+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-28867 | |||||||||
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Title | Structure of Leishmania tarentolae IFT-A (state 2) | |||||||||
Map data | State 2 composite | |||||||||
Sample |
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Keywords | Cilia / IFT / PROTEIN TRANSPORT | |||||||||
Function / homology | Function and homology information intraciliary transport particle A / intraciliary retrograde transport / intraciliary transport / non-motile cilium assembly / protein localization to cilium / non-motile cilium / motile cilium / axoneme / cilium assembly / ciliary basal body / cilium Similarity search - Function | |||||||||
Biological species | Leishmania tarentolae (eukaryote) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.4 Å | |||||||||
Authors | Zhou H / Brown A | |||||||||
Funding support | United States, 2 items
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Citation | Journal: Cell / Year: 2022 Title: Mechanism of IFT-A polymerization into trains for ciliary transport. Authors: Shimi Meleppattu / Haixia Zhou / Jin Dai / Miao Gui / Alan Brown / Abstract: Intraflagellar transport (IFT) is the highly conserved process by which proteins are transported along ciliary microtubules by a train-like polymeric assembly of IFT-A and IFT-B complexes. IFT-A is ...Intraflagellar transport (IFT) is the highly conserved process by which proteins are transported along ciliary microtubules by a train-like polymeric assembly of IFT-A and IFT-B complexes. IFT-A is sandwiched between IFT-B and the ciliary membrane, consistent with its putative role in transporting transmembrane and membrane-associated cargoes. Here, we have used single-particle analysis electron cryomicroscopy (cryo-EM) to determine structures of native IFT-A complexes. We show that subcomplex rearrangements enable IFT-A to polymerize laterally on anterograde IFT trains, revealing a cooperative assembly mechanism. Surprisingly, we discover that binding of IFT-A to IFT-B shields the preferred lipid-binding interface from the ciliary membrane but orients an interconnected network of β-propeller domains with the capacity to accommodate diverse cargoes toward the ciliary membrane. This work provides a mechanistic basis for understanding IFT-train assembly and cargo interactions. | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_28867.map.gz | 72.6 MB | EMDB map data format | |
