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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Enzyme Classification Number = 3.6.5.2

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Search Summary

This query matches 2,143 Structures.

Refinements

Structure Determination Methodology

experimental (2,143)

Scientific Name of Source Organism

	Homo sapiens (470)
	synthetic construct (90)
	Mus musculus (71)
	Escherichia coli K-12 (61)
	Escherichia coli (56)
	Cryphonectria parasitica (46)
	Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (41)
	Mycobacterium tuberculosis H37Rv (28)
	Gallus gallus (27)
	Sinorhizobium meliloti SM11 (26)

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Taxonomy

	Bacteria (1,093)
	Eukaryota (953)
	other sequences (92)
	Archaea (61)
	Riboviria (39)
	unclassified sequences (23)
	Duplodnaviria (12)
	Varidnaviria (5)
	Monodnaviria (4)
	Eukaryota (eukaryotes) (3)

More...

Experimental Method

	X-RAY DIFFRACTION (2,139)
	ELECTRON MICROSCOPY (3)
	SOLUTION NMR (1)

Polymer Entity Type

	Protein (2,141)
	DNA (50)
	RNA (42)
	NA-hybrid (13)

Refinement Resolution (Å)

	0.5 - 1.0 (14)
	1.0 - 1.5 (264)
	1.5 - 2.0 (912)
	2.0 - 2.5 (669)
	2.5 - 3.0 (232)
	3.0 - 3.5 (48)
	3.5 - 4.0 (2)
	> 4.5 (1)

Release Date

	1995 - 1999 (4)
	2000 - 2004 (19)
	2005 - 2009 (165)
	2010 - 2014 (381)
	2015 - 2019 (694)
	2020 - 2024 (843)
	2025 - 2029 (37)

Enzyme Classification Name

	Hydrolases (544)
	Transferases (343)
	Oxidoreductases (238)
	Lyases (144)
	Isomerases (59)
	Ligases (34)
	Translocases (3)

Membrane Protein Annotation

	PDBTM (46)
	MemProtMD (35)
	OPM (37)
	mpstruc (31)

Symmetry Type

	Asymmetric (1,174)
	Cyclic (794)
	Dihedral (261)
	Octahedral (2)
	Tetrahedral (2)
	Helical (1)

SCOP Classification

	Alpha and beta proteins (a/b) (355)
	All beta proteins (231)
	Alpha and beta proteins (a+b) (173)
	Artifacts (180)
	All alpha proteins (105)
	Small proteins (24)
	Multi-domain proteins (alpha and beta) (29)
	Membrane and cell surface proteins and peptides (17)
	Coiled coil proteins (1)

AllSelected

1 to 25 of 2,143 Structures

Page 1 of 86

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1A9Z \| pdb_00001a9z	Download File View File

UDP-GALACTOSE 4-EPIMERASE MUTANT S124A/Y149F COMPLEXED WITH UDP-GALACTOSE

Thoden, J.B., Holden, H.M.

(1998) Biochemistry 37: 11469-11477

Released	1998-10-21
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Escherichia coli
Macromolecule	UDP-GALACTOSE 4-EPIMERASE (protein)
Unique Ligands	NA, NAD, PGE, UPG

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1KSF \| pdb_00001ksf	Download File View File

Crystal Structure of ClpA, an HSP100 chaperone and regulator of ClpAP protease: Structural basis of differences in Function of the Two AAA+ ATPase domains

Guo, F., Maurizi, M.R., Esser, L., Xia, D.

(2002) J Biological Chem 277: 46743-46752

Released	2002-09-27
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli
Macromolecule	ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPA (protein)
Unique Ligands	ADP, IPA, MET, MG, PGE

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1LRJ \| pdb_00001lrj	Download File View File

Crystal Structure of E. coli UDP-Galactose 4-Epimerase Complexed with UDP-N-Acetylglucosamine

Thoden, J.B., Henderson, J.M., Fridovich-Keil, J.L., Holden, H.M.

(2002) J Biological Chem 277: 27528-27534

Released	2002-07-26
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Escherichia coli
Macromolecule	UDP-glucose 4-epimerase (protein)
Unique Ligands	NA, NAD, PGE, UD1

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1LRK \| pdb_00001lrk	Download File View File

Crystal Structure of Escherichia coli UDP-Galactose 4-Epimerase Mutant Y299C Complexed with UDP-N-acetylglucosamine

Thoden, J.B., Henderson, J.M., Fridovich-Keil, J.L., Holden, H.M.

