2024-11-06 REL RCSB RCSB RCSB 2019-07-06 2019-07-31 2019-09-11 2024-11-06 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) GM071940 United States National Institutes of Health/National Institute of Dental and Craniofacial Research (NIH/NIDCR) DE025567 United States National Institutes of Health/National Institute of Dental and Craniofacial Research (NIH/NIDCR) DE028583 United States National Institutes of Health/National Institute of Dental and Craniofacial Research (NIH/NIDCR) DE027901 United States National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) AI094386 United States National Institutes of Health/National Cancer Institute (NIH/NCI) CA177322 United States National Institutes of Health/National Cancer Institute (NIH/NCI) CA091791 United States National Institutes of Health/National Institute of Dental and Craniofacial Research (NIH/NIDCR) DE023591 United States Other government 2017YFA0505300 China Other government 2016YFA0400900 China National Institutes of Health/National Center for Research Resources (NIH/NCRR) 1S10RR23057 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) 1U24GM116792 United States National Science Foundation (NSF, United States) DBI-1338135 United States National Science Foundation (NSF, United States) DMR-1548924 United States Kaposi's sarcoma-associated herpesvirus (KSHV), C5 portal vertex structure Gong D Dai X Jih J Liu YT Bi GQ Sun R Zhou ZH genome, portal, capsid, genome packaging, VIRUS, VIRAL PROTEIN Gong D Dai X Jih J Liu YT Bi GQ Sun R Zhou ZH DNA-Packing Portal and Capsid-Associated Tegument Complexes in the Tumor Herpesvirus KSHV. Cell 178 1329 1343.e12 2019 31447177 doi:10.1016/j.cell.2019.07.035 1097-4172 EMD-20430 other EM volume EMD-20431 other EM volume 6ppb FULLOVERLAP Human gammaherpesvirus 8 Human gammaherpesvirus 8 0 1 2 3 4 5 6 7 Human gammaherpesvirus 8 BAC16 Homo sapiens Capsid 1250.0 16 VIRION STRAIN true false Capsid vertex component 1 Human herpesvirus 8 GK18 0.049586555 1 LEVO MDAHAINERYVGPRCHRLAHVVLPRTFLLHHAIPLEPEIIFSTYTRFSRSPGSSRRLVVCGKRVLPGEENQLASSPSGLA LSLPLFSHDGNFHPFDISVLRISCPGSNLSLTVRFLYLSLVVAMGAGRNNARSPTVDGVSPPEGAVAHPLEELQRLARAT PDPAPTRGPLQVLTGLLRAGSDGDRATHHMALEAPGTVRGESLDPPVSQKGPARTRHRPPPVRLSFNPVNADVPATWRDA TNVYSGAPYYVCVYERGGRQEDDWLPIPLSFPEEPVPPPPSLVFMDDLFINTKQCDFVDTLEAACRTQGYTLRQRVPVAI PRDAEIADAVKSHFLEACLVLRGLASEASAWIRAATSPPLGRHACWMDVLGLWESRPHTLGLELRGVNCGGTDGDWLEIL