6b6h_F : 3D-footprint complex

structure name	THE CRYO-EM STRUCTURE OF A BACTERIAL CLASS I TRANSCRIPTION ACTIVATION COMPLEX (RNA POLYMERASE SIGMA FACTOR RPOD)
source	ESCHERICHIA COLI (STRAIN K12) / ESCHERICHIA COLI (STRAIN K12)
experiment	NMR
structural superfamily	Sigma2 domain of RNA polymerase sigma factors;Sigma3 and sigma4 domains of RNA polymerase sigma factors;
sequence family	Sigma70, nonessential region; Sigma70 region 3; Sigma70 region 2; Sigma70, region 4; Sigma70 factor, region 12;
redundant complexes	6ca0 4yln 4ylo 4ylp 3iyd
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6b6h_F interface=20,21,24,25,27,32,267,269,270,280,281,303,304,307,309,310,312,313,314,316,317,318,321,324,325,327,338,339,342,345,386,387,395,397,400,457,458,467,469,470,472, aaaqvlssveseigrttdpVRmyMReMgtveLltregeidiakriedginqvqcsvaeypeaitylleqydrveaeearlsdlitgfvdpnaensidpelarekfaelraqyvvtrdtikakgrshataqeeilklsevfkqfrlvpkqfdylvnsmrvmmdrvrtqerlimklcveqckmpkknfitlftgnetsdtwfnaaiamnkpwseklhdvseevhralqklqqieeetgltieqvkdinrrmsigeakarrakkemveaNlRLvisiakkytNRglqfldliqegniglmkavdkFEyrRgYKfSTYaTWWirQaiTRsIadqartiripVHmiEtiNklnrisrqmlqemgreptpeelaermlmpedkirkvlkiaKEpismetpIgDdeDshlgdfiedttlelpldsatteslraathdvlagltareakvlrmrfgidmntdytLEevgkqfdvTrERiRqieakalrklrhpsrsevlrsfldd
interface signature	VRMRMLNRLNRFERYKSTYTWWQTRIVHENKEIDDLETERR

Estimated binding specificities ?

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# IC=21.030 IC/col=0.584 n_of_columns=36

specificity:

A |   5   7  24   7   0  96  24  24  24  24  24  24  24  24  24  24  24  24  24  24   0  72   0  10   0   0  96  24  96  96   0   0   0   0  24   3
C |  85  75  24  14   0   0  24  24  24  24  24  24  24  24  24  24  24  24  24  24   0  10   0  10  96   0   0  24   0   0   0   0   0   0  24   3
G |   3   7  24  10  96   0  24  24  24  24  24  24  24  24  24  24  24  24  24  24   0   7   0  64   0   0   0  24   0   0   0  96   0  96  24  85
T |   3   7  24  65   0   0  24  24  24  24  24  24  24  24  24  24  24  24  24  24  96   7  96  12   0  96   0  24   0   0  96   0  96   0  24   5

scan!

Dendrogram of similar interfaces ?

matrix format

  
  VTRTMTRGMGLTNTRGLTNTRT----FAEARAYAKTSTTAYATAWTWT--QATARTITVTHTEGITNT----------------KTET------IGDG--DG----LTEGTT--ETRCRC------   L                    +-------------6b6h_F    
                                                                                                                                               +--------1 
  ------------NTRGLT--RC----FADAKAYA--SCTAYATCWTWT--QT------VTHTEA----RCRCEC------------EGIASAQAIC--EGDGSGFG----TTRGECRTRCQT----   L        +--2        +-------------6edt_F    
                                                                                                                                            !  ! 
  ------------NTRTLT----RTKTFAEARAFA--SATAYATAWTWTRA----------------------------------------------------------------------------   L     +--3  +----------------------3ugo_A    
                                                                                                                                         !  ! 
  ----------------------------------------------------------------------------------------------------------LTETTTRAECRCRCQC----   L   +-4  +-------------------------3n97_A    
                                                                                                                                       ! ! 
  ----------------------------------------------------------------------------------------------------------YG--------TGRGSGFTRG   L --5 +----------------------------2h27_A    
                                                                                                                                       ! 
  --------------------------------------------------------------------------NGRGTTRGKT------------------------------------------   L   +----------------------------5ds9_A

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updated Sun Jun 28 15:00:16 2026