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- PDB-11ei: Tail Sheath of Bacteriophage Goslar -

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Basic information

Entry
Database: PDB / ID: 11ei
TitleTail Sheath of Bacteriophage Goslar
ComponentsTail sheath protein gp29 gp29PR domain-containing protein
KeywordsVIRAL PROTEIN / Tail tube / Phage
Function / homology: / Bacteriophage phiKZ, gp29PR / Tail sheath protein gp29 gp29PR domain-containing protein
Function and homology information
Biological speciesGoslarvirus
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.36 Å
AuthorsBasu, D. / Gu, Y. / Corbett, K.D.
Funding support United States, 1items
OrganizationGrant numberCountry
Howard Hughes Medical Institute (HHMI)Emerging Pathogens Initiative United States
CitationJournal: To Be Published
Title: Tail Sheath of Bacteriophage Goslar
Authors: Basu, D.
History
DepositionFeb 18, 2026Deposition site: RCSB / Processing site: RCSB
Revision 1.0Aug 19, 2026Provider: repository / Type: Initial release
Revision 1.0Aug 19, 2026Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
L: Tail sheath protein gp29 gp29PR domain-containing protein
M: Tail sheath protein gp29 gp29PR domain-containing protein
N: Tail sheath protein gp29 gp29PR domain-containing protein
O: Tail sheath protein gp29 gp29PR domain-containing protein
P: Tail sheath protein gp29 gp29PR domain-containing protein
Q: Tail sheath protein gp29 gp29PR domain-containing protein
R: Tail sheath protein gp29 gp29PR domain-containing protein
S: Tail sheath protein gp29 gp29PR domain-containing protein
T: Tail sheath protein gp29 gp29PR domain-containing protein
U: Tail sheath protein gp29 gp29PR domain-containing protein
V: Tail sheath protein gp29 gp29PR domain-containing protein
W: Tail sheath protein gp29 gp29PR domain-containing protein


Theoretical massNumber of molelcules
Total (without water)921,33512
Polymers921,33512
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author&software
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
Noncrystallographic symmetry (NCS)NCS domain:
IDEns-IDDetails (eV)
d_1ens_1chain "W"
d_2ens_1chain "L"
d_3ens_1chain "N"
d_4ens_1chain "O"
d_5ens_1chain "P"
d_6ens_1chain "Q"
d_7ens_1chain "R"
d_8ens_1chain "S"
d_9ens_1chain "T"
d_10ens_1chain "U"
d_11ens_1chain "V"
d_12ens_1chain "M"

NCS domain segments:

Component-ID: 1 / Ens-ID: ens_1 / Beg auth comp-ID: LEU / Beg label comp-ID: LEU / End auth comp-ID: ARG / End label comp-ID: ARG / Auth seq-ID: 3 - 682 / Label seq-ID: 3 - 682

Dom-IDAuth asym-IDLabel asym-ID
d_1WL
d_2LA
d_3NC
d_4OD
d_5PE
d_6QF
d_7RG
d_8SH
d_9TI
d_10UJ
d_11VK
d_12MB

NCS oper:
IDCodeMatrixVector
1given(0.784610216499, -0.619831068436, -0.0140090958582), (0.619908124944, 0.784672884621, 0.00154297428798), (0.0100361742565, -0.00989498573574, 0.999900677299)250.264774625, -119.30787774, -40.3633887565
2given(-0.929952291562, -0.367679459958, -0.000741716982389), (0.367678529811, -0.929940059527, -0.00489738742539), (0.00111091642902, -0.00482705006853, 0.999987732651)675.577235411, 460.752687999, -38.3743013252
3given(-0.787393245317, 0.616409383175, 0.00716586094719), (-0.616419499603, -0.787417345519, 0.00096150127134), (0.00623520161098, -0.00366009681287, 0.999973862635)341.604849445, 705.856219035, -40.3717646577
4given(0.138081584258, 0.990347895749, 0.0120217085042), (-0.990411666201, 0.138017836604, 0.0059839979679), (0.00426702959563, -0.0127327202699, 0.999909831081)-41.2372470093, 542.041655894, -37.608953374
5given(0.928563268108, 0.371166879786, -0.00232475179733), (-0.371156672819, 0.928562104945, 0.00389120566294), (0.00360296308693, -0.00275038350503, 0.999989726971)-87.0202406084, 128.836893741, -39.7491397957
6given(0.5009080372, -0.865499385925, -0.00139686522456), (0.865500307616, 0.500906153585, 0.00149760359473), (-0.000596476604885, -0.00195914895869, 0.999997902973)401.890147754, -108.167152173, 0.633444289777
7given(-0.498264549987, -0.867022397874, 0.00214471693936), (0.867022968583, -0.498267250001, -0.000958918597333), (0.00190004611303, 0.00138172370416, 0.999997240328)694.624750077, 186.110891491, -0.955032772839
8given(-0.99994644884, -0.00971221687093, -0.00357383480398), (0.00970772062675, -0.999952068279, 0.00127330468739), (-0.00358603011519, 0.00123854271061, 0.999992803174)591.311489456, 584.231936485, 1.11146476295
9given(-0.504518566853, 0.863400722755, 0.000455682222711), (-0.863397581092, -0.50451804128, 0.00248253650501), (0.00237332371514, 0.000859050830833, 0.999996814678)188.182047943, 694.92858516, -0.74387306323
10given(0.510228466339, 0.860024829851, 0.0049197740447), (-0.86003184648, 0.510192762404, 0.0069690910995), (0.0034835582768, -0.0077869910194, 0.999963613134)-111.450918709, 394.889017192, 0.57761318072
11given(-0.14587198377, -0.989301891959, 0.00176943973498), (0.98929080337, -0.145878934451, -0.00480029688688), (0.00500706677527, 0.00105026162736, 0.999986913031)626.987027444, 47.7260352522, -41.1854851114

