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- EMDB-15980: IFTA complex in anterograde Intraflagellar transport trains (Chla... -

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Basic information

Entry
Database: EMDB / ID: EMD-15980
TitleIFTA complex in anterograde Intraflagellar transport trains (Chlamydomonas reinhardtii)
Map data
Sample
  • Complex: One IFTA repeat from anterograde intraflagellar transport trains within native Chlamydomonas reinhardtii cilia
    • Protein or peptide: Intraflagellar transport protein 121
    • Protein or peptide: Intraflagellar transport protein 139
    • Protein or peptide: Intraflagellar transport particle protein 140
    • Protein or peptide: Intraflagellar transport protein 144
    • Protein or peptide: Intraflagellar transport protein 122 homolog
KeywordsCilia / IFT / Intraflagellar / transport / PROTEIN TRANSPORT
Function / homology
Function and homology information


intraciliary transport particle A / intraciliary retrograde transport / intraciliary transport / protein localization to cilium / non-motile cilium assembly / non-motile cilium / ciliary plasm / motile cilium / axoneme / cilium assembly ...intraciliary transport particle A / intraciliary retrograde transport / intraciliary transport / protein localization to cilium / non-motile cilium assembly / non-motile cilium / ciliary plasm / motile cilium / axoneme / cilium assembly / RNA processing / ciliary basal body / chloroplast / cilium
Similarity search - Function
Tetratricopeptide repeat protein 21A/21B / WD repeat protein 35 / WDR19, WD40 repeat / WD repeat-containing protein 19/dyf-2 / WD domain, G-beta repeat / Intraflagellar transport protein 122 homolog / Anaphase-promoting complex subunit 4, WD40 domain / Anaphase-promoting complex subunit 4 WD40 domain / HAT (Half-A-TPR) repeat / HAT (Half-A-TPR) repeats ...Tetratricopeptide repeat protein 21A/21B / WD repeat protein 35 / WDR19, WD40 repeat / WD repeat-containing protein 19/dyf-2 / WD domain, G-beta repeat / Intraflagellar transport protein 122 homolog / Anaphase-promoting complex subunit 4, WD40 domain / Anaphase-promoting complex subunit 4 WD40 domain / HAT (Half-A-TPR) repeat / HAT (Half-A-TPR) repeats / Tetratricopeptide repeat / Quinoprotein alcohol dehydrogenase-like superfamily / TPR repeat profile. / Tetratricopeptide repeats / Tetratricopeptide repeat / Tetratricopeptide-like helical domain superfamily / Trp-Asp (WD) repeats profile. / WD domain, G-beta repeat / WD40 repeats / WD40 repeat / WD40-repeat-containing domain superfamily / WD40/YVTN repeat-like-containing domain superfamily
Similarity search - Domain/homology
ANAPC4_WD40 domain-containing protein / Intraflagellar transport protein 121 / Intraflagellar transport protein 139 / Intraflagellar transport protein 144 / Intraflagellar transport protein 122 homolog
Similarity search - Component
Biological speciesChlamydomonas reinhardtii (plant)
Methodsubtomogram averaging / cryo EM / Resolution: 20.7 Å
AuthorsLacey SE / Foster HE / Pigino G
Funding supportEuropean Union, Italy, 2 items
OrganizationGrant numberCountry
European Research Council (ERC)European Union
Other government Italy
CitationJournal: Nat Struct Mol Biol / Year: 2023
Title: The molecular structure of IFT-A and IFT-B in anterograde intraflagellar transport trains.
Authors: Samuel E Lacey / Helen E Foster / Gaia Pigino /
Abstract: Anterograde intraflagellar transport (IFT) trains are essential for cilia assembly and maintenance. These trains are formed of 22 IFT-A and IFT-B proteins that link structural and signaling cargos to ...Anterograde intraflagellar transport (IFT) trains are essential for cilia assembly and maintenance. These trains are formed of 22 IFT-A and IFT-B proteins that link structural and signaling cargos to microtubule motors for import into cilia. It remains unknown how the IFT-A/-B proteins are arranged into complexes and how these complexes polymerize into functional trains. Here we use in situ cryo-electron tomography of Chlamydomonas reinhardtii cilia and AlphaFold2 protein structure predictions to generate a molecular model of the entire anterograde train. We show how the conformations of both IFT-A and IFT-B are dependent on lateral interactions with neighboring repeats, suggesting that polymerization is required to cooperatively stabilize the complexes. Following three-dimensional classification, we reveal how IFT-B extends two flexible tethers to maintain a connection with IFT-A that can withstand the mechanical stresses present in actively beating cilia. Overall, our findings provide a framework for understanding the fundamental processes that govern cilia assembly.
History
DepositionOct 18, 2022-
Header (metadata) releaseJan 11, 2023-
Map releaseJan 11, 2023-
UpdateJul 26, 2023-
Current statusJul 26, 2023Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_15980.png

