3mx9_A : 3D-footprint complex

structure name	MOLECULAR BASIS OF ENGINEERED MEGANUCLEASE TARGETING OF THE ENDOGENOUS HUMAN RAG1 LOCUS (Protein scV3V2G19S)
reference	Subramanian et al. 'Nucleic 39 729 2011
source	Chlamydomonas reinhardtii
experiment	X-ray (resolution=2.60, R-factor=0.184)
structural superfamily	Homing endonucleases;
sequence family	LAGLIDADG endonuclease;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3mx9_A interface=21,23,25,31,37,39,43,45,65,67,72,74,167,169,171,173,175,177,178,183,189,191,213,215,218,220,222,224,285, ntkynkefllylagfvdgdgSiIaQinpnqSskfkhRlRltfYvTqktqrrwfldklvdeigvgYvRdsgsVsQyvlseikplhnfltqlqpflklkqkqanlvlkiieqlpsakespdkflevctwvdqiaalndsktrkttsetvrasnkefllylagfvdsdgSiIaQiKpRqSNkfkhQlsltfAvTqktqrrwfldklvdeigvgyvYdSgsVsDyRlSeikplhnfltqlqpflklkqkqanlvlkiieqlpsakespdkflevctwvdqiaalndskTrkttsetvravld
interface signature	SIQSRRYTYRVQSIQKRSNQATYSVDRST

Estimated binding specificities ?

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# IC=23.503 IC/col=0.979 n_of_columns=24

specificity:

A |   2   0   0   5  24   0   0   0  96   2  24   1  87   5   5   0   0  96   2   0   0  90  24  87
C |   2   0   0   5  24  96   0  96   0   5  24   2   2  81  78   0  96   0   2  96  96   2  24   2
G |   5   0  96   5  24   0   0   0   0  81  24   0   5   5   8   0   0   0  76   0   0   2  24   2
T |  87  96   0  81  24   0  96   0   0   8  24  93   2   5   5  96   0   0  16   0   0   2  24   5

scan!

Dendrogram of similar interfaces ?

matrix format

  
  STITQA----ST--RGRGYCTCYC--RG------VCQT--------STITQAKGRGSTNTQT--ATTC--YTSC--VCDTRGSTTG   L                   +------3mx9_A    
                                                                                                 +-------------2 
  SGMGRGRG--KTYALTVT--TT--KT--SC----TA--RGEC------KGITKG--SGITQAICQATCECDTRG--WTYC--TC--   L     !             !     +5e67_A    
                                                                                               +-3             +-----1 
  ST--SC--------HTRTTTMT----LTNC----YA----YA----SAFCRGRG------RGQGECSC------RTWCQTRTEC--   L   ! !                   +7rcf_A    
                                                                                             --4 ! 
  STITQAKGRGSTNTQTSTATTC----YT--SC--VCDTRGSTKGTG----------------------------------------   L   ! +--------------------3mxb_B    
                                                                                               ! 
  CA--QGVTRTDCYA--RT--FG----RGRGNTDTMCEA------KG----------------------------------------   L   +----------------------5a78_B

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updated Sun Aug 3 07:18:06 2025