Database '3D-footprint 20210203' (DNA Binding Motifs 1151-1200)

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AccessionsNamesConsensusOrganismsDescription and notes
6fbr_BRetinoic acid receptor RXR-alphatGaACHomo sapiensCrystal Structure of the Human Retinoid X Receptor DNA-Binding Domain

6xwg_CDRetinoic acid receptor RXR-alphaGTTCAnnnnnaGTTcAHomo sapiensCrystal Structure of the Human RXR/RAR DNA-Binding Domain Heterodimer Bound

6xwh_CRetinoic acid receptor RXR-alphaGGyCrHomo sapiensCrystal Structure of the Human RXR DNA-Binding Domain Homodimer Bound

6xwh_CDRetinoic acid receptor RXR-alphaGGTCAnGGCCAHomo sapiensCrystal Structure of the Human RXR DNA-Binding Domain Homodimer Bound

5trd_ABRiboflavin kinaseACTcnnnnnntAGTAstrain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165
Thermoplasma acidophilum
Structure of RbkR (Riboflavin Kinase) from Thermoplasma acidophilum determined in

5trd_BRiboflavin kinaseTAGTAAstrain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165
Thermoplasma acidophilum
Structure of RbkR (Riboflavin Kinase) from Thermoplasma acidophilum determined in

2h27_ARNA polymerase Sigma E factorCGGAmCyEscherichia coli
strain K12
Crystal Structure of Escherichia coli SigmaE Region 4 Bound to

3n97_ARNA polymerase sigma factorCTTGAThermus aquaticusRNA polymerase alpha C-terminal domain (E. coli) and sigma region

3n97_ABCRNA polymerase sigma factorTCAAGThermus aquaticusRNA polymerase alpha C-terminal domain (E. coli) and sigma region

3ugo_ARNA polymerase sigma factorgTAnAATThermus aquaticusCrystal structure of RNA-polymerase sigma subunit domain 2 complexed with

4ki2_BRNA polymerase sigma factorTAnAATThermus aquaticusCrystallographic analysis of an RNA-polymerase sigma-subunit fragment complexed with -10

4lup_ARNA polymerase sigma factortGTCnaAEscherichia coliCrystal structure of the complex formed by region of E.

6pmi_FRNA polymerase sigma factor FliATgnGATaACGAGATEscherichia coli
strain K12
Sigm28-transcription initiation complex with specific promoter at the state 1
4yln_FRNA polymerase sigma factor RpoDAGGATTATAGCnnAnnnnnnnnnnGTCAaEscherichia coli
strain K12
E. coli Transcription Initiation Complex - 17-bp spacer and 4-nt

4ylo_FRNA polymerase sigma factor RpoDAGGATTATAGCAnAnnnnnnnnnnnTGTCnnGEscherichia coli
strain K12
E. coli Transcription Initiation Complex - 16-bp spacer and 4-nt

4ylp_FRNA polymerase sigma factor RpoDGTAGGATTATAGCATnnnnnnnnnnnnTnTCAEscherichia coli
strain K12
E. coli Transcription Initiation Complex - 16-bp spacer and 5-nt

6n61_FRNA polymerase sigma factor RpoDGGTTTEscherichia coliEscherichia coli RNA polymerase sigma70-holoenzyme bound to upstream fork promoter

6n62_FRNA polymerase sigma factor RpoDAAacEscherichia coliEscherichia coli RNA polymerase sigma70-holoenzyme bound to upstream fork promoter

6psr_LRNA polymerase sigma factor RpoDTGTCaaTEscherichia coli
strain K12
Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi1) with TraR

6pst_LRNA polymerase sigma factor RpoDGATGCGCCnnTnnnnnnnnnnnnnGTCAATEscherichia coli
strain K12
Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi1.5b) with TraR

7khb_CDFRNA polymerase sigma factor RpoDCTTGnnnnnnnnnnnnnnnnnnCTATAATGCGnCATEscherichia coli
strain K12
Escherichia coli RNA polymerase and rrnBP1 promoter open complex
7khb_FRNA polymerase sigma factor RpoDCTTGnnnnnnnnnnnnnnnnnnCTATAATGCGEscherichia coli
strain K12
Escherichia coli RNA polymerase and rrnBP1 promoter open complex
7khc_ABFRNA polymerase sigma factor RpoDannnnnnnnnnnnnCtTGTCEscherichia coli
strain K12
Escherichia coli RNA polymerase and rrnBP1 promoter closed complex
7khi_FRNA polymerase sigma factor RpoDAgnnwnnnnnnnnnnnnnnacaagEscherichia coli
strain K12
Escherichia coli RNA polymerase and rrnBP1 promoter complex with DksA/ppGpp
5ipl_FRNA polymerase sigma factor RpoSTATGCTATAATGTGTGEscherichia coli
strain K12
SigmaS-transcription initiation complex with 4-nt nascent RNA
5ipm_FRNA polymerase sigma factor RpoSTATGCTATAATGTgtgEscherichia coli
strain K12
SigmaS-transcription initiation complex with 4-nt nascent RNA
5ipn_FRNA polymerase sigma factor RpoSTATGCTATAATGTnTGEscherichia coli
strain K12
SigmaS-transcription initiation complex with 4-nt nascent RNA
6omf_FRNA polymerase sigma factor RpoSTAACgnGAGCAnCnnnnnnnnnnnncGcTSalmonella enterica subsp. enterica serovar TyphimuriumCryoEM structure of SigmaS-transcription initiation complex with activator Crl
6ido_BRNA polymerase sigma factor RpoS,RNA polymerase beta-flap-tip-helixCTtGACKlebsiella pneumoniae subsp. pneumoniae
strain ATCC 700721 / MGH 78578
Crystal structure of Klebsiella pneumoniae sigma4 of sigmaS fusing with