KQPDVQKTVSGSLVACVIVTPALEAWLVLPGGFAIKGRYRASKEDLVFIRGRYG Q76RH8 Capsid vertex component 2 Human herpesvirus 8 GK18 0.061494383 2 LEVO MLTSERSYLRYPKNRRWTEAGRFWAPHPENVLFIHKPTMEETRRVALGLRSQLVRNRERKTKAHLLSLELDRLVQVHDSR VRVINADIDAVKQMIGNMTWSDNIDMPQSRSHEPPLVTSPPQASHRNFTVAIVPGDPHFSVDRDLRGELMPTLYMNQNQW LPSFGPWFISLTDNAMQRRVFPKELKGTVNFQNSTSLKLISHTLTTVASTTADFFADARHLTDTQAALCLVNAYFCQKTS RQLPATPDDLLADLPQKLDLLITQLKQESGPGDFSFTYSNPQERASLAPLNKESRYPTAFFQRHKLHAMMAKAGLFPHNK GTGAPGTAPAMDLVFAITSAMFGSDIPPFSAYQWNLRAGIVALEVFILAYGLLEFGQVARGHPNRRLNLVSLLGPKFQPG ALPDPNAPMLKRGQLFSFISEHYIIPTLQANPNAPVSFIFPGIILAALEARSTVSHKQPGPFVNLTGSRFNEIFEILNQQ LTFRDPLALLQARTALRLATEEGLDVLLSHPSPPTLLQEIIKSQFGGGDDYDRAYFMVLGCLPVVLAVV Q76RI7 Large tegument protein deneddylase Human herpesvirus 8 GK18 0.29002484399999995 2 LEVO MAAQPLYMEGMASTHQANCIFGEHAGSQCLSNCVMYLASSYYNSETPLVDRASLDDVLEQGMRLDLLLRKSGMLGFRQYA QLHHIPGFLRTDDWATKIFQSPEFYGLIGQDAAIREPFIESLRSVLSRNYAGTVQYLIIICQSKAGAIVVKDKTYYMFDP HCIPNIPNSPAHVIKTNDVGVLLPYIATHDTEYTGCFLYFIPHDYISPEHYIANHYRTIVFEELHGPRMDISRGVESCSI TEITSPSVSPAPSEAPLRRDSTQSQDETRPRRPRVVIPPYDPTDRPRPPHQDRPPEQAAGYGGNKGRGGNKGRGGKTGRG GNEGRGGHQPPDEHQPPHITAEHMDQSDGQGADGDMDSTPANGETSVTETPGPEPNPPARPDREPPPTPPATPGATALLS DLTATRGQKRKFSSLKESYPIDSPPSDDDDVSQPSQQTAPDTEDIWIDDPLTPLYPLTDTPSFDITADVTPDNTHPEKAA DGDFTNKTTSTDADRYASASQESLGTLVSPYDFTNLDTLLAELGRLGTAQPIPVIVDRLTSRPFREASALQAMDRILTHV VLEYGLVSGYSTAAPSKCTHVLQFFILWGEKLGIPTEDAKTLLESALEIPAMCEIVQQGRLKEPTFSRHIISKLNPCLES LHATSRQDFKSLIQAFNAEGIRIASRERETSMAELIETITARLKPNFNIVCARQDAQTIQDGVGLLRAEVNKRNAQIAQE AAYFENIITALSTFQPPPQSQQTFEVLPDLKLRTLVEHLTLVEAQVTTQTVESLQAYLQSAATAEHHLTNVPNVHSILSN ISNTLKVIDYVIPKFIINTDTLAPYKQQFSYLGGELASMFSLDWPHAPAEAVEPLPVLTSLRGKIAEALTRQENKNAVDQ ILTDAEGLLKNITDPNGAHFHAQAVSIPVLENYVHNAGVLLKGEKSERFSRLKTAIQNLVSSESFITVTLHSTNLGNLVT NVPKLGEAFTGGPHLLTSPSVRQSLSTLCTTLLRDALDALEKKDPALLGEGTTLALETLLGYGSVQDYKETVQIISSLVG IQKLVRDQGADKWATAVTRLTDLKSTLATTAIETATKRKLYRLIQRDLKEAQKHETNRAMEEWKQKVLALDNASPERVAT LLQQAPTAKAREFAEKHFKILLPVPADAPVQASPTPMEYSASPLPDPKDIDRATSIHGEQAWKKIQQAFKDFNFAVLRPA DWDALAAEYQRRGSPLPAAVGPALSGFLETILGTLNDIYMDKLRSFLPDAQPFQAPPFDWLTPYQDQVSFFLRTIGLPLV RALADKISVQALRLSHALQSGDLQQATVGTPLELPATEYARIASNMKSVFNDHGLQVRSEVADYVEAQRADAHTPHVPRP KIQAPKTLIPHPDAIVADGLPAFLKTSLLQQEAKLLALQRADFESLESDMRAAEAQRKASREETQRKMAHAITQLLQQAP SAISGRPLSLQDPVGFLEGIIYDKVLERESYETGLEGLSWLEQTIKSITVYAPVEEKQRMHVLLDEVKKQRANTETALEL EAAATHGDDARLLQRAVDELSPLRVKGGKAAVESWRQKIQTLKSLVQEAEQAGLLLATIDTVAGQAQETISPSTLQGLYQ QGQEAMAAIKRFRDSPQLAGLQEKLAELQQYVKYKKQYLEHFEATQSVVFTAFPLTQEVTIPALHYAGPFDNLERLSRYL HIGQTQPAPGQWLLTLPTFDPTRPACVPAGGHEPPLHRQVVFSSFLEAQIRLALSVAGPVPGRGLPGTPQIRRGVEAAAC FLHQWDEISRLLPEVLDTFFHNAPLPAESSSNAFLAMCVLTHLVYLAGRAVLGPREPEHAAPDAYPREVALAPRDLTYLL LAMWPSWISAILKQPSHAEAAHACLVTLPTMLKAVPYLTLEASAGPLPADMRHFATPEARLFFPARWHHVNVQEKLWLRN DFMSLCHRSPGRARIAVLVWAVTCLDPEVIRQLWSTLRPLTADESDTASGLLRVLVEMEFGPPPKTPRREAVAPGATLPP YPYGLATGERLVGQAQERSGGAGKMPVSGFEIVLGALLFRAPLRIFSTASTHRISDFEGGFQILTPLLDCCPDREPFASL AAAPRRTVPLGDPCANIHTPEEIQIFARQAAWLQYTFANYQIPSTDNPIPIVVLNANNNLENSYIPRDRKADPLRPFYVV PLKPQGRWPEIMTTATTPCRLPTSPEEAGSQFARLLQSQVSATWSDIFSRVPERLAPNATQKSSQTMSEIHEVAATPPLT ITPNKPTGTPHVSPEADPITERKRGQQPKIVADNMPSRILPSLPTPKPREPRITLPHALPVISPPAHRPSPIPHLPAPQV TEPKGVLQSKRGTLVLRPAAVIDPRKPVSAPITRYERTALQPPRTEGEGRRPPDTQPVTLTFRLPPTAPTPATAALETKT TPPSTPPHAIDISPPQTPPMSTSPHARDTSPPAEKRAAPVIRVMAPTQPSGEARVKRVEIEQGLSTRNEAPPLERSNHAV PAVTPRRTVAREIRIPPEIKAGWDTAPDIPLPHSSPESSPPTSPQPIRVDDKSPLPNLVERYARGFLDTPSVEVMSLENQ DIAVDPGLLTRRIPSVVPMPHPIMWSPIVPISLQNTDIDTAKITLISFIRRIKQKVAALSASLAETVDRIKKWYL Q2HR64 3.4.19.12 Major capsid protein Human herpesvirus 8 GK18 0.153574188 4 LEVO MEATLEQRPFPYLATEANLLTQIKESAADGLFKSFQLLLGKDAREGSVRFEALLGVYTNVVEFVKFLETALAAACVNTEF KDLRRMIDGKIQFKISMPTIAHGDGRRPNKQRQYIVMKACNKHHIGAEIELAAADIELLFAEKETPLDFTEYAGAIKTIT SALQFGMDALERGLVDTVLAVKLRHAPPVFILKTLGDPVYSERGLKKAVKSDMVSMFKAHLIEHSFFLDKAELMTRGKQY VLTMLSDMLAAVCEDTVFKGVSTYTTASGQQVAGVLETTDSVMRRLMNLLGQVESAMSGPAAYASYVVRGANLVTAVSYG RAMRNFEQFMARIVDHPNALPSVEGDKAALADGHDEIQRTRIAASLVKIGDKFVAIESLQRMYNETQFPCPLNRRIQYTY FFPVGLHLPVPRYSTSVSVRGVESPAIQSTETWVVNKNNVPLCFGYQNALKSICHPRMHNPTQSAQALNQAFPDPDGGHG YGLRYEQTPNMNLFRTFHQYYMGKNVAFVPDVAQKALVTTEDLLHPTSHRLLRLEVHPFFDFFVHPCPGARGSYRATHRT MVGNIPQPLAPREFQESRGAQFDAVTNMTHVIDQLTIDVIQETAFDPAYPLFCYVIEAMIHGQEEKFVMNMPLIALVIQT YWVNSGKLAFVNSYHMVRFICTHMGNGSIPKEAHGHYRKILGELIALEQALLKLAGHETVGRTPITHLVSALLDPHLLPP FAYHDVFTDLMQKSSRQPIIKIGDQNYDNPQNRATFINLRGRMEDLVNNLVNIYQTRVNEDHDERHVLDVAPLDENDYNP VLEKLFYYVLMPVCSNGHMCGMGVDYQNVALTLTYNGPVFADVVNAQDDILLHLENGTLKDILQAGDIRPTVDMIRVLCT SFLTCPFVTQAARVITKRDPAQSFATHEYGKDVAQTVLVNGFGAFAVADRSREAAETMFYPVPFNKLYADPLVAATLHPL LANYVTRLPNQRNAVVFNVPSNLMAEYEEWHKSPVAAYAASCQATPGAISAMVSMHQKLSAPSFICQAKHRMHPGFAMTV VRTDEVLAEHILYCSRASTSMFVGLPSVVRREVRSDAVTFEITHEIASLHTALGYSSVIAPAHVAAITTDMGVHCQDLFM