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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | RS head-neck monomer | |||||||||
![]() | RS head-neck monomer | |||||||||
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![]() | cilia / radial spoke / complex / STRUCTURAL PROTEIN | |||||||||
Function / homology | ![]() radial spoke head 1 / radial spoke head 2 / radial spoke head 3 / radial spoke assembly / maintenance of ciliary planar beating movement pattern / outer dense fiber / axonemal central apparatus assembly / radial spoke head / radial spoke / mating ...radial spoke head 1 / radial spoke head 2 / radial spoke head 3 / radial spoke assembly / maintenance of ciliary planar beating movement pattern / outer dense fiber / axonemal central apparatus assembly / radial spoke head / radial spoke / mating / epithelial cilium movement involved in extracellular fluid movement / kinocilium / cilium movement involved in cell motility / : / 9+2 motile cilium / cilium movement / motile cilium assembly / axoneme assembly / flagellated sperm motility / ventricular system development / Set1C/COMPASS complex / UTP biosynthetic process / CTP biosynthetic process / motile cilium / meiotic spindle / GTP biosynthetic process / nucleoside diphosphate kinase activity / axoneme / chaperone cofactor-dependent protein refolding / spermatid development / cilium assembly / sperm flagellum / negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway / 3'-5' exonuclease activity / condensed nuclear chromosome / meiotic cell cycle / establishment of localization in cell / response to reactive oxygen species / cilium / unfolded protein binding / protein-folding chaperone binding / Hydrolases; Acting on ester bonds / extracellular region / nucleus / cytosol / cytoplasm Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.28 Å | |||||||||
![]() | Meng X / Cong Y | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Multi-scale structures of the mammalian radial spoke and divergence of axonemal complexes in ependymal cilia. Authors: Xueming Meng / Cong Xu / Jiawei Li / Benhua Qiu / Jiajun Luo / Qin Hong / Yujie Tong / Chuyu Fang / Yanyan Feng / Rui Ma / Xiangyi Shi / Cheng Lin / Chen Pan / Xueliang Zhu / Xiumin Yan / Yao Cong / ![]() Abstract: Radial spokes (RS) transmit mechanochemical signals between the central pair (CP) and axonemal dynein arms to coordinate ciliary motility. Atomic-resolution structures of metazoan RS and structures ...Radial spokes (RS) transmit mechanochemical signals between the central pair (CP) and axonemal dynein arms to coordinate ciliary motility. Atomic-resolution structures of metazoan RS and structures of axonemal complexes in ependymal cilia, whose rhythmic beating drives the circulation of cerebrospinal fluid, however, remain obscure. Here, we present near-atomic resolution cryo-EM structures of mouse RS head-neck complex in both monomer and dimer forms and reveal the intrinsic flexibility of the dimer. We also map the genetic mutations related to primary ciliary dyskinesia and asthenospermia on the head-neck complex. Moreover, we present the cryo-ET and sub-tomogram averaging map of mouse ependymal cilia and build the models for RS1-3, IDAs, and N-DRC. Contrary to the conserved RS structure, our cryo-ET map reveals the lack of IDA-b/c/e and the absence of Tektin filaments within the A-tubule of doublet microtubules in ependymal cilia compared with mammalian respiratory cilia and sperm flagella, further exemplifying the structural diversity of mammalian motile cilia. Our findings shed light on the stepwise mammalian RS assembly mechanism, the coordinated rigid and elastic RS-CP interaction modes beneficial for the regulation of asymmetric ciliary beating, and also facilitate understanding on the etiology of ciliary dyskinesia-related ciliopathies and on the ependymal cilia in the development of hydrocephalus. | |||||||||
