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- EMDB-80351: Triticum aestivum Trehalose-6-phosphate synthase 5 - T6P -

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ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-80351
TitleTriticum aestivum Trehalose-6-phosphate synthase 5 - T6P
Map data
Sample
  • Complex: Triticum aestivum Trehalose-6-phosphate synthase 5 - T6P
    • Protein or peptide: alpha,alpha-trehalose-phosphate synthase (UDP-forming)
KeywordsTriticum aestivum / Trehalose-6-phosphate synthase 5 / PLANT PROTEIN
Function / homology
Function and homology information


trehalose-phosphatase activity / alpha,alpha-trehalose-phosphate synthase (UDP-forming) / alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity / trehalose biosynthetic process / cytosol
Similarity search - Function
Trehalose-phosphatase / Trehalose-phosphatase / Glycosyl transferase, family 20 / Glycosyltransferase family 20 / HAD-superfamily hydrolase, subfamily IIB / HAD superfamily / HAD-like superfamily
Similarity search - Domain/homology
alpha,alpha-trehalose-phosphate synthase (UDP-forming)
Similarity search - Component
Biological speciesTriticum aestivum (bread wheat)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.23 Å
AuthorsLi WJ / Lin HJ / Fan MR
Funding support China, 1 items
OrganizationGrant numberCountry
Chinese Academy of SciencesXDB0630101 China
CitationJournal: To Be Published
Title: Triticum aestivum Trehalose-6-phosphate synthase 5 - T6P
Authors: Li WJ / Lin HJ
History
DepositionApr 16, 2026-
Header (metadata) releaseSep 30, 2026-
Map releaseSep 30, 2026-
UpdateSep 30, 2026-
Current statusSep 30, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_80351.png

Downloads & links

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Map

FileDownload / File: emd_80351.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.54 Å/pix.
x 400 pix.
= 214.2 Å		0.54 Å/pix.
x 400 pix.
= 214.2 Å		0.54 Å/pix.
x 400 pix.
= 214.2 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.5355 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.1
Minimum - Maximum-0.84118885 - 1.0997382
Average (Standard dev.)0.00024666844 (±0.028895665)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions400400400
Spacing400400400
CellA=B=C: 214.2 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_80351_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_80351_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_80351_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 : Triticum aestivum Trehalose-6-phosphate synthase 5 - T6P

EntireName: Triticum aestivum Trehalose-6-phosphate synthase 5 - T6P
Components
  • Complex: Triticum aestivum Trehalose-6-phosphate synthase 5 - T6P
    • Protein or peptide: alpha,alpha-trehalose-phosphate synthase (UDP-forming)

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Supramolecule #1: Triticum aestivum Trehalose-6-phosphate synthase 5 - T6P

SupramoleculeName: Triticum aestivum Trehalose-6-phosphate synthase 5 - T6P
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Triticum aestivum (bread wheat)

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Macromolecule #1: alpha,alpha-trehalose-phosphate synthase (UDP-forming)

MacromoleculeName: alpha,alpha-trehalose-phosphate synthase (UDP-forming)
type: protein_or_peptide / ID: 1
Details: The sequence of author provided organism is not available during the biocuration, replaced by corresponding Uniprot reference temporarily.
Number of copies: 2 / Enantiomer: LEVO
EC number: alpha,alpha-trehalose-phosphate synthase (UDP-forming)
Source (natural)Organism: Triticum aestivum (bread wheat)
Molecular weightTheoretical: 105.969594 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MDYKDDDDKW SHPQFEKGGG GSGGSAWSHP QFEKEFKGLV DMASRSYSNL LELAGGADRD QPLPSLGQPR IPRVMTASGI VPGLDRSDA PADAAASVAS DDQPDQPPRE RTIIVANQLP IRACRGADGA WEFSWDQDSL LRQLKEALRA HQGRAHMDFV Y IGGLRDDI ...String:
MDYKDDDDKW SHPQFEKGGG GSGGSAWSHP QFEKEFKGLV DMASRSYSNL LELAGGADRD QPLPSLGQPR IPRVMTASGI VPGLDRSDA PADAAASVAS DDQPDQPPRE RTIIVANQLP IRACRGADGA WEFSWDQDSL LRQLKEALRA HQGRAHMDFV Y IGGLRDDI PAEEQDKVAL ELYDRFRCVP AFLPDDLRSR FYHGFCKQQL WPLFHYMLPL SPELGGRFDR DLWKAYLSVN KI FTDKIME VINPEEDFVW VHDYHLMLLP TFLRKKFNRV RLGFFLHSPF PSSEIYKTLP VREEVLRALL NADLIGFHTF DYA RHFLSC CSRMLGMKYE SQRGYIGLEY YGRTVTVKIL PVGIHLMQLQ AVLNLPETGL KVAELMKEFP DRHRIMMLGV DDMD IFKGI SLKLLAFEEL LTQHPEYRGK VVLVQIANPA RGKGKDVKEV QDESYAMVKR INEAFGQPDY QPVILIDRPL HFYER MAYY VVAECCLVTA VRDGMNLIPY EYIIARQGNE KIDRILGLSP STRKKSMLVV SEFIGCSPSL SGAIRVNPWN IESVAE AMD KALHTGEGEQ ALRHEKHHKF VSTHDVGYWA NSFLQDLART CQDHNKRRCW GIGFGLRFRV VALDTSFKKL AAEQLIS AY RKASTRAILL DYDGTLMPES SFRKMPSSKT INMLNSLCRD EKNLVLIAST KTRATLSEWF SACEDLGLAA EHGYFIRL E RDAEWETCGP ATDFSWKQIA EPVMKTYTET TDGSIIEDKE TAIVWCYKDA DRDFGSCQAK ELHDHLESVL SNEPVSVKA DLNYVEVKPQ GVSKGLVAKR MLSTMQELGL QPDFILCVGD DRSDEDMFEV ITTAVDGPYL SPSATVFACT IGQKPSKAKY YLDEPADIK RMIRALASVS DQELALEEGE ELEEGEDPPY PFLAGDGTSS DDTWLD

UniProtKB: alpha,alpha-trehalose-phosphate synthase (UDP-forming)

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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: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TALOS ARCTICA
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.23 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 2078834
Initial angle assignmentType: ANGULAR RECONSTITUTION
Final angle assignmentType: ANGULAR RECONSTITUTION
FSC plot (resolution estimation)

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