Downloads & links

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Map

FileDownload / File: emd_15980.map.gz / Format: CCP4 / Size: 6.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 6.06 Å
Density
Contour LevelBy AUTHOR: 0.5
Minimum - Maximum-1.2906342 - 2.1218252
Average (Standard dev.)-0.00015293066 (±0.09767275)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions120120120
Spacing120120120
CellA=B=C: 727.2 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_15980_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: Focussed refinement on a single IFTA repeat. Resolution...

Fileemd_15980_additional_1.map
AnnotationFocussed refinement on a single IFTA repeat. Resolution 18.6A, bfactor -2000.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: Focussed refinement on right half of a single...

Fileemd_15980_additional_2.map
AnnotationFocussed refinement on right half of a single IFTA repeat. Resolution 19A, bfactor -2000.
Projections & Slices
AxesZYX

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Slices (1/2)
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Histogram

Histogram (log scale)

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Additional map: Focussed refinement on left half of a single...

Fileemd_15980_additional_3.map
AnnotationFocussed refinement on left half of a single IFTA repeat. Resolution 19A, bfactor -2000.
Projections & Slices
AxesZYX

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Histogram

Histogram (log scale)

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Half map: #1

Fileemd_15980_half_map_1.map
Projections & Slices
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Histogram

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Half map: #2

Fileemd_15980_half_map_2.map
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Sample components

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Entire : One IFTA repeat from anterograde intraflagellar transport trains ...

EntireName: One IFTA repeat from anterograde intraflagellar transport trains within native Chlamydomonas reinhardtii cilia
Components
  • Complex: One IFTA repeat from anterograde intraflagellar transport trains within native Chlamydomonas reinhardtii cilia
    • Protein or peptide: Intraflagellar transport protein 121
    • Protein or peptide: Intraflagellar transport protein 139
    • Protein or peptide: Intraflagellar transport particle protein 140
    • Protein or peptide: Intraflagellar transport protein 144
    • Protein or peptide: Intraflagellar transport protein 122 homolog

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Supramolecule #1: One IFTA repeat from anterograde intraflagellar transport trains ...

SupramoleculeName: One IFTA repeat from anterograde intraflagellar transport trains within native Chlamydomonas reinhardtii cilia
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Chlamydomonas reinhardtii (plant)

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Macromolecule #1: Intraflagellar transport protein 121

