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Yorodumi- EMDB-15980: IFTA complex in anterograde Intraflagellar transport trains (Chla... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-15980 | |||||||||
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Title | IFTA complex in anterograde Intraflagellar transport trains (Chlamydomonas reinhardtii) | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Cilia / IFT / Intraflagellar / transport / PROTEIN TRANSPORT | |||||||||
Function / homology | Function and homology information intraciliary transport particle A / intraciliary retrograde transport / non-motile cilium assembly / protein localization to cilium / non-motile cilium / ciliary plasm / motile cilium / axoneme / cilium assembly / RNA processing ...intraciliary transport particle A / intraciliary retrograde transport / non-motile cilium assembly / protein localization to cilium / non-motile cilium / ciliary plasm / motile cilium / axoneme / cilium assembly / RNA processing / ciliary basal body / cilium Similarity search - Function | |||||||||
Biological species | Chlamydomonas reinhardtii (plant) | |||||||||
Method | subtomogram averaging / cryo EM / Resolution: 20.7 Å | |||||||||
Authors | Lacey SE / Foster HE / Pigino G | |||||||||
Funding support | European Union, Italy, 2 items
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Citation | Journal: 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 |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_15980.map.gz | 2.5 MB | EMDB map data format | |
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Header (meta data) | emd-15980-v30.xml emd-15980.xml | 31.1 KB 31.1 KB | Display Display | EMDB header |
Images | emd_15980.png | 39.2 KB | ||
Masks | emd_15980_msk_1.map | 6.6 MB | Mask map | |
Filedesc metadata | emd-15980.cif.gz | 10 KB | ||
Others | emd_15980_additional_1.map.gz emd_15980_additional_2.map.gz emd_15980_additional_3.map.gz emd_15980_half_map_1.map.gz emd_15980_half_map_2.map.gz | 420 KB 317 KB 307.1 KB 4.9 MB 4.9 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-15980 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-15980 | HTTPS FTP |
-Validation report
Summary document | emd_15980_validation.pdf.gz | 717 KB | Display | EMDB validaton report |
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Full document | emd_15980_full_validation.pdf.gz | 716.5 KB | Display | |
Data in XML | emd_15980_validation.xml.gz | 8.7 KB | Display | |
Data in CIF | emd_15980_validation.cif.gz | 10 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-15980 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-15980 | HTTPS FTP |
-Related structure data
Related structure data | 8bdaMC 8bd7C C: citing same article (ref.) M: atomic model generated by this map |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_15980.map.gz / Format: CCP4 / Size: 6.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 6.06 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | emd_15980_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Additional map: Focussed refinement on a single IFTA repeat. Resolution...
File | emd_15980_additional_1.map | ||||||||||||
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Annotation | Focussed refinement on a single IFTA repeat. Resolution 18.6A, bfactor -2000. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: Focussed refinement on right half of a single...
File | emd_15980_additional_2.map | ||||||||||||
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Annotation | Focussed refinement on right half of a single IFTA repeat. Resolution 19A, bfactor -2000. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: Focussed refinement on left half of a single...
File | emd_15980_additional_3.map | ||||||||||||
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Annotation | Focussed refinement on left half of a single IFTA repeat. Resolution 19A, bfactor -2000. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_15980_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_15980_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : One IFTA repeat from anterograde intraflagellar transport trains ...
Entire | Name: One IFTA repeat from anterograde intraflagellar transport trains within native Chlamydomonas reinhardtii cilia |
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Components |
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-Supramolecule #1: One IFTA repeat from anterograde intraflagellar transport trains ...
Supramolecule | Name: One IFTA repeat from anterograde intraflagellar transport trains within native Chlamydomonas reinhardtii cilia type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Chlamydomonas reinhardtii (plant) |
-Macromolecule #1: Intraflagellar transport protein 121
Macromolecule | Name: Intraflagellar transport protein 121 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Chlamydomonas reinhardtii (plant) |
Molecular weight | Theoretical: 136.267359 KDa |
Sequence | String: 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 |
-Macromolecule #2: Intraflagellar transport protein 139
Macromolecule | Name: Intraflagellar transport protein 139 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Chlamydomonas reinhardtii (plant) |
Molecular weight | Theoretical: 152.227688 KDa |
Sequence | String: 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 |
-Macromolecule #3: Intraflagellar transport particle protein 140
Macromolecule | Name: Intraflagellar transport particle protein 140 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Chlamydomonas reinhardtii (plant) |
Molecular weight | Theoretical: 157.426641 KDa |
Sequence | String: 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: Anaphase-promoting complex subunit 4-like WD40 domain-containing protein |
-Macromolecule #4: Intraflagellar transport protein 144
Macromolecule | Name: Intraflagellar transport protein 144 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Chlamydomonas reinhardtii (plant) |
Molecular weight | Theoretical: 150.972844 KDa |
Sequence | String: 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 |
-Macromolecule #5: Intraflagellar transport protein 122 homolog
Macromolecule | Name: Intraflagellar transport protein 122 homolog / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Chlamydomonas reinhardtii (plant) |
Molecular weight | Theoretical: 139.382922 KDa |
Sequence | String: 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 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | subtomogram averaging |
Aggregation state | helical array |
-Sample preparation
Buffer | pH: 7 / Details: TAP (Tris-Acetate-Phosphate) Media |
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Vitrification | Cryogen name: ETHANE |
Details | Chlamydomonas reinhardtii cells applied to quantifoil grids and plunge frozen; cilia project out from cell bodies and traverse holes in the carbon film. |
-Electron microscopy
Microscope | TFS KRIOS |
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Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 2.6 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 5.0 µm / Nominal defocus min: 2.5 µm |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Final reconstruction | Applied 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 |
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Extraction | Number tomograms: 600 / Number images used: 3897 |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |
-Atomic model buiding 1
Refinement | Protocol: FLEXIBLE FIT |
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Output model | PDB-8bda: |