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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Rutherford, T.J."

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Search Summary

This query matches 31 Structures.

Refinements

Structure Determination Methodology

experimental (31)

Scientific Name of Source Organism

	Bacillus subtilis (14)
	Bifidobacterium longum DJO10A (5)
	Homo sapiens (3)
	Leishmania major (3)
	Exiguobacterium antarcticum B7 (2)
	Loxosceles intermedia (2)
	Leishmania braziliensis (1)
	Xanthomonas citri pv. citri str. 306 (1)

Taxonomy

	Bacteria (22)
	Eukaryota (9)

Experimental Method

X-RAY DIFFRACTION (31)

Polymer Entity Type

Protein (31)

Refinement Resolution (Å)

	1.5 - 2.0 (12)
	2.0 - 2.5 (9)
	2.5 - 3.0 (8)
	3.0 - 3.5 (2)

Release Date

	2010 - 2014 (20)
	2015 - 2019 (11)

Enzyme Classification Name

	Transferases (18)
	Hydrolases (3)
	Lyases (2)

Membrane Protein Annotation

OPM (1)

Symmetry Type

	Dihedral (19)
	Cyclic (10)
	Asymmetric (5)

SCOP Classification

	Alpha and beta proteins (a/b) (16)
	Artifacts (3)
	Alpha and beta proteins (a+b) (4)
	All alpha proteins (3)

AllSelected

1 to 25 of 31 Structures

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Explore in 3D

3RLG \| pdb_00003rlg	Download File View File

Crystal structure of Loxosceles intermedia phospholipase D isoform 1 H12A mutant

Giuseppe, P.O., Ullah, A., Veiga, S.S., Murakami, M.T., Arni, R.K.

(2011) Acta Crystallogr Sect F Struct Biol Cryst Commun 67: 234-236

Released	2011-08-24
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Loxosceles intermedia
Macromolecule	Sphingomyelin phosphodiesterase D LiSicTox-alphaIA1a (protein)
Unique Ligands	EDO, MG, PEG, PGE

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3RLH \| pdb_00003rlh	Download File View File

Crystal structure of a class II phospholipase D from Loxosceles intermedia venom

Giuseppe, P.O., Ullah, A., Veiga, S.S., Murakami, M.T., Arni, R.K., Doherty, D.Z., Gismene, C., Bachega, J.F.R., Chahine, J., Gonzalez, J.E.H.

(2011) Biochem Biophys Res Commun 409: 622-627

Released	2011-06-29
Method	X-RAY DIFFRACTION 1.72 Å
Organisms	Loxosceles intermedia
Macromolecule	Dermonecrotic toxin LiSicTox-alphaIA1a (protein)
Unique Ligands	A1BTZ, EDO, MG, PEG, PGE

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4D8V \| pdb_00004d8v	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis at pH 4.2

Santos, C.R., Meza, A.N., Martins, N.H., Giuseppe, P.O., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	ADE, SO4

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4D8X \| pdb_00004d8x	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in space group P6322 at pH 4.6

Santos, C.R., Meza, A.N., Martins, N.H., Giuseppe, P.O., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.65 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)

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4D8Y \| pdb_00004d8y	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in space group P212121 at pH 5.6

Santos, C.R., Meza, A.N., Martins, N.H., Giuseppe, P.O., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 1.61 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	GOL, SO4

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4D98 \| pdb_00004d98	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in space group H32 at pH 7.5

Santos, C.R., Meza, A.N., Martins, N.H., Giuseppe, P.O., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	CL, GOL, SO4

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4D9H \| pdb_00004d9h	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with adenosine

Giuseppe, P.O., Martins, N.H., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 1.91 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	ADN

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4DA0 \| pdb_00004da0	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with 2'-deoxyguanosine

Martins, N.H., Giuseppe, P.O., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	CL, GNG

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4DA6 \| pdb_00004da6	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with ganciclovir

Martins, N.H., Giuseppe, P.O., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	CL, DMS, GA2, GOL

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4DA7 \| pdb_00004da7	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with aciclovir

Martins, N.H., Giuseppe, P.O., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	AC2, PO4

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4DA8 \| pdb_00004da8	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with 8-bromoguanosine

Martins, N.H., Giuseppe, P.O., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	BG2

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4DAB \| pdb_00004dab	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with hypoxanthine

Martins, N.H., Giuseppe, P.O., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	ACT, CL, GOL, HPA

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4DAE \| pdb_00004dae	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with 6-chloroguanosine

Martins, N.H., Giuseppe, P.O., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	6CR, ACT, CL, GOL

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4DAN \| pdb_00004dan	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with 2-fluoroadenosine

Giuseppe, P.O., Martins, N.H., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.56 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	2FA

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4DAO \| pdb_00004dao	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with adenine

Giuseppe, P.O., Martins, N.H., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.22 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	ADE, GOL

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4DAR \| pdb_00004dar	Download File View File

Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with tubercidin

Giuseppe, P.O., Martins, N.H., Meza, A.N., Murakami, M.T.

(2012) PLoS One 7: e44282-e44282

Released	2012-09-26
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Bacillus subtilis
Macromolecule	Purine nucleoside phosphorylase deoD-type (protein)
Unique Ligands	TBN

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4J5L \| pdb_00004j5l	Download File View File

Structure of the Cargo Binding Domain from Human Myosin Va

Nascimento, A.F.Z., Trindade, D.M., Tonoli, C.C.C., Assis, L.H.P., Mahajan, P., Berridge, G., Krojer, T., Vollmar, M., Burgess-Brown, N., von Delft, F., Murakami, M.T.

(2013) J Biological Chem 288: 34131-34145

Released	2013-10-09
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	Unconventional myosin-Va (protein)
Unique Ligands	SO4

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4J5M \| pdb_00004j5m	Download File View File

Structure of the Cargo Binding Domain from Human Myosin Vb

Nascimento, A.F.Z., Trindade, D.M., Mahajan, P., Berridge, G., Krojer, T., Vollmar, M., Tonoli, C.C.C., Assis, L.H.P., Burgess-Brown, N., von Delft, F., Murakami, M.T.

(2013) J Biological Chem 288: 34131-34145

Released	2013-10-09
Method	X-RAY DIFFRACTION 2.07 Å
Organisms	Homo sapiens
Macromolecule	Unconventional myosin-Vb (protein)
Unique Ligands	NO3

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4KPC \| pdb_00004kpc	Download File View File

Crystal structure of the nucleoside diphosphate kinase b from Leishmania braziliensis

Vieira, P.S., Giuseppe, P.O., Santos, C.R., Cunha, E.M.F., de Oliveira, A.H.C., Murakami, M.T.

(2015) BMC Struct Biol 15: 2-2

Released	2014-07-09
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Leishmania braziliensis
Macromolecule	Nucleoside diphosphate kinase b (protein)
Unique Ligands	PO4

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4L8T \| pdb_00004l8t	Download File View File

Structure of the Cargo Binding Domain from Human Myosin Vc

Nascimento, A.F.Z., Tonoli, C.C.C., Trindade, D.M., Assis, L.H.P., Mahajan, P., Berridge, G., Krojer, T., Burgess-Brown, N., von Delft, F., Murakami, M.T.

(2013) J Biological Chem 288: 34131-34145

Released	2013-10-09
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Homo sapiens
Macromolecule	Unconventional myosin-Vc (protein)

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5C7P \| pdb_00005c7p	Download File View File

Structure of Leishmania nucleoside diphostate kinase mutant P95S

Vieira, P.S., de Giuseppe, P.O., de Oliveira, A.H.C., Murakami, M.T.

(2015) J Struct Biol 192: 336-341

Released	2015-10-14
Method	X-RAY DIFFRACTION 3.144 Å
Organisms	Leishmania major
Macromolecule	Nucleoside diphosphate kinase (protein)

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5CAA \| pdb_00005caa	Download File View File

Structure of Leishmania nucleoside diphosphate kinase mutant P100S/del5-Cterm

Vieira, P.S., de Giuseppe, P.O., de Oliveira, A.H.C., Murakami, M.T.

(2015) J Struct Biol 192: 336-341

Released	2015-10-14
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Leishmania major
Macromolecule	Nucleoside diphosphate kinase (protein)

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5CAB \| pdb_00005cab	Download File View File

Structure of Leishmania nucleoside diphostate kinase mutant Del5-Cterm

Vieira, P.S., de Giuseppe, P.O., de Oliveira, A.H.C., Murakami, M.T.

(2015) J Struct Biol 192: 336-341

Released	2015-10-14
Method	X-RAY DIFFRACTION 2.953 Å
Organisms	Leishmania major
Macromolecule	Nucleoside diphosphate kinase (protein)
Unique Ligands	SO4

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5DT5 \| pdb_00005dt5	Download File View File

Crystal structure of the GH1 beta-glucosidase from Exiguobacterium antarcticum B7 in space group P21

Zanphorlin, L.M., Giuseppe, P.O., Tonoli, C.C.C., Murakami, M.T.

(2016) Sci Rep 6: 23776-23776

Released	2016-04-13
Method	X-RAY DIFFRACTION 2.24 Å
Organisms	Exiguobacterium antarcticum B7
Macromolecule	Beta-glucosidase (protein)
Unique Ligands	SO4

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5DT7 \| pdb_00005dt7	Download File View File

Crystal structure of the GH1 beta-glucosidase from Exiguobacterium antarcticum B7 in space group C2221

Zanphorlin, L.M., Giuseppe, P.O., Tonoli, C.C.C., Murakami, M.T.

(2016) Sci Rep 6: 23776-23776

Released	2016-04-13
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Exiguobacterium antarcticum B7
Macromolecule	Beta-glucosidase (protein)
Unique Ligands	CXS, GOL, SO4

1 to 25 of 31 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

3RLG | pdb_00003rlg

3RLH | pdb_00003rlh

4D8V | pdb_00004d8v

4D8X | pdb_00004d8x

4D8Y | pdb_00004d8y

4D98 | pdb_00004d98

4D9H | pdb_00004d9h

4DA0 | pdb_00004da0

4DA6 | pdb_00004da6

4DA7 | pdb_00004da7

4DA8 | pdb_00004da8

4DAB | pdb_00004dab

4DAE | pdb_00004dae

4DAN | pdb_00004dan

4DAO | pdb_00004dao

4DAR | pdb_00004dar

4J5L | pdb_00004j5l

4J5M | pdb_00004j5m

4KPC | pdb_00004kpc

4L8T | pdb_00004l8t

5C7P | pdb_00005c7p

5CAA | pdb_00005caa

5CAB | pdb_00005cab

5DT5 | pdb_00005dt5

5DT7 | pdb_00005dt7