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 6.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 19.9 KB 19.9 KB | Display Display | ![]() |
Images | ![]() | 57.3 KB | ||
Filedesc metadata | ![]() | 7.2 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8wzbMC ![]() 8x2uC C: citing same article ( M: atomic model generated by this map |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | RS head-neck monomer | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.854 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
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Sample components
-Entire : radial spoke head-neck monomer complex of mouse
Entire | Name: radial spoke head-neck monomer complex of mouse |
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Components |
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-Supramolecule #1: radial spoke head-neck monomer complex of mouse
Supramolecule | Name: radial spoke head-neck monomer complex of mouse / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() ![]() |
-Macromolecule #1: DPY30 domain containing 2
Macromolecule | Name: DPY30 domain containing 2 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 18.235326 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MYPYDVPDYA ENLYFQGAAA MDTAYLKNCF GTGLTQALAE VARVRPSDPI EYLAHWLYHY RSITVAEEKR RQEELQLKEA RDRSAEEAK TTEMLKEEGY QIQQKCEKCH QELPSTSFSS DKTPALQEDT APLEEKTMRQ ESQPGASRVI SEMPQRAIPS UniProtKB: DPY30 domain containing 2 |
-Macromolecule #2: DnaJ homolog subfamily B member 13
Macromolecule | Name: DnaJ homolog subfamily B member 13 / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 40.119445 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MDYKDHDGDY KDHDIDYKDD DDKENLYFQG AAAMGLDYYA VLQVTRNSED AQIKKAYRKL ALKNHPLKSS EPGAPEIFKQ IAEAYDVLS DPVKRGIYDK FGEEGLKGGI PLEFGSQTPW TTGYVFHGNP DKVFHEFFGG DNPFSEFFDA EGNDIDLNFG G LWGRGVQK ...String: MDYKDHDGDY KDHDIDYKDD DDKENLYFQG AAAMGLDYYA VLQVTRNSED AQIKKAYRKL ALKNHPLKSS EPGAPEIFKQ IAEAYDVLS DPVKRGIYDK FGEEGLKGGI PLEFGSQTPW TTGYVFHGNP DKVFHEFFGG DNPFSEFFDA EGNDIDLNFG G LWGRGVQK QDPPIERDLY LSLEDLFFGC TKKIKISRRV LNEDRYSSTI KDKILTIDVR PGWRQGTRIT FEKEGDQGPN II PADIIFI VKEKLHPRFR REHDNLFFVY PIPLGKALTC CTVEVKTLDD RLLNIPINDI VHPKYFKIVP GEGMPLPENP SKK GDLFIF FDIQFPTRLT PQKKQMLRQA LLT UniProtKB: DnaJ homolog subfamily B member 13 |
-Macromolecule #3: Radial spoke head protein 3 homolog B
Macromolecule | Name: Radial spoke head protein 3 homolog B / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 45.23427 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MTDRNPRTAE ASGLYTYSSR PRAVACQRRR HRDSILQPVE EPMSYGNIMY DRRVIRGNTY ALPTGQVPGQ PDPLELQRQQ QARRRALAR KRAQEQLKPR TPEPVEGRKH VDIQTELYLE EIADRIVEVD MECQTDAFLD RPPTPLFIPA KTGKDVATQI L GGELFDFD ...String: MTDRNPRTAE ASGLYTYSSR PRAVACQRRR HRDSILQPVE EPMSYGNIMY DRRVIRGNTY ALPTGQVPGQ PDPLELQRQQ QARRRALAR KRAQEQLKPR TPEPVEGRKH VDIQTELYLE EIADRIVEVD MECQTDAFLD RPPTPLFIPA KTGKDVATQI L GGELFDFD LEVKPMLEVL VGKTIEQSLL EVMEEEELAN LRARQYAYEE IRNVELAEVQ RLEEQERRHR EEKERRKKQQ WE IVHKRNE TLQKISALIF ARQYLANLLP SVFDKLRNSG FFYDPIERDI EVGFLPWLMN EVEKSMEHSM VGRTVLDMLI RDV VERRIN DYEHKEAMPP GQKTNVINGP NTVTDPSVTT LHTQKPVLDR VSSQPAPSQE RKPVEEGGHL MAE UniProtKB: Radial spoke head protein 3 homolog B |
-Macromolecule #4: Nucleoside diphosphate kinase homolog 5
Macromolecule | Name: Nucleoside diphosphate kinase homolog 5 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 25.547516 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MEQKLISEED LGSGMEVSMP LPQIYVEKTL ALIKPDVVDK EEEIQDIILG SGFTIIQRRK LHLSPEHCSN FYVEQYGKMF FPNLTAYMS SGPLVAMILA RHKAISYWKE LMGPSNSLVA KETHPDSLRA IYGTDELRNA LHGSNDFAAS EREIRFMFPA V IIEPIPIG ...String: MEQKLISEED LGSGMEVSMP LPQIYVEKTL ALIKPDVVDK EEEIQDIILG SGFTIIQRRK LHLSPEHCSN FYVEQYGKMF FPNLTAYMS SGPLVAMILA RHKAISYWKE LMGPSNSLVA KETHPDSLRA IYGTDELRNA LHGSNDFAAS EREIRFMFPA V IIEPIPIG QAAKDYINLY VAPTLLQGLT ELCKEKPPDP YLWLADWLMK NNPNKPKLCH FPVTEEP UniProtKB: Nucleoside diphosphate kinase homolog 5 |
