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- EMDB-52728: Spoke 12-14 of the NEDD1-bound native vertebrate gamma-tubulin ri... -

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Basic information

Entry
Database: EMDB / ID: EMD-52728
TitleSpoke 12-14 of the NEDD1-bound native vertebrate gamma-tubulin ring complex from Xenopus laevis
Map dataLocal resolution-filtered map after focused refinement of spoke 12-14 of the NEDD1-bound native vertebrate gamma-tubulin ring complex from Xenopus laevis
Sample
  • Complex: Tetramer of NEDD1 bound to the gamma-tubulin ring complex
    • Protein or peptide: Gamma-tubulin complex component 2
    • Protein or peptide: Gamma-tubulin complex component 3
    • Protein or peptide: Gamma-tubulin complex component 4
    • Protein or peptide: Gamma-tubulin complex component 6
    • Protein or peptide: Gamma-tubulin complex component 5
    • Protein or peptide: Mitotic-spindle organizing protein 1
Keywordscytoskeleton / microtubule / microtubule nucleation / complex / template / cap / gamma-tubulin / gamma-tubulin ring complex / cell cycle / nedd1 / neural precursor cell-expressed developmentally down-regulated 1
Function / homology
Function and homology information


microtubule minus-end binding / microtubule nucleation by interphase microtubule organizing center / gamma-tubulin complex localization / interphase microtubule organizing center / gamma-tubulin complex / gamma-tubulin ring complex / microtubule nucleation / gamma-tubulin binding / mitotic spindle assembly / spindle assembly ...microtubule minus-end binding / microtubule nucleation by interphase microtubule organizing center / gamma-tubulin complex localization / interphase microtubule organizing center / gamma-tubulin complex / gamma-tubulin ring complex / microtubule nucleation / gamma-tubulin binding / mitotic spindle assembly / spindle assembly / cytoplasmic microtubule organization / meiotic cell cycle / spindle / spindle pole / mitotic cell cycle / microtubule / centrosome / cytoplasm
Similarity search - Function
Mitotic-spindle organizing protein 1 / Mitotic-spindle organizing gamma-tubulin ring associated / Gamma-tubulin complex component 6, N-terminal / Gamma-tubulin complex component 6 N-terminus / Gamma tubulin complex component, C-terminal / Gamma-tubulin complex component, C-terminal domain superfamily / Gamma tubulin complex component C-terminal / Gamma-tubulin complex component protein / Gamma tubulin complex component protein, N-terminal / Gamma tubulin complex component N-terminal
Similarity search - Domain/homology
Gamma-tubulin complex component / Gamma-tubulin complex component / Gamma-tubulin complex component 6 / Gamma-tubulin complex component 3 homolog / Mitotic-spindle organizing protein 1 / Gamma-tubulin complex component
Similarity search - Component
Biological speciesXenopus laevis (African clawed frog)
Methodsingle particle reconstruction / cryo EM / Resolution: 7.5 Å
AuthorsVermeulen BJA / Pfeffer S
Funding support Germany, 7 items
OrganizationGrant numberCountry
German Research Foundation (DFG)DFG Schi 295/4-4 Germany
German Research Foundation (DFG)DFG Schi 295/11-1 Germany
German Research Foundation (DFG)DFG PF 963/1-4 Germany
German Research Foundation (DFG)DFG PF 963/4-1 Germany
German Research Foundation (DFG)INST 35/1314-1 FUGG Germany
German Research Foundation (DFG)INST 35/1503-1 FUGG Germany
German Research Foundation (DFG)INST 35/1134-1 FUGG Germany
CitationJournal: Nat Commun / Year: 2025
Title: Structural mechanisms for centrosomal recruitment and organization of the microtubule nucleator γ-TuRC.
Authors: Qi Gao / Florian W Hofer / Sebastian Filbeck / Bram J A Vermeulen / Martin Würtz / Annett Neuner / Charlotte Kaplan / Maja Zezlina / Cornelia Sala / Hyesu Shin / Oliver J Gruss / Elmar ...Authors: Qi Gao / Florian W Hofer / Sebastian Filbeck / Bram J A Vermeulen / Martin Würtz / Annett Neuner / Charlotte Kaplan / Maja Zezlina / Cornelia Sala / Hyesu Shin / Oliver J Gruss / Elmar Schiebel / Stefan Pfeffer /
Abstract: The γ-tubulin ring complex (γ-TuRC) acts as a structural template for microtubule formation at centrosomes, associating with two main compartments: the pericentriolar material and the centriole ...The γ-tubulin ring complex (γ-TuRC) acts as a structural template for microtubule formation at centrosomes, associating with two main compartments: the pericentriolar material and the centriole lumen. In the pericentriolar material, the γ-TuRC is involved in microtubule organization, while the function of the centriole lumenal pool remains unclear. The conformational landscape of the γ-TuRC, which is crucial for its activity, and its centrosomal anchoring mechanisms, which determine γ-TuRC activity and turnover, are not understood. Using cryo-electron tomography, we analyze γ-TuRCs in human cells and purified centrosomes. Pericentriolar γ-TuRCs simultaneously associate with the essential adapter NEDD1 and the microcephaly protein CDK5RAP2. NEDD1 forms a tetrameric structure at the γ-TuRC base through interactions with four GCP3/MZT1 modules and GCP5/6-specific extensions, while multiple copies of CDK5RAP2 engage the γ-TuRC in two distinct binding patterns to promote γ-TuRC closure and activation. In the centriole lumen, the microtubule branching factor Augmin tethers a condensed cluster of γ-TuRCs to the centriole wall with defined directional orientation. Centriole-lumenal γ-TuRC-Augmin is protected from degradation during interphase and released in mitosis to aid chromosome alignment. This study provides a unique view on γ-TuRC structure and molecular organization at centrosomes and identifies an important cellular function of centriole-lumenal γ-TuRCs.
History
DepositionFeb 5, 2025-
Header (metadata) releaseMar 19, 2025-
Map releaseMar 19, 2025-
UpdateMar 26, 2025-
Current statusMar 26, 2025Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_52728.png

