EERRNKLAQL LENEENQYS VEIQNTVETP AKRRDRLKQQ LTALRTRRQE EHDKYVAEKN EQGWRDSCDP LRHQVSEALQ RQVIKERDQQ V IEKELERQ ...String:
MSRPGRSLGL QFLMERRARE EANRFYNEAA AEDNLTRQRA QFEQRTLNRY QGGELRRRAQ ERVKKYQDEL EERRNKLAQL LENEENQYS VEIQNTVETP AKRRDRLKQQ LTALRTRRQE EHDKYVAEKN EQGWRDSCDP LRHQVSEALQ RQVIKERDQQ V IEKELERQ KGDQAEEQYA ATVKENVAKW KEEQANAKDD HRQKLMQNRE TWLAQMNEKS QLVKTQKEQE YKESLEFRTT VE SQIKAAK EAAEKKAQQQ AERRQELDKL NSEQIATRRK IIEDDKALDA KYAAQAAEEL RQQEEDELVE RIVRNRKAEM NRK LFETQL NKKAAEDNRS EMFLQRAQQE ANDRDDELRR KDAEARRKLM LDAVDDRIKT IQLHENEKIK QRQEKLAETK RLEE ELEFE KQIEQEEKEQ RLLRIKNQYE MLQAQSRMKA EREAKEKAED AARVKAMVDG WAAEEERIKK ELANPNLFVG NRFRG NR

UniProtKB: Cilia- and flagella-associated protein 53

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Macromolecule #11: Trichohyalin-plectin-homology domain-containing protein

MacromoleculeName: Trichohyalin-plectin-homology domain-containing protein
type: protein_or_peptide / ID: 11 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 54.623988 KDa
SequenceString: MLKLRTLQNQ KDTIVLSAEE VERIRRLAAV RKPDDSAEIE KTRQLQAHEK TLAVTKGWAN SIANERQARI TFKQREKEKR EQELQELDR QEAQIQKEKK KKVLDEAEQK AFLEKPEIRA VHAQILLHEV VKERQRQIRA KERRKEAEQL REDMEIEEER K MLKEAEEK ...String:
MLKLRTLQNQ KDTIVLSAEE VERIRRLAAV RKPDDSAEIE KTRQLQAHEK TLAVTKGWAN SIANERQARI TFKQREKEKR EQELQELDR QEAQIQKEKK KKVLDEAEQK AFLEKPEIRA VHAQILLHEV VKERQRQIRA KERRKEAEQL REDMEIEEER K MLKEAEEK ETMAYLERRR KNAQAAKEFQ RQAAEASRRK AEDKAREAED EALLAQEAKR LLEEEQLQII KRQQAQREAE KD NKLRNLQ IMEIRARQAE IERAEYERIM KLAEQQMDEE DRRNAAEKKK RQERQAAIDA LIEKEAKNLA EIKAAQNKFE EKQ IGDEFE KDRKRTLELQ AKQERLAAER RQDYLDAIKK IENNKKRAQE KKAVFPMDEE TERQINEGWE LEVKKMNGLK ELAE FQRRQ AQEKKEREAA EREREKLEYM KAIEDEDNKT AEAQEYAKEM LTSIKQRRRH

UniProtKB: Trichohyalin-plectin-homology domain-containing protein

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Macromolecule #12: Parkin co-regulated protein

MacromoleculeName: Parkin co-regulated protein / type: protein_or_peptide / ID: 12 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 27.272264 KDa
SequenceString: MSVERPRLGK TEEQPTVQSR TIKRKKATVT SRGLGMAPKP KPPREFTQFR RFYDRGDLPI SRNYGDEQGP IHWKVSPDLL DYHHYLPVF FDGLRETEEP YWYFAYYGTL DLIAQGPTKI LAVVPQLIIP LKKDLNTREP EILCRCMAVI QALVKADPLI S EALVPYYR ...String:
MSVERPRLGK TEEQPTVQSR TIKRKKATVT SRGLGMAPKP KPPREFTQFR RFYDRGDLPI SRNYGDEQGP IHWKVSPDLL DYHHYLPVF FDGLRETEEP YWYFAYYGTL DLIAQGPTKI LAVVPQLIIP LKKDLNTREP EILCRCMAVI QALVKADPLI S EALVPYYR QILPVFNEFF LDNKNIGDRI EYSQRKHNNL SDLIHETLEE MEKSGGPEAY INIKYMIPSY QSAVAGSA