MacromoleculeName: Intraflagellar transport protein 121 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlamydomonas reinhardtii (plant)
Molecular weightTheoretical: 136.267359 KDa
SequenceString: MFIYLSKKIA IPNNVKLRCI SWNTDQGWIA CGGESGLLKV LRLDGTTSKD VKGKKEGGAP GGNLSLNQTL EGHNGAVICV CWNNAFQKL TTSDEFGLII VWMLHKGMWF EEMINNRNKS VVKDMKWTSN GEKICIVYED GAVIVGSVDG NRLWGKELGM D LALVEWSP ...String:
MFIYLSKKIA IPNNVKLRCI SWNTDQGWIA CGGESGLLKV LRLDGTTSKD VKGKKEGGAP GGNLSLNQTL EGHNGAVICV CWNNAFQKL TTSDEFGLII VWMLHKGMWF EEMINNRNKS VVKDMKWTSN GEKICIVYED GAVIVGSVDG NRLWGKELGM D LALVEWSP DGRLLLFATP GGECHVYDGN GNGVAKVPLY CNEGYAGASK IIGVEWYDGV EGYAEPNCPV LAICLDNGRM QL MRYESDD NAVCIDTGIK PVKVKWNMNG TILAVAGFQM SSAVADGREL WMVQFYNHNG EHLRTLRVPG GGISGISWEG NGL RLALSV DSYVYFANVR PDYKWGYFCN TLVYAFNRPD RSEHCVMFWD TKNNDKYPKY VRKLVAIQAF GDFCVLATKG ENPG EHILI LCNAIGSPVD SKYIEVEPKY LAITNYHVIA ANDEVVYVWQ FRTSFSKVLS TDINAVKRKD VREKMFSVDD SNPAL SDRS PESFRNMTTQ TTDPIACVTA CDSVLMIGRA SGVVNRYSLP HLTLDAQHVL RCRPQMLALN CNLSKMSIID INGVLT FFD LTAKAPGGGA NTMGEHLSFE RKDAWDMRWA DDNPELFAMM EKTRMYIFRG LDPEEPVTSS AYLCSFHDLE ITAAFLD DI MQQPDQPDLE FMVMYETRSL RDTRELLKSA SVDDAYAFVD SNSHPRLWRN LAEHALEQLD FTTADKAFVR CADYQGIQ F VKHLGKLDDK AKQRAEVAVY FKRFDEAEQL YMRMDRPDLA IDMRMRLGDW FKVERLIRES SGDDAQLLNA HNKIGQYYS DRHKWGKAAQ YYAQAKNSEM LVECFYALED FVALGRLMDA LPDGSPLLAN IGEKFQSVGL CNEGVTAFLK AGDTKRAIDC CVLLNQWDQ AVQLAQAHNF PQIEQLLAKY ANHLLEKEKV MDAIELYRKA NHSMEAARLL QDLAKKCADQ KVHPLRVKKL Y VLAALEIE KFKKRTLDMA GPDKTAATLL GTGGTATMAA TAAQTLAGLM TLESAVSGEA GVDSAWRGAE AYHFWLLAHR QL YAGNVDL AMRTALHLRE YEDLLDPVEI YSFLALAAFY NQFFGQCSKA FIKLESMPSI PNDKRESFAD LAMSIFLKHP PAD PRALRE TREKKAPGGG AMAGNSLDAL LEDLGGGREQ VCVASGRIVR DGNVVRCKVC KHLSITHELH GAAVCPLCHA ALPV SGGGA PGRGMSAKGG AMAQMYGAY

UniProtKB: Intraflagellar transport protein 121

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Macromolecule #2: Intraflagellar transport protein 139

