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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Chemical ID(s) = RFP

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Search Summary

This query matches 22 Structures.

Refinements

Structure Determination Methodology

experimental (22)

Scientific Name of Source Organism

	Escherichia coli K-12 (6)
	Mycobacterium tuberculosis H37Rv (6)
	Thermus aquaticus (2)
	Escherichia coli (1)
	Homo sapiens (1)
	Listeria monocytogenes (1)
	Mycolicibacterium smegmatis (1)
	Mycolicibacterium smegmatis MC2 155 (1)
	Nocardia farcinica (1)
	Streptomyces venezuelae ATCC 10712 (1)

More...

Taxonomy

	Bacteria (20)
	Eukaryota (1)
	Varidnaviria (1)
	other sequences (1)

Experimental Method

	X-RAY DIFFRACTION (20)
	ELECTRON MICROSCOPY (2)

Polymer Entity Type

	Protein (22)
	DNA (7)
	RNA (2)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (1)
	2.5 - 3.0 (2)
	3.0 - 3.5 (9)
	3.5 - 4.0 (6)
	4.0 - 4.5 (3)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (3)
	2010 - 2014 (3)
	2015 - 2019 (13)
	2020 - 2024 (2)

Enzyme Classification Name

	Transferases (14)
	Oxidoreductases (2)
	Translocases (1)

Membrane Protein Annotation

	MemProtMD (3)
	PDBTM (3)
	mpstruc (2)

Symmetry Type

	Asymmetric (18)
	Cyclic (4)

SCOP Classification

	Alpha and beta proteins (a+b) (2)
	Multi-domain proteins (alpha and beta) (2)
	All alpha proteins (3)

AllSelected

1 to 22 of 22 Structures

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1I6V \| pdb_00001i6v	Download File View File

THERMUS AQUATICUS CORE RNA POLYMERASE-RIFAMPICIN COMPLEX

Campbell, E.A., Korzheva, N., Mustaev, A., Murakami, K., Goldfarb, A., Darst, S.A.

(2001) Cell 104: 901-912

Released	2001-04-18
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Thermus aquaticus
Macromolecule	DNA-DIRECTED RNA POLYMERASE (protein)
Unique Ligands	MG, RFP, ZN

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1SKX \| pdb_00001skx	Download File View File

Structural Disorder in the Complex of Human PXR and the Macrolide Antibiotic Rifampicin

Chrencik, J.E., Xue, Y., Orans, J.O., Redinbo, M.R.

(2005) Mol Endocrinol 19: 1125-1134

Released	2005-03-08
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	Orphan nuclear receptor PXR (protein)
Unique Ligands	RFP

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1YNN \| pdb_00001ynn	Download File View File

Taq RNA polymerase-rifampicin complex

Campbell, E.A., Pavlova, O., Zenkin, N., Leon, F., Irschik, H., Jansen, R., Severinov, K., Darst, S.A.

(2005) EMBO J 24: 674-682

Released	2005-03-15
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Thermus aquaticus
Macromolecule	DNA-directed RNA polymerase alpha chain (protein) DNA-directed RNA polymerase beta chain (protein) DNA-directed RNA polymerase beta' chain (protein) DNA-directed RNA polymerase omega chain (protein)
Unique Ligands	RFP, ZN

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2HW2 \| pdb_00002hw2	Download File View File

Crystal structure of Rifampin ADP-ribosyl transferase in complex with Rifampin

Baysarowich, J., Wright, G.D., Junop, M.

(2008) Proc Natl Acad Sci U S A 105: 4886-4891

Released	2007-07-31
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Mycolicibacterium smegmatis
Macromolecule	Rifampin ADP-ribosyl transferase (protein)
Unique Ligands	GLY, RFP

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3AOB \| pdb_00003aob	Download File View File

Structures of the multidrug exporter AcrB reveal a proximal multisite drug-binding pocket

Nakashima, R., Sakurai, K., Yamaguchi, A.

(2011) Nature 480: 565-569

Released	2011-11-30
Method	X-RAY DIFFRACTION 3.35 Å
Organisms	Escherichia coli K-12
Macromolecule	Acriflavine resistance protein B (protein)
Unique Ligands	RFP

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3AOD \| pdb_00003aod	Download File View File

Structures of the multidrug exporter AcrB reveal a proximal multisite drug-binding pocket

Nakashima, R., Sakurai, K., Yamaguchi, A.

(2011) Nature 480: 565-569

Released	2011-11-30
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli K-12
Macromolecule	Acriflavine resistance protein B (protein)
Unique Ligands	MIY, RFP

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4KMU \| pdb_00004kmu	Download File View File

X-ray crystal structure of the Escherichia coli RNA polymerase in complex with Rifampin

Murakami, K.S.

(2013) J Med Chem 56: 4758-4763

Released	2013-05-22
Method	X-RAY DIFFRACTION 3.85 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, RFP, ZN

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5HV1 \| pdb_00005hv1	Download File View File

Rifampin phosphotransferase in complex with AMPPNP and rifampin from Listeria monocytogenes

Zhang, P., Qi, X.

(2016) Proc Natl Acad Sci U S A 113: 3803-3808

Released	2016-03-30
Method	X-RAY DIFFRACTION 3.103 Å
Organisms	Listeria monocytogenes
Macromolecule	Phosphoenolpyruvate synthase (protein)
Unique Ligands	ANP, MG, RFP

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5KOX \| pdb_00005kox	Download File View File

Structure of rifampicin monooxygenase complexed with rifampicin

Tanner, J.J., Liu, L.-K.

