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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Tong, J."

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Search Summary

This query matches 21 Structures.

Refinements

Structure Determination Methodology

experimental (21)

Scientific Name of Source Organism

	Homo sapiens (11)
	Saccharomyces cerevisiae S288C (7)
	Severe acute respiratory syndrome coronavirus 2 (5)
	Tequatrovirus T4 (2)
	Escherichia coli K-12 (1)
	Rattus norvegicus (1)
	Rhodococcus sp. MB1 'Bresler 1999 (1)
	Saccharomyces cerevisiae (1)
	synthetic construct (1)

Taxonomy

	Eukaryota (20)
	Riboviria (5)
	Bacteria (2)
	Duplodnaviria (2)
	other sequences (1)

Experimental Method

	X-RAY DIFFRACTION (16)
	ELECTRON MICROSCOPY (5)

Polymer Entity Type

	Protein (21)
	DNA (1)

Refinement Resolution (Å)

	1.5 - 2.0 (7)
	2.0 - 2.5 (8)
	2.5 - 3.0 (5)
	3.0 - 3.5 (1)

Release Date

	2010 - 2014 (4)
	2015 - 2019 (8)
	2020 - 2024 (9)

Enzyme Classification Name

Hydrolases (6)

Membrane Protein Annotation

OPM (6)

Symmetry Type

	Asymmetric (20)
	Cyclic (2)

SCOP Classification

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

AllSelected

1 to 21 of 21 Structures

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4IAP \| pdb_00004iap	Download File View File

Crystal structure of PH domain of Osh3 from Saccharomyces cerevisiae

Tong, J., Im, Y.J.

(2013) Structure 21: 1203-1213

Released	2013-07-31
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Saccharomyces cerevisiae S288C Tequatrovirus T4
Macromolecule	Oxysterol-binding protein homolog 3,Endolysin,Oxysterol-binding protein homolog 3 (protein)
Unique Ligands	SO4

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4IC4 \| pdb_00004ic4	Download File View File

Crystal structure of Osh3 ORD from Saccharomyces cerevisiae

Tong, J., Im, Y.J.

(2013) Structure 21: 1203-1213

Released	2013-07-31
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Oxysterol-binding protein homolog 3 (protein)

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4INQ \| pdb_00004inq	Download File View File

Crystal structure of Osh3 ORD in complex with PI(4)P from Saccharomyces cerevisiae

Tong, J., Im, Y.J.

(2013) Structure 21: 1203-1213

Released	2013-07-31
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Oxysterol-binding protein homolog 3 (protein)
Unique Ligands	PIF

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4R0Y \| pdb_00004r0y	Download File View File

Structure of Maltose-binding Protein Fusion with the C-terminal GH1 domain of Guanylate Kinase-associated Protein from Rattus norvegicus

Im, Y.J., Tong, J.

(2014) Biochem Biophys Res Commun 452: 130-135

Released	2014-09-10
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli K-12 Rattus norvegicus
Macromolecule	Maltose-binding periplasmic protein, Disks large-associated protein 1 (protein)

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5YQI \| pdb_00005yqi	Download File View File

Crystal structure of the first StARkin domain of Lam2

Tong, J., Im, Y.J.

(2018) Proc Natl Acad Sci U S A 115: E856-E865

Released	2018-01-31
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Membrane-anchored lipid-binding protein YSP2 (protein)

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5YQP \| pdb_00005yqp	Download File View File

Crystal structure of the second StARkin domain of Lam4

Tong, J., Manik, K.M., IM, Y.J.

(2018) Proc Natl Acad Sci U S A 115: E856-E865

Released	2018-09-19
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Membrane-anchored lipid-binding protein LAM4 (protein)

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5YQQ \| pdb_00005yqq	Download File View File

Crystal structure of a domain-swapped dimer of the second StARkin domain of Lam2

Tong, J., Im, Y.J.

(2018) Proc Natl Acad Sci U S A 115: E856-E865

Released	2018-01-31
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Membrane-anchored lipid-binding protein YSP2 (protein)

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5YQR \| pdb_00005yqr	Download File View File

Crystal structure of the PH-like domain of Lam6

Tong, J., Im, Y.J.

(2018) Proc Natl Acad Sci U S A 115: E856-E865

Released	2018-01-31
Method	X-RAY DIFFRACTION 2.402 Å
Organisms	Saccharomyces cerevisiae S288C Tequatrovirus T4
Macromolecule	Endolysin/Membrane-anchored lipid-binding protein LAM6 fusion protein (protein)
Unique Ligands	2PE

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5YS0 \| pdb_00005ys0	Download File View File

Crystal structure of the second StARkin domain of Lam2 in complex with ergosterol

Tong, J., Im, Y.J.

(2018) Proc Natl Acad Sci U S A 115: E856-E865

Released	2018-01-31
Method	X-RAY DIFFRACTION 2.601 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Membrane-anchored lipid-binding protein YSP2 (protein)
Unique Ligands	ERG

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6IYB \| pdb_00006iyb	Download File View File

Structure of human ORP1 ANK - Rab7 complex

Tong, J., Im, Y.J.

(2019) PLoS One 14: e0211724-e0211724

Released	2019-03-13
Method	X-RAY DIFFRACTION 2.091 Å
Organisms	Homo sapiens
Macromolecule	Oxysterol-binding protein-related protein 1 (protein) Ras-related protein Rab-7a (protein)
Unique Ligands	GTP, MG

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6L1D \| pdb_00006l1d	Download File View File

Structure of human StAR-related lipid transfer protein 4

Tong, J., Im, Y.J.

