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- EMDB-75663: Penton Vertex Complex of Bacteriophage Goslar -

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Basic information

Entry
Database: EMDB / ID: EMD-75663
TitlePenton Vertex Complex of Bacteriophage Goslar
Map data
Sample
  • Virus: Goslarvirus
    • Protein or peptide: Major capsid protein
    • Protein or peptide: PVC Protein gp192
    • Protein or peptide: Capsid Decorator gp77
    • Protein or peptide: Capsid Latch gp146
    • Protein or peptide: PVC Protein gp65
    • Protein or peptide: PVC Protein gp66
    • Protein or peptide: PVC Protein gp42
    • Protein or peptide: PVC Protein gp59
KeywordsPVC / Penton-Vertex / VIRAL PROTEIN
Function / homology
Function and homology information


: / Bacteriophage PhiKZ vertex-binding protein gp91 / : / Bacteriophage PhiKZ major capsid protein gp120
Similarity search - Domain/homology
Uncharacterized protein / Uncharacterized protein / Major capsid protein / Uncharacterized protein / Uncharacterized protein / Uncharacterized protein / Uncharacterized protein / Uncharacterized protein
Similarity search - Component
Biological speciesGoslarvirus
Methodsingle particle reconstruction / cryo EM / Resolution: 3.57 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: Penton Vertex Complex of Bacteriophage Goslar
Authors: Basu D / Gu Y / Corbett KD
History
DepositionFeb 20, 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_75663.png

Downloads & links

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Map

FileDownload / File: emd_75663.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.)
1.4 Å/pix.
x 480 pix.
= 672. Å		1.4 Å/pix.
x 480 pix.
= 672. Å		1.4 Å/pix.
x 480 pix.
= 672. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.4 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.12
Minimum - Maximum-0.3367121 - 0.71357083
Average (Standard dev.)0.0064310017 (±0.04084357)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions480480480
Spacing480480480
CellA=B=C: 672.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_75663_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_75663_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: PVC Protein gp192
    • Protein or peptide: Capsid Decorator gp77
    • Protein or peptide: Capsid Latch gp146
    • Protein or peptide: PVC Protein gp65
    • Protein or peptide: PVC Protein gp66
    • Protein or peptide: PVC Protein gp42
    • Protein or peptide: PVC Protein gp59

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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
Host (natural)Organism: Escherichia coli (E. coli)

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Macromolecule #1: Major capsid protein

MacromoleculeName: Major capsid protein / type: protein_or_peptide / ID: 1 / Number of copies: 5 / 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: PVC Protein gp192

MacromoleculeName: PVC Protein gp192 / type: protein_or_peptide / ID: 2 / Number of copies: 5 / Enantiomer: LEVO
Source (natural)Organism: Goslarvirus
Molecular weightTheoretical: 31.443689 KDa
SequenceString: MHKFTIPEDP ITLQTLWDSH RALSMEGFAQ DFASLTAVTN LRSMFTNGKK FVTDWLKKRD VTVYPKVFDD LDTIFSNNAY SDLIGYRAF IPNGLNAPMS DYVVALTQSL DSVIGTILPD LDKLTVTCAK AVNDVNFRRS SGMAQTLPKN DPENVLETLR A MFKQGTVT ...String:
MHKFTIPEDP ITLQTLWDSH RALSMEGFAQ DFASLTAVTN LRSMFTNGKK FVTDWLKKRD VTVYPKVFDD LDTIFSNNAY SDLIGYRAF IPNGLNAPMS DYVVALTQSL DSVIGTILPD LDKLTVTCAK AVNDVNFRRS SGMAQTLPKN DPENVLETLR A MFKQGTVT QTTVGRAYKN EDDIRQIGKD LDASRIRALD VNPKDVKKAI ERFMEVADRL TEILVQDYNE GAVSNAMIRD IS DAIYQTA KQAELYAFLV NALAEAIIAY NDTWDAVKKN AKK

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: 5 / 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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Macromolecule #4: Capsid Latch gp146

MacromoleculeName: Capsid Latch gp146 / type: protein_or_peptide / ID: 4 / Number of copies: 5 / 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 #5: PVC Protein gp65