(2002) J Biological Chem 277: 27528-27534

Released	2002-07-26
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Escherichia coli
Macromolecule	UDP-glucose 4-epimerase (protein)
Unique Ligands	NA, NAD, PGE, UD1

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1LRL \| pdb_00001lrl	Download File View File

Crystal Structure of UDP-Galactose 4-Epimerase Mutant Y299C Complexed with UDP-Glucose

Thoden, J.B., Henderson, J.M., Fridovich-Keil, J.L., Holden, H.M.

(2002) J Biological Chem 277: 27528-27534

Released	2002-07-26
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli
Macromolecule	UDP-glucose 4-epimerase (protein)
Unique Ligands	NA, NAD, PGE, UPG

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1MZO \| pdb_00001mzo	Download File View File

Crystal structure of pyruvate formate-lyase with pyruvate

Lehtio, L., Leppanen, V.-M., Kozarich, J.W., Goldman, A.

(2002) Acta Crystallogr D Biol Crystallogr 58: 2209-2212

Released	2002-12-11
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli
Macromolecule	Pyruvate formate-lyase (protein)
Unique Ligands	PGE, PYR

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1O26 \| pdb_00001o26	Download File View File

Crystal structure of Thymidylate Synthase Complementing Protein (TM0449) from Thermotoga maritima with FAD and dUMP at 1.6 A resolution

Mathews, I.I., Deacon, A.M., Canaves, J.M., McMullan, D., Lesley, S.A., Agarwalla, S., Kuhn, P., Joint Center for Structural Genomics (JCSG)

(2003) Structure 11: 677-690

Released	2003-06-24
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Thermotoga maritima
Macromolecule	Thymidylate synthase thyX (protein)
Unique Ligands	FAD, PGE, UMP

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1O28 \| pdb_00001o28	Download File View File

Crystal structure of Thymidylate Synthase Complementing Protein (TM0449) from Thermotoga maritima with FdUMP at 2.1 A resolution

Mathews, I.I., Deacon, A.M., Canaves, J.M., McMullan, D., Lesley, S.A., Agarwalla, S., Kuhn, P., Joint Center for Structural Genomics (JCSG)

(2003) Structure 11: 677-690

Released	2003-06-24
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Thermotoga maritima
Macromolecule	Thymidylate synthase thyX (protein)
Unique Ligands	EPE, PGE, UFP

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1OZH \| pdb_00001ozh	Download File View File

The crystal structure of Klebsiella pneumoniae acetolactate synthase with enzyme-bound cofactor and with an unusual intermediate.

Pang, S.S., Duggleby, R.G., Schowen, R.L., Guddat, L.W.

(2004) J Biological Chem 279: 2242-2253

Released	2003-11-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Acetolactate synthase, catabolic (protein)
Unique Ligands	HE3, MG, PEG, PGE, PO4

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1PJQ \| pdb_00001pjq	Download File View File

Structure and function of CysG, the multifunctional methyltransferase/dehydrogenase/ferrochelatase for siroheme synthesis

Stroupe, M.E., Leech, H.K., Daniels, D.S., Warren, M.J., Getzoff, E.D.

(2003) Nat Struct Biol 10: 1064-1073

Released	2003-12-02
Method	X-RAY DIFFRACTION 2.21 Å
Organisms	Salmonella enterica subsp. enterica serovar Typhimurium
Macromolecule	Siroheme synthase (protein)
Unique Ligands	ACT, PGE, SAH

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1PJS \| pdb_00001pjs	Download File View File

The co-crystal structure of CysG, the multifunctional methyltransferase/dehydrogenase/ferrochelatase for siroheme synthesis, in complex with it NAD cofactor

Stroupe, M.E., Leech, H.K., Daniels, D.S., Warren, M.J., Getzoff, E.D.

(2003) Nat Struct Biol 10: 1064-1073

Released	2003-12-02
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Salmonella enterica subsp. enterica serovar Typhimurium
Macromolecule	Siroheme synthase (protein)
Unique Ligands	NAD, PGE, PO4, SAH

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1PJX \| pdb_00001pjx	Download File View File

0.85 ANGSTROM STRUCTURE OF SQUID GANGLION DFPASE

Koepke, J., Rueterjans, H., Luecke, C., Fritzsch, G.

