6cqi_A : 3D-footprint complex

structure name	2.42A CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS TOPOISOMERASE I IN COMPLEX WITH AN OLIGONUCLEOTIDE MTS2-11 (DNA topoisomerase 1)
reference	Thirunavukkarasu et al. 'Nucleic 46 7296 2018
source	Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) / Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
experiment	X-ray (resolution=2.42, R-factor=0.226)
structural superfamily	Prokaryotic type I DNA topoisomerase;
sequence family	DNA topoisomerase; Toprim domain;
redundant complexes	6cq2_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6cqi_A interface=33,36,39,40,74,152,153,157,161,164,165,168,173,174,314,326,516,517, sgrrlvivesptkarklasylgsgyivessrgHirDlpRAasdvpakyksqpwarlgvnvdadfeplyiispeKrstvselrgllkdvdelylatdgdregeaiawhlletlkpripvkrmvfheitepairaaaehprdldidlvdaqetRRildRlygYevSPvlWkkvaPKlsagrvqsvatriivarerdrmafrsaaywdilakldasvsdpdptfsarltavagrrvatgrdfdslgtlrkgdevivldegsatalaagldgtqltvasaeekpyarrpyppfmtstlqqeasrklrfsaertmsiaQrlyengyitymRtdsttlsesainaartqarqlygdeyvapaprqytrkvkaqeaheairpagetfatpdavrreldgpniddfrlyeliwqrtvasqmadargmtlslritgmsghqevvfsatgrtltfpgflkayvetvdelvggeaddaerrlphltpgqrldiveltpdghatnpparyteaslvkaleelgigrpSTyssiiktiqdrgyvhkkgsalvpswvafavtglleqhfgrlvdydftaamedeldeiaagnerrtnwlnnfyfggdhgvpdsvarsgglkklvginlegidarevnsiklfddthgrpiyvrvgkngpylerlvagdtgeptpqranlsdsitpdeltlqvaeelfat
interface signature	HDRAKRRRYSPWPKQRST

Estimated binding specificities ?

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# IC=8.611 IC/col=1.076 n_of_columns=8

specificity:

A |   0   0   0   0   0   4   2  14
C |   0   0  96  96   0  81   2  16
G |   0   0   0   0  96   4   4  14
T |  96  96   0   0   0   7  88  52

scan!

Dendrogram of similar interfaces ?

matrix format

  
  ------HCDCRCAT----KT--RCRC--RCYTSTPTWT--PTKTQTRTSTTG------   L               +6cqi_A    
                                                                       +-------1 
  ----RTHCDGRG----RT----RCRC--RCYTSTPTWTKAPAKT--RTSTTG------       +---2       +6pcm_B    
                                                                   !   ! 
  ----------------------------------------------------RGAGFG   L --3   +--------4rul_A    
                                                                   ! 
  ECKC--------QGPG----DC----DCWCIG--RG------VC--RC--TT------   L   +------------2o5c_B

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updated Tue Dec 19 12:27:05 2023