4xlp_FRNA polymerase sigma factor SigACTTGAcannnnnnnnnnnnTnTGCTThermus aquaticusCrystal structure of T.aquaticus transcription initiation complex containing upstream fork

5tw1_FRNA polymerase sigma factor SigACTTGACAnnnnnnnnnnnnTnTGCTMycobacterium smegmatis
Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
Crystal structure of a Mycobacterium smegmatis transcription initiation complex with

5uhb_FRNA polymerase sigma factor SigATAnaATGGMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Crystal structure of Mycobacterium tuberculosis transcription initiation complex in complex

6edt_FRNA polymerase sigma factor SigAGCCAGtCTAAnnnAnnnnnnnnnnnnnaGTCAAGMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis RNAP open promoter complex with RbpA/CarD and AP3

6ee8_FRNA polymerase sigma factor SigACTTGACTnnnnnnnnnnnnnTnnnTTAMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis RNAP promoter unwinding intermediate complex with RbpA/CarD and

6m7j_FRNA polymerase sigma factor SigAAGCanAnnnnnnnnnnnntGTCAAGMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis RNAP with RbpA/us fork and Corallopyronin
6vvs_FRNA polymerase sigma factor SigACTTGACAnnnnnnnnnnnnTnTGCTMycobacterium smegmatis
Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
Crystal structure of a Mycobacterium smegmatis RNA polymerase transcription initiation

6vvs_FTRNA polymerase sigma factor SigAAGCAnAnnnnnnnncnnnTGTCaAGMycobacterium smegmatis
Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
Crystal structure of a Mycobacterium smegmatis RNA polymerase transcription initiation

6vvt_FRNA polymerase sigma factor SigAAGCAnAnnnnnnnnnnnnTGTCAAGMycobacterium smegmatis
Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
Crystal structure of a Mycobacterium smegmatis transcription initiation complex with

6vvv_FRNA polymerase sigma factor SigACTTGACAnnnnnnnnnnnnTnTGCTMycobacterium smegmatis
Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
Crystal structure of a Mycobacterium smegmatis transcription initiation complex with

6vvv_FTRNA polymerase sigma factor SigAAGCAnAnnnnnnnnnnnnTGTCAAGMycobacterium smegmatis
Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
Crystal structure of a Mycobacterium smegmatis transcription initiation complex with

6vvx_CDFMRNA polymerase sigma factor SigATGCGTnTAAnAnAnnnnnnnnnnnnnAGTCAAGAMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis WT RNAP transcription initiation intermediate structure with Sorangicin
6vvy_CDFJMRNA polymerase sigma factor SigAAACnCTGCCAGTCTAAnnnAnnnnnnnnnnnnnnGTCAAGAMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis WT RNAP transcription open promoter complex with Sorangicin
6vvy_FRNA polymerase sigma factor SigATCTTGACnnnnnnnnnnnnnnTnnnTTAGnCTGGCAMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis WT RNAP transcription open promoter complex with Sorangicin
6vvz_CDFMRNA polymerase sigma factor SigATCTTGACTnnnnnnnnnnnnnTnTnTTAGACCAMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis RNAP S456L mutant transcription initiation intermediate structure with

6vvz_FRNA polymerase sigma factor SigATCTTGACTnnnnnnnnnnnnnTnTnTTAGACMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis RNAP S456L mutant transcription initiation intermediate structure with

6vw0_CDFJMRNA polymerase sigma factor SigACTTGACtnnnnnnnnnnnnnTnTnTTAGACTGGCnngGTMycobacterium tuberculosis
strain ATCC 25618 / H37Rv
Mycobacterium tuberculosis RNAP S456L mutant open promoter complex
1d5y_AROB TRANSCRIPTION FACTORgTGCtgEscherichia coli
strain K12
CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN

1d5y_ABROB TRANSCRIPTION FACTORcaGCAcEscherichia coli
strain K12
CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN

1d5y_CDROB TRANSCRIPTION FACTORcaGCACEscherichia coli
strain K12
CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN

6y42_ABRrf2 family transcriptional regulatorACTcGGATAnnnnnTGTCCGAGstrain ATCC 10712 / CBS 650.69 / DSM 40230 / JCM 4526 / NBRC 13096 / PD 04745
Streptomyces venezuelae
Crystal Structure of RsrR complexed to a 39 basepair DNA



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