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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "ANTIMICROBIAL PROTEIN"

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Search Summary

This query matches 25 Structures.

Refinements

Structure Determination Methodology

experimental (25)

Scientific Name of Source Organism

Homo sapiens (25)

Taxonomy

Eukaryota (25)

Experimental Method

X-RAY DIFFRACTION (25)

Polymer Entity Type

Protein (25)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (18)
	2.0 - 2.5 (5)
	2.5 - 3.0 (1)

Release Date

	2015 - 2019 (9)
	2020 - 2024 (16)

Enzyme Classification Name

Hydrolases (25)

Symmetry Type

Asymmetric (25)

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1 to 25 of 25 Structures

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5E8M \| pdb_00005e8m	Download File View File

Crystal structure of human heparanase

Wu, L., Davies, G.J.

(2015) Nat Struct Mol Biol 22: 1016-1022

Released	2015-11-18
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	CL, EDO, NAG
Unique branched monosaccharides	FUC, NAG

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5E97 \| pdb_00005e97	Download File View File

Glycoside Hydrolase ligand structure 1

Wu, L., Davies, G.J.

(2015) Nat Struct Mol Biol 22: 1016-1022

Released	2015-11-18
Method	X-RAY DIFFRACTION 1.63 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	CL, NAG, NPO
Unique branched monosaccharides	BDP, NDG

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5E98 \| pdb_00005e98	Download File View File

Crystal structure of human heparanase in complex with HepMer M04S02a

Wu, L., Davies, G.J.

(2015) Nat Struct Mol Biol 22: 1016-1022

Released	2015-11-18
Method	X-RAY DIFFRACTION 1.63 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	CL, IMD, NAG, NPO
Unique branched monosaccharides	BDP, GNS

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5E9B \| pdb_00005e9b	Download File View File

Crystal structure of human heparanase in complex with HepMer M09S05a

Wu, L., Davies, G.J.

(2015) Nat Struct Mol Biol 22: 1016-1022

Released	2015-11-18
Method	X-RAY DIFFRACTION 1.88 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	CL, NAG
Unique branched monosaccharides	BDP, GNS, SGN

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5E9C \| pdb_00005e9c	Download File View File

Crystal structure of human heparanase in complex with heparin tetrasaccharide dp4

Wu, L., Davies, G.J.

(2015) Nat Struct Mol Biol 22: 1016-1022

Released	2015-11-18
Method	X-RAY DIFFRACTION 1.73 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	CL, NAG, SO4
Unique branched monosaccharides	5KV, IDR, SGN, UAP

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5L9Y \| pdb_00005l9y	Download File View File

Crystal structure of human heparanase, in complex with glucuronic acid configured aziridine probe JJB355

Wu, L., Jin, Y., Davies, G.J.

(2017) Nat Chem Biol 13: 867-873

Released	2017-05-31
Method	X-RAY DIFFRACTION 1.88 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	6S6, EDO, NAG
Unique branched monosaccharides	FUC, NAG

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5L9Z \| pdb_00005l9z	Download File View File

Crystal structure of human heparanase nucleophile mutant (E343Q), in complex with unreacted glucuronic acid configured aziridine probe JJB355

Wu, L., Jin, Y., Davies, G.J.

(2017) Nat Chem Biol 13: 867-873

Released	2017-05-31
Method	X-RAY DIFFRACTION 1.57 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	CL, EDO, GUX, NAG

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5LA4 \| pdb_00005la4	Download File View File

Crystal structure of apo human proheparanase

Wu, L., Jin, Y., Davies, G.J.

(2017) Nat Chem Biol 13: 867-873

Released	2017-05-31
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	EDO, NAG
Unique branched monosaccharides	BMA, FUC, NAG

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5LA7 \| pdb_00005la7	Download File View File

Crystal structure of human proheparanase, in complex with glucuronic acid configured aziridine probe JJB355

Wu, L., Jin, Y., Davies, G.J.

(2017) Nat Chem Biol 13: 867-873

Released	2017-05-31
Method	X-RAY DIFFRACTION 1.94 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	6S6, EDO, NAG
Unique branched monosaccharides	FUC, NAG

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6ZDM \| pdb_00006zdm	Download File View File

Crystal structure of human heparanase in complex with a N',6O'-bis-sulfated 4-methylumbelliferyl heparan sulfate disaccharide

Wu, L., Davies, G.J.

(2020) Chem Commun (Camb) 56: 13780-13783

Released	2020-10-21
Method	X-RAY DIFFRACTION 1.714 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein)
Unique Ligands	EDO, NAG, QG2, SO4

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7PR7 \| pdb_00007pr7	Download File View File

Crystal structure of human heparanase in complex with covalent inhibitor VL166

Wu, L., Armstrong, Z., Davies, G.J.

(2022) Proc Natl Acad Sci U S A 119: e2203167119-e2203167119

Released	2022-08-03
Method	X-RAY DIFFRACTION 1.52 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	CL, EDO, NAG
Unique branched monosaccharides	8I4, FUC, NAG, NDG

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7PR8 \| pdb_00007pr8	Download File View File

Crystal structure of human heparanase in complex with covalent inhibitor GR109

Wu, L., Armstrong, Z., Davies, G.J.

(2022) Proc Natl Acad Sci U S A 119: e2203167119-e2203167119

Released	2022-08-03
Method	X-RAY DIFFRACTION 1.66 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	CL, EDO, NAG
Unique branched monosaccharides	8I4, FUC, NAG, NGY

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7PRT \| pdb_00007prt	Download File View File

Crystal structure of human heparanase in complex with covalent inhibitor CB678

Wu, L., Armstrong, Z., Davies, G.J.