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Header (meta data) | emd-28867-v30.xml emd-28867.xml | 47.8 KB 47.8 KB | Display Display | EMDB header |
Images | emd_28867.png | 110.4 KB | ||
Filedesc metadata | emd-28867.cif.gz | 11.1 KB | ||
Others | emd_28867_additional_1.map.gz emd_28867_additional_10.map.gz emd_28867_additional_11.map.gz emd_28867_additional_12.map.gz emd_28867_additional_2.map.gz emd_28867_additional_3.map.gz emd_28867_additional_4.map.gz emd_28867_additional_5.map.gz emd_28867_additional_6.map.gz emd_28867_additional_7.map.gz emd_28867_additional_8.map.gz emd_28867_additional_9.map.gz | 98.6 MB 748.5 KB 740.3 MB 740.3 MB 98.7 MB 740.2 MB 740.3 MB 736.8 MB 740.5 MB 740.5 MB 1.5 MB 1.6 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-28867 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-28867 | HTTPS FTP |
-Related structure data
Related structure data | 8f5pMC 8f5oC M: atomic model generated by this map C: citing same article (ref.) |
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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_28867.map.gz / Format: CCP4 / Size: 909.2 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | State 2 composite | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.83 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
+Additional map: IFT139 half map 2
+Additional map: IFT139 mask
+Additional map: Consensus refinement half map 2
+Additional map: Consensus refinement half map 1
+Additional map: IFT139 half map 1
+Additional map: A2 subcomplex half map 2
+Additional map: A2 subcomplex half map 1
+Additional map: Consensus refinement map
+Additional map: A1 subcomplex half map 1
+Additional map: A1 subcomplex half map 2
+Additional map: A1 subcomplex mask
+Additional map: A2 subcomplex mask
-Sample components
-Entire : IFT-A
Entire | Name: IFT-A |
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Components |
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-Supramolecule #1: IFT-A
Supramolecule | Name: IFT-A / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #2-#6, #1 |
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Source (natural) | Organism: Leishmania tarentolae (eukaryote) |
-Macromolecule #1: NET domain-containing protein
Macromolecule | Name: NET domain-containing protein / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Leishmania tarentolae (eukaryote) |
Molecular weight | Theoretical: 38.742742 KDa |
