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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-12319 | |||||||||
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Title | Nematocida Huwe1 in open conformation | |||||||||
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![]() | Huwe1 / Nematocida / E3 Ligase / HECT / LIGASE | |||||||||
Function / homology | ![]() HECT-type E3 ubiquitin transferase / Golgi organization / base-excision repair / protein polyubiquitination / ubiquitin protein ligase activity / membrane fusion / Golgi membrane / nucleus Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 6.37 Å | |||||||||
![]() | Petrova O / Grishkovskaya I | |||||||||
![]() | ![]() Title: Crystal structure of HUWE1: One ring to ubiquitinate them all Authors: Grabarrczyk DB / Petrova OA / Haselbach D / Kessler D / Clausen T | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 228 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 18.2 KB 18.2 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 18.4 KB | Display | ![]() |
Images | ![]() | 108.9 KB | ||
Masks | ![]() | 244.1 MB | ![]() | |
Filedesc metadata | ![]() | 7.1 KB | ||
Others | ![]() ![]() | 194.6 MB 194.2 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1 MB | Display | ![]() |
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Full document | ![]() | 1 MB | Display | |
Data in XML | ![]() | 21.1 KB | Display | |
Data in CIF | ![]() | 27.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7nh3MC ![]() 12318 M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.86 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Mask #1
File | ![]() | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_12319_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_12319_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Huwe1
Entire | Name: Huwe1 |
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Components |
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-Supramolecule #1: Huwe1
Supramolecule | Name: Huwe1 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 287 KDa |
-Macromolecule #1: E3 ubiquitin-protein ligase HUWE1
Macromolecule | Name: E3 ubiquitin-protein ligase HUWE1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 287.751281 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MKIERPMERR FSQPGKQISN TIKQLSNLPE EELPTYLNNI YEWRCAKTDL LYWVDVLDRF DEILKAVVTE YGLGQFQNKP MKESDKEMV YAILKFQKLL VENSSNKSMF SSFDVVEPFI YSFELDLAIE ALYLVSFFAS KIHIQRSIKT SMALMKMETL K TLIERVKE ...String: MKIERPMERR FSQPGKQISN TIKQLSNLPE EELPTYLNNI YEWRCAKTDL LYWVDVLDRF DEILKAVVTE YGLGQFQNKP MKESDKEMV YAILKFQKLL VENSSNKSMF SSFDVVEPFI YSFELDLAIE ALYLVSFFAS KIHIQRSIKT SMALMKMETL K TLIERVKE KPQSMYTYYD ETTNNCKRVS IKKAVKKGIY SISDKMLPSQ EIRRFIHAIR LHEMAEQHEK LKIIRMLAFS AL VYYNYTD LPIDSEFISR DLPETLAIIN TESYQMREAA VTMIDAIFRM RIRHSAVIAA MNAQSHEGMI MNLLKKVVNE DVP EHFAIV FFNFLSSCFA SGPCVSALFS AGIVQYVCNT LRDQPDISYR KRMRLVMGAN TFLFTLPAPF TWFISENGIR ILSK ELLLA VDVALGNIKD HDLLMYINSI MKIISQLFKN AGTAEAMRGF