IFPGDAYQDRQLHDYIKMKAGVQTGPPGNRMDHVGYAAGVPRCENLPGLSHGQLATCEIIPTPVTSDVAYFQTPSNPRGR AACVVSCDAYSNESAERLLYDHSIPDPAYECRSTNNPWASQRGSLGDVLYNITFRQTALPGMYSPCRQFFHKEDIMRYNR GLYTLVNEYSARLAGAPATSTTDLQYVVVNGTDVFLDQPCHMLQEAYPTLAASHRVMLDEYMSNKQTHAPVHMGQYLIEE VAPMKRLLKLGNKVVY Q2HRA7 Triplex capsid protein 1 Human herpesvirus 8 GK18 0.03637483999999999 2 LEVO MKVQAENAARLGRQVLGLLPPPTHRVSLTRGPEFARGVRDLLSKYAASTRPTVGSLHEALRQAPFRQPTYGDFLVYSQTF SPQEPLGTFLFSFKQEDNGSSMDMLLTPTSLFMLSGMEAAKAPQTHKVAGVWYGSGSGLADFIPNLSELMDTGEFHTLLT PVGPMVQSVHSTFVTKVTSAMKGVGLARDEPRAHVGLTLPCDMLVDLDESCPMVQRREPAGLNVTIYASLVYLRVNQRPS MALTFFQSGKGFAEVVAMIKDHFTDVIRTKYIQLRHELYINRLVFGAVCTLGTVPFDSHPVHQSLNVKGTSLPVLVFANF EAACGPWTVFL Q76RF6 Triplex capsid protein 2 Human herpesvirus 8 GK18 0.034278473 4 LEVO MALDKSIVVNLTSRLFADELAALQSKIGSVLPLGDCHRLQNIQALGLGCVCSRETSPDYIQIMQYLSKCTLAVLEEVRPD SLRLTRMDPSDNLQIKNVYAPFFQWDSNTQLAVLPPLFSRKDSTIVLESNGFDIVFPMVVPQQLGHAILQQLLVYHIYSK ISAGAPGDVNMAELDLYTTNVSFMGRTYRLDVDNTDPRTALRVLDDLSMYLCILSALVPRGCLRLLTALVRHDRHPLTEV FEGVVPDEVTRIDLDQLSVPDDITRMRVMFSYLQSLSSIFNLGPRLHVYAYSAETLAASCWYSPR Q98832 Small capsomere-interacting protein Human herpesvirus 8 GK18 0.018597824 4 LEVO MSNFKVRDPVIQERLDHDYAHHPLVARMNTLDQGNMSQAEYLVQKRHYLVFLIAHHYYEAYLRRMGGIQRRDHLQTLRDQ KPRERADRVSAASAYDAGTFTVPSRPGPASGTTPGGQDSLGVSGSSITTLSSGPHSLSPASDILTTLSSTTETAAPAVAD ARKPPSGKKK Q76RF4 singleParticle particle 7.4 ETHANE 298 HOMEMADE PLUNGER
The sample was manually blotted and frozen with a homemade plunger..
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 14000.0 24271.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 79.0 GATAN K2 SUMMIT (4k x 4k) 1440 1440 8007 13.0 25.0 1 44328 C5 FOURIER SPACE 4.3 FSC 0.143 CUT-OFF RELION 2.1 39773 MAXIMUM LIKELIHOOD RELION 2.1 MAXIMUM LIKELIHOOD RELION 2.1 emd_20432.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 395.52 395.52 395.52 90.0 90.0 90.0 X Y Z -0.052433975 0.083979405 0.0017394623 0.006123323 1.03 1.03 1.03 0.018 AUTHOR None AB INITIO MODEL Correlation coefficient REAL 177.400000000000006 emd_20432_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 395.52 395.52 395.52 90.0 90.0 90.0 X Y Z -0.012447536 0.02097997 0.000861027 0.0020739036 1.03 1.03 1.03 AUTHOR None emd_20432_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 395.52 395.52 395.52 90.0 90.0 90.0 X Y Z -0.013647928 0.019545255 0.0008784352 0.0020793662 1.03 1.03 1.03 AUTHOR None