(2003) Acta Crystallogr D Biol Crystallogr 59: 1744-1754

Released	2004-06-08
Method	X-RAY DIFFRACTION 0.85 Å
Organisms	Loligo vulgaris
Macromolecule	DIISOPROPYLFLUOROPHOSPHATASE (protein)
Unique Ligands	CA, DXE, EDO, GOL, ME2, MES, MXE, PEG, PGE

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1RDP \| pdb_00001rdp	Download File View File

Cholera Toxin B-Pentamer Complexed With Bivalent Nitrophenol-Galactoside Ligand BV3

Pickens, J.C., Mitchell, D.D., Liu, J., Tan, X., Zhang, Z., Verlinde, C.L., Hol, W.G., Fan, E.

(2004) Chem Biol 11: 1205-1215

Released	2004-10-26
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Vibrio cholerae
Macromolecule	cholera toxin B protein (CTB) (protein)
Unique Ligands	BV3, PGE, TRS

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1RF2 \| pdb_00001rf2	Download File View File

Cholera Toxin B-Pentamer Complexed With Bivalent Nitrophenol-Galactoside Ligand BV4

Pickens, J.C., Mitchell, D.D., Liu, J., Tan, X., Zhang, Z., Verlinde, C.L., Hol, W.G., Fan, E.

(2004) Chem Biol 11: 1205-1215

Released	2004-10-26
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Vibrio cholerae
Macromolecule	cholera toxin B protein (CTB) (protein)
Unique Ligands	BV4, PGE, TRS

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1RFX \| pdb_00001rfx	Download File View File

Crystal Structure of resisitin

Patel, S.D., Rajala, M.W., Scherer, P.E., Shapiro, L., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

(2004) Science 304: 1154-1158

Released	2004-06-08
Method	X-RAY DIFFRACTION 2.002 Å
Organisms	Mus musculus
Macromolecule	Resistin (protein)
Unique Ligands	ACT, CL, PEG, PGE

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1S31 \| pdb_00001s31	Download File View File

Crystal Structure Analysis of the human Tub protein (isoform a) spanning residues 289 through 561

Boutboul, S., Carroll, K.J., Basdevant, A., Gomez, C., Nandrot, E., Clement, K., Shapiro, L., Abitbol, M.

To be published

Released	2005-01-25
Method	X-RAY DIFFRACTION 2.704 Å
Organisms	Homo sapiens
Macromolecule	tubby isoform a (protein)
Unique Ligands	PGE

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1S70 \| pdb_00001s70	Download File View File

Complex between protein ser/thr phosphatase-1 (delta) and the myosin phosphatase targeting subunit 1 (MYPT1)

Kerff, F., Terrak, M., Dominguez, R.

(2004) Nature 429: 780-784

Released	2004-06-22
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Gallus gallus Homo sapiens
Macromolecule	130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130) (protein) Serine/threonine protein phosphatase PP1-beta (or delta) catalytic subunit (protein)
Unique Ligands	MN, PGE

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1UDA \| pdb_00001uda	Download File View File

STRUCTURE OF UDP-GALACTOSE-4-EPIMERASE COMPLEXED WITH UDP-4-DEOXY-4-FLUORO-ALPHA-D-GALACTOSE

Thoden, J.B., Holden, H.M.

(1997) Biochemistry 36: 6294-6304

Released	1998-01-14
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli
Macromolecule	UDP-GALACTOSE-4-EPIMERASE (protein)
Unique Ligands	EDO, NA, NAD, PGE, UFG

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1UDC \| pdb_00001udc	Download File View File

STRUCTURE OF UDP-GALACTOSE-4-EPIMERASE COMPLEXED WITH UDP-MANNOSE

Thoden, J.B., Holden, H.M.

(1997) Biochemistry 36: 6294-6304

Released	1998-01-14
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Escherichia coli
Macromolecule	UDP-GALACTOSE-4-EPIMERASE (protein)
Unique Ligands	EDO, NA, NAD, PGE, UFM

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1UR0 \| pdb_00001ur0	Download File View File

The structure of endo-beta-1,4-galactanase from Bacillus licheniformis in complex with two oligosaccharide products.