(2019) Biochem Biophys Res Commun 520: 466-472

Released	2019-10-30
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	StAR-related lipid transfer protein 4 (protein)

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6L1M \| pdb_00006l1m	Download File View File

Structure of human StAR-related lipid transfer protein 4 mutant - LWNI107-110GG

Tong, J., Im, Y.J.

(2019) Biochem Biophys Res Commun 520: 466-472

Released	2019-10-30
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	StAR-related lipid transfer protein 4 (protein)

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7DEI \| pdb_00007dei	Download File View File

Structure of human ORP3 ORD domain in complex with PI(4)P

Tong, J., Tan, L., Im, Y.J.

(2021) PLoS One 16: e0248781-e0248781

Released	2021-03-24
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	Oxysterol-binding protein-related protein 3 (protein)
Unique Ligands	PIF

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7DEJ \| pdb_00007dej	Download File View File

Structure of human ORP3 ORD in apo-form

Tong, J., Tan, L., Im, Y.J.

(2021) PLoS One 16: e0248781-e0248781

Released	2021-03-24
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Oxysterol-binding protein-related protein 3 (protein)

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7F65 \| pdb_00007f65	Download File View File

Bacetrial Cocaine Esterase with mutations T172R/G173Q/V116K/S117A/A51L, bound to benzoic acid

Ouyang, P.F., Zhang, Y., Tong, J.

(2021) Angew Chem Int Ed Engl 60: 21959-21965

Released	2021-09-15
Method	X-RAY DIFFRACTION 2.202 Å
Organisms	Rhodococcus sp. MB1 'Bresler 1999
Macromolecule	Cocaine esterase (protein)
Unique Ligands	BEZ, SO4

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7V5N \| pdb_00007v5n	Download File View File

Crystal structure of Fab fragment of bevacizumab bound to DNA aptamer

Hishiki, A., Tong, J., Todoroki, K., Hashimoto, H.

(2022) Biosens Bioelectron 203: 114027-114027

Released	2022-02-02
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	bevacizumab fab heavy chain (protein) bevacizumab fab light chain (protein) DNA (5'-D(GPCPGPGPTPTPGPGPTPGPGPTPAPGPTPTPAPCPGPTPTPCPGPC)-3') (nucleic acid)
Unique Ligands	EDO, IMD, SO4

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8XSE \| pdb_00008xse	Download File View File

SARS-CoV-2 RBD + IMCAS-123 + IMCAS-72 Fab

Tong, Z., Cui, Y., Xie, Y., Tong, J., Gao, G.F., Qi, J.

(2024) Cell Rep 43: 114338-114338

Released	2024-07-17
Method	ELECTRON MICROSCOPY 2.5 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	IMCAS-123 H chain (protein) IMCAS-123 L chain (protein) IMCAS-72 H chain (protein) IMCAS-72 L chain (protein) Spike protein S1 (protein)
Unique Ligands	NAG

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8XSF \| pdb_00008xsf	Download File View File

SARS-CoV-2 RBD + IMCAS-364 + hACE2

Tong, Z., Cui, Y., Xie, Y., Tong, J., Gao, G.F., Qi, J.

(2024) Cell Rep 43: 114338-114338

Released	2024-07-17
Method	ELECTRON MICROSCOPY 2.16 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	Angiotensin-converting enzyme 2 (protein) IMCAS-364 H chain (protein) IMCAS-364 L chain (protein) Spike protein S1 (protein)
Unique Ligands	NAG, ZN

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8XSI \| pdb_00008xsi	Download File View File

SARS-CoV-2 RBD + IMCAS-364 (Local Refinement)

Tong, Z., Cui, Y., Xie, Y., Tong, J., Gao, G.F., Qi, J.

(2024) Cell Rep 43: 114338-114338

Released	2024-07-17
Method	ELECTRON MICROSCOPY 2.1 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	IMCAS-364 H chain (protein) IMCAS-364 L chain (protein) Spike protein S1 (protein)
Unique Ligands	NAG

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8XSJ \| pdb_00008xsj	Download File View File

SARS-CoV-2 Omicron BA.4 RBD + IMCAS-316 + ACE2

Tong, Z., Cui, Y., Xie, Y., Tong, J., Gao, G.F., Qi, J.

(2024) Cell Rep 43: 114338-114338

Released	2024-07-17
Method	ELECTRON MICROSCOPY 2.61 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	Angiotensin-converting enzyme 2 (protein) IMCAS-316 H chain (protein) IMCAS-316 L chain (protein) Spike protein S1 (protein)
Unique Ligands	NAG, ZN
Unique branched monosaccharides	NAG

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8XSL \| pdb_00008xsl	Download File View File

SARS-CoV-2 spike + IMCAS-123

Tong, Z., Cui, Y., Xie, Y., Tong, J., Gao, G.F., Qi, J.

(2024) Cell Rep 43: 114338-114338

Released	2024-07-17
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	IMCAS-123 heavy chain (protein) IMCAS-123 light chain (protein) Spike glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	NAG

1 to 21 of 21 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

4IAP | pdb_00004iap

4IC4 | pdb_00004ic4

4INQ | pdb_00004inq

4R0Y | pdb_00004r0y

5YQI | pdb_00005yqi

5YQP | pdb_00005yqp

5YQQ | pdb_00005yqq

5YQR | pdb_00005yqr

5YS0 | pdb_00005ys0

6IYB | pdb_00006iyb

6L1D | pdb_00006l1d

6L1M | pdb_00006l1m

7DEI | pdb_00007dei

7DEJ | pdb_00007dej

7F65 | pdb_00007f65

7V5N | pdb_00007v5n

8XSE | pdb_00008xse

8XSF | pdb_00008xsf

8XSI | pdb_00008xsi

8XSJ | pdb_00008xsj

8XSL | pdb_00008xsl