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- EMDB-70628: Cryo-EM structure of the salivary protein complex Saglin-SGS4 fro... -

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Basic information

Entry
Database: EMDB / ID: EMD-70628
TitleCryo-EM structure of the salivary protein complex Saglin-SGS4 from Anopheles gambiae
Map data
Sample
  • Complex: Saglin-SGS4 complex
    • Protein or peptide: SGS4
    • Protein or peptide: Saglin
  • Ligand: 2-acetamido-2-deoxy-beta-D-glucopyranose
Keywordscomplex / mosquito salivary proteins / Coiled-coil / pathogen transmission / ALLERGEN
Function / homologyTox-SGS domain / Salivary glad secreted protein domain toxin / : / Rhs repeat-associated core / : / extracellular region / Saglin / SGS4
Function and homology information
Biological speciesAnopheles gambiae (African malaria mosquito)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.4 Å
AuthorsSu T / Liu S / Williams AE / Calvo E / Zhou ZH
Funding support United States, 2 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01GM071940 United States
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)AI001246 United States
CitationJournal: To Be Published
Title: Cryo-EM structure of the salivary protein complex Saglin-SGS4 from Anopheles gambiae
Authors: Su T / Liu S / Williams AE / Calvo E / Zhou ZH
History
DepositionMay 14, 2025-
Header (metadata) releaseMay 27, 2026-
Map releaseMay 27, 2026-
UpdateMay 27, 2026-
Current statusMay 27, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_70628.png

Downloads & links

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Map

FileDownload / File: emd_70628.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.1 Å/pix.
x 360 pix.
= 396. Å		1.1 Å/pix.
x 360 pix.
= 396. Å		1.1 Å/pix.
x 360 pix.
= 396. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.1 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.6
Minimum - Maximum-2.1758533 - 3.3333755
Average (Standard dev.)0.0012542899 (±0.07535116)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions360360360
Spacing360360360
CellA=B=C: 396.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_70628_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_70628_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 : Saglin-SGS4 complex

EntireName: Saglin-SGS4 complex
Components
  • Complex: Saglin-SGS4 complex
    • Protein or peptide: SGS4
    • Protein or peptide: Saglin
  • Ligand: 2-acetamido-2-deoxy-beta-D-glucopyranose

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Supramolecule #1: Saglin-SGS4 complex

SupramoleculeName: Saglin-SGS4 complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#2
Source (natural)Organism: Anopheles gambiae (African malaria mosquito)

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Macromolecule #1: SGS4

MacromoleculeName: SGS4 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Anopheles gambiae (African malaria mosquito)
Molecular weightTheoretical: 389.666125 KDa
SequenceString: MDAPKQFYSL QLPGKSLTKA PPGNTVEVKR APSAEQIIFV RNNRALLIYE RMGGSWSEVH KRNNFFAVSN DDASYPWAVY DDGLLAVRK VKGFVLYRWN KKELNELLVA AKYHDEYGYA LSNNTILFGN IYPSAEYIGV ISRLHSVVEF SSAKPSDPRK R VRPLKKQL ...String:
MDAPKQFYSL QLPGKSLTKA PPGNTVEVKR APSAEQIIFV RNNRALLIYE RMGGSWSEVH KRNNFFAVSN DDASYPWAVY DDGLLAVRK VKGFVLYRWN KKELNELLVA AKYHDEYGYA LSNNTILFGN IYPSAEYIGV ISRLHSVVEF SSAKPSDPRK R VRPLKKQL DLEAAWMQPS STISLVERYD NNAQLSIALR TAAELKLFRF DNQYQLKELA TVKDFLPLDD EYDRIMFAKF DD ANINDLL HFTTKGLTMY RFFEESGVFE KVYYSTAFSK LRGWNRRTIE SIATVNIDGD KWDELIASGP RGLCLYRPVF GND GFELVN IFDETIEDGE MRYGIPKLTT KLADSDGFNV LLFTGANLVS VQTKPYIPRI YDVPSAAQTV VKANAVAPLL VPQK KYIVW LHDQLDLNSM LQPLNPHAGT VELSIPLIEL PNAFGVSVRK YVQYKNIPFE SFFGRGWSLP LDYISVERKN SAFLQ DHDY AVLKNNNRII LKRYPHLDSV DCWSFEIDGF KQATIKYYPS KERWEMTMED RTFVYGAWEN LSKRREEDVC ASWPLC GEK SAKKRKLPSR WYLVHEESKY GAYANYYYDP LVEGKGDRLA RIELSSGSSV SFKYSEQNKL VNFKVNTTCY EQNVSFE YE GNWLKQINQE DRPLFKFDYK DDRMWKIVYP NRLESMLEYS DVQIDRTRFE EAVPVDLNPT IYYGPDYTVI LDKEFEDD R VAITIRNLLG GTDGPKAMKE KLHFGQPGIK SHTIHALEDM LVVVLIYGSQ KEVTVLQFTG NDWVEKEYIS DFPLDAVIS VGKKFVVLCD LKTLRVLTIN HKGNLNDTEV QKSLPPKFLI HTFGNGFLMC SASSIDVWTM GIKNEWQKGS TQAPTNIFTD IDKLLNAFV LDAEFSTALR KGFLADAVTV YQNAIVIRVP VLDGQKLNLK VFFLIMNYDR GATQVSKQTV QIPIANFDTY E YDMPTKDG DVFKLHYKVQ NNKYVLKLKS MKGPLNNSLT EQKQKSYKQI DASGEAVEKK AQYKKEVDEK FAEEVDNISQ TV VSKAQFA MDLSQFGVLT NQHGVVTGNV QLSFDGQTWQ QQPIDPATMR MEKVDQPLGA GFKLAKYSYQ DTFKVYEMPR HAV VYDTQT NNPQEIQVVA PRYIQSQPAG KQLSMFFFHT KETIQQPANV TMVRASNTIS LVTVRHVNET SKFVVFRPVD SFLL KMTSL FTKQRVRLDQ DELRTSSYNY HPRDVHLSSE GAMFYRVKVA PGDNEKRFGW YEQATNSSTG ATTKKSFAAD GTDVT VREK PKQESNRDAD VKDLERTIWD RSKQLKIIDL GALKLADEVA SYYGFEAYEL NRYGVDKEWS FNLADVQFER DNHYLK LPA SSTLKATFTP TEPKNLWIVS FWVRIGNGEM VPKVDDMLNV LMVELVNLNN QKRVQLTGAK VHHIMSNWCY AEMTIDT TH TADGSKLSFN ITIKPSESHT SIDVDHVRFS PLNLNFRANV YTPDTAEVRA TLCNNGLLKQ NLYSPTGKRV ALLSEDGQ V VDFAMHSKTA FVASVNARQC LIEMKPNYGT FETFEPSYWK QGSTEWSIRY GEVEYNPGSV AQRGELSRTF DRPFESVAL RFVYNTSVDD SKLSFSWNGQ EFNLFCSTGS SNSCNRPPKA GEVLIFITEL RVSVWLEGHL LSETLIKPDS RVQALKEFRL LPTGSIKIA EFLVMYDARV KVTYHNRMGR PVQVVVYDDP RTVRVREIIY DEIDRPIMQT KWTKLTSHLK EYFAFYENFI T QVHGTSHV MSGMVAKAHP SCEGFPYSRT IYANDPTENK QYQGLPGKEY TVLGKYKRRY AMRPEIKVLA NIFPVAEGYR QS IVERPGG AIRATVEDKR GNKVAKYWQV GNYEHRLTTY TYSETYGHLI EVLPPQFHAL AKTTSRTRPF LTGGNTQEEI KLR NLWRVS YEYDYGNLID KRTPDGGTYE YIYSESGILR FSIHYNAPER VNMDRVVHFT YSSHGKVMRE ALVNLTRESC YQIV KTNEV PESTDLIESF YGEVESNPDV RYRSQQSTRK IGKNQMMESL IFDENEQVIK KVFFVPTINR TYSIDYEYEN GKLHS LRYP MDSAASSFTL IYDYNKNGEV KSIKESTKRV PMFEFSYNAD GMVETMNVRT DPTHTFQRNF TYNEPGFLIK LADNYL TES VSYLETDSYG QDSYTPIYEG LISKTLFTAH WQKATSPLRN GIYTEYLMSD NMNRAQASLC LEVLKRTGYI DENNLVN RT LYGDMNDDLP FVCGKRLALN HLSKVLSTRS FPYQYGHRYD YDDHDQLIKA KYFHGLEELK LAPLTHHTFH KEIKGIDE A KSKKIWDALR EKSFLTTDCT NPSLCHGREG TKSIFNDFIH QHRYSHHLKL MLSKAISARK GLDVKTFEEK CTRWIEGSN MILKACTNLK EEMMKQKLFG ESADAPVASL NEAFKKALQR YKSNVPDIVG VLNHHFMTAL GRSAGDVQSY EIDANGNHRM FYTGFSRYR LEYQEGTNKI TKLYRQQFDR AQGGREEFTM AHDGDGAVIQ AQHKGIKHMA YDKLLQRVSE IEMTDGRKIL Y QYDVRAER TFKQVRGKDG KVMSEKYYIR DANGLVLMDM DMSYLASDQP PDVRVTSYIY KDQQLIVFVR NDKLYGVITD HE GSVRLVV REGEVVAAYD YLPYGQIFRR FGTDLDGQIS YLYTGQEWEP ETGLYNYRAR LYDPDIGRFY QMDPKEQYPS PYV YAGNSP VSLIDPDGEF AFTLAVLILA LVGAYLGAAS ANNCWNPLKW DWRSSSTWIG LLTGAVTGAS IPFNMASSVA FFVG MGLSL STSIAIMVGT GITFAYFMMA ASSGTWDPTK FDYSSPGTWN ALMNGVATSS WILMNPSSLI SSFVSITSVA AKALF FVAK LTMSLGFTYL FAALGQGGEF DMTKWDYSDP ALYMSFVDGF TTATVGVLFL RNLPRQISKW SGKVKRTVDI FVANMI TFR AQLALGRDWS RLIMHTKNFL YVGVRNLQTL QKGFLTVGFY SLIVSLRMSL ISESAIPEFT AAEASINVLF STEQFSD FI VKPLSKASPK LRLPKPPNLA RMLRFRIRSD AIRIGSNESI VVPNHMERSS ASSLHNMFNN WIKLPFEWLF STSMRENE N EFDKRVSMIS APTRNMAKSA FSLRNCYKIY SEEHLDGMIS CFGHSSTVTI IPKFESNPRI ENADHYKYCM PLTYDGHPS ASCEGEWSSL VYTAKETARV FDFVDGWILL AQVAPIAWKE IKLGFKYIFS RPKRDQQVSH TDMVEYEKKM LYCRLDEMKT QINTHQQLS WAQWTYEDLA EDVEVYLNKG QGSMNLLDER INALEAEIKE DFILQRLQSV LREHCATDSS VHVRRNANSK I DFLYAGQT NSHKVQNVVS AFDLLGDNVK FNAILQSKSN