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Components

#1: Protein
Tail sheath protein gp29 gp29PR domain-containing protein


Mass: 76777.891 Da / Num. of mol.: 12 / Source method: isolated from a natural source / Source: (natural) Goslarvirus / References: UniProt: A0A482GKT6
Has protein modificationN

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: HELICAL ARRAY / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: Goslarvirus / Type: VIRUS / Entity ID: all / Source: NATURAL
Molecular weightExperimental value: NO
Source (natural)Organism: Goslarvirus
Details of virusEmpty: NO / Enveloped: NO / Isolate: STRAIN / Type: VIRION
Natural hostOrganism: Escherichia coli
Buffer solutionpH: 7.5
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
Specimen supportGrid type: Quantifoil
VitrificationInstrument: FEI VITROBOT MARK II / Cryogen name: ETHANE / Humidity: 95 % / Chamber temperature: 277 K

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: TFS KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 2000 nm / Nominal defocus min: 1200 nm
Image recordingElectron dose: 50 e/Å2 / Film or detector model: GATAN K3 BIOCONTINUUM (6k x 4k)

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Processing

EM software
IDNameVersionCategory
1cryoSPARCparticle selection
2EPUimage acquisition
7UCSF ChimeraXmodel fitting
9PHENIXmodel refinement
13cryoSPARC4.7.13D reconstruction
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
SymmetryPoint symmetry: C6 (6 fold cyclic)
3D reconstructionResolution: 3.36 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 1143360 / Symmetry type: POINT
Atomic model buildingSource name: AlphaFold / Type: in silico model
RefinementCross valid method: NONE
Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
Displacement parametersBiso mean: 140.52 Å2
Refine LS restraints
Refine-IDTypeDev idealNumber
ELECTRON MICROSCOPYf_bond_d0.001664968
ELECTRON MICROSCOPYf_angle_d0.36988260
ELECTRON MICROSCOPYf_chiral_restr0.03929852
ELECTRON MICROSCOPYf_plane_restr0.002911556
ELECTRON MICROSCOPYf_dihedral_angle_d6.977423640
Refine LS restraints NCS
Ens-IDDom-IDAsym-IDAuth asym-IDRefine-IDTypeRms dev position (Å)
ens_1d_2LWELECTRON MICROSCOPYNCS constraints3.11515030143E-11
ens_1d_3LWELECTRON MICROSCOPYNCS constraints2.39742603195E-12
ens_1d_4LWELECTRON MICROSCOPYNCS constraints9.90653813912E-11
ens_1d_5LWELECTRON MICROSCOPYNCS constraints6.25759057093E-11
ens_1d_6LWELECTRON MICROSCOPYNCS constraints2.24244883204E-12
ens_1d_7LWELECTRON MICROSCOPYNCS constraints1.01647870766E-11
ens_1d_8LWELECTRON MICROSCOPYNCS constraints2.57486914127E-11
ens_1d_9LWELECTRON MICROSCOPYNCS constraints1.20828529596E-12
ens_1d_10LWELECTRON MICROSCOPYNCS constraints7.48207541174E-11
ens_1d_11LWELECTRON MICROSCOPYNCS constraints1.29309586142E-12
ens_1d_12LWELECTRON MICROSCOPYNCS constraints2.94686016776E-12

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