UniProtKB: Parkin co-regulated protein

+
Macromolecule #13: Enkurin

MacromoleculeName: Enkurin / type: protein_or_peptide / ID: 13 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 28.259299 KDa
SequenceString: MIDEEECIYN LIPKPPPVIV KEPLHKSKFQ DQKQFYTAKK LSHATMGLPP EKLRQPPSQY LKKGERTKKL PPKERVIPKG NEGLTKPPV PKATETIKMK SPTKHNYILE NWKQAPKTKK LHPEKPETWY TDKPEYGQVP AYLDRVKQEA ADEAEYWDNV R ESMVPEDT ...String:
MIDEEECIYN LIPKPPPVIV KEPLHKSKFQ DQKQFYTAKK LSHATMGLPP EKLRQPPSQY LKKGERTKKL PPKERVIPKG NEGLTKPPV PKATETIKMK SPTKHNYILE NWKQAPKTKK LHPEKPETWY TDKPEYGQVP AYLDRVKQEA ADEAEYWDNV R ESMVPEDT ETRCRLLSEE ERIEILNGLY ANLAENKKRY ASLSFGQDNL SFRRKKEEME REAAQLEADI KTFERPNVYI TE N

UniProtKB: LOC402794 protein, putative

+
Macromolecule #14: FAP77

MacromoleculeName: FAP77 / type: protein_or_peptide / ID: 14 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 32.0576 KDa
SequenceString: MEIVPFSDYR PSMSKNVLLV NNPVGGHRPS TYNLPDEDFR YGIRTKKGES VAACFDWPDP PVDRTRRGAT SSASSTVKER SLSPPKTAR RELSSICPPD YDEPKTPKQE RPKAEMMTLV ERTLGAPATS RPLNVKSNRD FISTNKAALD AGCVTARDFR E FKEENYIA ...String:
MEIVPFSDYR PSMSKNVLLV NNPVGGHRPS TYNLPDEDFR YGIRTKKGES VAACFDWPDP PVDRTRRGAT SSASSTVKER SLSPPKTAR RELSSICPPD YDEPKTPKQE RPKAEMMTLV ERTLGAPATS RPLNVKSNRD FISTNKAALD AGCVTARDFR E FKEENYIA KKQKTKTGQL AKEKHEAKVR NMVHGVSTPV VSEIKDCLTY RTLNEALDRA VRTRELQVEK AKAKSARRPT FK KAGRSTR ASRGHTVKPA PPPSEAETFK MKRFKNIDHY KIVDYW

UniProtKB: Uncharacterized protein

+
Macromolecule #15: EF hand family protein

MacromoleculeName: EF hand family protein / type: protein_or_peptide / ID: 15 / Number of copies: 7 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 107.833578 KDa
SequenceString: MIDIDDLLDR LRTDIYQGDV LPEDWFSGFD RLRSGRIFPN EFQRCFTLMR IKLSPEEFNM LVDRYRQGDK VNYKEFCHEI EDIFTNRNL EKAPLETTRN SQEIVSRTIG KLDVNTSVEL DNLMAKLHHQ IKTKGIHLRT AFMDFDKHNN GRITQSQFMR A NPFRDLTS ...String:
MIDIDDLLDR LRTDIYQGDV LPEDWFSGFD RLRSGRIFPN EFQRCFTLMR IKLSPEEFNM LVDRYRQGDK VNYKEFCHEI EDIFTNRNL EKAPLETTRN SQEIVSRTIG KLDVNTSVEL DNLMAKLHHQ IKTKGIHLRT AFMDFDKHNN GRITQSQFMR A NPFRDLTS REIQVLYDRY CDPQLKDFNY RKLNTDLNDY ASMQPTMVER SLTRSLLPHQ EKSLKIKNFD TPQELIIPKF AE HVRKERI CIKDFFQTHD TLRTGRIPVQ KFTGTITLFG YPFTTNDLDY LVSQYSIVVN YTHYIKYLEF CNDVEAEVET QLF PVKSRG IDTSSITPSN PKVDAIVDRL KSQTVRYRIN CLPTLMDFDR IGQGYVTPVQ FHRALTTLGF KVTNEERDEL VKVY EKDNR GVDIYRFIED IDPSHTQKRR EFKPVGVTKE SIIDTYGKAS NGDKFVTQDV ADKLLHESKK GLIPKINEKD NIDDL LIEM HKWCLINSVL FAEFLGQFDT HNNGEITAEH FRTGITISGY KLTDKEFQVL KDYYASETKK DYVKWRQFDK DVKEMT VPL DLEKTPQFNP LTQAELRSTT MRDIKTLTPK VQEIVKEISK FVRKRRLSLI EQFKDFDKLN HKKVNASHFT RILQLIG CY LSKDRIDELC SFYNDPYTKF VDYGKFCADV DEMTGQLFGD SASTTIVSNG FPHYTDRESE YLVSIRSGPA EIPTMDKI M EKLQAHVFKR RVRLLEFFQG FDGLRRGLVP KQKFHTVVSQ AELPLTADEI DLCLEEYADP KSNDLFNYRS FCAKVNEVF GPTELNRTPL TAPVPVRIKP EPSKTIQNLT PQEEQTVNSI LRRMKYVVTT RRMNIRDQFE DYDRKPYKNY ITKQQFRQSI SRLGLSTNR DELDILCKKY KNTDLDEVNY IQFCKDIDP