UniProtKB: SGS4

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Macromolecule #2: Saglin

MacromoleculeName: Saglin / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Anopheles gambiae (African malaria mosquito)
Molecular weightTheoretical: 45.245883 KDa
SequenceString: GQEATEDPFA DETDQCQISV SAETMKSLHG GSMQPDGTCD NLWESFLSQF HQVRENLTAC QERAAAGPAP DPSSQFCQQL LDDAQRQME QEHRQYAATL EEQLHAAQQE TQQEQEMKKA LQKQLDALTD SRNALYIDLL LANIAIGETK QALSYYNLMP A SMPIDKLH ...String:
GQEATEDPFA DETDQCQISV SAETMKSLHG GSMQPDGTCD NLWESFLSQF HQVRENLTAC QERAAAGPAP DPSSQFCQQL LDDAQRQME QEHRQYAATL EEQLHAAQQE TQQEQEMKKA LQKQLDALTD SRNALYIDLL LANIAIGETK QALSYYNLMP A SMPIDKLH EQIVRFVYRV TIYQDQRLLN LMRFVRDIPS VEERRSLYQL AQREVQKRPS QRDGYVAAVY ALSVREDLPV YQ ANRQLYD DLVRQSETRL KEQVANGNFK QAAELAARQP QHFRQLQTSL ATIELKHWRK FDRFVPYANA LPQPAQRLEV LRV LLSQIG DREKKTSHKY LVKAARQFDI CEQFIGRGKV DQAVKKQLEE LRGKFATFAK GKNYQHYLSE SRKSSG

UniProtKB: Saglin

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Macromolecule #5: 2-acetamido-2-deoxy-beta-D-glucopyranose

MacromoleculeName: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 5 / Number of copies: 3 / Formula: NAG
Molecular weightTheoretical: 221.208 Da
Chemical component information

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose

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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
Details: 137 mM NaCl, 2.7 mM KCl, 4.3 mM Na2HPO4, and 1.4 mM KH2PO4, pH 7.4
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 281.15 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeTFS KRIOS
Specialist opticsEnergy filter - Name: GIF Quantum LS / Energy filter - Slit width: 20 eV
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.5 µm / Nominal magnification: 81000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: CTFFIND / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: INSILICO MODEL / In silico model: Ab-Initio Reconstruction via CryoSPARC
Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 91242
Initial angle assignmentType: ANGULAR RECONSTITUTION / Software - Name: cryoSPARC
Final angle assignmentType: ANGULAR RECONSTITUTION / Software - Name: cryoSPARC
Final 3D classificationSoftware - Name: RELION
FSC plot (resolution estimation)

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Atomic model buiding 1

RefinementSpace: REAL / Overall B value: 113.2
Output model

PDB-9on3:
Cryo-EM structure of the salivary protein complex Saglin-SGS4 from Anopheles gambiae

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