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PDB: 293 results
6WOY
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BU of 6woy by Molmil
Thermus thermophilus RNA polymerase initially transcribing complex with 3'dCTP
Descriptor: 3'-DEOXY-CYTIDINE-5'-TRIPHOSPHATE, DNA (25-MER), DNA (5'-D(P*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*GP*CP*AP*G)-3'), ...
Authors:Shin, Y, Murakami, K.S.
Deposit date:2020-04-26
Release date:2020-06-10
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (3 Å)
Cite:The mechanism of the nucleo-sugar selection by multi-subunit RNA polymerases.
Nat Commun, 12, 2021
8TO8
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BU of 8to8 by Molmil
Escherichia coli RNA polymerase unwinding intermediate (I1b) at the lambda PR promoter
Descriptor: (3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-10,13-dimethyl-17-[(2R)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthrene-3,7,12-triol, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Darst, S.A, Saecker, R.M, Mueller, A.U.
Deposit date:2023-08-03
Release date:2024-07-03
Last modified:2024-07-17
Method:ELECTRON MICROSCOPY (2.9 Å)
Cite:Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy.
Nat.Struct.Mol.Biol., 2024
8TOM
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BU of 8tom by Molmil
Escherichia coli RNA polymerase closed complex intermediate at the lambda PR promoter
Descriptor: CHAPSO, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Darst, S.A, Saecker, R.M, Mueller, A.U.
Deposit date:2023-08-03
Release date:2024-07-03
Last modified:2024-07-17
Method:ELECTRON MICROSCOPY (3.1 Å)
Cite:Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy.
Nat.Struct.Mol.Biol., 2024
8TO1
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BU of 8to1 by Molmil
Escherichia coli RNA polymerase unwinding intermediate (I1a) at the lambda PR promoter
Descriptor: (3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-10,13-dimethyl-17-[(2R)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthrene-3,7,12-triol, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Darst, S.A, Saecker, R.M, Mueller, A.U.
Deposit date:2023-08-02
Release date:2024-07-03
Last modified:2024-07-17
Method:ELECTRON MICROSCOPY (2.8 Å)
Cite:Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy.
Nat.Struct.Mol.Biol., 2024
8TO6
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BU of 8to6 by Molmil
Escherichia coli RNA polymerase unwinding intermediate (I1d) at the lambda PR promoter
Descriptor: (3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-10,13-dimethyl-17-[(2R)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthrene-3,7,12-triol, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Darst, S.A, Saecker, R.M, Mueller, A.U.
Deposit date:2023-08-02
Release date:2024-07-03
Last modified:2024-07-17
Method:ELECTRON MICROSCOPY (2.9 Å)
Cite:Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy.
Nat.Struct.Mol.Biol., 2024
8TOE
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BU of 8toe by Molmil
Escherichia coli RNA polymerase unwinding intermediate (I1c) at the lambda PR promoter
Descriptor: CHAPSO, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Darst, S.A, Saecker, R.M, Mueller, A.U.
Deposit date:2023-08-03
Release date:2024-07-03
Last modified:2024-07-17
Method:ELECTRON MICROSCOPY (2.9 Å)
Cite:Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy.
Nat.Struct.Mol.Biol., 2024
6XL9
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BU of 6xl9 by Molmil
Cryo-EM structure of EcmrR-RNAP-promoter initial transcribing complex with 3-nt RNA transcript (EcmrR-RPitc-3nt)
Descriptor: DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ...
Authors:Yang, Y, Liu, C, Shi, W, Liu, B.
Deposit date:2020-06-28
Release date:2021-04-07
Last modified:2024-03-06
Method:ELECTRON MICROSCOPY (2.5 Å)
Cite:Structural visualization of transcription activated by a multidrug-sensing MerR family regulator.
Nat Commun, 12, 2021
6XLJ
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BU of 6xlj by Molmil
Cryo-EM structure of EcmrR-RNAP-promoter initial transcribing complex with 4-nt RNA transcript (EcmrR-RPitc-4nt)
Descriptor: CHAPSO, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Yang, Y, Liu, C, Liu, B.
Deposit date:2020-06-28
Release date:2021-04-07
Last modified:2024-03-06
Method:ELECTRON MICROSCOPY (2.7 Å)
Cite:Structural visualization of transcription activated by a multidrug-sensing MerR family regulator.
Nat Commun, 12, 2021
6XLM
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BU of 6xlm by Molmil
Cryo-EM structure of E.coli RNAP-DNA elongation complex 1 (RDe1) in EcmrR-dependent transcription
Descriptor: 9-nt RNA transcript, CHAPSO, DNA-directed RNA polymerase subunit alpha, ...
Authors:Yang, Y, Liu, C, Liu, B.
Deposit date:2020-06-28
Release date:2021-04-07
Last modified:2024-03-06
Method:ELECTRON MICROSCOPY (3.2 Å)
Cite:Structural visualization of transcription activated by a multidrug-sensing MerR family regulator.
Nat Commun, 12, 2021
6XL5
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BU of 6xl5 by Molmil
Cryo-EM structure of EcmrR-RNAP-promoter open complex (EcmrR-RPo)
Descriptor: CHAPSO, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Yang, Y, Liu, C, Liu, B.
Deposit date:2020-06-28
Release date:2021-04-07
Last modified:2024-03-06
Method:ELECTRON MICROSCOPY (2.5 Å)
Cite:Structural visualization of transcription activated by a multidrug-sensing MerR family regulator.
Nat Commun, 12, 2021
6XLL
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BU of 6xll by Molmil
Cryo-EM structure of E. coli RNAP-promoter initial transcribing complex with 5-nt RNA transcript (RPitc-5nt)
Descriptor: CHAPSO, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Yang, Y, Liu, C, Liu, B.
Deposit date:2020-06-28
Release date:2021-04-07
Last modified:2024-03-06
Method:ELECTRON MICROSCOPY (2.7 Å)
Cite:Structural visualization of transcription activated by a multidrug-sensing MerR family regulator.
Nat Commun, 12, 2021
6XH7
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BU of 6xh7 by Molmil
CueR-TAC without RNA
Descriptor: COPPER (II) ION, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Liu, B, Shi, W, Yang, Y.
Deposit date:2020-06-18
Release date:2021-04-14
Last modified:2024-03-06
Method:ELECTRON MICROSCOPY (3.9 Å)
Cite:Structural basis of copper-efflux-regulator-dependent transcription activation.
Iscience, 24, 2021
6XH8
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BU of 6xh8 by Molmil
CueR-transcription activation complex with RNA transcript
Descriptor: COPPER (II) ION, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Liu, B, Shi, W, Yang, Y.
Deposit date:2020-06-18
Release date:2021-04-14
Last modified:2024-03-06
Method:ELECTRON MICROSCOPY (4.1 Å)
Cite:Structural basis of copper-efflux-regulator-dependent transcription activation.
Iscience, 24, 2021
4KI2
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BU of 4ki2 by Molmil
Crystallographic analysis of an RNA-polymerase sigma-subunit fragment complexed with -10 promoter element ssDNA
Descriptor: DNA (5'-D(*TP*GP*TP*AP*CP*AP*AP*TP*GP*GP*G)-3'), POTASSIUM ION, RNA polymerase sigma factor
Authors:Feklistov, A, Darst, S.A.
Deposit date:2013-05-01
Release date:2013-09-04
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Crystallographic analysis of an RNA polymerase sigma-subunit fragment complexed with -10 promoter element ssDNA: quadruplex formation as a possible tool for engineering crystal contacts in protein-ssDNA complexes.
Acta Crystallogr.,Sect.F, 69, 2013
4JK2
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BU of 4jk2 by Molmil
X-ray crystal structure of Escherichia coli sigma70 holoenzyme in complex with guanosine pentaphosphate (pppGpp)
Descriptor: Escherichia coli RNA polymerase alpha subunit, Escherichia coli RNA polymerase beta subunit, Escherichia coli RNA polymerase beta' subunit, ...
Authors:Murakami, K.S.
Deposit date:2013-03-09
Release date:2013-04-17
Last modified:2023-09-20
Method:X-RAY DIFFRACTION (4.201 Å)
Cite:Differential regulation by ppGpp versus pppGpp in Escherichia coli.
Nucleic Acids Res., 41, 2013
4KMU
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BU of 4kmu by Molmil
X-ray crystal structure of the Escherichia coli RNA polymerase in complex with Rifampin
Descriptor: DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ...
Authors:Murakami, K.S.
Deposit date:2013-05-08
Release date:2013-05-22
Last modified:2023-09-20
Method:X-RAY DIFFRACTION (3.85 Å)
Cite:X-ray Crystal Structures of the Escherichia coli RNA Polymerase in Complex with Benzoxazinorifamycins.
J.Med.Chem., 56, 2013
7BEG
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BU of 7beg by Molmil
Structures of class I bacterial transcription complexes
Descriptor: Class I pacrA promoter non-template DNA, Class I pacrA promoter template DNA, DNA-directed RNA polymerase subunit alpha, ...
Authors:Ye, F.Z, Hao, M, Zhang, X.D.
