4v1n_ABMO : 3D-footprint complex

structure name	ARCHITECTURE OF THE RNA POLYMERASE II-MEDIATOR CORE TRANSCRIPTION INITIATION COMPLEX
reference	Petrotchenko et al. Nature 518 376 2015
source	SACCHAROMYCES CEREVISIAE
experiment	X-ray (resolution=7.80, R-factor=?)
structural superfamily	TATA-box binding protein-like;Cyclin-like;Zinc beta-ribbon;
reference complex	1ytb_A 5oqj_M
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 4v1n_A interface=348,446,829,830,1353, gqqyssaplrtvkevqfglfspeevraisvakirfpetmdetqtrakigglndprlgsidrnlkcqtcqegmnecpghfghidlakpvfhvgfiakikkvcecvcmhcgkllldehnelmrqalaikdskkrfaaiwtlcktkmvcetdvpseddptqlvsrggcgntqptirkdglklvgswkkdratgdadepelrvlsteeilnifkhisvkdftslgfnevfsrpewmiltclpvppppvrpsisfnesqrgeddltfkladilkanisletlehngaphhaieeaesllqfhvatymdndiagqpqalqksgrpvksirarlkgkegrirgnlmgkrvdfsaRtvisgdpnleldqvgvpksiaktltypevvtpynidrltqlvrngpnehpgakyvirdsgdridlryskragdiqlqygwkverhimdndpvlfnrqPslhkmsmmahrvkvipystfrlnlsvtspynadfdgdemnlhvpqseetraelsqlcavplqivspqsnkpcmgivqdtlcgirkltlrdtfieldqvlnmlywvpdwdgviptpaiikpkplwsgkqilsvaipngihlqrfdegttllspkdngmliidgqiifgvvekktvgssngglihvvtrekgpqvcaklfgniqkvvnfwllhngfstgigdtiadgptmreitetiaeakkkvldvtkeaqanlltakhgmtlresfednvvrflneardkagrlaevnlkdlnnvkqmvmagskgsfiniaqmsacvgqqsvegkriafgfvdrtlphfskddyspeskgfvensylrgltpqefffhamggreglidtavkTAetgyiqrrlvkaledimvhydnttrnslgnviqfiygedgmdaahiekqsldtiggsdaafekryrvdllntdhtldpsllesgseilgdlklqvlldeeykqlvkdrkflrevfvdgeanwplpvnirriiqnaqqtfhidhtkpsdltikdivlgvkdlqenllvlrgkneiiqnaqrdavtlfccllrsrlatrrvlqeyrltkqafdwvlsnieaqflrsvvhpgemvgvlaaqsigepatqmtkkvtsgvprlkeilnvaknmktpsltvylepghaadqeqaklirsaiehttlksvtiaseiyydpdprstvipedeeiiqlhfslqqspwllrleldraamndkdltmgqvgerikqtfkndlfviwsedndekliircrvvaeedhmlkkientmlenitlrgveniervvmmkydrkvpsptgeyvkepewvletdgvnlsevmtvpgidptriytnsfidimevlgieagraalykevynviasdgsyvnyrhmallvdvmttqggltsvtRhgfnrsntgalmrcsfeetveilfeagasaelddcrgvsenvilgqmapigtgafdvmideeslvkymp > 4v1n_B interface= desapitaedswavisaffrekglvsqqldsfnqfvdytlqdiicedstlileqlaqhttesdnisrkyeisfgkiyvtkpmvnesdgvthalypqearlrnltyssglfvdvkkrtyeaidelkyelgkvfigrlpimlrskncylseatesdlyklkecpfdmggyfiingsekvliaqersagnivqvfkkaapspishvaeirsalekgsrfistlqvklygregssartikatlpyikqdipiviifralgiipdgeilehicydvndwqmlemlkpcvedgfviqdretaldfigrrgtalgikkekriqyakdilqkeflphitqlegfesrkafflgymInrlllcaldrkdqddrdhfgkkrldlagpllaqlfktlfkkltkdifrymqrtveeahdfnmklainaktitsglkyalatgnwgeqkkamssragvSqvlnrytysstlshlrrtntpiakprqlhnthwglvcpaetpegqacglvknlslmscisvgtdpmpiitflsewgmepledyvphqspdatrvfvngvwhgvhrnparlmetlrtlrrkgdinpevsmirdirekelkiftdagrvyrplfiveddeslghkelkvrkghiaklmateyqdeytwssllneglveyidaeeeesiliamqpedlepaeadvdpakrirvshhattfthceihpsmilgvaasiipfpdhnqsprntyqsamgkqamgvfltnynvrmdtmanilyypqkplgttrameylkfrelpagqnaivaiacysgynqedsmimnqssidrglfrslffrsymdqekkygmsitetfekpqrtntlRMkhgtydkldddgliapgvrvsgedviigkttpisskrdastplrstengivdqvlvttnqdglkfvkvrvrttkipqigdkfasrhgqkgtigityrredmpftaegivpdliinphaipsrmtvahliecllskvaalsgnegdaspftditvegiskllrehgyqsrgfevmynghtgkklmaqiffgptyyqrlrhmvddkiharargpmqvltrqpvegrsrdgglrfgemerdcmiahgaasflkerlmeasdafrvhicgicglmtviaklnhnqfeckgcdnkidiyqihipyaakllfqelmamnitprlytdrsrdf > 4v1n_M interface=43,48,229,265, ltcpeckvyppkiverfsegdvvcalcglvlsdklvdtrsewRtfsnDdhngddpsrvgeasnplldgnnlstrigkgettdmrftkelnkaqgknvkdnevqaafakitmlcdaaelpkivkdcakeayklchdektlkgksmesimaasiligcrraevartfkeiqslihvktkefgktlnimkniaqnltyiprfcshlglpmqvttsaeytakkckeikeiagKspitiavvsiylnillfqipitaakvgqtlqvtegTiksgykilyehrdklvdpqliangvvsldnlpgv > 4v1n_O interface=9,11,39,54,56,62,64,99,101,130,131,145,147,153,155, sgivptlqNiVatvtlgcrldlktvalharnaeynpkrFaavimrirepkttaLiFasgkmVvTgakseddsklasrkyariiqkigfaakftdfkiqNiVgscdvkfpirleglafshgtfssyepelFPgliyrmvkpkivlLiFvsgkiVlTgakqreeiyqafeaiypvlsefrkm
interface signature	RPTAR/ISRM/RDKT/NVFLFVTNVFPLFVT

Estimated binding specificities ?

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# IC=14.628 IC/col=0.472 n_of_columns=31

specificity:

A |   9  24  24  96   9  24  24  24  24  24   0   0  24  24  24  24  24  24  24  24  24  24  24  67   0   0  96   0  96   0  96
C |   9  24  24   0   9  24  24  24  24  24   0   0  24  24  24  24  24  24  24  24  24  24  24   9   0   0   0   0   0   0   0
G |  67  24  24   0  11  24  24  24  24  24   0   0  24  24  24  24  24  24  24  24  24  24  24  11   0   0   0   0   0   0   0
T |  11  24  24   0  67  24  24  24  24  24  96  96  24  24  24  24  24  24  24  24  24  24  24   9  96  96   0  96   0  96   0

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updated Fri Dec 13 21:26:28 2024