MacromoleculeName: Intraflagellar transport protein 139 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlamydomonas reinhardtii (plant)
Molecular weightTheoretical: 152.227688 KDa
SequenceString: MADRVLALVH YYAREGYFRH VQTVCNEVLK KRPGDGVLTF WRAYGLLMEG NTADAMRDLS SIQGNSDLEL AVAAAQLLGH ESAKVPDHD AIIDLQAKLE IEERTASDQP CLHLASFYLY TKSKERARGL VERVLRNQPD MVPAQVLLGW IIISQQQDDE Y DMLFDESE ...String:
MADRVLALVH YYAREGYFRH VQTVCNEVLK KRPGDGVLTF WRAYGLLMEG NTADAMRDLS SIQGNSDLEL AVAAAQLLGH ESAKVPDHD AIIDLQAKLE IEERTASDQP CLHLASFYLY TKSKERARGL VERVLRNQPD MVPAQVLLGW IIISQQQDDE Y DMLFDESE LDDALSHFEQ AVEHDHNDLQ ALLGKAKIME LKKQLGPCLD VLTEINVRFG WFVPALVEKT RMLMMLGDWE QV TETLQRV LAADQQNIMA QAWNCMISLT REGNNKQAAK QLQDLFSSMN RQEPKNAELF FRVARPFGRL ACSDPTLLGI TYL MADRAA QLRPEMAAYV VEAAAQKLMM DETTNATERF TQALQLDELN LEANAGALEA QIMAGELEEA AGQIMFLEDM FTNA AAAGG GKRKGRGTGD MDDDPDMADP SLGTSSDNPT LLYLKGLLAW KQGMPSEGLG LLERSIAALF SAAADFHGPS LELYA ALNP ARITAVVRLL LQSIGGEPRA PTEAPSPLIS KVTRALDLLN KQAPALQESA LLHARALYLN GNLDGALRKA GEILRM NPE ESSAHLLICS VYVAQDKPEL AVSALDQAVS SNFAIRETPL YHVVQAKVLV ANNKLDDAKR VLESAMNLPG VRTALTV QQ RARLGRKVVE PTLHERATVY LLLADVLARQ SKIPDAPEAK KYIQDAIREF EGTSEEVRVT VADCELAIAR GDVEGALK K LRRIPKESPH YVKARMAMAD IYLRHRKDKA AYIKCYMDLV DHTPDYDSYC MLGEAFMQIQ EPEKAVRAFE SALEFSPKD VDLITRCARA LVTSHDYQRA IDYYTKAIAN ARGGAQHALQ LELGNLLVRL RQYPAATAAI NKALERNRDG LPATENLQLD VEAWSMLAK VHKGKLEMEG YSQAQSRALE LQKQLLLKLR GELPEAVALQ RERTAAICFD LAEQSKRARQ FDRAMELYME A LRHHDTHV PSMLAVAKLH LANGDTDACQ AQCVTLLKHD PDNEEASIML AELMFHKEHY DTAIYHFQQL LERSPNHYGA LA QLILLLR RAGRLEDVPR YFALAEAGSP KAVMDPGYHY CKGIYNRYIN NPREALKELN LARKDTRWGS QAILHMVEIY LNP DNDAVW EEKENADTPE SRQAVATARS LLKQVRGADT TTQRYRVLES YAIMAGKDKN EIEASLNVLL DLANQDPNNV PVLL AMATG FMMLKQTPKA RNQLKRVQKI QYKPDEAEEF ERSWLLLADI HIQGGKYDLA QDLCQKCLKY NKSCAKAWEI MGQIM EREQ AYKDAADHYE NAWKHENQAS AQVGFKLAFN YLKARRYVEA VDVCHKVIKA FPDYPKIRKE ILEKARMGLK P

UniProtKB: Intraflagellar transport protein 139

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Macromolecule #3: Intraflagellar transport particle protein 140