UniProtKB: EF hand family protein

+
Macromolecule #16: Cilia- and flagella-associated protein 52

MacromoleculeName: Cilia- and flagella-associated protein 52 / type: protein_or_peptide / ID: 16 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 65.743289 KDa
SequenceString: MADELKLCST IGFSGQVAGG LIAHPDNKHI IYPLGSILVV MEKGKAATQR FLTGHTSEIT AIAVSRSGHY IASGQYSAID QESTLILWD FDKMAQVAKW TMHKDSIRCL SFSMSDKYLA SLGGDDRIVI WDVARRAGLN GSTATIGSTG GCNCVGFSNN D DQFFVSAG ...String:
MADELKLCST IGFSGQVAGG LIAHPDNKHI IYPLGSILVV MEKGKAATQR FLTGHTSEIT AIAVSRSGHY IASGQYSAID QESTLILWD FDKMAQVAKW TMHKDSIRCL SFSMSDKYLA SLGGDDRIVI WDVARRAGLN GSTATIGSTG GCNCVGFSNN D DQFFVSAG DTNVRFWRID EERRNFTADN MKLDITKRNV TALSLDANDT YVYCGTTTGD VLKVHCEQKK LITVGPRKPI GE GITALQV TPWGDIAVGS GCGRVAILDA GDLHAITGTD LQGRVTSVSV VPRTNSEILC GTSESDICSI NTDTFKASIL SKG HSSAIS DVFFPERSSD MFLTCSSGGF HVWNSRTYQE LLRVSLARSE CNCIAVPADG KIILTGWSDG RIRGYAPQSG RELW VINGA HLNGVTAIAA RGSFIVTGGM TGDISIWELG AKNMHLVKTL KEHHQMVSQI KFSRDGNEFW SCSHDGSVII WDANR VVSR QRFMQQAFFN GADVHTETGI LVTVSSDKRI VFWDGFNASI IRELEASVNA QPNSICLSPD ETKFVTGGDD KLVKVW GFQ TGQLEALGKG HCGNIKKAIY SPDQSIIVSV GAEGGIYIWK MK

UniProtKB: Cilia- and flagella-associated protein 52

+
Macromolecule #17: Nucleoside diphosphate kinase

MacromoleculeName: Nucleoside diphosphate kinase / type: protein_or_peptide / ID: 17 / Number of copies: 3 / Enantiomer: LEVO / EC number: nucleoside-diphosphate kinase
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 42.253996 KDa
SequenceString: MNSEFPTYSF KLEFYDERAD LVRPYVLMYF THLGEIEIYD LRQKRIFLKK TTNHNVQIKD LYIGNKLLIN GRQYEIIEYQ NEETKNAFD QQSQHTYAML KPGNINRLGE ALERITDYGL VVAKLRYGYI TKETASKFYQ EHVGKPFYDD LIKYITSGPI V AMDLVGPN ...String:
MNSEFPTYSF KLEFYDERAD LVRPYVLMYF THLGEIEIYD LRQKRIFLKK TTNHNVQIKD LYIGNKLLIN GRQYEIIEYQ NEETKNAFD QQSQHTYAML KPGNINRLGE ALERITDYGL VVAKLRYGYI TKETASKFYQ EHVGKPFYDD LIKYITSGPI V AMDLVGPN AIKKWRTIIG PTNLDTAKKE APNSLRALYA RSTTENFAHG SDSPESAARE LQIIFGENAV ELASQCEGST LC IIKPHAI NEGLAGPIIR QIVGEGFTIA GAVMTTLEIP TAGEFLEVYK TVVGDYSDMV SELASGLLIA LELVKDNAVS ELR KLCGPR DVSVAKQIRP QSLRAIFGTD LVHNAVHCTD LEEDAPLEVE YFFVILETE

