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- EMDB-9908: Structure of PSI-isiA supercomplex from Thermosynechococcus vulcanus -

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Basic information

Entry
Database: EMDB / ID: EMD-9908
TitleStructure of PSI-isiA supercomplex from Thermosynechococcus vulcanus
Map data
Sample
  • Complex: PSI-isiA
    • Protein or peptide: x 13 types
  • Ligand: x 9 types
Function / homology
Function and homology information


photosystem I reaction center / photosynthetic electron transport in photosystem I / photosystem I / photosystem I / chlorophyll binding / plasma membrane-derived thylakoid membrane / photosynthesis / 4 iron, 4 sulfur cluster binding / : / electron transfer activity ...photosystem I reaction center / photosynthetic electron transport in photosystem I / photosystem I / photosystem I / chlorophyll binding / plasma membrane-derived thylakoid membrane / photosynthesis / 4 iron, 4 sulfur cluster binding / : / electron transfer activity / magnesium ion binding / integral component of membrane / metal ion binding
Similarity search - Function
Photosystem I reaction center subunit PsaK / Photosystem I reaction centre subunit PsaK / Photosystem I psaG and psaK proteins signature. / Photosystem I reaction centre subunit PsaK superfamily / Photosystem I reaction center subunit V/PsaK / Photosystem I psaG / psaK / Photosystem I, reaction centre subunit PsaD superfamily / Photosystem I PsaD / PsaD / Photosystem I protein PsaC ...Photosystem I reaction center subunit PsaK / Photosystem I reaction centre subunit PsaK / Photosystem I psaG and psaK proteins signature. / Photosystem I reaction centre subunit PsaK superfamily / Photosystem I reaction center subunit V/PsaK / Photosystem I psaG / psaK / Photosystem I, reaction centre subunit PsaD superfamily / Photosystem I PsaD / PsaD / Photosystem I protein PsaC / Photosystem I PsaB / Photosystem I PsaA / Photosystem I psaA and psaB proteins signature. / Photosystem I PsaA/PsaB, conserved site / Photosystem I PsaA/PsaB superfamily / Photosystem I PsaA/PsaB / Photosystem I psaA/psaB protein / 4Fe-4S dicluster domain / 4Fe-4S ferredoxin-type iron-sulfur binding region signature. / 4Fe-4S ferredoxin, iron-sulphur binding, conserved site / 4Fe-4S ferredoxin-type iron-sulfur binding domain profile. / 4Fe-4S ferredoxin-type, iron-sulphur binding domain
Similarity search - Domain/homology
Photosystem I P700 chlorophyll a apoprotein A2 / Photosystem I iron-sulfur center / Photosystem I reaction center subunit II / Photosystem I reaction center subunit PsaK / Photosystem I P700 chlorophyll a apoprotein A1
Similarity search - Component
Biological speciesThermosynechococcus vulcanus (Cyanobacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.74 Å
AuthorsAkita F / Nagao R / Kato K / Shen JR / Miyazaki N
CitationJournal: Commun Biol / Year: 2020
Title: Structure of a cyanobacterial photosystem I surrounded by octadecameric IsiA antenna proteins.
Authors: Fusamichi Akita / Ryo Nagao / Koji Kato / Yoshiki Nakajima / Makio Yokono / Yoshifumi Ueno / Takehiro Suzuki / Naoshi Dohmae / Jian-Ren Shen / Seiji Akimoto / Naoyuki Miyazaki /
Abstract: Iron-stress induced protein A (IsiA) is a chlorophyll-binding membrane-spanning protein in photosynthetic prokaryote cyanobacteria, and is associated with photosystem I (PSI) trimer cores, but its ...Iron-stress induced protein A (IsiA) is a chlorophyll-binding membrane-spanning protein in photosynthetic prokaryote cyanobacteria, and is associated with photosystem I (PSI) trimer cores, but its structural and functional significance in light harvesting remains unclear. Here we report a 2.7-Å resolution cryo-electron microscopic structure of a supercomplex between PSI core trimer and IsiA from a thermophilic cyanobacterium Thermosynechococcus vulcanus. The structure showed that 18 IsiA subunits form a closed ring surrounding a PSI trimer core. Detailed arrangement of pigments within the supercomplex, as well as molecular interactions between PSI and IsiA and among IsiAs, were resolved. Time-resolved fluorescence spectra of the PSI-IsiA supercomplex showed clear excitation-energy transfer from IsiA to PSI, strongly indicating that IsiA functions as an energy donor, but not an energy quencher, in the supercomplex. These structural and spectroscopic findings provide important insights into the excitation-energy-transfer and subunit assembly mechanisms in the PSI-IsiA supercomplex.
History
DepositionMay 16, 2019-
Header (metadata) releaseMay 20, 2020-
Map releaseMay 20, 2020-
UpdateMay 27, 2020-
Current statusMay 27, 2020Processing site: PDBj / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.035
  • Imaged by UCSF Chimera
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  • Surface view colored by height
  • Surface level: 0.035
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-6k33
  • Surface level: 0.035
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