Ryttersgaard, C., Le Nours, J., Lo Leggio, L., Jorgensen, C.T., Christensen, L.L.H., Bjornvad, M., Larsen, S.

(2004) J Mol Biology 341: 107

Released	2004-10-20
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Bacillus licheniformis
Macromolecule	GALACTANASE (protein)
Unique Ligands	CA, PGE
Unique branched monosaccharides	GAL

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1UR4 \| pdb_00001ur4	Download File View File

The structure of endo-beta-1,4-galactanase from Bacillus licheniformis in complex with two oligosaccharide products.

Ryttersgaard, C., Le Nours, J., Lo Leggio, L., Jorgensen, C.T., Christensen, L.L.H., Bjornvad, M., Larsen, S.

(2004) J Mol Biology 341: 107

Released	2004-10-20
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Bacillus licheniformis
Macromolecule	GALACTANASE (protein)
Unique Ligands	CA, PEG, PGE
Unique branched monosaccharides	GAL

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1W23 \| pdb_00001w23	Download File View File

Crystal structure of phosphoserine aminotransferase from Bacillus alcalophilus

Dubnovitsky, A., Kapetaniou, E.G., Papageorgiou, A.C.

(2005) Protein Sci 14: 97

Released	2004-12-22
Method	X-RAY DIFFRACTION 1.08 Å
Organisms	Alkalihalobacillus alcalophilus
Macromolecule	PHOSPHOSERINE AMINOTRANSFERASE (protein)
Unique Ligands	CL, EPE, GOL, MG, PEG, PGE, PLP

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1XQI \| pdb_00001xqi	Download File View File

Crystal Structure Analysis of an NDP kinase from Pyrobaculum aerophilum

Pedelacq, J.D., Waldo, G.S., Cabantous, S., Liong, E.C., Berendzen, J., Terwilliger, T.C.

(2005) Protein Sci 14: 2562-2573

Released	2005-09-20
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Pyrobaculum aerophilum
Macromolecule	Nucleoside diphosphate kinase (protein)
Unique Ligands	PGE, TRS

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1XVI \| pdb_00001xvi	Download File View File

Crystal Structure of YedP, phosphatase-like domain protein from Escherichia coli K12

Kim, Y., Joachimiak, A., Cymborowski, M., Skarina, T., Savchenko, A., Edwards, A., Midwest Center for Structural Genomics (MCSG)

To be published

Released	2004-12-14
Method	X-RAY DIFFRACTION 2.26 Å
Organisms	Escherichia coli K-12
Macromolecule	Putative mannosyl-3-phosphoglycerate phosphatase (protein)
Unique Ligands	1PE, PG4, PGE, SO4

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1Y38 \| pdb_00001y38	Download File View File

Crystal structure of the complex formed between phospholipase A2 dimer and glycerophosphate at 2.4 A resolution

Singh, N., Jabeen, T., Sharma, S., Singh, T.P.

To be published

Released	2005-05-03
Method	X-RAY DIFFRACTION 2.44 Å
Organisms	Daboia russelii pulchella
Macromolecule	Phospholipase A2 VRV-PL-VIIIa (protein)
Unique Ligands	G3P, NA, PGE, SO4

1 to 25 of 2,143 Structures

Page 1 of 86

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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

1A9Z | pdb_00001a9z

1KSF | pdb_00001ksf

1LRJ | pdb_00001lrj

1LRK | pdb_00001lrk

1LRL | pdb_00001lrl

1MZO | pdb_00001mzo

1O26 | pdb_00001o26

1O28 | pdb_00001o28

1OZH | pdb_00001ozh

1PJQ | pdb_00001pjq

1PJS | pdb_00001pjs

1PJX | pdb_00001pjx

1RDP | pdb_00001rdp

1RF2 | pdb_00001rf2

1RFX | pdb_00001rfx

1S31 | pdb_00001s31

1S70 | pdb_00001s70

1UDA | pdb_00001uda

1UDC | pdb_00001udc

1UR0 | pdb_00001ur0

1UR4 | pdb_00001ur4

1W23 | pdb_00001w23

1XQI | pdb_00001xqi

1XVI | pdb_00001xvi

1Y38 | pdb_00001y38