Sequence | String: MSTTSMTAPA TSPSRLESMR AASSTTSSKP APTGPSKKSD APAKTKRQDK PNVNSANDSN AADTGTAAAA TRPDHGRRSR RTEDANWLN AEKPGNAYRP ADKELSQNVK VVQDDILNRE QAQREQAERA QRQKEKLEQH ISESPAGFQA ALPRLNELDV A NSWDKLLR ...String: MSTTSMTAPA TSPSRLESMR AASSTTSSKP APTGPSKKSD APAKTKRQDK PNVNSANDSN AADTGTAAAA TRPDHGRRSR RTEDANWLN AEKPGNAYRP ADKELSQNVK VVQDDILNRE QAQREQAERA QRQKEKLEQH ISESPAGFQA ALPRLNELDV A NSWDKLLR MMRSEYDMSC LTSCLARELD EDVAWNPEML LVQLTSDMLD AAELQKDSGE AYVPVDASDI GQMTGGEVAR KR KAKRTKA AGGAEGEPEK DTEMPATASP PPTSQAATSK TPRKKATTDP AAAEPKKTQT GKAQNAGPTS AGNSSLPQKG SAA GSTSGA AGGGGGSKTS AAPSTAKRDA SKDANATKSS SSKKKTSKQV SK UniProtKB: Intraflagellar transport protein 43 |
-Macromolecule #2: Intraflagellar transport protein 122B, putative
Macromolecule | Name: Intraflagellar transport protein 122B, putative / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Leishmania tarentolae (eukaryote) |
Molecular weight | Theoretical: 139.24675 KDa |
Sequence | String: MFVYLSKRIA MPNGVKVTSI AWNDGQGWLA CGGEKGLLKV LKVDGGPQGQ RSGGLSSSQT LEGHDTTVDL VTWNQQYCKL TSSDVSGRI IVWVLHKGMW FEEMVNNRNS SRVVDFAWNP SGTKICITYE DGAVIVGGVD GNRYWGRELP YKLAKVCWGA D GNSILFGT ...String: MFVYLSKRIA MPNGVKVTSI AWNDGQGWLA CGGEKGLLKV LKVDGGPQGQ RSGGLSSSQT LEGHDTTVDL VTWNQQYCKL TSSDVSGRI IVWVLHKGMW FEEMVNNRNS SRVVDFAWNP SGTKICITYE DGAVIVGGVD GNRYWGRELP YKLAKVCWGA D GNSILFGT ATGEVYVHDA SSGEHLSQVE IKCNDGKAPS PLAGLSWHPA WVERPEPLAT LAVCYQSGKL QLMTSIGDET PC NVDRDLP AHFISWNPSG TVLAVTAATP ATEENGPGIV TQFFSTEGVH LRTLRVSGKQ CGGITWEGGG LRVAIGVDSS VYF ANVRPN YKYCYFKKTA VFAFTVPDKV EESVMFWNVN TNERRTKSVR GLQYMNACKD ACVLISRPDT TQQQRMIQLV NAIG SPLET RFIDMELYTY DMNSSAVVCC GDESIYIWQF RDPSTAVDAL DPISMQASRA ESQERVIHVC DLVRGDTAPT MKVRS ALTN DLISAMCVSE THMFVSLESG TLHVYQLSPL QLVSKYILFA RAQSMSVNCN STQLAVIHLG GITNVYCIER EKFSLV PCK ADTIDGVELK DVWNLRWAVD DPHRFAVMEK TRMLVYNHGV AEEPVQSCAN LCKFKSLKIR TLQLDELLLD PERPRKD YI VDFEAQLLRD MRAVLRDGTA KEAYEFAESH NTKKLWELLA EHTLFQLDFT YAEVAFIHCK DYAAIQFVKR VRSLDDPK K QLAEVNAYYR RFDEAERLYK DVDRKDLALD LRYRLGDWFG VVRLVQEGGG DEALLFQAWE NIGDHYASRQ KWSKAAQYY TQCRHYRKLA RIFYIIEDYE MLTQLISMGE HDKELMVTLG NMLLTVGLAE EAAKAFIAAN EPRMAVNGCV QVNMWNRAIA LAKEHRLED VGQLLEKYAK YLIHRERLTE AIELYRKAGK HDEAATLLAQ LGKRAALRDA LKAKKFYVLS ALEVQKYRTT A IALNRDGV AVVSEMLNKD RSTVSERTLD AAWRGAEAYH FLLMCQQQMA DRNFKAALVL AMRLIEYDDL VAPVDGYSLI AL TAYLVKN FGLCSKAFAR LEQAERNDEA GGVAAAATTQ LENFSLDLDV THRTMASTCG GSTGGSTGML SGGGGSALSG TTT SLQLTN PGKGVTRMAP MTYPTVSLRD PPRPFADLAR HIFMTHSPVD TSVDSVPCPT CGSFNKEWAQ RCIKCQQPFN TCIV SGCAI VSEDGAWQCS VCHRKALEAV VDKYRNCPLC HTPRKGRMRR GI UniProtKB: Intraflagellar transport protein 122B, putative |