LEGEFPRAIS LILFHSEEFT PSILAYLFSA VGDYI HNEP SNLPFIIEAG IFDGFVMCMK KELPESPDFL LELPNLIEAF FLNSELIKKI DEENILDRIF ESFEIVNLSN IILMYD IGR AYGIFLENLV RHYPIISLTV KEKIYNTMKN LESMIPNTDP ELMRLLLGNL FRMMHRAVYR KTTNNQLITD KGLLNNR II SMLMLIEIPT ETELYTDVMN ILMEVFDEDQ TYVISYIAKV IDRVMKNKVT LENIEKIKRI LLIVNYLIFK NEETCEEF I KHCTSKGFLQ IVKRISQYFD NLKKDTALVS VAKNESLTNL YYSFTMGILK TVYRYSKTNA KEYLKIFGLL VEDLLSKTE QIDHLYYTQR MHGLKNYIMV DKSPQQYPQK NEFVVTQEYL MGINLSETLM EHAKNSVSML KDEKITMDAH KKVVSSILEV LSIYVRGIK NLFVPVKEPK KKVCEIEEHV LIIVELLMDY IDKSSIEHLL NIVKTAFFVT LRKQITKEMD RENEGSAEYK R RNILGSFF ISVFLNLPKE ETEAVLKSDI FTILVKNKKT FKQVYNKNCF GLLQYAAIKE SRVFSHLVSF IPKMTKQVGA ST DPAFLKL YAVGLVFVAM RDTLKKTTVL SRFIGNIVFA ESTCPAVVEA QGIVILAIVK LKIEYNLAIT IEDPIIHLNR IYA IVETAE QKEGLVILAN LLIRRVIESK EAAKEAVDTI IKNKHLGKSR MYTVHTVCSN LRNALFYSIS SFLEYLSSNF ECIS AGWEE IRHKLPDESA NPTESGQISE AVLETLSDGL FTKQIKIYSG LNAELFRTLF VHRATGKMEQ IVRIHSLCLL VVSFP QLIS TLVPEDYSFF MYFLENHAAY SKSLKPSAFQ QEDKTLAYWS GHFIMLIFNH TTYVEVKKYI LEKVLELLPT SINATV IFS ELIQEILTMR FSKNTFDENT ALVKEMNCLE VMIRSTMQID NRRKDYGSIM EILTKPMEYI TRILAVDEKE AFYEEVT QS EEEVYFEDID EGYMEDFDTD ETMDSDQVVY DDTEENSQEV GELCSEDSLT VYTAESNNYG EYLMSDEESS SEEEGMDE E QSSSEQSEKN EFLKSLCILP ISKLIGKEME IFNADERMPF VQKILEGSII SNLQEKEPSS TDEETFDSEE GSYRRHQYL MRREEENDDE ELNDYAIDPT DPDAHLDDEG PEEIDEGVDE YDDESQYDYD GNGSDDEEYD DEESFATGEE IAIGDENGEI PELDVEVLN NLPSSILEDT VENFYQDRIS SSTEYRAISL HFLNRLREEV RSVFEEHEAR YMETFAGEIV PRREEKKKKP Q EMPFIAER EAAASVPIDI VFGLIHMVLQ CGNRRNLYRI IHNISANKEV RIFSVETLVN SIYQAVVEGA SSSAGAGSST VN ASAGSSG NNEVIAPEVI TKRGFEALTY LCTKSSDFTT VFSYNTELIN KILQATNKRT ISESVKLLST VGDCFNNDKV AEP ENIEVR KYIGFLEYDM TDDTFKHFCE FIKKTDRFYR PMYLLYLMGG SKKSLEECLD KKAEFNSHTH HKGIIKLVRM LSLV NIMGI TETYLDSLME LREMPFWEYY FNIILPKEKE SLYASSILPL FKAFVIVHTI QMYIGRNENI NEFSEIPNSD SSIYY SVVE KEKDLINTFI QADPDLLFHA FAGLQKKILD FDNKRIYFYK KIREDVQLRP TISLMVQRGA VFEDTFHQLM RLNGEQ VRN AKFNIKFAGE EGVDAGGLTR EWYSELSKEM FNANYALFTP IGSSYQPNHI SHINPEHLVY FKFIGRIIGK AVYDEMT VD CHFTRAFYKR VLSIPVDLTD VEALDPEFHR SLVWILENDI ENVLDMTFSI EQDRFGITEI IDLKENGRNI AVTNENKR E YVELVCRFKL VRVIERQLSA FAEGFFEILD VDMLKMFNEK ELELLISGLP EIDVDDWRNN TIYFGYTSDS QVIRWYWRA VRNFSMEERA KLLQFATGTS KLPLEGFAGL RCQNGNQKFQ IHKASGGSSR LPTAHTCFNQ LDLPEYDSYE QLVKALLFSL EECTSGFGF A UniProtKB: HECT-type E3 ubiquitin transferase |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 0.8 mg/mL | |||||||||||||||
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Buffer | pH: 7.5 Component:
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Grid | Model: Quantifoil R2/2 / Material: COPPER / Mesh: 200 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 60 sec. / Pretreatment - Atmosphere: AIR | |||||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 75 % / Chamber temperature: 4 K / Instrument: LEICA EM GP |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Number grids imaged: 1 / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm |
Sample stage | Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |