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232,418 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

QUERY: Gene Name = "EUB16_00425"

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This query matches 71 Structures.

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4YFK	Download File View File

Escherichia coli RNA polymerase in complex with squaramide compound 8.

Molodtsov, V., Fleming, P.R., Eyermann, C.J., Ferguson, A.D., Foulk, M.A., McKinney, D.C., Masse, C.E., Buurman, E.T., Murakami, K.S.

(2015) J Med Chem 58: 3156-3171

Released	2015-03-11
Method	X-RAY DIFFRACTION 3.571 Å
Organisms	Escherichia coli K-12 Escherichia coli O139:H28 str. E24377A
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	4C6, MG, ZN

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4YFN	Download File View File

Escherichia coli RNA polymerase in complex with squaramide compound 14 (N-[3,4-dioxo-2-(4-{[4-(trifluoromethyl)benzyl]amino}piperidin-1-yl)cyclobut-1-en-1-yl]-3,5-dimethyl-1,2-oxazole-4-sulfonamide)

Molodtsov, V., Fleming, P.R., Eyermann, C.J., Ferguson, A.D., Foulk, M.A., McKinney, D.C., Masse, C.E., Buurman, E.T., Murakami, K.S.

(2015) J Med Chem 58: 3156-3171

Released	2015-03-11
Method	X-RAY DIFFRACTION 3.817 Å
Organisms	Escherichia coli K-12 Escherichia coli O139:H28 str. E24377A
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	4C2, MG, ZN

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4YFX	Download File View File

Escherichia coli RNA polymerase in complex with Myxopyronin B

Molodtsov, V., Fleming, P.R., Eyermann, C.J., Ferguson, A.D., Foulk, M.A., McKinney, D.C., Masse, C.E., Buurman, E.T., Murakami, K.S.

(2015) J Med Chem 58: 3156-3171

Released	2015-03-11
Method	X-RAY DIFFRACTION 3.844 Å
Organisms	Escherichia coli K-12 Escherichia coli O139:H28 str. E24377A
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	4C4, MG, ZN

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5UAC	Download File View File

Escherichia coli RNA polymerase and Rifampin complex, wild-type

Molodtsov, V., Scharf, N.T., Stefan, M.A., Garcia, G.A., Murakami, K.S.

(2017) Mol Microbiol 103: 1034-1045

Released	2017-01-18
Method	X-RAY DIFFRACTION 3.8 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	MG, RFP, ZN

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5UAG	Download File View File

Escherichia coli RNA polymerase mutant - RpoB D516V

Molodtsov, V., Scharf, N.T., Stefan, M.A., Garcia, G.A., Murakami, K.S.

(2017) Mol Microbiol 103: 1034-1045

Released	2017-02-08
Method	X-RAY DIFFRACTION 3.399 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	MG, ZN

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5UAH	Download File View File

Escherichia coli RNA polymerase and Rifampin complex, RpoB D516V mutant

Molodtsov, V., Scharf, N.T., Stefan, M.A., Garcia, G.A., Murakami, K.S.

(2017) Mol Microbiol 103: 1034-1045

Released	2017-01-11
Method	X-RAY DIFFRACTION 4.1 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	MG, RFP, ZN

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5UAJ	Download File View File

Escherichia coli RNA polymerase RpoB S531L mutant

Molodtsov, V., Scharf, N.T., Stefan, M.A., Garcia, G.A., Murakami, K.S.

(2017) Mol Microbiol 103: 1034-1045

Released	2017-01-11
Method	X-RAY DIFFRACTION 3.915 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	MG, ZN

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5UAL	Download File View File

Escherichia coli RNA polymerase and Rifampin complex, RpoB S531L mutant

Molodtsov, V., Scharf, N.T., Stefan, M.A., Garcia, G.A., Murakami, K.S.

(2017) Mol Microbiol 103: 1034-1045

Released	2017-01-11
Method	X-RAY DIFFRACTION 3.887 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	MG, RFP, ZN

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5UAQ	Download File View File

Escherichia coli RNA polymerase RpoB H526Y mutant

Molodtsov, V., Scharf, N.T., Stefan, M.A., Garcia, G.A., Murakami, K.S.

(2017) Mol Microbiol 103: 1034-1045

Released	2017-01-11
Method	X-RAY DIFFRACTION 3.6 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	MG, ZN

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5VO8	Download File View File

X-ray crystal structure of a bacterial reiterative transcription complex of pyrG promoter

Murakami, K.S., Shin, Y., Turnbough Jr, C.L., Molodtsov, V.

(2017) Proc Natl Acad Sci U S A 114: 8211-8216

Released	2017-05-24
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Bacillus subtilis Thermus thermophilus Thermus thermophilus HB8
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 3
Unique Ligands	MG, POP, ZN

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5VOI	Download File View File

X-ray crystal structure of bacterial RNA polymerase and pyrG promoter complex

Murakami, K.S., Shin, Y., Turnbough Jr, C.L., Molodtsov, V.

(2017) Proc Natl Acad Sci U S A 114: 8211-8216

Released	2017-05-24
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Bacillus subtilis Thermus thermophilus HB27 Thermus thermophilus HB8
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	MG, ZN

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5VSW	Download File View File

X-ray crystal structure of Escherichia coli RNA polymerase and DksA/ppGpp complex

Murakami, K.S., Molodtsov, V.

(2018) Mol Cell 69: 828-839.e5

Released	2017-06-14
Method	X-RAY DIFFRACTION 4.295 Å
Organisms	Escherichia coli K-12
Macromolecule	Unique protein chains: 6
Unique Ligands	G4P, MG, ZN

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5W1S	Download File View File

X-ray crystal structure of Escherichia coli RNA polymerase and TraR complex

Murakami, K.S., Molodtsov, V.

(2018) Mol Cell 69: 828-839.e5

Released	2017-06-14
Method	X-RAY DIFFRACTION 3.805 Å
Organisms	Escherichia coli K-12
Macromolecule	Unique protein chains: 6
Unique Ligands	MG, ZN

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5W1T	Download File View File

X-ray crystal structure of Escherichia coli RNA polymerase and DksA complex

Murakami, K.S., Molodtsov, V.

(2018) Mol Cell 69: 828-839.e5

Released	2017-06-14
Method	X-RAY DIFFRACTION 4.5 Å
Organisms	Escherichia coli K-12
Macromolecule	Unique protein chains: 6
Unique Ligands	MG, ZN

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6BYU	Download File View File

X-ray crystal structure of Escherichia coli RNA polymerase (RpoB-H526Y) and ppApp complex

Murakami, K.S., Molodtsov, V.

(2018) Biochim Biophys Acta 1861: 731-742

Released	2018-01-17
Method	X-RAY DIFFRACTION 3.6 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	ECJ, MG, ZN

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6CUU	Download File View File

Thermus thermophiles RNA polymerase in complex with promoter DNA and antibiotic Kanglemycin A

Molodtsov, V., Murakami, K.S.

(2018) Mol Cell 72: 263-274.e5

Released	2018-07-25
Method	X-RAY DIFFRACTION 2.994 Å
Organisms	Bacillus subtilis Thermus thermophilus HB27
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	KNG, MG, ZN

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6CUX	Download File View File

Escherichia coli RpoB S531L mutant RNA polymerase holoenzyme in complex with Kanglemycin A

Molodtsov, V., Murakami, K.S.

(2018) Mol Cell 72: 263-274.e5

Released	2018-07-25
Method	X-RAY DIFFRACTION 4.104 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	KNG, MG, ZN

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6DT7	Download File View File

Bacteriophage N4 RNA polymerase II and DNA complex

Molodtsov, V., Murakami, K.S.

(2018) J Biol Chem 293: 13616-13625

Released	2018-07-11
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Enquatrovirus N4 synthetic construct
Macromolecule	RNAP1 (protein) RNAP2 (protein) DNA (5'-D(PCPCPAPCPCPTPGPCP*A)-3') (nucleic acid)

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6DT8	Download File View File

Bacteriophage N4 RNA polymerase II elongation complex 1

Molodtsov, V., Murakami, K.S.

(2018) J Biol Chem 293: 13616-13625

Released	2018-07-11
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Enquatrovirus N4 synthetic construct
Macromolecule	RNAP1 (protein) RNAP2 (protein) DNA (5'-D(PAPCPCPCPAPCPCPAPAPAPAPA)-3') (nucleic acid) RNA (5'-R(PUPGPGPUPGPG)-3') (nucleic acid)

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6DTA	Download File View File

Bacteriophage N4 RNA polymerase II elongation complex 2

Molodtsov, V., Murakami, K.S.

(2018) J Biol Chem 293: 13616-13625

Released	2018-07-11
Method	X-RAY DIFFRACTION 2.694 Å
Organisms	Enquatrovirus N4 synthetic construct
Macromolecule	RNAP1 (protein) RNAP2 (protein) DNA (5'-D(PCPCPCPAPCPCPAPAPAPAPA)-3') (nucleic acid) RNA (5'-R(UPUPGPGPUPGPG)-3') (nucleic acid)
Unique Ligands	GTP, MG

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6TYE	Download File View File

Crystal structure of MTB sigma L transcription initiation complex with 5 nt long RNA primer

Molodtsov, V., Ebright, R.H.

(2020) Proc Natl Acad Sci U S A 117: 5801-5809

Released	2020-03-11
Method	X-RAY DIFFRACTION 3.79 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 3

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6TYF	Download File View File

Crystal structure of MTB sigma L transcription initiation complex with 6 nt long RNA primer

Molodtsov, V., Ebright, R.H.

(2020) Proc Natl Acad Sci U S A 117: 5801-5809

Released	2020-03-11
Method	X-RAY DIFFRACTION 3.8 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 3

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6TYG	Download File View File

Crystal structure of MTB sigma L transcription initiation complex with 9 nt long RNA primer

Molodtsov, V., Ebright, R.H.

(2020) Proc Natl Acad Sci U S A 117: 5801-5809

Released	2020-03-11
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 3

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6VJS	Download File View File

Escherichia coli RNA polymerase and ureidothiophene-2-carboxylic acid complex

Murakami, K.S., Molodtsov, V.

(2020) ACS Infect Dis 6: 2573-2581

Released	2020-10-07
Method	X-RAY DIFFRACTION 4.02 Å
Organisms	Escherichia coli
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor RpoD (protein)
Unique Ligands	MG, QZY, ZN

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6VU3	Download File View File

Cryo-EM structure of Escherichia coli transcription-translation complex A (TTC-A) containing mRNA with a 12 nt long spacer

Molodtsov, V., Wang, C., Su, M., Ebright, R.

(2020) Science 369: 1359-1365

Released	2020-09-02
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Escherichia coli synthetic construct
Macromolecule	Unique protein chains: 57 Unique nucleic acid chains: 7
Unique Ligands	MG, ZN