(2016) J Biological Chem 291: 21553-21562

Released	2016-09-07
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Nocardia farcinica
Macromolecule	Pentachlorophenol 4-monooxygenase (protein)
Unique Ligands	FAD, RFP

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5UAC \| pdb_00005uac	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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5UAH \| pdb_00005uah	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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5UAL \| pdb_00005ual	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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5UH6 \| pdb_00005uh6	Download File View File

Crystal structure of Mycobacterium tuberculosis transcription initiation complex containing 2ntRNA in complex with Rifampin

Lin, W., Das, K., Feng, Y., Ebright, R.H.

(2017) Mol Cell 66: 169-179.e8

Released	2017-04-12
Method	X-RAY DIFFRACTION 3.837 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 3
Unique Ligands	MG, RFP, ZN

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5UHB \| pdb_00005uhb	Download File View File

Crystal structure of Mycobacterium tuberculosis transcription initiation complex in complex with Rifampin

Lin, W., Das, K., Feng, Y., Ebright, R.H.

(2017) Mol Cell 66: 169-179.e8

Released	2017-04-12
Method	X-RAY DIFFRACTION 4.29 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	MG, RFP, ZN

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5UHC \| pdb_00005uhc	Download File View File

Crystal structure of Mycobacterium tuberculosis transcription initiation complex containing 3nt RNA in complex with Rifampin

Lin, W., Das, K., Feng, Y., Ebright, R.H.

(2017) Mol Cell 66: 169-179.e8

Released	2017-04-12
Method	X-RAY DIFFRACTION 3.796 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 3
Unique Ligands	MG, RFP, ZN

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5UHD \| pdb_00005uhd	Download File View File

Crystal structure of Mycobacterium tuberculosis transcription initiation complex containing 4nt RNA in complex with Rifampin

Lin, W., Das, K., Feng, Y., Ebright, R.H.

(2017) Mol Cell 66: 169-179.e8

Released	2017-04-12
Method	X-RAY DIFFRACTION 4.01 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	MG, RFP, ZN

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5UHG \| pdb_00005uhg	Download File View File

Crystal structure of Mycobacterium tuberculosis transcription initiation complex in complex with D-AAP1 and Rifampin

Lin, W., Das, K., Feng, Y., Ebright, R.H.

(2017) Mol Cell 66: 169-179.e8

Released	2017-04-12
Method	X-RAY DIFFRACTION 3.971 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	88G, MG, RFP, ZN

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6BED \| pdb_00006bed	Download File View File

Crystal structure of VACV D13 in complex with Rifampicin

Garriga, D., Accurso, C., Coulibaly, F.

(2018) Proc Natl Acad Sci U S A 115: 8424-8429

Released	2018-07-18
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Vaccinia virus WR
Macromolecule	Scaffold protein D13 (protein)
Unique Ligands	EDO, FMT, RFP

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6BRD \| pdb_00006brd	Download File View File

Crystal structure of rifampin monooxygenase from Streptomyces venezuelae, complexed with rifampin and FAD

Cox, G., Kelso, J., Stogios, P.J., Savchenko, A., Anderson, W.F., Wright, G.D., Center for Structural Genomics of Infectious Diseases (CSGID)

(2018) Cell Chem Biol 25: 403-412.e5

Released	2017-12-13
Method	X-RAY DIFFRACTION 3.32 Å
Organisms	Streptomyces venezuelae ATCC 10712
Macromolecule	Rifampin monooxygenase (protein)
Unique Ligands	CL, FAD, MG, RFP

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6CCV \| pdb_00006ccv	Download File View File

Crystal structure of a Mycobacterium smegmatis RNA polymerase transcription initiation complex with inhibitor Rifampicin

Lilic, M., Darst, S.A., Campbell, E.A.

(2018) Nat Commun 9: 4147-4147

Released	2018-08-15
Method	X-RAY DIFFRACTION 3.05 Å
Organisms	Mycolicibacterium smegmatis MC2 155 synthetic construct
Macromolecule	Unique protein chains: 7 Unique nucleic acid chains: 2
Unique Ligands	EDO, GLU, RFP, SO4, ZN

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7SZJ \| pdb_00007szj	Download File View File

Cryo-EM structure of Rifamycin bound to E. coli RNAP and rrnBP1 promoter complex

Shin, Y., Murakami, K.S.

(2022) ACS Infect Dis 8: 1422-1438

Released	2022-07-13
Method	ELECTRON MICROSCOPY 3.11 Å
Organisms	Escherichia coli K-12
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	MG, RFP, ZN

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8K1N \| pdb_00008k1n	Download File View File

mycobacterial efflux pump, substrate-bound state

Wang, Y., Wu, F., Zhang, L., Rao, Z.

(2024) Proc Natl Acad Sci U S A 121: e2403421121-e2403421121

Released	2024-07-17
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Multidrug efflux system ATP-binding protein Rv1218c (protein) Multidrug efflux system permease protein Rv1217c (protein)
Unique Ligands	CDL, RFP

1 to 22 of 22 Structures

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1I6V | pdb_00001i6v

1SKX | pdb_00001skx

1YNN | pdb_00001ynn

2HW2 | pdb_00002hw2

3AOB | pdb_00003aob

3AOD | pdb_00003aod

4KMU | pdb_00004kmu

5HV1 | pdb_00005hv1

5KOX | pdb_00005kox

5UAC | pdb_00005uac

5UAH | pdb_00005uah

5UAL | pdb_00005ual

5UH6 | pdb_00005uh6

5UHB | pdb_00005uhb

5UHC | pdb_00005uhc

5UHD | pdb_00005uhd

5UHG | pdb_00005uhg

6BED | pdb_00006bed

6BRD | pdb_00006brd

6CCV | pdb_00006ccv

7SZJ | pdb_00007szj

8K1N | pdb_00008k1n