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Map

FileDownload / File: emd_9908.map.gz / Format: CCP4 / Size: 421.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.11 Å/pix.
x 480 pix.
= 534.24 Å
1.11 Å/pix.
x 480 pix.
= 534.24 Å
1.11 Å/pix.
x 480 pix.
= 534.24 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.113 Å
Density
Contour LevelBy AUTHOR: 0.035 / Movie #1: 0.035
Minimum - Maximum-0.1490461 - 0.2905398
Average (Standard dev.)0.00055028655 (±0.005443229)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions480480480
Spacing480480480
CellA=B=C: 534.24 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.1131.1131.113
M x/y/z480480480
origin x/y/z0.0000.0000.000
length x/y/z534.240534.240534.240
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS480480480
D min/max/mean-0.1490.2910.001

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Supplemental data

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Sample components

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Entire : PSI-isiA

EntireName: PSI-isiA
Components
  • Complex: PSI-isiA
    • Protein or peptide: Photosystem I P700 chlorophyll a apoprotein A1
    • Protein or peptide: Photosystem I P700 chlorophyll a apoprotein A2
    • Protein or peptide: Photosystem I iron-sulfur center
    • Protein or peptide: Photosystem I reaction center subunit II
    • Protein or peptide: Photosystem I reaction center subunit IV
    • Protein or peptide: Photosystem I reaction center subunit III
    • Protein or peptide: Photosystem I reaction center subunit VIII
    • Protein or peptide: Photosystem I reaction center subunit IX
    • Protein or peptide: Photosystem I reaction center subunit PsaK
    • Protein or peptide: Photosystem I reaction center subunit XI
    • Protein or peptide: Photosystem I reaction center subunit XII
    • Protein or peptide: Photosystem I reaction center subunit psaX
    • Protein or peptide: Iron stress in-duced protein A
  • Ligand: CHLOROPHYLL A ISOMER
  • Ligand: CHLOROPHYLL A
  • Ligand: PHYLLOQUINONEPhytomenadione
  • Ligand: IRON/SULFUR CLUSTERIron–sulfur cluster
  • Ligand: BETA-CAROTENEΒ-Carotene
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
  • Ligand: CALCIUM IONCalcium
  • Ligand: water

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Supramolecule #1: PSI-isiA

SupramoleculeName: PSI-isiA / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#13
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 1.9 MDa

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Macromolecule #1: Photosystem I P700 chlorophyll a apoprotein A1

MacromoleculeName: Photosystem I P700 chlorophyll a apoprotein A1 / type: protein_or_peptide / ID: 1 / Number of copies: 3 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 83.283773 KDa
SequenceString: MTISPPEREP KVRVVVDNDP VPTSFEKWAK PGHFDRTLAR GPQTTTWIWN LHALAHDFDT HTSDLEDISR KIFSAHFGHL AVVFIWLSG MYFHGAKFSN YEAWLADPTG IKPSAQVVWP IVGQGILNGD VGGGFHGIQI TSGLFQLWRA SGITNEFQLY C TAIGGLVM ...String:
MTISPPEREP KVRVVVDNDP VPTSFEKWAK PGHFDRTLAR GPQTTTWIWN LHALAHDFDT HTSDLEDISR KIFSAHFGHL AVVFIWLSG MYFHGAKFSN YEAWLADPTG IKPSAQVVWP IVGQGILNGD VGGGFHGIQI TSGLFQLWRA SGITNEFQLY C TAIGGLVM AGLMLFAGWF HYHKRAPKLE WFQNVESMLN HHLAGLLGLG SLSWAGHQIH VSLPINKLLD AGVAAKDIPL PH EFILNPS LMAELYPKVD WGFFSGVIPF FTFNWAAYSD FLTFNGGLNP VTGGLWLSDT AHHHLAIAVL FIIAGHMYRT NWG IGHSLK EILEAHKGPF TGAGHKGLYE VLTTSWHAQL AINLAMMGSL SIIVAQHMYA MPPYPYLATD YPTQLSLFTH HMWI GGFLV VGGAAHGAIF MVRDYDPAMN QNNVLDRVLR HRDAIISHLN WVCIFLGFHS FGLYVHNDTM RAFGRPQDMF SDTGI QLQP VFAQWVQNLH TLAPGGTAPN AAATASVAFG GDVVAVGGKV AMMPIVLGTA DFMVHHIHAF TIHVTVLILL KGVLFA RSS RLIPDKANLG FRFPCDGPGR GGTCQVSGWD HVFLGLFWMY NCISVVIFHF SWKMQSDVWG TVAPDGTVSH ITGGNFA QS AITINGWLRD FLWAQASQVI GSYGSALSAY GLLFLGAHFI WAFSLMFLFS GRGYWQELIE SIVWAHNKLK VAPAIQPR A LSIIQGRAVG VAHYLLGGIA TTWAFFLARI ISVG

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Macromolecule #2: Photosystem I P700 chlorophyll a apoprotein A2

MacromoleculeName: Photosystem I P700 chlorophyll a apoprotein A2 / type: protein_or_peptide / ID: 2 / Number of copies: 3 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 82.992453 KDa
SequenceString: ATKFPKFSQD LAQDPTTRRI WYAIAMAHDF ESHDGMTEEN LYQKIFASHF GHLAIIFLWV SGSLFHVAWQ GNFEQWVQDP VNTRPIAHA IWDPQFGKAA VDAFTQAGAS NPVDIAYSGV YHWWYTIGMR TNGDLYQGAI FLLILASLAL FAGWLHLQPK F RPSLSWFK ...String:
ATKFPKFSQD LAQDPTTRRI WYAIAMAHDF ESHDGMTEEN LYQKIFASHF GHLAIIFLWV SGSLFHVAWQ GNFEQWVQDP VNTRPIAHA IWDPQFGKAA VDAFTQAGAS NPVDIAYSGV YHWWYTIGMR TNGDLYQGAI FLLILASLAL FAGWLHLQPK F RPSLSWFK NAESRLNHHL AGLFGVSSLA WAGHLIHVAI PESRGQHVGW DNFLSTMPHP AGLAPFFTGN WGVYAQNPDT AS HVFGTAQ GAGTAILTFL GGFHPQTESL WLTDMAHHHL AIAVLFIVAG HMYRTQFGIG HSIKEMMDAK DFFGTKVEGP FNM PHQGIY ETYNNSLHFQ LGWHLACLGV ITSLVAQHMY SLPPYAFIAQ DHTTMAALYT HHQYIAGFLM VGAFAHGAIF LVRD YDPAQ NKGNVLDRVL QHKEAIISHL SWVSLFLGFH TLGLYVHNDV VVAFGTPEKQ ILIEPVFAQF IQAAHGKLLY GFDTL LSNP DSIASTAWPN YGNVWLPGWL DAINSGTNSL FLTIGPGDFL VHHAIALGLH TTTLILVKGA LDARGSKLMP DKKDFG YAF PCDGPGRGGT CDISAWDAFY LAMFWMLNTI GWVTFYWHWK HLGVWEGNVA QFNESSTYLM GWLRDYLWLN SSQLING YN PFGTNNLSVW AWMFLFGHLV WATGFMFLIS WRGYWQELIE TLVWAHERTP LANLVRWKDK PVALSIVQAR LVGLAHFS V GYILTYAAFL IASTAAKFG

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Macromolecule #3: Photosystem I iron-sulfur center

MacromoleculeName: Photosystem I iron-sulfur center / type: protein_or_peptide / ID: 3 / Number of copies: 3 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 8.678011 KDa
SequenceString:
AHTVKIYDTC IGCTQCVRAC PTDVLEMVPW DGCKAGQIAS SPRTEDCVGC KRCETACPTD FLSIRVYLGA ETTRSMGLAY

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Macromolecule #4: Photosystem I reaction center subunit II

MacromoleculeName: Photosystem I reaction center subunit II / type: protein_or_peptide / ID: 4 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 15.258297 KDa
SequenceString:
TTLTGQPPLY GGSTGGLLSA ADTEEKYAIT WTSPKEQVFE MPTAGAAVMR EGENLVYFAR KEQCLALAAQ QLRPRKINDY KIYRIFPDG ETVLIHPKDG VFPEKVNKGR EAVNSVPRSI GQNPNPSQLK FTGKKPYDP

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Macromolecule #5: Photosystem I reaction center subunit IV

MacromoleculeName: Photosystem I reaction center subunit IV / type: protein_or_peptide / ID: 5 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 8.26829 KDa
SequenceString:
VQRGSKVKIL RPESYWYNEV GTVASVDQTP GVKYPVIVRF DKVNYTGYSG SASGVNTNNF ALHEVQEVAP PKKGK

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Macromolecule #6: Photosystem I reaction center subunit III

MacromoleculeName: Photosystem I reaction center subunit III / type: protein_or_peptide / ID: 6 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 17.716586 KDa
SequenceString:
MRRFLALLLV LTLWLGFTPL ASADVAGLVP CKDSPAFQKR AAAAVNTTAD PASGQKRFER YSQALCGEDG LPHLVVDGRL SRAGDFLIP SVLFLYIAGW IGWVGRAYLI AVRNSGEANE KEIIIDVPLA IKCMLTGFAW PLAALKELAS GELTAKDNEI T VSPR

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Macromolecule #7: Photosystem I reaction center subunit VIII

MacromoleculeName: Photosystem I reaction center subunit VIII / type: protein_or_peptide / ID: 7 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 4.297234 KDa
SequenceString:
MMGSYAASFL PWIFIPVVCW LMPTVVMGLL FLYIEGEA

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Macromolecule #8: Photosystem I reaction center subunit IX

MacromoleculeName: Photosystem I reaction center subunit IX / type: protein_or_peptide / ID: 8 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 4.770698 KDa
SequenceString:
MKHFLTYLST APVLAAIWMT ITAGILIEFN RFYPDLLFHP L

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Macromolecule #9: Photosystem I reaction center subunit PsaK

MacromoleculeName: Photosystem I reaction center subunit PsaK / type: protein_or_peptide / ID: 9 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 8.668153 KDa
SequenceString:
MVLATTLPDT TWTPSVGLVV ILSNLFAIAL GRYAIQSRGK GPGLPIALPA LFEGFGLPEL LATTSFGHLL AAGVVSVGLQ YAGAL

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Macromolecule #10: Photosystem I reaction center subunit XI

MacromoleculeName: Photosystem I reaction center subunit XI / type: protein_or_peptide / ID: 10 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 16.156569 KDa
SequenceString:
AEELVKPYNG DPFVGHLSTP ISDSGLVKTF IGNLPAYRQG LSPILRGLEV GMAHGYFLIG PWVKLGPLRD SDVANLGGLI SGIALILVA TACLAAYGLV SFQKGGSSSD PLKTSEGWSQ FTAGFFVGAM GSAFVAFFLL ENFLVVDGIM TGLFN

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Macromolecule #11: Photosystem I reaction center subunit XII

MacromoleculeName: Photosystem I reaction center subunit XII / type: protein_or_peptide / ID: 11 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 3.426115 KDa
SequenceString:
MALTDTQVYV ALVIALLPAV LAFRLSTELY K

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Macromolecule #12: Photosystem I reaction center subunit psaX

MacromoleculeName: Photosystem I reaction center subunit psaX / type: protein_or_peptide / ID: 12 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 3.845508 KDa
SequenceString:
ATKSAKPTYA FRTFWAVLLL AINFLVAAYY FAAAA

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Macromolecule #13: Iron stress in-duced protein A

MacromoleculeName: Iron stress in-duced protein A / type: protein_or_peptide / ID: 13 / Number of copies: 18 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vulcanus (Cyanobacteria)
Molecular weightTheoretical: 39.284332 KDa
SequenceString: MAIASESPTT VTSAGLQTYG QTNVKYDWWA GNARFVNLSG LFIAAHVAQA ALSVFWAGAF TLYEISQYKP DLPMGEQGLI LLPHLATLG FGIGEGGKVV DLYPYFVIGA VHLISSAVLG AGALFHTFRA PHDLSTATGR ARRFHFRWDD PKQLGIILGH H LLFLGFGA ...String:
MAIASESPTT VTSAGLQTYG QTNVKYDWWA GNARFVNLSG LFIAAHVAQA ALSVFWAGAF TLYEISQYKP DLPMGEQGLI LLPHLATLG FGIGEGGKVV DLYPYFVIGA VHLISSAVLG AGALFHTFRA PHDLSTATGR ARRFHFRWDD PKQLGIILGH H LLFLGFGA LLLVLKATIW GGLYDANLQT VRLITQPTLD PFVIYGYQTH FASINSLEDL VGGHIYIAIL LIAGGIWHIL VP PLTWARK LLMFNAEAIL SYSLGGIALA GFVAAYFCAV NTLAYPVEFY GPPLEVKLGI APYFADTIEL PLGQHTSRAW LAN AHFFLA FFFLQGHLWH ALRAMGFNFK QLETFLNPAI EN

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Macromolecule #14: CHLOROPHYLL A ISOMER

MacromoleculeName: CHLOROPHYLL A ISOMER / type: ligand / ID: 14 / Number of copies: 3 / Formula: CL0
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CL0:
CHLOROPHYLL A ISOMER / Chlorophyll a

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Macromolecule #15: CHLOROPHYLL A

MacromoleculeName: CHLOROPHYLL A / type: ligand / ID: 15 / Number of copies: 588 / Formula: CLA
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CLA:
CHLOROPHYLL A / Chlorophyll a

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Macromolecule #16: PHYLLOQUINONE

MacromoleculeName: PHYLLOQUINONE / type: ligand / ID: 16 / Number of copies: 6 / Formula: PQN
Molecular weightTheoretical: 450.696 Da
Chemical component information

ChemComp-PQN:
PHYLLOQUINONE / Phytomenadione

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Macromolecule #17: IRON/SULFUR CLUSTER

MacromoleculeName: IRON/SULFUR CLUSTER / type: ligand / ID: 17 / Number of copies: 9 / Formula: SF4
Molecular weightTheoretical: 351.64 Da
Chemical component information

ChemComp-FS1:
IRON/SULFUR CLUSTER / Iron–sulfur cluster

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Macromolecule #18: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 18 / Number of copies: 138 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE / Β-Carotene

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Macromolecule #19: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 19 / Number of copies: 9 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

ChemComp-LHG:
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / phospholipid*YM / Phosphatidylglycerol

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Macromolecule #20: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

MacromoleculeName: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE / type: ligand / ID: 20 / Number of copies: 3 / Formula: LMG
Molecular weightTheoretical: 787.158 Da
Chemical component information

ChemComp-LMG:
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

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Macromolecule #21: CALCIUM ION

MacromoleculeName: CALCIUM ION / type: ligand / ID: 21 / Number of copies: 3 / Formula: CA
Molecular weightTheoretical: 40.078 Da

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Macromolecule #22: water

MacromoleculeName: water / type: ligand / ID: 22 / Number of copies: 21 / Formula: HOH
Molecular weightTheoretical: 18.015 Da
Chemical component information

ChemComp-HOH:
WATER / Water

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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

Concentration2 mg/mL
BufferpH: 7
Component:
ConcentrationFormulaName
10.0 mMHEPESHEPES
0.04 %DDMDDM
GridModel: Quantifoil R2/1 / Material: COPPER / Mesh: 300 / Pretreatment - Type: PLASMA CLEANING
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy
Image recordingFilm or detector model: FEI FALCON III (4k x 4k) / Average electron dose: 40.0 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: CTFFIND (ver. 4)
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 3)
Final 3D classificationNumber classes: 4 / Software - Name: RELION (ver. 3)
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 3)
Final reconstructionNumber classes used: 1 / Applied symmetry - Point group: C3 (3 fold cyclic) / Algorithm: FOURIER SPACE / Resolution.type: BY AUTHOR / Resolution: 2.74 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3) / Number images used: 303983
FSC plot (resolution estimation)

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Atomic model buiding 1

Initial modelPDB ID:
RefinementSpace: REAL / Protocol: FLEXIBLE FIT / Target criteria: Correlation coefficient
Output model

PDB-6k33:
Structure of PSI-isiA supercomplex from Thermosynechococcus vulcanus

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