Downloads & links

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Map

FileDownload / File: emd_52728.map.gz / Format: CCP4 / Size: 216 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationLocal resolution-filtered map after focused refinement of spoke 12-14 of the NEDD1-bound native vertebrate gamma-tubulin ring complex from Xenopus laevis
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.43 Å/pix.
x 384 pix.
= 547.853 Å		1.43 Å/pix.
x 384 pix.
= 547.853 Å		1.43 Å/pix.
x 384 pix.
= 547.853 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.4267 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0189
Minimum - Maximum-0.039360806 - 0.06378242
Average (Standard dev.)0.00004477852 (±0.0018414725)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions384384384
Spacing384384384
CellA=B=C: 547.8528 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: Half map 2 for the focused refinement of...

Fileemd_52728_half_map_1.map
AnnotationHalf map 2 for the focused refinement of spoke 12-14 of the NEDD1-bound native vertebrate gamma-tubulin ring complex from Xenopus laevis
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Half map 1 for the focused refinement of...

Fileemd_52728_half_map_2.map
AnnotationHalf map 1 for the focused refinement of spoke 12-14 of the NEDD1-bound native vertebrate gamma-tubulin ring complex from Xenopus laevis
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Tetramer of NEDD1 bound to the gamma-tubulin ring complex

EntireName: Tetramer of NEDD1 bound to the gamma-tubulin ring complex
Components
  • Complex: Tetramer of NEDD1 bound to the gamma-tubulin ring complex
    • Protein or peptide: Gamma-tubulin complex component 2
    • Protein or peptide: Gamma-tubulin complex component 3
    • Protein or peptide: Gamma-tubulin complex component 4
    • Protein or peptide: Gamma-tubulin complex component 6
    • Protein or peptide: Gamma-tubulin complex component 5
    • Protein or peptide: Mitotic-spindle organizing protein 1

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Supramolecule #1: Tetramer of NEDD1 bound to the gamma-tubulin ring complex

SupramoleculeName: Tetramer of NEDD1 bound to the gamma-tubulin ring complex
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Xenopus laevis (African clawed frog)

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Macromolecule #1: Gamma-tubulin complex component 2

