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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Ragunathan, P."

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Search Summary

This query matches 14 Structures.

Refinements

Structure Determination Methodology

experimental (14)

Scientific Name of Source Organism

	Mycolicibacterium smegmatis (4)
	Mycobacterium tuberculosis (2)
	Mycobacteroides abscessus (2)
	Acinetobacter baumannii (1)
	Acinetobacter baumannii AB5075 (1)
	Mycobacterium tuberculosis H37Rv (1)
	Streptococcus agalactiae (1)
	Streptococcus agalactiae 2603V/R (1)
	Sulfurisphaera tokodaii str. 7 (1)

Taxonomy

	Bacteria (13)
	Archaea (1)

Experimental Method

	SOLUTION NMR (6)
	ELECTRON MICROSCOPY (5)
	X-RAY DIFFRACTION (3)

Polymer Entity Type

Protein (14)

Refinement Resolution (Å)

	2.0 - 2.5 (2)
	2.5 - 3.0 (1)
	3.0 - 3.5 (1)
	3.5 - 4.0 (1)
	4.0 - 4.5 (1)
	> 4.5 (2)

Release Date

	2005 - 2009 (2)
	2010 - 2014 (1)
	2015 - 2019 (1)
	2020 - 2024 (10)

Enzyme Classification Name

	Translocases (5)
	Hydrolases (2)
	Transferases (2)

Membrane Protein Annotation

	PDBTM (3)
	mpstruc (3)
	OPM (2)

Symmetry Type

	Asymmetric (12)
	Cyclic (1)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a/b) (2)
	Alpha and beta proteins (a+b) (1)

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1 to 14 of 14 Structures

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2EF7 \| pdb_00002ef7	Download File View File

Crystal structure of ST2348, a hypothetical protein with CBS domains from Sulfolobus tokodaii strain7

Agari, Y., Karthe, P., Kumarevel, T., Yokoyama, S., Kuramitsu, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2008) Biochem Biophys Res Commun 375: 124-128

Released	2007-08-21
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Sulfurisphaera tokodaii str. 7
Macromolecule	Hypothetical protein ST2348 (protein)

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3HJT \| pdb_00003hjt	Download File View File

Structure of laminin binding protein (Lmb) of Streptococcus agalactiae A bifunctional protein with adhesin and metal transporting activity

Ponnuraj, K., Ragunathan, P., Spellerberg, B.

(2009) Acta Crystallogr D Biol Crystallogr 65: 1262-1269

Released	2009-12-01
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Streptococcus agalactiae
Macromolecule	Lmb (protein)
Unique Ligands	ZN

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4H0F \| pdb_00004h0f	Download File View File

Mutant Structure of laminin-binding adhesin (Lmb) from Streptococcus agalactiae

Karthe, P., Preethi, R.

(2013) PLoS One 8: e67517-e67517

Released	2013-09-04
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Streptococcus agalactiae 2603V/R
Macromolecule	Laminin-binding surface protein (protein)
Unique Ligands	ZN

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5YIO \| pdb_00005yio	Download File View File

NMR solution structure of subunit epsilon of the Mycobacterium tuberculosis F-ATP synthase

Shin, J., Ragunathan, P., Sundararaman, L., Nartey, W., Manimekalai, M.S.S., Bogdanovic, N., Gruber, G.

(2018) FEBS J 285: 1111-1128

Released	2018-10-10
Method	SOLUTION NMR
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	ATP synthase epsilon chain (protein)

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6LXG \| pdb_00006lxg	Download File View File

NMR solution structure of regulatory ACT domain of the Mycobacterium tuberculosis Rel protein

Shin, J., Singal, B., Manimekalai, M.S.S., Gruber, G.

(2021) FEBS J 288: 2377-2397

Released	2020-11-04
Method	SOLUTION NMR
Organisms	Mycobacterium tuberculosis
Macromolecule	GTP pyrophosphokinase (protein)

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7DOJ \| pdb_00007doj	Download File View File

Solution structure of TGS domain of the Mycobacterium tuberculosis Rel protein

Joon, S., Singal, B., Grueber, G.

(2021) FEBS Lett 595: 3006-3018

Released	2021-12-01
Method	SOLUTION NMR
Organisms	Mycobacterium tuberculosis
Macromolecule	GTP pyrophosphokinase (protein)

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7VIL \| pdb_00007vil	Download File View File

Solution structure of subunit epsilon of the Mycobacterium abscessus F-ATP synthase

Shin, J., Grueber, G., Wong, C.F.

(2022) FEBS J 289: 6308-6323

Released	2022-10-05
Method	SOLUTION NMR
Organisms	Mycobacteroides abscessus
Macromolecule	ATP synthase epsilon chain (protein)

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7XKZ \| pdb_00007xkz	Download File View File

Solution structure of subunit epsilon of the Mycobacterium abscessus F-ATP synthase

Shin, J., Grueber, G., Harikishore, A., Wong, C.F., Prya, R., Dick, T.

(2022) FEBS J 289: 6308-6323

Released	2023-03-08
Method	SOLUTION NMR
Organisms	Mycobacteroides abscessus
Macromolecule	ATP synthase epsilon chain (protein)

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7Y5A \| pdb_00007y5a	Download File View File

Cryo-EM structure of the Mycolicibacterium smegmatis F1-ATPase

Wong, C.F., Saw, W.-G., Grueber, G.