UniProtKB: Nucleoside diphosphate kinase

+
Macromolecule #18: FAP161

MacromoleculeName: FAP161 / type: protein_or_peptide / ID: 18 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 28.401012 KDa
SequenceString: MQNHYQPTTR IGNWYEEMVL EDEKMREFLE KKAAGTLTIQ RIRQNLVMVQ MPPPQEDGLV HYSTMIRIKN AGLECFLGCD PGDAEHVEE GMYSATGCRT DDVTARNVWV LKQCNNNGAP KETREDDVLC FGDEFLISSS DSLGPNPFYI ASHHLDWSHF S RVSRKQLV ...String:
MQNHYQPTTR IGNWYEEMVL EDEKMREFLE KKAAGTLTIQ RIRQNLVMVQ MPPPQEDGLV HYSTMIRIKN AGLECFLGCD PGDAEHVEE GMYSATGCRT DDVTARNVWV LKQCNNNGAP KETREDDVLC FGDEFLISSS DSLGPNPFYI ASHHLDWSHF S RVSRKQLV YSTEKETPQA IWRVESVGRD TMMEMEGEPV HIGEPVLLKN VTTNLPLIVQ DATFLNDYGS EHELICGKLA DK KGVWTFT DH

UniProtKB: Uncharacterized protein

+
Macromolecule #19: RIIa domain-containing protein

MacromoleculeName: RIIa domain-containing protein / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 8.949297 KDa
SequenceString:
MTRLPPKEAP TKDEKFKNRA ELDKLRIENE RYMKDHPELN AAIQEFVYAV LKRKPDDVRG FAIDFFTRPI QETPK

UniProtKB: RIIa domain-containing protein

+
Macromolecule #20: FAP12

MacromoleculeName: FAP12 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 12.391051 KDa
SequenceString:
MSRQSKPSVP ANIQALIRAN DLHAEAVEQA KINLSKANET KFRESHASFI RNAEVRRNAK LSHQEEVLAH ADLICDRRAR LAAQFAEDK EEWQKELQAR GMTFQKTMI

UniProtKB: Uncharacterized protein

+
Macromolecule #21: Meiosis-specific nuclear structural protein 1

MacromoleculeName: Meiosis-specific nuclear structural protein 1 / type: protein_or_peptide / ID: 21 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 59.697285 KDa
SequenceString: MTQRVTRQMF ERRYEQRARD EAMYSIYQSK IKAEQKDRVQ QETDERSALR RKAARQRVAD EEFAMAEKIY NQQQAYETRM REMQEQDAI AQALAEQTQA EIRDQKYRAL LRENDAEIRE LKSKLQTALI TQTRDKQIKE ADKRRKEEEQ ERIEEEQQMM R NYRREEAA ...String:
MTQRVTRQMF ERRYEQRARD EAMYSIYQSK IKAEQKDRVQ QETDERSALR RKAARQRVAD EEFAMAEKIY NQQQAYETRM REMQEQDAI AQALAEQTQA EIRDQKYRAL LRENDAEIRE LKSKLQTALI TQTRDKQIKE ADKRRKEEEQ ERIEEEQQMM R NYRREEAA RVMEEEAKHA NSLATRAFIQ EQLRDKERRR QLLEVAERKR DEQQVNEIVA RVQREDAERE AAYRQKQAHN FR EMQDFMA ARQAMKERER REQEEEDRKI AEFSMNVDER LRRAQEEQKR RDVAREAIGQ RIARDIQAKQ KEDEEYEQLC LDL AEQQEL QRLQDRERAE AEKIRKQIED CKVFMEQSLK AKAAERERTR IEELKLKQQM VEEQKRLNEL AAVEQENARI KNEK YRREL TRQMLQKREM YEAARAQELK KLQLEQEREN ERQRILNEER RKLVINHILS MGADAVKYLP QGVLKEEDLD YLPEE YRIA ILNTKV

