2024-11-20 REL RCSB RCSB RCSB 2019-12-17 2020-02-05 2020-03-18 2024-11-20 Howard Hughes Medical Institute (HHMI) United States Mono-ubiquitinated Fanconi Anemia ID complex bound to ICL DNA Pavletich NP DNA clamp, DNA BINDING PROTEIN, DNA BINDING PROTEIN-DNA complex Wang R Wang S Dhar A Peralta C Pavletich NP DNA clamp function of the monoubiquitinated Fanconi anaemia ID complex. Nature UK 580 278 282 2020 32269332 doi:10.1038/s41586-020-2110-6 1476-4687 0006 NATUAS 6vae FULLOVERLAP Mono-ubiquitinated Fanconi Anemia ID complex bound to DNA Mono-ubiquitinated Fanconi Anemia ID complex bound to DNA 0 1 2 3 4 5 Homo sapiens Fanconi anemia, complementation group I Homo sapiens 0.14956604699999998
isopeptide bond between Lys523 Nz and the C-terminus of ubiquitin (chain C)
1 Spodoptera frugiperda LEVO MDQKILSLAAEKTADKLQEFLQTLREGDLTNLLQNQAVKGKVAGALLRAIFKGSPCSEEAGTLRRRKIYTCCIQLVESGD LQKEIVSEIIGLLMLEAHHFPGPLLVELANEFISAVREGSLVNGKSLELLPIILTVLATKKENLAYGKGVLSGEECKKQL INTLCSGRWDQQYVIQLTSMFKDVPLTAEEVEFVVEKALSMFSKMNLQEIPPLVYQLLVLSSKGSRKSVLEGIIAFFSAL DKQHNEEQSGDELLDVVTVPSGELRHVEGTIILHIVFAIKLDYELGRELVKHLKVGQQGDSNNNLSPFSIALLLSVTRIQ RFQDQVLDLLKTSVVKSFKDLQLLQGSKFLQNLVPHRSYVSTMILEVVKNSVHSWDHVTQGLVELGFILMDSYGPKKVLD GKTIETSPSLSRMPNQHACKLGANILLETFKIHEMIRQEILEQVLNRVVTRASSPISHFLDLLSNIVMYAPLVLQNCSSK VTEAFDYLSFLPLQTVQRLLKAVQPLLKVSMSMRDCLILVLRKAMFANQLDARKSAVAGFLLLLKNFKVLGSLSSSQCSQ SLSVSQVHVDVHSHYNSVANETFCLEIMDSLRRCLSQQADVRLMLYEGFYDVLRRNSQLANSVMQTLLSQLKQFYEPEPD LLPPLKLEACILTQGDQISLQEPLDYLLCCIQHCLAWYKNTVIPLQQGEEEEEEEEAFYEDLDDILESITNRMIKSELED FELDKSADFSQSTSIGIKNNISAFLVMGVCEVLIEYNFSISSFSKNRFEDILSLFMCYKKLSDILNEKAGKAKTKMANKT SDSLLSMKFVSSLLTALFRDSIQSHQESLSVLRSSNEFMRYAVNVALQKVQQLKETGHVSGPDGQNPEKIFQNLCDLTRV LLWRYTSIPTSVEESGKKEKGKSISLLCLEGLQKIFSAVQQFYQPKIQQFLRALDVTDKEGEEREDADVSVTQRTAFQIR QFQRSLLNLLSSQEEDFNSKEALLLVTVLTSLSKLLEPSSPQFVQMLSWTSKICKENSREDALFCKSLMNLLFSLHVSYK SPVILLRDLSQDIHGHLGDIDQDVEVEKTNHFAIVNLRTAAPTVCLLVLSQAEKVLEEVDWLITKLKGQVSQETLSEEAS SQATLPNQPVEKAIIMQLGTLLTFFHELVQTALPSGSCVDTLLKDLCKMYTTLTALVRYYLQVCQSSGGIPKNMEKLVKL SGSHLTPLCYSFISYVQNKSKSLNYTGEKKEKPAVVATAMARVLRETKPIPNLIFAIEQYEKFLIHLSKKSKVSLMQHMK LSTSRDFKIKGNILDMVLREDGEDENEEGTASEHGGQNKEPAKKKRKK B7ZMF2 Fanconi anemia group D2 protein Homo sapiens 0.164314516
isopeptide bond between Lys561 Nz and the C-terminus of ubiquitin (chain D)
1 Spodoptera frugiperda LEVO MVSKRRLSKSEDKESLTEDASKTRKQPLSKKTKKSHIANEVEENDSIFVKLLKISGIILKTGESQNQLAVDQIAFQKKLF QTLRRHPSYPKIIEEFVSGLESYIEDEDSFRNCLLSCERLQDEEASMGASYSKSLIKLLLGIDILQPAIIKTLFEKLPEY FFENKNSDEINIPRLIVSQLKWLDRVVDGKDLTTKIMQLISIAPENLQHDIITSLPEILGDSQHADVGKELSDLLIENTS LTVPILDVLSSLRLDPNFLLKVRQLVMDKLSSIRLEDLPVIIKFILHSVTAMDTLEVISELREKLDLQHCVLPSRLQASQ VKLKSKGRASSSGNQESSGQSCIILLFDVIKSAIRYEKTISEAWIKAIENTASVSEHKVFDLVMLFIIYSTNTQTKKYID RVLRNKIRSGCIQEQLLQSTFSVHYLVLKDMCSSILSLAQSLLHSLDQSIISFGSLLYKYAFKFFDTYCQQEVVGALVTH ICSGNEAEVDTALDVLLELVVLNPSAMMMNAVFVKGILDYLDNISPQQIRKLFYVLSTLAFSKQNEASSHIQDDMHLVIR