MacromoleculeName: PVC Protein gp65 / type: protein_or_peptide / ID: 5 / Number of copies: 5 / Enantiomer: LEVO
Source (natural)Organism: Goslarvirus
Molecular weightTheoretical: 107.062891 KDa
SequenceString: MSIPVITPDH NEFGLATDYG VVEMRHGMLM AFPDEDIQTS DGSSVVTTED QELVSFDVNE FVASGEENVR LHEQLTTRGI SRADVPELR MRLGDAFPKQ LPDAFFTEIP SRNGVELVQE GFVAKVSKLF VDGAKKVWEL IKRIWTFVFE FFKKTLQKIW N HYGGTNKF ...String:
MSIPVITPDH NEFGLATDYG VVEMRHGMLM AFPDEDIQTS DGSSVVTTED QELVSFDVNE FVASGEENVR LHEQLTTRGI SRADVPELR MRLGDAFPKQ LPDAFFTEIP SRNGVELVQE GFVAKVSKLF VDGAKKVWEL IKRIWTFVFE FFKKTLQKIW N HYGGTNKF IATTDDIIQE VIDALGADYP RFKEMLDKEM TVNDVYNELA GYGSAINLKE IADKNLKEKA KATAEWLMRM VP FVIEKQK VFADLVAQMS HNGGTFLDLG TTLENINRFR DELQKHWDTP ECVGALHTIV PLISDRVPIV SAADIVEEWV RKH QTVLHD ENTIRDSKEA WIRELHDKMH ELAEPFTAFN DVKFEKTLRE AEQVFKATKE MNPTANIQSG DIELYETYMK LTYQ TLFAY SRLISAMSRW LMDIQLAHIQ VEQLVARYRA FELKNHFIVL ERNDEWKAIY NALKARAVKP LNDYKEKFKE KMDKQ KEDA KTLDPAKKEA LAKMVVDFFK FESFEDDVSG CAYLTETDRQ ARKDLVEIDE AIYRTSHRGE ISKPDEQIYL ELRERY MPD QALEPTMESF GIMKMAVIGV IITTAYTAIR RLVLWIIELL KKRADSVAAT EKAANDAIKQ AKRNANVYVP DEHVRKE VD KTEDTDAMRN VVGAPSKSVS DVPLTTEQKL SAVSAIVDGI RKEMVTLPVF DRLQQACTSL TLGYFQEGKL DTILREMR R LRPDRIVYLN DQCKELEGAL EDQKRAKEGE IAPRLANLAG TMKQGMEAYR MLYDSSLTFR FNELTTSAHL PPKDFAEFG EKVLQSGTPV YPDTNVLQQL ATALDGNSYL LFTRSGDEFS KLADNKFKEI ETQFRRLNDV ARQVKAIPQE NATELRSTVD YINAQIREI AAWYSFEEAL RSRVDALVTA YRDYVFAEAK IINEKLQKAG FGKLA

UniProtKB: Uncharacterized protein

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Macromolecule #6: PVC Protein gp66

MacromoleculeName: PVC Protein gp66 / type: protein_or_peptide / ID: 6 / Number of copies: 10 / Enantiomer: LEVO
Source (natural)Organism: Goslarvirus
Molecular weightTheoretical: 16.077403 KDa
SequenceString:
MNISDFAVQL KDLVRDFPAE QQTRALSIAA GYIAGYSMPV FAEKEDLTAD SIFVREHLPK IRDGLDKLNK VLVIGLADAL DVARYFWCL RYRMVHEPTA PETMLLLASA VRDQETAGLP DVIEGVDPKL VAQLATAFAN ALQGENA

UniProtKB: Uncharacterized protein

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Macromolecule #7: PVC Protein gp42

MacromoleculeName: PVC Protein gp42 / type: protein_or_peptide / ID: 7 / Number of copies: 5 / Enantiomer: LEVO
Source (natural)Organism: Goslarvirus
Molecular weightTheoretical: 23.981381 KDa
SequenceString: MKELRYLVVP NWVEHAIIRN ARDDLQVLLD PKSLFGILSP NDVGFYFAAQ NVPFFITKEH EQANPAVHLN NLLGGMFAYH YDETGLPPE KNVDVLCEYI NRYDNGYYHL LTSYPRDIER RLADPTYSPD KRPLSVRVRY VNEDVIAIVV DCLPLLAEEL L SDRIADNY ...String:
MKELRYLVVP NWVEHAIIRN ARDDLQVLLD PKSLFGILSP NDVGFYFAAQ NVPFFITKEH EQANPAVHLN NLLGGMFAYH YDETGLPPE KNVDVLCEYI NRYDNGYYHL LTSYPRDIER RLADPTYSPD KRPLSVRVRY VNEDVIAIVV DCLPLLAEEL L SDRIADNY SAVIEHLRIN MSLAEVAQLP LFRSYCTNRS IHYRLRRL

UniProtKB: Uncharacterized protein

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Macromolecule #8: PVC Protein gp59

MacromoleculeName: PVC Protein gp59 / type: protein_or_peptide / ID: 8 / Number of copies: 5 / Enantiomer: LEVO
Source (natural)Organism: Goslarvirus
Molecular weightTheoretical: 20.481064 KDa
SequenceString:
MSALRDVPLT LYGTGFFGFP VNGVKRQENY DRDVVSLYQR LVDGTPLDDW KYERQVLSTL YRLMYPITDW VEMNSHNPNL NFTSLEFIR DTLRFIHTGR RDTNVQIAGQ LIDNWSDRQS LSSHQRLESS GKLMSYITLS DEEMVRTWLH WDNGIQDIIC T LNAVFGQP MAPGFKGF

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
GridModel: Quantifoil / Support film - Material: CARBON / Support film - topology: LACEY / Support film - Film thickness: 2
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 BIOCONTINUUM (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 correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: INSILICO MODEL
Final reconstructionApplied symmetry - Point group: C5 (5 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 3.57 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4.7.1) / Number images used: 57747
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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Atomic model buiding 1

Initial modelChain - Source name: AlphaFold / Chain - Initial model type: in silico model
Output model

PDB-11fg:
Penton Vertex Complex of Bacteriophage Goslar

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