MacromoleculeName: Intraflagellar transport particle protein 140 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlamydomonas reinhardtii (plant)
Molecular weightTheoretical: 157.426641 KDa
SequenceString: MEIYYTTKIS GRAGVIAGWS KAPGYPSLLA VALSPNAVGI YNEEGRPLDP NNEANIKNVR GTECAKIAWH PLLPLLAIGW KDGAISFWN AEERKLEEDS KIHRNTISSM TWTASGDRLI TGDENGRISM WKTDRLMRPI HVVAYDEPGA VIRHTVVGLP E EMPDTNSQ ...String:
MEIYYTTKIS GRAGVIAGWS KAPGYPSLLA VALSPNAVGI YNEEGRPLDP NNEANIKNVR GTECAKIAWH PLLPLLAIGW KDGAISFWN AEERKLEEDS KIHRNTISSM TWTASGDRLI TGDENGRISM WKTDRLMRPI HVVAYDEPGA VIRHTVVGLP E EMPDTNSQ VVVAFYVADA QERAVVKWCN DQGYSGVVVE MSEGVHTLVH YPERDQLLVV GSSCTLNVLT RDEQLGTWVT AS KMKFATG TGEAATGLQV AWAGNHTLAS ASEKDNVVRM YNFDTEDNYV LNLEQDSGLV SRVVCLAYDD RYNLLAVGTT DGR VMMYKF NQPNLNLEPV LDFAKCWEMQ PAFFVGNRAL AMEWGPFPRL MVVACNDAIN VCRKTMLSYK FRDGVAIMQV AVDR VVLEN LEVEPQRPPG RLQLQDMQLL GLDLSKGLLL VWDGERAEVY KVTETNDIMP ASQFETTSRC MAINNDSVYR AAENK VEVV NMAGTVKQTL MFDDNHGSPT SMDVARDYLA VVTSANIVRI LKVAGREAKP HAGPAPLCPP ELKDWKVMAM RANGNG NLV AALVVGPEPA RAVRLVVWCG ETNTHHVHDF TPEGRQPVQL MFDTVEPKLL VVQCTPVFTE ANVDERPHGD AAHVVDC AI IFVDPDKGIL LQEYQPIHTG GATACIGSCA PHLLTNKKSM VQPAPGSGAF QPFTSNVSKA IMTSFQGMQD SDDKTRRA L LDFSFNLATG NMDEAFRSVK AIKNPAVWEN MAHMCIRNKR LDVAEHCLSN MEHARGARAL REAKSIEEAD ARVATVAVH LGMIEDAKKL YIACERYDLL NQLYRACGQW DKALEVAEKN DRIHLKSTHY AYGQFMERQG DMEGARKHYE AAGCGLVEVP RMLFEAEKF TELQNYIQAN DSRELILWWG KYLESLGEYA KALDCYRKAG DSLSMVRIHC FQRDWKAAED EVTNSADNAA S FHLARQYE ASGRIPEAIR YYTLAKRYSH GVRLAKTHEL DSDLMNLALK STPAVMIDTA DYLFAKGQHE KAATLYMKGG KL SKAVEMC FQAQLFDVLQ HITDDMTPEK SDPNLYNKCA EFFMGFGHND KAVKMLIAAQ QYGRALELCV EHDVSITEEM ADS MTPDKN AAVSADERNN VICRIAKVAK RQGNFQLAAK KYTQAGDKVK AMKALLRGGD AEKIIFFAGV SRQKDIYLMA ANYL QTLNW HSDPELMKHI ISFYTKAAAW ESLASFYEAC AQIEVDEYRD YEKALQAMRE AAKYVAKSKN DDRDARVGVI NDRIA VAEQ FVAARQLIGS NPQEALRVCD ELLRAIPPNS QDLEAGIRIG DVYALMVEYW YEARNPNEAY KAIEAMRRRG IILSPY LDT RMVEDIYRSL GVALDMAEER RGPANLGLRE SDAGAFVEEE VADEDD

UniProtKB: ANAPC4_WD40 domain-containing protein

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Macromolecule #4: Intraflagellar transport protein 144