KQLSSTVFKYKLIGIIGAVTMAGIMAADRSESPSLTQERANLSDEQCTQVTSLLQLVHSCSEQSPQASALYYDEFANLIQ HEKLDPKALEWVGQTICNDFQDAFVVDSCVVPEGDFPFPVKALYGLEEYDTQNGIAINLLPLLFSQDFAKDGGPVTSQES GQKLVSPLCLAPYFRLLRLCVERQHNGNLEEIDGLLDCPIFLTDLEPGEKLESMSAKERSFMCSLIFLTLNWFREIVNAF CQETSPEMKGKVLTRLKHIVELQIILEKYLAVTPDYVPPLGNFDVETLDITPHTVTAISAKIRKKGKIERKQKTDGSKTS SSDTLSEEKNSECDPTPSHRGQLNKEFTGKEEKTSLLLHNSHAFFRELDIEVFSILHCGLVTKFILDTEMHTEATEVVQL GPPELLFLLEDLSQKLESMLTPPIARRVPFLKNKGSRNIGFSHLQQRSAQEIVHCVFQLLTPMCNHLENIHNYFQCLAAE NHGVVDGPGVKVQEYHIMSSCYQRLLQIFHGLFAWSGFSQPENQNLLYSALHVLSSRLKQGEHSQPLEELLSQSVHYLQN FHQSIPSFQCALYLIRLLMVILEKSTASAQNKEKIASLARQFLCRVWPSGDKEKSNISNDQLHALLCIYLEHTESILKAI EEIAGVGVPELINSPKDASSSTFPTLTRHTFVVFFRVMMAELEKTVKKIEPGTAADSQQIHEEKLLYWNMAVRDFSILIN LIKVFDSHPVLHVCLKYGRLFVEAFLKQCMPLLDFSFRKHREDVLSLLETFQLDTRLLHHLCGHSKIHQDTRLTQHVPLL KKTLELLVCRVKAMLTLNNCREAFWLGNLKNRDLQGEEIKSQNSQESTADESEDDMSSQASKSKATEDGEEDEVSAGEKE QDSDESYDDSD Q9BXW9 Ubiquitin Homo sapiens 0.008576831
isopeptide bond between C-terminus of ubiquitin (chain C) and Lys523 Nz of FANCI (chain A); isopeptide bond between C-terminus of ubiquitin (chain D) and Lys561 Nz of FANCD2 (chain B)
2 Escherichia coli LEVO MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG P0CG48 DNA (29-MER) Homo sapiens 0.008951745999999998 1 (DG)(DG)(DC)(DA)(DC)(DA)(DG)(DG)(DT)(DT)(DC)(DA)(DG)(DA)(DG)(DC)(DA)(DG)(DG)(DC) (DG)(DT)(DT)(DC)(DC)(DG)(DT)(DT)(DC) DNA DNA (29-MER) Homo sapiens 0.008880711 1 (DG)(DA)(DA)(DC)(DG)(DG)(DA)(DA)(DC)(DG)(DC)(DC)(DT)(DG)(DC)(DT)(DC)(DT)(DG)(DA) (DA)(DC)(DC)(DT)(DG)(DT)(DG)(DC)(DC) DNA singleParticle particle 8.0
unspecified
 ETHANE FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 GATAN K2 SUMMIT (4k x 4k) 51.0 1 C1 3.6 FSC 0.143 CUT-OFF 301158 MAXIMUM LIKELIHOOD RELION 3 MAXIMUM LIKELIHOOD emd_21138.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 278.64832 278.64832 278.64832 90.0 90.0 90.0 X Y Z -0.11674949 0.20537838 0.0000029470734 0.0038885586 1.08847 1.08847 1.08847 0.012 AUTHOR consensus reconstruction 3S4W PDB experimental model OTHER R-factor RECIPROCAL 150.0 emd_21138_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 278.64832 278.64832 278.64832 90.0 90.0 90.0 X Y Z -0.08985562 0.1635412 -0.000008999584 0.002748649 1.08847 1.08847 1.08847 AUTHOR focus2 map emd_21138_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 278.64832 278.64832 278.64832 90.0 90.0 90.0 X Y Z -0.061870072 0.13270468 -0.0000075800976 0.002405576 1.08847 1.08847 1.08847 AUTHOR focus3 map emd_21138_additional_4.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 278.64832 278.64832 278.64832 90.0 90.0 90.0 X Y Z -0.085502155 0.14019582 -0.000036323978 0.0029781794 1.08847 1.08847 1.08847 AUTHOR focus1 map emd_21138_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 278.64832 278.64832 278.64832 90.0 90.0 90.0 Z X Y -0.078969434 0.14599848 0.00015835531 0.0024642437 1.08847 1.08847 1.08847 AUTHOR refmac composite map