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- EMDB-75837: Bacteriophage Goslar Empty Capsid Asymmetric Unit -

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Basic information

Entry
Database: EMDB / ID: EMD-75837
TitleBacteriophage Goslar Empty Capsid Asymmetric Unit
Map data
Sample
  • Virus: Goslarvirus
    • Protein or peptide: Major capsid protein
    • Protein or peptide: Capsid Latch gp146
    • Protein or peptide: Capsid Decorator gp77
KeywordsTail Assembly / VIRAL PROTEIN
Function / homology: / Bacteriophage PhiKZ major capsid protein gp120 / Uncharacterized protein / Major capsid protein / Uncharacterized protein
Function and homology information
Biological speciesGoslarvirus
Methodsingle particle reconstruction / cryo EM / Resolution: 5.16 Å
AuthorsBasu D / Gu Y / Corbett KD
Funding support United States, 1 items
OrganizationGrant numberCountry
Howard Hughes Medical Institute (HHMI)Emerging Pathogens Initiative United States
CitationJournal: To Be Published
Title: Bacteriophage Goslar Empty Capsid Asymmetric Unit
Authors: Basu D / Gu Y / Corbett KD
History
DepositionMar 5, 2026-
Header (metadata) releaseAug 19, 2026-
Map releaseAug 19, 2026-
UpdateAug 19, 2026-
Current statusAug 19, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_75837.png

Downloads & links

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Map

FileDownload / File: emd_75837.map.gz / Format: CCP4 / Size: 1.3 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
2.44 Å/pix.
x 701 pix.
= 1708.688 Å		2.44 Å/pix.
x 701 pix.
= 1708.688 Å		2.44 Å/pix.
x 701 pix.
= 1708.688 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 2.4375 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.3
Minimum - Maximum-0.47322282 - 1.5621743
Average (Standard dev.)-0.00057242316 (±0.1320653)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin130130130
Dimensions701701701
Spacing701701701
CellA=B=C: 1708.6875 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_75837_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_75837_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Goslarvirus

EntireName: Goslarvirus
Components
  • Virus: Goslarvirus
    • Protein or peptide: Major capsid protein
    • Protein or peptide: Capsid Latch gp146
    • Protein or peptide: Capsid Decorator gp77

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Supramolecule #1: Goslarvirus

SupramoleculeName: Goslarvirus / type: virus / ID: 1 / Parent: 0 / Macromolecule list: all / NCBI-ID: 2733105 / Sci species name: Goslarvirus / Virus type: VIRION / Virus isolate: STRAIN / Virus enveloped: No / Virus empty: No

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Macromolecule #1: Major capsid protein

MacromoleculeName: Major capsid protein / type: protein_or_peptide / ID: 1 / Number of copies: 27 / Enantiomer: LEVO
Source (natural)Organism: Goslarvirus
Molecular weightTheoretical: 83.400391 KDa
SequenceString: MNDKTLLSQQ VAATRQFLTA NGSKPADKGL ENTFLSMESA SKVDFKSMDK LVNEMDVKSF SSDIRKAEEP VLTLLGFETT TPEEKQRIE EQLFTMNAQQ ARAAALIMLA HGNPVEYAKQ ARSMNISTTP SGREVDSSNF VMMAADSCGC ESEELVQLSY D QKELRDMM ...String:
MNDKTLLSQQ VAATRQFLTA NGSKPADKGL ENTFLSMESA SKVDFKSMDK LVNEMDVKSF SSDIRKAEEP VLTLLGFETT TPEEKQRIE EQLFTMNAQQ ARAAALIMLA HGNPVEYAKQ ARSMNISTTP SGREVDSSNF VMMAADSCGC ESEELVQLSY D QKELRDMM PYSVVFNVKA SRLSRMGNEL YNTIVLAPNQ IGYDVSFRRP LVFNHLRRNA DGTPADWVRR PLLDAFMYND VL SNDVTDL HPIYRADDAN AQYFVDKAIV APRDIEIKGV TYKTSYLAVD KLIDMIGIAE DDSILANGYS DNTDALDAQI TLT KILVEI KSTKHSKTSY VPFDVSGLIT NGFQKSLEGD FRKMTLAFDT HSIFVDENTK DVKGAKAEAL QDIIDAKSAA QLAI EVYGS SNVEKAGLRV NGANAELYRL VDQDNIEQPR KSEEFKQLAE DLSFKLVGYE LRIRRNNSNR RERGKHLDFN MKQER YAIG LLAPFSIPRP LDWEENAADL DVLIQAANAR FDNLMVEKLF SYKDALKAVA TSRFRQFGDI QIEGFGRYLI RPWFEE INL DLEKSVQGTT TAERRAEVSA AIMNVIREMA YRMYSESGYQ PALQLLSSNA DEKPRCVVAT DNYIPQFLQT DGDFRTV GV SFNFVVVDNP NVMLRDKIFV TLSRGIQGSP DPLTFGMFLY VPELVSVAQV TRNGQVSKET MVQPRCRFVN NCPLLGLI N VVNLRKVYTE NIKLPVQTN

UniProtKB: Major capsid protein

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Macromolecule #2: Capsid Latch gp146

MacromoleculeName: Capsid Latch gp146 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Goslarvirus
Molecular weightTheoretical: 11.689204 KDa
SequenceString:
MSEKHIEILD AAIASKDSGT FIKAVFVEQR NNPATLNKIR DAIAFRLTKS DISDADKTTM RKLRDDLNAY IARGCTDKTV REVLDSNVK YESDFKKNGS SPKTE

UniProtKB: Uncharacterized protein

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Macromolecule #3: Capsid Decorator gp77

MacromoleculeName: Capsid Decorator gp77 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Goslarvirus
Molecular weightTheoretical: 23.889227 KDa
SequenceString: MSKNKDQRSA QMDEKITAVE TAVENGAAAA PTNNVVAQPE TVAVEKKETV VEEKPAKPAV KESPAVSIVA SRAATLVAPF QKYAEEMGP TMPQTPQSLI RHQRSLMSAF RALLDVDNPE VFRTAFADIL KIWKDNSEGA FNANRYLYRG IDNMPLDYHT R MAFLTVLR ...String:
MSKNKDQRSA QMDEKITAVE TAVENGAAAA PTNNVVAQPE TVAVEKKETV VEEKPAKPAV KESPAVSIVA SRAATLVAPF QKYAEEMGP TMPQTPQSLI RHQRSLMSAF RALLDVDNPE VFRTAFADIL KIWKDNSEGA FNANRYLYRG IDNMPLDYHT R MAFLTVLR LMDAIYDESR RQVEIRAIDL NIAIPEIAYF DTRNYLAGYM RRFA

UniProtKB: Uncharacterized protein

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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: 7.5
VitrificationCryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK II

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.2 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: cryoSPARC / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: INSILICO MODEL
Final reconstructionResolution.type: BY AUTHOR / Resolution: 5.16 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 4535
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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