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legend  pdf

structure nameCRYSTAL STRUCTURE OF VBRR-DNA COMPLEX
(DNA-BINDING RESPONSE REGULATOR)
referenceZhang et al. 'to ? ? ?
sourceVIBRIO PARAHAEMOLYTICUS
experimentX-ray (resolution=4.59, R-factor=0.277)
structural superfamilyCheY-like;C-terminal effector domain of the bipartite response regulators;
sequence familyTranscriptional regulatory protein, C te; Response regulator receiver domain;
multimeric complexes7e1b_ABCD 7e1b_EFG
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRTTHL

Estimated binding specificities ?

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# IC=4.829 IC/col=0.690 n_of_columns=7 specificity:   
A |   0  24  72   6   6  96  78
C |  84  24   6   6   6   0   6
G |   6  24   6   6  78   0   6
T |   6  24  12  78   6   0   6
scan!

Dendrogram of similar interfaces ?

matrix format
  
  ------------------RCTT----TTHTLA--------------   L                            +---------------7e1b_B    
                                                                         +------5 
  ------------------RTTT--DAVT--RGRG------RA----   L                     !      +---------------1gxp_A    
                                                                       +-6 
  ------------------DTSC----SGKG----------RT----   L                   ! !          +-----------5x5l_H    
                                                                       ! +----------3 
  ----------------------------RC--YG----KT------                    +--7            +-----------2acj_B    
                                                                    !  ! 
  ------------------RG----DTVT--STRG------RC----   L                !  !         +-------------4nhj_A    
                                                                    !  +---------4 
  --------------------------------YGRG----------                  +-8            !           +-4wcg_A    
                                                                  ! !            +-----------1 
  ------------ETNTSCRGHC----RT------------QA----                  ! !                        +-5d4s_B    
                                                                  ! ! 
  ----------TT--------KATT--QTTG--LTRTKA----FTYT   L            +-9 !               +----------2p7c_B    
                                                                ! ! +---------------2 
  ----------------SGRGPT----SGRG----------------   L            ! !                 +----------7bhy_A    
                                                             +-10 ! 
  --------------------------------YG------------             !  ! +---------------------------3eyi_B    
                                                          +-11  !  
  ----------------------------RG--YG------------          !  !  +----------------------------1qbj_C    
                                                       +-12  !  
  --------------------------------YG------------       !  !  +----------------------------1sfu_A    
                                                     -13  !  
  --IT----TA------------------------------------       !  +----------------------------4p0p_A    
                                                       !  
  ET--NGSG--------------------------------------       +----------------------------7aud_E    
                                                     

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updated Sat Sep 14 02:18:15 2024