(2022) Proc Natl Acad Sci U S A 119: e2203167119-e2203167119

Released	2022-08-03
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	CL, EDO, NAG
Unique branched monosaccharides	8I4, FUC, NAG, Z61

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7RG8 \| pdb_00007rg8	Download File View File

Crystal Structure of a Stable Heparanase Mutant

Whitefield, C., Hong, N.S., Jackson, C.J.

(2022) RSC Chem Biol 3: 341-349

Released	2022-03-02
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	ACT, NA

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7YI7 \| pdb_00007yi7	Download File View File

Crystal structure of Human HPSE1 in complex with inhibitor

Mima, M., Fujimoto, N., Imai, Y.

(2022) Bioorg Med Chem Lett 79: 129050-129050

Released	2022-12-07
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	IUV

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7YJC \| pdb_00007yjc	Download File View File

Crystal structure of Human HPSE1 in complex with inhibitor

Mima, M., Fujimoto, N., Imai, Y.

(2022) Bioorg Med Chem Lett 79: 129050-129050

Released	2022-12-07
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	IVO

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8B0B \| pdb_00008b0b	Download File View File

Crystal structure of human heparanase in complex with covalent inhibitor VB151

Armstrong, Z., Davies, G.J.

(2023) ChemMedChem 18: e202200580-e202200580

Released	2022-12-28
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	EDO, NAG, OUU

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8B0C \| pdb_00008b0c	Download File View File

Crystal structure of human heparanase in complex with covalent inhibitor VB158

Armstrong, Z., Davies, G.

(2023) ChemMedChem 18: e202200580-e202200580

Released	2022-12-28
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	NAG, OV3

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8BAC \| pdb_00008bac	Download File View File

Crystal structure of human heparanase in complex with competitive inhibitor GD05

Armstrong, Z., Davies, G.J.

(2023) Chembiochem 24: e202200619-e202200619

Released	2023-03-01
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	EDO, NAG, SJ5

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8CQI \| pdb_00008cqi	Download File View File

Human heparanase in complex with inhibitor R3794

Moran, E.M., Davies, G.J., Chen, C., Nieuwendijk, E.V., Wu, L., Skoulikopoulou, F., Riet, V.V., Overkleeft, H.S., Armstrong, Z.

(2024) J Am Chem Soc 146: 125-133

Released	2024-01-10
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein) Heparanase 50 kDa subunit (protein)
Unique Ligands	CL, EDO, LYY, NAG, VGO

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8E07 \| pdb_00008e07	Download File View File

Crystal structure of HPSE P6 in complex with triose pentosan inhibitor

Whitefield, C., Jackson, C.J.

(2023) Biochemistry 62: 2202-2215

Released	2023-07-12
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	ACT, NH4, SO4
Unique branched monosaccharides	XY6, XY9

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8E08 \| pdb_00008e08	Download File View File

Crystal structure of HPSE P6 in complex with tetraose pentosan inhibitor

Whitefield, C., Jackson, C.J.

(2023) Biochemistry 62: 2202-2215

Released	2023-07-12
Method	X-RAY DIFFRACTION 1.93 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	ACT, SO4
Unique branched monosaccharides	XY6, XY9

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8JYG \| pdb_00008jyg	Download File View File

Crystal structure of Human HPSE1 in complex with inhibitor

Mima, M., Fujimoto, N., Imai, Y.

(2023) Bioorg Med Chem 93: 117460-117460

Released	2023-09-20
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	Heparanase (protein) Heparanase 50 kDa subunit (protein)
Unique Ligands	EDO, NAG, V8R

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8OHQ \| pdb_00008ohq	Download File View File

Crystal structure of human heparanase in complex with competitive inhibitor derrived from siastatin B

Wu, L., Davies, G.J., Overkleeft, H.S., Armstrong, Z., Yurong, C.

(2024) J Am Chem Soc 146: 125-133

Released	2024-01-10
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	CL, EDO, NAG, VGO
Unique branched monosaccharides	FUC, NAG

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8OHR \| pdb_00008ohr	Download File View File

Crystal structure of human heparanase in complex with glucuronic acid configured 3-geminal diol iminosugar inhibitor

Armstrong, Z., Yurong, C., Wu, L., Overkleeft, H.S., Davies, G.J.

(2024) J Am Chem Soc 146: 125-133

Released	2024-01-10
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	Heparanase 50 kDa subunit (protein) Heparanase 8 kDa subunit (protein)
Unique Ligands	CL, EDO, NAG, VP5

1 to 25 of 25 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

Symmetry Type

5E8M | pdb_00005e8m

5E97 | pdb_00005e97

5E98 | pdb_00005e98

5E9B | pdb_00005e9b

5E9C | pdb_00005e9c

5L9Y | pdb_00005l9y

5L9Z | pdb_00005l9z

5LA4 | pdb_00005la4

5LA7 | pdb_00005la7

6ZDM | pdb_00006zdm

7PR7 | pdb_00007pr7

7PR8 | pdb_00007pr8

7PRT | pdb_00007prt

7RG8 | pdb_00007rg8

7YI7 | pdb_00007yi7

7YJC | pdb_00007yjc

8B0B | pdb_00008b0b

8B0C | pdb_00008b0c

8BAC | pdb_00008bac

8CQI | pdb_00008cqi

8E07 | pdb_00008e07

8E08 | pdb_00008e08

8JYG | pdb_00008jyg

8OHQ | pdb_00008ohq

8OHR | pdb_00008ohr