+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-36143 | |||||||||||||||
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Title | CryoEM Structure of metazoan Mon1-Ccz1-RMC1 complex | |||||||||||||||
Map data | ||||||||||||||||
Sample |
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Keywords | Rab cascade / Rab GTPase / guanine nucleotide exchange factors / autophagy / Cryo-EM / SIGNALING PROTEIN | |||||||||||||||
Function / homology | Function and homology information guanyl nucleotide exchange factor inhibitor activity / Mon1-Ccz1 complex / RAB GEFs exchange GTP for GDP on RABs / guanyl-nucleotide exchange factor adaptor activity / protein targeting to vacuole / endosome to lysosome transport via multivesicular body sorting pathway / neuromuscular junction development / synaptic cleft / vesicle-mediated transport / guanyl-nucleotide exchange factor activity ...guanyl nucleotide exchange factor inhibitor activity / Mon1-Ccz1 complex / RAB GEFs exchange GTP for GDP on RABs / guanyl-nucleotide exchange factor adaptor activity / protein targeting to vacuole / endosome to lysosome transport via multivesicular body sorting pathway / neuromuscular junction development / synaptic cleft / vesicle-mediated transport / guanyl-nucleotide exchange factor activity / regulation of autophagy / autophagy / late endosome membrane / intracellular membrane-bounded organelle / lipid binding / cytosol Similarity search - Function | |||||||||||||||
Biological species | Drosophila (fruit flies) | |||||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.25 Å | |||||||||||||||
Authors | Jia GW / Yong X / Su ZM / Jia D | |||||||||||||||
Funding support | China, 4 items
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Citation | Journal: To Be Published Title: CryoEM Structure of metazoan Mon1-Ccz1-RMC1 complex Authors: Jia GW / Yong X / Su ZM / Jia D | |||||||||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_36143.map.gz | 204.1 MB | EMDB map data format | |
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Header (meta data) | emd-36143-v30.xml emd-36143.xml | 16.8 KB 16.8 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_36143_fsc.xml | 12.7 KB | Display | FSC data file |
Images | emd_36143.png | 62.5 KB | ||
Filedesc metadata | emd-36143.cif.gz | 6.4 KB | ||
Others | emd_36143_half_map_1.map.gz emd_36143_half_map_2.map.gz | 200.6 MB 200.6 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-36143 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-36143 | HTTPS FTP |
-Validation report
Summary document | emd_36143_validation.pdf.gz | 1.2 MB | Display | EMDB validaton report |
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Full document | emd_36143_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | emd_36143_validation.xml.gz | 21.5 KB | Display | |
Data in CIF | emd_36143_validation.cif.gz | 27.7 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-36143 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-36143 | HTTPS FTP |
-Related structure data
Related structure data | 8jbeMC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_36143.map.gz / Format: CCP4 / Size: 216 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.85 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_36143_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_36143_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : CryoEM structure of the metazoan Mon1-Ccz1-RMC1 complex
Entire | Name: CryoEM structure of the metazoan Mon1-Ccz1-RMC1 complex |
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Components |
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-Supramolecule #1: CryoEM structure of the metazoan Mon1-Ccz1-RMC1 complex
Supramolecule | Name: CryoEM structure of the metazoan Mon1-Ccz1-RMC1 complex type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Drosophila (fruit flies) |
