5fz5_AMORUW : 3D-footprint complex

structure name	TRANSCRIPTION INITIATION COMPLEX STRUCTURES ELUCIDATE DNA OPENING (CC)
reference	Dienemann et al. Nature 533 353 2016
source	SACCHAROMYCES CEREVISIAE
experiment	X-ray (resolution=8.80, R-factor=?)
structural superfamily	Cyclin-like;Zinc beta-ribbon;Rap30/74 interaction domains;"Winged helix" DNA-binding domain;Transcription factor IIA TFIIA, beta-barrel domain;Transcription factor IIA TFIIA, alpha-helical domain;
reference complex	5oqj_M 5oqj_Q 5oqj_R 5oqj_U 7ml0_W
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5fz5_A interface= gqqyssaplrtvkevqfglfspeevraisvakirfpetmdetqtrakigglndprlgsidrnlkcqtcqegmnecpghfghidlakpvfhvgfiakikkvcecvcmhcgkllldehnelmrqalaikdskkrfaaiwtlcktkmvcetdvpsrggcgntqptirkdglklvgswkkpelrvlsteeilnifkhisvkdftslgfnevfsrpewmiltclpvppppvrpsisfnesqrgeddltfkladilkanisletlehngaphhaieeaesllqfhvatymdndiagqpqalqksgrpvksirarlkgkegrirgnlmgkrvdfsartvisgdpnleldqvgvpksiaktltypevvtpynidrltqlvrngpnehpgakyvirdsgdridlryskragdiqlqygwkverhimdndpvlfnrqpslhkmsmmahrvkvipystfrlnlsvtspynadfdgdemnlhvpqseetraelsqlcavplqivspqsnkpcmgivqdtlcgirkltlrdtfieldqvlnmlywvpdwdgviptpaiikpkplwsgkqilsvaipngihlqrfdegttllspkdngmliidgqiifgvvekktvgssngglihvvtrekgpqvcaklfgniqkvvnfwllhngfstgigdtiadgptmreitetiaeakkkvldvtkeaqanlltakhgmtlresfednvvrflneardkagrlaevnlkdlnnvkqmvmagskgsfiniaqmsacvgqqsvegkriafgfvdrtlphfskddyspeskgfvensylrgltpqefffhamggreglidtavktaetgyiqrrlvkaledimvhydnttrnslgnviqfiygedgmdaahiekqsldtiggsdaafekryrvdllntdhtldpsllesgseilgdlklqvlldeeykqlvkdrkflrevfvdgeanwplpvnirriiqnaqqtfhidhtkpsdltikdivlgvkdlqenllvlrgkneiiqnaqrdavtlfccllrsrlatrrvlqeyrltkqafdwvlsnieaqflrsvvhpgemvgvlaaqsigepatqmkvtsgvprlkeilnvaknmktpsltvylepghaadqeqaklirsaiehttlksvtiaseiyydpdprstvipedeeiiqlhfsqqspwllrleldraamndkdltmgqvgerikqtfkndlfviwsedndekliircrvvaeedhmlkkientmlenitlrgveniervvmmkydrkvpsptgeyvkepewvletdgvnlsevmtvpgidptriytnsfidimevlgieagraalykevynviasdgsyvnyrhmallvdvmttqggltsvtrhgfnrsntgalmrcsfeetveilfeagasaelddcrgvsenvilgqmapigtgafdvmideeslvk > 5fz5_M interface=121, pnlnivltcpeckvyppkiverfsegdvvcalcglvlsdklvdnevqaafakitmlcdaaelpkivkdcakeayklchdektlkgksmesimaasiligcrraevartfkeiqslihvktKefgktlnimknilrgksqnltyiprfcshlglpmqvttsaeytakkckeikeiagkspitiavvsiylnillfqipitaakvgqtlqvtegtiksgykilyehrdklvdp > 5fz5_O interface=9,11,39,54,56,62,64,99,101,130,145,155, sgivptlqNiVatvtlgcrldlktvalharnaeynpkrFaavimrirepkttaLiFasgkmVvTgakseddsklasrkyariiqkigfaakftdfkiqNiVgscdvkfpirleglafshgtfssyepelFpgliyrmvkpkivlLifvsgkivlTgakqreeiyqafeaiypvlsefrkm > 5fz5_R interface= dldlersnRqVwlvrlpmflaekwrlgkirinkskitlLlnepheydleltkkVvEneyvfTeQtipkktaivgtvchecqvmpyhkiveqrrnivkeRiTtldetvgvtmshtgmsmrsdnsnflkvmPkkeildylfklfdeYdywslkglkErtrqpeahlkecldkvatlvkkgpyafkytlrkeeerkatlgel > 5fz5_U interface= snaeasrvYeIivesvvnevredfenagideqtlqdlkNiwqkkltenlmlclYdKvtrtkArWkcslkdgvvtinrndytfqkaqveaewv > 5fz5_W interface=75, ddivknllkfvvrgfyggsfvlvldailfhsvlaeddlkqllsinktelgpliarlrsdrlisihkqreyppnsKsvervyyyvkyphaidaikwkvhqvvqrlkdgymcpicltkytqleavqllnfdrteflcslcdeplvekqdklnrlmdqiqpiidslkkidd
interface signature	/K/NVFLFVTNVFLT/RVLVETQRTPYE/YINYKAW/K

Estimated binding specificities ?

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# IC=7.099 IC/col=0.887 n_of_columns=8

specificity:

A |  54   0   0  96   0  24   0  54
C |  16   0   0   0   0  24   0  13
G |  13   0   0   0   0  24   0  13
T |  13  96  96   0  96  24  96  16

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updated Sat Dec 14 02:15:52 2024