3q23_B : 3D-footprint complex

structure name	X-RAY CRYSTAL STRUCTURE OF THE N4 MINI-VRNAP AND P2_7A PROMOTER TRANSCRIPTION INITIATION COMPLEX WITH GMPCPP AND MANGANESE: SUSTRATE COMPLEX II (Virion RNA polymerase)
reference	Gleghorn et al. Proc.Natl.Acad.Sci.USA 108 3566 2011
source	Enterobacteria phage N4
experiment	X-ray (resolution=1.80, R-factor=0.201)
redundant complexes	3c2p_B 3c3l_B 3c46_B 3q0a_B 3q22_B 3q24_A 4ff1_A 4ff2_A 4ff3_B 4ff4_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3q23_B interface=110,112,115,125,167,169,170,173,177,198,200,201,254,263,264,265,314,420,671,674,676,813,817,897,900,913,921, teelkegidavypslvgtadskaegiknyfklsftlpeeqksrtvgseaplkdvaqalssraryelfteketanpafngevikrykelmehgegiadilrsrlakflntKdVgkRfaqgteanrWvggkllniveqdgdtfkyneqllqtavlaglqwrltatsntAiKDakDvaaItgidqallpeglveqfdtgmTlTEavsslaqkiesywglsrnpnaplgytkgiptamaaeilaafvestdvvenivDmseidpdnKKTiglytiteldsfdpinsfptaieeavlvnptekmffgddippvantqlRnpavrntpeqkaalkaeqatefyvhtpmvqfyetlgkdrilelmgagtlnkellndnhakslegknrsvedsynqlfsvieqvraqsedistvpihyaynmtrvgRmqmlgkynpqsaklvreailptkatldlsnqnnedfsafqlglaqaldikvhtmtrevmsdeltkllegnlkpaidmmvefnttgslpenavdvlntalgdrksfvalmalmeysrylvaedksafvtplyveadgvtngpinammlmtgglftpdwirniakgglfigspnktmnehrstadnndlyqastnalmeslgklrsnyasnmpiqsqidsllslmdlflpdinlgengalelkrgiaknpltItiYgSgargiagklvssvtdaiyermsdvlkarakdpnisaamamfgkqaaseahaeellarflkdmetltstvpvkrkgvlelqstgtgakgkinpktytikgeqlkalqenmlhffveplrngitqtvgeslvysteqlQkatQiqsvvledmfkqrvqeklaekakdptwkkgdfltqkelndiqaslnnlapmietgsqtfyiagsenaevanqvlatnldDrmRvpmsiyapaqagVagipfmtIgtgdgmmmqtlstmkgapkntlkifdgmniglnditdasrkaneavytswqgnpiknvyesyakfmknvdfsklspealeaigksaleydqrenatvddianaasliernlrnialgvdirhkvldkvnlsidqmaavgapyqnngkidlsnmtpeqqadelnklfreelear
interface signature	KVRWAKDDITTEDKKTRRIYSQQDRVI

Estimated binding specificities ?

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# IC=4.250 IC/col=0.708 n_of_columns=6

specificity:

A |  12  24  84   0   0  12
C |  12  24  12   0  96  12
G |  60  24   0  96   0  60
T |  12  24   0   0   0  12

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Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: VRNAP
GAAGCTCCGCTTC	PubMed	3q23_B(2.17e-04), 3q0a_A(9.44e-10), 3c3l_B(2.17e-04), ... (total=10)
GAAGCGGAGCTTC	PubMed	3q23_B(2.17e-04), 3q0a_A(9.44e-10), 3c3l_B(2.17e-04), ... (total=10)

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updated Sun Aug 3 07:23:21 2025