-Macromolecule #3: Intraflagellar transport protein 122 homolog
Macromolecule | Name: Intraflagellar transport protein 122 homolog / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Leishmania tarentolae (eukaryote) |
Molecular weight | Theoretical: 144.971953 KDa |
Sequence | String: MHTSVRWSET ADAVKGIRPP VNSLCYSPSG DYVVASCGVR VLVYAASTGT LLHSLMGHQD TIYCVDYSSD GKNFASGGAD RTVIVWSSQ GEGIVKYQHT EAIQALAHNP TSSQLASVSS VDWGIWSPEQ PKVSKYSLPS KGLCAAWTPN GKTLAIGMLD G TVMMLSKT ...String: MHTSVRWSET ADAVKGIRPP VNSLCYSPSG DYVVASCGVR VLVYAASTGT LLHSLMGHQD TIYCVDYSSD GKNFASGGAD RTVIVWSSQ GEGIVKYQHT EAIQALAHNP TSSQLASVSS VDWGIWSPEQ PKVSKYSLPS KGLCAAWTPN GKTLAIGMLD G TVMMLSKT SEEKVIIRRP APVWALAFTP LRENGIDVLA IGSWDQRLSF YNLSGTAVGR ERELDFDPCS VSYFNDGEYI LL SGSDHKV TLFTKDGNRL IELASADDWI WSARQRPRQK QFCYGTNDGT ISCIDITIST VHTIYDDQYV FRKDMTNLVV HQL LVDRKM VIPCNEYVQK IATFLDKLAV QLQERVIVFE FFYDDDRTMR YQDIAQIRRR LECSLLCVTT GAIIVSNDKR ITMY DFQGN KRREWSMESP VQLMKVVGGM EGREILLVGL NGGQVMKVFV DNPFPTLLHK GTAPVKSAEL SSSRSRLAVI DSTNT LQVL ELGEKNELLF SEDNVTAVAF NIDVDDNIAF TTGDNTLHIK TGSLPAYQQA VRGIVVGFKA NHVFNLHYSN MMVLDV PHA HALYKYVEMR DFDRAYEVAC LGVADADWKM LGLHAMSQLR LDIARKAFTH IQDTKLVELL KSLELRRRQS GAEDGLS LT LGKASGTPDT VEGPENKGYG STNGELAAAR VAAKDSVLYG SILAFQGKYN DAARQFMKTG CELKAVEMYC DLKMWDNA K KICTDEKVLK DLIRQQARWA EESQNFVEAA SLYESCGDYA KAIGMMGQAG QVEKLMKMCR SLPTSEVTLI TECANFFRK HNAIPFAIEA YEKVQDHQAL IGIYVAKGDW RNAFTILEKT PTLAREVYVP WATWLADNDK FDEALEAFRA AKWPKEAMRL METLATNSV TCRKFRDAAF YYIHLAEEYG RFEETEKPTD VEKAARIRRS KECVRRADIY YAFSGVYAHT TQPLPYNELS L FRTAKYLF GMCAESAIPI NVGKGAILYT LSRIANRLEM VRTARAVFEK LQGVILPVSM MEQVDIETLL VRSKPVKDRD EL LDRCFRC NQLIAQLPMA GDRCPNCFHP CVRSFVNFEC LPLVEFVLAD ELTDEEAERI IVSGVGRRRS ADDENSKDHS DGA DAKAKE WKSDNGANVI SFDDGNIDYE IDQQLVAMGR SKAAANKGND PFFTQLQYVL RPGRPTATYQ PFVASADILK GFRR DEVFI VRPRYGTLPV PNRYYRLMRS DVSVCLCNGC QHFFIAEDYE AECMRGSGCP LCRYRPGKQV SRSMKQILFD METAA AASK TSSAAAAL UniProtKB: Uncharacterized protein |
-Macromolecule #4: TPR_REGION domain-containing protein
Macromolecule | Name: TPR_REGION domain-containing protein / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Leishmania tarentolae (eukaryote) |
Molecular weight | Theoretical: 180.805828 KDa |