(2022) Antimicrob Agents Chemother 66: e0105622-e0105622

Released	2022-11-23
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Mycolicibacterium smegmatis
Macromolecule	ATP synthase gamma chain (protein) ATP synthase subunit alpha (protein) ATP synthase subunit beta (protein)
Unique Ligands	ADP, ATP, MG

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7Y5B \| pdb_00007y5b	Download File View File

Cryo-EM structure of F-ATP synthase from Mycolicibacterium smegmatis (rotational state 1)

Saw, W.-G., Wong, C.F., Grueber, G.

(2022) Antimicrob Agents Chemother 66: e0105622-e0105622

Released	2022-11-23
Method	ELECTRON MICROSCOPY 4.4 Å
Organisms	Mycolicibacterium smegmatis
Macromolecule	Unique protein chains: 9
Unique Ligands	ADP, ATP, MG

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7Y5C \| pdb_00007y5c	Download File View File

Cryo-EM structure of F-ATP synthase from Mycolicibacterium smegmatis (rotational state 2)

Saw, W.-G., Wong, C.F., Grueber, G.

(2022) Antimicrob Agents Chemother 66: e0105622-e0105622

Released	2022-11-23
Method	ELECTRON MICROSCOPY 4.7 Å
Organisms	Mycolicibacterium smegmatis
Macromolecule	Unique protein chains: 8
Unique Ligands	ADP, ATP, MG

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7Y5D \| pdb_00007y5d	Download File View File

Cryo-EM structure of F-ATP synthase from Mycolicibacterium smegmatis (rotational state 3) (backbone)

Saw, W.-G., Wong, C.F., Grueber, G.

(2022) Antimicrob Agents Chemother 66: e0105622-e0105622

Released	2022-11-23
Method	ELECTRON MICROSCOPY 7.3 Å
Organisms	Mycolicibacterium smegmatis
Macromolecule	Unique protein chains: 9

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7YRY \| pdb_00007yry	Download File View File

F1-ATPase of Acinetobacter baumannii

Saw, W.-G., Grueber, G.

(2023) FASEB J 37: e23040-e23040

Released	2023-06-21
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Acinetobacter baumannii AB5075
Macromolecule	ATP synthase epsilon chain (protein) ATP synthase gamma chain (protein) ATP synthase subunit alpha (protein) ATP synthase subunit beta (protein)
Unique Ligands	ADP, ATP, MG, PO4

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8HGX \| pdb_00008hgx	Download File View File

NMR solution structure of subunit epsilon of the Acinetobacter baumannii F-ATP synthase

Shin, J., Grueber, G.

(2023) FASEB J 37: e23040-e23040

Released	2023-11-22
Method	SOLUTION NMR
Organisms	Acinetobacter baumannii
Macromolecule	ATP synthase epsilon chain (protein)

1 to 14 of 14 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

2EF7 | pdb_00002ef7

Crystal structure of ST2348, a hypothetical protein with CBS domains from Sulfolobus tokodaii strain7

3HJT | pdb_00003hjt

Structure of laminin binding protein (Lmb) of Streptococcus agalactiae A bifunctional protein with adhesin and metal transporting activity

4H0F | pdb_00004h0f

Mutant Structure of laminin-binding adhesin (Lmb) from Streptococcus agalactiae

5YIO | pdb_00005yio

NMR solution structure of subunit epsilon of the Mycobacterium tuberculosis F-ATP synthase

6LXG | pdb_00006lxg

NMR solution structure of regulatory ACT domain of the Mycobacterium tuberculosis Rel protein

7DOJ | pdb_00007doj

Solution structure of TGS domain of the Mycobacterium tuberculosis Rel protein

7VIL | pdb_00007vil

Solution structure of subunit epsilon of the Mycobacterium abscessus F-ATP synthase

7XKZ | pdb_00007xkz

Solution structure of subunit epsilon of the Mycobacterium abscessus F-ATP synthase

7Y5A | pdb_00007y5a

Cryo-EM structure of the Mycolicibacterium smegmatis F1-ATPase

7Y5B | pdb_00007y5b

Cryo-EM structure of F-ATP synthase from Mycolicibacterium smegmatis (rotational state 1)

7Y5C | pdb_00007y5c

Cryo-EM structure of F-ATP synthase from Mycolicibacterium smegmatis (rotational state 2)

7Y5D | pdb_00007y5d

Cryo-EM structure of F-ATP synthase from Mycolicibacterium smegmatis (rotational state 3) (backbone)

7YRY | pdb_00007yry

F1-ATPase of Acinetobacter baumannii

8HGX | pdb_00008hgx

NMR solution structure of subunit epsilon of the Acinetobacter baumannii F-ATP synthase

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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

2EF7 | pdb_00002ef7

3HJT | pdb_00003hjt

4H0F | pdb_00004h0f

5YIO | pdb_00005yio

6LXG | pdb_00006lxg

7DOJ | pdb_00007doj

7VIL | pdb_00007vil

7XKZ | pdb_00007xkz

7Y5A | pdb_00007y5a

7Y5B | pdb_00007y5b

7Y5C | pdb_00007y5c

7Y5D | pdb_00007y5d

7YRY | pdb_00007yry

8HGX | pdb_00008hgx