MacromoleculeName: Gamma-tubulin complex component 2 / type: protein_or_peptide / ID: 1 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
SequenceString: MSEFRIHHDV NELISLLHVF GLEGADVYID LLQKNRTPYV TTSVSTHSAK VKIAEFSRTP DDFLKKYEE LKSKNTRNLD PLVYLLSKLI EDKETLQYLQ QNAKDKAELA TSSVTSVSLP I APNTSKIS MQELEELRRQ LETATVAVSC SHQPVEVLRK FLRDKLNKKH ...String:
MSEFRIHHDV NELISLLHVF GLEGADVYID LLQKNRTPYV TTSVSTHSAK VKIAEFSRTP DDFLKKYEE LKSKNTRNLD PLVYLLSKLI EDKETLQYLQ QNAKDKAELA TSSVTSVSLP I APNTSKIS MQELEELRRQ LETATVAVSC SHQPVEVLRK FLRDKLNKKH TGHPVPVFPS WV YERPALT GDFMSFSNPS TDVTVSIGTL PLPSQETCLV EDLLYILIGV DGRYISVQPL VGR QSRSFS VEQNLDSSVK ELVNRILPVA TNYSTVTRFV EENSSFEYGQ VNHALGAAMR TLGK EYMIL ISQLEHLQRQ GLLSLQKLWF YIQPTLRTME VLASIATSLN KGECFGGATL SLLHD RTFG YTGDSQAQEL CLYLTKAASA PYFDILERWI YRGIINDPYS EFMVEEHELQ KEKIQE DYN DKYWDQRYTI VQQQIPSFLQ KVADKILSTG KYLNVVRECG HDVTCPDAKE ITYTLKE QA YVERIEKAYN YASKVLLDFL MEEEELVAHL RSIKHYFLMD QGDFFVHFMD LTEEELKK P VDDIIPTRLE ALLELALRMS TANTDPFKDD LKIELMPHDL ITQLLRVLAI ETHQEKALI NSDPTELALS GLESFSFDYI VKWPLSLIIN RKALTRYQML FRHMFYCKHV ERLLCNVWIS NKTAKQFSL HSAKWFAGAF TLRQRMLNFV QNIQYYMMFE VMEPTWHILE KNLKSASNID D VLSHHTSF LDNCLKDCML TNPELLKIFS KLMSVCVMFT NCLQRFTQSM QVQTEMEHLT LE HGTMMGP PTQCERTEEA LKKKLTSKYL EEHIDKFPSS FGFESTINNF DSNFSAHLMD LLD KLSMYS TSDCEHSMIN IIYRLDFNGF YTERLKQLSS ERNQKSAPLL GPAQHAVSTK

UniProtKB: Gamma-tubulin complex component

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Macromolecule #2: Gamma-tubulin complex component 3

MacromoleculeName: Gamma-tubulin complex component 3 / type: protein_or_peptide / ID: 2 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
SequenceString: MAVPDQKSPN VLLQNLCCRI LGKGEADVAQ QFQYAVRVIG SNFAPTVERD EFLVTEKIKK EFVRQRREA DGALFSELHR KLQSQGVLKN RWSILYLLLS LSEDPRKQPN KTSSFAALFA Q ALPRDAHS TPYYYARPQS LPLSYQDRNV QCAQNAASIG SSGISSIGMY ...String:
MAVPDQKSPN VLLQNLCCRI LGKGEADVAQ QFQYAVRVIG SNFAPTVERD EFLVTEKIKK EFVRQRREA DGALFSELHR KLQSQGVLKN RWSILYLLLS LSEDPRKQPN KTSSFAALFA Q ALPRDAHS TPYYYARPQS LPLSYQDRNV QCAQNAASIG SSGISSIGMY ALNGPTPQSI IQ GQSNQTP NMGDALRQQL GSRLAWTLAA GQQPSQQSTT TKGLPNTVSR NVPRTRREGD SSG SVEITE TSLVRDLLYV FQGIDGKFVK MCNSENCYKV DGKVAVSKSL KDITSKLSEL GWLH NKIKK YTDQRSLDRA FGLVGQSFCA ALHQELKEYY RLLSVLHSQL QVEDDQGVNL GVESS LTLR RLLVWTFDPK IRLKTLAALV DHCQGRKGGE LASAVHAYTK TGDPYMRSLV QHILGL VAY PILNFLYRWI YDGELEDTYH EFFVASDPVV KTDRLWHDKY SLRKSMIPSF MTMDQSR KV LLIGKSINFL HQVCHDQTPA SKAMAVGKSA ESPKDAAELF TDLENAFQTK IDAAYFDT S KYLLDVLNKN YNLLEHMQAM RRYLLLGQGD FIRHLMDLLK PELVRPATTL YQHNLTGIL ETAVRATNAQ FDNPEILKRL DVRLLEVSPG DTGWDVFSLD YHVDGPIATV FTRECMSHYL RVFNFLWRA KRMEYILTDI WKGHMCNAKL LKGMPELSGV LHQCHILASE MVHFIHQMQY Y ITFEVLEC SWDELWNKVL KAQDLDHIIA AHDVFLDTII SRCLLDSESR ALLNQLRAVF DQ IIEFQNA QDALYRAALE ELQQRLQFEE RKKERESEGE WGVTAAEEDV ENKRIQEFQE SIP KMRSQL RILTHFYQGI VQQFLVLLTT STDESLRFLS FRLDFNEHYK AREPRLRVSM GTRG RRSFH V

UniProtKB: Gamma-tubulin complex component 3 homolog

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Macromolecule #3: Gamma-tubulin complex component 4

MacromoleculeName: Gamma-tubulin complex component 4 / type: protein_or_peptide / ID: 3 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
SequenceString: MIHELLLALS GYPGSIFTWN KRTGLQVSQD IPFLHPGETS VLNRLCKLGT DYIRFTEFIE QYTGHVQQQ DHHPSQQGQV GLHGIYLRAF CRGLDSILQP YRQALLDLEQ EFLADPHLSI S HINYSLDQ FHLLFPSIMV VVEQIKSQKI HGCQILETVY KHSCGGLPPV ...String:
MIHELLLALS GYPGSIFTWN KRTGLQVSQD IPFLHPGETS VLNRLCKLGT DYIRFTEFIE QYTGHVQQQ DHHPSQQGQV GLHGIYLRAF CRGLDSILQP YRQALLDLEQ EFLADPHLSI S HINYSLDQ FHLLFPSIMV VVEQIKSQKI HGCQILETVY KHSCGGLPPV RSALEKTLAV CH GVMYKQL SAWMLHGLLL DQYEEFFVRQ GSSSGNLAAA FEEEEDDLGI GGLTGKQLRE LQD LRLIEE ENMLAPSLKQ FSLRAEMLPS YIPVRVAEKI LFVGESVQMF ENQNVNMSRT GSIL KNQED TFAAELHRLK QQPLFSLVDF ESVLDRIRST VAEHLWKLMV EESDLLGQLK IIKDF YLLG RGELFQAFID VAQNMLKTPP TAVTEHDVNV AFQLSAHKVL LDDDNLLPLL NLTIDY HGK EHKDTSQPRE GPFRDMSPRE APTSGWAALG LSYKVQWPLH ILFTPAVLEK YNVVFKY LL SVRRVQSELQ HCWALQMQRK HLESNKTDAI KWRLQNHMAF LVDNLQYYLQ VDVLESQF S QLLQQINSTR DFESIRLAHD HFLSNLLAQS FILLKPVFHC LNEILELCHS FCSLVSQNL GPLDERGAGQ LDILVKGFSC QSSLLFRILS SVRNHQINPD LAQLLLRLDY NKYYTQAGGT LGSFGL

UniProtKB: Gamma-tubulin complex component

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Macromolecule #4: Gamma-tubulin complex component 6

MacromoleculeName: Gamma-tubulin complex component 6 / type: protein_or_peptide / ID: 4 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
SequenceString: MDSITKLFGD LCESHMVGFP WRTALNSRKH SKNRTKQTLK KLAYDTLFVH LFQDEARKLQ PNCTRLPVK NKIIMLSFNL RICGMSSEAD RLEELVEYLE QSNGIQISDL HAVLELLVEL S GTGPPQLL PPKRDYFKNN KYVGRNVKYQ GYDYYDVQVF EADLGTTVAY ...String:
MDSITKLFGD LCESHMVGFP WRTALNSRKH SKNRTKQTLK KLAYDTLFVH LFQDEARKLQ PNCTRLPVK NKIIMLSFNL RICGMSSEAD RLEELVEYLE QSNGIQISDL HAVLELLVEL S GTGPPQLL PPKRDYFKNN KYVGRNVKYQ GYDYYDVQVF EADLGTTVAY QELEISTTIQ RT LQIMEAA PGTGLPALSF FSQNDLSTDK FEKETRGSLF GALVHSRTND MDIKLDMPPV PEN ADLSGL AIKVPQSIDQ SEDEGFQSAS NMTPDSQSEP SMTPDIDVWE AVLTYGPSKR RCWE RIGCP PGKREEPYVT EAGREAFDKL YKLHEGGLQI LSATTLQPQL VLLEETDLVK AVLNV LIGV VSSTFSYNQA LQSFAVKQGV YISGTSPDNV SSLLTQVAEY GTYYTRLSHF SLLTVL DSS HSNGLVFQAF TSGLRKYLQY YRACVLSTPA SLTLLTISFL FRKLGRQLRY LAELCCI GT LVTSATRGIS TAFPTGVKLL SYLYKEALEN SSNENYPVLL SLLKTSCEPY TRFIYDWV Y SGVFRDVCGE FMIQVNEDYL GFRDKRYWTH GYVLISKEVE DCVPVFLKHV ANEIYICGK TINLLKLCCP KHYICWSDIP VPRISVTFSL EELKEMEKDC AVYVARMERI ARHSCISKEQ KALQTEIAR QELIIQARET TEKVFETFKD RKLAEKLSLD TKKRELFQKL KDQYEKEQER R LTTKQEEA DDDFSYAREI RDREKRLKAL EEELELKTRQ ELIEHYSRLS EEATRKEQRA LW KLQRHKL ETIRLKFFLE EQKRMQDLVA NFPVDICEEN LGVLPDGEIS HQTDNTNDAG LGN IENEKS VPEQHALHNN NDEVYTAQNC ISKSESLCVD VTLPTENVHS QTSNASVLGV PSFD SNLCT PDVDIIDFLP TLPSENQEVA VVQSLVDDAL ISIGSDLNTD TKDKESLCAL KSDLQ ESST GSEYDFKTIL KPIACTQVSQ GHIKIGEYSS NVQPARPRWS THGHSSDSNI KIGNYV SDI NVHQPKHSQH GHSSDSNINI SDHMSDVEPR LPRLNLHGHI STGHIKVGEY ASDVEPS TP RHSVHGHASQ GNIKIGENVS DVKLSRPRWN IHGHVSDANI KIGENTSEIA PLRPRWNI H GHASQSHIKI GELVSDIEPS QPRRTPFGHP SQSSIPIGDQ PVEKYAQKSE SEVHSSNST IQHLLYSNIP DKNKDTGGTL TDSPVPVPDQ GNSNDDTEKR SSTLEQRVQA ADSVCDGEAS PNTAQSLPC MSDTLDFGTN GEENVGNDDH TWEKQQEYLK GLAEKYCLEK YQDSYELMSH P PVLHLYSN VMPNRFSFPT DSDIKSATDE TTVQLIELLS LPVLMKYSVT APMVSHVYLV NK AIVDYYF VELKMERHFE AMRHFLLMED GEFAQSLSDM LFEKLGSGQT PSELLNPLVL NSI LNKALQ YSLHGDSSLA SNLTFALKYL PEVFTPTAPD ALSCLELKYK VDWPLNIVIT DTCM NKYSR IFSFLLQLKH MVWTLRDVWF HLKRTALVNQ ASNSVQYRQL QLYRHEMQHF VKVIQ GYIA NQILHVTWCE FRNKLSAVSN LEEIYKTHAD YLNKALFRGL LTEKAAPLMN IIHSIF SLI LKFRLQLISQ SWICDTGKQM AVHPNFGLMQ QSYNTFKYYS DFLFEVVSKL VNRGYQP HL EDFLLRINFN SYYKQS

UniProtKB: Gamma-tubulin complex component 6

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Macromolecule #5: Gamma-tubulin complex component 5

MacromoleculeName: Gamma-tubulin complex component 5 / type: protein_or_peptide / ID: 5 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
SequenceString: MAHWTRFERD QEGDIKKLVS LMSGIQDDQD GNFQQALQFA WSNFRFHRYL DVSSHTVLRT LEGIFEKLV VHSDLEKAES WKRLTEEFLL LPLPNTEGTK TDSHFAVLSL LLCLSDSPSN H DYTEKPRK KENDEQEPFD WGKYLREGED IEFSPDADTP EWSEASEEED ...String:
MAHWTRFERD QEGDIKKLVS LMSGIQDDQD GNFQQALQFA WSNFRFHRYL DVSSHTVLRT LEGIFEKLV VHSDLEKAES WKRLTEEFLL LPLPNTEGTK TDSHFAVLSL LLCLSDSPSN H DYTEKPRK KENDEQEPFD WGKYLREGED IEFSPDADTP EWSEASEEED AQEPPSREDS GI QVDRTPL EDPEKKGAPP LVSWKVGEPD ARSWLEQHIV HQYWTSRAPR FSHSSHLHSN LSA IWDQHL YTTDPLYTPD DKTIVTETQV IRETLWLLSG VKKLLIFQLN DGKVNVRNDI IVTH MTQNC LRSVLEQIAA YGQVVFRLQK FIDEITGHGS EVPLPGTLPT AKKTTEAPFR TYQAF MWAL YKYFISFKEE LTEIEKCIIN KDETVTLAIV LDKLAPRLAQ LKVLHRVFST GIAEVP PDT RNVVRASHLL NTLYKAILDY DNVGEASEQT VSLLFCLWVE TVRPYLEIVD EWIVHGN LF DPAKEFIIQR NKDVPFNHRD FWYATYTLYS VSEKTENEDK MSDNASASSG SDQAPAGR Q HTMVSFLKPV LKQIIMAGKS MQLLKNLKCR TALQQDSSRD SDRKSLYTLF LESVQSRLQ HGNDSVPDII TEQQVNKLSL IKMQSIVAKH LELDEVHDPL LAINFVRLYL EQSDFLETFT CNEVCVDRS SESVTCQSFE LTLRSCLYPH IGKQYLECCG NLMYTLKKDY RLVEYLQAMR N FFLLEAGD TMYDFYTPIF DKIREKEPWL NLSYLNVQIQ EAVGQRYPDD STRLSVSFES VD LAKKKLP VHTLDGLILS YKVPWPVDIV ISSECQKIYN QVFLLLLLIK WAKYSLDVLQ FNE LGNASE NESTKEGATV EPFPLPPLTS PSEPKGQQIH RMFLLRVKLM HFVNSLHNYL MTRI LHSTG LEFQHQVEEA KDLDQLIKIH YRYLSTIHDR CLLREKVSSV KEAIMKVLNV VLMFA DRWH AGLGAWKKES IVKMESDFTN CHKFLVKVLN KAVCRGSFPH LESLALSLMA GMEQS

UniProtKB: Gamma-tubulin complex component

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Macromolecule #6: Mitotic-spindle organizing protein 1

MacromoleculeName: Mitotic-spindle organizing protein 1 / type: protein_or_peptide / ID: 6 / Enantiomer: LEVO
Source (natural)Organism: Xenopus laevis (African clawed frog)
SequenceString:
MANASGNMSA VRETMDVLLE ISRLLNTGLD METLSICVRL CEQGINPEAL SSVIKELRRA SDTLKASES TAS

UniProtKB: Mitotic-spindle organizing protein 1

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 51.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: EMDB MAP
EMDB ID:

10491


Details: The reference contains no density for the NEDD1/N-GCP/MZT1 grapnel and density for the GRIP2 domains and gamma-tubulins at spokes 5 and 6 was removed
Final reconstructionResolution.type: BY AUTHOR / Resolution: 7.5 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 82813
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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