Sequence | String: MQPSSSFLPD VWMAVTREPH IPEITPLSRI LAAAAISTYS RQVEYDLDTG CKKKRTAPPP SPPPPSSPPP SPRLTLANAA AMTTTILRT NYALLLFYVR EKYWHHAEEV CLSVIQSTDD HMFRVWRALT LERQGMANDA IREYKAVESR RTTAVPALMG M QLIYKHNR ...String: MQPSSSFLPD VWMAVTREPH IPEITPLSRI LAAAAISTYS RQVEYDLDTG CKKKRTAPPP SPPPPSSPPP SPRLTLANAA AMTTTILRT NYALLLFYVR EKYWHHAEEV CLSVIQSTDD HMFRVWRALT LERQGMANDA IREYKAVESR RTTAVPALMG M QLIYKHNR DQEGVAQTEA KLDGFEIAAN MGGWVQAAAL CWAMGDINAA RDILLRFTDN EAAMAYRDEY TNYGTIRGWV DL LSGRGAL LEKAGALFTS VMDMEEAQYS YFQADNESGS GSRGTTKWID LNAALGYVAF LERKTQLAKA QSLLDRLFVL YPN CSIPPL VGKARLLMQA EDWEQAIEVT HRILAHDKSN VEALALEALY AMAKDTRHDA APVRVRRLLD AVRAKEPRNV ALLH QFALV FSRLAGDRLD LLSLTTQFSD MAYALDSRNG DVLCGLGYQQ LYRHDDKAAT ETFRKAATLT DSLDPLLGTV TCLLR QGDM EAAATQLQLC NQLQPAAQRN AELSMLNAQL RWHRRGMEEE TAVLRYLDQA AEAIKQDVKE RAGVGMEVYV HLNAPV ALA IAHAYIMHCR NEPPDPMFKH ADVVGEKCGR HLEFIVQHLP ACMEAQLMLA KVWFVTGEVR KAQNLLKSTL IVQEQPL PD AFLLSSQICQ YMGDTKLACQ ALAQARTLDF SLQEKPLYNL LLGTVKGTTG EYAEALASLQ RAYNTVKSAA TAPSAGKP T NPLSVPETVT LYLQLAQAQL RVRDVDAARE TLTEAALKFR GSAQIGRVII AQAMLAARTD VDKSIELLRQ VSSKSEFYI AAHSQLGKLF LTHKHNVAMY IQCFQEMAES VPSAQSYVEL GEAYTTIQEP EQAIAAYEKA KALSPSSSEL SVRVGRALVA AHDYAKAIR YYQDALVTDP HLSIVRADLA TLQWRLGHIE EARETIVASP VYELPSTDGA GAGVASAAAA GSAEAVGTAI E RINLYLLL YKVLRDQPWT VPLSEEGTAA ADSDDNHGDA ALTALLTARS LQRRLLEHQL RTTEAPEVIT EQRVVMSRIC TE AGARCIY STPAPPPFSV VMTDKKVEAA AALAVQSAIA SRLTNAREYL REAIAFDESN ERAQLESAQL CYRTGDTEGC EQH CTTVLR MAEGSANTAD AAILLANLYT EQNRDEDARN MFEDLLRKTP QHYEALVYYL ILLYHAGQLP EAKEALERAA AAVP IGQRA DPGLSYVRGL YEHLCNNNAE ALRHFNLARL PAGNPWCTRA LVRMIRIYLV PTTQDLWVRG TSPAAAAATA VADPP RAKE QQQKSATPGK VPLAAATTGS TELHDNIRHA EQLLLLLPVH SEERRILQAY CTMATRRPEE LETALHLFLE CIVAAE TGG VSAAMTAEKN GGSGSPKKTA AEERKQPRRG KGGDSDDDED LQLLASMHEA AAELAQRSSG NSTATLAFAL QCKVIHP EA FLGLAICLFI SGQETAARNV LARLLESKDI TTKMSAMKQA EDKEDAASKD AASKEAAEPA APMVLSPPIA ILTCSEDD T IERAMLFEAY MDTQEGRLKD ARFVLQQVLS ANEGCSSAWN ELGLIYERNQ KHKNASQCYQ KAWKLVQEAD PDVGYKLGF NYLRGGQPVK AIDVCKRVLT HHATYPRIEA DIMDAAYSML RP UniProtKB: Uncharacterized protein |
-Macromolecule #5: WD_REPEATS_REGION domain-containing protein
Macromolecule | Name: WD_REPEATS_REGION domain-containing protein / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Leishmania tarentolae (eukaryote) |
Molecular weight | Theoretical: 182.580078 KDa |
Sequence | String: MSLFVVNAPG HEGQLKEQLI VAHKRRPLLA TAWVNPPSVL ITNSEGEVLT QVADPPGSTG RTHQPTALTW HPNEELLVIG WSNGEMSLW SMPSVSSLAL GEDYTTAAAR SAVQLIAAKA ATQSSAEGAT REHASGAVVA SEWSTRGLYL VSASQQRHVV M WMLEKIPA ...String: MSLFVVNAPG HEGQLKEQLI VAHKRRPLLA TAWVNPPSVL ITNSEGEVLT QVADPPGSTG RTHQPTALTW HPNEELLVIG WSNGEMSLW SMPSVSSLAL GEDYTTAAAR SAVQLIAAKA ATQSSAEGAT REHASGAVVA SEWSTRGLYL VSASQQRHVV M WMLEKIPA