-Macromolecule #5: Radial spoke head 1 homolog
Macromolecule | Name: Radial spoke head 1 homolog / type: protein_or_peptide / ID: 5 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 35.592766 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MWSHPQFEKG SGMSDLGSEE LEEEGENDLG EYEGERNEVG ERHGHGKARL PNGDTYEGSY EFGKRHGQGT YKFKNGARYT GDYVKNKKH GQGTFIYPDG SRYEGEWADD QRHGQGVYYY VNNDTYTGEW FNHQRHGQGT YLYAETGSKY VGTWVHGQQE G AAELIHLN ...String: MWSHPQFEKG SGMSDLGSEE LEEEGENDLG EYEGERNEVG ERHGHGKARL PNGDTYEGSY EFGKRHGQGT YKFKNGARYT GDYVKNKKH GQGTFIYPDG SRYEGEWADD QRHGQGVYYY VNNDTYTGEW FNHQRHGQGT YLYAETGSKY VGTWVHGQQE G AAELIHLN HRYQGKFMNK NPVGPGKYVF DIGCEQHGEY RLTDTERGEE EEEEETLVNI VPKWKALNIT ELALWTPTLS EE QPPPEGQ GQEEPQGLTG VGDPSEDIQA EGFEGELEPR GADEDVDTFR QESQENSYDI DQGNLNFDEE PSDLQD UniProtKB: Radial spoke head 1 homolog |
-Macromolecule #6: Radial spoke head protein 4 homolog A
Macromolecule | Name: Radial spoke head protein 4 homolog A / type: protein_or_peptide / ID: 6 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 80.214102 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MENSTSLKQE KENQEPGEAE RLWQGESDVS PQEPGPPSPE YREEEQRTDT EPAPRMSPSW SHQSRVSLST GDLTAGPEVS SSPPPPPLQ FHSTPLNTET TQDPVAASPT EKTANGIADT GTPYSDPWES SSAAKQSTSH YTSHAEESTF PQSQTPQPDL C GLRDASRN ...String: MENSTSLKQE KENQEPGEAE RLWQGESDVS PQEPGPPSPE YREEEQRTDT EPAPRMSPSW SHQSRVSLST GDLTAGPEVS SSPPPPPLQ FHSTPLNTET TQDPVAASPT EKTANGIADT GTPYSDPWES SSAAKQSTSH YTSHAEESTF PQSQTPQPDL C GLRDASRN KSKHKGLRFD LLQEEGSDSN CDPDQPEVGA SEAAQSMLEV AIQNAKAYLL STSSKSGLNL YDHLSKVLTK IL DERPADA VDIIENISQD VKMAHFNKKL DTLHNEYEML PAYEIAETQK ALFLQGHLEG ADSELEEEMA ESSLPNVMES AYY FEQAGV GLGTDETYRV FLALKQLTDT HPIQRCRFWG KILGLEMNYI VAEVEFRDGE DEEEVEEEGI AEERDNGGSE AGEE EEEEL PKSLYKAPQV IPKEESRTGA NKYVYFVCNV PGRPWVRLPS VTPAQIVTAR KIKKFFTGRL DAAVISYPPF PGNES NYLR AQIARISAGT HVSPLGFYQF GEEEGEEEEV EGGRDSYEEN PDFEGIQVID LVESLSNWVH HVQYILPQGR CNWFNP IQK DEDEEEEEEE DEEKGEEPDY IEQEVGPPLL TPISEDLGIQ NIPSWTTQLS SNLIPQYAIA VLRSNLWPGA YAFSNGK KF ENFYIGWGHK YCVENYTPPS PPPVYQEYPS GPEITEMNDP SVEEEQAFRM TQEPVALSTE ENEGTEDEDE DDED UniProtKB: Radial spoke head protein 4 homolog A |
-Macromolecule #7: Radial spoke head protein 9 homolog
Macromolecule | Name: Radial spoke head protein 9 homolog / type: protein_or_peptide / ID: 7 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 31.365902 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MDADSLLLSL ELASGSGQGL SPDRRASLLT SLMLVKRDYR FARVLFWGRI LGLVADYYIA QGLSEDQLAP RKTLYSLNCT EWSLLPPAT EEMAMQISVV SGRFMGDPSH EYEHTELQKV NEGEKVFDEE VVVQIKEETR LVSIIDQIDK AVAIIPRGAL F KTPFGVTH ...String: MDADSLLLSL ELASGSGQGL SPDRRASLLT SLMLVKRDYR FARVLFWGRI LGLVADYYIA QGLSEDQLAP RKTLYSLNCT EWSLLPPAT EEMAMQISVV SGRFMGDPSH EYEHTELQKV NEGEKVFDEE VVVQIKEETR LVSIIDQIDK AVAIIPRGAL F KTPFGVTH VNRTFEGLPL SEVRKLSSYF HFREAIDLKN KTLLEKSDLE PSLDFLDSLE YDIPRGSWSI QMERGNALVV LR SLLWPGL TFYHAPRTKN YGYIYVGTGE KNMDLPFML UniProtKB: Radial spoke head protein 9 homolog |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 Details: 25 mM HEPES pH 7.5, 200 mM KCl, 0.05% NP-40, 1 mM EDTA, 10 mM Na4P2O7, 10% Glycerol, 1mM DTT and protease inhibitor cocktails |
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Grid | Material: COPPER / Pretreatment - Type: PLASMA CLEANING / Pretreatment - Time: 30 sec. |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 54.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.7 µm / Nominal defocus min: 1.0 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Startup model | Type of model: NONE |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.28 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 433940 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |