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- EMDB-21251: Cryo-EM structure of apo-BBSome -

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Basic information

Entry
Database: EMDB / ID: EMD-21251
TitleCryo-EM structure of apo-BBSome
Map data
Sample
  • Complex: BBSome complex
    • Protein or peptide: Bardet-Biedl syndrome 18 protein
    • Protein or peptide: Bardet-Biedl syndrome 2 protein homolog
    • Protein or peptide: Bardet-Biedl syndrome 4 protein homolog
    • Protein or peptide: Bardet-Biedl syndrome 5 protein homolog
    • Protein or peptide: Bardet-Biedl syndrome 7 protein homolog
    • Protein or peptide: Tetratricopeptide repeat domain 8
    • Protein or peptide: Bardet-Biedl syndrome 9
    • Protein or peptide: BBS1 domain-containing protein
KeywordsPROTEIN TRANSPORT
Function / homology
Function and homology information


establishment of anatomical structure orientation / BBSome-mediated cargo-targeting to cilium / multi-ciliated epithelial cell differentiation / receptor localization to non-motile cilium / renal tubule development / BBSome / camera-type eye photoreceptor cell differentiation / smoothened binding / establishment of planar polarity / photoreceptor connecting cilium ...establishment of anatomical structure orientation / BBSome-mediated cargo-targeting to cilium / multi-ciliated epithelial cell differentiation / receptor localization to non-motile cilium / renal tubule development / BBSome / camera-type eye photoreceptor cell differentiation / smoothened binding / establishment of planar polarity / photoreceptor connecting cilium / inner ear receptor cell stereocilium organization / patched binding / olfactory bulb development / non-motile cilium assembly / establishment of epithelial cell apical/basal polarity / protein localization to cilium / phosphatidylinositol-3-phosphate binding / regulation of stress fiber assembly / non-motile cilium / motile cilium / centrosome cycle / ciliary membrane / pericentriolar material / fat cell differentiation / axoneme / centriolar satellite / cilium assembly / intracellular transport / ciliary basal body / axon guidance / protein localization to plasma membrane / multicellular organism growth / cilium / sensory perception of smell / protein localization / protein transport / regulation of protein localization / protein-macromolecule adaptor activity / RNA polymerase II-specific DNA-binding transcription factor binding / neuron projection / centrosome / membrane / cytoplasm
Similarity search - Function
Bardet-Biedl syndrome 7 protein / Bardet-Biedl syndrome 2 protein / Ciliary BBSome complex subunit 2, C-terminal domain / Ciliary BBSome complex subunit 2, middle region / Ciliary BBSome complex subunit 2, N-terminal / Ciliary BBSome complex subunit 2, N-terminal / Ciliary BBSome complex subunit 2, C-terminal / Ciliary BBSome complex subunit 2, middle region / Bardet-Biedl syndrome 5 protein / DM16 repeat ...Bardet-Biedl syndrome 7 protein / Bardet-Biedl syndrome 2 protein / Ciliary BBSome complex subunit 2, C-terminal domain / Ciliary BBSome complex subunit 2, middle region / Ciliary BBSome complex subunit 2, N-terminal / Ciliary BBSome complex subunit 2, N-terminal / Ciliary BBSome complex subunit 2, C-terminal / Ciliary BBSome complex subunit 2, middle region / Bardet-Biedl syndrome 5 protein / DM16 repeat / Cilia BBSome complex subunit 10 / Tetratricopeptide repeat protein 8 / Bardet-Biedl syndrome 5 protein/sex-determination protein fem-3 / Bardet-Biedl syndrome 5 protein / Cilia BBSome complex subunit 10 / Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc. / Parathyroid hormone-responsive B1 / PTHB1, N-terminal domain / PTHB1, C-terminal domain / PTHB1 N-terminus / PTHB1 C-terminus / Bardet-Biedl syndrome 1 protein / Bardet-Biedl syndrome 1, N-terminal / Ciliary BBSome complex subunit 1 / TPR repeat / Tetratricopeptide repeat / Tetratricopeptide repeat / Quinoprotein alcohol dehydrogenase-like superfamily / Tetratricopeptide repeat / TPR repeat region circular profile. / TPR repeat profile. / Tetratricopeptide repeats / Tetratricopeptide repeat / Tetratricopeptide-like helical domain superfamily / PH-like domain superfamily / WD40-repeat-containing domain superfamily / WD40/YVTN repeat-like-containing domain superfamily
Similarity search - Domain/homology
Bardet-Biedl syndrome 5 protein homolog / Bardet-Biedl syndrome 9 / Bardet-Biedl syndrome 1 / Bardet-Biedl syndrome 7 protein homolog / Tetratricopeptide repeat domain 8 / BBSome interacting protein 1 / BBSome complex member BBS4 / Bardet-Biedl syndrome 2 protein homolog
Similarity search - Component
Biological speciesBos taurus (cattle)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.44 Å
AuthorsYang S / Walz T
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01-GM089933 United States
CitationJournal: Elife / Year: 2020
Title: Near-atomic structures of the BBSome reveal the basis for BBSome activation and binding to GPCR cargoes.
Authors: Shuang Yang / Kriti Bahl / Hui-Ting Chou / Jonathan Woodsmith / Ulrich Stelzl / Thomas Walz / Maxence V Nachury /
Abstract: Dynamic trafficking of G protein-coupled receptors (GPCRs) out of cilia is mediated by the BBSome. In concert with its membrane recruitment factor, the small GTPase ARL6/BBS3, the BBSome ferries ...Dynamic trafficking of G protein-coupled receptors (GPCRs) out of cilia is mediated by the BBSome. In concert with its membrane recruitment factor, the small GTPase ARL6/BBS3, the BBSome ferries GPCRs across the transition zone, a diffusion barrier at the base of cilia. Here, we present the near-atomic structures of the BBSome by itself and in complex with ARL6, and we describe the changes in BBSome conformation induced by ARL6 binding. Modeling the interactions of the BBSome with membranes and the GPCR Smoothened (SMO) reveals that SMO, and likely also other GPCR cargoes, must release their amphipathic helix 8 from the membrane to be recognized by the BBSome.
History
DepositionJan 29, 2020-
Header (metadata) releaseJul 1, 2020-
Map releaseJul 1, 2020-
UpdateMar 6, 2024-
Current statusMar 6, 2024Processing site: RCSB / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.018
  • Imaged by UCSF Chimera
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  • Surface view colored by radius
  • Surface level: 0.018
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-6vnw
  • Surface level: 0.022
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_21251.png

Downloads & links

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Map

FileDownload / File: emd_21251.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.3 Å/pix.
x 320 pix.
= 416. Å		1.3 Å/pix.
x 320 pix.
= 416. Å		1.3 Å/pix.
x 320 pix.
= 416. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.3 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.018 / Movie #1: 0.018
Minimum - Maximum-0.24943139 - 0.40319476
Average (Standard dev.)0.0000053318463 (±0.0054252753)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 416.0 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.31.31.3
M x/y/z320320320
origin x/y/z0.0000.0000.000
length x/y/z416.000416.000416.000
α/β/γ90.00090.00090.000
start NX/NY/NZ000
NX/NY/NZ360360360
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS320320320
D min/max/mean-0.2490.4030.000

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Supplemental data

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Sample components

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Entire : BBSome complex

EntireName: BBSome complex
Components
  • Complex: BBSome complex
    • Protein or peptide: Bardet-Biedl syndrome 18 protein
    • Protein or peptide: Bardet-Biedl syndrome 2 protein homolog
    • Protein or peptide: Bardet-Biedl syndrome 4 protein homolog
    • Protein or peptide: Bardet-Biedl syndrome 5 protein homolog
    • Protein or peptide: Bardet-Biedl syndrome 7 protein homolog
    • Protein or peptide: Tetratricopeptide repeat domain 8
    • Protein or peptide: Bardet-Biedl syndrome 9
    • Protein or peptide: BBS1 domain-containing protein

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Supramolecule #1: BBSome complex

SupramoleculeName: BBSome complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 500 KDa

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Macromolecule #1: Bardet-Biedl syndrome 18 protein

MacromoleculeName: Bardet-Biedl syndrome 18 protein / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 8.070502 KDa
SequenceString:
MAETKSMFRE VLPKQGQLYV EDITTMVLCK PKLLPLKSLT LEKLEKMQQA AQDTIHQQEM TEKEQKITH

UniProtKB: BBSome interacting protein 1

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Macromolecule #2: Bardet-Biedl syndrome 2 protein homolog

MacromoleculeName: Bardet-Biedl syndrome 2 protein homolog / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 79.911484 KDa
SequenceString: MLQPVFTLKL RHKISPRMVA VGRYDGTHPC LAAATQAGKV FIHNPHSRSQ HLGAPRVLQS PLESDVSLLN INQTVSCLTA GVLNPELGY DALLVGTQTN LLAYDVYNNS DLFYREVADG ASAIVLGTLG DITSPLAIIG GNCALQGFNH EGNDLFWTVT G DNVHSLAL ...String:
MLQPVFTLKL RHKISPRMVA VGRYDGTHPC LAAATQAGKV FIHNPHSRSQ HLGAPRVLQS PLESDVSLLN INQTVSCLTA GVLNPELGY DALLVGTQTN LLAYDVYNNS DLFYREVADG ASAIVLGTLG DITSPLAIIG GNCALQGFNH EGNDLFWTVT G DNVHSLAL CDFDGDGKKE LLVGSEDFDI RVFKEDEIVA EMSETEIITS LCPMYGSRFG YALSNGTVGV YDKTARYWRI KS KNQAMSI HAFDLNSDGV CELITGWSNG KVDARSDRTG EVIFKDNFSS AIAGVVEGDY RMEGCQQLIC CSVDGEIRGY LPG TAEMRG NLMDISVEQD LIRELSQKKQ NLLLELRNYE ENAKAELSSP LNEADGHRGV IPANTKHHTA LSVSLGSEAQ AAHA ELCIS TSNDTIIRAV LIFAEGVFAG ESHVVHPSVH HLSSSVRIPI TPPKDIPVDL HLKTFVGYRS STQFHVFELT RQLPR FSMY ALTSPDPASE PLSYVNFIIA ERAQRVVMWL NQNFLLPEDT NIQNAPFQVC FTSLRNGGQL YIKIKLSGEI TVNTDD IDL AGDIIQSMAS FFAIEDLQVE ADFPVYFEEL RKVLVKVDEY HSVHQKLSAD MADNSNLIRS LLVQAEDARL MRDMKTM KN RYKELYDLNK DLLNGYKIRC NNHTELLGSL KAVNQAIQRA GHLRVGKPKN QVITACRDAI RSNNINMLFR IMRVGTAS S

UniProtKB: Bardet-Biedl syndrome 2 protein homolog

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Macromolecule #3: Bardet-Biedl syndrome 4 protein homolog

MacromoleculeName: Bardet-Biedl syndrome 4 protein homolog / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 58.289133 KDa
SequenceString: MAEEKLSART QLPVSAESQK PVLKKAPEFP ILEKQNWLIH LYYIQKDYEA CKAVIKEQLQ ETHGLCEYAI YVQALIFRLE GNIQESLRL FQMCAFLSPQ CADNLKQVAR SLFLLGKHKA AIEVYNEAAK LNQKDWEICH NLGVCYIYLK QFDKAQDQLH N ALHLNRHD ...String:
MAEEKLSART QLPVSAESQK PVLKKAPEFP ILEKQNWLIH LYYIQKDYEA CKAVIKEQLQ ETHGLCEYAI YVQALIFRLE GNIQESLRL FQMCAFLSPQ CADNLKQVAR SLFLLGKHKA AIEVYNEAAK LNQKDWEICH NLGVCYIYLK QFDKAQDQLH N ALHLNRHD LTYIMLGKIF LLKGDLDKAI EIYKKAVEFS PENTELLTTL GLLYLQLGIY QKAFEHLGNT LTYDPTNYKA IL AAGSMMQ THGDFDVALT KYKVVACAVI ESPPLWNNIG MCFFGKKKYV AAISCLKRAN YLAPLDWKIL YNLGLVHLTM QQY ASAFHF LSAAINFQPK MGELYMLLAV ALTNLEDSEN AKRAYEEAVR LDKCNPLVNL NYAVLLYNQG EKRDALAQYQ EMEK KVNLL KYSSSLEFDP EMVEVAQKLG AALQVGEALV WTKPVKDPKS KHQTASTSKA AGFQQPLGSN QALGQAMSSA ATCRK LSSG AGGTSQLTKP PSLPLEPEPT VEAQPTEASA QTREK

UniProtKB: BBSome complex member BBS4

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Macromolecule #4: Bardet-Biedl syndrome 5 protein homolog

MacromoleculeName: Bardet-Biedl syndrome 5 protein homolog / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 38.880984 KDa
SequenceString: MSVLDALWED RDVRFDVSSQ QMKTRPGEVL IDCLDSVEDT KGNNGDRGRL LVTNLRIVWH SLALPRVNLS IGYNCILNIT TRTANSKLR GQTEALYVLT KCNSTRFEFI FTNLVPGSPR LYTSLIAVHR AYETSKMYRD FKLRSALIQN KQLRLLPQEN V YNKINGVW ...String:
MSVLDALWED RDVRFDVSSQ QMKTRPGEVL IDCLDSVEDT KGNNGDRGRL LVTNLRIVWH SLALPRVNLS IGYNCILNIT TRTANSKLR GQTEALYVLT KCNSTRFEFI FTNLVPGSPR LYTSLIAVHR AYETSKMYRD FKLRSALIQN KQLRLLPQEN V YNKINGVW NLSSDQGNLG TFFITNVRIV WHANMNDSFN VSIPYLQIRS VKIRDSKFGL ALVIESSQQS GGYVLGFKID PV EKLQESV KEINSLHKVY SANPIFGVDY EMEEKPQPLE ALTVKQIQDD VEIDSDDHTD AFVAYFADGN KQQDREPVFS EEL GLAIEK LKDGFTLQGL WEVMN

UniProtKB: Bardet-Biedl syndrome 5 protein homolog

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Macromolecule #5: Bardet-Biedl syndrome 7 protein homolog

MacromoleculeName: Bardet-Biedl syndrome 7 protein homolog / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 80.471375 KDa
SequenceString: MDLNLNRADY LQVGVTSQKT MKLLPASKHR ATQKVVVGDH DGIVMCFGMK KGEAVTVFKT LPGQKIARLE LGGALNTPQE KIFIAAGSE IRGFTKRGKQ FLSFETNLTE SIKAMHISGS DLFLSASYIY NHYCDCKDQH YYLSGDKIND VICLPVERLL R EVPVLACQ ...String:
MDLNLNRADY LQVGVTSQKT MKLLPASKHR ATQKVVVGDH DGIVMCFGMK KGEAVTVFKT LPGQKIARLE LGGALNTPQE KIFIAAGSE IRGFTKRGKQ FLSFETNLTE SIKAMHISGS DLFLSASYIY NHYCDCKDQH YYLSGDKIND VICLPVERLL R EVPVLACQ DRVLRVLQGS DVTYEIEVPG PPTVLALHNG NGGDSGEDLL FGTSDGKLGL IQITTSKPIH KWEIRNEKKR GG ILCVDSF DIVGDGVKDL LVGRDDGMVE VYGFDNANEP VLRFDHTLSE SVTSIQGGCV GKDGYDEIVV STYSGWITGL TTE PVHKES GPGEELKFNQ EMQNKISSLR SELEQLQYKV LQEREKYQQS SQSSKAKSAV PSFSVNDKFT LNKDDASYSL ILEV QTAID NVLIQSDVPI DLLDVDKNSA VVSFSSCDSE SNDNFLLATY RCQANTTRLE LKIRSIEGQY GTLQAYVTPR IQPKT CQVR QYHIKPLSLH QRTHFIDHDR PMNTLTLTGQ FSFSELHSWV VFCMPEVPEK PPAGECVTFY FQNTFLDTQL ESTYRK GEG VFKSDNISTI SILKDVLSKE ATKRKINLNI SYEINEVSVK HTLKLIHPKL EYQLLLAKKV QLIDALKELQ VHEGNTN FL IPEYRCILEE ADHLQEEYKK QPAHLERLYG MITDLFIDKF KFKGTNVKTK VPLLLEILDS YDQNALIAFF DAA

UniProtKB: Bardet-Biedl syndrome 7 protein homolog

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Macromolecule #6: Tetratricopeptide repeat domain 8

MacromoleculeName: Tetratricopeptide repeat domain 8 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 56.686406 KDa
SequenceString: MEPLLLAWSY FRRRRFQLCA DLCTQMLEKS PCDQAAWILK ARALTEMVYV DEIDVDEEGI AEMILDENAI AQVPRPGTSL KLPGTNQTG GPSPAVRPVT QAGRPITGFL RPSTQSGRPG TIEQAIKTPR TAYTARPIAS SSGRFVRLGT ASMLTSPDGP F INLSRLNL ...String:
MEPLLLAWSY FRRRRFQLCA DLCTQMLEKS PCDQAAWILK ARALTEMVYV DEIDVDEEGI AEMILDENAI AQVPRPGTSL KLPGTNQTG GPSPAVRPVT QAGRPITGFL RPSTQSGRPG TIEQAIKTPR TAYTARPIAS SSGRFVRLGT ASMLTSPDGP F INLSRLNL AKYAQKPKLA KALFEYIFHH ENDVKTALDL AALSTEHSQY KDWWWKVQIG KCYYRLGLYR EAEKQFKSAL KQ QEMVDTF LYLAKVYISL DQPLTALNLF KQGLDKFPGE VTLLCGIARI YEEMNNISSA TEYYKEVLKQ DNTHVEAIAC IGS NHFYTD QPEVALRFYR RLLQMGVYNC QLFNNLGLCC FYAQQYDMTL TSFERALSLA ENEEEVADVW YNLGHVAVGT GDTN LAHQC FRLALVSNNQ HAEAYNNLAV LEMRRGHVEQ AKALLQTASS LAPHMYEPHF NFATISDKIG DLQRSYAAAK KSEAA FPDH VDTQHLIKQL EQHFAML

UniProtKB: Tetratricopeptide repeat domain 8

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Macromolecule #7: Bardet-Biedl syndrome 9

MacromoleculeName: Bardet-Biedl syndrome 9 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 99.230914 KDa
SequenceString: MSLFKARDWW STVLGDKEEF DQGCLCLADV DNTGNGQDKI IVGSFMGYLR IFNPHPVKTG DGAQAEDLLL EVHLRDPILQ VEVGKFVSG TEMLHLAVLH SRKLCVYSVS GTLGNVEHGN QYQIKLMYEH NLQRTACNMT YGSFGGVKGR DLICIQSVDG M LMVFEQES ...String:
MSLFKARDWW STVLGDKEEF DQGCLCLADV DNTGNGQDKI IVGSFMGYLR IFNPHPVKTG DGAQAEDLLL EVHLRDPILQ VEVGKFVSG TEMLHLAVLH SRKLCVYSVS GTLGNVEHGN QYQIKLMYEH NLQRTACNMT YGSFGGVKGR DLICIQSVDG M LMVFEQES YAFGRFLPGS LLPGPLAYSS RTDSFITVSS CHQVESYKYQ VLAFATDADK RQETEQQKHG SGKRLVVDWT LN IGEQAID ICIVSFIQSA SSVFVLGERN FFCLKDNGQI QFMKKLDYSP SCFLPYCSVS EGTINTLIGN HNNMLHIYQD VTL KWATQL PHVPVAVRVG CLHDLKGVIV TLSDDGHLQC SYLGTDPSLF QAPKVESREL NYDELDMELK ELQKVIKNVN KSQD VWPLT EREDDLKVSA MVSPNFDSVS QATDVEVGAD LVPSVTVKVT LKNRVALQKI KLSIYVQPPL VLTGDQFTFE FMAPE MTRT VGFSVYLKGS YSPPELEGNA VVSYSRPTER NPDGIPRVSQ CKFRLPLKLV CLPGQPSKTA SHKLTIDTNK SPVSLL SLF PGFAKQSEDD QVNVMGFRFL GGSQVTLLAS KTSQRYRIQS EQFEDLWLIT NELIIRLQEY FEKQGIKDFT CSFSGSV PL EEYFELIDHH FELRINGEKL EELLSERAVQ FRAIQRRLLT RFKDKTPAPL QHLDTLLDGT YKQVIALADA VEENQDNL F QSFTRLKSAT HLVILLIGLW QKLSADQIAI LEAAFLPLQQ DTQELGWEET VDAALSHLLK TCLSKSSKEQ ALNLNSQLG IPKDTSQLKK HITLFCDRLA KGGRLCLSTD AAAPQTMVMP GGCATIPESD LEGRSIDQDS SELFTNHKHL MVETPVPEVS PLQGVTE

UniProtKB: Bardet-Biedl syndrome 9

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Macromolecule #8: BBS1 domain-containing protein

MacromoleculeName: BBS1 domain-containing protein / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Bos taurus (cattle) / Tissue: retina
Molecular weightTheoretical: 64.939141 KDa
SequenceString: MAATSSSDSD GGKGESEANS KWLDSLSDSM ANIHTFSACL ALADFHGDGE YKLAMGDLGP DGRQPRLKVL KGHTLVSQKP LPDLPAAAV TFLMASHEPR TPALAIASGP CVYVYKNLKP YFKFSLPSLP TNPLEQDLWN QAKEDQIDPL TLKEMLEGIR E KAEVPLSV ...String:
MAATSSSDSD GGKGESEANS KWLDSLSDSM ANIHTFSACL ALADFHGDGE YKLAMGDLGP DGRQPRLKVL KGHTLVSQKP LPDLPAAAV TFLMASHEPR TPALAIASGP CVYVYKNLKP YFKFSLPSLP TNPLEQDLWN QAKEDQIDPL TLKEMLEGIR E KAEVPLSV QSLRFLPLEL SEMEAFVNQH KSKSIRRQTV ITTMTTLKKN LADEDAVSCL VLGTENKELL VLDPEAFTIL AK MSLPSVP AFLEASGQFD VEFRLAAACR NGSIYILRRD SKRPKYCIEL GAQPVGLVGV HKVLVVGSNQ DSLHGFTYKG KRL WTVQMP AAILAMNLLE QHSRGLQAVM AALANEEVRI YHDKVLLNVI RTPEAVTSLC FGRYGREDNT LIMTTLGGGL IIKI LKRTA VFAEGGGEAG PPPSQAIKLN VPRKTRLYVD QTLREREAGT AMHRTFQADL YLLRLRAARA YVQALESSLS PVSLT AREP LKLHAVVQGL GPTFKLTLHL QNTSTARPIL GLVVCFLYNE VLYALPRAFF KVPLLVPGLN YPLETFVKSL SDKGIS DII KVLVLREGQS TPLLSAHINM PMSEGLAAD

UniProtKB: Bardet-Biedl syndrome 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

Concentration0.4 mg/mL
BufferpH: 7.5
Component:
ConcentrationFormulaName
20.0 mMC8H18N2O4SHEPES
150.0 mMNaClsodium chloride
0.7 mMMgCl2Magnesium chloride
1.0 mMC4H10O2S2DTT
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 400 / Support film - Material: CARBON / Support film - topology: CONTINUOUS / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 25 sec. / Pretreatment - Atmosphere: AIR
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV / Details: Wait time 20s, blot force -2, blot time 3.5s.

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 80.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: EMDB MAP
EMDB ID:

7839

Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 3.44 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 560777
Initial angle assignmentType: OTHER
Final angle assignmentType: MAXIMUM LIKELIHOOD

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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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