ETSVTFKLKP LWSVQSREPV ARIIHVPSKA SHPSTAFKLN NGATAAAAAE GGDDDISFLL ADGGTSVTAI NE DQQLFPC VTQQEQIASV LYDAATRTLV TLTTTSMIEV YAVGEDIKGT STLRRKLSAP ATTPTVSTTT GERIAMSMVW ASP GVVAFG SGDDRLRILD LSSGSLDVLL LPQPDLHVSS LATFAAKGTM IVGTVEGFLV VFQHHAASLL TSRHVSVARE TVTS SSPFA PAATEASQWE AMTVHQVGKC VDRVVLTALG DVALCCGGSE LQVLHEIIRK RAWDGVAAAT QISSDMVVIE SITGC QCLL QNKGNVHGVS IAFPNIALWN GSQIDFYMID EATSEITFIN FVLTTSPAFA IHREGLIYVK GNRIVFETMQ LAPIAQ MTF TESEGVPVIM DIMNDYLVVV SSKNYLRLAR ISTRDLQQLG PARPLTFPSI LQPDAVEASS GASEMTPFVE DISTLEV SV SGARVNAQGR RVALMSTLGP LALPDTRIWV YDSDTDKMSF FDFGSRNEIP NSVYWNTPEP NTTTVGEFEY ILLACETY Q IHMDDKKSAS EEAESPKACT DTTNDGNKIA DHPVGQENLP EALPDMENYA EKKAELEDAR RESVGTTNYV SQRPHNIVT FFATHDGLVL QNFAPLRRYQ ICLVGLTIPD FLLASVKING DPNNAEDYVI EQKRLRDFEG LKSDKDVAVR EALMKFSYYA TIGNMDEAY RCVKSIKNPA AWQGLARLCV TSGRLDVAAV CLATMEDCVA ARALREAKED YPDDQDVQLA TLALGLSMTE E AVELLRKS KRYDLLTDVY MACGKFEHAQ RHSERFDRAR IRPVAYKYAQ FMESLQNMDA AIMWYYNAKC ASTDVPRIFF QT NRMHELR QLMMIQSQPP SPTAGDSAQR PQPGIGEQQS TFATIFPQNR ELLLWWAQHS ERRHNVQEAL RFYNAGEDVY NIV RILCSL TPPKLDSALQ LVNKEMDKAK MRFQQQQAFA ATASARFGDD DHGEPDPVGS AYFVAQLYER QGDDQLALQY YQAA GAYRS GVRVAWKMEQ YGVVANLAMK SSDERLMLET AMALEKHQAY DKAVQLYRRI GAVQCALDAC VQGGLYETLH EVSAA FASG STDPAVFLGM ADHFQSESDY QKAVEMLLFA KHFEEALKLC ETQNATLTEE MAESMTSNIG ELSMEERQAV LRRVAH IAK DQGRWSLACK KYTQAGDRVK AMRMLMRGGE TEKVIFFANH SRNVEIYTMA ANFLQSQNWS ADANIYKSIV LFYTKAK AW MNLLAFYESC AQLHIDENRN YPEALRALED CIAMAESVRG GKANIEMEKV EQLKQRVEIL KAFVKAQKTV DSMVVAER G SVAEKAKADS VIACCSGLIK RSRPSSPDHS LIQDALRIGD VFALMVRFYF DKLGEPHNAL KVMESMPKHG ADPQLFIEA DYMERVCQAN GKSLANVLPG GIATEAPGAV WEGARKFSTD TRRSSVIDEV DRVV UniProtKB: Intraflagellar transport protein 140 |
-Macromolecule #6: WD_REPEATS_REGION domain-containing protein
Macromolecule | Name: WD_REPEATS_REGION domain-containing protein / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Leishmania tarentolae (eukaryote) |
Molecular weight | Theoretical: 152.393281 KDa |
Sequence | String: MVLTQQFVIS NADLGRGHVV EALHPSSPLI ALAGSKGRVL ILNKTGKVEH QLPMQNVVAM EWECSTDTLA IITSSSSDVH LYTHRTRQT DTIDTKLKDL CFVCWSQSQP LFAIGSKSGQ FVLYNRRTLR LVPVADTHKQ RLISGMWVPA QDSRLLIISE D PSLSISDA ...String: MVLTQQFVIS NADLGRGHVV EALHPSSPLI ALAGSKGRVL ILNKTGKVEH QLPMQNVVAM EWECSTDTLA IITSSSSDVH LYTHRTRQT DTIDTKLKDL CFVCWSQSQP LFAIGSKSGQ FVLYNRRTLR LVPVADTHKQ RLISGMWVPA QDSRLLIISE D PSLSISDA EGKVLTTIPL PSVPKSVCVS GMANSPKSSS FAAVNLDNTL LIVDLRSYAT AAGQFNSALG QITCLTAGIN GE FLAGFAS GTVALLDLAG SEVRLRGSLR LLKNAVEMVN