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235,183 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Choi, Y."

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Search Summary

This query matches 41 Structures.

Refinements

Structure Determination Methodology

experimental (41)

Scientific Name of Source Organism

	Homo sapiens (17)
	Campylobacter jejuni (8)
	Rattus norvegicus (4)
	Escherichia coli (3)
	Escherichia coli K-12 (3)
	Cryptococcus neoformans var. grubii H99 (2)
	Staphylococcus aureus (2)
	Cyclostomata (1)
	Haemophilus haemolyticus (1)
	Mus musculus (1)

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Taxonomy

	Eukaryota (24)
	Bacteria (16)
	Eukaryota (eukaryotes) (1)
	Riboviria (1)

Experimental Method

X-RAY DIFFRACTION (41)

Polymer Entity Type

	Protein (41)
	DNA (4)

Refinement Resolution (Å)

	1.5 - 2.0 (7)
	2.0 - 2.5 (14)
	2.5 - 3.0 (9)
	3.0 - 3.5 (8)
	3.5 - 4.0 (1)
	4.0 - 4.5 (2)

Release Date

	2000 - 2004 (4)
	2005 - 2009 (3)
	2010 - 2014 (3)
	2015 - 2019 (6)
	2020 - 2024 (25)

Enzyme Classification Name

	Transferases (10)
	Hydrolases (5)
	Oxidoreductases (3)
	Lyases (1)

Membrane Protein Annotation

OPM (1)

Symmetry Type

	Asymmetric (26)
	Cyclic (13)
	Dihedral (3)

SCOP Classification

	Alpha and beta proteins (a/b) (4)
	Artifacts (3)
	All beta proteins (4)
	Alpha and beta proteins (a+b) (3)
	All alpha proteins (1)

AllSelected

1 to 25 of 41 Structures

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1LB4 \| pdb_00001lb4	Download File View File

TRAF6 apo structure

Ye, H., Arron, J.R., Lamothe, B., Cirilli, M., Kobayashi, T., Shevde, N.K., Segal, D., Dzivenu, O., Vologodskaia, M., Yim, M., Du, K., Singh, S., Pike, J.W., Darnay, B.G., Choi, Y., Wu, H.

(2002) Nature 418: 443-447

Released	2002-07-31
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein)

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1LB5 \| pdb_00001lb5	Download File View File

TRAF6-RANK Complex

Ye, H., Arron, J.R., Lamothe, B., Cirilli, M., Kobayashi, T., Shevde, N.K., Segal, D., Dzivenu, O., Vologodskaia, M., Yim, M., Du, K., Singh, S., Pike, J.W., Darnay, B.G., Choi, Y., Wu, H.

(2002) Nature 418: 443-447

Released	2002-07-31
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein) receptor activator of nuclear factor-kappa B (protein)

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1LB6 \| pdb_00001lb6	Download File View File

TRAF6-CD40 Complex

Ye, H., Arron, J.R., Lamothe, B., Cirilli, M., Kobayashi, T., Shevde, N.K., Segal, D., Dzivenu, O., Vologodskaia, M., Yim, M., Du, K., Singh, S., Pike, J.W., Darnay, B.G., Choi, Y., Wu, H.

(2002) Nature 418: 443-447

Released	2002-07-31
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	CD40 antigen (protein) TNF receptor-associated factor 6 (protein)

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1SKM \| pdb_00001skm	Download File View File

HhaI methyltransferase in complex with DNA containing an abasic south carbocyclic sugar at its target site

Horton, J.R., Ratner, G., Banavali, N., Huang, N., Marquez, V.E., MacKerell, A.D., Cheng, X.

(2004) Nucleic Acids Res 32: 3877-3886

Released	2004-08-24
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Haemophilus haemolyticus
Macromolecule	Modification methylase HhaI (protein) 5'-D(TGPTPCPAPGP(HCX)PGPCPAPTPGPG)-3' (nucleic acid) 5'-D(TPCPCPAPTPGPCPGPCPTPGPAPC)-3' (nucleic acid)
Unique Ligands	SAH

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1YUC \| pdb_00001yuc	Download File View File

Human Nuclear Receptor Liver Receptor Homologue-1, LRH-1, Bound to Phospholipid and a Fragment of Human SHP

Ortlund, E.A., Yoonkwang, L., Solomon, I.H., Hager, J.M., Safi, R., Choi, Y., Guan, Z., Tripathy, A., Raetz, C.R.H., McDonnell, D.P., Moore, D.D., Redinbo, M.R.

(2005) Nat Struct Mol Biol 12: 357-363

Released	2005-03-01
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Nuclear receptor 0B2 (protein) Orphan nuclear receptor NR5A2 (protein)
Unique Ligands	EPH, GOL

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2FJK \| pdb_00002fjk	Download File View File

Crystal structure of Fructose-1,6-Bisphosphate Aldolase in Thermus caldophilus

Lee, J.H., Im, Y.J., Rho, S.-H., Kim, M.-K., Kang, G.B., Eom, S.H.

(2006) Biochem Biophys Res Commun 347: 616-625

Released	2006-08-08
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Thermus caldophilus
Macromolecule	Fructose-bisphosphate aldolase (protein)
Unique Ligands	13P

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3F8A \| pdb_00003f8a	Download File View File

Crystal Structure of the R132K:R111L:L121E:R59W Mutant of Cellular Retinoic Acid-Binding Protein Type II Complexed with C15-aldehyde (a retinal analog) at 1.95 Angstrom resolution.

Jia, X., Geiger, J.H.

(2012) Chempluschem 77: 273-276

Released	2009-11-10
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	Cellular retinoic acid-binding protein 2 (protein)
Unique Ligands	B3P, LSR

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3K5V \| pdb_00003k5v	Download File View File

Structure of Abl kinase in complex with imatinib and GNF-2

Cowan-Jacob, S.W., Fendrich, G., Rummel, G., Strauss, A.

(2010) Nature 463: 501-506

Released	2010-01-19
Method	X-RAY DIFFRACTION 1.74 Å
Organisms	Mus musculus
Macromolecule	Tyrosine-protein kinase ABL1 (protein)
Unique Ligands	CL, STI, STJ

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4RCA \| pdb_00004rca	Download File View File

Crystal structure of human PTPdelta and human Slitrk1 complex

Kim, H.M., Park, B.S., Kim, D., Lee, S.G.

(2014) Nat Commun 5: 5423-5423

Released	2014-11-19
Method	X-RAY DIFFRACTION 2.9908 Å
Organisms	Homo sapiens
Macromolecule	Receptor-type tyrosine-protein phosphatase delta (protein) SLIT and NTRK-like protein 1 (protein)
Unique Ligands	NAG, SO4

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4RCW \| pdb_00004rcw	Download File View File

Crystal structure of human Slitrk1

Kim, H.M., Park, B.S., Kim, D., Lee, S.G.

(2014) Nat Commun 5: 5423-5423

Released	2014-11-19
Method	X-RAY DIFFRACTION 3.1925 Å
Organisms	Homo sapiens
Macromolecule	SLIT and NTRK-like protein 1 (protein)

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4XCS \| pdb_00004xcs	Download File View File

Human peroxiredoxin-1 C83S mutant

Cho, K.J., Lee, J.-H., Khan, T.G., Park, Y., Cho, A., Chang, T.-S., Kim, K.H.

(2015) Bull Korean Chem Soc 36: 1543-1545

Released	2016-01-13
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Peroxiredoxin-1 (protein)
Unique Ligands	CPS, GOL

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5G1D \| pdb_00005g1d	Download File View File

The complex structure of syntenin-1 PDZ domain with c-terminal extension

Lee, I., Kim, H., Yun, J.H., Lee, W.

(2016) Sci Rep 6: 36818

Released	2016-11-23
Method	X-RAY DIFFRACTION 2.81 Å
Organisms	Rattus norvegicus
Macromolecule	SYNDECAN-4 (protein) SYNTENIN-1 (protein)

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5G1E \| pdb_00005g1e	Download File View File

The complex structure of syntenin-1 PDZ domain with c-terminal extension

Lee, I., Kim, H., Yun, J.H., Lee, W.

(2016) Sci Rep 6: 36818

Released	2016-11-23
Method	X-RAY DIFFRACTION 1.92 Å
Organisms	Rattus norvegicus
Macromolecule	SYNTENIN-1 (protein)

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5Z2W \| pdb_00005z2w	Download File View File

Crystal structure of the bacterial cell division protein FtsQ and FtsB

Choi, Y., Yoon, H.J., Lee, H.H.

(2018) Sci Rep 8: 18061-18061

Released	2019-01-02
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli
Macromolecule	Cell division protein FtsB (protein) Cell division protein FtsQ (protein)
Unique Ligands	MG

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6JJK \| pdb_00006jjk	Download File View File

Crystal structure of the DegP dodecamer with a modulator

Cho, H., Choi, Y., Lee, H.H., Kim, S.

(2020) Commun Biol 3: 547-547

Released	2020-09-02
Method	X-RAY DIFFRACTION 3.6 Å
Organisms	Escherichia coli Escherichia coli K-12
Macromolecule	CYS-TYR-TYR-LYS-ILE (protein) Periplasmic serine endoprotease DegP (protein)

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6JJL \| pdb_00006jjl	Download File View File

Crystal structure of the DegP dodecamer with a modulator

Cho, H., Choi, Y., Lee, H.H., Kim, S.

(2020) Commun Biol 3: 547-547

Released	2020-09-02
Method	X-RAY DIFFRACTION 4.2 Å
Organisms	Escherichia coli K-12
Macromolecule	CYS-TYR-ARG-LYS-LEU (protein) Periplasmic serine endoprotease DegP (protein)

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6JJO \| pdb_00006jjo	Download File View File

Crystal structure of the DegP dodecamer with a modulator

Cho, H., Choi, Y., Lee, H.H., Kim, S.

(2020) Commun Biol 3: 547-547

Released	2020-09-02
Method	X-RAY DIFFRACTION 4.157 Å
Organisms	Escherichia coli Escherichia coli K-12
Macromolecule	Periplasmic serine endoprotease DegP (protein) TMB-CYRKL modulator (protein)

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6JKG \| pdb_00006jkg	Download File View File

The NAD+-free form of human NSDHL

Kim, D., Lee, S.J., Lee, B.

(2021) Cell Mol Life Sci 78: 207-225

Released	2020-03-04
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Homo sapiens
Macromolecule	Sterol-4-alpha-carboxylate 3-dehydrogenase, decarboxylating (protein)

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6JKH \| pdb_00006jkh	Download File View File

The NAD+-bound form of human NSDHL

Kim, D., Lee, S.J., Lee, B.

(2021) Cell Mol Life Sci 78: 207-225

Released	2020-03-04
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens
Macromolecule	Sterol-4-alpha-carboxylate 3-dehydrogenase, decarboxylating (protein)
Unique Ligands	NAD

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6K3L \| pdb_00006k3l	Download File View File

Crystal structure of CX-4945 bound Cka1 from C. neoformans

Cho, H.S., Yoo, Y.

(2019) Sci Rep 9: 14398-14398

Released	2019-11-06
Method	X-RAY DIFFRACTION 2.09 Å
Organisms	Cryptococcus neoformans var. grubii H99
Macromolecule	CMGC/CK2 protein kinase (protein)
Unique Ligands	3NG, SO4

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6KO6 \| pdb_00006ko6	Download File View File

Crystal structure of AMPPNP bound Cka1 from C. neoformans

Cho, H.S., Yoo, Y.

(2019) Sci Rep 9: 14398-14398

Released	2019-11-06
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Cryptococcus neoformans var. grubii H99
Macromolecule	CMGC/CK2 protein kinase (protein)
Unique Ligands	ANP, MG, SO4

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6L4B \| pdb_00006l4b	Download File View File

Crystal structure of human WT NDRG3

Kim, K.R., Han, B.W.

(2020) Biomolecules 10:

Released	2020-08-26
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	Protein NDRG3 (protein)

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6L4G \| pdb_00006l4g	Download File View File

Crystal structure of human NDRG3 I171M/S176H mutant

Kim, K.R., Han, B.W.

(2020) Biomolecules 10:

Released	2020-08-26
Method	X-RAY DIFFRACTION 3.304 Å
Organisms	Homo sapiens
Macromolecule	Protein NDRG3 (protein)

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6L4H \| pdb_00006l4h	Download File View File

Crystal structure of human NDRG3 C30S mutant

Kim, K.R., Han, B.W.

(2020) Biomolecules 10:

Released	2020-08-26
Method	X-RAY DIFFRACTION 3.4 Å
Organisms	Homo sapiens
Macromolecule	Protein NDRG3 (protein)

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6LBX \| pdb_00006lbx	Download File View File

Crystal structure of HER2 Domain IV and Rb-H2

Cho, H.S., Cha, J.S.

(2021) Comput Struct Biotechnol J 19: 1325-1334

Released	2020-11-18
Method	X-RAY DIFFRACTION 2.03 Å
Organisms	Cyclostomata Homo sapiens
Macromolecule	Receptor tyrosine-protein kinase erbB-2 (protein) Repebody (Rb-H2) (protein)
Unique Ligands	NAG

1 to 25 of 41 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

1LB4 | pdb_00001lb4

1LB5 | pdb_00001lb5

1LB6 | pdb_00001lb6

1SKM | pdb_00001skm

1YUC | pdb_00001yuc

2FJK | pdb_00002fjk

3F8A | pdb_00003f8a

3K5V | pdb_00003k5v

4RCA | pdb_00004rca

4RCW | pdb_00004rcw

4XCS | pdb_00004xcs

5G1D | pdb_00005g1d

5G1E | pdb_00005g1e

5Z2W | pdb_00005z2w

6JJK | pdb_00006jjk

6JJL | pdb_00006jjl

6JJO | pdb_00006jjo

6JKG | pdb_00006jkg

6JKH | pdb_00006jkh

6K3L | pdb_00006k3l

6KO6 | pdb_00006ko6

6L4B | pdb_00006l4b

6L4G | pdb_00006l4g

6L4H | pdb_00006l4h

6LBX | pdb_00006lbx