Deposit date:2020-12-23
Release date:2021-12-01
Last modified:2024-07-10
Method:ELECTRON MICROSCOPY (4.2 Å)
Cite:Structures of Class I and Class II Transcription Complexes Reveal the Molecular Basis of RamA-Dependent Transcription Activation.
Adv Sci, 9, 2022
7BEF
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BU of 7bef by Molmil
Structures of class II bacterial transcription complexes
Descriptor: DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ...
Authors:Hao, M, Ye, F.Z, Zhang, X.D.
Deposit date:2020-12-23
Release date:2021-12-01
Last modified:2024-07-10
Method:ELECTRON MICROSCOPY (4.5 Å)
Cite:Structures of Class I and Class II Transcription Complexes Reveal the Molecular Basis of RamA-Dependent Transcription Activation.
Adv Sci, 9, 2022
8W8O
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BU of 8w8o by Molmil
Thermus thermophilus initiation complex in the half-translocated state
Descriptor: DNA (21-MER), DNA (27-MER), DNA-directed RNA polymerase subunit alpha, ...
Authors:Li, L, Zhang, Y.
Deposit date:2023-09-04
Release date:2024-07-24
Method:X-RAY DIFFRACTION (2.512 Å)
Cite:Nanopore tweezers show fractional-nucleotide translocation in sequence-dependent pausing by RNA polymerase.
Proc.Natl.Acad.Sci.USA, 121, 2024
8W8P
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BU of 8w8p by Molmil
Thermus thermophilus initiation transcription complex containing CMPcPP in the post-translocated state
Descriptor: 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine, DNA (21-MER), DNA (27-MER), ...
Authors:Li, L, Zhang, Y.
Deposit date:2023-09-04
Release date:2024-07-24
Method:X-RAY DIFFRACTION (3.165 Å)
Cite:Nanopore tweezers show fractional-nucleotide translocation in sequence-dependent pausing by RNA polymerase.
Proc.Natl.Acad.Sci.USA, 121, 2024
8W8N
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BU of 8w8n by Molmil
Thermus thermophilus initiation transcription complex in the pre-translocated state
Descriptor: DNA (21-MER), DNA (27-MER), DNA-directed RNA polymerase subunit alpha, ...
Authors:Li, L, Zhang, Y.
Deposit date:2023-09-04
Release date:2024-07-24
Method:X-RAY DIFFRACTION (2.693 Å)
Cite:Nanopore tweezers show fractional-nucleotide translocation in sequence-dependent pausing by RNA polymerase.
Proc.Natl.Acad.Sci.USA, 121, 2024
4JKR
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BU of 4jkr by Molmil
Crystal Structure of E. coli RNA Polymerase in complex with ppGpp
Descriptor: DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA', DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Zuo, Y, Wang, Y, Steitz, T.A.
Deposit date:2013-03-11
Release date:2013-05-15
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (4.2 Å)
Cite:The mechanism of E. coli RNA polymerase regulation by ppGpp is suggested by the structure of their complex.
Mol.Cell, 50, 2013
7DY6
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BU of 7dy6 by Molmil
A refined cryo-EM structure of an Escherichia coli RNAP-promoter open complex (RPo) with SspA
Descriptor: DNA (63-MER), DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Lin, W.
Deposit date:2021-01-20
Release date:2021-11-17
Last modified:2024-06-05
Method:ELECTRON MICROSCOPY (3.68 Å)
Cite:A unique binding between SspA and RNAP beta' NTH across low-GC Gram-negative bacteria facilitates SspA-mediated transcription regulation.
Biochem.Biophys.Res.Commun., 583, 2021
4JK1
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BU of 4jk1 by Molmil
X-ray crystal structure of Escherichia coli sigma70 holoenzyme in complex with Guanosine tetraphosphate (ppGpp)
Descriptor: Escherichia coli RNA polymerase alpha subunit, Escherichia coli RNA polymerase beta subunit, Escherichia coli RNA polymerase beta' subunit, ...
Authors:Murakami, K.S.
Deposit date:2013-03-09
Release date:2013-04-10
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (3.9 Å)
Cite:Differential regulation by ppGpp versus pppGpp in Escherichia coli.
Nucleic Acids Res., 41, 2013
8U3B
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BU of 8u3b by Molmil
Cryo-EM structure of E. coli NarL-transcription activation complex at 3.2A
Descriptor: DNA (69-MER), DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ...
Authors:Liu, B, Kompaniiets, D, Wang, D.
Deposit date:2023-09-07
Release date:2024-01-17
Last modified:2024-02-21
Method:ELECTRON MICROSCOPY (3.23 Å)
Cite:Structural basis for transcription activation by the nitrate-responsive regulator NarL.
Nucleic Acids Res., 52, 2024

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PDB entries from 2024-09-11

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