FGEGSGVVAA VADNRVGLLR ITEDGIAPTG DEASLESERG VPD LLAWSR DGQQLFVGTN QGNVTVFTLK VLNVSASYGT LVFSFTSNRT IGVKNLQDNR VVCTVPVNSD PAFISAGMAM LAAG VNNQV SYYEYFIPNS LPYPMVDPAK NVSQSSQQAH SVFLRTVEYP SPVTDLKVNS NLAAVVYDGR VQLSPIRDTP EAAAP VYFP ESGDTRLVSI ALSEVFFLYA TTSRVSVYAL HNLQQVATFT CNTGLKRAFA NPACTRVAYV DDSSELFNVN LVTEVA NKA EGYDPDQKMV LWDQAEATVF ITYDSEKCAT FVNTPHSRHG ATCESVLVKD SSEDNLYTPL PPGYTPVTLF RGTVVCQ TP NGTLETVPLQ THNNIFLRTP NAEAFYNNFS LNRLRWSSNN ITSPQEAEDL AVKSLHMLDV ELAIRVYRQL SQPSLVLC L EKIRHIHEKN LLLGHVSMIM GYMKDAQNFF LRSSQPLRAL EMRRDMMQWE RALTLAEQLA PEEVPIISRD YAQHLEYRG VYAKALEMYQ KGLRQLPTGH ASTELSVTVQ EVERHNEQCR QGAARSQIRI GNIADAMKTV KESSEVSFVK ECAKLCEENQ KHEEAAQLY EKAGDIERAA TIYIERCKNL KAAERLLPFI KSRNIIGIYA RGKEAEGAFV EAEKAFAQAE DWDNAVRLRI E KLNDLHGA YVIVRQTRSA NAAALVAKKC TAQKEYGTAV EFLVLAKSLD EAFELAKTHD CMFNFESALL NQVQLKDGIA PL SNQADFT MIAEYYDNDG KAGQAGMYYH ISGHYAKALN KYLESGQPED IEKAVEVVGK AHSDSLTNKF IDYLMGETDG EPK DPSYIF KLYLAMGSYE KAAKTSVIIS AKEQEIGNYK SAHKTLVEAY RILQQRNMHV SNDLRRALML LHSYIIVKDL LKIM KDDDT ACRMLLRVSR NIQKFPKHIT TIVTTTVLQC LKSNFKKSAF EYACYLIQNE KHRAEMTEKS RKKIEGIVRR HSKDD AVDP VEPMLPCPYC DAPVAETELD CGACKNTIPF CIVTGKHIVK SDYTSTPCCG FPAIYSALMT RLSGTLTCPM CEATID ISN VNRETNPELK ALL UniProtKB: Wd repeat-containing protein 19 |
-Macromolecule #7: ZINC ION
Macromolecule | Name: ZINC ION / type: ligand / ID: 7 / Number of copies: 4 / Formula: ZN |
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Molecular weight | Theoretical: 65.409 Da |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 1.1 mg/mL | ||||||||||||||||||
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Buffer | pH: 7.4 Component:
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Grid | Model: Quantifoil R2/1 / Support film - Material: CARBON / Support film - topology: CONTINUOUS | ||||||||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Instrument: FEI VITROBOT MARK IV |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 57.8 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: 2.5 µm / Nominal defocus min: 1.5 µm |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: INSILICO MODEL |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 4.0) / Number images used: 563466 |
Initial angle assignment | Type: ANGULAR RECONSTITUTION |
Final angle assignment | Type: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 4.0) |
-Atomic model buiding 1
Refinement | Space: REAL |
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Output model | PDB-8f5p: |