-Macromolecule #1: MIP05619p
Macromolecule | Name: MIP05619p / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Drosophila (fruit flies) |
Molecular weight | Theoretical: 72.058391 KDa |
Recombinant expression | Organism: Spodoptera frugiperda (fall armyworm) |
Sequence | String: MDNSNGIHYI ELTPNPIRFD AVSQLTNVFF DDSNKQIFAV RSGGATGVVV KGPGSPDDVV ISFCMSDRGG AIRSIKFSPD NQILAVQRK ENSVEFICFQ GDQPLLQDII THQVKTLIHG FVWVHNREVA LISNTGVEVY TVVPEKRQVR SVKSLSIGIK W FAWCCDAN ...String: MDNSNGIHYI ELTPNPIRFD AVSQLTNVFF DDSNKQIFAV RSGGATGVVV KGPGSPDDVV ISFCMSDRGG AIRSIKFSPD NQILAVQRK ENSVEFICFQ GDQPLLQDII THQVKTLIHG FVWVHNREVA LISNTGVEVY TVVPEKRQVR SVKSLSIGIK W FAWCCDAN VALLCTSEGN SLIPVLVKQK VITKLPKVDL GNPSRDVQES KVTLGQVYGV LAVLILQSNS TTGLMEVEVH LL NGPGLAP RKCHVLRLSL LGRFAINTVD NLIVVHHQAS GTSLLFDISL PGEVINEITY HTPITPGRSI KPFGLKLPSL SPD GQILQC ELYSTHWVLF QPNIVIDAKL GCMWFLNLCI EPLCQLISDR IRLTEFLLQR SNGKQMLLKV IGQLVDDQYK GTLL PVLET IFSRINKIYA SWVQLELQNQ TAQPSNVKTT TLKQSTPPIV LIEQLDMVQI FQRIARRPYT ESILMLYLQS LNKFN IAAQ EELSKMIISE LISNRSFDTL RRLVSYSMLL ESKSVACFLL SHSNVDTAIS QVAIDMLGRI EAHEIIIEVM LGQGKV IDA LRLAKNSMGL EKVPARKFLE AAHKTKDDLI FHSVYRFFQM RNLKLYETLS FPKAEQCTEF IQHYNNTFPA DNPTRQP VS UniProtKB: Regulator of MON1-CCZ1 complex |
-Macromolecule #2: Caffeine, calcium, zinc sensitivity 1
Macromolecule | Name: Caffeine, calcium, zinc sensitivity 1 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Drosophila (fruit flies) |
Molecular weight | Theoretical: 55.589875 KDa |
Recombinant expression | Organism: Spodoptera frugiperda (fall armyworm) |
Sequence | String: MAKLLQRVEI TLRSFYIFNS TFGQVEGEEH KKVLFYHPND IELNTKIKDV GLSEAIIRFT GTFTSEDDCQ ALHTQKTTQL FYQPEPGYW LVLVLNVPKE VRLKEGVEVA DYRGAEISDR IYRAILRQCY QMFRFQNGCF SSCGSEEPNP DKRRELLCQK L LQFYDQHL ...String: MAKLLQRVEI TLRSFYIFNS TFGQVEGEEH KKVLFYHPND IELNTKIKDV GLSEAIIRFT GTFTSEDDCQ ALHTQKTTQL FYQPEPGYW LVLVLNVPKE VRLKEGVEVA DYRGAEISDR IYRAILRQCY QMFRFQNGCF SSCGSEEPNP DKRRELLCQK L LQFYDQHL TNLRDPAQCD IIDMLHSIQY LPLDKTLFLR AQNFGTLCET FPDIKESIML YQEQVLCGGK LSPEDLHCVH SY VVQHVLK VEASSSTIAV SPSLKRSISE CQVGGFVRSR QKVAGDEHDA VNEEDHPMKV YVTLDKEAKP YYLLIYRALH ITL CLFLNA DQVAPKQDLY DDLHAYMAPQ LTSLARDISS ELTKEAVGAA GQDNSSGNSE TAPKYLFINE QSLQHHTNFQ RHLP QGLPR NVLSIIADLA NGSGKAEMES APAEEVQVKT TNDYWIVKRR CNYRQYYVIL CNSKATLLDV TQEARRIFEQ ELTDD VFFD K UniProtKB: Vacuolar fusion protein CCZ1 homolog |
-Macromolecule #3: Vacuolar fusion protein MON1 homolog
Macromolecule | Name: Vacuolar fusion protein MON1 homolog / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Drosophila (fruit flies) |
Molecular weight | Theoretical: 62.338719 KDa |
Recombinant expression | Organism: Spodoptera frugiperda (fall armyworm) |
Sequence | String: HHHHHHHHHH ENLYFQGGGS MEVEQTSVRS DTNSTCEYLD AEGDPESPNL YQEADPDQEA EQQNHSIISE LRDGLGTMRD NSALSPEPG QENKGLAASV ESLALSTSTS AKTEDSIGGG LEEEYDYQHD SLWQGQKKHI FILSEAGKPI FSLHGNEDKL A TLFGVIQA ...String: HHHHHHHHHH ENLYFQGGGS MEVEQTSVRS DTNSTCEYLD AEGDPESPNL YQEADPDQEA EQQNHSIISE LRDGLGTMRD NSALSPEPG QENKGLAASV ESLALSTSTS AKTEDSIGGG LEEEYDYQHD SLWQGQKKHI FILSEAGKPI FSLHGNEDKL A TLFGVIQA LVSFVQMGQD AITSIHAGGI KFAFMQRSSL ILVAASRSNM SVQQLQLQLG DVYNQILSIL TYSHMTKIFE RR KNFDLRR LLSGSERLFY NLLANDSSSA KVSNNIFTFL TNSIRVFPLP TTIRSQITSA IQSNCSKIKN LVFAVLIANN KLI ALVRMK KYSIHPADLR LIFNLVECSE SFKSSENWSP ICLPKFDMNG YLHAHVSYLA DDCQACLLLL SVDRDAFFTL AEAK AKITE KLRKSHCLEA INEELQQPFN AKLYQQVVGI PELRHFLYKP KSTAQLLCPM LRHPYKSLTE LERLEAIYCD LLHRI HNSS RPLKLIYEMK EREVVLAWAT GTYELYAIFE PVVDKATVIK YVDKLIKWIE KEYDVYFIRN HATF UniProtKB: Vacuolar fusion protein MON1 homolog |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 QUANTUM (4k x 4k) / Average electron dose: 63.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 0.7000000000000001 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |