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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Godage, H.Y."

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Search Summary

This query matches 10 Structures.

Refinements

Structure Determination Methodology

experimental (10)

Scientific Name of Source Organism

	Arabidopsis thaliana (5)
	Homo sapiens (5)
	synthetic construct (1)

Taxonomy

	Eukaryota (10)
	other sequences (1)

Experimental Method

X-RAY DIFFRACTION (10)

Polymer Entity Type

Protein (10)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (2)
	2.0 - 2.5 (4)
	2.5 - 3.0 (1)
	3.0 - 3.5 (2)

Release Date

	2010 - 2014 (3)
	2015 - 2019 (6)
	2020 - 2024 (1)

Enzyme Classification Name

	Transferases (9)
	Hydrolases (1)

Symmetry Type

	Asymmetric (9)
	Cyclic (1)

AllSelected

1 to 10 of 10 Structures

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Explore in 3D

4NZM \| pdb_00004nzm	Download File View File

Crystal structure of the catalytic domain of PPIP5K2 in complex with AMPPNP and 5-PA-InsP5

Wang, H., Shears, S.B.

(2014) Chem Biol 21: 689-699

Released	2014-04-02
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 (protein)
Unique Ligands	0EJ, ANP, MG

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4NZN \| pdb_00004nzn	Download File View File

Crystal structure of the catalytic domain of PPIP5K2 in complex with AMPPNP and 2-O-BN-5-PA-INSP4

Wang, H., Shears, S.B.

(2014) Chem Biol 21: 689-699

Released	2014-04-02
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Homo sapiens
Macromolecule	Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 (protein)
Unique Ligands	2OU, ANP, MG

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4NZO \| pdb_00004nzo	Download File View File

Crystal structure of the catalytic domain of PPIP5K2 in complex with AMPPNP and 2,5-DI-O-BN-INSP4

Wang, H., Shears, S.B.

(2014) Chem Biol 21: 689-699

Released	2014-04-02
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 (protein)
Unique Ligands	2OV, ANP, MG

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5ICN \| pdb_00005icn	Download File View File

HDAC1:MTA1 in complex with inositol-6-phosphate and a novel peptide inhibitor based on histone H4

Millard, C.J., Robertson, N.S., Watson, P.J., Jameson, A.G., Schwabe, J.W.R.

(2016) Nat Commun 7: 11262-11262

Released	2016-05-11
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	GLY-ALA-6A0-ARG-HIS (protein) Histone deacetylase 1 (protein) Metastasis-associated protein MTA1 (protein)
Unique Ligands	IHP, K, ZN

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6FJK \| pdb_00006fjk	Download File View File

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with myo-IP6 and ADP

Whitfield, H.L., Brearley, C.A., Hemmings, A.M.

(2018) J Med Chem 61: 8838-8846

Released	2018-09-12
Method	X-RAY DIFFRACTION 2.025 Å
Organisms	Arabidopsis thaliana
Macromolecule	Inositol-pentakisphosphate 2-kinase (protein)
Unique Ligands	ADP, IHP, MG, TRS, ZN

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6FL3 \| pdb_00006fl3	Download File View File

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with myo-IP5 and ADP

Whitfield, H.L., Brearley, C.A., Hemmings, A.M.

(2018) J Med Chem 61: 8838-8846

Released	2018-09-12
Method	X-RAY DIFFRACTION 2.36 Å
Organisms	Arabidopsis thaliana
Macromolecule	Inositol-pentakisphosphate 2-kinase (protein)
Unique Ligands	5MY, ADP, B3P, MG, ZN

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6FL8 \| pdb_00006fl8	Download File View File

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with purpurogallin and ADP

Whitfield, H.L., Brearley, C.A., Hemmings, A.M.

(2018) J Med Chem 61: 8838-8846

Released	2018-09-12
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Arabidopsis thaliana
Macromolecule	Inositol-pentakisphosphate 2-kinase (protein)
Unique Ligands	ADP, EDO, MG, TIY, TRS, ZN

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6GFG \| pdb_00006gfg	Download File View File

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with D-chiro-IP6 and ADP

Whitfield, H.L., Brearley, C.A., Hemmings, A.M.

(2018) J Med Chem 61: 8838-8846

Released	2018-09-12
Method	X-RAY DIFFRACTION 3 Å
Organisms	Arabidopsis thaliana
Macromolecule	Inositol-pentakisphosphate 2-kinase (protein)
Unique Ligands	ADP, KGN, MG, ZN

Explore in 3D

6GFH \| pdb_00006gfh	Download File View File

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with neo-IP5 and ATP

Whitfield, H.L., Brearley, C.A., Hemmings, A.M.

(2018) J Med Chem 61: 8838-8846

Released	2018-09-12
Method	X-RAY DIFFRACTION 2.65 Å
Organisms	Arabidopsis thaliana
Macromolecule	Inositol-pentakisphosphate 2-kinase (protein)
Unique Ligands	ATP, B3P, EDO, K7V, MG, ZN

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8DQT \| pdb_00008dqt	Download File View File

Human PDK1 kinase domain in complex with Valsartan

Gross, L.Z.F., Klinke, S., Biondi, R.M.

(2023) Sci Signal 16: eadd3184-eadd3184

Released	2023-06-21
Method	X-RAY DIFFRACTION 1.31 Å
Organisms	Homo sapiens
Macromolecule	3-phosphoinositide-dependent protein kinase 1 (protein)
Unique Ligands	GOL, U35

1 to 10 of 10 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.

4NZM | pdb_00004nzm

Crystal structure of the catalytic domain of PPIP5K2 in complex with AMPPNP and 5-PA-InsP5

4NZN | pdb_00004nzn

Crystal structure of the catalytic domain of PPIP5K2 in complex with AMPPNP and 2-O-BN-5-PA-INSP4

4NZO | pdb_00004nzo

Crystal structure of the catalytic domain of PPIP5K2 in complex with AMPPNP and 2,5-DI-O-BN-INSP4

5ICN | pdb_00005icn

HDAC1:MTA1 in complex with inositol-6-phosphate and a novel peptide inhibitor based on histone H4

6FJK | pdb_00006fjk

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with myo-IP6 and ADP

6FL3 | pdb_00006fl3

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with myo-IP5 and ADP

6FL8 | pdb_00006fl8

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with purpurogallin and ADP

6GFG | pdb_00006gfg

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with D-chiro-IP6 and ADP

6GFH | pdb_00006gfh

Inositol 1,3,4,5,6-pentakisphosphate 2-kinase from A. thaliana in complex with neo-IP5 and ATP

8DQT | pdb_00008dqt

Human PDK1 kinase domain in complex with Valsartan

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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

4NZM | pdb_00004nzm

4NZN | pdb_00004nzn

4NZO | pdb_00004nzo

5ICN | pdb_00005icn

6FJK | pdb_00006fjk

6FL3 | pdb_00006fl3

6FL8 | pdb_00006fl8

6GFG | pdb_00006gfg

6GFH | pdb_00006gfh

8DQT | pdb_00008dqt