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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Harmer, N.J."

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Search Summary

This query matches 37 Structures.

Refinements

Structure Determination Methodology

experimental (37)

Scientific Name of Source Organism

	Burkholderia pseudomallei K96243 (11)
	Bordetella bronchiseptica (8)
	Plesiomonas shigelloides 302-73 (6)
	Saccharomyces cerevisiae S288C (6)
	Clostridioides difficile 630 (3)
	Burkholderia pseudomallei (2)
	Coxiella burnetii RSA 493 (2)
	Streptomyces griseus (2)
	Xenopus tropicalis (2)
	Homo sapiens (1)

Taxonomy

	Bacteria (34)
	Eukaryota (9)

Experimental Method

X-RAY DIFFRACTION (37)

Polymer Entity Type

Protein (37)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (6)
	1.5 - 2.0 (22)
	2.0 - 2.5 (7)
	2.5 - 3.0 (1)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (10)
	2010 - 2014 (5)
	2015 - 2019 (11)
	2020 - 2024 (10)

Enzyme Classification Name

	Isomerases (11)
	Transferases (10)

Membrane Protein Annotation

OPM (1)

Symmetry Type

	Cyclic (23)
	Asymmetric (8)
	Dihedral (6)

SCOP Classification

	Alpha and beta proteins (a/b) (14)
	Artifacts (7)
	All beta proteins (3)
	Alpha and beta proteins (a+b) (1)

AllSelected

1 to 25 of 37 Structures

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1PWA \| pdb_00001pwa	Download File View File

Crystal structure of Fibroblast Growth Factor 19

Harmer, N.J., Pellegrini, L., Chirgadze, D., Fernandez-Recio, J., Blundell, T.L.

(2004) Biochemistry 43: 629-640

Released	2004-01-27
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Homo sapiens
Macromolecule	Fibroblast growth factor-19 (protein)
Unique Ligands	GOL, SO4, TRS

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1TJ6 \| pdb_00001tj6	Download File View File

Crystal structure of the Xenopus tropicalis Spred1 EVH-1 domain

Harmer, N.J., Sivak, J., Amaya, E., Blundell, T.L.

To be published

Released	2005-08-16
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Xenopus tropicalis
Macromolecule	Spred1 (protein)

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1XOD \| pdb_00001xod	Download File View File

Crystal structure of X. tropicalis Spred1 EVH-1 domain

Harmer, N.J., Sivak, J.M., Amaya, E., Blundell, T.L.

(2005) FEBS Lett 579: 1161-1166

Released	2005-01-25
Method	X-RAY DIFFRACTION 1.15 Å
Organisms	Xenopus tropicalis
Macromolecule	Spred1 (protein)
Unique Ligands	GOL

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2PZJ \| pdb_00002pzj	Download File View File

Crystal structure of the Bordetella bronchiseptica enzyme WbmF in complex with NAD+

Harmer, N.J., King, J.D., Palmer, C.M., Maskell, D., Blundell, T.L.

(2007) J Mol Biology 374: 749-763

Released	2007-10-02
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Bordetella bronchiseptica
Macromolecule	Putative nucleotide sugar epimerase/ dehydratase (protein)
Unique Ligands	NAD

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2PZK \| pdb_00002pzk	Download File View File

Crystal structure of the Bordetella bronchiseptica enzyme WbmG in complex with NAD

King, J.D., Harmer, N.J., Maskell, D.J., Blundell, T.L.

(2007) J Mol Biology 374: 749-763

Released	2007-10-02
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Bordetella bronchiseptica
Macromolecule	Putative nucleotide sugar epimerase/ dehydratase (protein)
Unique Ligands	MG, NAD

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2PZL \| pdb_00002pzl	Download File View File

Crystal structure of the Bordetella bronchiseptica enzyme WbmG in complex with NAD and UDP

King, J.D., Harmer, N.J., Maskell, D.J., Blundell, T.L.

(2007) J Mol Biology 374: 749-763

Released	2007-10-02
Method	X-RAY DIFFRACTION 2.39 Å
Organisms	Bordetella bronchiseptica
Macromolecule	Putative nucleotide sugar epimerase/ dehydratase (protein)
Unique Ligands	NAD, UDP

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2PZM \| pdb_00002pzm	Download File View File

Crystal structure of the Bordetella bronchiseptica enzyme WbmG in complex with NAD and UDP

Harmer, N.J., King, J.D., Palmer, C.M., Maskell, D., Blundell, T.L.

(2007) J Mol Biology 374: 749-763

Released	2007-10-02
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bordetella bronchiseptica
Macromolecule	Putative nucleotide sugar epimerase/ dehydratase (protein)
Unique Ligands	NAD, SO4, UDP

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2Q1S \| pdb_00002q1s	Download File View File

Crystal structure of the Bordetella bronchiseptica enzyme WbmF in complex with NADH

Harmer, N.J., King, J.D., Palmer, C.M., Maskell, D., Blundell, T.L.

(2007) J Mol Biology 374: 749-763

Released	2007-10-02
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Bordetella bronchiseptica
Macromolecule	Putative nucleotide sugar epimerase/ dehydratase (protein)
Unique Ligands	NAI

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2Q1T \| pdb_00002q1t	Download File View File

Crystal structure of the Bordetella bronchiseptica enzyme WbmF in complex with NAD+ and UDP

Harmer, N.J., King, J.D., Palmer, C.M., Maskell, D., Blundell, T.L.

(2007) J Mol Biology 374: 749-763

Released	2007-10-02
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Bordetella bronchiseptica
Macromolecule	Putative nucleotide sugar epimerase/ dehydratase (protein)
Unique Ligands	NAD, UDP

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2Q1U \| pdb_00002q1u	Download File View File

Crystal structure of the Bordetella bronchiseptica enzyme WbmF in complex with NAD+ and UDP

Harmer, N.J., King, J.D., Palmer, C.M., Maskell, D., Blundell, T.L.

(2007) J Mol Biology 374: 749-763

Released	2007-10-02
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Bordetella bronchiseptica
Macromolecule	Putative nucleotide sugar epimerase/ dehydratase (protein)
Unique Ligands	GOL, NAD, UDP

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2Q1W \| pdb_00002q1w	Download File View File

Crystal structure of the Bordetella bronchiseptica enzyme WbmH in complex with NAD+

King, J.D., Harmer, N.J., Maskell, D.J., Blundell, T.L.

(2007) J Mol Biology 374: 749-763

Released	2007-10-02
Method	X-RAY DIFFRACTION 2.19 Å
Organisms	Bordetella bronchiseptica
Macromolecule	Putative nucleotide sugar epimerase/ dehydratase (protein)
Unique Ligands	NAD

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2X3Y \| pdb_00002x3y	Download File View File

Crystal structure of GmhA from Burkholderia pseudomallei

Harmer, N.J.

(2010) J Mol Biology 400: 379

Released	2010-05-19
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	PHOSPHOHEPTOSE ISOMERASE (protein)
Unique Ligands	ZN

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2XBL \| pdb_00002xbl	Download File View File

Crystal structure of GmhA from Burkholderia pseudomallei in complex with product

Harmer, N.J.

(2010) J Mol Biology 400: 379

Released	2010-05-19
Method	X-RAY DIFFRACTION 1.62 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	PHOSPHOHEPTOSE ISOMERASE (protein)
Unique Ligands	M7P, PEG, PG4, PGE, ZN

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2Y78 \| pdb_00002y78	Download File View File

Crystal structure of BPSS1823, a Mip-like chaperone from Burkholderia pseudomallei

Norville, I.H., O'Shea, K., Sarkar-Tyson, M., Harmer, N.J.

(2011) Biochem J 437: 413

Released	2011-05-25
Method	X-RAY DIFFRACTION 0.91 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	PEPTIDYL-PROLYL CIS-TRANS ISOMERASE (protein)
Unique Ligands	CL, GOL, SO4

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4BQN \| pdb_00004bqn	Download File View File

Structural insights into WcbI, a novel polysaccharide biosynthesis enzyme. Native protein.

Vivoli, M., Ayres, E., Isupov, M.N., Harmer, N.J.

(2014) IUCrJ 1: 28

Released	2013-11-06
Method	X-RAY DIFFRACTION 1.38 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	CAPSULAR POLYSACCHARIDE BIOSYNTHESIS PROTEIN (protein)
Unique Ligands	CL, COA, PEG, PGE

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4BQO \| pdb_00004bqo	Download File View File

Structural insights into WcbI, a novel polysaccharide biosynthesis enzyme. Native protein without disulfide bond between COA and Cys14.

Vivoli, M., Ayres, E., Isupov, M.N., Harmer, N.J.

(2014) IUCrJ 1: 28

Released	2013-11-06
Method	X-RAY DIFFRACTION 1.56 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	PUTATIVE CAPSULAR POLYSACCHARIDE BIOSYNTHESIS PROTEIN (protein)
Unique Ligands	BR, COA, PEG, PGE

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4USK \| pdb_00004usk	Download File View File

Unravelling the B. pseudomallei heptokinase WcbL: from Structure to Drug Discovery.

Vivoli, M., Isupov, M.N., Nicholas, R., Hill, A., Scott, A., Kosma, P., Prior, J., Harmer, N.J.

(2015) Chem Biol 22: 1622

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.76 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	PUTATIVE SUGAR KINASE (protein)
Unique Ligands	CL, DMS, PGO

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4USM \| pdb_00004usm	Download File View File

WcbL complex with glycerol bound to sugar site

Vivoli, M., Isupov, M.N., Nicholas, R., Hill, A., Scott, A., Kosma, P., Prior, J., Harmer, N.J.

(2015) Chem Biol 22: 1622

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.82 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	PUTATIVE SUGAR KINASE (protein)
Unique Ligands	CL, GOL

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4UT4 \| pdb_00004ut4	Download File View File

Burkholderia pseudomallei heptokinase WcbL, D-mannose complex.

Vivoli, M., Isupov, M.N., Nicholas, R., Hill, A., Scott, A., Kosma, P., Prior, J., Harmer, N.J.

(2015) Chem Biol 22: 1622

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.94 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	PUTATIVE SUGAR KINASE (protein)
Unique Ligands	CL, MAN

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4UTG \| pdb_00004utg	Download File View File

Burkholderia pseudomallei heptokinase WcbL,AMPPNP (ATP analogue) complex.

Vivoli, M., Isupov, M.N., Nicholas, R., Hill, A., Scott, A., Kosma, P., Prior, J., Harmer, N.J.

(2015) Chem Biol 22: 1622

Released	2016-01-13
Method	X-RAY DIFFRACTION 1.93 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	SUGAR KINASE (protein)
Unique Ligands	ANP, CL, EDO, MG

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5LTZ \| pdb_00005ltz	Download File View File

GmhA_mutant Q175E

Vivoli, M., Harmer, N.J.

(2017) Sci Rep 7: 16529-16529

Released	2017-12-06
Method	X-RAY DIFFRACTION 1.67 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	Phosphoheptose isomerase (protein)
Unique Ligands	EDO, GOL, I22, NA, PEG, PG4, PGE, ZN

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5LU5 \| pdb_00005lu5	Download File View File

A quantum half-site enzyme

Vivoli, M., Harmer, N.J., Pang, J.

(2017) Sci Rep 7: 16529-16529

Released	2017-12-06
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Burkholderia pseudomallei
Macromolecule	Phosphoheptose isomerase (protein)
Unique Ligands	ACT, GOL, M7P, MG, NA, PEG, PG4, PGE

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5LU6 \| pdb_00005lu6	Download File View File

Heptose isomerase mutant - H64Q

Vivoli, M., Harmer, N.J., Pang, J.

(2017) Sci Rep 7: 16529-16529

Released	2017-12-06
Method	X-RAY DIFFRACTION 1.67 Å
Organisms	Burkholderia pseudomallei
Macromolecule	Phosphoheptose isomerase (protein)
Unique Ligands	EDO, GOL, I22, PGE

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5LU7 \| pdb_00005lu7	Download File View File

Heptose isomerase GmhA mutant - D61A

Vivoli, M., Harmer, N.J., Pang, J.

(2017) Sci Rep 7: 16529-16529

Released	2017-12-06
Method	X-RAY DIFFRACTION 1.92 Å
Organisms	Burkholderia pseudomallei K96243
Macromolecule	Phosphoheptose isomerase (protein)
Unique Ligands	EDO, M7P, PG4, ZN

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6HNI \| pdb_00006hni	Download File View File

The ligand-bound, closed structure of CD0873, a substrate binding protein with adhesive properties from Clostridium difficile.

Bradshaw, W.J., Kovacs-Simon, A., Harmer, N.J., Michell, S.L., Acharya, K.R.

(2019) J Biological Chem 294: 15850-15861

Released	2019-08-28
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Clostridioides difficile 630
Macromolecule	ABC-type transport system, sugar-family extracellular solute-binding protein (protein)
Unique Ligands	EDO, PEG, TYR

1 to 25 of 37 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

1PWA | pdb_00001pwa

1TJ6 | pdb_00001tj6

1XOD | pdb_00001xod

2PZJ | pdb_00002pzj

2PZK | pdb_00002pzk

2PZL | pdb_00002pzl

2PZM | pdb_00002pzm

2Q1S | pdb_00002q1s

2Q1T | pdb_00002q1t

2Q1U | pdb_00002q1u

2Q1W | pdb_00002q1w

2X3Y | pdb_00002x3y

2XBL | pdb_00002xbl

2Y78 | pdb_00002y78

4BQN | pdb_00004bqn

4BQO | pdb_00004bqo

4USK | pdb_00004usk

4USM | pdb_00004usm

4UT4 | pdb_00004ut4

4UTG | pdb_00004utg

5LTZ | pdb_00005ltz

5LU5 | pdb_00005lu5

5LU6 | pdb_00005lu6

5LU7 | pdb_00005lu7

6HNI | pdb_00006hni