MacromoleculeName: Intraflagellar transport protein 144 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlamydomonas reinhardtii (plant)
Molecular weightTheoretical: 150.972844 KDa
SequenceString: MKKLFGVGPD LLGDGKVLFE WSPKGNFLAA AGSKRKVNIF DRNGRLYDEV HFPPAEYPNP DGRACAAAQM QWDPAGEQLA ILPAGNTHV FIWLAGNKEV QKIESEFKTQ EFSCMAWSRN GMYLGVATVK GNVMMYNARE RKKTPLVGKH TKKIVAAAWN K DNIMALAG ...String:
MKKLFGVGPD LLGDGKVLFE WSPKGNFLAA AGSKRKVNIF DRNGRLYDEV HFPPAEYPNP DGRACAAAQM QWDPAGEQLA ILPAGNTHV FIWLAGNKEV QKIESEFKTQ EFSCMAWSRN GMYLGVATVK GNVMMYNARE RKKTPLVGKH TKKIVAAAWN K DNIMALAG QDKTVTLTDG VTGDTIKTFH LKDVPMDLCV SDKKEDGYSR REENTYSLNI NRKTLYIMQC TAEGDRPLEL AF LDTYGPI MKHSWFGDGY ILLGYKNGYV AVVSSHSREI SEEVHSGKYL DTLTDVTYCA SLGRVAMAGA NCVRVLDANA DYN EIKGDA VDLDANQAIE KVGWTKDGQV LTVGTHNGYM HSFLASLPMV YDFHGTRVLY LTSLLEMTLL DVSRRQTVAR IELE NEPAF CGLGPSHAAV GMNNQAAFYS LGEKVGKVVQ RREYLGTITA IKLNETQAAV LTGGHVVVHP ISVEAGHAPD ELDVV IPGP GQPANITCVA LTPTFVITGS RTGTLSYYLS PDVTPVNEFR HDDGGIVRLF PQATGARLVF EDDKGALHLF NPVNDH VVA VPYTGRAETV MWDTSDTNVM VIGDGTALHS FLYVPVSLTG PQVQDLGKQA VPATHTPLTV CNGVVGCRLK SGAMDNV TL ESHKMLQPGD AVARAAPAKR FAAALKLYKL RDAVECAKQL RQVESWRTLA LAALDVLDID TAINAYREIG DASMVLSL E RVRQHEDRNL LSAHIMVLLE KDYGQAQELF LRSSVPRAAL EMRMDLKHWT DALKLAEQLD PDAIATICKE HGAMLEMTG EYSNAKSHYQ QALDALAVSV GPAQPDLEAA CKAGIARTTL QLGDLRQGRQ LAMQLNSQTL FKECALILEG LQQLTEAAEM YERAGQFER AASIYIQTKN FAAAAPLMAR ISSSKLQLQF AKAKEAEGRW QEAAAAYEAA GDMDAVVRLC LERLSQPQRA Y AIVRKTQS VEAANQLSRF CLQSQDFGGA VEFLLMAGQM DQAFDIAMGH NEMDTFARIV AASAKPVDYQ RIAQYYESRG EY DKAADMW SKCDQAPRAV QLYLKVGTNP ALEKAVQVVE QTRSHQLGVL VLDYVNEEKD GTTRDEFRFK LNIAMGQFAE AAR DALEMA RFEQEEGNYR VAHDKLFGTV KQLEALNTKP PGELLRALML LHSYTLVKSL IAINDHTTAA RMLVRVARNI SKFP KHIVP ILTSTVIECH RANLKKTAFE YASMLMRPEY RDQVAVKYKK KIELMVRKPE KDPEELEEPL ADCPFCNMPG PETEL QCIS CQNILPFDLA TGKRMVLSDW AECPGCKFPA SASQFIRIIS AEGRCPMCND PVDLAHVRKV QDPLTKIKQQ QAQQTN ASG GGAS

UniProtKB: Intraflagellar transport protein 144

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Macromolecule #5: Intraflagellar transport protein 122 homolog