UniProtKB: Meiosis-specific nuclear structural protein 1

+
Macromolecule #22: MGC84469 protein, putative

MacromoleculeName: MGC84469 protein, putative / type: protein_or_peptide / ID: 22 / Number of copies: 7 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis G3 (eukaryote)
Molecular weightTheoretical: 68.197602 KDa
SequenceString: MTLPLLPGHT FPDPTQTRFH KSQALVFENG GMAIHENAPG IGGTLLPGQL PPKEAISSTT IYNQAMGDSN QEGETVPAWV AFGSQVLRF YGYFKEPVFS SQEETYRVRK VKILFFLEDD TIEIVEPRVK NSGIPQGTFL RRHRAKKDDD SYVNVGDFHI G EEFSLYGR ...String:
MTLPLLPGHT FPDPTQTRFH KSQALVFENG GMAIHENAPG IGGTLLPGQL PPKEAISSTT IYNQAMGDSN QEGETVPAWV AFGSQVLRF YGYFKEPVFS SQEETYRVRK VKILFFLEDD TIEIVEPRVK NSGIPQGTFL RRHRAKKDDD SYVNVGDFHI G EEFSLYGR VYFIQEADKF THEFLDKLNR DGRTDETIPD DPYIQKRTLV EYNETHRNRG VPKPEMLKLR QFLANDGHVL RF YATWDNR DRPFGDLRQF VIHYYLSDDT MEVLEVRHQN DGRDPVPSFV KRGQIPKRLL SLSENDPRFL PAENYFRPTD LHI GDDIQI LGRTMHIFDC DPYTRNWYIE NMGYSAEEMS PVAQETVEDK PTQVKFEVPP PSLIGSDEDT LRSCISLHPK PAPK DQVKL LKHSNDILRF KCHMVTRNSV DASRSFILTY FMADDTIQVF EPPARNSGII AGKWLQRTKL TNPDTGKPFQ ASDFE IGKV LTINCSKFQL DEATEYALSF MEADPDSFPQ ADLNRIVTDF RAGLKQSGKD ATDLFKKFAS NNKIDVKGLQ SIFEAI GLS INVHEAITIF RRYSTESKPT SLNIRDYLSF AQ

UniProtKB: MGC84469 protein, putative

+
Macromolecule #23: GUANOSINE-5'-DIPHOSPHATE

MacromoleculeName: GUANOSINE-5'-DIPHOSPHATE / type: ligand / ID: 23 / Number of copies: 191 / Formula: GDP
Molecular weightTheoretical: 443.201 Da
Chemical component information

ChemComp-GDP:
GUANOSINE-5'-DIPHOSPHATE / GDP, energy-carrying molecule*YM

+
Macromolecule #24: GUANOSINE-5'-TRIPHOSPHATE

MacromoleculeName: GUANOSINE-5'-TRIPHOSPHATE / type: ligand / ID: 24 / Number of copies: 188 / Formula: GTP
Molecular weightTheoretical: 523.18 Da
Chemical component information

ChemComp-GTP:
GUANOSINE-5'-TRIPHOSPHATE / GTP, energy-carrying molecule*YM

+
Macromolecule #25: MAGNESIUM ION

MacromoleculeName: MAGNESIUM ION / type: ligand / ID: 25 / Number of copies: 188 / Formula: MG
Molecular weightTheoretical: 24.305 Da

-
Experimental details

-
Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

-
Sample preparation

BufferpH: 7.4
Component:
ConcentrationFormulaName
150.0 mMNaClsodium chloride
50.0 mMC4H11NO3tris
1.0 mMC4H10O2S2dithiothreitol
5.0 mMC10H16N5O13P3adenosine triphosphate

Details: 150 mM NaCl, 50 mM 325 Tris, 2 mM MgCl2, 1 mM DTT, 5 mM ATP 2 x complete protease inhibitor, pH 7.4
GridModel: Quantifoil R2/1 / Material: COPPER / Mesh: 200 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec.
VitrificationCryogen name: ETHANE-PROPANE / Chamber humidity: 100 % / Chamber temperature: 281 K / Instrument: FEI VITROBOT MARK IV

-
Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 45.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsCalibrated defocus max: 2.0 µm / Calibrated defocus min: 1.2 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.2 µm / Nominal magnification: 81000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

+
Image processing

Particle selectionNumber selected: 941307
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: EMDB MAP
EMDB ID:

20631

Final reconstructionNumber classes used: 3 / Applied symmetry - Point group: C1 (asymmetric) / Algorithm: FOURIER SPACE / Resolution.type: BY AUTHOR / Resolution: 4.2 Å / Resolution method: OTHER / Number images used: 409692
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
Final 3D classificationNumber classes: 3 / Avg.num./class: 136564
Details: 3D classification from 16-nm particles (409692 total) into 3 classes

-
Atomic model buiding 1

Initial modelChain - Source name: AlphaFold / Chain - Initial model type: in silico model
RefinementSpace: REAL / Protocol: FLEXIBLE FIT
Output model

PDB-9d5n:
48-nm doublet microtubule from Trichomonas vaginalis strain G3

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