MacromoleculeName: Intraflagellar transport protein 122 homolog / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlamydomonas reinhardtii (plant)
Molecular weightTheoretical: 139.382922 KDa
SequenceString: MRTVVAWQET PPEKDGVRNV CYDLCFKPDG SQVVAGIGNR VLVYDAADGD LLHALKGHKD SIYCVAYAQN GKRFASGGAD KTVIIWTSK AEGILKYTHN DAIQCLSYNP VTQQLASATG SDVGLWSPEQ KSVAKHKVAS RICSISWTAD GAYLALGCFD G VISIRDKG ...String:
MRTVVAWQET PPEKDGVRNV CYDLCFKPDG SQVVAGIGNR VLVYDAADGD LLHALKGHKD SIYCVAYAQN GKRFASGGAD KTVIIWTSK AEGILKYTHN DAIQCLSYNP VTQQLASATG SDVGLWSPEQ KSVAKHKVAS RICSISWTAD GAYLALGCFD G VISIRDKG GSEKHRIETG PSPVWSICWN PVETNVLCAG CFDGVLKFYM MSGQQKSKDR ELAFDPLCVS YFSSGEYITV SG TDKTVHL YTRDGTYLTK IADRDSWVWA VRPRPKHNFV AVGTEGGGIA MFQLIFSTVH GLYQDRYAYR DQMTDVIIQH LIT EQKVRI KCKDYVKKIA VYKDKLAVQL QNKVVIYELA NADDFDMHYQ SATKIQQKLD CNLLVVTSHH VILCQEKKLQ LYNF DGVKE REWVLDSVIR YIKVVGGPPR REGLLVGLKS GAILKIFVDN PFPIPLIKHT ASVRCLDLSA SRNKLAVVDE NAKVL VYNL ITKELVFEES NANSVAWNSE FEDMFCYSGN GMLSIKTGDF PLHQQKLQGF VVGFKGSKIF CLHYVSMQTI DVPQSA SMY RYLERKDFES AYRVACLGVT EADWKQLALE ALQALNLEVA RKAFIRIRDV RFVELVNRTE AGRKAGTSEQ LLLAEIM AF QGRYQEAARL FTQAGAVDRA MEMFSDLRQF DEAKKWAEEF AASGRGDQRS VQELINRQAE WSEEVKNYDA AAEMYIKA K KYDRAIAILA KHQWWDKLIG VVRQLDKTDA RCLGMCAGHF RRAPHFAYAK ETLLKMDDTK GLITLYVEAE KWDDAFLLL HAHPECRQDV YLPYAKWLSN QDRFDEARLA YQEGGFPSLA TRILEQLCAN AVVETRYADA AFYYYQLAME ALKSIKNPPS NMAPSDRSA LERFTELYDR AEVYYAYEVV HKSVHSPFRT THPDTLFNAS RFLLMRLLPP REVPLGVSVV NVVYVLAKQA V EAGAFKLA RFAYNKLQTL VLPAAWQAEV DLASVVIRSK PFSDKEDLLP VCWRCSTTNP LLNTQGDYCI NCGAPFIRSF VT FEHLPVV EFELEPGVDD EEAGRLLGED AGMEAARRER KAERQAKAAE VGGNMLRLDQ NEIDRMDDAF AAQMMVPNTT IRV DRAMLR RLKTAEVMVR TWPNPVIPKQ YFRVMDQEVP LCCGPCGHFF EQDEFEMAAL ERGTAPFSRT TVRGEGLAPG EDAE DEGAG GNKLGGPLGS ARGPIGGASK ARMSVPFQQG RPLV

UniProtKB: Intraflagellar transport protein 122 homolog

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Experimental details

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Structure determination

Methodcryo EM
Processingsubtomogram averaging
Aggregation statehelical array

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Sample preparation

BufferpH: 7 / Details: TAP (Tris-Acetate-Phosphate) Media
VitrificationCryogen name: ETHANE
DetailsChlamydomonas reinhardtii cells applied to quantifoil grids and plunge frozen; cilia project out from cell bodies and traverse holes in the carbon film.

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 2.6 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 5.0 µm / Nominal defocus min: 2.5 µm
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 20.7 Å / Resolution method: FSC 0.143 CUT-OFF / Software: (Name: RELION (ver. 3.1.3), Warp) / Number subtomograms used: 3897
ExtractionNumber tomograms: 600 / Number images used: 3897
Final angle assignmentType: MAXIMUM LIKELIHOOD

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Atomic model buiding 1

RefinementProtocol: FLEXIBLE FIT
Output model

PDB-8bda:
IFTA complex in anterograde intraflagellar transport trains (Chlamydomonas reinhardtii)

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Jul 12, 2017. Major update of PDB

Major update of PDB

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External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

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Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi

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